Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 51
Found at i:1950280 original size:18 final size:17
Alignment explanation
Indices: 1950238--1950281 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1950228 CAATAATTTA
1950238 TATTATTTTTATTTAAT
1 TATTATTTTTATTTAAT
* *
1950255 CATATATTTTTATTTTGAT
1 TAT-TATTTTTA-TTTAAT
1950274 TATTATTT
1 TATTATTT
1950282 ATTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTATTTTTATTTAAT
Found at i:1950815 original size:9 final size:9
Alignment explanation
Indices: 1950801--1950834 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1950791 ATATCTTATG
1950801 TTAATTAAT
1 TTAATTAAT
1950810 TTAATTAAT
1 TTAATTAAT
*
1950819 TTTA-TAAT
1 TTAATTAAT
1950827 TTAATTAA
1 TTAATTAA
1950835 AGAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:1951578 original size:19 final size:18
Alignment explanation
Indices: 1951554--1951597 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
1951544 AGAATTCAGA
1951554 TTTATTTAATTTACAATTT
1 TTTATTTAATTT-CAATTT
* *
1951573 TTTATTT-CTTTTAATTT
1 TTTATTTAATTTCAATTT
1951590 TTTATTTA
1 TTTATTTA
1951598 TTATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTTCAATTT
Found at i:1956304 original size:7 final size:7
Alignment explanation
Indices: 1956286--1956333 Score: 69
Period size: 7 Copynumber: 6.6 Consensus size: 7
1956276 ACATTAGAGG
1956286 AAAAGAA
1 AAAAGAA
*
1956293 AAAAAAA
1 AAAAGAA
1956300 GAAAAGAAA
1 -AAAAG-AA
1956309 AAAAGAA
1 AAAAGAA
1956316 AAAAGAA
1 AAAAGAA
1956323 AAAAGAA
1 AAAAGAA
1956330 AAAA
1 AAAA
1956334 AGAGATTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 26 0.70
8 9 0.24
9 2 0.05
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:1956305 original size:15 final size:14
Alignment explanation
Indices: 1956286--1956336 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 14
1956276 ACATTAGAGG
1956286 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
1956300 GAAAAGAAAAAAAGAA
1 -AAAAGAAAAAAA-AA
1956316 AAAAGAAAAAAGAAA
1 AAAAGAAAAAA-AAA
1956331 AAAAGA
1 AAAAGA
1956337 GATTGAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 31 0.91
16 3 0.09
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:1956311 original size:13 final size:13
Alignment explanation
Indices: 1956291--1956334 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
1956281 AGAGGAAAAG
1956291 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
1956304 AGAAAAAAAGAAA
1 AAAAAAAAAGAAA
1956317 AAAGAAAAAAGAAA
1 AAA-AAAAAAGAAA
1956331 AAAA
1 AAAA
1956335 GAGATTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:1956317 original size:22 final size:22
Alignment explanation
Indices: 1956286--1956336 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1956276 ACATTAGAGG
*
1956286 AAAAGAAAAAAAAAGAAAAGAAA
1 AAAAGAAAAAAGAA-AAAAGAAA
1956309 AAAAGAAAAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAAAAAGAAA
1956331 AAAAGA
1 AAAAGA
1956337 GATTGAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAAGAAAAAAGAAA
Found at i:1957910 original size:49 final size:51
Alignment explanation
Indices: 1957844--1957972 Score: 156
Period size: 52 Copynumber: 2.6 Consensus size: 51
1957834 ATGTCCATAT
* * *
1957844 TATCCATGT-GGGTATCTTGAAAGCTCACATCAACAT-AAAAAGATAGAAG
1 TATCCATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAG
* * * *
1957893 T-TTCATGTGGGGCATCTTGAAGGCCCACATCAGCGTGAAAAAGACAGAAG
1 TATCCATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAG
*
1957943 TAATCCATGTGGGGCATTTTGAAGGCTCAC
1 T-ATCCATGTGGGGCATCTTGAAGGCTCAC
1957973 CTTAGTATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
48 6 0.09
49 23 0.35
50 13 0.20
52 24 0.36
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (51 bp):
TATCCATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAG
Found at i:1957965 original size:52 final size:50
Alignment explanation
Indices: 1957844--1957968 Score: 146
Period size: 49 Copynumber: 2.5 Consensus size: 50
1957834 ATGTCCATAT
* * * *
1957844 TATCCATGT-GGGTATCTTGAAAGCTCACATCAACATAAAAAGATAGAAG
1 TATCCATGTGGGGCATCTTGAAGGCCCACATCAACATAAAAAGACAGAAG
* * *
1957893 T-TTCATGTGGGGCATCTTGAAGGCCCACATCAGCGTGAAAAAGACAGAAG
1 TATCCATGTGGGGCATCTTGAAGGCCCACATCAACAT-AAAAAGACAGAAG
*
1957943 TAATCCATGTGGGGCATTTTGAAGGC
1 T-ATCCATGTGGGGCATCTTGAAGGC
1957969 TCACCTTAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 6 0.10
49 23 0.37
50 13 0.21
52 21 0.33
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
TATCCATGTGGGGCATCTTGAAGGCCCACATCAACATAAAAAGACAGAAG
Found at i:1959206 original size:20 final size:20
Alignment explanation
Indices: 1959181--1959235 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959171 TCAAGAAAAT
* *
1959181 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCAGGGTAATCTG
* *
1959201 TAAATCCTCTGGGTCATCTG
1 TAAATCCTCAGGGTAATCTG
*
1959221 TAAAACCTCAGGGTA
1 TAAATCCTCAGGGTA
1959236 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAATCCTCAGGGTAATCTG
Found at i:1959444 original size:20 final size:20
Alignment explanation
Indices: 1959419--1959473 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959409 TCAAGAAAAT
*
1959419 TAAATCCTCAGGGTAATTTG
1 TAAATCCTCAGGGTAATCTG
* *
1959439 TAAATCCTCTGGGTCATCTG
1 TAAATCCTCAGGGTAATCTG
*
1959459 TAAAACCTCAGGGTA
1 TAAATCCTCAGGGTA
1959474 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAATCCTCAGGGTAATCTG
Found at i:1959566 original size:20 final size:20
Alignment explanation
Indices: 1959538--1959592 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959528 TCTAGAAAAT
*
1959538 TAAAACCTCAGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* * *
1959558 TAAATCCTCTGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
1959578 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
1959593 GGATGTTTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:1959685 original size:20 final size:20
Alignment explanation
Indices: 1959657--1959712 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959647 TCAAGAAAAT
*
1959657 TAAAACCTCAGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* *
1959677 TAAATCCTCCGGG-ACATCTG
1 TAAAACCTCAGGGTA-ATCTG
*
1959697 TAAAACCTCAAGGTAA
1 TAAAACCTCAGGGTAA
1959713 GATGTTTTCG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:1959801 original size:20 final size:20
Alignment explanation
Indices: 1959776--1959830 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959766 TCAAGAAAAT
*
1959776 TAAATCCTCAGGGTAATTTG
1 TAAATCCTCAGGGTAATCTG
* *
1959796 TAAATCCTCCGGGTCATCTG
1 TAAATCCTCAGGGTAATCTG
*
1959816 TAAAACCTCAGGGTA
1 TAAATCCTCAGGGTA
1959831 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAATCCTCAGGGTAATCTG
Found at i:1959923 original size:20 final size:20
Alignment explanation
Indices: 1959895--1959949 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959885 TCTAGAAAAT
*
1959895 TAAAACCTCAGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* * *
1959915 TAAATCCTCTGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
1959935 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
1959950 TGATGTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:1960039 original size:20 final size:20
Alignment explanation
Indices: 1960014--1960057 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1960004 TCAAGAAAAT
*
1960014 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATCTG
* *
1960034 TAAATCCTCTGGGTCATCTG
1 TAAATCCTCCGGGTAATCTG
1960054 TAAA
1 TAAA
1960058 ATCTCAGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (20 bp):
TAAATCCTCCGGGTAATCTG
Found at i:1960144 original size:119 final size:119
Alignment explanation
Indices: 1959100--1960141 Score: 1733
Period size: 119 Copynumber: 8.8 Consensus size: 119
1959090 TCCAAAGATT
* * *
1959100 TGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATTTTCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
*
1959165 TAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAATCCTCTGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
* **
1959219 TGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAATGAGAAAACGATTTCCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
* * *
1959284 TAATGTTCAAGAAAATTAAAACCTCAGGGTAATTCGTAAATCCTCCGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
* * * *
1959338 TGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATAAGAAAGTAATTTTCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
1959403 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
*
1959457 TGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
* *
1959522 TAATGTTCTAGAAAATTAAAACCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
1959576 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
* * *
1959641 TAATGTTCAAGAAAATTAAAACCTCAGGGTAATTTGTAAATCCTCCGGGACATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
* * * *
1959695 TGTAAAACCTCAAGGTAAGATGTTTTCGCATGAAAATGAGAAAGTAATTTTCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
*
1959760 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCCGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
1959814 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
* *
1959879 TAATGTTCTAGAAAATTAAAACCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
* * * * * *
1959933 TGTAAAACCTCAGGGTATGATGTTTTTGCATAAAAAAGGGAAAATGATTTCCAAAGTTTCTCATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
*
1959998 TAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAATCCTCTGGGTCATC
66 TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
* * * *
1960052 TGTAAAATCTCAGGGTAGGATGTTTTCTCATGAAAATGAGAAAGTGATTACCAAAGTTTCTTATT
1 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
*
1960117 TAATGTTCTAGAAAATTAAATCCTC
66 TAATGTTCAAGAAAATTAAATCCTC
1960142 CGGTTGATTT
Statistics
Matches: 859, Mismatches: 64, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 859 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (119 bp):
TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTCCAAAGTTTCTCATT
TAATGTTCAAGAAAATTAAATCCTCAGGGTAATTTGTAAATCCTCTGGGTCATC
Found at i:1960314 original size:3 final size:3
Alignment explanation
Indices: 1960308--1960373 Score: 91
Period size: 3 Copynumber: 22.7 Consensus size: 3
1960298 TCCAATAATA
* * *
1960308 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1960354 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
1960374 GAAATATTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 3 0.05
3 52 0.95
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1960344 original size:20 final size:20
Alignment explanation
Indices: 1960321--1960373 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1960311 TATTATTATT
1960321 ATTATTATTATTATATTACA
1 ATTATTATTATTATATTACA
* **
1960341 ATTATTATTATCATATTATT
1 ATTATTATTATTATATTACA
1960361 ATTATTATTATTA
1 ATTATTATTATTA
1960374 GAAATATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTATTATTATATTACA
Found at i:1961548 original size:18 final size:17
Alignment explanation
Indices: 1961506--1961549 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1961496 CAATAATTTA
1961506 TATTATTTTTATTTAAT
1 TATTATTTTTATTTAAT
* *
1961523 CATATATTTTTATTTTGAT
1 TAT-TATTTTTA-TTTAAT
1961542 TATTATTT
1 TATTATTT
1961550 ATTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTATTTTTATTTAAT
Found at i:1962080 original size:9 final size:9
Alignment explanation
Indices: 1962066--1962099 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1962056 ATATCTTATG
1962066 TTAATTAAT
1 TTAATTAAT
1962075 TTAATTAAT
1 TTAATTAAT
*
1962084 TTTA-TAAT
1 TTAATTAAT
1962092 TTAATTAA
1 TTAATTAA
1962100 AGAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:1964038 original size:14 final size:13
Alignment explanation
Indices: 1964013--1964047 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1964003 CCCCCACCAC
1964013 AAAAAA-AAAAAG
1 AAAAAAGAAAAAG
1964025 AAAGAAAGAAAAAG
1 AAA-AAAGAAAAAG
1964039 AAAAAAGAA
1 AAAAAAGAA
1964048 GCAGAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 9 0.43
14 9 0.43
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:1964053 original size:13 final size:14
Alignment explanation
Indices: 1964019--1964047 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1964009 CCACAAAAAA
1964019 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
1964033 AAAAAGAAA-AAAG
1 AAAAAGAAAGAAAG
1964046 AA
1 AA
1964048 GCAGAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:1965173 original size:21 final size:21
Alignment explanation
Indices: 1965114--1965173 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
1965104 CCTTTTAAGG
* **
1965114 GAAGAGATCGATCCTTTTGGT
1 GAAGGGATCGATCCTTTTCCT
*
1965135 GAAGGGAT-GAATCATTTTCCT
1 GAAGGGATCG-ATCCTTTTCCT
1965156 CG-AGGGATCGATCCTTTT
1 -GAAGGGATCGATCCTTTT
1965174 ACAAGGGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (21 bp):
GAAGGGATCGATCCTTTTCCT
Found at i:1965205 original size:21 final size:20
Alignment explanation
Indices: 1965158--1965209 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
1965148 ATTTTCCTCG
1965158 AGGGATCGATCCTTTTACAA
1 AGGGATCGATCCTTTTACAA
* *
1965178 GGGGATCGCTCCTTTGGT-CAA
1 AGGGATCGATCCTTT--TACAA
1965199 AGGGATCGATC
1 AGGGATCGATC
1965210 ATTTGAGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.50
21 12 0.46
22 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (20 bp):
AGGGATCGATCCTTTTACAA
Found at i:1965214 original size:21 final size:21
Alignment explanation
Indices: 1965158--1965214 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1965148 ATTTTCCTCG
1965158 AGGGATCGATCCTTT-TACAA
1 AGGGATCGATCCTTTGTACAA
* *
1965178 GGGGATCGCTCCTTTGGT-CAA
1 AGGGATCGATCCTTT-GTACAA
*
1965199 AGGGATCGATCATTTG
1 AGGGATCGATCCTTTG
1965215 AGCCAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 14 0.47
21 15 0.50
22 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (21 bp):
AGGGATCGATCCTTTGTACAA
Found at i:1966747 original size:18 final size:18
Alignment explanation
Indices: 1966703--1966759 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
1966693 ATGTTTAATG
*
1966703 AAAAAGATACCAATTGTT
1 AAAAGGATACCAATTGTT
*
1966721 AACAAAAGGATATCAATTGTT
1 ---AAAAGGATACCAATTGTT
1966742 AAAAGGATACCAATTGTT
1 AAAAGGATACCAATTGTT
1966760 GGAAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.52
21 16 0.48
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (18 bp):
AAAAGGATACCAATTGTT
Found at i:1969876 original size:19 final size:20
Alignment explanation
Indices: 1969841--1969882 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1969831 GGCTGAAATT
1969841 ACTGTAGCAGTGTATCAGTAC
1 ACTGTAGCAG-GTATCAGTAC
*
1969862 ACTGTAGCA-GTATCATTAC
1 ACTGTAGCAGGTATCAGTAC
1969881 AC
1 AC
1969883 ATTTTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (20 bp):
ACTGTAGCAGGTATCAGTAC
Found at i:1971000 original size:36 final size:36
Alignment explanation
Indices: 1970959--1971097 Score: 206
Period size: 36 Copynumber: 3.9 Consensus size: 36
1970949 ACGGTGTTGG
* *
1970959 ACATTGATACATGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
** *
1970995 ACATTGATACAAAAATTTATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
* *
1971031 ACATTGATACACGAATGTAACAAAGCTAATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
*
1971067 ACATTGATTCACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTATCAAAGCTGATA
1971098 ATGGATAAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
ACATTGATACACGAATGTATCAAAGCTGATATGATA
Found at i:1978167 original size:18 final size:18
Alignment explanation
Indices: 1978120--1978182 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
1978110 ATATGCGAGT
1978120 ATATATATTATTATGAGTAC
1 ATATATA-TATTAT-AGTAC
*
1978140 ATATAAATATTATAGTAC
1 ATATATATATTATAGTAC
* *
1978158 TTATATATA-TATA-TAT
1 ATATATATATTATAGTAC
1978174 ATATATATA
1 ATATATATA
1978183 AATATTCACT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 10 0.26
17 4 0.11
18 12 0.32
19 6 0.16
20 6 0.16
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
ATATATATATTATAGTAC
Found at i:1980430 original size:15 final size:15
Alignment explanation
Indices: 1980410--1980442 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1980400 ATAGATACTG
1980410 ATAAAACTAAACTA-A
1 ATAAAA-TAAACTAGA
1980425 ATAAAATAAACTAGA
1 ATAAAATAAACTAGA
1980440 ATA
1 ATA
1980443 GTTCTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (15 bp):
ATAAAATAAACTAGA
Found at i:1981835 original size:31 final size:31
Alignment explanation
Indices: 1981797--1981921 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
1981787 CCCAAAGGAC
* * *
1981797 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1981828 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1981859 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1981890 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1981921 C
1 C
1981922 CCTCGACCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1985407 original size:3 final size:3
Alignment explanation
Indices: 1985401--1985451 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
1985391 ATTATTTTTT
* *
1985401 TAA TAA TAA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1985449 TAA
1 TAA
1985452 AATGAGTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1985419 original size:15 final size:15
Alignment explanation
Indices: 1985401--1985451 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
1985391 ATTATTTTTT
1985401 TAATAATAATAATTA
1 TAATAATAATAATTA
1985416 TAATAATAATAATTA
1 TAATAATAATAATTA
*
1985431 TAATAATAATAATAA
1 TAATAATAATAATTA
1985446 TAATAA
1 TAATAA
1985452 AATGAGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:1986157 original size:113 final size:113
Alignment explanation
Indices: 1985696--1986478 Score: 984
Period size: 113 Copynumber: 6.8 Consensus size: 113
1985686 TTGAATAAGC
* *
1985696 TCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGATGAGTTCTTCTCATTATGAACTCGAAC
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA--A-TTCTTCTCATTATGAACTCGAAC
* * * * ***
1985761 TGGAAAAGTTGATGCTAACAT-ATATGTGATAAAATT-ATGTAAAAGGTTGAACAGGC
63 TGGAAAAGTTGAT-C---CATCA-A-GTGATGAATTTGA-GCAAAAGGTTAAACAAAT
* * ****
1985817 TCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAGAT-AAGTTCTTCTTATTATGAACTTTCTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAA-TTCTTCTCATTATGAACTCGAACTG
* ** *
1985880 GAAATGTTGATCCATCAAGTGATGAATTTGAATAAAAGGTTAAACAAGT
65 GAAAAGTTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
* * ****
1985929 TCTTCTTATTATGAACTTCTTCTTCC-TCTTCAGAT-AAGTTCTTCTTATTATGAACTTTCTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAA-TTCTTCTCATTATGAACTCGAACTG
* ** *
1985992 GAAATGTTGATCCATCAAGTGATGAATTTGAATAAAAGGTTAAACAAGT
65 GAAAAGTTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
1986041 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
*
1986106 AAAAGCTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
66 AAAAGTTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
*
1986154 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
* *
1986219 AAAAGTTGATCCATTAAGTGATGGATTTGAGCAAAAGGTTAAACAAAT
66 AAAAGTTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
* *
1986267 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCAAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
* *
1986332 AAAAGCTGAGCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
66 AAAAGTTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
* * *
1986380 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGATGAGTTCTTCTCATTATGAACTCGAAT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAATTCTTCTCATTATGAACTCGAAC
* * * *
1986445 TGGAAAATGCTAATCCATCAAATGATGGATTTGA
63 TGGAAAA-GTTGATCCATCAAGTGATGAATTTGA
1986479 ATCTTTGCTA
Statistics
Matches: 610, Mismatches: 44, Indels: 20
0.91 0.07 0.03
Matches are distributed among these distances:
112 158 0.26
113 327 0.54
114 3 0.00
115 1 0.00
116 34 0.06
117 54 0.09
119 1 0.00
120 8 0.01
121 24 0.04
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
AAAAGTTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTAAACAAAT
Found at i:1987320 original size:94 final size:94
Alignment explanation
Indices: 1987161--1987713 Score: 844
Period size: 94 Copynumber: 6.0 Consensus size: 94
1987151 CGATCATGAA
* * * * * *
1987161 ATTCATCTTTTAATTCCAATGATTGGTTCTAT--GGTTCCTACCGAACCAGATCAGATAACTCAA
1 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
1987224 AGAACACTTCCAGAAGATGCTATGAGCAC
66 AGAACACTTCCAGAAGATGCTATGAGCAC
*
1987253 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACTAGATCAGATAACTCAA
1 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
1987318 AGAACACTTCCAGAAGATGCTATGAGCAC
66 AGAACACTTCCAGAAGATGCTATGAGCAC
* * * * * *
1987347 ATTCCTCTTCCAAATTCAATGATT-G----AT----TT--TACTAAACCAGATCAGATAACTCAA
1 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
1987401 AGAACACTTCCAGAAGATGCTATGAGCAC
66 AGAACACTTCCAGAAGATGCTATGAGCAC
*
1987430 ATTCATCTTTCAAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAA
1 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
1987495 AGAACACTTCCAGAAGATGCTATGAGCAC
66 AGAACACTTCCAGAAGATGCTATGAGCAC
*
1987524 ATTCATCTTTCAAGTCTAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
1 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
*
1987589 AGAACAATTCCAGAAGATGCTATGAGCAC
66 AGAACACTTCCAGAAGATGCTATGAGCAC
* *
1987618 ATTCATCTTTGAAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAA
1 ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
*
1987683 AGAACACTTCCAAAAGATGCTATGAGCAC
66 AGAACACTTCCAGAAGATGCTATGAGCAC
1987712 AT
1 AT
1987714 GGCATTTGTT
Statistics
Matches: 419, Mismatches: 29, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
83 72 0.17
84 1 0.00
85 2 0.00
89 1 0.00
92 30 0.07
93 1 0.00
94 312 0.74
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (94 bp):
ATTCATCTTTCAAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
AGAACACTTCCAGAAGATGCTATGAGCAC
Found at i:1987500 original size:177 final size:181
Alignment explanation
Indices: 1987199--1987713 Score: 824
Period size: 177 Copynumber: 2.8 Consensus size: 181
1987189 CTATGGTTCC
*
1987199 TACCGAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
1987264 AAGTCCAATGATTGGTTTTTTGGGGTTCATACCAAACTAGATCAGATAACTCAAAGAACACTTCC
66 AAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
* *
1987329 AGAAGATGCTATGAGCACATTCCTCTTCCAAAT-TCAATGATT-G-AT-TT-
131 AGAAGATGCTATGAGCACATTCATCTTCCAAGTCT-AATGATTGGTATGTTA
*
1987376 TACTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1987441 AAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
66 AAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
* *
1987506 AGAAGATGCTATGAGCACATTCATCTTTCAAGTCTAATGATTGGTTTTTTGGGGTTCA
131 AGAAGATGCTATGAGCACATTCATCTTCCAAGTCTAATGATTGG---TAT---GTT-A
* *
1987564 TACCAAACCAGATCAGATAACTCAAAGAACAATTCCAGAAGATGCTATGAGCACATTCATCTTTG
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1987629 AAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
66 AAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
*
1987694 AAAAGATGCTATGAGCACAT
131 AGAAGATGCTATGAGCACAT
1987714 GGCATTTGTT
Statistics
Matches: 314, Mismatches: 12, Indels: 13
0.93 0.04 0.04
Matches are distributed among these distances:
177 163 0.52
178 2 0.01
182 1 0.00
186 2 0.01
188 146 0.46
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (181 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAGTCCAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
AGAAGATGCTATGAGCACATTCATCTTCCAAGTCTAATGATTGGTATGTTA
Found at i:1988970 original size:7 final size:7
Alignment explanation
Indices: 1988954--1989052 Score: 98
Period size: 7 Copynumber: 13.7 Consensus size: 7
1988944 TCTTGACCCC
1988954 TTTTTC-
1 TTTTTCT
1988960 TTTTTCT
1 TTTTTCT
1988967 TTTTTCT
1 TTTTTCT
*
1988974 TTTCTCT
1 TTTTTCT
1988981 TTTTTC-
1 TTTTTCT
1988987 --TTTCT
1 TTTTTCT
1988992 TTTTTCT
1 TTTTTCT
1988999 CTTTTTCTT
1 -TTTTTC-T
1989008 CTTTTTCT
1 -TTTTTCT
1989016 TCTTTTCT
1 T-TTTTCT
1989024 TTTTTCTT
1 TTTTTC-T
1989032 TTCTTTCTT
1 TT-TTTC-T
1989041 TTTTTCT
1 TTTTTCT
1989048 TTTTT
1 TTTTT
1989053 TCTTCAAGCA
Statistics
Matches: 82, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
4 4 0.05
6 6 0.07
7 35 0.43
8 21 0.26
9 16 0.20
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:1988970 original size:12 final size:12
Alignment explanation
Indices: 1988953--1989051 Score: 82
Period size: 12 Copynumber: 8.0 Consensus size: 12
1988943 ATCTTGACCC
1988953 CTTTTTCTTTTT
1 CTTTTTCTTTTT
1988965 CTTTTTTCTTTTCT
1 C-TTTTTCTTTT-T
1988979 CTTTTTTCTTTCTT
1 C-TTTTTCTTT-TT
1988993 -TTTTCTCTTTTT
1 CTTTT-TCTTTTT
*
1989005 CTTCTTT-TTCTT
1 CTT-TTTCTTTTT
1989017 C-TTTTCTTTTT
1 CTTTTTCTTTTT
1989028 -TCTTTTCTTTCTT
1 CT-TTTTCTTT-TT
1989041 -TTTTTCTTTTT
1 CTTTTTCTTTTT
1989052 TTCTTCAAGC
Statistics
Matches: 75, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
10 3 0.04
11 7 0.09
12 28 0.37
13 21 0.28
14 15 0.20
15 1 0.01
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:1988978 original size:18 final size:18
Alignment explanation
Indices: 1988955--1989050 Score: 92
Period size: 17 Copynumber: 5.2 Consensus size: 18
1988945 CTTGACCCCT
1988955 TTTTCTTTTTCTTTTTTC
1 TTTTCTTTTTCTTTTTTC
1988973 TTTTCTCTTTTTTCTTTCTTT-
1 -TTT-TC-TTTTTCTTT-TTTC
1988994 TTTCTCTTTTTCTTCTTTT-
1 TTT-TCTTTTTCTT-TTTTC
*
1989013 TCTTC-TTTTCTTTTTTC
1 TTTTCTTTTTCTTTTTTC
*
1989030 TTTTCTTTCT-TTTTTTC
1 TTTTCTTTTTCTTTTTTC
1989047 TTTT
1 TTTT
1989051 TTTCTTCAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.06
17 22 0.32
18 5 0.07
19 16 0.24
20 9 0.13
21 9 0.13
22 3 0.04
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTTC
Found at i:1988987 original size:9 final size:9
Alignment explanation
Indices: 1988973--1989055 Score: 72
Period size: 8 Copynumber: 9.7 Consensus size: 9
1988963 TTCTTTTTTC
1988973 TTTTCTCTT
1 TTTTCTCTT
1988982 TTTTCTTTCTT
1 TTTTC--TCTT
1988993 TTTTCTC-T
1 TTTTCTCTT
*
1989001 TTTTCT-TC
1 TTTTCTCTT
1989009 TTTT-TCTT
1 TTTTCTCTT
*
1989017 CTTT-TCTT
1 TTTTCTCTT
1989025 TTTTCT-TT
1 TTTTCTCTT
1989033 TCTTTCT-TT
1 T-TTTCTCTT
1989042 TTTTCT-TT
1 TTTTCTCTT
1989050 TTTTCT
1 TTTTCT
1989056 TCAAGCATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
7 1 0.02
8 38 0.59
9 16 0.25
11 9 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:1989023 original size:32 final size:31
Alignment explanation
Indices: 1988955--1989056 Score: 113
Period size: 32 Copynumber: 3.2 Consensus size: 31
1988945 CTTGACCCCT
1988955 TTTTC-TTTTTCTTTTTTCTTTTCTCTTTT-TTC
1 TTTTCTTTTTTCTTTTTTC--TTCT-TTTTCTTC
1988987 -TTTCTTTTTTCTCTTTTTCTTCTTTTTCTTC
1 TTTTCTTTTTTCT-TTTTTCTTCTTTTTCTTC
*
1989018 TTTTCTTTTTTCTTTTCTTTCTT-TTTTTCTTT
1 TTTTCTTTTTTC-TTT-TTTCTTCTTTTTCTTC
1989050 TTTTCTT
1 TTTTCTT
1989057 CAAGCATAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
30 4 0.06
31 11 0.17
32 35 0.56
33 13 0.21
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (31 bp):
TTTTCTTTTTTCTTTTTTCTTCTTTTTCTTC
Found at i:1989031 original size:57 final size:53
Alignment explanation
Indices: 1988953--1989056 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 53
1988943 ATCTTGACCC
1988953 CTTTTTCTTTTTCTTTTTTCTTTTCTCTT-TTTTCTTTCTTTTTTCTCTTTTTCTT
1 CTTTTTCTTTTTCTTTTTTCTTTTCT-TTCTTTT-TTTCTTTTTT-TCTTTTTCTT
1989008 CTTTTTCTTCTTTTCTTTTTTCTTTTCTTTCTTTTTTTCTTTTTTTCTT
1 CTTTTTC-T-TTTTCTTTTTTCTTTTCTTTCTTTTTTTCTTTTTTTCTT
1989057 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
55 11 0.24
56 13 0.28
57 22 0.48
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (53 bp):
CTTTTTCTTTTTCTTTTTTCTTTTCTTTCTTTTTTTCTTTTTTTCTTTTTCTT
Found at i:1989057 original size:49 final size:49
Alignment explanation
Indices: 1988957--1989056 Score: 154
Period size: 48 Copynumber: 2.1 Consensus size: 49
1988947 TGACCCCTTT
*
1988957 TTCTTTTTCTTTTTTCTTTTCTCTTTTTTCTTTCTTTTTTCTCTTTTTC
1 TTCTTTTTCTTTTTTCTTTTCTCTCTTTTCTTTCTTTTTTCTCTTTTTC
1989006 TTCTTTTTCTTCTTTTCTTTT-T-TCTTTTCTTTCTTTTTT-TCTTTTT-
1 TTCTTTTTCTT-TTTTCTTTTCTCTCTTTTCTTTCTTTTTTCTCTTTTTC
1989052 TTCTT
1 TTCTT
1989057 CAAGCATAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
46 5 0.10
47 7 0.14
48 16 0.33
49 12 0.24
50 9 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (49 bp):
TTCTTTTTCTTTTTTCTTTTCTCTCTTTTCTTTCTTTTTTCTCTTTTTC
Found at i:1996397 original size:15 final size:15
Alignment explanation
Indices: 1996374--1996405 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1996364 TGAAATGAAT
1996374 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1996389 AATGTATGTATGCAA
1 AATGAATGTATGCAA
1996404 AA
1 AA
1996406 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2001843 original size:3 final size:3
Alignment explanation
Indices: 2001837--2001890 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
2001827 ATTATTTTTT
* *
2001837 TAA TAA TAA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2001885 TAA TAA
1 TAA TAA
2001891 AATGAGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2002372 original size:36 final size:36
Alignment explanation
Indices: 2002291--2002428 Score: 208
Period size: 36 Copynumber: 3.9 Consensus size: 36
2002281 ATGGTGTTGG
* *
2002291 ACATTAATACACGAATGTACCAAAGTTGATATGA-A
1 ACATTGATACACGAATGTATCAAAGTTGATATGATA
*
2002326 ACATTGATACACGAATGTATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGTTGATATGATA
* *
2002362 ACATTGATACATGAATGTATCAAAGGAT-ATATGATA
1 ACATTGATACACGAATGTATCAAA-GTTGATATGATA
2002398 ACATTGATACACGAATGTATCAAAGTTGATA
1 ACATTGATACACGAATGTATCAAAGTTGATA
2002429 ATGGATAAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
35 33 0.35
36 58 0.62
37 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (36 bp):
ACATTGATACACGAATGTATCAAAGTTGATATGATA
Found at i:2004059 original size:17 final size:18
Alignment explanation
Indices: 2004027--2004060 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2004017 AAATATAAAA
*
2004027 AAAATCCTACAACTCTTT
1 AAAATACTACAACTCTTT
2004045 AAAATACTA-AACTCTT
1 AAAATACTACAACTCTT
2004061 CATAACCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATACTACAACTCTTT
Found at i:2004863 original size:65 final size:63
Alignment explanation
Indices: 2004775--2004934 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 63
2004765 GAATAAATTG
* * * * *
2004775 AACATCAAATGCATTATAAGCATCGATGCACATA-TCATGCATCGATGCACTC-AGGTTTTTATG
1 AACATCGAATGCATT-TATGCATCGATGCACA-AGACATGCATCGATGCACTCAAGCTATTT-TG
2004838 AA
63 -A
2004840 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAAGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCACAAGACATGCATCGATGCACTCAAGCTATTTTGA
* *
2004904 AACATTGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCA-TTTATGCATCGATGCAC
2004935 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
64 29 0.35
65 49 0.58
66 6 0.07
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACAAGACATGCATCGATGCACTCAAGCTATTTTGA
Found at i:2004934 original size:17 final size:19
Alignment explanation
Indices: 2004912--2004954 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2004902 GAAACATTGA
*
2004912 ATGCACT-TCA-TGCATCG
1 ATGCACTCTCAGTGCACCG
*
2004929 ATGCACTCTTAGTGCACCG
1 ATGCACTCTCAGTGCACCG
2004948 ATGCACT
1 ATGCACT
2004955 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (19 bp):
ATGCACTCTCAGTGCACCG
Found at i:2004950 original size:64 final size:64
Alignment explanation
Indices: 2004794--2004954 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 64
2004784 TGCATTATAA
* * * *
2004794 GCATCGATGCACATATCATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTGAT
1 GCATCGATGCAC-TATCATGCATCGATGCACTCAGCTATTTATGAAAACATCGAATGCACTTCAT
* * *
2004859 GCATCGATGCACAAGACATGCATCGATGCACTCAAGCTATTT-TG-AAACATTGAATGCACTTCA
1 GCATCGATGCACTA-TCATGCATCGATGCACTC-AGCTATTTATGAAAACATCGAATGCACTTCA
2004922 T
64 T
* * *
2004923 GCATCGATGCACTCTTAGTGCACCGATGCACT
1 GCATCGATGCACTATCA-TGCATCGATGCACT
2004955 AAGGGTCCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 43 0.53
65 31 0.38
66 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (64 bp):
GCATCGATGCACTATCATGCATCGATGCACTCAGCTATTTATGAAAACATCGAATGCACTTCAT
Found at i:2013464 original size:65 final size:63
Alignment explanation
Indices: 2013388--2013547 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 63
2013378 GAATAAATTG
* * * *
2013388 AACATCGAATGCATTATATGCATCGATGTATATA-CCATGCATCGATGCACTCAGGGT-TTTATG
1 AACATCGAATGCATT-TATGCATCGATGCACA-AGACATGCATCGATGCACTCAGGCTATTT-TG
2013451 AA
63 -A
* *
2013453 AACATCGAATGCATTTGGTGCATCGATGCACAAGACATGCATTGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
* *
2013517 AACATCGAATTCACTTCATGCATCGATGCAC
1 AACATCGAATGCA-TTTATGCATCGATGCAC
2013548 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
64 28 0.34
65 51 0.62
66 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
Found at i:2026689 original size:21 final size:21
Alignment explanation
Indices: 2026663--2026736 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
2026653 GCGTTGCATT
2026663 TCGCGTTACGATAATTGAAAA
1 TCGCGTTACGATAATTGAAAA
* * ** **
2026684 TCGCGTTGCGAT-TTTTCATT
1 TCGCGTTACGATAATTGAAAA
*
2026704 TCGCGTTACGATAGTTGAAAA
1 TCGCGTTACGATAATTGAAAA
*
2026725 TCGCGTTGCGAT
1 TCGCGTTACGAT
2026737 TTTTCAGTTC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCGTTACGATAATTGAAAA
Found at i:2026704 original size:41 final size:41
Alignment explanation
Indices: 2026659--2026757 Score: 162
Period size: 41 Copynumber: 2.4 Consensus size: 41
2026649 ATTCGCGTTG
2026659 CATTTCGCGTTACGATAATTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTACGATAATTGAAAATCGCGTTGCGATTTTT
*
2026700 CATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTACGATAATTGAAAATCGCGTTGCGATTTTT
* * *
2026741 CAGTTCGTGTTGCGATA
1 CATTTCGCGTTACGATA
2026758 GTCTACAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTACGATAATTGAAAATCGCGTTGCGATTTTT
Found at i:2026709 original size:20 final size:20
Alignment explanation
Indices: 2026684--2026809 Score: 69
Period size: 20 Copynumber: 6.2 Consensus size: 20
2026674 TAATTGAAAA
*
2026684 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTTCAAT
* * ** *
2026704 TCGCGTTACGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTTCAAT
*
2026725 TCGCGTTGCGATTTTTCAGT
1 TCGCGTTGCGATTTTTCAAT
* * * *
2026745 TCGTGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTTCAAT
*
2026767 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTTC-AAT
2026788 T--CGTTGCGATTTTTCAAAT
1 TCGCGTTGCGATTTTTC-AAT
2026807 TCG
1 TCG
2026810 TTGCGATAAT
Statistics
Matches: 79, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
19 18 0.23
20 28 0.35
21 18 0.23
22 15 0.19
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTCAAT
Found at i:2026793 original size:19 final size:19
Alignment explanation
Indices: 2026769--2026816 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
2026759 TCTACAGTTG
2026769 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
*
2026788 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTCCAAAT
2026807 TCGTTGCGAT
1 TCGTTGCGAT
2026817 AATCTACAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:2026824 original size:60 final size:61
Alignment explanation
Indices: 2026728--2026859 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 61
2026718 TTGAAAATCG
* * *
2026728 CGTTGCGATTTTTCAGTTCGTGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAATT
1 CGTTGCGATTTTTCAATTCG-GTTGCGATAATCTACAGTTGTCGTTGCGATATTTACAAATT
* *
2026789 CGTTGCGATTTTTCAAATTC-GTTGCGATAATCTACAGTTGTTGTTGCGATAGTTTATAAATT
1 CGTTGCGATTTTTC-AATTCGGTTGCGATAATCTACAGTTGTCGTTGCGATA-TTTACAAATT
2026851 CGTTGCGAT
1 CGTTGCGAT
2026860 AGTCTACAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
60 28 0.44
61 14 0.22
62 21 0.33
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (61 bp):
CGTTGCGATTTTTCAATTCGGTTGCGATAATCTACAGTTGTCGTTGCGATATTTACAAATT
Found at i:2026835 original size:41 final size:41
Alignment explanation
Indices: 2026788--2026899 Score: 163
Period size: 43 Copynumber: 2.7 Consensus size: 41
2026778 TTTTCCAAAT
2026788 TCGTTGCGATTTTTCAAATTCGTTGCGATAATCTACAGTTG
1 TCGTTGCGATTTTTCAAATTCGTTGCGATAATCTACAGTTG
* *
2026829 TTGTTGCGATAGTTTAT-AAATTCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGAT--TTT-TCAAATTCGTTGCGATAATCTACAGTTG
*
2026872 TCGTTGCGATTTTCCAAATTCGTTGCGA
1 TCGTTGCGATTTTTCAAATTCGTTGCGA
2026900 AAATTCGTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 25 0.40
43 37 0.59
44 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.41
Consensus pattern (41 bp):
TCGTTGCGATTTTTCAAATTCGTTGCGATAATCTACAGTTG
Found at i:2027005 original size:6 final size:6
Alignment explanation
Indices: 2026994--2027031 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
2026984 AGACACGTAT
*
2026994 GACCAC GACCAC GACCAC GATCAC GACCA- GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
2027032 CGAGACGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 8 0.28
6 21 0.72
ACGTcount: A:0.32, C:0.47, G:0.18, T:0.03
Consensus pattern (6 bp):
GACCAC
Found at i:2027540 original size:6 final size:6
Alignment explanation
Indices: 2027529--2027553 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2027519 TCGGGTCTGA
2027529 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
2027554 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:2043080 original size:22 final size:25
Alignment explanation
Indices: 2043055--2043099 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
2043045 ATTTGATGTA
2043055 TCAAAATA-A-TTAAAT-TTAATAG
1 TCAAAATAGATTTAAATATTAATAG
2043077 TCAAAATAGATTTAAATATTAAT
1 TCAAAATAGATTTAAATATTAAT
2043100 TTGATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 1 0.05
24 6 0.30
25 5 0.25
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (25 bp):
TCAAAATAGATTTAAATATTAATAG
Found at i:2046216 original size:37 final size:36
Alignment explanation
Indices: 2046141--2046216 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
2046131 TTTTTATATT
*
2046141 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
2046177 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
2046214 TTT
1 TTT
2046217 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:2058074 original size:19 final size:19
Alignment explanation
Indices: 2058011--2058085 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 19
2058001 TATTATTATT
2058011 TATAATAT-TATA-ATATA
1 TATAATATATATATATATA
* *
2058028 -ATACATTTATATATTTATTA
1 TATA-ATATATATATATA-TA
*
2058048 TACGAATATATATATATATA
1 TA-TAATATATATATATATA
*
2058068 TATAATATTTATAT-TATA
1 TATAATATATATATATATA
2058086 AATATTATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
16 3 0.07
17 3 0.07
18 8 0.18
19 12 0.27
20 6 0.13
21 12 0.27
22 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (19 bp):
TATAATATATATATATATA
Found at i:2060713 original size:25 final size:25
Alignment explanation
Indices: 2060675--2060730 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
2060665 TTTGAAATTA
*
2060675 CTCCCCCTTGCTATAATACATCTTT
1 CTCCCCCTTACTATAATACATCTTT
2060700 CTCCCCCTTACTATAATACATCTTT
1 CTCCCCCTTACTATAATACATCTTT
2060725 CTCCCC
1 CTCCCC
2060731 TTTTTTGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.41, G:0.02, T:0.38
Consensus pattern (25 bp):
CTCCCCCTTACTATAATACATCTTT
Found at i:2060962 original size:2 final size:2
Alignment explanation
Indices: 2060955--2060993 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2060945 AAACCAAACC
2060955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2060994 AGAAGTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2062970 original size:23 final size:22
Alignment explanation
Indices: 2062940--2063020 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
2062930 GCACAGCATA
*
2062940 GTGCATTGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * * *
2062962 CGTGCATTGGTGCACTTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
2062984 GTGAATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
2063006 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
2063021 TAGGTAGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 14 0.30
22 5 0.11
23 28 0.60
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:2067114 original size:117 final size:117
Alignment explanation
Indices: 2066899--2067115 Score: 278
Period size: 117 Copynumber: 1.9 Consensus size: 117
2066889 AAATCGAATT
* * *
2066899 TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATTCTTCTTCAAGATTTCATTT
1 TTTCTTTTTCAATACTTTCAAATTTCATTCTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTT
* *
2066964 TGATTTTCAAAATCCATTTTTCTTTCTAGAAGAAGTTCGTTTAATTTGAAAA
66 TGATTTTCAAAATCCATTTTGCTTTCTAAAAGAAGTTCGTTTAATTTGAAAA
* * * *
2067016 TTTCTTTTTCAA-AGTTTTCAGATTTCGTTCTTGAAAGCTCTAACTCCTT-TCTCAACATTTCAT
1 TTTCTTTTTCAATA-CTTTCAAATTTCATTCTTGAAAGCTCTAAATCCTTCT-TCAACATTTCAT
* **
2067079 TTTGATTTTCTAAATCTGTTTTAGCTTTC-AAAAGAAG
64 TTTGATTTTCAAAATCCATTTT-GCTTTCTAAAAGAAG
2067116 ATCATTTTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
116 2 0.02
117 78 0.92
118 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (117 bp):
TTTCTTTTTCAATACTTTCAAATTTCATTCTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTT
TGATTTTCAAAATCCATTTTGCTTTCTAAAAGAAGTTCGTTTAATTTGAAAA
Found at i:2067370 original size:21 final size:21
Alignment explanation
Indices: 2067321--2067370 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2067311 GTCTCTATAG
*
2067321 ATCTCCTCAAGCTTATCCCAC
1 ATCTCCTTAAGCTTATCCCAC
2067342 ATCTCCTTAAGCTTATCCCAC
1 ATCTCCTTAAGCTTATCCCAC
2067363 ATCTCCTT
1 ATCTCCTT
2067371 GGCATTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.40, G:0.04, T:0.34
Consensus pattern (21 bp):
ATCTCCTTAAGCTTATCCCAC
Found at i:2068464 original size:391 final size:393
Alignment explanation
Indices: 2067743--2068527 Score: 1163
Period size: 391 Copynumber: 2.0 Consensus size: 393
2067733 CTGATACCAA
*
2067743 TTGTTGAGTTAATCGATCGACGGAATAACCCAAGAGGGGGTGAATTGACAATAAAAATTTCGGTG
1 TTGTTGAGTTAATCGATCGACGGAATAACCCAAGAGGGGGTGAAATGACAATAAAAATTTCGGTG
* * *
2067808 GAAGCTTTTGCAGATAATTAAAAATATTTGCACAACAATTTAGAGTGGTTCGACTTTCTCAACCA
66 GAAGCTTTTGCAGAAAATTAAAAAGATTTGCACAACAATTTAGAGTGGTTCGAATTTCTCAACCA
*
2067873 AAGTCTACGTCCACTACCTTAGATATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTT
131 AAGTCTAAGTCCACTACCTTAGATATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTT
* * *
2067938 TCTTTTGAGGACAAAGAGTAACCTTACAAATCTCTCAAGAATTATACCCCAAATTCTTTAGAACA
196 TCTTTTGAGGAAAAAGAGTAACCTTACAAATCCCTCAAGAATTATACCCCAAATTCTTGAGAACA
*
2068003 CTCTCTCCCAAAGAAAACAATACAAATTTTGCAAACTTACAAGAAAATCCTCATAAGGAAAGATG
261 CTCTCTCCCAAAGAAAACAATACAAATTTTGCAAACTTACAAGAAAATCCTCACAAGGAAAGATG
* *
2068068 TTTGCATAATTCTATAACAAAG-AAAGAACACTAAAGAAT-AATAAAATTGAGCACAA-TAAGTG
326 TTTGCATAATTCTAGAACAAAGCAAAGAACACTAAAAAATGAATAAAATTGAGCACAAGT-AGTG
2068130 TTCT
390 TTCT
* *** * *
2068134 TTGTTGAGTTAATCGATCGATGGAATTTGCCAAGAGGGGGTGAAATGGCAATAAAAATTTTGGTG
1 TTGTTGAGTTAATCGATCGACGGAATAACCCAAGAGGGGGTGAAATGACAATAAAAATTTCGGTG
* ** *
2068199 GAAGCTTTTGCAGAAAATTGAAAAGATTTGCACGGCGATTTAGAGTGGTTC-AATATTCTCAACC
66 GAAGCTTTTGCAGAAAATTAAAAAGATTTGCACAACAATTTAGAGTGGTTCGAAT-TTCTCAACC
*
2068263 AAAGTCTAAGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTT
130 AAAGTCTAAGTCCACTACCTTAGATATCCACACTAAGGATTTTCC-ACAAATTCACTAATTTG-T
* *
2068328 CTTTCTTTTGAGGAAAAAGAGATAACCTTACAACTCCCTCAAGAA-TATACCTC-AATTCTTGAG
193 CTTTCTTTTGAGGAAAAAGAG-TAACCTTACAAATCCCTCAAGAATTATACCCCAAATTCTTGAG
* * * * * * *
2068391 AACACTCTTTCTCAAAGAGAAGATTACAAA-TTTGCAAACTTACAAGGAAATCCTCACAAGG-TA
257 AACACTCTCTCCCAAAGAAAACAATACAAATTTTGCAAACTTACAAGAAAATCCTCACAAGGAAA
* *
2068454 GATTGTTTGCATAATTCTAGAACAAAGCAAAGAACACTAAAAAATGAATACAATTGAGTACAAGT
322 GA-TGTTTGCATAATTCTAGAACAAAGCAAAGAACACTAAAAAATGAATAAAATTGAGCACAAGT
2068519 AGTGTTCT
386 AGTGTTCT
2068527 T
1 T
2068528 GAAAGCAAAA
Statistics
Matches: 353, Mismatches: 33, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
390 5 0.01
391 207 0.59
392 67 0.19
393 52 0.15
394 22 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (393 bp):
TTGTTGAGTTAATCGATCGACGGAATAACCCAAGAGGGGGTGAAATGACAATAAAAATTTCGGTG
GAAGCTTTTGCAGAAAATTAAAAAGATTTGCACAACAATTTAGAGTGGTTCGAATTTCTCAACCA
AAGTCTAAGTCCACTACCTTAGATATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTT
TCTTTTGAGGAAAAAGAGTAACCTTACAAATCCCTCAAGAATTATACCCCAAATTCTTGAGAACA
CTCTCTCCCAAAGAAAACAATACAAATTTTGCAAACTTACAAGAAAATCCTCACAAGGAAAGATG
TTTGCATAATTCTAGAACAAAGCAAAGAACACTAAAAAATGAATAAAATTGAGCACAAGTAGTGT
TCT
Found at i:2068949 original size:21 final size:21
Alignment explanation
Indices: 2068910--2068949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2068900 AAACCATTCA
*
2068910 GGGGGAATCGGTACTCTCTTG
1 GGGGGAATCGGTACCCTCTTG
*
2068931 GGGGGAATCGGTTCCCTCT
1 GGGGGAATCGGTACCCTCT
2068950 GAGCAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.23, G:0.38, T:0.28
Consensus pattern (21 bp):
GGGGGAATCGGTACCCTCTTG
Found at i:2069285 original size:30 final size:30
Alignment explanation
Indices: 2069251--2069312 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
2069241 TGAAATCAAG
2069251 TTTTGAAATTACTCCCCCTTACTCTAACAC
1 TTTTGAAATTACTCCCCCTTACTCTAACAC
2069281 TTTTGAAATTACTCCCCCTTACTCTAACAC
1 TTTTGAAATTACTCCCCCTTACTCTAACAC
2069311 TT
1 TT
2069313 ATCCCCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTTGAAATTACTCCCCCTTACTCTAACAC
Found at i:2071541 original size:22 final size:22
Alignment explanation
Indices: 2071516--2071571 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
2071506 CTGTGGGGGA
2071516 GAATCGGTTCCCCTTCAAAGGG
1 GAATCGGTTCCCCTTCAAAGGG
* *
2071538 GAATCAGTTCCCCTTCAAGGGG
1 GAATCGGTTCCCCTTCAAAGGG
* *
2071560 GTATCGATTCCC
1 GAATCGGTTCCC
2071572 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (22 bp):
GAATCGGTTCCCCTTCAAAGGG
Found at i:2075894 original size:19 final size:19
Alignment explanation
Indices: 2075852--2075894 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2075842 TTTGACTCGT
*
2075852 CTCTCATTTCAAGATCTTC
1 CTCTTATTTCAAGATCTTC
*
2075871 CTCTTATTTCGAGATCTTC
1 CTCTTATTTCAAGATCTTC
*
2075890 TTCTT
1 CTCTT
2075895 CTTTAAGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.16, C:0.28, G:0.07, T:0.49
Consensus pattern (19 bp):
CTCTTATTTCAAGATCTTC
Found at i:2077399 original size:22 final size:21
Alignment explanation
Indices: 2077361--2077401 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2077351 AAACCATTTA
*
2077361 GGGGGAATCGGTACCCTCTTG
1 GGGGGAATCAGTACCCTCTTG
*
2077382 GGGGAGAATCAGTTCCCTCT
1 GGGG-GAATCAGTACCCTCT
2077402 GAGCAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (21 bp):
GGGGGAATCAGTACCCTCTTG
Found at i:2078997 original size:30 final size:30
Alignment explanation
Indices: 2078907--2079145 Score: 302
Period size: 30 Copynumber: 8.0 Consensus size: 30
2078897 TTATCTTTCT
*
2078907 CATTGTCCCTTTCAACACTACCCATTTCAA
1 CATTGTCCCTTTCAACACTACCCATTTCAG
* * * *
2078937 CATTATCCATTTCTACACCA-CCACTTTCAG
1 CATTGTCCCTTTCAACACTACCCA-TTTCAG
*
2078967 CATTGCCCCTTTCAACACTACCCATTTCAG
1 CATTGTCCCTTTCAACACTACCCATTTCAG
2078997 CATTGTCCCTTTCAACACTACCCATTTCAG
1 CATTGTCCCTTTCAACACTACCCATTTCAG
* *
2079027 CATTGTCCCTTTCTACACTACCCATTTTAG
1 CATTGTCCCTTTCAACACTACCCATTTCAG
* * * ** *
2079057 CAGTATCCATTTTTACACCA-CCACTTTCAG
1 CATTGTCCCTTTCAACACTACCCA-TTTCAG
*
2079087 CATTATCCCTTTCAACACTACCCATTTCAG
1 CATTGTCCCTTTCAACACTACCCATTTCAG
*
2079117 CATTGTCCCTTTCAATACTACCCATTTCA
1 CATTGTCCCTTTCAACACTACCCATTTCA
2079146 CCAGTATCCA
Statistics
Matches: 179, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
29 6 0.03
30 167 0.93
31 6 0.03
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (30 bp):
CATTGTCCCTTTCAACACTACCCATTTCAG
Found at i:2079085 original size:90 final size:90
Alignment explanation
Indices: 2078907--2079224 Score: 363
Period size: 90 Copynumber: 3.5 Consensus size: 90
2078897 TTATCTTTCT
* * * *
2078907 CATTGTCCCTTTCAACACTACCCATTTCAACATTATCCATTTCTACACCA-CCACTTTCAGCATT
1 CATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACTACCCA-TTTCAGCAGT
** * * *
2078971 GCCCCTTTCAACACTACC-CATTTCAG
65 ATCCATTTCTACACCACCAC-TTTCAG
* * * *
2078997 CATTGTCCCTTTCAACACTACCCATTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCAGTA
1 CATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACTACCCATTTCAGCAGTA
*
2079062 TCCATTTTTACACCACCACTTTCAG
66 TCCATTTCTACACCACCACTTTCAG
* * * * *
2079087 CATTATCCCTTTCAACACTACCCATTTCAGCATTGTCCCTTTCAATACTACCCATTTCACCAGTA
1 CATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACTACCCATTTCAGCAGTA
*
2079152 TCCATTTCTACACCACCACTTTTAG
66 TCCATTTCTACACCACCACTTTCAG
* ** * *
2079177 CATTATCCATTTGTACGCCA-CCACTTTCAGCATTATCCATTTCTACAC
1 CATTATCCCTTTCAACACTACCCA-TTTCAGCATTATCCATTTCTACAC
2079225 CACCACTTTC
Statistics
Matches: 197, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
89 3 0.02
90 190 0.96
91 4 0.02
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (90 bp):
CATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACTACCCATTTCAGCAGTA
TCCATTTCTACACCACCACTTTCAG
Found at i:2079233 original size:60 final size:60
Alignment explanation
Indices: 2078907--2079224 Score: 336
Period size: 60 Copynumber: 5.3 Consensus size: 60
2078897 TTATCTTTCT
* * *
2078907 CATTGTCCCTTTCAACACTACCCATTTCAACATTATCCATTTCTACACCACCACTTTCAG
1 CATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCACCACTTTCAG
** * * * * *
2078967 CATTGCCCCTTTCAACACTACCCATTTCAGCATTGTCCCTTTCAACACTACC-CATTTCAG
1 CATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCACCAC-TTTCAG
* * * *
2079027 CATTGTCCCTTTCTACACTACCCATTTTAGCAGTATCCATTTTTACACCACCACTTTCAG
1 CATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCACCACTTTCAG
* * * * * * *
2079087 CATTATCCCTTTCAACACTACCCATTTCAGCATTGTCCCTTTCAATACTACC-CATTTCAC
1 CATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCACCAC-TTTCAG
* * * * * *
2079147 CAGTATCCATTTCTACACCA-CCACTTTTAGCATTATCCATTTGTACGCCACCACTTTCAG
1 CATTATCCCTTTCTACACTACCCA-TTTCAGCATTATCCATTTCTACACCACCACTTTCAG
*
2079207 CATTATCCATTTCTACAC
1 CATTATCCCTTTCTACAC
2079225 CACCACTTTC
Statistics
Matches: 213, Mismatches: 40, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
59 5 0.02
60 206 0.97
61 2 0.01
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (60 bp):
CATTATCCCTTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCACCACTTTCAG
Found at i:2079235 original size:30 final size:30
Alignment explanation
Indices: 2078907--2079228 Score: 283
Period size: 30 Copynumber: 10.7 Consensus size: 30
2078897 TTATCTTTCT
* * * * *
2078907 CATTGTCCCTTTCAACACTACCCATTTCAA
1 CATTATCCATTTCTACACCACCCATTTCAG
2078937 CATTATCCATTTCTACACCA-CCACTTTCAG
1 CATTATCCATTTCTACACCACCCA-TTTCAG
** * * *
2078967 CATTGCCCCTTTCAACACTACCCATTTCAG
1 CATTATCCATTTCTACACCACCCATTTCAG
* * * *
2078997 CATTGTCCCTTTCAACACTACCCATTTCAG
1 CATTATCCATTTCTACACCACCCATTTCAG
* * * *
2079027 CATTGTCCCTTTCTACACTACCCATTTTAG
1 CATTATCCATTTCTACACCACCCATTTCAG
* *
2079057 CAGTATCCATTTTTACACCA-CCACTTTCAG
1 CATTATCCATTTCTACACCACCCA-TTTCAG
* * *
2079087 CATTATCCCTTTCAACACTACCCATTTCAG
1 CATTATCCATTTCTACACCACCCATTTCAG
* * * * * *
2079117 CATTGTCCCTTTCAATACTACCCATTTCAC
1 CATTATCCATTTCTACACCACCCATTTCAG
* *
2079147 CAGTATCCATTTCTACACCA-CCACTTTTAG
1 CATTATCCATTTCTACACCACCCA-TTTCAG
* *
2079177 CATTATCCATTTGTACGCCA-CCACTTTCAG
1 CATTATCCATTTCTACACCACCCA-TTTCAG
2079207 CATTATCCATTTCTACACCACC
1 CATTATCCATTTCTACACCACC
2079229 ACTTTCATAA
Statistics
Matches: 245, Mismatches: 41, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
29 9 0.04
30 229 0.93
31 7 0.03
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (30 bp):
CATTATCCATTTCTACACCACCCATTTCAG
Found at i:2079235 original size:120 final size:120
Alignment explanation
Indices: 2078916--2079224 Score: 440
Period size: 120 Copynumber: 2.6 Consensus size: 120
2078906 TCATTGTCCC
* * * * **
2078916 TTTCAACACTACCCATTTCAACATTATCCATTTCTACACCACCACTTTCAGCATTGCCCCTTTCA
1 TTTCTACACCACCCATTTTAGCATTATCCATTTCTACACCACCACTTTCAGCATTATCCCTTTCA
* * * *
2078981 ACACTACCCATTTCAGCATTGTCCCTTTCAACACTACCCATTTCAGCATTGTCCC
66 ACACTACCCATTTCAGCATTGTCCCTTTCAACACTACCCATTTCACCAGTATCCA
* * *
2079036 TTTCTACACTACCCATTTTAGCAGTATCCATTTTTACACCACCACTTTCAGCATTATCCCTTTCA
1 TTTCTACACCACCCATTTTAGCATTATCCATTTCTACACCACCACTTTCAGCATTATCCCTTTCA
*
2079101 ACACTACCCATTTCAGCATTGTCCCTTTCAATACTACCCATTTCACCAGTATCCA
66 ACACTACCCATTTCAGCATTGTCCCTTTCAACACTACCCATTTCACCAGTATCCA
* * *
2079156 TTTCTACACCA-CCACTTTTAGCATTATCCATTTGTACGCCACCACTTTCAGCATTATCCATTTC
1 TTTCTACACCACCCA-TTTTAGCATTATCCATTTCTACACCACCACTTTCAGCATTATCCCTTTC
*
2079220 TACAC
65 AACAC
2079225 CACCACTTTC
Statistics
Matches: 170, Mismatches: 18, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
119 3 0.02
120 167 0.98
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.34
Consensus pattern (120 bp):
TTTCTACACCACCCATTTTAGCATTATCCATTTCTACACCACCACTTTCAGCATTATCCCTTTCA
ACACTACCCATTTCAGCATTGTCCCTTTCAACACTACCCATTTCACCAGTATCCA
Found at i:2081584 original size:80 final size:80
Alignment explanation
Indices: 2081451--2081611 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
2081441 CCTTTTTACT
2081451 CGTATTTTCGGTTTTAAAGTTGAGAAAAAAACATTTACTCGTATATGTTCATATTCTTTTTTAGT
1 CGTATTTTCGGTTTTAAAGTTGAGAAAAAAACATTTACTCGTATATGTTCATATTCTTTTTTAGT
2081516 CATTAACAATGAACA
66 CATTAACAATGAACA
2081531 CGTATTTTCGGTTTTAAAGTTGAGAAAAAAACATTTACTCGTATATGTTCATATTCTTTTTTAGT
1 CGTATTTTCGGTTTTAAAGTTGAGAAAAAAACATTTACTCGTATATGTTCATATTCTTTTTTAGT
2081596 CATTAACAATGAACA
66 CATTAACAATGAACA
2081611 C
1 C
2081612 AAATCATGCA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (80 bp):
CGTATTTTCGGTTTTAAAGTTGAGAAAAAAACATTTACTCGTATATGTTCATATTCTTTTTTAGT
CATTAACAATGAACA
Found at i:2082558 original size:2 final size:2
Alignment explanation
Indices: 2082551--2082610 Score: 95
Period size: 2 Copynumber: 30.0 Consensus size: 2
2082541 CCTATAAAGC
2082551 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
*
2082593 TA TA CA TA TGA -A TA TA TA
1 TA TA TA TA T-A TA TA TA TA
2082611 GACAACATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 1 0.02
2 52 0.96
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2084826 original size:3 final size:3
Alignment explanation
Indices: 2084814--2084917 Score: 178
Period size: 3 Copynumber: 35.3 Consensus size: 3
2084804 AAAATAACAT
2084814 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2084860 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2084907 TAA TTAA TAA T
1 TAA -TAA TAA T
2084918 TTTTTTGCCC
Statistics
Matches: 97, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.06
3 88 0.91
4 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2085374 original size:129 final size:128
Alignment explanation
Indices: 2085071--2085678 Score: 476
Period size: 129 Copynumber: 4.7 Consensus size: 128
2085061 TTTAGGAGAC
* * ** * * *
2085071 AACACTGCTCATACGTGATGAAGAGTTCGGGTCGTCTAAGGGTGACAAAATTCCTACATAATGAG
1 AACACGGCTCATACGTGATGAAGAGTTCTGGTTATC-AAGGGTGACACAACTCCTACATGATGAG
* ** *
2085136 GAGATCTA-GTCAGGGGATGACACTACTT-ATACGTGATGAAAAGTTCTTGACCATCTTTATGAA
65 GAGATC-AGGTCAGGTGATGACAC-GGTTCATACGTGATGAAGAGTTC-TGACCATC--TA--AA
2085199 GGGTGAT
123 -GGTGAT
* * * * * *
2085206 AACACGACTCATACATGATGAAGGGTTCTGGTTATCAAGGATTGACACAACTCCTACGTGATGAA
1 AACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAAGG-GTGACACAACTCCTACATGATGAG
* * *
2085271 GAGGTCAGATCAGGTGATGACATGGTTCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGAT
65 GAGATCAGGTCAGGTGATGACACGGTTCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGAT
* * * *
2085335 AACAAGGCTCATACGTGATGAAGAGTTCTGGTTATCAAGGATTGACGCAGCTCCTACATGATGAG
1 AACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAAGG-GTGACACAACTCCTACATGATGAG
* * * * * *
2085400 GAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA-TGTCAGGCCATCTAAGGGTGAT
65 GAGATCAGGTCAGGTGATGACACGGTTCATACGTGATGAAGAGT-TCTGACCATCTAAAGGTGAT
* * * * * **** * * *** **
2085464 AACACGGTTCCTATGAGATGAGGACAGGTAGTTATCTAGGGTGACACTGTTCCTACGCGATGAGG
1 AACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAAGGGTGACACAACTCCTACATGATGAGG
* * ** *
2085529 AAATCTGGTCAGGTGATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
66 AGATCAGGTCAGGTGATGACACGGTTCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGAT
* * * * *
2085592 AACACGGTTCCACT-C-TGAT-ATGGACG-ACTGGTTATCTAA-GTTGACACAACTCCTACATAA
1 AACACGGCT-CA-TACGTGATGA-AGA-GTTCTGGTTATC-AAGGGTGACACAACTCCTACATGA
* * *
2085652 TGAGAAGATCTGGTCAGGGGATGACAC
61 TGAGGAGATCAGGTCAGGTGATGACAC
2085679 TGCTCATCTG
Statistics
Matches: 381, Mismatches: 82, Indels: 27
0.78 0.17 0.06
Matches are distributed among these distances:
127 1 0.00
128 132 0.35
129 147 0.39
130 3 0.01
132 2 0.01
134 15 0.04
135 81 0.21
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (128 bp):
AACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAAGGGTGACACAACTCCTACATGATGAGG
AGATCAGGTCAGGTGATGACACGGTTCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGAT
Found at i:2085626 original size:128 final size:127
Alignment explanation
Indices: 2085233--2085678 Score: 393
Period size: 128 Copynumber: 3.5 Consensus size: 127
2085223 ATGAAGGGTT
* * * * ** * * *
2085233 CTGGTTATCAAGGATTGACACAACTCCTACGTGATGAAGAGGTCAGATCAGGTGATGACATGGTT
1 CTGGTTATCTAGG-TTGACACAGCTCCTACATGATGAGGAAATCTGGTCAGGTGATGACACGGTT
* * * *
2085298 CATACGTGATGAAGAGTTCTGACCATCTAAAGGTGATAACAAGGCTCA-TACGTGATGA-AGA-G
65 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCACT-C-TGAT-ATGGACG
*
2085360 TT
127 -A
* * * * *
2085362 CTGGTTATCAAGGATTGACGCAGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGACACGGTT
1 CTGGTTATCTAGG-TTGACACAGCTCCTACATGATGAGGAAATCTGGTCAGGTGATGACACGGTT
* * * * * *
2085427 CCTACGTGATGAGGA-TGTCAGGCCATCTAAGGGTGATAACACGGTTC-CTATGAGATGAGGAC-
65 CATACGTGATGAAGAGT-TCTGGCCATCTAAAGGTGATAACACGGTTCACTCTGATAT--GGACG
2085489 A
127 A
* * * * * ** **
2085490 GGTAGTTATCTAGGGTGACACTGTTCCTACGCGATGAGGAAATCTGGTCAGGTGATGACACGACT
1 -CTGGTTATCTAGGTTGACACAGCTCCTACATGATGAGGAAATCTGGTCAGGTGATGACACGGTT
2085555 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCACTCTGATATGGACGA
65 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTT-CACTCTGATATGGACGA
* * * *
2085619 CTGGTTATCTAAGTTGACACAACTCCTACATAATGA-GAAGATCTGGTCAGGGGATGACAC
1 CTGGTTATCTAGGTTGACACAGCTCCTACATGATGAGGAA-ATCTGGTCAGGTGATGACAC
2085679 TGCTCATCTG
Statistics
Matches: 255, Mismatches: 50, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
126 1 0.00
127 6 0.02
128 130 0.51
129 111 0.44
130 7 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (127 bp):
CTGGTTATCTAGGTTGACACAGCTCCTACATGATGAGGAAATCTGGTCAGGTGATGACACGGTTC
ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCACTCTGATATGGACGA
Found at i:2085860 original size:37 final size:38
Alignment explanation
Indices: 2085819--2085892 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
2085809 GATTTTTTTT
* *
2085819 ATGTCTCAAATGAGACAA-AATTTGTTTTGAAAGAAAA
1 ATGTCTCAAACGAGACAACAATTTGTTTCGAAAGAAAA
* * *
2085856 ATGTCTCAAGCGAGACAACATTTTGTTTCGAGAGAAA
1 ATGTCTCAAACGAGACAACAATTTGTTTCGAAAGAAA
2085893 TAACATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (38 bp):
ATGTCTCAAACGAGACAACAATTTGTTTCGAAAGAAAA
Found at i:2093328 original size:32 final size:32
Alignment explanation
Indices: 2093287--2093376 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
2093277 TAATGATGAA
* *
2093287 AATG-ACACAATCAAAAGAAATA-AAATAAGTT
1 AATGTACACAAACAAAAGAAA-AGAAATAAGCT
* *
2093318 AGTGTACACAAACAAAAGAAAAGAAATTAGCT
1 AATGTACACAAACAAAAGAAAAGAAATAAGCT
* *
2093350 AATGTACACAAACAATAGGAAAGAAAT
1 AATGTACACAAACAAAAGAAAAGAAAT
2093377 TAGTCAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 4 0.08
32 46 0.92
ACGTcount: A:0.59, C:0.11, G:0.13, T:0.17
Consensus pattern (32 bp):
AATGTACACAAACAAAAGAAAAGAAATAAGCT
Found at i:2095126 original size:2 final size:2
Alignment explanation
Indices: 2095119--2095219 Score: 102
Period size: 2 Copynumber: 51.0 Consensus size: 2
2095109 CCTATAAAGC
*
2095119 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TGA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * *
2095161 TGA -A TA TA TA GA CA -A CA TA CA -A TA TA TA TA TA TA TA TA TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2095201 TA TA TA TA TA TGA TA TA TA
1 TA TA TA TA TA T-A TA TA TA
2095220 AGTAGAACAT
Statistics
Matches: 86, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
1 4 0.05
2 78 0.91
3 4 0.05
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:2097559 original size:40 final size:40
Alignment explanation
Indices: 2097504--2097597 Score: 188
Period size: 40 Copynumber: 2.4 Consensus size: 40
2097494 GCGATCGATA
2097504 ATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAG
1 ATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAG
2097544 ATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAG
1 ATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAG
2097584 ATTCGCAACGCGAT
1 ATTCGCAACGCGAT
2097598 TCTGACTATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (40 bp):
ATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAG
Found at i:2097635 original size:21 final size:21
Alignment explanation
Indices: 2097606--2097658 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2097596 ATTCTGACTA
2097606 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
2097627 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
2097648 TCGCAATGCGA
1 TCGCATTGCGA
2097659 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:2097673 original size:20 final size:20
Alignment explanation
Indices: 2097648--2097800 Score: 279
Period size: 20 Copynumber: 7.7 Consensus size: 20
2097638 TTTTCCTAAT
2097648 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
2097668 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
2097688 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
2097708 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
2097728 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
2097748 TCTCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
2097768 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
2097788 TCGCAACGCGAAT
1 TCGCAATGCGAAT
2097801 CTGACTATCG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 128 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:2098018 original size:22 final size:22
Alignment explanation
Indices: 2097993--2098062 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
2097983 CTAAGGCGAC
*
2097993 ATCAATCCCCATCTCCGACGAA
1 ATCAGTCCCCATCTCCGACGAA
*
2098015 ATCAGTCCCCATCTCCGACGAT
1 ATCAGTCCCCATCTCCGACGAA
* * *
2098037 ATCAGTCTCCATCTCTGGCGAA
1 ATCAGTCCCCATCTCCGACGAA
2098059 ATCA
1 ATCA
2098063 TTCACGGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (22 bp):
ATCAGTCCCCATCTCCGACGAA
Found at i:2098479 original size:20 final size:20
Alignment explanation
Indices: 2098431--2098480 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
2098421 CGATTCTTGC
**
2098431 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
2098451 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
2098471 GTTGCGATTT
1 GTTGCGATTT
2098481 AAAGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.14, G:0.24, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:2098488 original size:20 final size:20
Alignment explanation
Indices: 2098445--2098488 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2098435 CGATAGTCAT
** *
2098445 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
2098465 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
2098485 TTTC
1 TTTC
2098489 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:2100375 original size:20 final size:20
Alignment explanation
Indices: 2100346--2100504 Score: 96
Period size: 20 Copynumber: 8.6 Consensus size: 20
2100336 AGAATAGTTT
*
2100346 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
2100366 ACTATTGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
* *
2100386 ACTAACGCAA--CG-AGA-G
1 ACTATCGCAACGCGAAAATG
* *
2100402 A--ATCACAATGCG-AAATG
1 ACTATCGCAACGCGAAAATG
**
2100419 AAAATCGCAA--C-AACAA--
1 ACTATCGCAACGCGAA-AATG
2100435 A--ATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
2100453 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
* *
2100473 ACTATCGCAATGC-AAATTTG
1 ACTATCGCAACGCGAAA-ATG
2100493 ACTATCGCAACG
1 ACTATCGCAACG
2100505 AAAGAATCGC
Statistics
Matches: 112, Mismatches: 12, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
14 12 0.11
16 10 0.09
17 8 0.07
18 5 0.04
19 9 0.08
20 68 0.61
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAATG
Found at i:2100437 original size:53 final size:52
Alignment explanation
Indices: 2100380--2100534 Score: 136
Period size: 53 Copynumber: 2.9 Consensus size: 52
2100370 TTGCAACGCG
*
2100380 AAAATGACTAACGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACAAC
1 AAAATGACTAACGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-AAC
* ** ** **
2100433 AAAATCG-C-AACGCGAA-AATGACTATCGCAATGCGAAAATGACTATCGCAATGC
1 AAAAT-GACTAACGC-AACGA-GAGAATCGCAATGCG-AAATGAAAATCGCAAAAC
* * *
2100486 AAATTTGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCA
1 AAA-ATGACTAACGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
2100535 TTGTGATTCT
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
52 6 0.08
53 37 0.47
54 30 0.38
55 5 0.06
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (52 bp):
AAAATGACTAACGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAAAC
Found at i:2100641 original size:20 final size:20
Alignment explanation
Indices: 2100547--2100675 Score: 141
Period size: 20 Copynumber: 6.5 Consensus size: 20
2100537 GTGATTCTCT
* **
2100547 CGTTCCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
* ** *
2100567 CATTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCATTTTCG
* *
2100587 CATTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
2100607 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
2100627 TGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
*
2100647 CGTTACGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
2100667 CGTTGCGAT
1 CGTTGCGAT
2100676 TTTAAGTTTC
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 94 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2101250 original size:21 final size:21
Alignment explanation
Indices: 2101159--2101257 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
2101149 GACTCACCTG
*
2101159 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCACTC
* * *
2101179 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
* ** *
2101201 TTATCCCTCAAGAGTCCACTC
1 TCATCGTTCAAGAGGCCACTC
* * *
2101222 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
*
2101243 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
2101258 TCCCTCCCAA
Statistics
Matches: 57, Mismatches: 20, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
20 1 0.02
21 56 0.98
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:2101256 original size:42 final size:41
Alignment explanation
Indices: 2101156--2101266 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 41
2101146 CCCGACTCAC
* * *
2101156 CTGTCATCGTTCAAGAG-GCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCCT-CCC-ACCGTTCAAGAGGCCA
* * **
2101198 CTATTATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCC-CTCCCACCGTTCAAGAGGCCA
*
2101240 CTGTCATCGTTGAAGAGGTCCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCTCCCA
2101267 ACATTCTAGA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 44 0.81
43 8 0.15
44 2 0.04
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGTCCCTCCCACCGTTCAAGAGGCCA
Found at i:2102873 original size:34 final size:33
Alignment explanation
Indices: 2102796--2102880 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
2102786 TCGCAGCGCG
** *
2102796 GAAATGACTATCGCAACGAGAGAATCGTAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
2102829 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
2102862 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
2102881 CGAAACTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.65
34 17 0.35
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:2102956 original size:33 final size:34
Alignment explanation
Indices: 2102895--2102970 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
2102885 ACTAAATTCG
*
2102895 CGTTGCGATTTTCATTTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
2102929 CGTTGCGATTTTTA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
2102962 CGTTGCGAT
1 CGTTGCGAT
2102971 AGACATTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:2102979 original size:33 final size:34
Alignment explanation
Indices: 2102914--2102990 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
2102904 TTTCATTTTT
****
2102914 GCATTGCGATTCTCTCGTTGCGATTTTTATTT-C
1 GCATTGCGATTCTCTCGTTGCGATAGACATTTCC
2102947 GCATTGCGATTCTCTCGTTGCGATAGACATTTCC
1 GCATTGCGATTCTCTCGTTGCGATAGACATTTCC
*
2102981 GCGTTGCGAT
1 GCATTGCGAT
2102991 AGACATTTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 28 0.74
34 10 0.26
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.40
Consensus pattern (34 bp):
GCATTGCGATTCTCTCGTTGCGATAGACATTTCC
Found at i:2102987 original size:20 final size:20
Alignment explanation
Indices: 2102962--2103075 Score: 149
Period size: 20 Copynumber: 5.7 Consensus size: 20
2102952 GCGATTCTCT
*
2102962 CGTTGCGATAGACATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2102982 CGTTGCGATAGACATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2103002 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
**
2103022 CGTTGCGATAGTCATTTCTA
1 CGTTGCGATAGTCATTTCCG
* *
2103042 TGTTGTGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
2103062 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
2103076 AATGAATGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 80 0.98
21 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2105524 original size:24 final size:24
Alignment explanation
Indices: 2105490--2105543 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2105480 CTAAAAAATC
2105490 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
2105514 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
2105538 ATCAAA
1 ATCAAA
2105544 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:2106429 original size:20 final size:20
Alignment explanation
Indices: 2106406--2106491 Score: 145
Period size: 20 Copynumber: 4.3 Consensus size: 20
2106396 CAGAATCTCG
**
2106406 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGCATTCGCA
2106426 TTGCGATTTACGCATTCGCA
1 TTGCGATTTACGCATTCGCA
2106446 TTGCGATTTACGCATTCGCA
1 TTGCGATTTACGCATTCGCA
*
2106466 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGCATTCGCA
2106486 TTGCGA
1 TTGCGA
2106492 ATTAGGAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGCATTCGCA
Found at i:2106512 original size:21 final size:21
Alignment explanation
Indices: 2106488--2106533 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2106478 TATTCGCATT
2106488 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
2106509 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
2106530 GCGA
1 GCGA
2106534 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2110737 original size:48 final size:47
Alignment explanation
Indices: 2110677--2110785 Score: 155
Period size: 48 Copynumber: 2.3 Consensus size: 47
2110667 ACTGAAACAG
2110677 TTTTTGAAAAATTAAATCTAAAAAATAAATTATATTTCTGAAAAATA
1 TTTTTGAAAAATTAAATCTAAAAAATAAATTATATTTCTGAAAAATA
** * *
2110724 TTTTCTGAAAAATTAAATCTGGAAAATGAATTATATTTCTGGAAAATA
1 TTTT-TGAAAAATTAAATCTAAAAAATAAATTATATTTCTGAAAAATA
2110772 TTTTTTAGAAAAAT
1 -TTTTT-GAAAAAT
2110786 ATTTTCTAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
47 4 0.07
48 40 0.73
49 11 0.20
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (47 bp):
TTTTTGAAAAATTAAATCTAAAAAATAAATTATATTTCTGAAAAATA
Found at i:2114481 original size:15 final size:15
Alignment explanation
Indices: 2114461--2114492 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2114451 GGAGGTCAAG
*
2114461 GAAGATGAAACGAGA
1 GAAGATGAAAAGAGA
2114476 GAAGATGAAAAGAGA
1 GAAGATGAAAAGAGA
2114491 GA
1 GA
2114493 TACCTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.34, T:0.06
Consensus pattern (15 bp):
GAAGATGAAAAGAGA
Found at i:2118876 original size:29 final size:28
Alignment explanation
Indices: 2118788--2118876 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 28
2118778 ATTTGGATTA
* *
2118788 TTCAAAAGTTTAGGGATTAATTTAGAAAGAG
1 TTCAAAAGTTTAAGGA-TAATTTA-AAA-TG
** * * *
2118819 GGCAATAGTTTAAGGATGAAATTAGAATG
1 TTCAAAAGTTTAAGGAT-AATTTAAAATG
2118848 TTCAAAAGTTTAAGGACTAATTTAAAATG
1 TTCAAAAGTTTAAGGA-TAATTTAAAATG
2118877 ATAGTTATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
29 23 0.52
30 4 0.09
31 17 0.39
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.31
Consensus pattern (28 bp):
TTCAAAAGTTTAAGGATAATTTAAAATG
Found at i:2118895 original size:60 final size:59
Alignment explanation
Indices: 2118831--2118953 Score: 165
Period size: 60 Copynumber: 2.1 Consensus size: 59
2118821 CAATAGTTTA
* * * * * * *
2118831 AGGATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAAAATGATAGTTATAATTT
1 AGGATGAAATTAAAATATTCAAAAATTAAAGAACCAATTTAAAATGAGAGTTATAATTT
*
2118890 GAGGATGAAATTAAAATATTCAAAAATTAAAGAACCAATTTAAAATGAGAGTTATAGTTT
1 -AGGATGAAATTAAAATATTCAAAAATTAAAGAACCAATTTAAAATGAGAGTTATAATTT
2118950 AGGA
1 AGGA
2118954 ACATAAGTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (59 bp):
AGGATGAAATTAAAATATTCAAAAATTAAAGAACCAATTTAAAATGAGAGTTATAATTT
Found at i:2119061 original size:20 final size:20
Alignment explanation
Indices: 2119036--2119095 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
2119026 CTGTAAATCG
*
2119036 CAACACAGAAGTCAAATTCA
1 CAACACAAAAGTCAAATTCA
*
2119056 CAACACAAAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCA
**
2119076 CAACACGAAATTTCAAATTC
1 CAACAC-AAAAGTCAAATTC
2119096 GCAAATGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 24 0.69
21 11 0.31
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.18
Consensus pattern (20 bp):
CAACACAAAAGTCAAATTCA
Found at i:2119108 original size:19 final size:21
Alignment explanation
Indices: 2119047--2119119 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 21
2119037 AACACAGAAG
* **
2119047 TCAAATTCACAACAC-AAAAG
1 TCAAATTCGCAACACGAAATT
2119067 TCAAATTCGCAACACGAAATT
1 TCAAATTCGCAACACGAAATT
*
2119088 TCAAATTCGCAA-ATG-AATT
1 TCAAATTCGCAACACGAAATT
*
2119107 TCAAATTCCCAAC
1 TCAAATTCGCAAC
2119120 TAGATTTTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 15 0.33
20 16 0.35
21 15 0.33
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (21 bp):
TCAAATTCGCAACACGAAATT
Found at i:2124319 original size:20 final size:20
Alignment explanation
Indices: 2124258--2124308 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2124248 GAAACTAAAA
2124258 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
2124278 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
*
2124298 TCGTGTTGCGA
1 TCGCGTTGCGA
2124309 ATTTAAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.47
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTT
Found at i:2124844 original size:20 final size:20
Alignment explanation
Indices: 2124819--2125065 Score: 202
Period size: 20 Copynumber: 12.3 Consensus size: 20
2124809 GAAATTCCGC
*
2124819 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATTGT
* *
2124839 GTTGCGAATTTGGCTATCGT
1 GTTGCGAATTTGACTATTGT
2124859 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTAT-TGT
* * *
2124879 ATTGCG-ATTT-ACAAATTCGC
1 GTTGCGAATTTGAC-TATT-GT
***
2124899 GTTGCGAATTTGACTATCCC
1 GTTGCGAATTTGACTATTGT
2124919 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTAT-TGT
**
2124939 GTTGC-AATTT-AC-AAAGT
1 GTTGCGAATTTGACTATTGT
* *
2124956 CACGTTGCGAATTTGACTATCGC
1 ---GTTGCGAATTTGACTATTGT
* * *
2124979 GTTGCAAATTTGACTATCGC
1 GTTGCGAATTTGACTATTGT
* *
2124999 GTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTATTGT
*
2125019 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATTGT
*
2125039 GTTGCGAATTTGACTATTGC
1 GTTGCGAATTTGACTATTGT
2125059 GTTGCGA
1 GTTGCGA
2125066 TTTACAGATT
Statistics
Matches: 186, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
17 2 0.01
18 4 0.02
19 12 0.06
20 151 0.81
21 11 0.06
22 4 0.02
23 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTATTGT
Found at i:2124904 original size:60 final size:60
Alignment explanation
Indices: 2124839--2124993 Score: 238
Period size: 60 Copynumber: 2.6 Consensus size: 60
2124829 TGACTTTTGT
* * * * *
2124839 GTTGCGAATTTGGCTATCGTGTTGCGAATTTGACTTCTGTATTGCGATTTACAAATTCGC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTATTGCAATTTACAAAGTCAC
* *
2124899 GTTGCGAATTTGACTATCCCGTTGCGAATTTGACTTCTGTGTTGCAATTTACAAAGTCAC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTATTGCAATTTACAAAGTCAC
*
2124959 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT
2124994 ATCGCGTTGC
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 86 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (60 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTATTGCAATTTACAAAGTCAC
Found at i:2125003 original size:60 final size:59
Alignment explanation
Indices: 2124839--2125071 Score: 231
Period size: 60 Copynumber: 3.9 Consensus size: 59
2124829 TGACTTTTGT
* * ** * *
2124839 GTTGCGAATTTGGCTATCGTGTTGCGAATTTGACTTCTGTATTGCGATTTACAAATTCGC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGCGTTGCAATTTACAAAGTC-C
* *
2124899 GTTGCGAATTTGACTATCCCGTTGCGAATTTGACTTCTGTGTTGCAATTTACAAAGTCAC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGCGTTGCAATTTACAAAGTC-C
* ***
2124959 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTATC-GCGTTGCAAATTTGACTTTTGT--
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGCGTTGC-AATTT-AC-AAAGTCC
* * * *
2125019 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTAT-TGCGTTGCGATTTACA
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGCGTTGCAATTTACA
2125072 GATTCGCAAC
Statistics
Matches: 149, Mismatches: 19, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
58 2 0.01
59 4 0.03
60 132 0.89
61 7 0.05
62 2 0.01
63 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (59 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGCGTTGCAATTTACAAAGTCC
Found at i:2125163 original size:20 final size:19
Alignment explanation
Indices: 2125116--2125165 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2125106 ATTTACATAT
2125116 TCGCGTTGCGAAATTGAAA
1 TCGCGTTGCGAAATTGAAA
* * *
2125135 ACTGGGTTGCGAAATTTGAGA
1 TC-GCGTTGCGAAA-TTGAAA
2125156 TCGCGTTGCG
1 TCGCGTTGCG
2125166 GATTTGTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.04
20 17 0.71
21 6 0.25
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (19 bp):
TCGCGTTGCGAAATTGAAA
Found at i:2133207 original size:2 final size:2
Alignment explanation
Indices: 2133194--2133235 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2133184 ACAAATCATA
*
2133194 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2133236 TTAAAAAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2133558 original size:21 final size:21
Alignment explanation
Indices: 2133534--2133586 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
2133524 TTTTTCCAAT
2133534 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGAATTTGAAAAA
2133555 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGAATTTGAAAAA
2133576 TCGCAATGCGA
1 TCGCAATGCGA
2133587 TACTGACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTGAAAAA
Found at i:2133630 original size:21 final size:21
Alignment explanation
Indices: 2133606--2133662 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
2133596 TCGCAATGCA
*
2133606 ATTTTCCTAATTCGCATTACG
1 ATTTTCATAATTCGCATTACG
* * *
2133627 ATTTACAT-ATTCGCGTTGCG
1 ATTTTCATAATTCGCATTACG
2133647 ATTTTCATAATTCGCA
1 ATTTTCATAATTCGCA
2133663 ATGCGAATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (21 bp):
ATTTTCATAATTCGCATTACG
Found at i:2133667 original size:21 final size:21
Alignment explanation
Indices: 2133492--2133668 Score: 85
Period size: 21 Copynumber: 8.5 Consensus size: 21
2133482 ATTATTACTA
* *
2133492 TCGCAATACGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
** *
2133513 TCGCGTTGCGATTTTTC-CAAT
1 TCGCAATGCGA-TTTTCATAAT
* * * *
2133534 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGATTTTCATAAT
* * * *
2133555 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGATTTTCATAAT
** *
2133576 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGATTTTCA-TAAT
* *
2133596 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
2133617 TCGCATTACGATTTACAT-AT
1 TCGCAATGCGATTTTCATAAT
**
2133637 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
2133658 TCGCAATGCGA
1 TCGCAATGCGA
2133669 ATACGTAAAT
Statistics
Matches: 120, Mismatches: 29, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
19 1 0.01
20 33 0.28
21 82 0.68
22 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Done.