Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009065.1 Hibiscus syriacus cultivar Beakdansim tig00112488_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: 1198333
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:517904 original size:19 final size:19
Alignment explanation
Indices: 517873--517969 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
517863 GATTCTCTCG
517873 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
517893 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
517911 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
517925 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
517944 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
517963 TTGCGAT
1 TTGCGAT
517970 AGTCAATTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
18 10 0.14
19 34 0.49
20 6 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:517920 original size:52 final size:52
Alignment explanation
Indices: 517854--517969 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
517844 GAAATGAAAA
517854 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
517906 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
517958 TCGCATTGCGAT
1 TCGCATTGCGAT
517970 AGTCAATTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 10 0.16
52 53 0.84
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:518083 original size:19 final size:19
Alignment explanation
Indices: 518027--518193 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
518017 CCATTACATT
518027 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
518047 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
518061 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
518080 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
518099 TCGCAA---G--A-GAGAA
1 TCGCAATGCGAAATGAAAA
518112 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
518131 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
518150 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
518164 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
518183 TCGCATTGCGA
1 TCGCAATGCGA
518194 TTCTCCCATT
Statistics
Matches: 123, Mismatches: 8, Indels: 33
0.75 0.05 0.20
Matches are distributed among these distances:
13 10 0.08
14 21 0.17
15 2 0.02
16 6 0.05
17 3 0.02
18 4 0.03
19 71 0.58
20 6 0.05
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:518120 original size:51 final size:52
Alignment explanation
Indices: 518027--518193 Score: 300
Period size: 51 Copynumber: 3.2 Consensus size: 52
518017 CCATTACATT
518027 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
518080 TCGCAATGCGAAATGAAAATCGCAA-GAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
518131 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
518183 TCGCATTGCGA
1 TCGCAATGCGA
518194 TTCTCCCATT
Statistics
Matches: 111, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
51 51 0.46
52 51 0.46
53 9 0.08
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:518242 original size:19 final size:19
Alignment explanation
Indices: 518200--518299 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
518190 GCGATTCTCC
518200 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
518220 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
518239 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
518255 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
518272 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
518291 CATTGCGAT
1 CATTGCGAT
518300 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:518296 original size:52 final size:53
Alignment explanation
Indices: 518183--518299 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
518173 GAAATTAAAA
518183 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
518236 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
518288 TCGCATTGCGAT
1 TCGCATTGCGAT
518300 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:518417 original size:18 final size:19
Alignment explanation
Indices: 518359--518464 Score: 90
Period size: 19 Copynumber: 6.1 Consensus size: 19
518349 CCATTACATT
518359 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
518379 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
518393 TCACAATGC-AAATGAAAA
1 TCGCAATGCGAAATGAAAA
518411 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
518430 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
518444 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
518463 TC
1 TC
518465 ACATTGCGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
14 19 0.28
15 2 0.03
16 3 0.04
17 4 0.06
18 14 0.21
19 20 0.29
20 6 0.09
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:518417 original size:280 final size:272
Alignment explanation
Indices: 518080--518633 Score: 993
Period size: 280 Copynumber: 2.0 Consensus size: 272
518070 GAAATGAAAA
*
518080 TCGCAATGCGAAATGAAAATCGCAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1 TCGCAATGCGAAATGAAAATCGCAAGAGAGAATCACAATGCGAAATGAAAATCGCAATGCGAAAT
*
518145 GAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGATTCTCCCATTGCGATT
66 GAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCACATTGCGATTCTCCCATTGCGATT
518210 TTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
131 TTCATTTCCGCATTGCGATTTTCATTTCGCA-TGCGATTCTCTCGTTGCGATTTTCA-TTCGCAT
518275 TGCGATTTTCATTTCGCATTGCGATAGTCAATTTTTGCCTTCAACATAATGCAGATTGAAATCAA
194 TGCGATTTTCATTTCGCATTGCGATAGTCAA-TTTTGCCTT---CATAATGCAGATTGAAATCAA
518340 CAAAATCAACCATTACATT
255 CAAAATCAACCATTAC-TT
518359 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATGC-AAATGAAAATCGCAATGCGAA
1 TCGCAATGC-GAAATGAAAATCGCAA-GAGAGAATCACAATGCGAAATGAAAATCGCAATGCGAA
518423 ATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCACATTGCGATTCTCCCATTGCGA
64 ATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCACATTGCGATTCTCCCATTGCGA
*
518488 TTTTCATTTCCGTATTGCGATTTTCATTTCGCATGCGATTCTCTCGTTGCGATTTTCATTCGCAT
129 TTTTCATTTCCGCATTGCGATTTTCATTTCGCATGCGATTCTCTCGTTGCGATTTTCATTCGCAT
518553 TGCGATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCATAATGCAGATTGAAATCAACAAA
194 TGCGATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCATAATGCAGATTGAAATCAACAAA
518618 ATCAACCATTACTT
259 ATCAACCATTACTT
518632 TC
1 TC
518634 AATCAATTAA
Statistics
Matches: 270, Mismatches: 3, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
273 4 0.01
274 37 0.14
277 9 0.03
278 38 0.14
279 34 0.13
280 133 0.49
281 15 0.06
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (272 bp):
TCGCAATGCGAAATGAAAATCGCAAGAGAGAATCACAATGCGAAATGAAAATCGCAATGCGAAAT
GAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCACATTGCGATTCTCCCATTGCGATT
TTCATTTCCGCATTGCGATTTTCATTTCGCATGCGATTCTCTCGTTGCGATTTTCATTCGCATTG
CGATTTTCATTTCGCATTGCGATAGTCAATTTTGCCTTCATAATGCAGATTGAAATCAACAAAAT
CAACCATTACTT
Found at i:518429 original size:51 final size:52
Alignment explanation
Indices: 518359--518473 Score: 178
Period size: 51 Copynumber: 2.2 Consensus size: 52
518349 CCATTACATT
518359 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATGC-AAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAA
* *
518411 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAA
* *
518463 TCACATTGCGA
1 TCGCAATGCGA
518474 TTCTCCCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 32 0.55
52 26 0.45
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAA
Found at i:518526 original size:18 final size:19
Alignment explanation
Indices: 518480--518577 Score: 120
Period size: 18 Copynumber: 5.5 Consensus size: 19
518470 GCGATTCTCC
518480 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
*
518500 TATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
518519 CA-TGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
518534 --TTGCGATTTTCA-TTCG
1 CATTGCGATTTTCATTTCG
518550 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
518569 CATTGCGAT
1 CATTGCGAT
518578 AGTCAATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
14 5 0.07
15 4 0.06
16 9 0.13
18 17 0.25
19 16 0.24
20 16 0.24
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:518538 original size:52 final size:51
Alignment explanation
Indices: 518466--518577 Score: 172
Period size: 52 Copynumber: 2.2 Consensus size: 51
518456 ATTAAAATCA
*
518466 CATTGCGATTCTCCCATTGCGATTTTCATTTCCGTATTGCGATTTTCATTTCG
1 CATTGCGATTCTCCCATTGCGATTTTCA-TT-CGCATTGCGATTTTCATTTCG
* *
518519 CA-TGCGATTCTCTCGTTGCGATTTTCATTCGCATTGCGATTTTCATTTCG
1 CATTGCGATTCTCCCATTGCGATTTTCATTCGCATTGCGATTTTCATTTCG
518569 CATTGCGAT
1 CATTGCGAT
518578 AGTCAATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
50 22 0.40
51 8 0.15
52 23 0.42
53 2 0.04
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (51 bp):
CATTGCGATTCTCCCATTGCGATTTTCATTCGCATTGCGATTTTCATTTCG
Found at i:518547 original size:332 final size:330
Alignment explanation
Indices: 517821--518473 Score: 1170
Period size: 332 Copynumber: 2.0 Consensus size: 330
517811 CGGAAATTAC
*
517821 AATCGCAACG--AGAATCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTC
1 AATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCATTGCGATTCTCTCGTTGCGATTTTC
517884 ATTTCCGCATTGCGA-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
66 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
517948 GATTTTCATTTCGCATTGCGATAGTCAATTTGCCTTCAACATAATGCAGATTGAAATCAACAAAA
131 GATTTTCATTTCGCATTGCGATAGTCAATTTGCCTTCAACATAATGCAGATTGAAATCAACAAAA
*
518013 TCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
196 TCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAA
*
518078 AATCGCAATGCGAAATGAAAATCGCAAGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
261 AATCGCAATGCGAAATGAAAATCGCAAGAGAGAATCGCAATGCGAAATGAAAATCACAATGCGAA
*
518143 ATGAA
326 ATCAA
* * *
518148 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGATTCTCCCATTGCGATTTTC
1 AATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCATTGCGATTCTCTCGTTGCGATTTTC
518213 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
66 ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
518278 GATTTTCATTTCGCATTGCGATAGTCAATTTTTGCCTTCAACATAATGCAGATTGAAATCAACAA
131 GATTTTCATTTCGCATTGCGATAGTCAA--TTTGCCTTCAACATAATGCAGATTGAAATCAACAA
518343 AATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATGC-AAATG
194 AATCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATG
* *
518407 AAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCACATTGC
259 AAAATCGCAATGCGAAATGAAAATCGCAA-GAGAGAATCGCAATGCGAAATGAAAATCACAATGC
518472 GA
323 GA
518474 TTCTCCCATT
Statistics
Matches: 313, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
327 10 0.03
329 65 0.21
330 77 0.25
331 34 0.11
332 127 0.41
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (330 bp):
AATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCATTGCGATTCTCTCGTTGCGATTTTC
ATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
GATTTTCATTTCGCATTGCGATAGTCAATTTGCCTTCAACATAATGCAGATTGAAATCAACAAAA
TCAACCATTACATTTCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAA
AATCGCAATGCGAAATGAAAATCGCAAGAGAGAATCGCAATGCGAAATGAAAATCACAATGCGAA
ATCAA
Found at i:518697 original size:14 final size:15
Alignment explanation
Indices: 518678--518715 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
518668 CATCAATTAC
518678 ACAAATCAA-CTTTT
1 ACAAATCAATCTTTT
518692 ACAAAT-AATCTTTT
1 ACAAATCAATCTTTT
518706 ACAAATCAAT
1 ACAAATCAAT
518716 TAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCTTTT
Found at i:520685 original size:14 final size:14
Alignment explanation
Indices: 520666--520722 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
520656 GCGAAATGAA
*
520666 AATCGCAACGACAG
1 AATCGCAACGAAAG
520680 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
520697 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
520713 AATCGCAACG
1 AATCGCAACG
520723 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:520693 original size:33 final size:33
Alignment explanation
Indices: 520647--520739 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
520637 GCGAAACCAA
*
520647 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
520680 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
520713 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
520740 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:520704 original size:19 final size:19
Alignment explanation
Indices: 520610--520744 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
520600 TAGTTTACTT
* *
520610 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
520630 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
520649 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
520668 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
520682 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
520701 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
520715 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
520734 TCGCAATGCGA
1 TCGCAACGCGA
520745 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:520762 original size:19 final size:19
Alignment explanation
Indices: 520740--520868 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
520730 AAAATCGCAA
520740 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
520759 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
520773 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
520792 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
520806 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
520825 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
520844 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
520864 TGCGA
1 TGCGA
520869 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:520782 original size:33 final size:33
Alignment explanation
Indices: 520740--520831 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
520730 AAAATCGCAA
520740 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
520773 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
520806 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
520832 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:521268 original size:91 final size:92
Alignment explanation
Indices: 520911--521375 Score: 843
Period size: 90 Copynumber: 5.1 Consensus size: 92
520901 TTGAATGGAT
520911 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
520975 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
521003 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
521068 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
521096 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTATAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
521161 GTTTAGCAGAA-TGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
521187 AAATTTACTTTC-ACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
521251 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
521278 -AATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTC-CAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
521341 GTTTAGCAGAATTGGCAGCAACCGAA-
66 GTTTAGCAGAATTGGCAGCAACCGAAC
*
521367 TAATTTACT
1 AAATTTACT
521376 AAGCAATCTA
Statistics
Matches: 367, Mismatches: 2, Indels: 10
0.97 0.01 0.03
Matches are distributed among these distances:
90 126 0.34
91 74 0.20
92 94 0.26
93 73 0.20
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:523088 original size:14 final size:14
Alignment explanation
Indices: 523069--523158 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
523059 TTGAAATGAA
523069 AATCGCAACGAGAG
1 AATCGCAACGAGAG
523083 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
523100 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
523116 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
523135 AATCGCAACGAGAG
1 AATCGCAACGAGAG
523149 AATCGCAACG
1 AATCGCAACG
523159 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:523106 original size:33 final size:33
Alignment explanation
Indices: 523061--523175 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
523051 TCTTTTGGTT
523061 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
523094 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
523127 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
523160 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
523176 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:523107 original size:19 final size:18
Alignment explanation
Indices: 523068--523180 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
523058 GTTGAAATGA
523068 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
523083 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
523100 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
523116 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
523133 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
523149 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
523166 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
523181 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:523211 original size:14 final size:14
Alignment explanation
Indices: 523192--523246 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 14
523182 TTTGGTTTCG
523192 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
523206 CGTTGCGATTTCATTCG
1 CGTTGCGA-TTC--TCT
523223 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
523237 CGTTGCGATT
1 CGTTGCGATT
523247 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
16 3 0.08
17 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:523226 original size:31 final size:32
Alignment explanation
Indices: 523188--523252 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 32
523178 CGATTTTGGT
523188 TTCGCGTTGCGATTCTCTCGTTGCGA-TTTCA
1 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
523219 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
523251 TT
1 TT
523253 TCTCTCGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.45
Consensus pattern (32 bp):
TTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:523280 original size:41 final size:41
Alignment explanation
Indices: 523230--523307 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
523220 TCGCGTTGCG
*
523230 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
523271 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
523308 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:523292 original size:20 final size:21
Alignment explanation
Indices: 523231--523306 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
523221 CGCGTTGCGA
523231 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
523252 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
523272 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
523293 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
523307 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:523433 original size:33 final size:33
Alignment explanation
Indices: 523386--523456 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
523376 AATACTAACT
* *
523386 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
523419 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
523452 TGAAA
1 TGAAA
523457 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:523689 original size:22 final size:22
Alignment explanation
Indices: 523637--523691 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
523627 TGGTTGTGAG
**
523637 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
523659 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
523681 GGATTTCTTCG
1 GGATTTCTTCG
523692 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:524023 original size:60 final size:60
Alignment explanation
Indices: 523836--524029 Score: 262
Period size: 60 Copynumber: 3.2 Consensus size: 60
523826 CTTTAAATAT
**
523836 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * ** *
523897 CGCGTTGCGATATACGGATACGCATTGCGATTTACCTATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
523957 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
524017 CGCGTTGCGATTT
1 CGCGTTGCGATTT
524030 TGGAAAATCG
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 86 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:524030 original size:20 final size:20
Alignment explanation
Indices: 523836--524029 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
523826 CTTTAAATAT
523836 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
523856 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
523878 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
523897 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
523917 CGCATTGCGATTTACCTATA
1 CGCGTTGCGATTTACGGATA
523937 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
523957 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
523977 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
523997 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
524017 CGCGTTGCGATTT
1 CGCGTTGCGATTT
524030 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:524046 original size:21 final size:21
Alignment explanation
Indices: 524016--524098 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
524006 ATTTTCATAT
*
524016 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
524037 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
524058 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
524079 TCGCGTTGCTATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
524099 CTGATTTGCG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:524662 original size:22 final size:22
Alignment explanation
Indices: 524637--524678 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
524627 ACGCGCGCGC
* *
524637 GTGTCTGTGTGTATGTATGTCT
1 GTGTCTCTATGTATGTATGTCT
524659 GTGTCTCTATGTATGTATGT
1 GTGTCTCTATGTATGTATGT
524679 ATGTTTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.29, T:0.50
Consensus pattern (22 bp):
GTGTCTCTATGTATGTATGTCT
Found at i:526591 original size:18 final size:18
Alignment explanation
Indices: 526517--526597 Score: 57
Period size: 18 Copynumber: 4.8 Consensus size: 18
526507 CAGAAAACAC
* *
526517 GTTGCAACTT-AAGATGG
1 GTTGCAACTTAAAAATAG
*
526534 GGTGCAAC-TAGAAAATAG
1 GTTGCAACTTA-AAAATAG
* *
526552 GATGCAA-TTCAAAAT--
1 GTTGCAACTTAAAAATAG
526567 G-TGCAACTTAAAAATAG
1 GTTGCAACTTAAAAATAG
*
526584 GTTGCAACATAAAA
1 GTTGCAACTTAAAA
526598 TAAAAAGGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.10
15 8 0.16
16 1 0.02
17 13 0.26
18 23 0.46
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (18 bp):
GTTGCAACTTAAAAATAG
Found at i:526598 original size:32 final size:32
Alignment explanation
Indices: 526535--526598 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
526525 TTAAGATGGG
*
526535 GTGCAACTAGAAAATAGGATGCAATTCAAAAT
1 GTGCAACTAGAAAATAGGATGCAAATCAAAAT
*
526567 GTGCAACTTA-AAAATAGGTTGCAACAT-AAAAT
1 GTGCAAC-TAGAAAATAGGATGCAA-ATCAAAAT
526599 AAAAAGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (32 bp):
GTGCAACTAGAAAATAGGATGCAAATCAAAAT
Found at i:540085 original size:21 final size:20
Alignment explanation
Indices: 540041--540081 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
540031 TGCATCAAGG
*
540041 TCTTTGTGGAGGCCATGAAA
1 TCTTTGTCGAGGCCATGAAA
540061 TCTTTCGTCGAGGCCAT-AAA
1 TCTTT-GTCGAGGCCATGAAA
540081 T
1 T
540082 TCTTGCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (20 bp):
TCTTTGTCGAGGCCATGAAA
Found at i:544363 original size:21 final size:20
Alignment explanation
Indices: 544339--544386 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
544329 TAGGTTTGCA
544339 CCGAAGTGCCACATAATTGTC
1 CCGAAG-GCCACATAATTGTC
*
544360 CCGAAGGACCATATAATTGTC
1 CCGAAGG-CCACATAATTGTC
544381 CCGAAG
1 CCGAAG
544387 AACCACATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (20 bp):
CCGAAGGCCACATAATTGTC
Found at i:544391 original size:21 final size:21
Alignment explanation
Indices: 544351--544391 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
544341 GAAGTGCCAC
*
544351 ATAATTGTCCCGAAGGACCAT
1 ATAATTGTCCCGAAGAACCAT
544372 ATAATTGTCCCGAAGAACCA
1 ATAATTGTCCCGAAGAACCA
544392 CATAGAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (21 bp):
ATAATTGTCCCGAAGAACCAT
Found at i:559049 original size:2 final size:2
Alignment explanation
Indices: 559042--559107 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
559032 TTAAAATTAA
559042 AT AT AT 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
559084 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
559108 CTTAAATTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:561929 original size:22 final size:22
Alignment explanation
Indices: 561903--561969 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 22
561893 ATATGAAATT
*
561903 TGTCCCGAATGGCCACTATATA
1 TGTCCCGAATGGCCACTGTATA
561925 TGTCCCGAA-GGACCACTGTATA
1 TGTCCCGAATGG-CCACTGTATA
*
561947 TGTCCCGAATGACCACTGTATA
1 TGTCCCGAATGGCCACTGTATA
561969 T
1 T
561970 CCCTAGACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.05
22 38 0.93
23 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (22 bp):
TGTCCCGAATGGCCACTGTATA
Found at i:562766 original size:24 final size:24
Alignment explanation
Indices: 562731--562787 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
562721 TCTACAGTGT
*
562731 ATCGATGCATCCCTCAACATGTGC
1 ATCGATGCATCCCTCAACATGTAC
*
562755 ATTGATGCATCCCTCAACATGTAC
1 ATCGATGCATCCCTCAACATGTAC
562779 ATCGATGCA
1 ATCGATGCA
562788 CTACGCATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (24 bp):
ATCGATGCATCCCTCAACATGTAC
Found at i:597288 original size:38 final size:39
Alignment explanation
Indices: 597215--597289 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 39
597205 TATCTAAAGT
* * * *
597215 TTAGTTTTTGTTTTATTTTAGTATCTCACCATTAAAAAC
1 TTAGTTTTCGTTTCATTTTAGTACCCCACCATTAAAAAC
*
597254 TTAGTTTTCG-TTCATTTTAGTACCCCA-CATTTAAAA
1 TTAGTTTTCGTTTCATTTTAGTACCCCACCATTAAAAA
597290 TTTAACGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 8 0.26
38 14 0.45
39 9 0.29
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (39 bp):
TTAGTTTTCGTTTCATTTTAGTACCCCACCATTAAAAAC
Found at i:616640 original size:2 final size:2
Alignment explanation
Indices: 616633--616658 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
616623 TTTTATTCAA
616633 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
616659 CAAATTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:623555 original size:5 final size:5
Alignment explanation
Indices: 623545--623652 Score: 202
Period size: 5 Copynumber: 22.0 Consensus size: 5
623535 CTACAAAAAC
623545 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
623595 ATTAT ATTAT ATTAT ATTAT ATTAT A-T-T ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
623643 ATTAT ATTAT
1 ATTAT ATTAT
623653 TAATTCATAT
Statistics
Matches: 101, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 97 0.96
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:624095 original size:3 final size:3
Alignment explanation
Indices: 624087--624154 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
624077 GCTTAAAAAA
624087 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
624135 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
624155 ACTATAATAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:625613 original size:12 final size:13
Alignment explanation
Indices: 625591--625619 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
625581 ATGATCGAAT
625591 TTTTAAATTTTAA
1 TTTTAAATTTTAA
625604 TTTT-AATTTTAA
1 TTTTAAATTTTAA
625616 TTTT
1 TTTT
625620 CACAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:626331 original size:25 final size:25
Alignment explanation
Indices: 626297--626346 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
626287 AAGGAGATTA
626297 GAATCTTAATCATGGAACTTTTATC
1 GAATCTTAATCATGGAACTTTTATC
626322 GAATCTTAATCATGGAACTTTTATC
1 GAATCTTAATCATGGAACTTTTATC
626347 AGATTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (25 bp):
GAATCTTAATCATGGAACTTTTATC
Found at i:626936 original size:5 final size:5
Alignment explanation
Indices: 626891--626925 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
626881 CTACAAAAAC
626891 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
626926 TATTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:627466 original size:14 final size:14
Alignment explanation
Indices: 627444--627479 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
627434 CCCAAATGAG
627444 GCCCAATTGTCCGA
1 GCCCAATTGTCCGA
* *
627458 GCTCAATTGTTCGA
1 GCCCAATTGTCCGA
627472 GCCCAATT
1 GCCCAATT
627480 ACATGAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (14 bp):
GCCCAATTGTCCGA
Found at i:628906 original size:13 final size:13
Alignment explanation
Indices: 628888--628917 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
628878 ATGATCGAAT
628888 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
628901 TTTTAATTTTTAA
1 TTTTAAATTTTAA
628914 TTTT
1 TTTT
628918 CACAATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:629856 original size:26 final size:26
Alignment explanation
Indices: 629827--629911 Score: 61
Period size: 26 Copynumber: 3.3 Consensus size: 26
629817 GTAGGACTTT
629827 TTATTTTCATTATTTTTTTATTATCC
1 TTATTTTCATTATTTTTTTATTATCC
* * *
629853 TTA-TCTCACTAATTTTGTTT-TTCTCC
1 TTATTTTCA-TTATTTT-TTTATTATCC
* *
629879 TTTCATTTTCCTT-TTTTTTTATTATTC
1 -TT-ATTTTCATTATTTTTTTATTATCC
629906 -TATTTT
1 TTATTTT
629912 ATCATTTACA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 17 0.38
27 13 0.29
28 2 0.04
29 3 0.07
ACGTcount: A:0.15, C:0.15, G:0.01, T:0.68
Consensus pattern (26 bp):
TTATTTTCATTATTTTTTTATTATCC
Found at i:631696 original size:21 final size:21
Alignment explanation
Indices: 631670--631712 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
631660 ATTCTGGGTT
* *
631670 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
631691 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
631712 A
1 A
631713 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:631785 original size:65 final size:67
Alignment explanation
Indices: 631692--631840 Score: 203
Period size: 66 Copynumber: 2.3 Consensus size: 67
631682 ACCCATTCAA
* * *
631692 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGAATCGGTACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGAATCGATACCCCCAG
631755 GG
66 GG
* * * * *
631757 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGAATCGATACCCCTAG
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGAATCGATACCCCCAG
631822 GG
66 GG
*
631824 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
631841 ATGAGAAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 26 0.36
66 29 0.40
67 18 0.25
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGAATCGATACCCCCAG
GG
Found at i:632177 original size:29 final size:29
Alignment explanation
Indices: 632143--632214 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
632133 CATATTATGA
*
632143 TACATGACATGAAGTT-GTATTAAAGGTAT
1 TACATGACATGAA-TTCATATTAAAGGTAT
* *
632172 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAAGGTAT
632201 TACATGACATGAAT
1 TACATGACATGAAT
632215 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAAGGTAT
Found at i:632271 original size:30 final size:31
Alignment explanation
Indices: 632229--632288 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
632219 AGAAAACGTT
*
632229 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGAAAATG
*
632260 ATATGC-CTATGTGTTAAAGGTATGAAAAT
1 ATATGCACTATGTGATAAAGGTATGAAAAT
632289 ACTATGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGAAAATG
Found at i:632582 original size:22 final size:22
Alignment explanation
Indices: 632508--632574 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
632498 TTATGGACAT
632508 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
632530 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
632552 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
632574 A
1 A
632575 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:638634 original size:21 final size:21
Alignment explanation
Indices: 638608--638650 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
638598 ATTCTGGGTT
* *
638608 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
638629 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
638650 A
1 A
638651 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:638724 original size:66 final size:67
Alignment explanation
Indices: 638608--638781 Score: 199
Period size: 67 Copynumber: 2.6 Consensus size: 67
638598 ATTCTGGGTT
* * * *
638608 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATG
638671 CTAG
64 CTAG
* * *
638675 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCT
*
638740 TG
66 AG
* * *
638742 AGGGGAATCGATACCCCTAGGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCA--GGGGGGAACCGATACCCCC
638782 ATGAGAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
65 2 0.02
66 26 0.28
67 46 0.50
69 18 0.20
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.19
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCT
AG
Found at i:639118 original size:29 final size:29
Alignment explanation
Indices: 639084--639155 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
639074 CATATTATGA
*
639084 TACATGACATGAAGTT-GTATTAAAGGTAT
1 TACATGACATGAA-TTCATATTAAAGGTAT
* *
639113 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAAGGTAT
639142 TACATGACATGAAT
1 TACATGACATGAAT
639156 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAAGGTAT
Found at i:639212 original size:30 final size:31
Alignment explanation
Indices: 639170--639229 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
639160 AGAAAACGTT
*
639170 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGAAAATG
*
639201 ATATGC-CTATGTGTTAAAGGTATGAAAAT
1 ATATGCACTATGTGATAAAGGTATGAAAAT
639230 ACTATGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGAAAATG
Found at i:639523 original size:22 final size:22
Alignment explanation
Indices: 639449--639515 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
639439 TTATGGACAT
639449 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
639471 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
639493 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
639515 A
1 A
639516 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:645750 original size:64 final size:63
Alignment explanation
Indices: 645665--645825 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
645655 TTGTTTAAGG
* * * *
645665 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAAGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAAGATTTA
* * * *
645729 TGCATCGATGCATAAGGAGTGCATCGATTCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAAGATTTA
*
645793 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
645826 ACCTTCATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 60 0.72
65 21 0.25
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAAGATTTA
Found at i:646427 original size:17 final size:19
Alignment explanation
Indices: 646405--646442 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
646395 GATTTACATG
646405 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
646422 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
646441 AA
1 AA
646443 GATATATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:646668 original size:31 final size:31
Alignment explanation
Indices: 646574--646681 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
646564 AGTCGAGGGT
* *
646574 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
646605 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
646636 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
646667 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
646682 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:646688 original size:30 final size:30
Alignment explanation
Indices: 646596--646702 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 30
646586 TTTCGAGACA
* * * *
646596 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
646627 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
646658 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
646688 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
646703 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 29 0.46
31 30 0.48
32 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:650031 original size:65 final size:65
Alignment explanation
Indices: 649871--650031 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
649861 TTGTTTAAGG
* * * **
649871 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
649934 A
65 A
*
649935 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
649999 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
650032 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:650820 original size:31 final size:32
Alignment explanation
Indices: 650782--650873 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 32
650772 TCGAGGGTTT
650782 TACCTATG-TCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTTTCGAGACATATGGACAGTA
*** *
650813 TACCTATGTTCTAAGGA-ACATATGGACAGTT
1 TACCTATGTTCTTTCGAGACATATGGACAGTA
* * *
650844 TACCTAGGTTCTTTTG-GACCTATGGACAGT
1 TACCTATGTTCTTTCGAGACATATGGACAGT
650874 TGCCGAGGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
31 45 0.90
32 5 0.10
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (32 bp):
TACCTATGTTCTTTCGAGACATATGGACAGTA
Found at i:650874 original size:31 final size:31
Alignment explanation
Indices: 650780--650887 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
650770 AGTCGAGGGT
* *
650780 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTTTG-GACATATGGACAG
* * **
650811 TATACCTATGTTC-TAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTTGG-ACATATGGACAG
*
650842 TTTACCTAGGTTCTTTTGGACCTATGGACAG
1 TTTACCTAGGTTCTTTTGGACATATGGACAG
* *
650873 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
650888 ATGACCTCTG
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
30 14 0.22
31 45 0.70
32 5 0.08
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTTGGACATATGGACAG
Found at i:650885 original size:30 final size:30
Alignment explanation
Indices: 650833--650908 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
650823 CTAAGGAACA
*
650833 TATGGACAGTTTACCTAGGTTCTTT-TGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAT-GACC
*
650864 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTATGACC
* *
650894 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
650909 GGGTCTGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTATGACC
Found at i:652495 original size:123 final size:123
Alignment explanation
Indices: 652195--652504 Score: 333
Period size: 123 Copynumber: 2.5 Consensus size: 123
652185 TTCTAGAACA
* * **
652195 TCTTCAACACCAAATTATCTCCAGATTGATCCGACTTCCTTAATAAT-AAGGAACAACGTCATCT
1 TCTTCAACACCAAATTATCTCCAGATTGAACCGAATTCCTTAACCATGAAGGAACAACGTCATCT
652259 TCAACAAACAATTTACCTGAAAGCGGCTAGAACTCTTCAACACAGATGAGCATAGTCG
66 TCAACAAACAATTTACCTGAAAGCGGCTAGAACTCTTCAACACAGATGAGCATAGTCG
* ** ** * ** * *
652317 TCTTTAACACCGTATTATCTTTAGATTGAATCGCTTTCCTCAACCA-GAAGGAACAACATCATCT
1 TCTTCAACACCAAATTATCTCCAGATTGAACCGAATTCCTTAACCATGAAGGAACAACGTCATCT
* * ** *
652381 TCAACAAACAAATTTATCTGAAAGCGG-TCAGATCTCTTCAACATGGATGAGTAGT-GTCG
66 TCAACAAAC-AATTTACCTGAAAGCGGCT-AGAACTCTTCAACACAGATGAGCA-TAGTCG
* * * * * *
652440 TCTTCAACACCAAATTATATCCAGATTGACCCGAAGTCCTTGA-CATGAAGCAACAATGTCATCT
1 TCTTCAACACCAAATTATCTCCAGATTGAACCGAATTCCTTAACCATGAAGGAACAACGTCATCT
652504 T
66 T
652505 TAAATCCTCT
Statistics
Matches: 149, Mismatches: 34, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
122 62 0.42
123 86 0.58
124 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (123 bp):
TCTTCAACACCAAATTATCTCCAGATTGAACCGAATTCCTTAACCATGAAGGAACAACGTCATCT
TCAACAAACAATTTACCTGAAAGCGGCTAGAACTCTTCAACACAGATGAGCATAGTCG
Found at i:653418 original size:33 final size:32
Alignment explanation
Indices: 653372--653435 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
653362 AACCGCTAAC
653372 TTTTCTAACTTACTAAC-TTTTATTTTTATTGT
1 TTTTCTAACTTACTAACATTTTA-TTTTATTGT
653404 TTTTACTAACTTACTAACATTTTATTTTATTG
1 TTTT-CTAACTTACTAACATTTTATTTTATTG
653436 CACAAACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 4 0.13
33 21 0.70
34 5 0.17
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.59
Consensus pattern (32 bp):
TTTTCTAACTTACTAACATTTTATTTTATTGT
Found at i:653445 original size:33 final size:33
Alignment explanation
Indices: 653376--653446 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
653366 GCTAACTTTT
*****
653376 CTAACTTACTAACTTTTATTTTTATTGTTTTTA
1 CTAACTTACTAACTTTTATTTTTATTGCACAAA
653409 CTAACTTACTAACATTTTA-TTTTATTGCACAAA
1 CTAACTTACTAAC-TTTTATTTTTATTGCACAAA
653442 CTAAC
1 CTAAC
653447 CCGCTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (33 bp):
CTAACTTACTAACTTTTATTTTTATTGCACAAA
Found at i:661516 original size:56 final size:56
Alignment explanation
Indices: 661441--661566 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
661431 TAAGGATTTT
* * * * *
661441 GAAATCGAATATATTTATCAGTTGTTGTCATTAATAAGTATAAAATTAAGGACCCC
1 GAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAATATAAAAATAAGGACCCC
* *
661497 GAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAATATAAAAATAGGGACTCC
1 GAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAATATAAAAATAAGGACCCC
661553 GAAATCGAATATAT
1 GAAATCGAATATAT
661567 TTAAAAAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (56 bp):
GAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAATATAAAAATAAGGACCCC
Found at i:661715 original size:23 final size:23
Alignment explanation
Indices: 661689--661739 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
661679 TTATAATATG
*
661689 TAACTAATACTAGTTTTAATGTC
1 TAACGAATACTAGTTTTAATGTC
* * *
661712 TAACGCATATTAGTTTTAATGTG
1 TAACGAATACTAGTTTTAATGTC
661735 TAACG
1 TAACG
661740 CATATCGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (23 bp):
TAACGAATACTAGTTTTAATGTC
Found at i:661740 original size:23 final size:23
Alignment explanation
Indices: 661699--661744 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
661689 TAACTAATAC
661699 TAGTTTTAATGTCTAACGCATAT
1 TAGTTTTAATGTCTAACGCATAT
*
661722 TAGTTTTAATGTGTAACGCATAT
1 TAGTTTTAATGTCTAACGCATAT
661745 CGGAATTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (23 bp):
TAGTTTTAATGTCTAACGCATAT
Found at i:668869 original size:12 final size:13
Alignment explanation
Indices: 668852--668883 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
668842 CCAACTCTTA
668852 TTCTTCAT-CATC
1 TTCTTCATCCATC
668864 TTCTTCATCCATC
1 TTCTTCATCCATC
668877 -TCTTCAT
1 TTCTTCAT
668884 TTGTATCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCTTCATCCATC
Found at i:670536 original size:20 final size:20
Alignment explanation
Indices: 670486--670536 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
670476 CACATGAATA
*
670486 GTATCGATACCGTAAGAACG
1 GTATCGATACTGTAAGAACG
670506 GTATCGATACTGTAAGAACG
1 GTATCGATACTGTAAGAACG
*
670526 GTATCGGTACT
1 GTATCGATACT
670537 TCGTACGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (20 bp):
GTATCGATACTGTAAGAACG
Found at i:674148 original size:21 final size:21
Alignment explanation
Indices: 674124--674171 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
674114 AGGAAATACT
674124 GATACTTATTAAAGGAGTACC
1 GATACTTATTAAAGGAGTACC
*
674145 GATACTTATTAAAGGATTACC
1 GATACTTATTAAAGGAGTACC
674166 GATACT
1 GATACT
674172 CCATGTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (21 bp):
GATACTTATTAAAGGAGTACC
Found at i:684995 original size:28 final size:29
Alignment explanation
Indices: 684963--685022 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 29
684953 TGGCCTATGT
684963 AACTGTCCATATGTTCC-GAACATAGGTA
1 AACTGTCCATATGTTCCTGAACATAGGTA
684991 AACTGTCCATATGTTCCATTGAACATAGGTA
1 AACTGTCCATATGTTCC--TGAACATAGGTA
685022 A
1 A
685023 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 17 0.59
31 12 0.41
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (29 bp):
AACTGTCCATATGTTCCTGAACATAGGTA
Found at i:695629 original size:41 final size:41
Alignment explanation
Indices: 695572--695654 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
695562 AGACTTGCGG
* *
695572 TTGACATTTGTGAGCTATTTTTGTTAGTGAATTGTCTATTT
1 TTGACATTTGTGAGCTATTGTTGCTAGTGAATTGTCTATTT
695613 TTGACATTTGTGAGCTATTGTTGCTAGTGAATTGTCTATTT
1 TTGACATTTGTGAGCTATTGTTGCTAGTGAATTGTCTATTT
695654 T
1 T
695655 CGACCAGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.19, C:0.08, G:0.20, T:0.52
Consensus pattern (41 bp):
TTGACATTTGTGAGCTATTGTTGCTAGTGAATTGTCTATTT
Found at i:695630 original size:20 final size:20
Alignment explanation
Indices: 695572--695631 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
695562 AGACTTGCGG
695572 TTGACATTTGTGAGCTATTT
1 TTGACATTTGTGAGCTATTT
*
695592 TTG---TTAGTGAATTGTCTATTT
1 TTGACATTTGTG-A--G-CTATTT
695613 TTGACATTTGTGAGCTATT
1 TTGACATTTGTGAGCTATT
695632 GTTGCTAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
20 9 0.29
21 10 0.32
23 1 0.03
24 5 0.16
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (20 bp):
TTGACATTTGTGAGCTATTT
Found at i:703602 original size:21 final size:21
Alignment explanation
Indices: 703578--703617 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
703568 TTTATTTTAT
703578 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
703599 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
703618 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:703665 original size:33 final size:33
Alignment explanation
Indices: 703612--703710 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
703602 TTTGTTTCAA
703612 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
703644 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
703677 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
703710 T
1 T
703711 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:703739 original size:13 final size:13
Alignment explanation
Indices: 703696--703750 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
703686 TTGGAAGTAT
703696 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
703709 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
703723 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
703736 TTAAGTATTTGAA
1 TTAAGTATTTCAA
703749 TT
1 TT
703751 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:704199 original size:15 final size:15
Alignment explanation
Indices: 704147--704202 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
704137 ATCTGGAATA
*
704147 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
704162 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
* *
704177 TAAAAAAACTGGTTTTT
1 T--TAAAACCGGTTTTT
704194 TTAAAACCG
1 TTAAAACCG
704203 AAACCGATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 20 0.62
17 12 0.38
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:717496 original size:2 final size:2
Alignment explanation
Indices: 717489--717520 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
717479 TCGAGTGACA
717489 AT AT AT AT AT AT AT AT AT A- AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
717521 TTAATATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:719193 original size:5 final size:5
Alignment explanation
Indices: 719183--719207 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
719173 CGCGGGTAAC
719183 GGAGG GGAGG GGAGG GGAGG GGAGG
1 GGAGG GGAGG GGAGG GGAGG GGAGG
719208 CAGGCAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGAGG
Found at i:723037 original size:20 final size:21
Alignment explanation
Indices: 723012--723056 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
723002 AAAATTTGGG
723012 TAAATTACT-AGTTTT-GTACC
1 TAAATT-CTCAGTTTTAGTACC
*
723032 TAAATTGTCAGTTTTAGTACC
1 TAAATTCTCAGTTTTAGTACC
723053 TAAA
1 TAAA
723057 CTTTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (21 bp):
TAAATTCTCAGTTTTAGTACC
Found at i:723111 original size:30 final size:29
Alignment explanation
Indices: 723044--723111 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
723034 AATTGTCAGT
* *
723044 TTTAGTACCTAAACTTTCATTTTTTTTCA
1 TTTAATACCTAAACTTTAATTTTTTTTCA
** * *
723073 AATCATACCTAAATTTTAATTTTTGTTTCA
1 TTTAATACCTAAACTTTAATTTTT-TTTCA
723103 TTTAATACC
1 TTTAATACC
723112 CTTGTTCAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.51
Consensus pattern (29 bp):
TTTAATACCTAAACTTTAATTTTTTTTCA
Found at i:731581 original size:20 final size:20
Alignment explanation
Indices: 731556--731648 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
731546 AGCAACAGAA
*
731556 TAAAACTGATTCTATCTAAT
1 TAAAACTGATCCTATCTAAT
731576 TAAAACTGATCCTATCTAA-
1 TAAAACTGATCCTATCTAAT
* * *
731595 T--AACT-AACATA-ATAA-
1 TAAAACTGATCCTATCTAAT
*
731610 -AAAACTGATTCTATCTAAT
1 TAAAACTGATCCTATCTAAT
731629 TAAAACTGATCCTATCTAAT
1 TAAAACTGATCCTATCTAAT
731649 AACTAACAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
15 3 0.05
16 8 0.14
17 7 0.12
18 3 0.05
19 1 0.02
20 36 0.62
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAACTGATCCTATCTAAT
Found at i:731616 original size:53 final size:53
Alignment explanation
Indices: 731549--731664 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
731539 TAAAATTAGC
731549 AACAGAAT--AAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
1 AACAGAATAAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
*
731600 AACATAATAAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
1 AACAGAATAAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
731653 AACAGAATAAAA
1 AACAGAATAAAA
731665 TATCTAGTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 7 0.11
53 54 0.89
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.29
Consensus pattern (53 bp):
AACAGAATAAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACT
Found at i:733328 original size:14 final size:14
Alignment explanation
Indices: 733309--733352 Score: 70
Period size: 14 Copynumber: 3.0 Consensus size: 14
733299 TAACAGACTT
733309 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
733323 GTCTGTTTTCTATACA
1 GTCTGTTTTC--TACA
733339 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
733353 TGGTATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:733340 original size:16 final size:16
Alignment explanation
Indices: 733309--733350 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
733299 TAACAGACTT
733309 GTCTGTTTTC--TACA
1 GTCTGTTTTCTATACA
733323 GTCTGTTTTCTATACA
1 GTCTGTTTTCTATACA
733339 GTCTGTTTTCTA
1 GTCTGTTTTCTA
733351 CATGGTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.38
16 16 0.62
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (16 bp):
GTCTGTTTTCTATACA
Found at i:736065 original size:51 final size:51
Alignment explanation
Indices: 735989--736089 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
735979 TAAGGAAATG
*
735989 ATAGGCTGTAAAAAAATATCAGTTTGAACAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAAAAATATCAGTTTGAACAGGCTGAAATTCCTTGTAACTA
* *
736040 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
1 ATAGGCTGTAAAAAAATATCAGTTTGAACAGGCTGAAATTCCTTGTAACT
736090 CTCCCCCTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (51 bp):
ATAGGCTGTAAAAAAATATCAGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:739035 original size:14 final size:14
Alignment explanation
Indices: 739013--739057 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
739003 TAACAGACTT
*
739013 GTCTATTTTCTACA
1 GTCTGTTTTCTACA
739027 GTCTGTTTTCTACACA
1 GTCTGTTTTCT--ACA
739043 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
739057 G
1 G
739058 GTGAACACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:739045 original size:16 final size:16
Alignment explanation
Indices: 739024--739056 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
739014 TCTATTTTCT
739024 ACAGTCTGTTTTCTAC
1 ACAGTCTGTTTTCTAC
739040 ACAGTCTGTTTTCTAC
1 ACAGTCTGTTTTCTAC
739056 A
1 A
739057 GGTGAACACC
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:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (16 bp):
ACAGTCTGTTTTCTAC
Found at i:739696 original size:18 final size:17
Alignment explanation
Indices: 739668--739714 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
739658 GAAAGAGAGT
*
739668 TTTTGTCAAAAAAAGGTTG
1 TTTT-TCAAAAAAA-GTTA
739687 TTTTTC-AAAAAAGTTA
1 TTTTTCAAAAAAAGTTA
739703 TTTTTCAAAAAA
1 TTTTTCAAAAAA
739715 CGTGACATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 9 0.35
17 11 0.42
18 2 0.08
19 4 0.15
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (17 bp):
TTTTTCAAAAAAAGTTA
Found at i:739706 original size:16 final size:17
Alignment explanation
Indices: 739676--739714 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
739666 GTTTTTGTCA
*
739676 AAAAAAGGTTGTTTTTC
1 AAAAAAGGTTATTTTTC
739693 AAAAAA-GTTATTTTTC
1 AAAAAAGGTTATTTTTC
739709 AAAAAA
1 AAAAAA
739715 CGTGACATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (17 bp):
AAAAAAGGTTATTTTTC
Found at i:741806 original size:27 final size:27
Alignment explanation
Indices: 741775--741843 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
741765 TCTATTTACA
*
741775 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAAGAATGGTAAC
741802 AAATCATATCTCTATAAGAATGGTAAC
1 AAATCATATCTCTATAAGAATGGTAAC
741829 AAATC--ATCTCTATAA
1 AAATCATATCTCTATAA
741844 TTCCTACACT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 10 0.24
27 31 0.76
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATCATATCTCTATAAGAATGGTAAC
Found at i:745437 original size:14 final size:14
Alignment explanation
Indices: 745418--745449 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
745408 ATTCTTTTCA
745418 ATATGACAGATTAC
1 ATATGACAGATTAC
745432 ATATGACAGATTAC
1 ATATGACAGATTAC
745446 ATAT
1 ATAT
745450 TTATATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (14 bp):
ATATGACAGATTAC
Found at i:746202 original size:20 final size:20
Alignment explanation
Indices: 746177--746216 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
746167 AGCAACATAA
*
746177 TAAAACTGATTCTATCTAAT
1 TAAAACTGATCCTATCTAAT
746197 TAAAACTGATCCTATCTAAT
1 TAAAACTGATCCTATCTAAT
746217 AACTAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAACTGATCCTATCTAAT
Found at i:746237 original size:53 final size:53
Alignment explanation
Indices: 746173--746285 Score: 181
Period size: 53 Copynumber: 2.1 Consensus size: 53
746163 AATTAGCAAC
* *
746173 ATAATAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATAACTAACAGA
1 ATAA-AAAACTGATTCTATCTAATTAAAACTGATCATATCAAATAACTAACAGA
* *
746227 ATAAAAAACTGATTCTATCTAATTAAAACTGATTATATCAAATAACTAATAGA
1 ATAAAAAACTGATTCTATCTAATTAAAACTGATCATATCAAATAACTAACAGA
746280 ATAAAA
1 ATAAAA
746286 TATCTAGTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
53 51 0.93
54 4 0.07
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.31
Consensus pattern (53 bp):
ATAAAAAACTGATTCTATCTAATTAAAACTGATCATATCAAATAACTAACAGA
Found at i:749741 original size:19 final size:19
Alignment explanation
Indices: 749693--749742 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
749683 TCTTTCGAAA
*
749693 AGTTTCGAAACTTTCCCAG
1 AGTTTCGAAATTTTCCCAG
*
749712 AGTTTTGAAATTTTCCCAG
1 AGTTTCGAAATTTTCCCAG
*
749731 AGTTTCAAAATT
1 AGTTTCGAAATT
749743 GTGTGGGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (19 bp):
AGTTTCGAAATTTTCCCAG
Found at i:750086 original size:38 final size:38
Alignment explanation
Indices: 750057--750135 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
750047 TATAGTTTAG
750057 CCTTGAAAAACTAGAGAATTGTAAAGGTTACTCTTGAA
1 CCTTGAAAAACTAGAGAATTGTAAAGGTTACTCTTGAA
750095 CCTTGAAAAACTAGAGAATTGTAAAGGTTACTCTTGAA
1 CCTTGAAAAACTAGAGAATTGTAAAGGTTACTCTTGAA
750133 CCT
1 CCT
750136 AGGAAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (38 bp):
CCTTGAAAAACTAGAGAATTGTAAAGGTTACTCTTGAA
Found at i:751391 original size:3 final size:3
Alignment explanation
Indices: 751383--751483 Score: 139
Period size: 3 Copynumber: 33.0 Consensus size: 3
751373 TTCATTTAAA
** * *
751383 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
751431 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT AAT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
751478 ATT ATT
1 ATT ATT
751484 TAAATATTAC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
3 80 0.93
4 6 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:752958 original size:21 final size:23
Alignment explanation
Indices: 752934--752975 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
752924 TATATATGAT
752934 AAAT-AATAATTT-ATATTTTTA
1 AAATAAATAATTTAATATTTTTA
*
752955 AAATAAATTATTTAATATTTT
1 AAATAAATAATTTAATATTTT
752976 CAATATCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAATAAATAATTTAATATTTTTA
Found at i:757414 original size:12 final size:12
Alignment explanation
Indices: 757396--757446 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
757386 AAAAAAAATA
*
757396 AAAAATAAAAAT
1 AAAAATAATAAT
*
757408 AATAATAATAAT
1 AAAAATAATAAT
*
757420 AAATA-AATAAAT
1 AAAAATAAT-AAT
*
757432 AAAAAAAATAAT
1 AAAAATAATAAT
757444 AAA
1 AAA
757447 TATGTATTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 3 0.09
12 26 0.81
13 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:760767 original size:83 final size:83
Alignment explanation
Indices: 760632--761055 Score: 681
Period size: 83 Copynumber: 5.1 Consensus size: 83
760622 CAAATAAATG
* *
760632 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAACCAATCAT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAACCAATCAT
*
760696 TGAATTTGGAAGATGAATG
65 TGAATTTGGAAGATGAATT
* *
760715 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAACCAATCAT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAACCAATCAT
*
760779 TGAATTTAGAAGATGAATT
65 TGAATTTGGAAGATGAATT
** * *
760798 TATTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGGTTGGACAGAACCAATCCTT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATT
760863 GAATTTGGAAGATGAATT
66 GAATTTGGAAGATGAATT
** *
760881 TATTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTAATCTGGTTGGACAGAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATT
*
760946 GAATTTAGAAGATGAATT
66 GAATTTGGAAGATGAATT
*
760964 TGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATT
761029 GAATTTGGAAGATGAATT
66 GAATTTGGAAGATGAATT
761047 TGCTCATAG
1 TGCTCATAG
761056 TAGAAATAAG
Statistics
Matches: 325, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.01
83 321 0.99
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATT
GAATTTGGAAGATGAATT
Found at i:762168 original size:74 final size:75
Alignment explanation
Indices: 762076--762253 Score: 234
Period size: 74 Copynumber: 2.4 Consensus size: 75
762066 TTTTAACATC
* * *
762076 TGTATCAGCAAATATTGGGGCATGCTGAAAACCCTTTTCAAACAGAATCAGAAATGTTGAAATAT
1 TGTATCAGCAAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACAT
*
762141 TCTGAATA-T
66 TCTGAACACT
* * **
762150 T-TATCAGCAAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAGAATCAGAACTGTTGATGCA
1 TGTATCAGC-AAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACA
*
762214 TTTTGAACACT
65 TTCTGAACACT
* *
762225 TGTATTAGCCAATGTTGGGGCATGCTGAA
1 TGTATCAGCAAATGTTGGGGCATGCTGAA
762254 GGCCCACAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
73 7 0.08
74 56 0.62
75 21 0.23
76 6 0.07
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (75 bp):
TGTATCAGCAAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACAT
TCTGAACACT
Found at i:762747 original size:1 final size:1
Alignment explanation
Indices: 762741--762783 Score: 86
Period size: 1 Copynumber: 43.0 Consensus size: 1
762731 CCCCAGCCGC
762741 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
762784 TTCCACGGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:764319 original size:76 final size:76
Alignment explanation
Indices: 764193--764631 Score: 803
Period size: 76 Copynumber: 5.8 Consensus size: 76
764183 CTATTTCCCA
*
764193 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764258 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
764269 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764334 AGCCTTCGGGT
66 AGCCTTCGGGT
*
764345 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764409 AGCCTTC-GGT
66 AGCCTTCGGGT
*
764419 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764484 AGCCTTCGGGT
66 AGCCTTCGGGT
764495 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764560 AGCCTTCGGGT
66 AGCCTTCGGGT
764571 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GAGAGCTTTTTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAG-GAGCTTTTTGATGTTT
764632 CCAAAAAGCC
Statistics
Matches: 355, Mismatches: 5, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
74 52 0.15
75 44 0.12
76 259 0.73
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
AGCCTTCGGGT
Found at i:764469 original size:150 final size:151
Alignment explanation
Indices: 764193--765098 Score: 812
Period size: 150 Copynumber: 6.2 Consensus size: 151
764183 CTATTTCCCA
*
764193 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
*
764258 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT
*
764323 GATGTTTTTAAAGCCTTCGGGT
130 GATGTTTTCAAAGCCTTCGGGT
*
764345 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764409 AGCCTTC-GGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT
764473 GATGTTTTCAAAGCCTTCGGGT
130 GATGTTTTCAAAGCCTTCGGGT
764495 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764560 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG-GAGCTTTTT
*
764625 GATGTTTCCAAAAAGCCTTCAGGAG-
130 GATGTTTTC--AAAGCCTTC-GG-GT
* * * * * ** * ** *** * *
764650 C-TTTTTGATGT-TTTTAAAGCCT--TCGGGTCATCTGTAAGTCCTTCA-GTGC---ATGATGTT
1 CATCTGT-AAGTCCTTCAGTGCATGAT-GTTTC--CAAAAAG-CCTTCAGGAGCTTTTTGATGTT
** *
764707 TCCAAAAAGCCTTC--G--A---G--AG--CTT---T--TTGATGTTTCCAAAAAGCCTTCAGGA
61 T--TTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGA
*
764756 GCTTTTTGATGTTTTTAAAGCCTTCGGGT
123 GCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
764785 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GAGAGCTTTTTGATGTTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAG-GAGCTTTTTGATGTTT--T
* ** * * * *
764849 AAAAGCCTTCGGAGCTTTTTTTTTTTAAAG-CCTT-GGT-CAT-CTG--T-----AAGTCCTTC-
63 TAAAGCCTTCGG-G----TCATCTGT-AAGTCCTTCAGTGCATGATGTTTCCAAAAAG-CCTTCG
*** *
764902 -AG-TGCATGATGTTTCCAAAAAGCCTTC--G-
121 GAGCTTTTTGATGTTTTC--AAAGCCTTCGGGT
* *
764930 -A---G--AG--CTT---T--TTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
764982 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT
765047 GATGTTTTCAAAGCCTTCGGGT
130 GATGTTTTCAAAGCCTTCGGGT
765069 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
765099 TCAACATTTC
Statistics
Matches: 610, Mismatches: 65, Indels: 158
0.73 0.08 0.19
Matches are distributed among these distances:
124 3 0.00
125 8 0.01
126 2 0.00
127 3 0.00
128 2 0.00
129 1 0.00
130 12 0.02
132 37 0.06
133 1 0.00
134 12 0.02
135 16 0.03
136 27 0.04
137 8 0.01
138 70 0.11
139 3 0.00
140 2 0.00
141 2 0.00
143 4 0.01
144 1 0.00
145 4 0.01
146 10 0.02
147 6 0.01
148 9 0.01
149 3 0.00
150 132 0.22
151 43 0.07
152 129 0.21
153 5 0.01
154 31 0.05
155 13 0.02
156 10 0.02
157 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (151 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTTG
ATGTTTTCAAAGCCTTCGGGT
Found at i:764587 original size:226 final size:226
Alignment explanation
Indices: 764193--765098 Score: 861
Period size: 226 Copynumber: 4.1 Consensus size: 226
764183 CTATTTCCCA
* *
764193 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
* *
764258 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTT
66 AGCCTTCGGGT-ATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
764323 GATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
129 GATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
*
764388 -AGGAGC-TTTTGATGTTTTC-AAAGCCTTC-GG
194 GA-GAGCTTTTTGATGTTTCCAAAAGCCTTCAGG
764418 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 -CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
764483 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
65 AAGCCTTCGGGT-ATCTGTAAG-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
764548 TGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
128 TGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
764613 CGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCAGG
193 CGAGAGCTTTTTGATGTTTCC-AAAAGCCTTCAGG
* * * * * *
764648 -AGC--T---T--TT---TG-ATG-T-TTT---TAAAGCCTTC-GG-G-TCATCTGTAAGTCCTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCT-TTTTG-ATGT-TTT
** * * * *** * *
764693 CAGTG-CAT-GATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCAGGA
63 CAAAGCCTTCG-GGTAT-CTGTAAGCCTTC-AGTGC---ATGATGTTTCCAAAAAGCCTTCAGGA
764756 GCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAA
122 GCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAA
764821 AGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTC-GG
187 AGCCTTCGAGAGCTTTTTGATGTTTCC-AAAAGCCTTCAGG
* *** ** * ** * * *** * * *
764861 -AGCT-TTTTTTTTTTAAAGCCT--TG-GTCATCTGTAAGTCCTTCA-GTGC---ATGATGTTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTC--CAAAAAG-CCTTCAGGAGCTTTTTGATGTTTT
* *
764917 CAAAAAGCCTTC--G-A---G--AG-CTT---T--TTGATGTTTCCAAAAAGCCTTCGGGAGCTT
63 C--AAAGCCTTCGGGTATCTGTAAGCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTT
764968 TTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC
126 TTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC
* * *
765033 TTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGG
191 TTCGAGAGCTTTTTGATGTTTCCAAAAGCCTTCAGG
765068 TCATCTGTAAGTCCTTCAGTGCATGATGTTT
1 -CATCTGTAAGTCCTTCAGTGCATGATGTTT
765099 TCAACATTTC
Statistics
Matches: 585, Mismatches: 50, Indels: 103
0.79 0.07 0.14
Matches are distributed among these distances:
206 9 0.02
207 2 0.00
208 115 0.20
209 4 0.01
210 19 0.03
211 17 0.03
212 16 0.03
213 6 0.01
214 129 0.22
215 3 0.01
216 1 0.00
217 7 0.01
218 4 0.01
219 2 0.00
221 2 0.00
222 3 0.01
223 2 0.00
224 2 0.00
225 4 0.01
226 200 0.34
227 18 0.03
228 8 0.01
229 10 0.02
230 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (226 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTATCTGTAAGCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGA
TGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGA
GAGCTTTTTGATGTTTCCAAAAGCCTTCAGG
Found at i:764628 original size:31 final size:31
Alignment explanation
Indices: 764593--764662 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
764583 CTTCAGTGCA
764593 TGATGTTTCCAAAAAGCCTTC-GAGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCAG-GAGCTTTT
764624 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
764655 TGATGTTT
1 TGATGTTT
764663 TTAAAGCCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
Found at i:764636 original size:107 final size:107
Alignment explanation
Indices: 764517--765058 Score: 1015
Period size: 107 Copynumber: 5.1 Consensus size: 107
764507 CTTCAGTGCA
764517 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
764582 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
764624 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
764689 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
764731 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
764796 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
764838 TGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT--T-TTTTTAAAGCCTT--GGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
764897 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
764939 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
*
765004 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
765046 TGATGTTTTCAAA
1 TGATGTTTCCAAA
765059 GCCTTCGGGT
Statistics
Matches: 427, Mismatches: 2, Indels: 12
0.97 0.00 0.03
Matches are distributed among these distances:
101 77 0.18
102 10 0.02
103 13 0.03
104 2 0.00
105 13 0.03
106 10 0.02
107 302 0.71
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (107 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
Found at i:764735 original size:31 final size:31
Alignment explanation
Indices: 764700--764769 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
764690 CTTCAGTGCA
764700 TGATGTTTCCAAAAAGCCTTC-GAGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCAG-GAGCTTTT
764731 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
764762 TGATGTTT
1 TGATGTTT
764770 TTAAAGCCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
Found at i:764869 original size:31 final size:31
Alignment explanation
Indices: 764807--764868 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
764797 CTTCAGTGCA
764807 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
764838 TGATGTTTCCAAAAAGCCTTCG-GAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
764868 T
1 T
764869 TTTTTTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
Found at i:764943 original size:31 final size:31
Alignment explanation
Indices: 764908--764977 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
764898 CTTCAGTGCA
764908 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
764939 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
764970 TGATGTTT
1 TGATGTTT
764978 TTAAAGCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
Found at i:765011 original size:208 final size:211
Alignment explanation
Indices: 764517--765066 Score: 1011
Period size: 208 Copynumber: 2.6 Consensus size: 211
764507 CTTCAGTGCA
764517 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
764582 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCAG
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTC-G
764647 GAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
130 GAGCTTTTT-ATGTTTTTAAAGCCTTC-GGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
764712 AAAGCCTTCGAGAGCTTTT
193 AAAGCCTTCGAGAGCTTTT
764731 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
764796 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCGG
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCGG
764861 AGCTTTTT-T-TTTTTAAAGCCTT-GGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAA
131 AGCTTTTTATGTTTTTAAAGCCTTCGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAA
764923 GCCTTCGAGAGCTTTT
196 GCCTTCGAGAGCTTTT
*
764939 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
* *
765004 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--AAAGCCTTCGG
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCGG
765067 GTCATCTGTA
Statistics
Matches: 333, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
206 11 0.03
208 170 0.51
210 13 0.04
211 1 0.00
213 10 0.03
214 128 0.38
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (211 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCCAAAAAGCCTTCGG
AGCTTTTTATGTTTTTAAAGCCTTCGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAA
GCCTTCGAGAGCTTTT
Found at i:765028 original size:76 final size:76
Alignment explanation
Indices: 764939--765098 Score: 311
Period size: 76 Copynumber: 2.1 Consensus size: 76
764929 GAGAGCTTTT
*
764939 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
765004 CCTTCAGTGCA
66 CCTTCAGTGCA
765015 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
765080 CCTTCAGTGCA
66 CCTTCAGTGCA
765091 TGATGTTT
1 TGATGTTT
765099 TCAACATTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 83 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCA
Found at i:765237 original size:3 final size:3
Alignment explanation
Indices: 765229--765305 Score: 81
Period size: 3 Copynumber: 26.3 Consensus size: 3
765219 TTCATTTAAA
**
765229 ATT ATT ATT ATT AAAA ATT ATT A-T ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
765273 ATTT ATT ATT A-T ATT AAT ATT A-T ATT ATT ATT A
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
765306 CAAGCCCAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 8 0.13
3 50 0.81
4 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Done.