Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003051.1 Hibiscus syriacus cultivar Beakdansim tig00006360_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: 69219
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1488 original size:18 final size:18
Alignment explanation
Indices: 1465--1509 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1455 ACTATAACAC
*
1465 ATGTCCCGAAGGACCACT
1 ATGTCCCAAAGGACCACT
1483 ATGTCCCAAAGGACCACT
1 ATGTCCCAAAGGACCACT
1501 ATGTCCCAA
1 ATGTCCCAA
1510 GACCGTGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGTCCCAAAGGACCACT
Found at i:2332 original size:24 final size:24
Alignment explanation
Indices: 2300--2359 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
2290 CATTCTACAA
2300 TGCATCGATGCATTCTTTAACCTG
1 TGCATCGATGCATTCTTTAACCTG
2324 TGCATCGATGCATTCTTTAACCTG
1 TGCATCGATGCATTCTTTAACCTG
2348 TGCATCGATGCA
1 TGCATCGATGCA
2360 CTACCCATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (24 bp):
TGCATCGATGCATTCTTTAACCTG
Found at i:5371 original size:24 final size:22
Alignment explanation
Indices: 5344--5407 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
5334 ACTAGGGGCG
*
5344 CGTAGAATTTGTCCCGAAGGACCA
1 CGTAGAA--TGTCCCAAAGGACCA
5368 CGTAG-ATGTCCCAAAGGACCA
1 CGTAGAATGTCCCAAAGGACCA
5389 CGTAG-ATGTCCCAAAGGAC
1 CGTAGAATGTCCCAAAGGAC
5408 TACATATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 33 0.85
23 1 0.03
24 5 0.13
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (22 bp):
CGTAGAATGTCCCAAAGGACCA
Found at i:5379 original size:21 final size:21
Alignment explanation
Indices: 5353--5407 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
5343 GCGTAGAATT
*
5353 TGTCCCGAAGGACCACGTAGA
1 TGTCCCAAAGGACCACGTAGA
5374 TGTCCCAAAGGACCACGTAGA
1 TGTCCCAAAGGACCACGTAGA
5395 TGTCCCAAAGGAC
1 TGTCCCAAAGGAC
5408 TACATATAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (21 bp):
TGTCCCAAAGGACCACGTAGA
Found at i:5444 original size:18 final size:18
Alignment explanation
Indices: 5421--5472 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
5411 ATATAACACA
5421 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
5439 TATGTCCCAAAGGACCAC
1 TATGTCCCGAAGGACCAC
5457 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
5473 GCGTAGACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:7341 original size:18 final size:18
Alignment explanation
Indices: 7318--7352 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7308 AGGGATTATC
*
7318 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGAGACAT
7336 AGTGGTCCTTCGAGACA
1 AGTGGTCCTTCGAGACA
7353 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:9700 original size:30 final size:29
Alignment explanation
Indices: 9647--9730 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
9637 CAAAATATAT
* * *
9647 AACTTTTAAAAATTACATGTTTGGTCC-TTG
1 AACTTTCAAAACTTACA--TTTGGTCCATTA
* *
9677 AACTTTTCAAAATTTATACTTTGG-CCATTA
1 AAC-TTTCAAAACTTACA-TTTGGTCCATTA
9707 AACTTTCAAAACTTACATTTGGTC
1 AACTTTCAAAACTTACATTTGGTC
9731 ACAACTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.11
29 15 0.34
30 13 0.30
31 11 0.25
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (29 bp):
AACTTTCAAAACTTACATTTGGTCCATTA
Found at i:10810 original size:7 final size:7
Alignment explanation
Indices: 10798--10836 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
10788 ACATATAAAA
10798 TTCACAT
1 TTCACAT
10805 TTCACAT
1 TTCACAT
10812 TTCACAT
1 TTCACAT
10819 TTCACAT
1 TTCACAT
10826 TTCACAT
1 TTCACAT
10833 TTCA
1 TTCA
10837 TCACATTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCACAT
Found at i:11377 original size:21 final size:21
Alignment explanation
Indices: 11351--11470 Score: 161
Period size: 21 Copynumber: 5.7 Consensus size: 21
11341 GTTTCCAGAT
*
11351 TCGCAACGCGAACTTCAACTA
1 TCGCAATGCGAACTTCAACTA
**
11372 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCAACTA
11393 TCGCAATGCGAACTT-AGACTA
1 TCGCAATGCGAACTTCA-ACTA
**
11414 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCAACTA
*
11435 TCGCAATGCGAATTTCAACTA
1 TCGCAATGCGAACTTCAACTA
*
11456 TCGCAATGCAAACTT
1 TCGCAATGCGAACTT
11471 GGATGGCGGC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCAACTA
Found at i:11404 original size:42 final size:42
Alignment explanation
Indices: 11351--11473 Score: 203
Period size: 42 Copynumber: 2.9 Consensus size: 42
11341 GTTTCCAGAT
*
11351 TCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCAACTATCGCAATGCGAACTTGGACTA
11393 TCGCAATGCGAACTT-AGACTATCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCA-ACTATCGCAATGCGAACTTGGACTA
* *
11435 TCGCAATGCGAATTTCAACTATCGCAATGCAAACTTGGA
1 TCGCAATGCGAACTTCAACTATCGCAATGCGAACTTGGA
11474 TGGCGGCGAC
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
41 1 0.01
42 74 0.97
43 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (42 bp):
TCGCAATGCGAACTTCAACTATCGCAATGCGAACTTGGACTA
Found at i:11883 original size:21 final size:21
Alignment explanation
Indices: 11857--11976 Score: 161
Period size: 21 Copynumber: 5.7 Consensus size: 21
11847 GTTTCCAGAT
*
11857 TCGCAACGCGAACTTCAACTA
1 TCGCAATGCGAACTTCAACTA
**
11878 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCAACTA
11899 TCGCAATGCGAACTT-AGACTA
1 TCGCAATGCGAACTTCA-ACTA
**
11920 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCAACTA
*
11941 TCGCAATGCGAATTTCAACTA
1 TCGCAATGCGAACTTCAACTA
*
11962 TCGCAATGCAAACTT
1 TCGCAATGCGAACTT
11977 GGATGGCGGC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCAACTA
Found at i:11910 original size:42 final size:42
Alignment explanation
Indices: 11857--11979 Score: 203
Period size: 42 Copynumber: 2.9 Consensus size: 42
11847 GTTTCCAGAT
*
11857 TCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCAACTATCGCAATGCGAACTTGGACTA
11899 TCGCAATGCGAACTT-AGACTATCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCA-ACTATCGCAATGCGAACTTGGACTA
* *
11941 TCGCAATGCGAATTTCAACTATCGCAATGCAAACTTGGA
1 TCGCAATGCGAACTTCAACTATCGCAATGCGAACTTGGA
11980 TGGCGGCGAC
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
41 1 0.01
42 74 0.97
43 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (42 bp):
TCGCAATGCGAACTTCAACTATCGCAATGCGAACTTGGACTA
Found at i:12278 original size:506 final size:506
Alignment explanation
Indices: 11326--12339 Score: 2028
Period size: 506 Copynumber: 2.0 Consensus size: 506
11316 ATGCGATCTC
11326 TGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGAC
1 TGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGAC
11391 TATCGCAATGCGAACTTAGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATTTCAACTA
66 TATCGCAATGCGAACTTAGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATTTCAACTA
11456 TCGCAATGCAAACTTGGATGGCGGCGACGGCGGCGCGCGAGACTCCCCCTTGTTCTCTATCACTC
131 TCGCAATGCAAACTTGGATGGCGGCGACGGCGGCGCGCGAGACTCCCCCTTGTTCTCTATCACTC
11521 AACAAAGAAGTGGGAAAGCCAAGCCTTAAATATCATTCCCAATAGTGTTTCTAATACTATGTGGA
196 AACAAAGAAGTGGGAAAGCCAAGCCTTAAATATCATTCCCAATAGTGTTTCTAATACTATGTGGA
11586 TTGAGCATTACCAACACTTGTTTCCAATACAATGTGATTATTCAAGAAACAATTAACAATCATGC
261 TTGAGCATTACCAACACTTGTTTCCAATACAATGTGATTATTCAAGAAACAATTAACAATCATGC
11651 ACCTTAAAACAACTGAATCAGCAACCAATTGCATTAGTATTATACGATTAAATATGTCATAATTA
326 ACCTTAAAACAACTGAATCAGCAACCAATTGCATTAGTATTATACGATTAAATATGTCATAATTA
11716 AAAGTCAATCTACAATCAATCATGATTATTACAATTTTAAGCAAAACACTGATAAAAAAAAATTC
391 AAAGTCAATCTACAATCAATCATGATTATTACAATTTTAAGCAAAACACTGATAAAAAAAAATTC
11781 ACATACCAATCAAAACACGTCACATCATCATTTGTTTTTAATTTTTTTATA
456 ACATACCAATCAAAACACGTCACATCATCATTTGTTTTTAATTTTTTTATA
11832 TGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGAC
1 TGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGAC
11897 TATCGCAATGCGAACTTAGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATTTCAACTA
66 TATCGCAATGCGAACTTAGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATTTCAACTA
11962 TCGCAATGCAAACTTGGATGGCGGCGACGGCGGCGCGCGAGACTCCCCCTTGTTCTCTATCACTC
131 TCGCAATGCAAACTTGGATGGCGGCGACGGCGGCGCGCGAGACTCCCCCTTGTTCTCTATCACTC
12027 AACAAAGAAGTGGGAAAGCCAAGCCTTAAATATCATTCCCAATAGTGTTTCTAATACTATGTGGA
196 AACAAAGAAGTGGGAAAGCCAAGCCTTAAATATCATTCCCAATAGTGTTTCTAATACTATGTGGA
12092 TTGAGCATTACCAACACTTGTTTCCAATACAATGTGATTATTCAAGAAACAATTAACAATCATGC
261 TTGAGCATTACCAACACTTGTTTCCAATACAATGTGATTATTCAAGAAACAATTAACAATCATGC
12157 ACCTTAAAACAACTGAATCAGCAACCAATTGCATTAGTATTATACGATTAAATATGTCATAATTA
326 ACCTTAAAACAACTGAATCAGCAACCAATTGCATTAGTATTATACGATTAAATATGTCATAATTA
12222 AAAGTCAATCTACAATCAATCATGATTATTACAATTTTAAGCAAAACACTGATAAAAAAAAATTC
391 AAAGTCAATCTACAATCAATCATGATTATTACAATTTTAAGCAAAACACTGATAAAAAAAAATTC
12287 ACATACCAATCAAAACACGTCACATCATCATTTGTTTTTAATTTTTTTATA
456 ACATACCAATCAAAACACGTCACATCATCATTTGTTTTTAATTTTTTTATA
12338 TG
1 TG
12340 AGTAAATAAA
Statistics
Matches: 508, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
506 508 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (506 bp):
TGGTATCGCAAATCAGTTTCCAGATTCGCAACGCGAACTTCAACTATCGCAATGCGAACTTGGAC
TATCGCAATGCGAACTTAGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATTTCAACTA
TCGCAATGCAAACTTGGATGGCGGCGACGGCGGCGCGCGAGACTCCCCCTTGTTCTCTATCACTC
AACAAAGAAGTGGGAAAGCCAAGCCTTAAATATCATTCCCAATAGTGTTTCTAATACTATGTGGA
TTGAGCATTACCAACACTTGTTTCCAATACAATGTGATTATTCAAGAAACAATTAACAATCATGC
ACCTTAAAACAACTGAATCAGCAACCAATTGCATTAGTATTATACGATTAAATATGTCATAATTA
AAAGTCAATCTACAATCAATCATGATTATTACAATTTTAAGCAAAACACTGATAAAAAAAAATTC
ACATACCAATCAAAACACGTCACATCATCATTTGTTTTTAATTTTTTTATA
Found at i:14765 original size:11 final size:11
Alignment explanation
Indices: 14749--14779 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
14739 TTACTCATAT
14749 AAAATAAATTA
1 AAAATAAATTA
14760 AAAATAAATTA
1 AAAATAAATTA
14771 AAAATAAAT
1 AAAATAAAT
14780 AGTGACGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:16400 original size:18 final size:18
Alignment explanation
Indices: 16377--16428 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
16367 AATATTCTCA
*
16377 GTAATCTTATTTCTGCTG
1 GTAATCTTATTTCTACTG
* *
16395 GTAATCCTATTTCCACTG
1 GTAATCTTATTTCTACTG
*
16413 GTAATATTATATTCTA
1 GTAATCTTAT-TTCTA
16429 TGAACCAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (18 bp):
GTAATCTTATTTCTACTG
Found at i:19864 original size:19 final size:19
Alignment explanation
Indices: 19840--19876 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19830 ATGACCAACA
*
19840 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
19859 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
19877 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:19949 original size:21 final size:21
Alignment explanation
Indices: 19921--19974 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
19911 GATTTTGACC
*
19921 ATCGCATTGCGATTTTCGA-A
1 ATCGCATTGCGATTTTAGATA
*
19941 ATCCGCATTGCAATTTTAGATA
1 AT-CGCATTGCGATTTTAGATA
*
19963 ATCGCAATGCGA
1 ATCGCATTGCGA
19975 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTAGATA
Found at i:20029 original size:20 final size:20
Alignment explanation
Indices: 20004--20068 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
19994 ATAACACGTG
*
20004 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
20024 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
20044 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
20064 ATCGC
1 ATCGC
20069 GTTGCGATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:20250 original size:22 final size:22
Alignment explanation
Indices: 20220--20275 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
20210 ACTCTCTACG
*
20220 GTGACATCCGTCCCCATCTCC-
1 GTGAAATCCGTCCCCATCTCCT
*
20241 GATGAAATCCGTCCCCATTTCCT
1 G-TGAAATCCGTCCCCATCTCCT
20264 GTGAAATCCGTC
1 GTGAAATCCGTC
20276 TATCTCTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.38, G:0.16, T:0.27
Consensus pattern (22 bp):
GTGAAATCCGTCCCCATCTCCT
Found at i:20660 original size:33 final size:34
Alignment explanation
Indices: 20615--20697 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 34
20605 CGCAACGACA
*
20615 AAATTCGCGTTGCGATTATCTCGTTGCGATAG-C
1 AAATTCGCGTTGCGATTATCTAGTTGCGATAGTC
* *
20648 CATTTCGCGTTGCGATTATCTAGTTGCGATAGTC
1 AAATTCGCGTTGCGATTATCTAGTTGCGATAGTC
20682 AAATTCGCGTTGCGAT
1 AAATTCGCGTTGCGAT
20698 AATCATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 29 0.66
34 15 0.34
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (34 bp):
AAATTCGCGTTGCGATTATCTAGTTGCGATAGTC
Found at i:20713 original size:20 final size:20
Alignment explanation
Indices: 20670--20737 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
20660 CGATTATCTA
* ** *
20670 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAATCATTTTCGT
*
20690 GTTGCGATAATCATTTTTGT
1 GTTGCGATAATCATTTTCGT
**
20710 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAATCATTTTCGT
20730 GTTGCGAT
1 GTTGCGAT
20738 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGATAATCATTTTCGT
Found at i:20738 original size:20 final size:20
Alignment explanation
Indices: 20685--20740 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
20675 GATAGTCAAA
* **
20685 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
*
20705 TTTGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
20725 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
20741 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:20747 original size:20 final size:20
Alignment explanation
Indices: 20708--20747 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20698 AATCATTTTT
* *
20708 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGATTTTAAGTTTC
20728 GTGTTGCGATTTTAAGTTTC
1 GTGTTGCGATTTTAAGTTTC
20748 AGAAACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.53
Consensus pattern (20 bp):
GTGTTGCGATTTTAAGTTTC
Found at i:22744 original size:20 final size:20
Alignment explanation
Indices: 22719--22785 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
22709 AGAAGAATAG
** *
22719 TCGCAACACGAAAATGATTA
1 TCGCAACACGAATTTGACTA
*
22739 TCGCAACCCGAATTTGACTA
1 TCGCAACACGAATTTGACTA
*
22759 TCGCAACGCGAATTTGACTA
1 TCGCAACACGAATTTGACTA
22779 TCGCAAC
1 TCGCAAC
22786 GGGATAATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (20 bp):
TCGCAACACGAATTTGACTA
Found at i:22781 original size:40 final size:38
Alignment explanation
Indices: 22719--22893 Score: 114
Period size: 34 Copynumber: 4.7 Consensus size: 38
22709 AGAAGAATAG
* * *
22719 TCGCAACACGAAAATGATTATCGCAACCCGAATTTGACTA
1 TCGCAACGCGAAAATGACTATCGCAACCAGAA--TGACTA
** * *
22759 TCGCAACGCGAATTTGACTATCGCAA-CGGGAT-A--A
1 TCGCAACGCGAAAATGACTATCGCAACCAGAATGACTA
* * *
22793 TCGCAATGCAAAAACGACTATCGCAACGCAGAAATGACTA
1 TCGCAACGCGAAAATGACTATCGCAAC-CAG-AATGACTA
** * *
22833 TCGCAACGCGAATTTGACTATCGCAA-CGGGAT-A--A
1 TCGCAACGCGAAAATGACTATCGCAACCAGAATGACTA
* *
22867 TCGCAATGCGAAAATGACTATCACAAC
1 TCGCAACGCGAAAATGACTATCGCAAC
22894 GCGAATTTAG
Statistics
Matches: 104, Mismatches: 24, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
34 45 0.43
36 4 0.04
37 5 0.05
38 3 0.03
39 3 0.03
40 44 0.42
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (38 bp):
TCGCAACGCGAAAATGACTATCGCAACCAGAATGACTA
Found at i:22786 original size:20 final size:20
Alignment explanation
Indices: 22737--22860 Score: 118
Period size: 20 Copynumber: 6.5 Consensus size: 20
22727 CGAAAATGAT
*
22737 TATCGCAACCCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
22757 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
22777 TATCGCAACG-GGA--T-A-
1 TATCGCAACGCGAATTTGAC
* * ***
22792 -ATCGCAATGCAAAAACGAC
1 TATCGCAACGCGAATTTGAC
*
22811 TATCGCAACGCAGAA-ATGAC
1 TATCGCAACGC-GAATTTGAC
22831 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
22851 TATCGCAACG
1 TATCGCAACG
22861 GGATAATCGC
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.09
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 5 0.06
20 67 0.78
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:22812 original size:34 final size:34
Alignment explanation
Indices: 22758--22894 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
22748 GAATTTGACT
* **
22758 ATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGGGATA
* * *
22792 ATCGCAATGCAAAAACGACTATCGCAACGCAGAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAACG--G-GAT-A
* **
22830 CTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 --ATCGCAATGCGAAAATGACTATCGCAACGGGATA
*
22866 ATCGCAATGCGAAAATGACTATCACAACG
1 ATCGCAATGCGAAAATGACTATCGCAACG
22895 CGAATTTAGT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 49 0.60
36 2 0.02
37 4 0.05
38 2 0.02
40 24 0.30
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGGGATA
Found at i:22840 original size:74 final size:74
Alignment explanation
Indices: 22753--22895 Score: 259
Period size: 74 Copynumber: 1.9 Consensus size: 74
22743 AACCCGAATT
*
22753 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATCGCA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATCACA
22818 ACGCAGAAA
66 ACGCAGAAA
* *
22827 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATCACA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATCACA
22892 ACGC
66 ACGC
22896 GAATTTAGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (74 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATCACA
ACGCAGAAA
Found at i:22925 original size:19 final size:19
Alignment explanation
Indices: 22903--22939 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22893 CGCGAATTTA
22903 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
22922 GTTTCGCGTTGCTATTTT
1 GTTTCGCGTTGCGATTTT
22940 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.16, G:0.27, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:22965 original size:33 final size:33
Alignment explanation
Indices: 22923--23003 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
22913 GCGATTTTGG
* * *
22923 TTTCGCGTTGCTATTTTCTCGTTGCGATAGTCA
1 TTTCACGTTGCGATTATCTCGTTGCGATAGTCA
22956 TTTCACGTTGCGATTATCTCGTTGCGATAGTCAA
1 TTTCACGTTGCGATTATCTCGTTGCGATAGTC-A
* *
22990 ATTCGCGTTGCGAT
1 TTTCACGTTGCGAT
23004 AATCATTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 29 0.69
34 13 0.31
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (33 bp):
TTTCACGTTGCGATTATCTCGTTGCGATAGTCA
Found at i:23000 original size:20 final size:20
Alignment explanation
Indices: 22975--23023 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
22965 GCGATTATCT
*
22975 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
22995 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
23015 TGTTGCGAT
1 CGTTGCGAT
23024 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:23033 original size:20 final size:20
Alignment explanation
Indices: 23010--23053 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
23000 CGATAATCAT
23010 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
23030 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
23050 TTTC
1 TTTC
23054 AGAAACTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:23625 original size:21 final size:21
Alignment explanation
Indices: 23534--23637 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
23524 GACTCACATG
* *
23534 TCATTGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
23554 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * * *
23576 TCATCCCTCAAAAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* *
23597 CCACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
* *
23618 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
23638 CCCAATATTC
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:24974 original size:25 final size:25
Alignment explanation
Indices: 24940--24990 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24930 ATTTGTTTAA
*
24940 TTGATGTGTAAATAATTCTTATTTG
1 TTGATGTGTAAATAATTATTATTTG
24965 TTGATGTGTAAATAATTATTATTTG
1 TTGATGTGTAAATAATTATTATTTG
24990 T
1 T
24991 GCTTGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (25 bp):
TTGATGTGTAAATAATTATTATTTG
Found at i:25077 original size:54 final size:55
Alignment explanation
Indices: 24964--25077 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 55
24954 ATTCTTATTT
**
24964 GTTGATGTGTAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGATTA
1 GTTGATGTGTAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGAAAA
* *
25019 -TTGATGTGTAAATAATTCTTATTTGTGCTTGTTTAATTGATTGAAA--TGTAAAA
1 GTTGATGTGTAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTG-AAAA
25072 GTTGAT
1 GTTGAT
25078 TTGTTGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
52 2 0.04
53 2 0.04
54 49 0.92
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (55 bp):
GTTGATGTGTAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGAAAA
Found at i:25166 original size:34 final size:34
Alignment explanation
Indices: 25105--25315 Score: 172
Period size: 34 Copynumber: 5.9 Consensus size: 34
25095 CATCATATTT
* * * *
25105 GCGTTGCGATAGTCTAATACACTTTGCGATTTTC
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTTC
* * *
25139 TCGTTGCGATAGTCAAATTCCCATTGCGATAATCAAATTC
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTC
* *
25179 GCGTTGCGATAGTC-ATTTCGCGTTGCGATTATC
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTTC
*
25212 TCGTTGCGATAGTCAAATTCGCGTTGCGATAGTTAAATTC
1 GCGTTGCGATAGTCAAATTCGCGTTGCG--A-TT---TTC
* * * *
25252 GCGTTGCGATAGTCAATTTCGCATTGTGATTATC
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTTC
*
25286 CCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAT
25316 AGTCATTTTC
Statistics
Matches: 142, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
33 15 0.11
34 65 0.46
36 2 0.01
37 5 0.04
38 1 0.01
39 12 0.08
40 42 0.30
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (34 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATTTTC
Found at i:25167 original size:20 final size:20
Alignment explanation
Indices: 25140--25397 Score: 230
Period size: 20 Copynumber: 13.8 Consensus size: 20
25130 GCGATTTTCT
*
25140 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
25160 CATTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
25180 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
25199 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
25213 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
25233 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
25253 CGTTGCGATAGTCAATTTCG
1 CGTTGCGATAGTCAAATTCG
* * *
25273 CATTGTGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
25287 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
25307 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
25327 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
25341 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
25361 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
25381 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
25398 GAATGTGTAT
Statistics
Matches: 190, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
14 30 0.16
16 3 0.02
17 1 0.01
18 2 0.01
19 17 0.09
20 137 0.72
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:25291 original size:54 final size:54
Alignment explanation
Indices: 25233--25389 Score: 237
Period size: 54 Copynumber: 2.9 Consensus size: 54
25223 GTCAAATTCG
*
25233 CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCAATTTCGCATTGTGATTATCC
1 CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCAATTTCGCATTGCGATTATCC
* *
25287 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCAATTTCGCATTGCGATTATCC
* *
25341 CGTTGCGATA-TTCAAATTCACGTTGCGATAGTC-ATATTCGCGTTGCGAT
1 CGTTGCGATAGTT-AAATTCGCGTTGCGATAGTCAAT-TTCGCATTGCGAT
25390 AGTCAAATGA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
53 2 0.02
54 92 0.98
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCAATTTCGCATTGCGATTATCC
Found at i:25327 original size:74 final size:74
Alignment explanation
Indices: 25105--25397 Score: 317
Period size: 74 Copynumber: 4.0 Consensus size: 74
25095 CATCATATTT
* * * * * *
25105 GCGTTGCGATAGTCTAA-TACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCATTGCGAT
1 GCGTTGCGATAGTC-AATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGAT
*
25169 AATCAAATTC
65 AGTCAAATTC
*
25179 GCGTTGCGATAGTC-ATTTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATA
1 GCGTTGCGATAGTCAATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATA
*
25243 GTTAAATTC
66 GTCAAATTC
* *
25252 GCGTTGCGATAGTCAATTTCGCATTGTGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATA
1 GCGTTGCGATAGTCAATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATA
**
25317 GTCATTTTC
66 GTCAAATTC
* *** * * * * *
25326 GCATTGCGATTA-TCCCGTT-GCGATATTCAAAT-TCACGTTGCGATAGTCATATTCGCGTTGCG
1 GCGTTGCGA-TAGTCAATTTCGC-AT-TGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCG
25388 ATAGTCAAAT
63 ATAGTCAAAT
25398 GAATGTGTAT
Statistics
Matches: 188, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
72 1 0.01
73 65 0.35
74 117 0.62
75 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (74 bp):
GCGTTGCGATAGTCAATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATA
GTCAAATTC
Found at i:25612 original size:11 final size:12
Alignment explanation
Indices: 25570--25612 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
25560 AAGGTGAAGC
*
25570 CGATTGTGATTG
1 CGATTTTGATTG
*
25582 GGATTTTGATTG
1 CGATTTTGATTG
25594 CGATTTTGATTG
1 CGATTTTGATTG
25606 C-ATTTTG
1 CGATTTTG
25613 CTTGACACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 6 0.21
12 22 0.79
ACGTcount: A:0.16, C:0.07, G:0.28, T:0.49
Consensus pattern (12 bp):
CGATTTTGATTG
Found at i:27660 original size:14 final size:14
Alignment explanation
Indices: 27641--27677 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
27631 TCCCGTGGCA
27641 TTTTCTTCGAGGAT
1 TTTTCTTCGAGGAT
*
27655 TTTTCTTCGGGGAT
1 TTTTCTTCGAGGAT
27669 TTCTTCTTC
1 TT-TTCTTC
27678 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.08, C:0.19, G:0.19, T:0.54
Consensus pattern (14 bp):
TTTTCTTCGAGGAT
Found at i:27901 original size:24 final size:24
Alignment explanation
Indices: 27867--27920 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
27857 CTGAAACATC
27867 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
27891 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
27915 ATCAAA
1 ATCAAA
27921 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:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:28750 original size:20 final size:20
Alignment explanation
Indices: 28722--28889 Score: 189
Period size: 20 Copynumber: 8.3 Consensus size: 20
28712 AATTCAGTGA
*
28722 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
28742 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
* *
28762 TGCGATCA--CATATTATCACGT
1 TGCGAT-AGTCAGA--ATCGCGT
*
28783 TGCGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
*
28803 TGCGATAGTCAAAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
28823 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
28844 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
* *
28864 TGCAATAGTCAGAATCGTGT
1 TGCGATAGTCAGAATCGCGT
28884 TGCGAT
1 TGCGAT
28890 CACGTGTTAT
Statistics
Matches: 126, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
19 5 0.04
20 88 0.70
21 28 0.22
22 5 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:28793 original size:61 final size:61
Alignment explanation
Indices: 28722--28910 Score: 306
Period size: 61 Copynumber: 3.1 Consensus size: 61
28712 AATTCAGTGA
* * *
28722 TGCGTTAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACATATTATCACGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
* *
28783 TGCGATAGTCAGAATCTCGTTGCGATAGTCAAAATCGCGTTGCGATCACGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
* * *
28844 TGCGATAGTCAGAATCGCGTTGCAATAGTCAGAATCGTGTTGCGATCACGTGTTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
28905 TGCGAT
1 TGCGAT
28911 TTACATATTC
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 118 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (61 bp):
TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
Found at i:28907 original size:41 final size:40
Alignment explanation
Indices: 28722--28889 Score: 180
Period size: 41 Copynumber: 4.2 Consensus size: 40
28712 AATTCAGTGA
* *
28722 TGCGTTAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGT
1 TGCGATAGTCATAATCGCGTTGCGATAGTCAGAATCGCGT
* *
28762 TGCGATCA--CATATTATCACGTTGCGATAGTCAGAATCTCGT
1 TGCGAT-AGTCATA--ATCGCGTTGCGATAGTCAGAATCGCGT
* **
28803 TGCGATAGTCAAAATCGCGTTGCGATCACGT-ATTATCGCGT
1 TGCGATAGTCATAATCGCGTTGCGAT-A-GTCAGAATCGCGT
* * *
28844 TGCGATAGTCAGAATCGCGTTGCAATAGTCAGAATCGTGT
1 TGCGATAGTCATAATCGCGTTGCGATAGTCAGAATCGCGT
28884 TGCGAT
1 TGCGAT
28890 CACGTGTTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
39 5 0.05
40 32 0.30
41 64 0.60
42 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
TGCGATAGTCATAATCGCGTTGCGATAGTCAGAATCGCGT
Found at i:29029 original size:20 final size:19
Alignment explanation
Indices: 29005--29051 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
28995 TGGAAACTGA
*
29005 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
29025 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
29044 ATTGCGAT
1 ATTGCGAT
29052 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:29041 original size:19 final size:19
Alignment explanation
Indices: 29017--29053 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29007 TGCGATAATG
*
29017 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
29036 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
29054 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:29492 original size:2 final size:2
Alignment explanation
Indices: 29485--29530 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
29475 AGATTTTGAT
29485 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
29527 TA TA
1 TA TA
29531 GGATTAAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36018 original size:2 final size:2
Alignment explanation
Indices: 36011--36047 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36001 GATAAAATAA
36011 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 A
36048 GGATTAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37435 original size:3 final size:3
Alignment explanation
Indices: 37415--37490 Score: 81
Period size: 3 Copynumber: 26.7 Consensus size: 3
37405 ATAACTTAAT
* *
37415 TAA TAA TAG TAA TAAA TAA TAA TAA TAA TAA T-A TAA TAG TAA -AA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
37459 TAA -AA TAA -AA TAA TAT TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37491 TTATTATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 10 0.16
3 48 0.79
4 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:37582 original size:19 final size:18
Alignment explanation
Indices: 37556--37604 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
37546 AAAGAAGATA
37556 AAAAAAATAAAGATA-AGG
1 AAAAAAATAAA-ATAGAGG
*
37574 AATAAAAATGAAATAGAGG
1 AA-AAAAATAAAATAGAGG
37593 AAAAAAATAAAA
1 AAAAAAATAAAA
37605 AAGGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
AAAAAAATAAAATAGAGG
Found at i:37634 original size:14 final size:14
Alignment explanation
Indices: 37610--37649 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
37600 TAAAAAAGGT
37610 AAATAGAAATAAATA
1 AAATAG-AATAAATA
37625 AAATAGAATAAATA
1 AAATAGAATAAATA
37639 AAATAGAATAA
1 AAATAGAATAA
37650 TAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AAATAGAATAAATA
Found at i:37642 original size:23 final size:22
Alignment explanation
Indices: 37593--37658 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
37583 GAAATAGAGG
* *
37593 AAAA-AAATAAAAAAGGTAAAT
1 AAAATAAATAAAATAGATAAAT
37614 AGAAATAAATAAAATAGAATAAAT
1 A-AAATAAATAAAATAG-ATAAAT
37638 AAAATAGAATAATAATA-ATAA
1 AAAATA-AATAA-AATAGATAA
37659 TAATACTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 19 0.50
24 11 0.29
25 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (22 bp):
AAAATAAATAAAATAGATAAAT
Found at i:37653 original size:3 final size:3
Alignment explanation
Indices: 37645--37678 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
37635 AATAAAATAG
* *
37645 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37679 GTAAGTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:37959 original size:19 final size:19
Alignment explanation
Indices: 37910--37960 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
37900 ATGCATATAA
*
37910 ATAAAATGTAA-AAAAAAG
1 ATAAAATATAATAAAAAAG
* * * *
37928 ATAAAACAAAATAAAACAT
1 ATAAAATATAATAAAAAAG
37947 ATAAAATATAATAA
1 ATAAAATATAATAA
37961 TAATAATGAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
ATAAAATATAATAAAAAAG
Found at i:37962 original size:3 final size:3
Alignment explanation
Indices: 37954--37996 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
37944 CATATAAAAT
*
37954 ATA ATA ATA ATA ATG A-A ATA TATA TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
37997 GTAAAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 28 0.78
4 7 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37972 original size:19 final size:19
Alignment explanation
Indices: 37950--37986 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37940 AAAACATATA
37950 AAATATA-ATAATAATAATG
1 AAATATATAT-ATAATAATG
37969 AAATATATATATAATAAT
1 AAATATATATATAATAAT
37987 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAATATATATATAATAATG
Found at i:38411 original size:37 final size:37
Alignment explanation
Indices: 38360--38464 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
38350 TTATGGATCT
* * *
38360 TATTTTTAACAGTTTGAATCTTAGTAAAACTCTATCC
1 TATTTTTAAGAGTTTGAATCATAGTAAAACTCTATCA
*
38397 TATTTTTAAGAGTTTGAATCATAGTAAAACTTTATCA
1 TATTTTTAAGAGTTTGAATCATAGTAAAACTCTATCA
** *
38434 TATTCATAGGAGTTTGAATCATAGTAAAACT
1 TATTTTTAAGAGTTTGAATCATAGTAAAACT
38465 ATAACGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (37 bp):
TATTTTTAAGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:41214 original size:38 final size:37
Alignment explanation
Indices: 41152--41240 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 37
41142 CCTAAACCCG
41152 AACCCGACCCGACCTGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGACCTGACCCGAATATCACACTT-AAAA
* *
41190 AACCCGACCTGA-CTCGACCTGAATATCACACTTAAAA
1 AACCCGACCCGACCT-GACCCGAATATCACACTTAAAA
41227 AACCCGACCCGACC
1 AACCCGACCCGACC
41241 CGAACAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 17 0.37
38 29 0.63
ACGTcount: A:0.37, C:0.38, G:0.11, T:0.13
Consensus pattern (37 bp):
AACCCGACCCGACCTGACCCGAATATCACACTTAAAA
Found at i:43442 original size:16 final size:16
Alignment explanation
Indices: 43417--43449 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43407 AATTCAATCT
43417 TGAAAAAATAAT-AAA
1 TGAAAAAATAATCAAA
43432 TGAAAATAATAATCAAA
1 TGAAAA-AATAATCAAA
43449 T
1 T
43450 AATTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
TGAAAAAATAATCAAA
Found at i:43503 original size:21 final size:20
Alignment explanation
Indices: 43466--43509 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
43456 AAATGTGTAA
43466 AAAAAATATAAGATAAAAAAT
1 AAAAAATATAAGAT-AAAAAT
*
43487 AAAAAATATACTG-TAAAAAT
1 AAAAAATATA-AGATAAAAAT
43507 AAA
1 AAA
43510 GATATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 11 0.52
22 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAAAATATAAGATAAAAAT
Found at i:45015 original size:24 final size:25
Alignment explanation
Indices: 44987--45038 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
44977 ACACTAGTTT
*
44987 TTATTTCA-TTTGTTTT-ATTTATTA
1 TTATTT-ATTTTGTTTTAATATATTA
45011 TTA-TTATTTTGTTTTAATATATTA
1 TTATTTATTTTGTTTTAATATATTA
45035 TTAT
1 TTAT
45039 ATATATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 10 0.42
24 13 0.54
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (25 bp):
TTATTTATTTTGTTTTAATATATTA
Found at i:46359 original size:12 final size:12
Alignment explanation
Indices: 46342--46406 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
46332 TTAATTCCTT
46342 TTATTTTAATTA
1 TTATTTTAATTA
*
46354 TTATTTGCAA-TA
1 TTATTT-TAATTA
46366 TTATTTTATTATTA
1 TTATTTTA--ATTA
*
46380 TTACTTTTTATTA
1 TTA-TTTTAATTA
46393 TTATTCTT-ATTA
1 TTATT-TTAATTA
46405 TT
1 TT
46407 TATATAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 22 0.50
13 12 0.27
14 5 0.11
15 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:46370 original size:3 final size:3
Alignment explanation
Indices: 46364--46406 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
46354 TTATTTGCAA
* *
46364 TAT TAT T-T TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
46407 TATATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:46390 original size:16 final size:15
Alignment explanation
Indices: 46369--46406 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
46359 TGCAATATTA
46369 TTTTATTATTATTACT
1 TTTTATTATTATT-CT
46385 TTTTATTATTATTCT
1 TTTTATTATTATTCT
*
46400 TATTATT
1 TTTTATT
46407 TATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTATTATTCT
Found at i:46409 original size:16 final size:15
Alignment explanation
Indices: 46364--46406 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
46354 TTATTTGCAA
46364 TATTATT-TTATTAT
1 TATTATTCTTATTAT
*
46378 TATTA--CTTTTTAT
1 TATTATTCTTATTAT
46391 TATTATTCTTATTAT
1 TATTATTCTTATTAT
46406 T
1 T
46407 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 5 0.21
15 8 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTCTTATTAT
Found at i:46515 original size:17 final size:17
Alignment explanation
Indices: 46486--46518 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46476 CTTTTAATAA
46486 TTATATTTTAATATTAT
1 TTATATTTTAATATTAT
46503 TTAT-TTTTCAATATTA
1 TTATATTTT-AATATTA
46519 AGAAAAGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTTAATATTAT
Found at i:46617 original size:20 final size:19
Alignment explanation
Indices: 46592--46633 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
46582 TTACTTTATA
46592 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
46612 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
46631 AAT
1 AAT
46634 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:46679 original size:120 final size:117
Alignment explanation
Indices: 46491--46725 Score: 305
Period size: 120 Copynumber: 2.0 Consensus size: 117
46481 AATAATTATA
* * *
46491 TTTTAATATTATTTATTTTTCAATATTAAGAAAAGGCAGTCTTAAAACAACTGGATGTCTATTTT
1 TTTTAATATTATTTATTTTTCAATATAAAGAAAAGGCAGTCTTAAAACAACTAGAAGTCTATTTT
* *
46556 CTGATATTTTTAAATAAATAAATATCTTACTTTATAAAT-TATATATTAATTG
66 CTGATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTG
* * **
46608 TTTTAATTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGC-ACATAGAAGTC-
1 TTTTAA-TA-TTATTTATTTTTCAATAT-AAAGAAAAG-GCAGTCTTAAAACAAC-TAGAAGTCT
*
46671 ATTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
61 ATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
46726 ATTTTTCATA
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
117 6 0.06
118 2 0.02
119 26 0.25
120 52 0.51
121 16 0.16
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.46
Consensus pattern (117 bp):
TTTTAATATTATTTATTTTTCAATATAAAGAAAAGGCAGTCTTAAAACAACTAGAAGTCTATTTT
CTGATATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTG
Found at i:48911 original size:15 final size:15
Alignment explanation
Indices: 48875--48913 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
48865 AATTTACATT
48875 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
48889 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
48904 TTTGCATTTG
1 TTTACATTTG
48914 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:55189 original size:76 final size:75
Alignment explanation
Indices: 55094--55266 Score: 211
Period size: 76 Copynumber: 2.3 Consensus size: 75
55084 TTAACAAGAG
* * *
55094 GCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATACTGATGTATCTTGAAT
1 GCAAATGTTGGGGCATGCTGAAAACACTTTTCAATCAGAATCAAGAATACTGATGTATCTTGAAC
*
55159 GTTTATATCA
66 GTTCATATCA
* ** * * ** *
55169 GCAAAATGCTGGGGCATGCTGAAAGTATTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGAA
1 GC-AAATGTTGGGGCATGCTGAAAACACTTTTCAATCAGAATCAAGAATACTGATGTATCTTGAA
*
55234 CGTTCGTATCA
65 CGTTCATATCA
*
55245 GCAATTGTTGGGGCATGCTGAA
1 GCAAATGTTGGGGCATGCTGAA
55267 GGCCCACATC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 20 0.24
76 62 0.76
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (75 bp):
GCAAATGTTGGGGCATGCTGAAAACACTTTTCAATCAGAATCAAGAATACTGATGTATCTTGAAC
GTTCATATCA
Found at i:56611 original size:22 final size:23
Alignment explanation
Indices: 56560--56615 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
56550 ATCTACACTC
*
56560 TTCAAAGATGATAGATTCCCTTT
1 TTCAAAGATGATAAATTCCCTTT
* *
56583 TTAAAAGATGATAAATTCTC-TT
1 TTCAAAGATGATAAATTCCCTTT
56605 TTCAAAGATGA
1 TTCAAAGATGA
56616 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (23 bp):
TTCAAAGATGATAAATTCCCTTT
Found at i:57220 original size:113 final size:113
Alignment explanation
Indices: 57051--57892 Score: 1212
Period size: 113 Copynumber: 7.6 Consensus size: 113
57041 ATTTGTAGAA
* *
57051 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATAAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
57116 CAACTTTTCGCTTGAATTTATCATTCGATGGATCAGTATTACCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
57164 GAGTTCATAATGAGAAGAAGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
57229 CAACTTTTCACTTGAATTCATCATTCGATGGATCAACATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
57277 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
57342 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
57390 GAGTTCATAAT--G-AG-A---A---G-A-AA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
57442 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCATGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
57490 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
57555 CAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
* * *
57603 GAGTTCGTAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
57668 CAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
* * *
57716 GAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTG--
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
57779 ------TT-GCTCGAATTCATCACTCGATGGATCA-AATTTTCCAGAG-A
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCA-TTGCCAG-GTC
* * *
57820 GAGTTCATAATGAGAAAAATTCATCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
57884 CAATCTTTT
66 CAA-CTTTT
57893 GCATGATTCT
Statistics
Matches: 668, Mismatches: 37, Indels: 49
0.89 0.05 0.06
Matches are distributed among these distances:
100 90 0.13
101 2 0.00
102 2 0.00
103 33 0.05
104 56 0.08
105 3 0.00
106 1 0.00
107 1 0.00
109 1 0.00
110 3 0.00
111 2 0.00
112 4 0.01
113 470 0.70
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
Found at i:57564 original size:213 final size:215
Alignment explanation
Indices: 57190--57780 Score: 934
Period size: 213 Copynumber: 2.7 Consensus size: 215
57180 GAAGTCATCT
* *
57190 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTC
1 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
* *
57255 GATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
66 GATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
*
57320 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCC
131 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGACCAGCATTGCC
*
57385 AGGTCGAGTTCATAAT-G-A
196 AGGGCGAGTTCATAATAGAA
57403 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
1 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
*
57468 GATGGATCAGCATTGCCATGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
66 GATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
*
57533 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCC
131 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGACCAGCATTGCC
*
57598 AGGGCGAGTTCGTAATAAGAA
196 AGGGCGAGTTCATAAT-AGAA
*
57619 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAACTTGTTCAACTTTTCGCTTGAA
1 G-A---A---G-A-AA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAA
* * * *
57684 TTTATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATAAGAAGAACTCATCTGAAGAAA
56 TTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
*
57749 GAAGAAGAAATTCATAATGAGAAGAACTTGTT
121 GAAGAAGAAGTTCATAATGAGAAGAACTTGTT
57781 GCTCGAATTC
Statistics
Matches: 349, Mismatches: 16, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
213 202 0.58
215 1 0.00
216 2 0.01
217 1 0.00
220 1 0.00
223 1 0.00
224 1 0.00
225 2 0.01
226 138 0.40
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (215 bp):
GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
GATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGACCAGCATTGCC
AGGGCGAGTTCATAATAGAA
Found at i:57684 original size:326 final size:326
Alignment explanation
Indices: 57077--57734 Score: 1127
Period size: 326 Copynumber: 2.0 Consensus size: 326
57067 GAACTCATCT
* *
57077 GAAGAAGGAAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTC
1 GAAGAAAGAAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
* * *
57142 GATGGATCAGTATTACCAGGTCGAGTTCATAATGAGAAGAAGTCATCTGAAGAAGGAAGAAGAAG
66 GATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
*
57207 TTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAACATTGCC
131 TTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGACCAACATTGCC
* *
57272 AGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
196 AGGGCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * *
57337 TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATG
261 TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATA
57402 A
326 A
* *
57403 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
1 GAAGAAAGAAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
* *
57468 GATGGATCAGCATTGCCATGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
66 GATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
* * *
57533 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCC
131 TTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGACCAACATTGCC
* *
57598 AGGGCGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAAC
196 AGGGCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
*
57663 TTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATA
261 TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATA
57728 A
326 A
57729 GAAGAA
1 GAAGAA
57735 CTCATCTGAA
Statistics
Matches: 311, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
326 311 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (326 bp):
GAAGAAAGAAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTC
GATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
TTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGACCAACATTGCC
AGGGCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATA
A
Found at i:59560 original size:12 final size:12
Alignment explanation
Indices: 59543--59607 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
59533 TTAATTCCTT
59543 TTATTTTAATTA
1 TTATTTTAATTA
*
59555 TTATTTGCAA-TA
1 TTATTT-TAATTA
59567 TTATTTTATTATTA
1 TTATTTTA--ATTA
*
59581 TTACTTTTTATTA
1 TTA-TTTTAATTA
59594 TTATTCTT-ATTA
1 TTATT-TTAATTA
59606 TT
1 TT
59608 TATATAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 22 0.50
13 12 0.27
14 5 0.11
15 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:59571 original size:3 final size:3
Alignment explanation
Indices: 59565--59607 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
59555 TTATTTGCAA
* *
59565 TAT TAT T-T TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
59608 TATATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:59591 original size:16 final size:15
Alignment explanation
Indices: 59570--59607 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
59560 TGCAATATTA
59570 TTTTATTATTATTACT
1 TTTTATTATTATT-CT
59586 TTTTATTATTATTCT
1 TTTTATTATTATTCT
*
59601 TATTATT
1 TTTTATT
59608 TATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTATTATTCT
Found at i:59610 original size:16 final size:15
Alignment explanation
Indices: 59565--59607 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
59555 TTATTTGCAA
59565 TATTATT-TTATTAT
1 TATTATTCTTATTAT
*
59579 TATTA--CTTTTTAT
1 TATTATTCTTATTAT
59592 TATTATTCTTATTAT
1 TATTATTCTTATTAT
59607 T
1 T
59608 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 5 0.21
15 8 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTCTTATTAT
Found at i:59823 original size:20 final size:19
Alignment explanation
Indices: 59798--59839 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
59788 TTATTTTATA
59798 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
59818 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
59837 AAT
1 AAT
59840 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:59828 original size:119 final size:120
Alignment explanation
Indices: 59702--59931 Score: 286
Period size: 120 Copynumber: 1.9 Consensus size: 120
59692 TTTTAATATA
* * * *
59702 TATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCTG
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGT-CATTTTCTG
* *
59765 ATATTTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTGTTTTAAT
65 ATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTGTTTTAAT
* ** *** * *
59821 TATTTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTTAAGGTACCTAGAAGTCATTTTTTGA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGA
*
59886 TATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
66 TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
59932 ATTTTTCATA
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
119 29 0.31
120 45 0.48
121 19 0.20
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (120 bp):
TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGA
TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTGTTTTAAT
Found at i:60302 original size:64 final size:64
Alignment explanation
Indices: 60225--60354 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
60215 AAGGCCGATG
*
60225 GCGACTCTCAAATTATTTTAAACTATTTATTCACATCACTTTTTCCGTCAAGTAAAAAATTCGT
1 GCGACTCTCAAATTATTTTAAACCATTTATTCACATCACTTTTTCCGTCAAGTAAAAAATTCGT
*
60289 GCGACTCTCAAATTATTTTAAACCATTTATTCACATCATTTTTTCCGTCAAGTAAAAAATTCGT
1 GCGACTCTCAAATTATTTTAAACCATTTATTCACATCACTTTTTCCGTCAAGTAAAAAATTCGT
60353 GC
1 GC
60355 CCTGACGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.38
Consensus pattern (64 bp):
GCGACTCTCAAATTATTTTAAACCATTTATTCACATCACTTTTTCCGTCAAGTAAAAAATTCGT
Found at i:61232 original size:19 final size:18
Alignment explanation
Indices: 61190--61233 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
61180 TTTAAAGTAA
* *
61190 TTTTAAGAAAATTATTTT
1 TTTTAAAAAAATTATTTG
*
61208 TTTTAAAAAAATTGGTTTG
1 TTTTAAAAAAATT-ATTTG
61227 TTTTAAA
1 TTTTAAA
61234 CCAAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (18 bp):
TTTTAAAAAAATTATTTG
Found at i:61643 original size:40 final size:40
Alignment explanation
Indices: 61547--61635 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
61537 AATAAAATTG
61547 ACAAATAAATAGGTAAAATAATGATGAAAATAATAATAAA
1 ACAAATAAATAGGTAAAATAATGATGAAAATAATAATAAA
*
61587 ACAAATAAATAGGTAAAGTAATGATGAAAATAATAATAAA
1 ACAAATAAATAGGTAAAATAATGATGAAAATAATAATAAA
61627 ACAAATAAA
1 ACAAATAAA
61636 AAAGTAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.21
Consensus pattern (40 bp):
ACAAATAAATAGGTAAAATAATGATGAAAATAATAATAAA
Found at i:62036 original size:15 final size:15
Alignment explanation
Indices: 62016--62067 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
62006 TGAGACATTA
62016 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
62031 CCCGCCCTGCATCCG
1 CCCGCCCCGCATCCG
*
62046 CCCGCCCCACATCCG
1 CCCGCCCCGCATCCG
62061 CCCGCCC
1 CCCGCCC
62068 AGTTAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.08, C:0.67, G:0.17, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:63241 original size:34 final size:34
Alignment explanation
Indices: 63203--63269 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
63193 GGCGTCGTTC
63203 TCTCTTCTCTTTCCCCAATCTTTTATTTTGCCTT
1 TCTCTTCTCTTTCCCCAATCTTTTATTTTGCCTT
* **
63237 TCTCTTCTCTTTCTCCGGTCTTTTATTTTGCCT
1 TCTCTTCTCTTTCCCCAATCTTTTATTTTGCCT
63270 CTATAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.06, C:0.31, G:0.06, T:0.57
Consensus pattern (34 bp):
TCTCTTCTCTTTCCCCAATCTTTTATTTTGCCTT
Found at i:65056 original size:105 final size:105
Alignment explanation
Indices: 64874--65086 Score: 354
Period size: 105 Copynumber: 2.0 Consensus size: 105
64864 GGTTGGATTC
* * * *
64874 ATGCTTGAAATTGAATGAAAATCTTGCTCTAGGTACATAGTTAGGTTCGGCCACAAGGGGAAATT
1 ATGCTTGAAATTGAATGAAAAGCTTGCTCTAAGTACATACTTAGGTTCGACCACAAGGGGAAATT
* *
64939 AGGGGGAAATTATTGAAAAATTTCGTATGGTCTAGAATTG
66 AGGGGAAAATTATTGAAAAATTTCCTATGGTCTAGAATTG
*
64979 ATGCTTGAAATTGAATGAAAAGCTTGCTCTAAGTACATACTTAGGTTTGACCACAAGGGGAAATT
1 ATGCTTGAAATTGAATGAAAAGCTTGCTCTAAGTACATACTTAGGTTCGACCACAAGGGGAAATT
*
65044 AGGGGAAAATTATTGAAAATTTTCCTATGGTCTAGAATTG
66 AGGGGAAAATTATTGAAAAATTTCCTATGGTCTAGAATTG
65084 ATG
1 ATG
65087 TTAAATGTGT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (105 bp):
ATGCTTGAAATTGAATGAAAAGCTTGCTCTAAGTACATACTTAGGTTCGACCACAAGGGGAAATT
AGGGGAAAATTATTGAAAAATTTCCTATGGTCTAGAATTG
Done.