Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008423.1 Hibiscus syriacus cultivar Beakdansim tig00111206_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: 1633377
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:455822 original size:28 final size:27
Alignment explanation
Indices: 455759--455822 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
455749 GCTTTACTGC
*
455759 TTTCTATGAAACTTTATTGCTTTATTTT
1 TTTC-ATGAAACTTTATTGCTTTATTTA
* *
455787 TTTCCATGAGACTTTATTGCTTTGTTGTA
1 TTT-CATGAAACTTTATTGCTTTATT-TA
455816 TTTCATG
1 TTTCATG
455823 TGTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (27 bp):
TTTCATGAAACTTTATTGCTTTATTTA
Found at i:461151 original size:22 final size:22
Alignment explanation
Indices: 461126--461174 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
461116 TAATAGATTA
*
461126 TTTATATTATGGA-TTATTAAAT
1 TTTATATTATGAACTT-TTAAAT
*
461148 TTTATATTTTGAACTTTTAAAT
1 TTTATATTATGAACTTTTAAAT
461170 TTTAT
1 TTTAT
461175 GTTCGGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTATATTATGAACTTTTAAAT
Found at i:462810 original size:21 final size:20
Alignment explanation
Indices: 462724--462881 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
462714 AAATGACCAA
**
462724 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
462743 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
462763 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
462783 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
462804 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
462825 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
462845 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
462866 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
462882 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:462913 original size:20 final size:20
Alignment explanation
Indices: 462848--463097 Score: 229
Period size: 20 Copynumber: 12.5 Consensus size: 20
462838 CGATTTTCCA
* ** *
462848 AAATCGCAACGCGAATATGA
1 AAATCGCAACGTGAATCCGT
* *
462868 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
462888 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
462908 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
462928 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
462948 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
462968 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
462988 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
463008 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
463028 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
463048 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
463068 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
463088 AAATCACAAC
1 AAATCGCAAC
463098 ACTGAAATTT
Statistics
Matches: 195, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
20 194 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:463819 original size:24 final size:24
Alignment explanation
Indices: 463780--463826 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
463770 AAATTTGGTC
463780 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
463804 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
463827 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:464018 original size:12 final size:12
Alignment explanation
Indices: 464001--464025 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
463991 ATATAATCCT
464001 GAAGAAGAAAAA
1 GAAGAAGAAAAA
464013 GAAGAAGAAAAA
1 GAAGAAGAAAAA
464025 G
1 G
464026 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:466401 original size:19 final size:19
Alignment explanation
Indices: 466361--466458 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
466351 GATTCTCTCG
466361 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
466381 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
466400 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
466414 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
466433 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
466452 TTGCGAT
1 TTGCGAT
466459 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 35 0.51
20 14 0.20
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:466455 original size:52 final size:53
Alignment explanation
Indices: 466342--466458 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
466332 GAAATGAAAA
466342 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
*
466395 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
466447 TCGCATTGCGAT
1 TCGCATTGCGAT
466459 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
Found at i:466569 original size:33 final size:33
Alignment explanation
Indices: 466517--466678 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
466507 CCATTACATT
466517 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
466551 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
466583 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
466622 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
466655 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
466679 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 54 0.51
34 10 0.10
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:466573 original size:19 final size:19
Alignment explanation
Indices: 466517--466684 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
466507 CCATTACATT
466517 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
466537 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
466551 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
466570 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
466589 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
466603 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
466622 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
466641 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
466655 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
466674 TCGCATTGCGA
1 TCGCAATGCGA
466685 TTCTCCCGTT
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.24
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 71 0.57
20 6 0.05
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:466596 original size:52 final size:52
Alignment explanation
Indices: 466517--466684 Score: 309
Period size: 52 Copynumber: 3.2 Consensus size: 52
466507 CCATTACATT
466517 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
466570 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
466622 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
466674 TCGCATTGCGA
1 TCGCAATGCGA
466685 TTCTCCCGTT
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 104 0.92
53 9 0.08
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:466733 original size:19 final size:19
Alignment explanation
Indices: 466693--466790 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
466683 GATTCTCCCG
466693 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
466713 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
466732 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
466746 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
466765 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
466784 TTGCGAT
1 TTGCGAT
466791 AGTCAATTTT
Statistics
Matches: 71, 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 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:466787 original size:52 final size:53
Alignment explanation
Indices: 466674--466790 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
466664 GAAATTAAAA
466674 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
466727 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
466779 TCGCATTGCGAT
1 TCGCATTGCGAT
466791 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:466916 original size:14 final size:14
Alignment explanation
Indices: 466897--466933 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
466887 CATCAATTAC
466897 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
466911 ACAAATCATCTTTT
1 ACAAATCAACTTTT
466925 ACAAATCAA
1 ACAAATCAA
466934 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:468429 original size:14 final size:14
Alignment explanation
Indices: 468410--468499 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
468400 TTGAAATGAA
468410 AATCGCAACGAGAG
1 AATCGCAACGAGAG
468424 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
468441 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
468457 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
468476 AATCGCAACGAGAG
1 AATCGCAACGAGAG
468490 AATCGCAACG
1 AATCGCAACG
468500 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:468447 original size:33 final size:33
Alignment explanation
Indices: 468402--468516 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
468392 TCTTTTGGTT
468402 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
468435 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
468468 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
468501 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
468517 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:468448 original size:19 final size:18
Alignment explanation
Indices: 468409--468521 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
468399 GTTGAAATGA
468409 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
468424 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
468441 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
468457 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
468474 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
468490 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
468507 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
468522 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:468552 original size:14 final size:14
Alignment explanation
Indices: 468533--468589 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
468523 TTTGGTTTCG
468533 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
468547 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
468566 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
468580 CGTTGCGATT
1 CGTTGCGATT
468590 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:468565 original size:33 final size:33
Alignment explanation
Indices: 468517--468597 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
468507 AAAATCGCAA
**
468517 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
468550 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
468583 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
468598 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:468600 original size:21 final size:21
Alignment explanation
Indices: 468574--468649 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
468564 CGCGTTGCGA
468574 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
468595 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
468615 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
468636 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
468650 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:468630 original size:41 final size:41
Alignment explanation
Indices: 468573--468650 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
468563 TCGCGTTGCG
*
468573 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
468614 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
468651 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:468776 original size:33 final size:33
Alignment explanation
Indices: 468729--468799 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
468719 AATACTAACT
* *
468729 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
468762 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
468795 TGAAA
1 TGAAA
468800 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:469206 original size:20 final size:20
Alignment explanation
Indices: 469181--469374 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
469171 CTTTAAATAT
469181 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
469201 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
469223 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
469242 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
469262 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
469282 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
469302 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
469322 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
469342 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
469362 CGCGTTGCGATTT
1 CGCGTTGCGATTT
469375 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:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:469368 original size:60 final size:60
Alignment explanation
Indices: 469181--469374 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
469171 CTTTAAATAT
**
469181 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
469242 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
469302 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
469362 CGCGTTGCGATTT
1 CGCGTTGCGATTT
469375 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:469391 original size:21 final size:21
Alignment explanation
Indices: 469361--469443 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
469351 ATTTTCATAT
*
469361 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
469382 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
469403 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
469424 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
469444 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:469434 original size:42 final size:43
Alignment explanation
Indices: 469341--469439 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
469331 ATTTATGTGT
* *
469341 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
469382 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
469424 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
469440 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:469638 original size:21 final size:20
Alignment explanation
Indices: 469614--469653 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
469604 AAAATACTAA
*
469614 ATAAACTAAAGAGGAAAAAAT
1 ATAAACTAAA-AGAAAAAAAT
*
469635 ATAAATTAAAAGAAAAAAA
1 ATAAACTAAAAGAAAAAAA
469654 AGTTGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (20 bp):
ATAAACTAAAAGAAAAAAAT
Found at i:470836 original size:21 final size:21
Alignment explanation
Indices: 470765--470836 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
470755 AACAAAAACA
* *
470765 ATAAATA-AATAAATAAATAAT
1 ATAAATATAATATATATAT-AT
*
470786 ATAACACATAATATATATATAT
1 ATAA-ATATAATATATATATAT
* *
470808 ATATATATAATATAT-TTTAT
1 ATAAATATAATATATATATAT
470828 ATTAAATAT
1 A-TAAATAT
470837 TATAATGGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.12
21 20 0.49
22 7 0.17
23 9 0.22
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAATATAATATATATATAT
Found at i:471500 original size:45 final size:45
Alignment explanation
Indices: 471447--471546 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
471437 TAAAGTGATC
471447 CAAACATAAAGATGATTAAAACCACAAGTTCACATAAAATGAGTT
1 CAAACATAAAGATGATTAAAACCACAAGTTCACATAAAATGAGTT
** *
471492 TGAACATAAAGATGATTAAAATCACAAGTTCACATAAAATGAGTT
1 CAAACATAAAGATGATTAAAACCACAAGTTCACATAAAATGAGTT
471537 CAAACATAAA
1 CAAACATAAA
471547 ATTAAAGTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (45 bp):
CAAACATAAAGATGATTAAAACCACAAGTTCACATAAAATGAGTT
Found at i:474829 original size:13 final size:12
Alignment explanation
Indices: 474806--474857 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
474796 GAAAAGAAAT
474806 AAAATAAAATAA
1 AAAATAAAATAA
474818 AAAATAAAAATAA
1 AAAAT-AAAATAA
**
474831 AAAATTGAAT--
1 AAAATAAAATAA
*
474841 ACAATAAAATAA
1 AAAATAAAATAA
474853 AAAAT
1 AAAAT
474858 GTTAAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
10 7 0.23
12 12 0.39
13 12 0.39
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:476118 original size:13 final size:13
Alignment explanation
Indices: 476096--476143 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
476086 TTGGAGTTAA
476096 AAAAAT-AAAAAC
1 AAAAATAAAAAAC
476108 AAAAATAAAAAAC
1 AAAAATAAAAAAC
* *
476121 AAAAACAAATAAAT
1 AAAAATAAA-AAAC
476135 AAAAATAAA
1 AAAAATAAA
476144 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 6 0.19
13 14 0.45
14 11 0.35
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAATAAAAAAC
Found at i:476119 original size:14 final size:14
Alignment explanation
Indices: 476102--476148 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
476092 TTAAAAAAAT
476102 AAAAACAAAAAT-A
1 AAAAACAAAAATAA
*
476115 AAAAACAAAAACAA
1 AAAAACAAAAATAA
* *
476129 ATAAATAAAAATAA
1 AAAAACAAAAATAA
476143 ATAAAA
1 A-AAAA
476149 AATAAGTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.41
14 13 0.48
15 3 0.11
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAACAAAAATAA
Found at i:476142 original size:10 final size:10
Alignment explanation
Indices: 476096--476149 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
476086 TTGGAGTTAA
476096 AAAAATAAA-
1 AAAAATAAAT
*
476105 AACAA-AAAT
1 AAAAATAAAT
*
476114 AAAAA-ACAAA
1 AAAAATA-AAT
476124 AACAAATAAAT
1 AA-AAATAAAT
476135 AAAAATAAAT
1 AAAAATAAAT
476145 AAAAA
1 AAAAA
476150 ATAAGTATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 3 0.08
9 9 0.24
10 17 0.46
11 7 0.19
12 1 0.03
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:476313 original size:38 final size:38
Alignment explanation
Indices: 476220--476396 Score: 181
Period size: 37 Copynumber: 4.7 Consensus size: 38
476210 GTTTTTCATC
*
476220 ATGTTTTCTAAAA-TATATA-T-TATAT-ATTTTCAAAA
1 ATGTTTTC-AAAACTATATATTATATATAATTTTGAAAA
476255 ATGTTTT-AAAACTATATATTATATATAATTTTGAAAA
1 ATGTTTTCAAAACTATATATTATATATAATTTTGAAAA
**
476292 ATGTTTTCAAAACTATATATTATATAT-ATTTTCG-ATT
1 ATGTTTTCAAAACTATATATTATATATAATTTT-GAAAA
* * *
476329 TTTTTTTCAAAACTACT-TATTATATATATTTTTGAAAA
1 ATGTTTTCAAAACTA-TATATTATATATAATTTTGAAAA
* *
476367 ATGTTTTCAAAATTACATATATTATGTATA
1 ATGTTTTCAAAACT--ATATATTATATATA
476397 TATTAAATAG
Statistics
Matches: 118, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
33 4 0.03
34 6 0.05
35 8 0.07
36 5 0.04
37 46 0.39
38 37 0.31
39 1 0.01
40 11 0.09
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (38 bp):
ATGTTTTCAAAACTATATATTATATATAATTTTGAAAA
Found at i:476362 original size:75 final size:73
Alignment explanation
Indices: 476220--476397 Score: 209
Period size: 75 Copynumber: 2.4 Consensus size: 73
476210 GTTTTTCATC
476220 ATGTTTTCTAAAATATATA-T-TATATATTTTCAAAAATGTTTTAAAACTATATATTATATATAA
1 ATGTTTTC-AAAATATATATTATATATATTTTCAAAAATGTTTTAAAACTATATATTATATATAA
476283 TTTTGAAAA
65 TTTTGAAAA
* *** *
476292 ATGTTTTCAAAACTATATATTATATATATTTTCGATTTTTTTTTCAAAACTACT-TATTATATAT
1 ATGTTTTCAAAA-TATATATTATATATATTTTCAAAAATGTTTT-AAAACTA-TATATTATATAT
*
476356 ATTTTTGAAAA
63 AATTTTGAAAA
*
476367 ATGTTTTCAAAATTACATATATTATGTATAT
1 ATGTTTTCAAAA-T--ATATATTATATATAT
476398 ATTAAATAGA
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
71 4 0.04
72 14 0.15
73 1 0.01
74 17 0.19
75 40 0.44
76 1 0.01
77 14 0.15
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (73 bp):
ATGTTTTCAAAATATATATTATATATATTTTCAAAAATGTTTTAAAACTATATATTATATATAAT
TTTGAAAA
Found at i:481909 original size:23 final size:23
Alignment explanation
Indices: 481849--481912 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
481839 CAACTCATAT
481849 AAATACACCAG-AGTGCCACGTAG
1 AAATACA-CAGAAGTGCCACGTAG
* *
481872 AATTACACCGAAGTGCCACGTAG
1 AAATACACAGAAGTGCCACGTAG
* *
481895 AAATGCACAGTAGTGCCA
1 AAATACACAGAAGTGCCA
481913 TATAAGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 2 0.06
23 32 0.94
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (23 bp):
AAATACACAGAAGTGCCACGTAG
Found at i:485110 original size:23 final size:23
Alignment explanation
Indices: 485084--485144 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
485074 TATGGCATTA
*
485084 CGGTGCATTTCTACGCGGCACTT
1 CGGTGCATTTCTACGCGGCACTC
* * *
485107 CGGTGTAATTCTACGTGGCACTC
1 CGGTGCATTTCTACGCGGCACTC
*
485130 CGGTGCATTTATACG
1 CGGTGCATTTCTACG
485145 AGCTGTGGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCATTTCTACGCGGCACTC
Found at i:488610 original size:19 final size:19
Alignment explanation
Indices: 488586--488649 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
488576 TAATTTGTGT
488586 ATCGATGCATGAGTAGTGC
1 ATCGATGCATGAGTAGTGC
488605 ATCGATGCATGAGTAGTGC
1 ATCGATGCATGAGTAGTGC
488624 ATCGATGCATGAGTAGTGC
1 ATCGATGCATGAGTAGTGC
488643 ATCGATG
1 ATCGATG
488650 AATTCTTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (19 bp):
ATCGATGCATGAGTAGTGC
Found at i:495198 original size:17 final size:17
Alignment explanation
Indices: 495173--495208 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
495163 TATTATAATA
* *
495173 AAATTATAACATTAGTT
1 AAATCATAAAATTAGTT
495190 AAATCATAAAATTAGTT
1 AAATCATAAAATTAGTT
495207 AA
1 AA
495209 TTTTATAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATCATAAAATTAGTT
Found at i:496675 original size:9 final size:9
Alignment explanation
Indices: 496661--496692 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
496651 GAGGTTTAAA
496661 TTAAAAATT
1 TTAAAAATT
496670 TTAAAAAATT
1 TT-AAAAATT
496680 TTAAAAATT
1 TTAAAAATT
496689 TTAA
1 TTAA
496693 GGTTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAAATT
Found at i:496678 original size:10 final size:10
Alignment explanation
Indices: 496663--496692 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
496653 GGTTTAAATT
496663 AAAAATTTTA
1 AAAAATTTTA
496673 AAAAATTTT-
1 AAAAATTTTA
496682 AAAAATTTTA
1 AAAAATTTTA
496692 A
1 A
496693 GGTTTAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:501861 original size:56 final size:56
Alignment explanation
Indices: 501799--501941 Score: 196
Period size: 58 Copynumber: 2.5 Consensus size: 56
501789 TTTTATTAAG
* * *
501799 TAATTTATTTATTGGACATGATTAATTAAATTAATTATAATCATTACAAGTTAAAA
1 TAATTTATTTATTGAACATGATTAATTAAATTAACTATAATCATTAAAAGTTAAAA
* * * *
501855 TAATTTATTGGCATTGAATATGAATAATTAAATTAGCTATAATCATTAAAAGTTAAAA
1 TAATTTATT--TATTGAACATGATTAATTAAATTAACTATAATCATTAAAAGTTAAAA
*
501913 CAATTTATTTATTGAACATGATTAATTAA
1 TAATTTATTTATTGAACATGATTAATTAA
501942 CTAATTAATT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
56 26 0.35
58 48 0.65
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (56 bp):
TAATTTATTTATTGAACATGATTAATTAAATTAACTATAATCATTAAAAGTTAAAA
Found at i:502091 original size:22 final size:22
Alignment explanation
Indices: 502058--502121 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
502048 ATTTCTTGAT
*
502058 ATTGAAAATTTGAATAACATGAG
1 ATTG-AAATTTGAACAACATGAG
502081 ATTGAAATTTGAACAACATGAG
1 ATTGAAATTTGAACAACATGAG
502103 ATTGAAATTTGAACAACAT
1 ATTGAAATTTGAACAACAT
502122 AAAATTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 36 0.90
23 4 0.10
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.30
Consensus pattern (22 bp):
ATTGAAATTTGAACAACATGAG
Found at i:505557 original size:158 final size:158
Alignment explanation
Indices: 505259--505561 Score: 405
Period size: 158 Copynumber: 1.9 Consensus size: 158
505249 AAAAGAAGGG
* * * *
505259 GAAGGGGAAGGGGAAGAGTCTCAGTTGAAGAAGGGGAAAGGGGAATAAATAATAGGATTTAGGAT
1 GAAGGGGAAGAGGAAGAGCCTCAGTTGAAGAAGGAGAAAGAGGAATAAATAATAGGATTTAGGAT
* * * * *
505324 TTAGGGGTAAGGAAGAAGATGAACAATGCTTTGATTTGGGGGGTTTTGATCTTTAAAAATAGGTT
66 TTAGGGGTAAGGAAGAAGATAAACAATGCTTCGATTTGGGGGGGTTTGATATTTAAAAACAGGTT
505389 GGGGAAAAGTGTTTGTAAGGATCAAACA
131 GGGGAAAAGTGTTTGTAAGGATCAAACA
** * *
505417 GAAGGGGAAGAGGAAGAGCCTTGGTTGAAGAAGGAGAAAGTAGG-ATAAATAGTGGGATTT-GAG
1 GAAGGGGAAGAGGAAGAGCCTCAGTTGAAGAAGGAGAAAG-AGGAATAAATAATAGGATTTAG-G
* * *
505480 ATTTAGGGTTAGGGAAGAAGATAAACAATGCTTCGATTTGGAGGGGGTTTGATATTTAAAAACAT
64 ATTTAGGGGTAAGGAAGAAGATAAACAATGCTTCGATTTGG-GGGGGTTTGATATTTAAAAACAG
*
505545 GTT-GGGAGAAGTGTTTG
128 GTTGGGGAAAAGTGTTTG
505562 GTGTTTGTAA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
157 1 0.01
158 100 0.80
159 24 0.19
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.25
Consensus pattern (158 bp):
GAAGGGGAAGAGGAAGAGCCTCAGTTGAAGAAGGAGAAAGAGGAATAAATAATAGGATTTAGGAT
TTAGGGGTAAGGAAGAAGATAAACAATGCTTCGATTTGGGGGGGTTTGATATTTAAAAACAGGTT
GGGGAAAAGTGTTTGTAAGGATCAAACA
Found at i:506175 original size:22 final size:22
Alignment explanation
Indices: 506143--506390 Score: 159
Period size: 22 Copynumber: 11.5 Consensus size: 22
506133 TTATAAGTTA
506143 ATAC-TTAATACTTATATTTAT
1 ATACTTTAATACTTATATTTAT
506164 ATACTTTAATACTT-TATATTAT
1 ATACTTTAATACTTATAT-TTAT
* *
506186 ATACTTT-ATAGTT-TATATAT
1 ATACTTTAATACTTATATTTAT
* *
506206 ATAC-TT-ATAGTT-TATAT-T
1 ATACTTTAATACTTATATTTAT
506224 ATACTTTAATACTCTATATTTAT
1 ATACTTTAATACT-TATATTTAT
**
506247 ATACAATAATACTTA-ATATTAT
1 ATACTTTAATACTTATAT-TTAT
* *
506269 ATAC-TT-ATATGTTATACTCTA-
1 ATACTTTAATA-CTTATA-TTTAT
**
506290 ATACTTTAATACGAAT-TTTAT
1 ATACTTTAATACTTATATTTAT
*
506311 AAGTTAATACTTAATACTTATATTTAT
1 -A--TACT--TTAATACTTATATTTAT
506338 ATACTTTAATACTT-TATATTAT
1 ATACTTTAATACTTATAT-TTAT
* *
506360 ATACTTT-ATAGTT-TATATAT
1 ATACTTTAATACTTATATTTAT
506380 ATACTTATAAT
1 ATACTT-TAAT
506391 GTATTAATGT
Statistics
Matches: 185, Mismatches: 19, Indels: 45
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.03
19 15 0.08
20 26 0.14
21 38 0.21
22 64 0.35
23 16 0.09
24 6 0.03
26 10 0.05
27 5 0.03
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
ATACTTTAATACTTATATTTAT
Found at i:506256 original size:23 final size:22
Alignment explanation
Indices: 506230--506272 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
506220 TATTATACTT
506230 TAATACTCT-ATATTTATATACAA
1 TAATACT-TAATA-TTATATACAA
506253 TAATACTTAATATTATATAC
1 TAATACTTAATATTATATAC
506273 TTATATGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATACTTAATATTATATACAA
Found at i:506369 original size:7 final size:7
Alignment explanation
Indices: 506143--506385 Score: 87
Period size: 7 Copynumber: 33.9 Consensus size: 7
506133 TTATAAGTTA
*
506143 ATACTTA
1 ATACTTT
506150 ATAC-TT
1 ATACTTT
*
506156 ATATTTAT
1 ATACTT-T
506164 ATACTTT
1 ATACTTT
506171 AATACTTT
1 -ATACTTT
506179 ATA-TTAT
1 ATACTT-T
506186 ATACTTT
1 ATACTTT
*
506193 ATAGTTT
1 ATACTTT
*
506200 ATA-TAT
1 ATACTTT
506206 ATAC-TT
1 ATACTTT
*
506212 ATAGTTT
1 ATACTTT
506219 ATA--TT
1 ATACTTT
506224 ATACTTT
1 ATACTTT
*
506231 AATACTCT
1 -ATACTTT
*
506239 ATATTTAT
1 ATACTT-T
* *
506247 ATACAATA
1 ATAC-TTT
*
506255 ATACTTA
1 ATACTTT
506262 ATA-TTAT
1 ATACTT-T
506269 ATAC-TT
1 ATACTTT
506275 ATA-TGTT
1 ATACT-TT
*
506282 ATACTCTA
1 ATACT-TT
506290 ATACTTT
1 ATACTTT
506297 AATACGAATTTT
1 -ATAC----TTT
* *
506309 ATAAGTTA
1 AT-ACTTT
*
506317 ATACTTA
1 ATACTTT
506324 ATAC-TT
1 ATACTTT
*
506330 ATATTTAT
1 ATACTT-T
506338 ATACTTT
1 ATACTTT
506345 AATACTTT
1 -ATACTTT
506353 ATA-TTAT
1 ATACTT-T
506360 ATACTTT
1 ATACTTT
*
506367 ATAGTTT
1 ATACTTT
*
506374 ATA-TAT
1 ATACTTT
506380 ATACTT
1 ATACTT
506386 ATAATGTATT
Statistics
Matches: 180, Mismatches: 27, Indels: 58
0.68 0.10 0.22
Matches are distributed among these distances:
5 5 0.03
6 32 0.18
7 77 0.43
8 59 0.33
9 1 0.01
11 2 0.01
12 4 0.02
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.51
Consensus pattern (7 bp):
ATACTTT
Found at i:506460 original size:20 final size:20
Alignment explanation
Indices: 506428--506478 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
506418 TATAATGTAC
506428 ATTATATATACATGCATCAT
1 ATTATATATACATGCATCAT
*
506448 ATTATCATA-ACATTCATCAT
1 ATTAT-ATATACATGCATCAT
506468 ATATATATATA
1 AT-TATATATA
506479 TATTGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTATATATACATGCATCAT
Found at i:509587 original size:16 final size:17
Alignment explanation
Indices: 509537--509588 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
509527 ATAAAAAATA
509537 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
509554 CA-TT-AAA-TTATGAGT
1 AATTTGAAAGTTA-GAGT
509569 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
509585 AATT
1 AATT
509589 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.38
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:510741 original size:29 final size:29
Alignment explanation
Indices: 510699--510757 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
510689 AACATAAATC
*
510699 AATTAGGTATGTCTTGGGAGGGTAACTGA
1 AATTAGGTATGTCTTGAGAGGGTAACTGA
510728 AATTAGGTATGTCTTGAGAGGGTAACTGA
1 AATTAGGTATGTCTTGAGAGGGTAACTGA
510757 A
1 A
510758 TTTTATTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.32, T:0.31
Consensus pattern (29 bp):
AATTAGGTATGTCTTGAGAGGGTAACTGA
Found at i:513200 original size:24 final size:24
Alignment explanation
Indices: 513159--513207 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
513149 TTTAAAAATT
*
513159 CTATATAAAATTTAAAAAATAAAA
1 CTATATAAAATTTAAAAAAGAAAA
* * *
513183 CTATATATATTTTTAAAAAGAAAA
1 CTATATAAAATTTAAAAAAGAAAA
513207 C
1 C
513208 ACAAATTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
CTATATAAAATTTAAAAAAGAAAA
Found at i:514875 original size:43 final size:43
Alignment explanation
Indices: 514826--514907 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
514816 TCAAGAATGT
* * *
514826 TTTTAATATGTTAGTTTGATGTTTTTGTGGATTGTTACTTTAA
1 TTTTAATATGTTAGTTTGACGTATTTATGGATTGTTACTTTAA
*
514869 TTTTAATATGTTAGTTTTACGTATTTATGGATTGTTACT
1 TTTTAATATGTTAGTTTGACGTATTTATGGATTGTTACT
514908 GGAGTTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.22, C:0.04, G:0.17, T:0.57
Consensus pattern (43 bp):
TTTTAATATGTTAGTTTGACGTATTTATGGATTGTTACTTTAA
Found at i:515066 original size:16 final size:16
Alignment explanation
Indices: 515045--515075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
515035 AAGTTCTAGT
*
515045 GAGCTTAATGAGCAAA
1 GAGCTTAACGAGCAAA
515061 GAGCTTAACGAGCAA
1 GAGCTTAACGAGCAA
515076 CGAATAGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (16 bp):
GAGCTTAACGAGCAAA
Found at i:516036 original size:20 final size:20
Alignment explanation
Indices: 516007--516060 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
515997 AACAGAATAA
* *
516007 AAAATGAGATAAAATAACAT
1 AAAATAAGATAAAATAAAAT
*
516027 AAAATAAGATAAGATAAAAT
1 AAAATAAGATAAAATAAAAT
*
516047 AAAATAAAATAAAA
1 AAAATAAGATAAAA
516061 ATATTACTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAATAAGATAAAATAAAAT
Found at i:516063 original size:6 final size:5
Alignment explanation
Indices: 516015--516060 Score: 65
Period size: 5 Copynumber: 9.2 Consensus size: 5
516005 AAAAAATGAG
* * *
516015 ATAAA ATAAC ATAAA ATAAG ATAAG ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
516061 ATATTACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:517970 original size:3 final size:3
Alignment explanation
Indices: 517962--518115 Score: 141
Period size: 3 Copynumber: 49.0 Consensus size: 3
517952 TATTTTATTT
* * * *
517962 ATA ATA ATA ATA ATA GTA ATA TTA ATA ATTA ATAA ACA ATTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA AT-A ATA A-TA ATA ATA
* * *
518010 ATA ATA ATTA ATA ATA ATA ATA CTTA GTA ATA ATAA ATG ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA AT-A ATA ATA ATA ATA
*
518058 ATTA ATA ATA ATA ATA ATCA ATA ATA ATA AT- TTA A-A ATA ATA ATA
1 A-TA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
518103 ATA ATTA ATA ATA
1 ATA A-TA ATA ATA
518116 TGCAAAATTT
Statistics
Matches: 125, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.02
3 98 0.78
4 24 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:518026 original size:13 final size:13
Alignment explanation
Indices: 517962--518115 Score: 132
Period size: 13 Copynumber: 12.5 Consensus size: 13
517952 TATTTTATTT
517962 ATAATAATAA-TA
1 ATAATAATAATTA
*
517974 ATAGTAAT-ATTA
1 ATAATAATAATTA
*
517986 ATAAT--TAATAA
1 ATAATAATAATTA
*
517997 ACAATTAAT-ATTA
1 ATAA-TAATAATTA
518010 ATAATAATTAA-TA
1 ATAATAA-TAATTA
*
518023 ATAATAATACTTA
1 ATAATAATAATTA
* * *
518036 GTAATAATAAATG
1 ATAATAATAATTA
518049 ATAATAATAATTA
1 ATAATAATAATTA
518062 ATAATAATAA-TA
1 ATAATAATAATTA
518074 ATCAATAATAA-TA
1 AT-AATAATAATTA
*
518087 AT-TTAA-AA-TA
1 ATAATAATAATTA
518097 ATAATAATAATTA
1 ATAATAATAATTA
518110 ATAATA
1 ATAATA
518116 TGCAAAATTT
Statistics
Matches: 114, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
10 7 0.06
11 13 0.11
12 25 0.22
13 67 0.59
14 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:518113 original size:16 final size:16
Alignment explanation
Indices: 517962--518115 Score: 139
Period size: 16 Copynumber: 10.0 Consensus size: 16
517952 TATTTTATTT
517962 ATAATAA-TAATAATA
1 ATAATAATTAATAATA
*
517977 GTAAT-ATTAATAATTA
1 ATAATAATTAATAA-TA
* *
517993 ATAAACAATTAATATTA
1 AT-AATAATTAATAATA
518010 ATAATAATTAATAATA
1 ATAATAATTAATAATA
* *
518026 ATAAT-ACT--TAGTA
1 ATAATAATTAATAATA
*
518039 ATAAT-A--AATGATA
1 ATAATAATTAATAATA
518052 ATAATAATTAATAATA
1 ATAATAATTAATAATA
*
518068 ATAATAATCAATAATA
1 ATAATAATTAATAATA
518084 ATAAT--TTAAAATAATA
1 ATAATAATT--AATAATA
518100 ATAATAATTAATAATA
1 ATAATAATTAATAATA
518116 TGCAAAATTT
Statistics
Matches: 113, Mismatches: 13, Indels: 25
0.75 0.09 0.17
Matches are distributed among these distances:
13 18 0.16
14 3 0.03
15 12 0.11
16 65 0.58
17 6 0.05
18 9 0.08
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAATAATTAATAATA
Found at i:518609 original size:20 final size:20
Alignment explanation
Indices: 518584--518630 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
518574 TTTCTCCTTC
518584 TTGTTGAGAAGATCTAGTCA
1 TTGTTGAGAAGATCTAGTCA
518604 TTGTTGAGAAGATCTAGTCA
1 TTGTTGAGAAGATCTAGTCA
*
518624 TAGTTGA
1 TTGTTGA
518631 TAAAGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGTTGAGAAGATCTAGTCA
Found at i:525323 original size:2 final size:2
Alignment explanation
Indices: 525316--525342 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
525306 TCAATATACA
525316 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 A
525343 ATTTACGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:525525 original size:13 final size:13
Alignment explanation
Indices: 525504--525542 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
525494 TGCTCAATAG
*
525504 GTGTCATAAATGT
1 GTGTCATAAATGC
*
525517 GTGTAATAAATGC
1 GTGTCATAAATGC
525530 GTGTCATAAATGC
1 GTGTCATAAATGC
525543 ACGTCATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (13 bp):
GTGTCATAAATGC
Found at i:526556 original size:17 final size:18
Alignment explanation
Indices: 526517--526553 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
526507 GGTATTGGTA
*
526517 CCCTT-GGTATCGATACC
1 CCCTTAGGTATCAATACC
526534 CCCTTAGGTATCAATACC
1 CCCTTAGGTATCAATACC
526552 CC
1 CC
526554 TTAAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.27
Consensus pattern (18 bp):
CCCTTAGGTATCAATACC
Found at i:529570 original size:23 final size:23
Alignment explanation
Indices: 529515--529572 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
529505 ACATCTTATA
*
529515 TGGCACTGCGGTGCAAATCTACG
1 TGGCACTTCGGTGCAAATCTACG
*
529538 TGGCACTTCGGTGCAAATCTATG
1 TGGCACTTCGGTGCAAATCTACG
*
529561 TGGCATTTCGGT
1 TGGCACTTCGGT
529573 ACATTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAAATCTACG
Found at i:534527 original size:21 final size:21
Alignment explanation
Indices: 534503--534547 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
534493 GGCATGTAAG
534503 ATATGTCCCGAAGGACCTCAT
1 ATATGTCCCGAAGGACCTCAT
534524 ATATGTCCCGAAGGACCTCAT
1 ATATGTCCCGAAGGACCTCAT
534545 ATA
1 ATA
534548 ATCCCTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
ATATGTCCCGAAGGACCTCAT
Found at i:535315 original size:20 final size:19
Alignment explanation
Indices: 535286--535340 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 19
535276 GTATCGGTAT
535286 CCTTGGTATCGATACTACC
1 CCTTGGTATCGATACTACC
535305 CCTTAGGTATCGATACTACC
1 CCTT-GGTATCGATACTACC
535325 CCTTCGGTATCGATAC
1 CCTT-GGTATCGATAC
535341 CACTTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.12
20 30 0.88
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (19 bp):
CCTTGGTATCGATACTACC
Found at i:544561 original size:21 final size:21
Alignment explanation
Indices: 544535--544580 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
544525 AATAAGAATA
544535 AAAAAT-GAGATAAAATAACAT
1 AAAAATAGA-ATAAAATAACAT
* *
544556 AAAAATAGAATAAGATAAGAT
1 AAAAATAGAATAAAATAACAT
544577 AAAA
1 AAAA
544581 CAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (21 bp):
AAAAATAGAATAAAATAACAT
Found at i:544633 original size:26 final size:26
Alignment explanation
Indices: 544584--544635 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
544574 GATAAAACAA
*
544584 AATAAATAAAAATATTACTATTATTT
1 AATAAATAAAAATATTAATATTATTT
*
544610 AATAAATAAAAATGTTAGAT-TTATTT
1 AATAAATAAAAATATTA-ATATTATTT
544636 CAAGTTCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
AATAAATAAAAATATTAATATTATTT
Found at i:546551 original size:3 final size:3
Alignment explanation
Indices: 546543--546692 Score: 81
Period size: 3 Copynumber: 48.0 Consensus size: 3
546533 TATTTTATTT
* * * *
546543 ATA ATA ATA AGTA GTA ATA ATA ATA ATTA ATAA ACA ATTA CTA TTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA A-TA AT-A ATA A-TA ATA ATA ATA
* * * *
546592 GTA ATTA ATA ATA ATA CTTA GTA TTA ATAA ATA ATA ATA AT- ATA ATA
1 ATA A-TA ATA ATA ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * *
546639 ATTA GTA ATA ATA ATA AT- TTA A-A ATA CTA ATA ATGA TTT ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
546684 ATA ATA ATA
1 ATA ATA ATA
546693 TGTAAAATTT
Statistics
Matches: 112, Mismatches: 23, Indels: 24
0.70 0.14 0.15
Matches are distributed among these distances:
2 5 0.04
3 87 0.78
4 20 0.18
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:546573 original size:13 final size:13
Alignment explanation
Indices: 546544--546692 Score: 74
Period size: 13 Copynumber: 11.4 Consensus size: 13
546534 ATTTTATTTA
*
546544 TAATAATAAGT-AG
1 TAATAATAA-TAAT
546557 TAATAATAATAAT
1 TAATAATAATAAT
* * *
546570 TAATAAACAATTAC
1 TAAT-AATAATAAT
* *
546584 TATTAATAGTAAT
1 TAATAATAATAAT
*
546597 TAATAATAATACT
1 TAATAATAATAAT
* * *
546610 TAGTATTAATAAA
1 TAATAATAATAAT
546623 TAATAATAAT-A-
1 TAATAATAATAAT
*
546634 TAATAATTAGTAA-
1 TAATAA-TAATAAT
*
546647 TAATAATAATTTAAAA
1 TAATAATAA--T-AAT
* *
546663 TACTAATAATGAT
1 TAATAATAATAAT
*
546676 TTATAATAATAA-
1 TAATAATAATAAT
546688 TAATA
1 TAATA
546693 TGTAAAATTT
Statistics
Matches: 101, Mismatches: 27, Indels: 17
0.70 0.19 0.12
Matches are distributed among these distances:
11 6 0.06
12 11 0.11
13 63 0.62
14 11 0.11
15 2 0.02
16 8 0.08
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:546624 original size:20 final size:20
Alignment explanation
Indices: 546590--546627 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
546580 TTACTATTAA
546590 TAGTAATTAATAATAATACT
1 TAGTAATTAATAATAATACT
546610 TAGT-ATTAATAAATAATA
1 TAGTAATTAAT-AATAATA
546628 ATAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (20 bp):
TAGTAATTAATAATAATACT
Found at i:546656 original size:16 final size:15
Alignment explanation
Indices: 546543--546688 Score: 81
Period size: 16 Copynumber: 9.7 Consensus size: 15
546533 TATTTTATTT
*
546543 ATAATAATAAGTAGTA
1 ATAATAATAATTA-TA
546559 ATAATAATAA-T-TA
1 ATAATAATAATTATA
*
546572 AT-A-AACAATTACTA
1 ATAATAATAATTA-TA
* *
546586 TTAATAGTAA-T-TA
1 ATAATAATAATTATA
*
546599 ATAATAATACTTAGTA
1 ATAATAATAATTA-TA
* *
546615 TTAATAAATAATAATA
1 ATAAT-AATAATTATA
546631 AT-ATAATAATTAGTA
1 ATAATAATAATTA-TA
*
546646 ATAATAATAATTTAAA
1 ATAATAATAA-TTATA
* * *
546662 ATACTAATAATGATTT
1 ATAATAATAATTA-TA
546678 ATAATAATAAT
1 ATAATAATAAT
546689 AATATGTAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
11 4 0.04
12 2 0.02
13 13 0.13
14 11 0.11
15 11 0.11
16 49 0.49
17 9 0.09
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (15 bp):
ATAATAATAATTATA
Found at i:546669 original size:19 final size:19
Alignment explanation
Indices: 546644--546692 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
546634 TAATAATTAG
546644 TAATAATAATAATTTAAAA
1 TAATAATAATAATTTAAAA
* * *
546663 TACTAATAATGATTTATAA
1 TAATAATAATAATTTAAAA
546682 TAATAATAATA
1 TAATAATAATA
546693 TGTAAAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAATAATAATTTAAAA
Found at i:546981 original size:2 final size:2
Alignment explanation
Indices: 546968--547135 Score: 109
Period size: 2 Copynumber: 83.0 Consensus size: 2
546958 GGTGTTCATA
* *
546968 AT AT AT ACT AT AT AT -T AT AGT GT AT -T GT AT -T AT AT AGT AT
1 AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT
*
547008 TT AT AT -T AT AT AGT AT AT A- AT AT AT AT AGT AT AGT AT AGT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT A-T AT A-T AT
* * *
547050 TT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T TT AT AT GGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * *
547091 AT TT AT TT AT AT AGT AT AT AT GT -T AT AGT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
547134 AT
1 AT
547136 TATTTACATA
Statistics
Matches: 133, Mismatches: 15, Indels: 36
0.72 0.08 0.20
Matches are distributed among these distances:
1 8 0.06
2 107 0.80
3 18 0.14
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.52
Consensus pattern (2 bp):
AT
Found at i:547065 original size:31 final size:29
Alignment explanation
Indices: 546968--547134 Score: 123
Period size: 31 Copynumber: 5.7 Consensus size: 29
546958 GGTGTTCATA
* *
546968 ATATATACTATATAT-TATAGTGTAT-TGT
1 ATATATA-TATATATATATAGTATATATTT
* *
546996 AT-TATATAGTAT-T-TATATTATATA-GT
1 ATATATATA-TATATATATAGTATATATTT
547022 ATATA-ATATATATAGTATAGTATAGTATTT
1 ATATATATATATATA-TATAGTATA-TATTT
*
547052 ATATATATATATATATATATATATATTATTTT
1 ATATATATATATATATATA-GTATA-TA-TTT
* * *
547084 ATATGGTATTTATTTATATAGTATATATGTT
1 ATAT-ATATATATATATATAGTATATAT-TT
547115 ATAGTATATATATATATATA
1 ATA-TATATATATATATATA
547135 TTATTTACAT
Statistics
Matches: 112, Mismatches: 13, Indels: 25
0.75 0.09 0.17
Matches are distributed among these distances:
25 3 0.03
26 19 0.17
27 9 0.08
28 10 0.09
29 2 0.02
30 11 0.10
31 34 0.30
32 12 0.11
33 12 0.11
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (29 bp):
ATATATATATATATATATAGTATATATTT
Found at i:547159 original size:77 final size:72
Alignment explanation
Indices: 546998--547200 Score: 171
Period size: 76 Copynumber: 2.7 Consensus size: 72
546988 TGTATTGTAT
* * ** * *
546998 TATATAGTATTTATATTATATAGTATATAATATATATAG-TATAGTATAGTATTTATATATATAT
1 TATATATTATTTATATTATTTTTTATATAGTATATAT-GTTATAGTATA-TATATATATATATAT
*
547062 ATATATATA
64 ATACATATA
547071 TATATATTATTTTATATGGTATTTATTTATATAGTATATATGTTATAGTATATATATATATATAT
1 TATATATTA-TTTATAT--TATTT-TTTATATAGTATATATGTTATAGTATATATATATATATA-
*
547136 TATTTACATAT-
61 TATATACATATA
* * *
547147 TAT-TGGTATATTTATATTATTTTTTATTATACTGTATAT-TATTATATTATATAT
1 TATAT-AT-TATTTATATTATTTTTTA-TATA--GTATATATGTTATAGTATATAT
547201 TATTAATATT
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
73 12 0.11
74 16 0.15
75 14 0.13
76 33 0.31
77 33 0.31
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (72 bp):
TATATATTATTTATATTATTTTTTATATAGTATATATGTTATAGTATATATATATATATATATAT
ACATATA
Found at i:547188 original size:15 final size:15
Alignment explanation
Indices: 547170--547233 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
547160 ATATTATTTT
*
547170 TTATTATACTGTATA
1 TTATTATACTATATA
*
547185 TTATTATATTATATA
1 TTATTATACTATATA
547200 TTATTA-A-TAT-TA
1 TTATTATACTATATA
* *
547212 GTACTATTACTAT-TA
1 TTATTA-TACTATATA
547227 TTATTAT
1 TTATTAT
547234 TATTATTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 6 0.15
13 3 0.08
14 3 0.08
15 28 0.70
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (15 bp):
TTATTATACTATATA
Found at i:547189 original size:3 final size:3
Alignment explanation
Indices: 547183--547241 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
547173 TTATACTGTA
* * * *
547183 TAT TAT TA- TAT TAT ATAT TAT TAA TAT TAG TAC TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
547228 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
547242 GGTCCAAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:547192 original size:30 final size:32
Alignment explanation
Indices: 547158--547241 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 32
547148 ATTGGTATAT
547158 TTATATTATTTTTTATTATACT-GTA-TATTA
1 TTATATTATTTTTTATTATACTAGTACTATTA
* * *
547188 TTATATTATATATTATTAATATTAGTACTATTA
1 TTATATTATTTTTTATT-ATACTAGTACTATTA
*
547221 CTATTATTATTATTATTATTA
1 TTA-TATTATT-TT-TTATTA
547242 GGTCCAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 15 0.36
31 4 0.10
32 3 0.07
33 7 0.17
34 6 0.14
35 2 0.05
36 5 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (32 bp):
TTATATTATTTTTTATTATACTAGTACTATTA
Found at i:547201 original size:12 final size:12
Alignment explanation
Indices: 546971--547239 Score: 103
Period size: 12 Copynumber: 22.7 Consensus size: 12
546961 GTTCATAATA
*
546971 TATACTATATAT
1 TATATTATATAT
*
546983 TATAGTGTATTGTAT
1 TATA-T-TA-TATAT
546998 TATA-TAGTAT-T
1 TATATTA-TATAT
*
547009 TATATTATATAG
1 TATATTATATAT
*
547021 TATATAATATA-
1 TATATTATATAT
*
547032 TATAGTATAGTA-
1 TATATTATA-TAT
547044 TAGTATT-TATA-
1 TA-TATTATATAT
547055 TATA-TATATA-
1 TATATTATATAT
547065 TATATATATATAT
1 TATAT-TATATAT
* **
547078 TATTTTATATGG
1 TATATTATATAT
*
547090 TAT-TTATTTA-
1 TATATTATATAT
*
547100 TATAGTATATATGT
1 TATA-T-TATATAT
*
547114 TATAGTATATA-
1 TATATTATATAT
547125 TATA-TATATAT
1 TATATTATATAT
*
547136 TAT-TTACATAT
1 TATATTATATAT
547147 TAT-TGGTATAT-T
1 TATAT--TATATAT
547159 TATATTAT-T-T
1 TATATTATATAT
* *
547169 TTTATTATACT-G
1 TATATTATA-TAT
547181 TATATTATTATAT
1 TATATTA-TATAT
547194 TATA-TAT-TAT
1 TATATTATATAT
547204 TAATATTAGTACTAT
1 T-ATATTA-TA-TAT
547219 TACTATTAT-TAT
1 TA-TATTATATAT
547231 TATTATTAT
1 TA-TATTAT
547240 TAGGTCCAAA
Statistics
Matches: 202, Mismatches: 25, Indels: 60
0.70 0.09 0.21
Matches are distributed among these distances:
9 1 0.00
10 32 0.16
11 48 0.24
12 73 0.36
13 23 0.11
14 8 0.04
15 17 0.08
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (12 bp):
TATATTATATAT
Found at i:549591 original size:38 final size:37
Alignment explanation
Indices: 549529--549602 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
549519 TTATCCAATC
* *
549529 AAAAAGCATGTGGGTTAGAAATCATGTTTGGGTAGGAG
1 AAAAAGCATGTGGGGTAGAAATCATG-TGGGGTAGGAG
*
549567 AAAAAGCAT-TGGGGGTAGATATCATGTGGGGTAGGA
1 AAAAAGCATGT-GGGGTAGAAATCATGTGGGGTAGGA
549603 ATTATTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.24
Consensus pattern (37 bp):
AAAAAGCATGTGGGGTAGAAATCATGTGGGGTAGGAG
Found at i:557929 original size:21 final size:22
Alignment explanation
Indices: 557905--557946 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
557895 ACTAATCGTT
557905 ATATATGAT-GTTATCATGAAC
1 ATATATGATAGTTATCATGAAC
*
557926 ATATATGATATTTATCATGAA
1 ATATATGATAGTTATCATGAA
557947 TGATATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (22 bp):
ATATATGATAGTTATCATGAAC
Found at i:580496 original size:59 final size:59
Alignment explanation
Indices: 580398--580518 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 59
580388 GAAGGGTAAG
* *
580398 TTAGAGCCATATTATCGAGTTTATCTTTTCATTATGACTAGGAGGGTTCGATAAGACAC
1 TTAGAGCCATATTATCGAGTTTATCTTTTCATTACGACTAGGAGGGTTCAATAAGACAC
* * * * * * *
580457 TTAGAGTCATATTATTGAGTTTGTCTTTTCATTGCGACTATGATGGTTCAATAGGACAC
1 TTAGAGCCATATTATCGAGTTTATCTTTTCATTACGACTAGGAGGGTTCAATAAGACAC
580516 TTA
1 TTA
580519 TCCATCTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTATCTTTTCATTACGACTAGGAGGGTTCAATAAGACAC
Found at i:582314 original size:36 final size:36
Alignment explanation
Indices: 582271--582359 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
582261 CAACCTGACC
*
582271 CAAACGGTTGACCTGACTCGACCCAAACTGTTTACT
1 CAAACGGTTGACCTGACTCGACCAAAACTGTTTACT
582307 CAAACGGTTGACCTGACTCGACCAAAACTGTTTACT
1 CAAACGGTTGACCTGACTCGACCAAAACTGTTTACT
* *
582343 CAAACCGTTAACCTGAC
1 CAAACGGTTGACCTGAC
582360 CCGAATTGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (36 bp):
CAAACGGTTGACCTGACTCGACCAAAACTGTTTACT
Found at i:586763 original size:21 final size:22
Alignment explanation
Indices: 586721--586763 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
586711 TTAAAGTGAT
*
586721 TTTTTAATTTAAAATATTATTA
1 TTTTTAATTTAAAATATCATTA
586743 TTTTTAATTTAAAA-ATCATTA
1 TTTTTAATTTAAAATATCATTA
586764 AATTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTAATTTAAAATATCATTA
Found at i:586768 original size:23 final size:22
Alignment explanation
Indices: 586721--586773 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
586711 TTAAAGTGAT
*
586721 TTTTTAATTTAAAATATTATTA
1 TTTTTAATTTAAAATATTATAA
586743 TTTTTAATTTAAAAATCATTA-AA
1 TTTTTAATTT-AAAAT-ATTATAA
*
586766 TTTGTAAT
1 TTTTTAAT
586774 ACTTTTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
23 13 0.48
24 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTTAATTTAAAATATTATAA
Found at i:589585 original size:18 final size:17
Alignment explanation
Indices: 589564--589605 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
589554 AAAGGATTCG
589564 AGAAAAGAAAT-TAGAAGA
1 AGAAAAG-AATGTAG-AGA
*
589582 AGAAGAGAATGTAGAGA
1 AGAAAAGAATGTAGAGA
589599 AGAAAAG
1 AGAAAAG
589606 TCATTCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.10
Consensus pattern (17 bp):
AGAAAAGAATGTAGAGA
Found at i:594116 original size:36 final size:36
Alignment explanation
Indices: 594071--594243 Score: 222
Period size: 36 Copynumber: 4.8 Consensus size: 36
594061 GGTGCTGGAT
*
594071 ATTGATACACGAATGTACCAAAGCTGATATAATAAC
1 ATTGATACACGAATGTACCAAAGCTGATATGATAAC
* * *
594107 ATTGGTACACAAATGTATCAAAGCTGATATGATAAC
1 ATTGATACACGAATGTACCAAAGCTGATATGATAAC
** *
594143 ATTGATACACGAATGTACCAAAATTGATATTATAAC
1 ATTGATACACGAATGTACCAAAGCTGATATGATAAC
* * *
594179 ATTTATACACTAATGTACCAAAGTTG-TAATGATAAC
1 ATTGATACACGAATGTACCAAAGCTGAT-ATGATAAC
* *
594215 ATTGATACAAGAATGTATCAAAGCTGATA
1 ATTGATACACGAATGTACCAAAGCTGATA
594244 ATGGATAAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
35 1 0.01
36 114 0.98
37 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (36 bp):
ATTGATACACGAATGTACCAAAGCTGATATGATAAC
Found at i:598177 original size:18 final size:17
Alignment explanation
Indices: 598156--598197 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
598146 AAGGGATTCG
598156 AGAAAAGAAAT-TAGAAGA
1 AGAAAAG-AATGTAG-AGA
*
598174 AGAAGAGAATGTAGAGA
1 AGAAAAGAATGTAGAGA
598191 AGAAAAG
1 AGAAAAG
598198 TCATTCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.10
Consensus pattern (17 bp):
AGAAAAGAATGTAGAGA
Found at i:600285 original size:19 final size:19
Alignment explanation
Indices: 600261--600298 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
600251 TATTGAGTAC
*
600261 TACTAAAACTACCCGATAT
1 TACTAAAACTACCAGATAT
*
600280 TACTAAATCTACCAGATAT
1 TACTAAAACTACCAGATAT
600299 GGGGCCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (19 bp):
TACTAAAACTACCAGATAT
Found at i:600650 original size:33 final size:33
Alignment explanation
Indices: 600612--600700 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 33
600602 GTTTTCTTTC
* **
600612 TTTAATAGTTAGTGAGTTTTTAGTGGGTTTTTA
1 TTTAATAGTTAGTGAGTTTTTAGTGGATGATTA
* *
600645 TTTAATGGGTAACG-GA-TTTTTAGTGGATGATTA
1 TTTAAT-AGTTA-GTGAGTTTTTAGTGGATGATTA
* *
600678 TTTAATAGGTAATGAGTTTTTAG
1 TTTAATAGTTAGTGAGTTTTTAG
600701 GTTAGGTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
32 4 0.09
33 33 0.77
34 5 0.12
35 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (33 bp):
TTTAATAGTTAGTGAGTTTTTAGTGGATGATTA
Found at i:600731 original size:21 final size:19
Alignment explanation
Indices: 600707--600780 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 19
600697 TTAGGTTAGG
600707 TAATAATTAATAAAGAAATAT
1 TAAT-ATTAATAAA-AAATAT
* *
600728 TAATATTAATATTAATAATAA
1 TAATATTAATA--AAAAATAT
*
600749 AAATATTAATAATAAAAATAT
1 TAATATTAAT-A-AAAAATAT
*
600770 TAATAATAATA
1 TAATATTAATA
600781 TTTAAAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 8 0.19
21 32 0.74
22 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (19 bp):
TAATATTAATAAAAAATAT
Found at i:600734 original size:6 final size:6
Alignment explanation
Indices: 600723--600782 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
600713 TTAATAAAGA
* *
600723 AATATT AATATT AATATT AATAAT AA-A-- AATATT AATAAT AA-A--
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
*
600765 AATATT AATAAT AATATT
1 AATATT AATATT AATATT
600783 TAAAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
3 4 0.09
4 2 0.05
5 2 0.05
6 36 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (6 bp):
AATATT
Found at i:600787 original size:21 final size:20
Alignment explanation
Indices: 600722--600791 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
600712 ATTAATAAAG
600722 AAATATTAATATTAATATTA
1 AAATATTAATATTAATATTA
** *
600742 ATAATAAAAATATTAATAATAA
1 A-AATATTAATATTAAT-ATTA
*
600764 AAATATTAATAATAATATTTA
1 AAATATTAATATTAATA-TTA
600785 AAATATT
1 AAATATT
600792 TTTTTCGACC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.05
21 34 0.85
22 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATTAATATTAATATTA
Found at i:600789 original size:12 final size:12
Alignment explanation
Indices: 600723--600782 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
600713 TTAATAAAGA
*
600723 AATATTAATATT
1 AATAATAATATT
* *
600735 AATATTAATAAT
1 AATAATAATATT
* * *
600747 AAAAATATTAAT
1 AATAATAATATT
*
600759 AATAAAAATATT
1 AATAATAATATT
600771 AATAATAATATT
1 AATAATAATATT
600783 TAAAATATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATAATATT
Found at i:600789 original size:15 final size:15
Alignment explanation
Indices: 600735--600778 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
600725 TATTAATATT
600735 AATATTAATAATAAA
1 AATATTAATAATAAA
600750 AATATTAATAATAAA
1 AATATTAATAATAAA
600765 AATATTAATAATAA
1 AATATTAATAATAA
600779 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATATTAATAATAAA
Found at i:600995 original size:85 final size:84
Alignment explanation
Indices: 600839--601008 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 84
600829 CCCTCTTTGC
* *
600839 ACATTCTTGTGTTAACAAGGATAAGACAAAGAAGAAAAAGACAACCAATTTTTGTCTGATAAATG
1 ACATTCTTGTGTTAACAAGGATAAGACAAAGAAGAAAAAGACAAACAATTTTTGTCCGATAAATG
600904 AAACATGTGACATAAACAA
66 AAACATGTGACATAAACAA
* * *
600923 ACATTCTTGTGTTAATAAGGATATGACAAAGACGAAAAAAGACAAACAATTTTTGTCCGATAAAT
1 ACATTCTTGTGTTAACAAGGATAAGACAAAGAAG-AAAAAGACAAACAATTTTTGTCCGATAAAT
600988 GAAACATGTGACATAAACAA
65 GAAACATGTGACATAAACAA
601008 A
1 A
601009 AATATATCTG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 31 0.39
85 49 0.61
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (84 bp):
ACATTCTTGTGTTAACAAGGATAAGACAAAGAAGAAAAAGACAAACAATTTTTGTCCGATAAATG
AAACATGTGACATAAACAA
Found at i:601027 original size:16 final size:16
Alignment explanation
Indices: 601006--601039 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
600996 TGACATAAAC
*
601006 AAAAATATATCTGATA
1 AAAAATATATCCGATA
601022 AAAAATATATCCGATA
1 AAAAATATATCCGATA
601038 AA
1 AA
601040 TTTTACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAAATATATCCGATA
Found at i:601422 original size:19 final size:19
Alignment explanation
Indices: 601398--601441 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
601388 ACAAATATAA
601398 AAAAAATCAGAAAAAATT-C
1 AAAAAATCAG-AAAAATTAC
*
601417 AAAAAATCTGAAAAATTAC
1 AAAAAATCAGAAAAATTAC
601436 AAAAAA
1 AAAAAA
601442 AATTAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAATCAGAAAAATTAC
Found at i:601481 original size:25 final size:25
Alignment explanation
Indices: 601453--601505 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
601443 ATTAATATGA
*
601453 TTATTTATC-TAATTTAAATATATTT
1 TTATCTATCTTAATTT-AATATATTT
601478 TTATCTATCTTATAATTTAATATATTT
1 TTATCTATC-T-TAATTTAATATATTT
601505 T
1 T
601506 AACTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.33
27 10 0.42
28 6 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATCTATCTTAATTTAATATATTT
Found at i:603094 original size:15 final size:15
Alignment explanation
Indices: 603043--603095 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
603033 TTATTAATAT
603043 TATAAAATATAATTA
1 TATAAAATATAATTA
* *
603058 TA-AAAATACATATTTT
1 TATAAAAT--ATAATTA
603074 TATAAAATATAATTA
1 TATAAAATATAATTA
603089 TATAAAA
1 TATAAAA
603096 AATTAAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 5 0.16
15 14 0.45
16 7 0.23
17 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAAAATATAATTA
Found at i:605224 original size:21 final size:21
Alignment explanation
Indices: 605198--605344 Score: 98
Period size: 21 Copynumber: 6.9 Consensus size: 21
605188 TCGAGGGTTC
*
605198 TATGTGGTTCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * * *
605219 TATGTGATCCTTTGGAATATA
1 TATGTGGTCCTTCGGGACATA
*
605240 TATGAGGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* *
605261 TATTTGGTCCTT-TGGAGCATA
1 TATGTGGTCCTTCGGGA-CATA
* ** * *
605282 TATGTGGTCATTATGGCCAATTC
1 TATGTGGTCCTTCGGGAC-A-TA
* *
605305 TATGTGGTCATTCGAGACATA
1 TATGTGGTCCTTCGGGACATA
** *
605326 TATGACGTCCTTTGGGACA
1 TATGTGGTCCTTCGGGACA
605345 ATTTTATAAG
Statistics
Matches: 95, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.03
21 72 0.76
22 5 0.05
23 15 0.16
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATA
Found at i:605272 original size:42 final size:42
Alignment explanation
Indices: 605198--605290 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
605188 TCGAGGGTTC
* *
605198 TATGTGGTTCTTCGGGACATATATGTGATCCTTTGGAATATA
1 TATGTGGTCCTTCGGGACATATATGTGATCCTTTGGAACATA
* * * *
605240 TATGAGGTCCTTCGGGACATATATTTGGTCCTTTGGAGCATA
1 TATGTGGTCCTTCGGGACATATATGTGATCCTTTGGAACATA
605282 TATGTGGTC
1 TATGTGGTC
605291 ATTATGGCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.39
Consensus pattern (42 bp):
TATGTGGTCCTTCGGGACATATATGTGATCCTTTGGAACATA
Found at i:605627 original size:71 final size:71
Alignment explanation
Indices: 605547--605691 Score: 281
Period size: 71 Copynumber: 2.0 Consensus size: 71
605537 TGGATATAGG
605547 ATGATTGTTATTATATGATGAGATTATAGGATTACATGTTCCATGAGTTCACTATTGCATTATTG
1 ATGATTGTTATTATATGATGAGATTATAGGATTACATGTTCCATGAGTTCACTATTGCATTATTG
605612 TATATT
66 TATATT
*
605618 ATGATTGTTATTATATGATGAGATTATAGGATTACATGTTCCATGAGTTCACTATTGCATTGTTG
1 ATGATTGTTATTATATGATGAGATTATAGGATTACATGTTCCATGAGTTCACTATTGCATTATTG
605683 TATATT
66 TATATT
605689 ATG
1 ATG
605692 CCTCACTAAG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (71 bp):
ATGATTGTTATTATATGATGAGATTATAGGATTACATGTTCCATGAGTTCACTATTGCATTATTG
TATATT
Found at i:605981 original size:17 final size:18
Alignment explanation
Indices: 605955--605995 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
605945 TTTAAAATTT
*
605955 TCAATGATTTTGTAAAAG
1 TCAATGATTTTGGAAAAG
*
605973 -CAATTATTTTGGAAAAG
1 TCAATGATTTTGGAAAAG
605990 TCAATG
1 TCAATG
605996 TGACATCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (18 bp):
TCAATGATTTTGGAAAAG
Found at i:619283 original size:21 final size:21
Alignment explanation
Indices: 619257--619424 Score: 158
Period size: 21 Copynumber: 7.9 Consensus size: 21
619247 TCGAGGGTTC
*
619257 TATGTGGTTCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
619278 TATGTGATCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
*
619299 TATGAGGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * * *
619320 TATTTGGTTCTT-TGCAGCATA
1 TATGTGGTCCTTCGGGA-CATA
* * *
619341 TATGTGGTCCTTAGGGAGAATTC
1 TATGTGGTCCTTCGGGA-CA-TA
619364 TATGTGGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* *
619385 TATGAGGTCCTTTGGGACATA
1 TATGTGGTCCTTCGGGACATA
* *
619406 TATGAGGTCCTTTGGGACA
1 TATGTGGTCCTTCGGGACA
619425 ATTTTATATG
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
20 2 0.02
21 96 0.80
22 5 0.04
23 17 0.14
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATA
Found at i:619333 original size:42 final size:42
Alignment explanation
Indices: 619257--619420 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
619247 TCGAGGGTTC
* * *
619257 TATGTGGTTCTTCGGGACATATATGTGATCCTTTGGAACATA
1 TATGAGGTCCTTCGGGACATATATGTGGTCCTTTGGAACATA
* * * *
619299 TATGAGGTCCTTCGGGACATATATTTGGTTCTTTGCAGCATA
1 TATGAGGTCCTTCGGGACATATATGTGGTCCTTTGGAACATA
* * * * * *
619341 TATGTGGTCCTTAGGGAGAATTCTATGTGGTCCTTCGGGACATA
1 TATGAGGTCCTTCGGGA-CA-TATATGTGGTCCTTTGGAACATA
* *
619385 TATGAGGTCCTTTGGGACATATATGAGGTCCTTTGG
1 TATGAGGTCCTTCGGGACATATATGTGGTCCTTTGG
619421 GACAATTTTA
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 64 0.66
43 2 0.02
44 31 0.32
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (42 bp):
TATGAGGTCCTTCGGGACATATATGTGGTCCTTTGGAACATA
Found at i:619398 original size:65 final size:65
Alignment explanation
Indices: 619299--619427 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 65
619289 TTGGAACATA
** * * *
619299 TATGAGGTCCTTCGGGACATATATTTGGTTCTTTGCAG-CATATATGTGGTCCTTAGGGAGAATT
1 TATGAGGTCCTTCGGGACATATATGAGGTCCTTTG-AGACATATATGAGGTCCTTAGGGACAATT
619363 C
65 C
* * *
619364 TATGTGGTCCTTCGGGACATATATGAGGTCCTTTGGGACATATATGAGGTCCTTTGGGACAATT
1 TATGAGGTCCTTCGGGACATATATGAGGTCCTTTGAGACATATATGAGGTCCTTAGGGACAATT
619428 TTATATGACA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 1 0.02
65 54 0.98
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (65 bp):
TATGAGGTCCTTCGGGACATATATGAGGTCCTTTGAGACATATATGAGGTCCTTAGGGACAATTC
Found at i:623109 original size:20 final size:20
Alignment explanation
Indices: 623084--623197 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
623074 AATTGGGAAA
*
623084 ATCGCAATGCGTTACTGACT
1 ATCGCAATGCGATACTGACT
*
623104 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
623124 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
623145 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
623165 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
623185 TTCGCAACGCGAT
1 ATCGCAATGCGAT
623198 TTACATAGCG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.79
21 13 0.16
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:623128 original size:61 final size:61
Alignment explanation
Indices: 623081--623197 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
623071 GCGAATTGGG
* * * * * *
623081 AAAATCGCAATGCGTTACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
623142 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
623198 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:623774 original size:19 final size:19
Alignment explanation
Indices: 623750--623794 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
623740 GCAACGAGAG
*
623750 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
623769 AATCGC-ACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
623787 AATCGCAA
1 AATCGCAA
623795 TACGATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:623819 original size:19 final size:19
Alignment explanation
Indices: 623797--623953 Score: 118
Period size: 19 Copynumber: 8.7 Consensus size: 19
623787 AATCGCAATA
623797 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
623816 CGATTTTCATTTCGCGTTA
1 CGATTTTCATTTCGCGTTG
*
623835 CGATTTTCAATTCGCGTTG
1 CGATTTTCATTTCGCGTTG
* *
623854 CGA--TTC-TAT--CGTCG
1 CGATTTTCATTTCGCGTTG
*
623868 CGATATTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
* *
623887 CGA--TTC---TCTCATTG
1 CGATTTTCATTTCGCGTTG
** *
623901 CGATAGTCATTTCCGCATTG
1 CGATTTTCATTT-CGCGTTG
* *
623921 CGATTCTCATTATCTCGTTG
1 CGATTTTCATT-TCGCGTTG
623941 CGATTTTCATTTC
1 CGATTTTCATTTC
623954 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
14 16 0.15
16 6 0.06
17 8 0.07
19 48 0.44
20 30 0.28
21 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:623887 original size:33 final size:33
Alignment explanation
Indices: 623835--623927 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
623825 TTTCGCGTTA
* * *
623835 CGATTTTCAATTCGCGTTGCGATTCTATCGTCG
1 CGATATTCATTTCGCGTTGCGATTCTATCATCG
* *
623868 CGATATTCATTTCGCGTTGCGATTCTCTCATTG
1 CGATATTCATTTCGCGTTGCGATTCTATCATCG
* *
623901 CGATAGTCATTTCCGCATTGCGATTCT
1 CGATATTCATTT-CGCGTTGCGATTCT
623928 CATTATCTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 39 0.75
34 13 0.25
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (33 bp):
CGATATTCATTTCGCGTTGCGATTCTATCATCG
Found at i:623930 original size:20 final size:21
Alignment explanation
Indices: 623890--623953 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 21
623880 CGCGTTGCGA
* **
623890 TTCTCTCATTGCGATAGTCAT
1 TTCTCGCATTGCGATTCTCAT
623911 TTC-CGCATTGCGATTCTCAT
1 TTCTCGCATTGCGATTCTCAT
*
623931 TATCTCG--TTGCGATTTTCAT
1 T-TCTCGCATTGCGATTCTCAT
623951 TTC
1 TTC
623954 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 2 0.05
20 28 0.76
21 5 0.14
22 2 0.05
ACGTcount: A:0.16, C:0.25, G:0.14, T:0.45
Consensus pattern (21 bp):
TTCTCGCATTGCGATTCTCAT
Found at i:626121 original size:42 final size:42
Alignment explanation
Indices: 626045--626208 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
626035 GACTCGCCTG
* * * * *
626045 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * *
626087 TCATTACTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * * *
626129 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
*
626171 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCC
626209 ACTGTCATCG
Statistics
Matches: 96, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:626220 original size:21 final size:21
Alignment explanation
Indices: 626112--626227 Score: 56
Period size: 21 Copynumber: 5.5 Consensus size: 21
626102 CCCCTCCCAC
626112 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCACTGTCAT
** * *
626133 CCCTCAAGAGTCCACT-CCTAT
1 CGTTCAAGAGGCCACTGTC-AT
* * * *
626154 CATTGAAGAGGCCCCTATCATT
1 CGTTCAAGAGGCCACTGTCA-T
* * * * ** *
626176 C-CTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCACTGTCAT
626196 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCACTGTCAT
*
626217 CGTTGAAGAGG
1 CGTTCAAGAGG
626228 TCTCTCCCAC
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
20 2 0.03
21 61 0.92
22 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCCACTGTCAT
Found at i:626226 original size:84 final size:84
Alignment explanation
Indices: 626042--626217 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
626032 CCCGACTCGC
*
626042 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
626107 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
626126 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
626191 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
626210 CTGTCATC
1 CTGTCATC
626218 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:626235 original size:42 final size:42
Alignment explanation
Indices: 626042--626247 Score: 148
Period size: 42 Copynumber: 4.9 Consensus size: 42
626032 CCCGACTCGC
* * * * * * *
626042 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCC
1 CTGTCATCCTTGAAGAGTCCACTCCCACCATTCAAGAGGCCA
* * * * *
626084 CTATCATTACTCG-AGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCA-TCCTTGAAGAGTCCACTCCCACCATTCAAGAGGCCA
* * * * * *
626126 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCC
1 CTGTCATCCTTGAAGAGTCCACTCCCACCATTCAAGAGGCCA
* * * *
626168 CTATCATTCCTCG-AGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCA-TCCTTGAAGAGTCCACTCCCACCATTCAAGAGGCCA
* *
626210 CTGTCATCGTTGAAGAGGT-CTCTCCCACCATTCAAGAG
1 CTGTCATCCTTGAAGA-GTCCACTCCCACCATTCAAGAG
626248 CCCGATTCAC
Statistics
Matches: 123, Mismatches: 36, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
41 6 0.05
42 110 0.89
43 7 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
CTGTCATCCTTGAAGAGTCCACTCCCACCATTCAAGAGGCCA
Found at i:626247 original size:84 final size:84
Alignment explanation
Indices: 626042--626247 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
626032 CCCGACTCGC
* * * *
626042 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
626107 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * *
626126 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
626191 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** * *
626210 CTGTCATCGTTGAAGAGGT-CTCTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
626248 CCCGATTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 110 0.98
85 2 0.02
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTACTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:627612 original size:14 final size:14
Alignment explanation
Indices: 627593--627628 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
627583 ATTGTTTAAT
627593 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
627607 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
627621 TGATTTGT
1 TGATTTGT
627629 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:627772 original size:14 final size:14
Alignment explanation
Indices: 627753--627809 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
627743 GCGAAATGAA
627753 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
627767 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
627786 AATCGCAACGAGAG
1 AATCGCAACGAGAG
627800 AATCGCAACG
1 AATCGCAACG
627810 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Done.