Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 108 of 221
Found at i:33138518 original size:16 final size:16
Alignment explanation
Indices: 33138497--33138529 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33138487 TTAAATATTT
33138497 TTATTAGAAAA-ATAAA
1 TTATTA-AAAATATAAA
33138513 TTATTAAAAATATAAA
1 TTATTAAAAATATAAA
33138529 T
1 T
33138530 AAGGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TTATTAAAAATATAAA
Found at i:33142383 original size:101 final size:100
Alignment explanation
Indices: 33142268--33142487 Score: 266
Period size: 101 Copynumber: 2.2 Consensus size: 100
33142258 GCACGGATTG
* * *
33142268 TGTGTAGGCCACTATGTAAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTATT
1 TGTGTAGGCTACTATGTAAAA--GAAAGT-ATCGATCACGTGTGTAGTACTATGTGCAGGCTACT
* *
33142332 ACGTGTACCGGA--ATGATAGGTCGCATGTGTAGTACTA
63 ACGTGTACCGGACGATAAT-GGTCACATGTGTAGTACTA
** * *
33142369 TGTGTAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGGCTACTAT--GTAAAAGAAAGTATCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
* *
33142434 CGTGTATCGGACGGTAATGGTCACATGTGTAGTACTA
64 CGTGTACCGGACGATAATGGTCACATGTGTAGTACTA
33142471 TGTGTAGGCTACTATGT
1 TGTGTAGGCTACTATGT
33142488 GAACTGAACA
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
100 3 0.03
101 60 0.58
102 33 0.32
103 7 0.07
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (100 bp):
TGTGTAGGCTACTATGTAAAAGAAAGTATCGATCACGTGTGTAGTACTATGTGCAGGCTACTACG
TGTACCGGACGATAATGGTCACATGTGTAGTACTA
Found at i:33142422 original size:51 final size:51
Alignment explanation
Indices: 33142302--33142486 Score: 160
Period size: 51 Copynumber: 3.6 Consensus size: 51
33142292 AAAGTGATGG
* * * * * * * *
33142302 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGACAGTAAT-GA
* * *
33142352 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGACAGTAAT-GA
* * * * * * * *
33142403 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGACGGTAATGG
1 TCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGACAGTAATGA
33142454 TCACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACATGTGTAGTACTATGTGTAGGCTACTATG
33142487 TGAACTGAAC
Statistics
Matches: 108, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
50 35 0.32
51 71 0.66
52 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGACAGTAATGA
Found at i:33142546 original size:45 final size:45
Alignment explanation
Indices: 33142495--33142583 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
33142485 TGTGAACTGA
* *
33142495 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
33142540 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
33142584 AGTATCTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:33148145 original size:101 final size:100
Alignment explanation
Indices: 33148030--33148249 Score: 241
Period size: 101 Copynumber: 2.2 Consensus size: 100
33148020 GCACGGATTG
* *
33148030 TGTGTAGGCC-ACTATGTAAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTAC
1 TGTGTA-GCCTACTATGT-AAAG-GAAA-TGATCGATCACGTGTGTAGTACTATGTGCAGGCTAC
*
33148093 TACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGTACTA
62 TACGTGTACCGG-ATGATAATGGTCACATGTGTAGTACTA
** * **
33148131 TGTGTAGCCTACTATGCGTACCGGATATTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGCCTACTAT--GTAAAGGAAATGATCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
* *
33148196 CGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
64 CGTGTACCGGATGATAATGGTCACATGTGTAGTACTA
* *
33148233 TGTGCAGGCTACTATGT
1 TGTGTAGCCTACTATGT
33148250 GAACCGAACA
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
100 11 0.11
101 55 0.54
102 33 0.33
103 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (100 bp):
TGTGTAGCCTACTATGTAAAGGAAATGATCGATCACGTGTGTAGTACTATGTGCAGGCTACTACG
TGTACCGGATGATAATGGTCACATGTGTAGTACTA
Found at i:33148194 original size:51 final size:50
Alignment explanation
Indices: 33148060--33148255 Score: 214
Period size: 51 Copynumber: 3.9 Consensus size: 50
33148050 AGTGAAAGTG
* * *
33148060 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATA
* * * * * *
33148109 ATAGGTCGCATGTGTAGTACTATGTGTAGCCTACTATGCGTACCGGATATT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATA
* * * * *
33148160 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-ATA
* *
33148212 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
33148256 AACATCATTG
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 2 0.02
50 39 0.32
51 77 0.64
52 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATA
Found at i:33148250 original size:26 final size:26
Alignment explanation
Indices: 33148170--33148250 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
33148160 TTCGATCACG
33148170 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
33148196 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
33148221 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
33148247 TGTG
1 TGTG
33148251 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:33148308 original size:45 final size:45
Alignment explanation
Indices: 33148257--33148343 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
33148247 TGTGAACCGA
* *
33148257 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTGG
*
33148302 ACATCATTGATTAATAAGGTGGTTGTTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
33148344 CGAGTATCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACTGG
Found at i:33148467 original size:38 final size:37
Alignment explanation
Indices: 33148421--33148493 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
33148411 AGGTGTGGAA
*
33148421 TTGAATTGAA-TATCGACTTAGAAA-TGGAAAAGTGAATT
1 TTGAATTGAATTAT-GA-TT-GAAAGTGAAAAAGTGAATT
33148459 TTGAATTGAATTATGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTATGATTGAAAGTGAAAAAGTGAA
33148494 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 12 0.38
39 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATTATGATTGAAAGTGAAAAAGTGAATT
Found at i:33150317 original size:24 final size:24
Alignment explanation
Indices: 33150290--33150341 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33150280 TTAGTAAGTC
*
33150290 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
33150314 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
33150338 AAAT
1 AAAT
33150342 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:33152286 original size:24 final size:24
Alignment explanation
Indices: 33152259--33152310 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33152249 TTAGTAAGTC
*
33152259 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
33152283 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
33152307 AAAT
1 AAAT
33152311 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:33153038 original size:20 final size:20
Alignment explanation
Indices: 33153004--33153045 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33152994 AACTATTTAA
** *
33153004 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
33153024 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
33153044 AT
1 AT
33153046 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:33160749 original size:16 final size:16
Alignment explanation
Indices: 33160710--33160749 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
33160700 ATAAAACACC
33160710 GACATAAA-CCTGCTA
1 GACATAAAGCCTGCTA
* *
33160725 GGCACAAAGCCTGCTA
1 GACATAAAGCCTGCTA
33160741 GACATAAAG
1 GACATAAAG
33160750 TCTGAAGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (16 bp):
GACATAAAGCCTGCTA
Found at i:33160776 original size:41 final size:41
Alignment explanation
Indices: 33160731--33160840 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
33160721 GCTAGGCACA
**
33160731 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
1 AAGCCTGCTAGACATAAAGTCTGAAACAATTCACCGGCATC
* * *
33160772 AAGCCTGCTAGACATTAAGTCTGAAACATTTCATCGGCATC
1 AAGCCTGCTAGACATAAAGTCTGAAACAATTCACCGGCATC
* * * *
33160813 AAGCTTCCTAGACGTAAAGTTTGAAACA
1 AAGCCTGCTAGACATAAAGTCTGAAACA
33160841 TCTTATTTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAACAATTCACCGGCATC
Found at i:33174004 original size:20 final size:19
Alignment explanation
Indices: 33173981--33174034 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
33173971 TATTTACTGT
33173981 AAAATAAATTTAAAAAATGG
1 AAAAT-AATTTAAAAAATGG
** *
33174001 AAAATTTTTTAAAAAATGT
1 AAAATAATTTAAAAAATGG
33174020 AAAAT--TTTAAAAAAT
1 AAAATAATTTAAAAAAT
33174035 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.32
19 16 0.52
20 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (19 bp):
AAAATAATTTAAAAAATGG
Found at i:33174013 original size:19 final size:18
Alignment explanation
Indices: 33173989--33174050 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
33173979 GTAAAATAAA
33173989 TTTAAAAAATGGAAAATTT
1 TTTAAAAAAT-GAAAATTT
33174008 TTTAAAAAATGTAAAA--T
1 TTTAAAAAATG-AAAATTT
*
33174025 TTTAAAAAAT--ATATTT
1 TTTAAAAAATGAAAATTT
33174041 TTTAAAAAAT
1 TTTAAAAAAT
33174051 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 2 0.05
16 11 0.28
17 11 0.28
18 1 0.03
19 14 0.36
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
TTTAAAAAATGAAAATTT
Found at i:33174704 original size:13 final size:14
Alignment explanation
Indices: 33174678--33174709 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
33174668 CTTTAACACA
33174678 AAAAATAATAAATT
1 AAAAATAATAAATT
33174692 AAAAATAAT-AATT
1 AAAAATAATAAATT
33174705 AAAAA
1 AAAAA
33174710 ATGACATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAAATAATAAATT
Found at i:33174710 original size:14 final size:15
Alignment explanation
Indices: 33174677--33174711 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
33174667 GCTTTAACAC
33174677 AAAAAATAATAAATT
1 AAAAAATAATAAATT
33174692 -AAAAATAAT-AATT
1 AAAAAATAATAAATT
33174705 AAAAAAT
1 AAAAAAT
33174712 GACATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATAATAAATT
Found at i:33174956 original size:2 final size:2
Alignment explanation
Indices: 33174951--33174977 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33174941 AACACTATTG
33174951 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
33174978 AAATAAGCTT
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:33181706 original size:18 final size:19
Alignment explanation
Indices: 33181683--33181721 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
33181673 GTGCGAGAGC
*
33181683 AAATGAATAAG-AAAAGAA
1 AAATGAAAAAGAAAAAGAA
33181701 AAATGAAAAAGAAAAAGAA
1 AAATGAAAAAGAAAAAGAA
33181720 AA
1 AA
33181722 GAGTTCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (19 bp):
AAATGAAAAAGAAAAAGAA
Found at i:33181758 original size:26 final size:27
Alignment explanation
Indices: 33181706--33181773 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
33181696 AAGAAAAATG
33181706 AAAA-AGA-AAAAGAAAAGAGTTCAGAAA
1 AAAAGAGAGAAAAG-AAAGAGTT-AGAAA
*
33181733 AAAAGAGAGGAAAGAAAGAGTT-GAAA
1 AAAAGAGAGAAAAGAAAGAGTTAGAAA
* *
33181759 ACAAGTGAGAAAAGA
1 AAAAGAGAGAAAAGA
33181774 GAAAACGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 16 0.46
27 4 0.11
28 11 0.31
29 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (27 bp):
AAAAGAGAGAAAAGAAAGAGTTAGAAA
Found at i:33198130 original size:21 final size:21
Alignment explanation
Indices: 33198091--33198130 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33198081 AAATGACGTA
* * *
33198091 GTTTTGCCTTTTAACTTAATG
1 GTTTTGACTTTGAAATTAATG
33198112 GTTTTGACTTTGAAATTAA
1 GTTTTGACTTTGAAATTAA
33198131 GAAAAGGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (21 bp):
GTTTTGACTTTGAAATTAATG
Found at i:33200871 original size:30 final size:29
Alignment explanation
Indices: 33200824--33200884 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
33200814 ATTTTGGCCA
*
33200824 TCACACAGGCCTATCCACACGGTCGTGTG
1 TCACACAGGCCTATCCACACGGTCGCGTG
* *
33200853 TCACACACGGCTTATCCACATGGTCGCGTG
1 TCACACA-GGCCTATCCACACGGTCGCGTG
33200883 TC
1 TC
33200885 TTAATGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (29 bp):
TCACACAGGCCTATCCACACGGTCGCGTG
Found at i:33204049 original size:47 final size:47
Alignment explanation
Indices: 33203980--33204071 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
33203970 TATCACGTTT
*
33203980 AAGACACATTAAACATGCTTAAGACACATCTAAAAGGTGTAATAACA
1 AAGACACATTAAACATGCTTAAGACACATCTAAAAGATGTAATAACA
* * *
33204027 AAGACACATTAAACCTGCTTAAGACACATTTAAAATATGTAATAA
1 AAGACACATTAAACATGCTTAAGACACATCTAAAAGATGTAATAA
33204072 ACTAGGACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (47 bp):
AAGACACATTAAACATGCTTAAGACACATCTAAAAGATGTAATAACA
Found at i:33208999 original size:38 final size:38
Alignment explanation
Indices: 33208923--33209059 Score: 102
Period size: 38 Copynumber: 3.7 Consensus size: 38
33208913 AATATTGTCG
* **
33208923 GATTCACCGACTAGTGCT-GG-ACACATATATTTGGCA
1 GATTCACCGACCAGTGCTGGGCACACATATATCCGGCA
* * *
33208959 GATTCACTGACCAGTGCTGGGCACACCTATATCCGTCA
1 GATTCACCGACCAGTGCTGGGCACACATATATCCGGCA
** * * * *
33208997 GATAAACCGACCAATGCTGGGCAAACATACTATTC-TCA
1 GATTCACCGACCAGTGCTGGGCACACATA-TATCCGGCA
* *
33209035 -ATTTTACCGACCAGTGCAGGGCACA
1 GA-TTCACCGACCAGTGCTGGGCACA
33209060 TATACTTATC
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
36 16 0.20
37 3 0.04
38 56 0.71
39 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (38 bp):
GATTCACCGACCAGTGCTGGGCACACATATATCCGGCA
Found at i:33209065 original size:38 final size:36
Alignment explanation
Indices: 33209002--33209086 Score: 89
Period size: 38 Copynumber: 2.3 Consensus size: 36
33208992 CGTCAGATAA
* * * *
33209002 ACCGACCAATGCTGGGCAAACATACTATTCTCAATTTT
1 ACCGACCAGTGCAGGGCAAACATAC--TTATCAATTCT
* * *
33209040 ACCGACCAGTGCAGGGCACATATACTTATCGATTCT
1 ACCGACCAGTGCAGGGCAAACATACTTATCAATTCT
33209076 ACCGACCAGTG
1 ACCGACCAGTG
33209087 TTGGGCGCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 19 0.47
38 21 0.52
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (36 bp):
ACCGACCAGTGCAGGGCAAACATACTTATCAATTCT
Found at i:33212075 original size:10 final size:9
Alignment explanation
Indices: 33212062--33212134 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 9
33212052 TATGTTTTAA
33212062 ATATATTA-
1 ATATATTAT
33212070 ATATATTAT
1 ATATATTAT
*
33212079 -TTTATTAT
1 ATATATTAT
33212087 ATA-A-TAT
1 ATATATTAT
33212094 ATTATATTAT
1 A-TATATTAT
*
33212104 AT-TATAAT
1 ATATATTAT
33212112 AATTATATTAT
1 -A-TATATTAT
33212123 AT-TATTAT
1 ATATATTAT
33212131 ATAT
1 ATAT
33212135 TAAATAAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
7 4 0.08
8 31 0.60
9 6 0.12
10 6 0.12
11 5 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATATTAT
Found at i:33212121 original size:5 final size:5
Alignment explanation
Indices: 33212063--33212136 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
33212053 ATGTTTTAAA
*
33212063 TATAT TA-A- TATAT TAT-T T-TAT TATAT AATATAT TATAT TATAT TATAA
1 TATAT TATAT TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT
33212111 TA-AT TATAT TATAT TAT-T ATATAT TA
1 TATAT TATAT TATAT TATAT -TATAT TA
33212137 AATAAACTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
3 3 0.05
4 10 0.17
5 39 0.67
6 1 0.02
7 5 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:33212761 original size:23 final size:24
Alignment explanation
Indices: 33212726--33212770 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
33212716 AATATGACAA
33212726 GAAATTAAGTAGAAAAG-AAGTAT
1 GAAATTAAGTAGAAAAGTAAGTAT
33212749 GAAA-TAAGCTAGAAAAGTAAGT
1 GAAATTAAG-TAGAAAAGTAAGT
33212771 GAGCTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
GAAATTAAGTAGAAAAGTAAGTAT
Found at i:33213411 original size:21 final size:23
Alignment explanation
Indices: 33213369--33213411 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33213359 TATTATTCCG
*
33213369 GGTGTGTTTAGGTTGGATATTCT
1 GGTGTGTTTAGGGTGGATATTCT
33213392 GGTGTGTTT-GGGTGGA-ATTC
1 GGTGTGTTTAGGGTGGATATTC
33213412 GCGTATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.44
Consensus pattern (23 bp):
GGTGTGTTTAGGGTGGATATTCT
Found at i:33217591 original size:16 final size:16
Alignment explanation
Indices: 33217572--33217605 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33217562 GCAATTAAAA
*
33217572 TCATAAATTCATTCAT
1 TCATAAATTCAATCAT
*
33217588 TCATATATTCAATCAT
1 TCATAAATTCAATCAT
33217604 TC
1 TC
33217606 TAATCCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (16 bp):
TCATAAATTCAATCAT
Found at i:33227310 original size:14 final size:15
Alignment explanation
Indices: 33227293--33227326 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33227283 AAAAGACTAT
*
33227293 AAATAAAA-TTATAA
1 AAATAAAATTTACAA
33227307 AAATAAAATTTACAA
1 AAATAAAATTTACAA
33227322 AAATA
1 AAATA
33227327 TGATAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATTTACAA
Found at i:33227982 original size:20 final size:20
Alignment explanation
Indices: 33227959--33228018 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 20
33227949 ATAAATTTTC
33227959 AAAAATCAAAATAATATATT
1 AAAAATCAAAATAATATATT
* * *
33227979 AAAAGTGAAAATTAT-TA-T
1 AAAAATCAAAATAATATATT
* *
33227997 AAAAATTAAAAAAATAT-TT
1 AAAAATCAAAATAATATATT
33228016 AAA
1 AAA
33228019 TTTCAAGTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 12 0.39
19 7 0.23
20 12 0.39
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAATCAAAATAATATATT
Found at i:33228111 original size:24 final size:24
Alignment explanation
Indices: 33228062--33228113 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
33228052 TTTAAATACC
* *
33228062 TTTTAAGAATTTTATAAATATATA
1 TTTTAAGAATTTTATAAAAAAATA
33228086 TTTT-AGAATTTTATAAAAAAATTA
1 TTTTAAGAATTTTATAAAAAAA-TA
33228110 TTTT
1 TTTT
33228114 TAAACTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTAAGAATTTTATAAAAAAATA
Found at i:33228154 original size:28 final size:31
Alignment explanation
Indices: 33228105--33228161 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
33228095 TTTATAAAAA
*
33228105 AATTATTTTTAAACTCTCTTTTTAAAATTAC
1 AATTATTTTTAAACTATCTTTTTAAAATTAC
*
33228136 AATT-TTTTTAAA-TAT-TTTTTACAATT
1 AATTATTTTTAAACTATCTTTTTAAAATT
33228162 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 2 0.08
30 8 0.33
31 4 0.17
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (31 bp):
AATTATTTTTAAACTATCTTTTTAAAATTAC
Found at i:33235386 original size:153 final size:153
Alignment explanation
Indices: 33235108--33235414 Score: 569
Period size: 153 Copynumber: 2.0 Consensus size: 153
33235098 TCAAATCCTA
33235108 ATAGAATTTATCTTCCTTATTTATATTTATTCCCCTCATCTTCTTCATCTTTTCCTATGAAAATA
1 ATAGAATTTATCTTCCTTATTTATATTTATTCCCCTCATCTTCTTCATCTTTTCCTATGAAAATA
*
33235173 TTTTTTCTCAATTGTTGATAATTATTTTATTCTCGAATCAAAATCTGTTCTCGATTTCAACACGT
66 TTTTTTCTCAATTGTTGATAATTATTTTATTCTCGAATCAAAATCTATTCTCGATTTCAACACGT
33235238 TTCTCTATCAGTTGATTTTCGTC
131 TTCTCTATCAGTTGATTTTCGTC
*
33235261 ATAGAATTTATCTTCCTTATTTATATTTATTCCCCTCATCTTTTTCATCTTTTCCTATGAAAATA
1 ATAGAATTTATCTTCCTTATTTATATTTATTCCCCTCATCTTCTTCATCTTTTCCTATGAAAATA
*
33235326 TTTTTTCTCAATTGTTGATAATTATTTTATTCTCGAATCAAAATCTATTCTCGATTTCAACTCGT
66 TTTTTTCTCAATTGTTGATAATTATTTTATTCTCGAATCAAAATCTATTCTCGATTTCAACACGT
* *
33235391 TTCTCTATCGGTTGATTTTTGTC
131 TTCTCTATCAGTTGATTTTCGTC
33235414 A
1 A
33235415 ATGACATCCC
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 149 1.00
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (153 bp):
ATAGAATTTATCTTCCTTATTTATATTTATTCCCCTCATCTTCTTCATCTTTTCCTATGAAAATA
TTTTTTCTCAATTGTTGATAATTATTTTATTCTCGAATCAAAATCTATTCTCGATTTCAACACGT
TTCTCTATCAGTTGATTTTCGTC
Found at i:33253626 original size:20 final size:20
Alignment explanation
Indices: 33253601--33253647 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33253591 AGCTCGTTTC
33253601 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* * *
33253621 CAGCTCATTCGAGTTCAATT
1 CAGCTCACTCGAGCTCAAGT
33253641 CAGCTCA
1 CAGCTCA
33253648 ACCTCAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:33262769 original size:29 final size:29
Alignment explanation
Indices: 33262706--33262773 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
33262696 TAATCAACCG
33262706 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33262735 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33262764 CGCACACTTA
1 CGCACACTTA
33262774 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:33262914 original size:29 final size:30
Alignment explanation
Indices: 33262875--33262953 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
33262865 CTTAATAATC
33262875 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
33262905 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
33262934 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33262954 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:33262947 original size:174 final size:174
Alignment explanation
Indices: 33262421--33262922 Score: 923
Period size: 174 Copynumber: 2.9 Consensus size: 174
33262411 AACTCAAGGT
* * * **
33262421 ACTTACCTTTTTCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTGCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
33262486 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
33262551 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
33262595 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
33262660 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
33262725 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
33262769 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
* *
33262834 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
33262899 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
33262923 TGTACAATTT
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 319 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:33265907 original size:13 final size:14
Alignment explanation
Indices: 33265889--33265919 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
33265879 TATAAAATTA
33265889 CCAAAATTTAA-GT
1 CCAAAATTTAATGT
33265902 CCAAAATTTAATGT
1 CCAAAATTTAATGT
33265916 CCAA
1 CCAA
33265920 TGTCTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:33288653 original size:20 final size:19
Alignment explanation
Indices: 33288625--33288677 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
33288615 CAAATGAGCT
33288625 TAAAA-TGAGCTGATTAAGC
1 TAAAAGTGAGCTGA-TAAGC
* *
33288644 TAAGAGTGAGCTCGATGAGC
1 TAAAAGTGAGCT-GATAAGC
*
33288664 TAAAATTGAGCTGA
1 TAAAAGTGAGCTGA
33288678 ATGCACTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 20 0.71
21 2 0.07
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (19 bp):
TAAAAGTGAGCTGATAAGC
Found at i:33294876 original size:13 final size:13
Alignment explanation
Indices: 33294844--33294880 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
33294834 ATAGTAGTTT
33294844 CTCGAAAAAAAAA
1 CTCGAAAAAAAAA
33294857 CTC-AAAAAAAAA
1 CTCGAAAAAAAAA
*
33294869 TTCGAAAAAAAA
1 CTCGAAAAAAAA
33294881 CTAGTTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.70, C:0.14, G:0.05, T:0.11
Consensus pattern (13 bp):
CTCGAAAAAAAAA
Found at i:33294940 original size:12 final size:12
Alignment explanation
Indices: 33294923--33294966 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
33294913 TCAAGTTGTG
33294923 AAAAAAAATTGA
1 AAAAAAAATTGA
*
33294935 AAAAAAAATTGT
1 AAAAAAAATTGA
*
33294947 GAAAAAAATTGA
1 AAAAAAAATTGA
33294959 AAAAAAAA
1 AAAAAAAA
33294967 AGAGAGCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:33294967 original size:25 final size:25
Alignment explanation
Indices: 33294918--33294966 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
33294908 GGATATCAAG
33294918 TTGTGAAAAAAAATTGAAAAAAAAA
1 TTGTGAAAAAAAATTGAAAAAAAAA
33294943 TTGTG-AAAAAAATTGAAAAAAAAA
1 TTGTGAAAAAAAATTGAAAAAAAAA
33294967 AGAGAGCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.20
Consensus pattern (25 bp):
TTGTGAAAAAAAATTGAAAAAAAAA
Found at i:33300064 original size:29 final size:29
Alignment explanation
Indices: 33300030--33300102 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
33300020 TTAGATATTA
* *
33300030 TTAAATATGTCCTAATTAGTTTAGGAGTT
1 TTAAATATGTCCTAATTAGTTCAAGAGTT
*
33300059 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGAGTT
33300088 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
33300103 ACTAATACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.44
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGAGTT
Found at i:33300947 original size:19 final size:18
Alignment explanation
Indices: 33300914--33300951 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
33300904 AAATAACTTC
*
33300914 ATTGATCAAGTAGAACGA
1 ATTGATCAAGAAGAACGA
33300932 ATTGACTCAAGAAGAACGA
1 ATTGA-TCAAGAAGAACGA
33300951 A
1 A
33300952 ACTTCATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (18 bp):
ATTGATCAAGAAGAACGA
Found at i:33305492 original size:42 final size:42
Alignment explanation
Indices: 33305440--33305530 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
33305430 AATGTCAATC
*
33305440 TTAGCTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
* *
33305482 TTAGTTAGCTAATTCAGCTGTTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
33305524 TTAGTTA
1 TTAGTTA
33305531 TTTTAATCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (42 bp):
TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
Found at i:33307441 original size:22 final size:22
Alignment explanation
Indices: 33307405--33307468 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
33307395 ACCTCTTTGA
*
33307405 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
33307428 ACTATACCATTTCGTA-CAAAT
1 ACCATACCATTTCGTACCAAAT
* * *
33307449 TCCATACTATTTCGAACCAA
1 ACCATACCATTTCGTACCAA
33307469 TTCCCAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.50
22 14 0.41
23 3 0.09
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:33307843 original size:15 final size:16
Alignment explanation
Indices: 33307803--33307841 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
33307793 TCAAAATCGA
*
33307803 AAAAAAAATTGAAAGG
1 AAAAAAAATTGAAAAG
33307819 AAAAAAAATTGAAAAG
1 AAAAAAAATTGAAAAG
33307835 AAAAAAA
1 AAAAAAA
33307842 TTACATACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAAAAAATTGAAAAG
Found at i:33310639 original size:18 final size:18
Alignment explanation
Indices: 33310618--33310656 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33310608 TTTCTTCAAC
* *
33310618 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
33310636 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
33310654 TTC
1 TTC
33310657 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:33314911 original size:18 final size:19
Alignment explanation
Indices: 33314878--33314930 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
33314868 GCGAAAATAC
33314878 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATGAAA
* *
33314898 AAAAGAAAGAAAATTCAAA
1 AAAAGAAAGAAAAATGAAA
*
33314917 AAAGAGAATGAAAA
1 AAA-AGAAAGAAAA
33314931 GAGAGCGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAGAAAGAAAAATGAAA
Found at i:33314963 original size:20 final size:19
Alignment explanation
Indices: 33314878--33314963 Score: 59
Period size: 19 Copynumber: 4.5 Consensus size: 19
33314868 GCGAAAATAC
33314878 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAA-GAAA
***
33314898 AAAAG-AAAGAAAATTCAA
1 AAAAGAAAAGAAAAAGAAA
* *
33314916 AAAAGAGAATG-AAAAGAGA
1 AAAAGA-AAAGAAAAAGAAA
***
33314935 GCGAGAAAAGAAAAAGAAGA
1 AAAAGAAAAGAAAAAGAA-A
33314955 AAAAGAAAA
1 AAAAGAAAA
33314964 AGTGAGTGAA
Statistics
Matches: 46, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
18 10 0.22
19 21 0.46
20 15 0.33
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAGAAA
Found at i:33318252 original size:41 final size:42
Alignment explanation
Indices: 33318202--33318291 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 42
33318192 AATGTCAATC
*
33318202 TTAGCTAGCTAATTCAACTGCTGGAATAAGACTT-AACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
* *
33318243 TTAGTTAGCTAATTCAGCTGTTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
33318285 TTAGTTA
1 TTAGTTA
33318292 TTTAATCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 31 0.69
42 14 0.31
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (42 bp):
TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
Found at i:33320432 original size:14 final size:15
Alignment explanation
Indices: 33320395--33320430 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
33320385 GTAAAATCGA
*
33320395 AAAAAAATTGAAAGG
1 AAAAAAATTGAAAAG
33320410 AAAAAAATTGAAAAG
1 AAAAAAATTGAAAAG
33320425 AAAAAA
1 AAAAAA
33320431 TTACATACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (15 bp):
AAAAAAATTGAAAAG
Found at i:33323186 original size:18 final size:18
Alignment explanation
Indices: 33323165--33323203 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33323155 TTTCTTCAAC
* *
33323165 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
33323183 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
33323201 TTC
1 TTC
33323204 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:33325575 original size:12 final size:13
Alignment explanation
Indices: 33325558--33325586 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33325548 TTAAACTAAG
33325558 TAAATAAAT-AAA
1 TAAATAAATAAAA
33325570 TAAATAAATAAAA
1 TAAATAAATAAAA
33325583 TAAA
1 TAAA
33325587 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:33327452 original size:18 final size:19
Alignment explanation
Indices: 33327419--33327471 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
33327409 GCGAAAATAC
33327419 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATGAAA
* *
33327439 AAAAGAAAGAAAATTCAAA
1 AAAAGAAAGAAAAATGAAA
*
33327458 AAAGAGAATGAAAA
1 AAA-AGAAAGAAAA
33327472 GAGAGCGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAGAAAGAAAAATGAAA
Found at i:33327503 original size:19 final size:19
Alignment explanation
Indices: 33327419--33327503 Score: 59
Period size: 18 Copynumber: 4.5 Consensus size: 19
33327409 GCGAAAATAC
33327419 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAG-AAAATGAAA
**
33327439 AAAAG-AAAGAAAATTCAA
1 AAAAGAAAAGAAAATGAAA
* *
33327457 AAAAGAGAATGAAAA-GAGA
1 AAAAGA-AAAGAAAATGAAA
***
33327476 GCGAGAAAAGAAAA-GAAGA
1 AAAAGAAAAGAAAATGAA-A
33327495 AAAAGAAAA
1 AAAAGAAAA
33327504 AGTGAGTGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
18 21 0.44
19 15 0.31
20 12 0.25
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAGAAAATGAAA
Found at i:33330795 original size:42 final size:42
Alignment explanation
Indices: 33330743--33330833 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
33330733 AATGTCAATC
*
33330743 TTAGCTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
* *
33330785 TTAGTTAGCTAATTCAGCTGTTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
33330827 TTAGTTA
1 TTAGTTA
33330834 TTTTAATCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (42 bp):
TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
Found at i:33332756 original size:21 final size:21
Alignment explanation
Indices: 33332713--33332775 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
33332703 TTTGAACCAT
* *
33332713 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTA-CAAATTCCA
33332735 TACCATTTCGTACAAATTCCA
1 TACCATTTCGTACAAATTCCA
* * *
33332756 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACAAATTCC
33332776 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACAAATTCCA
Found at i:33333142 original size:15 final size:16
Alignment explanation
Indices: 33333101--33333140 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
33333091 AGTCAAAATC
*
33333101 GAAAAAAAATTGAAAG
1 GAAAAAAAATTGAAAA
33333117 GAAAAAAAATTGAAAA
1 GAAAAAAAATTGAAAA
33333133 GAAAAAAA
1 GAAAAAAA
33333141 TTACATACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (16 bp):
GAAAAAAAATTGAAAA
Found at i:33335402 original size:20 final size:20
Alignment explanation
Indices: 33335356--33335407 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
33335346 GCGAAAATAC
* *
33335356 AAAAGA-AAAGAAAAATGAT
1 AAAAGAGAAAGAAAAATCAA
*
33335375 AAAA-AGAAAGAAAATTCAA
1 AAAAGAGAAAGAAAAATCAA
*
33335394 AAAAGAGAATGAAA
1 AAAAGAGAAAGAAA
33335408 GAGAGCGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAAGAGAAAGAAAAATCAA
Found at i:33339017 original size:4 final size:4
Alignment explanation
Indices: 33339008--33339041 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33338998 TATTTTTATT
33339008 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
33339042 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33341390 original size:18 final size:18
Alignment explanation
Indices: 33341369--33341407 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33341359 GATTGAGAGT
* *
33341369 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
33341387 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
33341405 GAA
1 GAA
33341408 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:33342823 original size:17 final size:18
Alignment explanation
Indices: 33342801--33342839 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
33342791 AAGTTTTATT
*
33342801 TTTATTTTTTTTATTTA-
1 TTTATTTATTTTATTTAG
33342818 TTTATTTATTTTATTTAG
1 TTTATTTATTTTATTTAG
33342836 TTTA
1 TTTA
33342840 AATTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTTATTTAG
Found at i:33342834 original size:9 final size:9
Alignment explanation
Indices: 33342795--33342839 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
33342785 GTTGTAAAGT
33342795 TTTATTTTTA
1 TTTA-TTTTA
*
33342805 TTTTTTTTA
1 TTTATTTTA
33342814 TTTA-TTTA
1 TTTATTTTA
33342822 TTTATTTTA
1 TTTATTTTA
*
33342831 TTTAGTTTA
1 TTTATTTTA
33342840 AATTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.26
9 20 0.65
10 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTATTTTA
Found at i:33344321 original size:21 final size:21
Alignment explanation
Indices: 33344278--33344340 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
33344268 TTTGAACCAT
* *
33344278 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTA-CAAATTCCA
33344300 TACCATTTCGTACAAATTCCA
1 TACCATTTCGTACAAATTCCA
* * *
33344321 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACAAATTCC
33344341 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACAAATTCCA
Found at i:33351444 original size:13 final size:13
Alignment explanation
Indices: 33351399--33351444 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
33351389 ACGAGATTGT
33351399 AAAAAAAA-TCGA
1 AAAAAAAATTCGA
*
33351411 AAAAAAGATTCGA
1 AAAAAAAATTCGA
33351424 AAAAAAAATTTC-A
1 AAAAAAAA-TTCGA
33351437 AAAAAAAA
1 AAAAAAAA
33351445 AATTTGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 7 0.23
13 20 0.67
14 3 0.10
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:33353568 original size:15 final size:13
Alignment explanation
Indices: 33353534--33353581 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
33353524 TTGAGCGAGA
33353534 AAAAGAAAAAGAG
1 AAAAGAAAAAGAG
*
33353547 AAAA-AAAAGAGTG
1 AAAAGAAAA-AGAG
33353560 AAAAGAAAAAGAAAG
1 AAAAGAAAAAG--AG
33353575 AAAAGAA
1 AAAAGAA
33353582 TGAGGAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 4 0.14
15 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:33363989 original size:13 final size:13
Alignment explanation
Indices: 33363971--33364009 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
33363961 ACTAGCTCTC
33363971 TTTTTTTTCACAA
1 TTTTTTTTCACAA
33363984 TTTTTTTTCACAA
1 TTTTTTTTCACAA
33363997 TTTTTTTTCACAA
1 TTTTTTTTCACAA
33364010 CTTGATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:33364073 original size:12 final size:13
Alignment explanation
Indices: 33364047--33364092 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
33364037 TGGAAACTAG
*
33364047 TTTTTTTTCAAAAT
1 TTTTTTTTC-GAAT
33364061 TTTTTTTT-GAAT
1 TTTTTTTTCGAAT
*
33364073 TTTTTTTTCGAGT
1 TTTTTTTTCGAAT
33364086 TTTTTTT
1 TTTTTTT
33364093 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.38
13 10 0.34
14 8 0.28
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTTTTTTCGAAT
Found at i:33364088 original size:13 final size:13
Alignment explanation
Indices: 33364060--33364096 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
33364050 TTTTTCAAAA
*
33364060 TTTTTTTTT-GAA
1 TTTTTTTTTCGAG
33364072 TTTTTTTTTCGAG
1 TTTTTTTTTCGAG
33364085 -TTTTTTTTCGAG
1 TTTTTTTTTCGAG
33364097 AAACTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 21 0.91
13 2 0.09
ACGTcount: A:0.11, C:0.05, G:0.14, T:0.70
Consensus pattern (13 bp):
TTTTTTTTTCGAG
Found at i:33364093 original size:12 final size:12
Alignment explanation
Indices: 33364045--33364096 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
33364035 AATGGAAACT
*
33364045 AGTTTTTTTTCAA
1 AGTTTTTTTTC-G
* *
33364058 AATTTTTTTTTG
1 AGTTTTTTTTCG
*
33364070 AATTTTTTTTTCG
1 -AGTTTTTTTTCG
33364083 AGTTTTTTTTCG
1 AGTTTTTTTTCG
33364095 AG
1 AG
33364097 AAACTACTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.17, C:0.06, G:0.12, T:0.65
Consensus pattern (12 bp):
AGTTTTTTTTCG
Found at i:33372980 original size:25 final size:25
Alignment explanation
Indices: 33372952--33373010 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
33372942 ACGAGTTGTA
*
33372952 AACGGTAAGCTCTTCTGAGATGAAT
1 AACGGTAAGCTCCTCTGAGATGAAT
* *
33372977 AACGGTAAGCTCCTCTGAGTTGAGT
1 AACGGTAAGCTCCTCTGAGATGAAT
*
33373002 AACGATAAG
1 AACGGTAAG
33373011 GTCATAAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (25 bp):
AACGGTAAGCTCCTCTGAGATGAAT
Found at i:33378676 original size:497 final size:497
Alignment explanation
Indices: 33377737--33378735 Score: 1791
Period size: 497 Copynumber: 2.0 Consensus size: 497
33377727 GTGGTCTACC
* *
33377737 TCTCACAGCAGTATTGCTCGGCCTCATGGTTTGAGCTTTGTCTTTCTCGAATTTCTCTAGGCAAC
1 TCTCACAGCAGTATTGCTCGGCCTCATGGTTTGAGCTTTGTCTTCCTCGAATTTATCTAGGCAAC
* * * *
33377802 CTCTAAGATAGTGGTCTAAGGAACCACACCTGAAACACACTCCATTTTTCATTTGACGTTAATCA
66 CTCTAAAAGAGTGGTCTAAGGAACCACACCTGAAACACACTCCATTTTTCATTCGACGCTAATCA
*
33377867 TAATGTGGCCTATTACAAAGCTTGCACTCAGGTCTGGTGTTTCTAACAATACCCACACTCACTAC
131 TAATGTGGCCTATTACAAAGCTTGCACTCAGGTCTAGTGTTTCTAACAATACCCACACTCACTAC
*
33377932 AGAGGTAGCCTAGGGTTTAGGACTGGAGCGTCTTGTATCCTTGCTTCTACTAGAATGCCCCGCAG
196 AGAGGTAGCCTAGGGTTTAGGACTGGAGCGTCTAGTATCCTTGCTTCTACTAGAATGCCCCGCAG
* * * *
33377997 AAGTAGTAGAACGATAGTGATGTTCTTTAGATTTCTTCGATGCTGACTGATGTGACTTTCTTGTT
261 AAGTAGTAGAACGATAGTGATGTTCTTTAAATTTATTCGATGCTGACTAATGCGACTTTCTTGTT
* * *
33378062 AATCTCTTTCTCGAATCTCTAGCTTCAAATTCAGCGTGGCTTTTTTCTTTGCTCAGCTCTTCAGT
326 AATCTCTTTCTCGAATCTCTACCTTCAAATTCAACGTGGCTTTTTTCTTTGCTCAGCTCTTCAGC
33378127 TTTATGTGCCCGATCAACTAGTACAACAAACTCTTTCAACTCAATGATTCTGACTAAAAGCTTTA
391 TTTATGTGCCCGATCAACTAGTACAACAAACTCTTTCAACTCAATGATTCTGACTAAAAGCTTTA
33378192 TATCATCATTTAAGCCATCTTCAAACCTCTTACACATTACAG
456 TATCATCATTTAAGCCATCTTCAAACCTCTTACACATTACAG
*
33378234 TCTCGCAGCAGTATTGCTCGGCCTCATGGTTTGAGCTTTGTCTTCCTCGAATTTATCTAGGCAAC
1 TCTCACAGCAGTATTGCTCGGCCTCATGGTTTGAGCTTTGTCTTCCTCGAATTTATCTAGGCAAC
* *
33378299 CTCTAAAAGAGTGGTCTAAGGAACCACACCTGAGACACACTCCATTTTTCATTCGACGCTCATCA
66 CTCTAAAAGAGTGGTCTAAGGAACCACACCTGAAACACACTCCATTTTTCATTCGACGCTAATCA
* *
33378364 TAATGTGGCCTATTACAATGCTTGCACTCAGGTCTAGTGTTTCTAACAATACCCACACTCGCTAC
131 TAATGTGGCCTATTACAAAGCTTGCACTCAGGTCTAGTGTTTCTAACAATACCCACACTCACTAC
33378429 AGAGGTAGCCTAGGGTTTAGGACTGGAGCGTCTAGTATCCTTGCTTCTACTAGAATGCCCCGCAG
196 AGAGGTAGCCTAGGGTTTAGGACTGGAGCGTCTAGTATCCTTGCTTCTACTAGAATGCCCCGCAG
33378494 AAGTAGTAGAACGATAGTGATGTTCTTTAAATTTATTCGATGCTGACTAATGCGACTTTCTTGTT
261 AAGTAGTAGAACGATAGTGATGTTCTTTAAATTTATTCGATGCTGACTAATGCGACTTTCTTGTT
*
33378559 AATCTCTTTCTCGAATCTCTACCTTCAAATTCAACGTGTCTTTTTTCTTTGCTCAGCTCTTCAGC
326 AATCTCTTTCTCGAATCTCTACCTTCAAATTCAACGTGGCTTTTTTCTTTGCTCAGCTCTTCAGC
33378624 TTTATGTGCCCGATCAACTAGTACAACAAACTCTTTCAACTCAATGATTCTGACTAAAAGCTTTA
391 TTTATGTGCCCGATCAACTAGTACAACAAACTCTTTCAACTCAATGATTCTGACTAAAAGCTTTA
* *
33378689 TATCATCATTTAAGCCTTCTTCAAACCTCTTACACATTGCAG
456 TATCATCATTTAAGCCATCTTCAAACCTCTTACACATTACAG
33378731 TCTCA
1 TCTCA
33378736 GTCAGAATAC
Statistics
Matches: 478, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
497 478 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (497 bp):
TCTCACAGCAGTATTGCTCGGCCTCATGGTTTGAGCTTTGTCTTCCTCGAATTTATCTAGGCAAC
CTCTAAAAGAGTGGTCTAAGGAACCACACCTGAAACACACTCCATTTTTCATTCGACGCTAATCA
TAATGTGGCCTATTACAAAGCTTGCACTCAGGTCTAGTGTTTCTAACAATACCCACACTCACTAC
AGAGGTAGCCTAGGGTTTAGGACTGGAGCGTCTAGTATCCTTGCTTCTACTAGAATGCCCCGCAG
AAGTAGTAGAACGATAGTGATGTTCTTTAAATTTATTCGATGCTGACTAATGCGACTTTCTTGTT
AATCTCTTTCTCGAATCTCTACCTTCAAATTCAACGTGGCTTTTTTCTTTGCTCAGCTCTTCAGC
TTTATGTGCCCGATCAACTAGTACAACAAACTCTTTCAACTCAATGATTCTGACTAAAAGCTTTA
TATCATCATTTAAGCCATCTTCAAACCTCTTACACATTACAG
Found at i:33381122 original size:24 final size:24
Alignment explanation
Indices: 33381074--33381120 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33381064 ACTGGTCATA
*
33381074 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
33381098 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
33381121 GGGATATGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:33381219 original size:11 final size:11
Alignment explanation
Indices: 33381205--33381229 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33381195 TTTTATTTTC
33381205 TTTTCAATTCT
1 TTTTCAATTCT
33381216 TTTTCAATTCT
1 TTTTCAATTCT
33381227 TTT
1 TTT
33381230 CCAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTCAATTCT
Found at i:33381891 original size:20 final size:20
Alignment explanation
Indices: 33381866--33381914 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
33381856 CATGGGCTTA
33381866 GGCCGAAATGGGCCACGTTG
1 GGCCGAAATGGGCCACGTTG
33381886 GGCCGAAATGGGCCACGTTG
1 GGCCGAAATGGGCCACGTTG
33381906 GGCCGAAAT
1 GGCCGAAAT
33381915 AGGCTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.14
Consensus pattern (20 bp):
GGCCGAAATGGGCCACGTTG
Found at i:33383711 original size:27 final size:27
Alignment explanation
Indices: 33383669--33384119 Score: 443
Period size: 27 Copynumber: 16.9 Consensus size: 27
33383659 TTCTGAGAGG
**
33383669 TCGAAATACCCTTATAGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
* * * *
33383696 CCAAAATACCCCTATAAGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
*
33383723 CCGAAATACCCCCA-AGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
* ** *
33383749 -CCAAATACCCTTATAAGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
*
33383775 TCGAAATACCCCTATAGGGT-AAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
* * * *
33383801 CCAAAATACCCCCATAAGGTTAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
*
33383828 TCGGAATACCCCCATAGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
* *
33383855 -CTAAAATA-CCCCATAGGGTAAAATAA
1 TC-GAAATACCCCCATAGGGTAAAATGA
*
33383881 ACGAAATACCCCCATAGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
**
33383908 TCGAAATACCCTTATAGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
*
33383935 TCAAAATACCCCCATAGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
33383962 TCGAAATA-CCCCATAGGGTAAAATGTA
1 TCGAAATACCCCCATAGGGTAAAATG-A
* * *
33383989 T-TAAATACCCCCATAAGGTAAAATAA
1 TCGAAATACCCCCATAGGGTAAAATGA
** *
33384015 TCGAAATACCCTTATAGGGT-AAATAA
1 TCGAAATACCCCCATAGGGTAAAATGA
* ** * * *
33384041 CCGAAGGATCCTCATAAGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGA
* ** *
33384068 -CTGGAATACCCTTATAGCGTAAAATGA
1 TC-GAAATACCCCCATAGGGTAAAATGA
* *
33384095 TCGAAATGCCCCCATAAGGTAAAAT
1 TCGAAATACCCCCATAGGGTAAAAT
33384120 AATTGTTATA
Statistics
Matches: 350, Mismatches: 62, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
25 10 0.03
26 112 0.32
27 227 0.65
28 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
TCGAAATACCCCCATAGGGTAAAATGA
Found at i:33383751 original size:53 final size:54
Alignment explanation
Indices: 33383669--33384119 Score: 477
Period size: 53 Copynumber: 8.5 Consensus size: 54
33383659 TTCTGAGAGG
** *
33383669 TCGAAATACCCTTATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
* *
33383723 CCGAAATACCCCCA-AGGGTAAAATGACC-AAATACCCTTATAAGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
* * * *
33383775 TCGAAATACCCCTATAGGGT-AAATGACCAAAATACCCCCATAAGGTTAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
* ** * *
33383828 TCGGAATACCCCCATAGGGTAAAATGACTAAAATACCCC-ATAGGGTAAAATAA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
* * * *
33383881 ACGAAATACCCCCATAGGGTAAAATGATCGAAATACCCTTATAGGGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
* * *
33383935 TCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCC-ATAGGGTAAAATGTA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATG-A
* * * * * * *
33383989 T-TAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGT-AAATAA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
* ** * * * * * *
33384041 CCGAAGGATCCTCATAAGGTAAAATGACTGGAATACCCTTAT-AGCGTAAAATGA
1 TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAG-GTAAAATGA
* *
33384095 TCGAAATGCCCCCATAAGGTAAAAT
1 TCGAAATACCCCCATAGGGTAAAAT
33384120 AATTGTTATA
Statistics
Matches: 340, Mismatches: 48, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
52 45 0.13
53 185 0.54
54 110 0.32
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (54 bp):
TCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
Found at i:33383865 original size:80 final size:81
Alignment explanation
Indices: 33383669--33384119 Score: 506
Period size: 80 Copynumber: 5.6 Consensus size: 81
33383659 TTCTGAGAGG
* *
33383669 TCGAAATACCCTTATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCGAAATACCC
1 TCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCTATAGGGTAAAATGACCGAAATACCC
33383734 CCA-AGGGTAAAATGA
66 CCATAGGGTAAAATGA
* * * *
33383749 -CCAAATACCCTTATAAGGTAAAATGATCGAAATACCCCTATAGGGT-AAATGACCAAAATACCC
1 TCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCTATAGGGTAAAATGACCGAAATACCC
* *
33383812 CCATAAGGTTAAATGA
66 CCATAGGGTAAAATGA
* ** * *
33383828 TCGGAATACCCCCATAGGGTAAAATGA-CTAAAATACCCC-ATAGGGTAAAATAAACGAAATACC
1 TCGAAATACCCTTATAGGGTAAAATGATC-AAAATACCCCTATAGGGTAAAATGACCGAAATACC
33383891 CCCATAGGGTAAAATGA
65 CCCATAGGGTAAAATGA
* *
33383908 TCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGATCGAAATA-CC
1 TCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCTATAGGGTAAAATGACCGAAATACCC
33383972 CCATAGGGTAAAATGTA
66 CCATAGGGTAAAATG-A
* ** * * * * * ** *
33383989 T-TAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGT-AAATAACCGAAGGATCC
1 TCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCTATAGGGTAAAATGACCGAAATACCC
* *
33384052 TCATAAGGTAAAATGA
66 CCATAGGGTAAAATGA
* * * * * *
33384068 -CTGGAATACCCTTATAGCGTAAAATGATCGAAATGCCCCCATAAGGTAAAAT
1 TC-GAAATACCCTTATAGGGTAAAATGATCAAAATACCCCTATAGGGTAAAAT
33384120 AATTGTTATA
Statistics
Matches: 311, Mismatches: 49, Indels: 21
0.82 0.13 0.06
Matches are distributed among these distances:
78 19 0.06
79 70 0.23
80 195 0.63
81 27 0.09
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (81 bp):
TCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCTATAGGGTAAAATGACCGAAATACCC
CCATAGGGTAAAATGA
Found at i:33384132 original size:107 final size:107
Alignment explanation
Indices: 33383669--33384122 Score: 416
Period size: 107 Copynumber: 4.3 Consensus size: 107
33383659 TTCTGAGAGG
** * * * * * * * * *
33383669 TCGAAATACCCTTATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCGAAATACCC
1 TCGAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGTAAAATAACCAAAAGACCC
* * *
33383734 CCA-AGGGTAAAATGAC-CAAATACCCTTATAAGGTAAAATGA
66 CCATAGGGTAAAATGACTGAAATACCC-CATAGGGTAAAATGA
* * * * * ** * * * * ** *
33383775 TCGAAATACCCCTATAGGGT-AAATGACCAAAATACCCCCATAAGGTTAAATGATCGGAATACCC
1 TCGAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGTAAAATAACCAAAAGACCC
* *
33383839 CCATAGGGTAAAATGACTAAAATACCCCATAGGGTAAAATAA
66 CCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGA
* * * * * *
33383881 ACGAAATACCCCCATAGGGTAAAATGATCGAAATACCCTTATAGGGTAAAATGATCAAAATACCC
1 TCGAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGTAAAATAACCAAAAGACCC
33383946 CCATAGGGTAAAATGA-TCGAAATACCCCATAGGGTAAAATGTA
66 CCATAGGGTAAAATGACT-GAAATACCCCATAGGGTAAAATG-A
* * * *
33383989 T-TAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGT-AAATAACCGAAGGATCC
1 TCGAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGTAAAATAACCAAAAGACCC
* * * * *
33384052 TCATAAGGTAAAATGACTGGAATACCCTTATAGCGTAAAATGA
66 CCATAGGGTAAAATGACTGAAATACCC-CATAGGGTAAAATGA
*
33384095 TCGAAATGCCCCCATAAGGTAAAATAAT
1 TCGAAATACCCCCATAAGGTAAAATAAT
33384123 TGTTATACCC
Statistics
Matches: 302, Mismatches: 38, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
105 43 0.14
106 98 0.32
107 160 0.53
108 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (107 bp):
TCGAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGTAAAATAACCAAAAGACCC
CCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGA
Found at i:33384577 original size:28 final size:29
Alignment explanation
Indices: 33384537--33384626 Score: 159
Period size: 28 Copynumber: 3.2 Consensus size: 29
33384527 TTATTGTACT
33384537 ACACT-ATTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
33384565 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
33384593 ACACTG-TTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
33384621 ACACTG
1 ACACTG
33384627 TACTACCACT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 2 0.03
28 55 0.92
29 3 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (29 bp):
ACACTGATTACTGTATTGGGCTAAGGCCC
Found at i:33394236 original size:37 final size:37
Alignment explanation
Indices: 33394186--33394260 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
33394176 TCGAAGCAAA
* *
33394186 GCTGCCAGTAATCAAAATGGATAAGAGCTGTAAACAG
1 GCTGCCAGTAATCAAAATGGATAAGACCCGTAAACAG
*
33394223 GCTGCCAGTAATCAAAATGGCTAAGACCCGTAAACAG
1 GCTGCCAGTAATCAAAATGGATAAGACCCGTAAACAG
33394260 G
1 G
33394261 ATAGCTCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (37 bp):
GCTGCCAGTAATCAAAATGGATAAGACCCGTAAACAG
Found at i:33396532 original size:23 final size:22
Alignment explanation
Indices: 33396480--33396532 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33396470 TCCACATCTT
*
33396480 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
33396502 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
33396525 TTTCTTTT
1 TTTCTTTT
33396533 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:33398896 original size:4 final size:4
Alignment explanation
Indices: 33398883--33398919 Score: 65
Period size: 4 Copynumber: 9.0 Consensus size: 4
33398873 AAATTTACAC
33398883 TAAA TAAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
33398920 AATAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:33399143 original size:32 final size:32
Alignment explanation
Indices: 33399099--33399256 Score: 210
Period size: 32 Copynumber: 4.9 Consensus size: 32
33399089 AGTCATAAGT
* * *
33399099 ACAGTAATATGATTGGCACAAAACCATCAGTA
1 ACAGTAATATGATCGGTACAAAGCCATCAGTA
* *
33399131 ACGGTAATATGATCGGTACAAAGACATCAGTA
1 ACAGTAATATGATCGGTACAAAGCCATCAGTA
* **
33399163 AC-GATAATATAATTAGTACAAAGCCATCAGTA
1 ACAG-TAATATGATCGGTACAAAGCCATCAGTA
*
33399195 ACAGTAATATGATCGGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGTACAAAGCCATCAGTA
*
33399227 ACAGTGATATGATCGGTACAAAGCCATCAG
1 ACAGTAATATGATCGGTACAAAGCCATCAG
33399257 GGGTACTTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
31 1 0.01
32 107 0.98
33 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (32 bp):
ACAGTAATATGATCGGTACAAAGCCATCAGTA
Found at i:33399717 original size:27 final size:27
Alignment explanation
Indices: 33399424--33399724 Score: 306
Period size: 27 Copynumber: 11.2 Consensus size: 27
33399414 TATTTTGGTT
* *
33399424 ATTTTACCCTTTAGGGGTAATT-TAGTC
1 ATTTTACCCTTCAGGGGTAATTCGA-TC
* * *
33399451 ATTTTACCCTTTAAGGGTAATTCGGTC
1 ATTTTACCCTTCAGGGGTAATTCGATC
*
33399478 ATTTTACCCTTCAGGGGTAATTCGGTC
1 ATTTTACCCTTCAGGGGTAATTCGATC
* * *
33399505 ATTTTACCCTTCAAGGGTACTTCGGTC
1 ATTTTACCCTTCAGGGGTAATTCGATC
* * *
33399532 TTTTTACCCTTCAAGGGTAATTTTG-TC
1 ATTTTACCCTTCAGGGGTAA-TTCGATC
** *
33399559 ATTTTACCCTTTGGGGGTAATT-TAGTC
1 ATTTTACCCTTCAGGGGTAATTCGA-TC
*
33399586 A-TTTACCCTTCGGGGGTAATTC-AGTC
1 ATTTTACCCTTCAGGGGTAATTCGA-TC
* *
33399612 ATTTTACCTTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCAGGGGTAATTCGATC
**
33399639 ATTTTACCCTTTGGGGGTAATTCGATC
1 ATTTTACCCTTCAGGGGTAATTCGATC
* * *
33399666 ATTTTAACTTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCAGGGGTAATTCGATC
* *
33399693 ATTTTACCCTTCAGCGGTAATTCGACC
1 ATTTTACCCTTCAGGGGTAATTCGATC
33399720 ATTTT
1 ATTTT
33399725 TTGACCTCTC
Statistics
Matches: 240, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 26 0.11
27 210 0.88
28 4 0.02
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCAGGGGTAATTCGATC
Found at i:33399723 original size:134 final size:134
Alignment explanation
Indices: 33399424--33399723 Score: 316
Period size: 134 Copynumber: 2.2 Consensus size: 134
33399414 TATTTTGGTT
* * * * *** *
33399424 ATTTTACCCTTTAGGGGTAATTTAGTCATTTTACCCTTTAAGGGTAATTCGGTCATTTTACCCTT
1 ATTTTACCCTTCAGCGGTAATTGAGCCA-TTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTT
* * * * *
33399489 CAGGGGTAATTCGGTCATTTTACCCTTCAAGGGTACTTCGGTCTTTTTACCCTTCAAGGGTAATT
65 CAGGGGTAATTCGATCATTTTACCCTTCAAGGGTAATTCGATCATTTTAACCTTCAAGGGTAATT
*
33399554 TTGTC
130 TCGTC
** * * * *
33399559 ATTTTACCCTTTGGGGGTAATTTAGTCATTTACCCTTCGGGGGTAATTCAGTCATTTTACCTTTC
1 ATTTTACCCTTCAGCGGTAATTGAGCCATTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTC
* *** * **
33399624 GGGGGTAATTCGATCATTTTACCCTTTGGGGGTAATTCGATCATTTTAACTTTCGGGGGTAA-TT
66 AGGGGTAATTCGATCATTTTACCCTTCAAGGGTAATTCGATCATTTTAACCTTCAAGGGTAATTT
33399688 CGATC
131 CG-TC
33399693 ATTTTACCCTTCAGCGGTAATTCGA-CCATTT
1 ATTTTACCCTTCAGCGGTAATT-GAGCCATTT
33399724 TTTGACCTCT
Statistics
Matches: 139, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
133 3 0.02
134 108 0.78
135 28 0.20
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (134 bp):
ATTTTACCCTTCAGCGGTAATTGAGCCATTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTC
AGGGGTAATTCGATCATTTTACCCTTCAAGGGTAATTCGATCATTTTAACCTTCAAGGGTAATTT
CGTC
Found at i:33402326 original size:32 final size:32
Alignment explanation
Indices: 33402158--33402328 Score: 211
Period size: 32 Copynumber: 5.4 Consensus size: 32
33402148 GAATGGATAC
* * *
33402158 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
33402189 AAGCCATCAATAATGGTAATATGATCAGCAGA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
33402221 AAGCCATCAATAACGGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
33402253 AAGCCATCAGTAACGGTAATATGATCGGCAGA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
33402285 AAGCCATCAGTAATGGTGATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
33402317 AA-CCGATCAGTA
1 AAGCC-ATCAGTA
33402329 GCATTACAGT
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
31 11 0.09
32 110 0.91
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:33402326 original size:64 final size:64
Alignment explanation
Indices: 33402172--33402328 Score: 235
Period size: 64 Copynumber: 2.5 Consensus size: 64
33402162 CATAAGTACA
* *
33402172 GTAATATGATTGGCACAAAGCCATCAATAATGGTAATATGATCAGCAGAAAGCCATCAATAACG
1 GTAATATGATTGGCACAAAGCCATCAGTAACGGTAATATGATCAGCAGAAAGCCATCAATAACG
* * *
33402236 GTAATATGATTGGCACAAAGCCATCAGTAACGGTAATATGATCGGCAGAAAGCCATCAGTAATG
1 GTAATATGATTGGCACAAAGCCATCAGTAACGGTAATATGATCAGCAGAAAGCCATCAATAACG
* *
33402300 GTGATATGATCGGCACAAA-CCGATCAGTA
1 GTAATATGATTGGCACAAAGCC-ATCAGTA
33402329 GCATTACAGT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
63 2 0.02
64 83 0.98
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (64 bp):
GTAATATGATTGGCACAAAGCCATCAGTAACGGTAATATGATCAGCAGAAAGCCATCAATAACG
Found at i:33402557 original size:24 final size:24
Alignment explanation
Indices: 33402530--33402633 Score: 131
Period size: 24 Copynumber: 4.3 Consensus size: 24
33402520 AAGCAAAATG
*
33402530 GTCATTTGA-ATCACAGTCAAATCA
1 GTCATTT-ACATCACAGACAAATCA
*
33402554 GTCATTTA-AGTCATAGACAAATCA
1 GTCATTTACA-TCACAGACAAATCA
* *
33402578 GTCATTTACATCATAAACAAATCA
1 GTCATTTACATCACAGACAAATCA
33402602 GTCATTTACATCACAGACAAATCA
1 GTCATTTACATCACAGACAAATCA
*
33402626 ATCATTTA
1 GTCATTTA
33402634 ACCTCGAGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 2 0.03
24 69 0.96
25 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (24 bp):
GTCATTTACATCACAGACAAATCA
Found at i:33402722 original size:27 final size:27
Alignment explanation
Indices: 33402692--33403116 Score: 183
Period size: 27 Copynumber: 15.8 Consensus size: 27
33402682 TTTTACTTTA
* * *
33402692 TAGGGGGATTTTGGTAATTTTACCCTT
1 TAGGGGGAATTCGGTCATTTTACCCTT
* *
33402719 TAGGGGTAATTCGGTCATTTTACCGTT
1 TAGGGGGAATTCGGTCATTTTACCCTT
* * * *
33402746 TCGGGGTAATTCAGTTATTTTACCCTT
1 TAGGGGGAATTCGGTCATTTTACCCTT
*
33402773 TAGGGGGTAATTCGATCATTTTACCCTT
1 TAGGGGG-AATTCGGTCATTTTACCCTT
*
33402801 T-GGGGGTAATTCGGTCATGTTACCC-T
1 TAGGGGG-AATTCGGTCATTTTACCCTT
* * ** *
33402827 TCGAGGGTAATTCAATCATTTTA-CCAT
1 TAG-GGGGAATTCGGTCATTTTACCCTT
* * * * *
33402854 TCGAGGGTAATTTGATCATTTTAACC-T
1 TAG-GGGGAATTCGGTCATTTTACCCTT
* * ** *
33402881 TCGGGGGTAATTCAGTCAACTTACCATT
1 TAGGGGG-AATTCGGTCATTTTACCCTT
* * * *
33402909 CAGGGGTAATTTGATCA-TTTA-CCTT
1 TAGGGGGAATTCGGTCATTTTACCCTT
* * * *
33402934 TTGGGTGTAATTCGGTCAGTCTA-CCTT
1 TAGGG-GGAATTCGGTCATTTTACCCTT
* *
33402961 TTGGGGGTAATTCAGTCATTTTACCC-T
1 TAGGGGG-AATTCGGTCATTTTACCCTT
* **
33402988 TCGGGGGTAATTCAATCATTTTACCC-T
1 TAGGGGG-AATTCGGTCATTTTACCCTT
* ** *
33403015 TCGGGACTAATTCAGTCA-TTTACCC--
1 TAGGG-GGAATTCGGTCATTTTACCCTT
**
33403040 TACGGGGGTAATTCTATCATTTTACCC-T
1 TA-GGGGG-AATTCGGTCATTTTACCCTT
* * *
33403068 TCGGGGGTAAGTCAGTCATTTTACCCTT
1 TAGGGGG-AATTCGGTCATTTTACCCTT
* * * *
33403096 CAAGGGTAATTCAGTCATTTT
1 TAGGGGGAATTCGGTCATTTT
33403117 TTAACCTCTC
Statistics
Matches: 315, Mismatches: 66, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
25 7 0.02
26 39 0.12
27 234 0.74
28 35 0.11
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGGGGGAATTCGGTCATTTTACCCTT
Found at i:33402770 original size:54 final size:53
Alignment explanation
Indices: 33402708--33403116 Score: 353
Period size: 54 Copynumber: 7.6 Consensus size: 53
33402698 GATTTTGGTA
* ** *
33402708 ATTTTACCCTTTAGGGGTAATTCGGTCATTTTACCGTTTCGGGGTAATTCAGTT
1 ATTTTACCCTTCAGGGGTAATTCAATCATTTTACC-TTTCGGGGTAATTCAGTC
* * * *
33402762 ATTTTACCCTTTAGGGGGTAATTCGATCATTTTACCCTTTGGGGGTAATTCGGTC
1 ATTTTACCCTTCA-GGGGTAATTCAATCATTTTA-CCTTTCGGGGTAATTCAGTC
* * *
33402817 ATGTTACCCTTC-GAGGGTAATTCAATCATTTTACCATTCGAGGGTAATT-TGATC
1 ATTTTACCCTTCAG-GGGTAATTCAATCATTTTACCTTTCG-GGGTAATTCAG-TC
* * * ** * *
33402871 ATTTTAACCTTCGGGGGTAATTCAGTCAACTTACCATTCAGGGGTAATT-TGATC
1 ATTTTACCCTTCAGGGGTAATTCAATCATTTTACCTTTC-GGGGTAATTCAG-TC
** ** * * *
33402925 A-TTTA-CCTTTTGGGTGTAATTCGGTCAGTCTACCTTTTGGGGGTAATTCAGTC
1 ATTTTACCCTTCAGGG-GTAATTCAATCATTTTACC-TTTCGGGGTAATTCAGTC
* * *
33402978 ATTTTACCCTTCGGGGGTAATTCAATCATTTTACCCTTCGGGACTAATTCAGTC
1 ATTTTACCCTTCAGGGGTAATTCAATCATTTTACCTTTCGGG-GTAATTCAGTC
* * * * *
33403032 A-TTTACCCTACGGGGGTAATTCTATCATTTTACCCTTCGGGGGTAAGTCAGTC
1 ATTTTACCCTTCAGGGGTAATTCAATCATTTTACCTTTC-GGGGTAATTCAGTC
* *
33403085 ATTTTACCCTTCAAGGGTAATTCAGTCATTTT
1 ATTTTACCCTTCAGGGGTAATTCAATCATTTT
33403117 TTAACCTCTC
Statistics
Matches: 298, Mismatches: 42, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
52 7 0.02
53 88 0.30
54 148 0.50
55 53 0.18
56 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.39
Consensus pattern (53 bp):
ATTTTACCCTTCAGGGGTAATTCAATCATTTTACCTTTCGGGGTAATTCAGTC
Found at i:33402980 original size:107 final size:105
Alignment explanation
Indices: 33402710--33403116 Score: 390
Period size: 107 Copynumber: 3.8 Consensus size: 105
33402700 TTTTGGTAAT
* * * *
33402710 TTTACCCTTTAGGGGTAATTCGGTCATTTTACCGTTTC-GGGGTAATTCAGTTATTTTACCCTTT
1 TTTACCC-TTCGGGGTAATTCGATCATTTTACC-ATTCGGGGGTAATTCAGTCATTTTACCC-TT
* * * *
33402774 AGGGGGTAATTC-GATCATTTTACCCTTTGGGGGTAATTCGGTCA
63 CGGGGGTAATTCAG-TCATTTTACCC-TTCGGGGTAATTTGATCA
* * * *
33402818 TGTTACCCTTCGAGGGTAATTCAATCATTTTACCATTCGAGGGTAATT-TGATCATTTTAACCTT
1 T-TTACCCTTCG-GGGTAATTCGATCATTTTACCATTCGGGGGTAATTCAG-TCATTTTACCCTT
** *
33402882 CGGGGGTAATTCAGTCAACTTACCATTCAGGGGTAATTTGATCA
63 CGGGGGTAATTCAGTCATTTTACCCTTC-GGGGTAATTTGATCA
* * * * * * *
33402926 TTTACCTTTTGGGTGTAATTCGGTCAGTCTACCTTTTGGGGGTAATTCAGTCATTTTACCCTTCG
1 TTTACCCTTCGGG-GTAATTCGATCATTTTACCATTCGGGGGTAATTCAGTCATTTTACCCTTCG
* * *
33402991 GGGGTAATTCAATCATTTTACCCTTCGGGACTAA-TTCAGTCA
65 GGGGTAATTCAGTCATTTTACCCTTCGGG-GTAATTTGA-TCA
* * * * *
33403033 TTTACCCTACGGGGGTAATTCTATCATTTTACCCTTCGGGGGTAAGTCAGTCATTTTACCCTTCA
1 TTTACCCTTC-GGGGTAATTCGATCATTTTACCATTCGGGGGTAATTCAGTCATTTTACCCTTCG
*
33403098 AGGGTAATTCAGTCATTTT
65 GGGGTAATTCAGTCATTTT
33403117 TTAACCTCTC
Statistics
Matches: 243, Mismatches: 45, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
106 8 0.03
107 145 0.60
108 47 0.19
109 43 0.18
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (105 bp):
TTTACCCTTCGGGGTAATTCGATCATTTTACCATTCGGGGGTAATTCAGTCATTTTACCCTTCGG
GGGTAATTCAGTCATTTTACCCTTCGGGGTAATTTGATCA
Found at i:33408234 original size:58 final size:58
Alignment explanation
Indices: 33408113--33408231 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
33408103 AGAAATGGTT
* * * *
33408113 AAAATGGAGAAATGGAATACATTTGGAAATGATTATGGTTTTCTCCAAATCAAAAATG
1 AAAATGGAAAAATGGAATACATTTGGAAATGAATATGGTTATCTCAAAATCAAAAATG
* * *
33408171 AAAATGGAAAAATGGAA-CCGTTTGGAAATGAATGTGGTTATCTTCAAAAT-AAAAATG
1 AAAATGGAAAAATGGAATACATTTGGAAATGAATATGGTTATC-TCAAAATCAAAAATG
33408228 AAAA
1 AAAA
33408232 ATGAAAATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 31 0.58
58 22 0.42
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (58 bp):
AAAATGGAAAAATGGAATACATTTGGAAATGAATATGGTTATCTCAAAATCAAAAATG
Found at i:33408453 original size:23 final size:23
Alignment explanation
Indices: 33408426--33408471 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
33408416 TTAATAAAAG
33408426 TAATCAAACTTAAATTTAAAACA
1 TAATCAAACTTAAATTTAAAACA
*
33408449 TAATCAAACTTAAATTTCAAACA
1 TAATCAAACTTAAATTTAAAACA
33408472 AACATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (23 bp):
TAATCAAACTTAAATTTAAAACA
Found at i:33414204 original size:30 final size:30
Alignment explanation
Indices: 33414163--33414239 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
33414153 AGAAATACCT
*
33414163 TCGTGTGCCTCACACGGCCGTGTGGCCAGG
1 TCGTGTGCCTCACACGGCCATGTGGCCAGG
* *
33414193 TCGTATGCCTCACACGGCCATGTGGCTAGG
1 TCGTGTGCCTCACACGGCCATGTGGCCAGG
33414223 TCGTGTGCCTCACACGG
1 TCGTGTGCCTCACACGG
33414240 ATGAGACACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.22
Consensus pattern (30 bp):
TCGTGTGCCTCACACGGCCATGTGGCCAGG
Found at i:33418101 original size:22 final size:22
Alignment explanation
Indices: 33418075--33418121 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
33418065 TAACCTTGGA
*
33418075 AACAAAAAGCTGATGCTTACAC
1 AACAAAAAGCTGACGCTTACAC
33418097 AACAAAAAGCTGACGCTTACAC
1 AACAAAAAGCTGACGCTTACAC
33418119 AAC
1 AAC
33418122 CACCACCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.15
Consensus pattern (22 bp):
AACAAAAAGCTGACGCTTACAC
Found at i:33418592 original size:9 final size:9
Alignment explanation
Indices: 33418580--33418610 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33418570 GTCAAGATGA
*
33418580 ATATATTTT
1 ATATATGTT
33418589 ATATATGTT
1 ATATATGTT
33418598 ATATATGTT
1 ATATATGTT
33418607 ATAT
1 ATAT
33418611 TAACATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (9 bp):
ATATATGTT
Found at i:33425303 original size:21 final size:21
Alignment explanation
Indices: 33425277--33425339 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
33425267 TTGGTATTTG
33425277 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
33425298 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
33425319 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
33425340 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:33427275 original size:20 final size:20
Alignment explanation
Indices: 33427247--33427284 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33427237 GGTGCAGTGG
33427247 TTTTCACACGGGCGTGTGCC
1 TTTTCACACGGGCGTGTGCC
* *
33427267 TTTTGACACGGGTGTGTG
1 TTTTCACACGGGCGTGTG
33427285 GAAACTAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.34, T:0.34
Consensus pattern (20 bp):
TTTTCACACGGGCGTGTGCC
Found at i:33434017 original size:21 final size:22
Alignment explanation
Indices: 33433991--33434051 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
33433981 GGTATTTGGG
33433991 AATTGGTACGAAATGGTAT-GC
1 AATTGGTACGAAATGGTATGGC
* *
33434012 AATTGGTATGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGC
* *
33434034 ATTTGGTACGAATTGGTA
1 AATTGGTACGAAATGGTA
33434052 ATGGTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGC
Found at i:33436023 original size:16 final size:15
Alignment explanation
Indices: 33435994--33436031 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
33435984 CTTCTTCTTC
33435994 TTTTTTCACGAATTT
1 TTTTTTCACGAATTT
*
33436009 TTTTTTCACGAAATT
1 TTTTTTCACGAATTT
33436024 TTTTTTCA
1 TTTTTTCA
33436032 ACTTGATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (15 bp):
TTTTTTCACGAATTT
Found at i:33436088 original size:12 final size:13
Alignment explanation
Indices: 33436068--33436103 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
33436058 AAAGGAAACC
33436068 AATTTTTTTTTGA
1 AATTTTTTTTTGA
*
33436081 AATTTTTTTTTCA
1 AATTTTTTTTTGA
33436094 AATTTTTTTT
1 AATTTTTTTT
33436104 GAAGAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
AATTTTTTTTTGA
Found at i:33437142 original size:21 final size:23
Alignment explanation
Indices: 33437097--33437143 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33437087 TCACCTGCAA
* *
33437097 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
33437120 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
33437141 TAA
1 TAA
33437144 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:33437987 original size:20 final size:20
Alignment explanation
Indices: 33437967--33438105 Score: 64
Period size: 20 Copynumber: 7.0 Consensus size: 20
33437957 GAAGTATAAC
*
33437967 CAGGGGCACGGAAGTGCAAC
1 CAGGGGCACGGAAGTGCAAA
** *
33437987 CAGGGTTATC-AAAGTGCAAA
1 CAGGGGCA-CGGAAGTGCAAA
** * *
33438007 CAGGGGCACATAAGTTCAAT
1 CAGGGGCACGGAAGTGCAAA
* * * *
33438027 CAGGAGTACCGAAGTACAAA
1 CAGGGGCACGGAAGTGCAAA
* * *
33438047 TAGGGGCACGTAAGTGCAAT
1 CAGGGGCACGGAAGTGCAAA
* * * *
33438067 CAGGGGTACCGCAGTACAAA
1 CAGGGGCACGGAAGTGCAAA
* **
33438087 TAGGGGCACATAAGTGCAA
1 CAGGGGCACGGAAGTGCAA
33438106 TTAGAGGTAT
Statistics
Matches: 82, Mismatches: 35, Indels: 4
0.68 0.29 0.03
Matches are distributed among these distances:
19 1 0.01
20 80 0.98
21 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.14
Consensus pattern (20 bp):
CAGGGGCACGGAAGTGCAAA
Found at i:33438052 original size:40 final size:40
Alignment explanation
Indices: 33437953--33438148 Score: 180
Period size: 40 Copynumber: 4.9 Consensus size: 40
33437943 GATTTAGAGT
* ** ** *
33437953 TACCGAAGTATAACCAGGGGCACGGAAGTGCAACCAGG-G
1 TACCGAAGTACAAATAGGGGCACATAAGTGCAATCAGGAG
* * * * *
33437992 TTATCAAAGTGCAAACAGGGGCACATAAGTTCAATCAGGAG
1 -TACCGAAGTACAAATAGGGGCACATAAGTGCAATCAGGAG
* *
33438033 TACCGAAGTACAAATAGGGGCACGTAAGTGCAATCAGGGG
1 TACCGAAGTACAAATAGGGGCACATAAGTGCAATCAGGAG
* *
33438073 TACCGCAGTACAAATAGGGGCACATAAGTGCAATTA-GAGG
1 TACCGAAGTACAAATAGGGGCACATAAGTGCAATCAGGA-G
* * * **
33438113 TATCGAAGTACAAACAGGTGCATGTAAGTGCAATCA
1 TACCGAAGTACAAATAGGGGCACATAAGTGCAATCA
33438149 TTCAATAATT
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.98
41 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (40 bp):
TACCGAAGTACAAATAGGGGCACATAAGTGCAATCAGGAG
Found at i:33438092 original size:80 final size:80
Alignment explanation
Indices: 33437948--33438148 Score: 233
Period size: 80 Copynumber: 2.5 Consensus size: 80
33437938 TATTTGATTT
* * * * * * * *
33437948 AGAGTTACCGAAGTATAACCAGGGGCACGGAAGTGCAACCAGGGTTATCAAAGTGCAAACAGGGG
1 AGAGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGG
*
33438013 CACATAAGTTCAATC
66 CACATAAGTGCAATC
* ** *
33438028 AG-GAGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATCAGGGGTACCGCAGTACAAATAGGG
1 AGAG-GTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGTACCAAAGTACAAACAGGG
*
33438092 GCACATAAGTGCAATT
65 GCACATAAGTGCAATC
* * *
33438108 AGAGGTATCGAAGTACAAACAGGTGCATGTAAGTGCAATCA
1 AGAGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCA
33438149 TTCAATAATT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 99 0.98
81 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (80 bp):
AGAGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGG
CACATAAGTGCAATC
Found at i:33443887 original size:20 final size:19
Alignment explanation
Indices: 33443864--33443928 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33443854 AAGCTCAAAC
33443864 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33443884 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33443904 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33443924 GAGCT
1 GAGCT
33443929 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33444407 original size:22 final size:22
Alignment explanation
Indices: 33444375--33444439 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
33444365 TACCAGTAAC
* *
33444375 CAGAATGGCTA-AGAGCTGTAAA
1 CAGAATAGCTATA-AGCTATAAA
*
33444397 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTATAAGCTATAAA
* *
33444419 CAGAATAGCTACAAGCCATAA
1 CAGAATAGCTATAAGCTATAA
33444440 GTACAGTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (22 bp):
CAGAATAGCTATAAGCTATAAA
Found at i:33445462 original size:21 final size:23
Alignment explanation
Indices: 33445417--33445463 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33445407 TCACCTGCAA
* *
33445417 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
33445440 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
33445461 TAA
1 TAA
33445464 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:33446127 original size:26 final size:26
Alignment explanation
Indices: 33446098--33446151 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
33446088 CATCAGTAGC
*
33446098 ATCGCAGCAAAGCTGCCAGCAATAGT
1 ATCGCAACAAAGCTGCCAGCAATAGT
* *
33446124 ATCGCAACAAAGTTGCCAGTAATAGT
1 ATCGCAACAAAGCTGCCAGCAATAGT
33446150 AT
1 AT
33446152 ATGTGGCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGCAATAGT
Found at i:33446183 original size:27 final size:27
Alignment explanation
Indices: 33446139--33446203 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
33446129 AACAAAGTTG
*
33446139 CCAGTAATAGTATATGTGGCCA-ACCCA
1 CCAGTAACAGTATATGTGG-CAGACCCA
*
33446166 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGACCCA
33446193 CCAGT-ACAGTA
1 CCAGTAACAGTA
33446204 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 24 0.71
28 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGACCCA
Found at i:33446294 original size:24 final size:24
Alignment explanation
Indices: 33446267--33446372 Score: 133
Period size: 24 Copynumber: 4.4 Consensus size: 24
33446257 CCATGCTCAG
33446267 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
33446291 AATCAGTCATACCAATAACAGACA
1 AATCAGTCATACAAATCACAGACA
**
33446315 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
33446339 AATCAGTCAT-CTACATCACGGACA
1 AATCAGTCATAC-AAATCACAGACA
*
33446363 AATCAATCAT
1 AATCAGTCAT
33446373 GGCAAAATAG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:33446439 original size:27 final size:27
Alignment explanation
Indices: 33446402--33446686 Score: 241
Period size: 27 Copynumber: 10.6 Consensus size: 27
33446392 CTCTAGAGGC
* * *
33446402 ATTACGATCATTTTACCTTACACGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
** * **
33446429 ATTTTGGTCATTTAACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
33446456 ATTATGGTCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
**
33446483 ATTACGGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* ** * *
33446510 TTTTTGGTCATTTTATCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* **
33446537 ATTACGGTCATTTT-CCCTTATAGGGCC
1 ATTACGGTCATTTTACCC-TACAGGGGT
* *
33446564 ATTACGATCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
33446591 ATTACGATCATTTTACCCTA-TGGAGGT
1 ATTACGGTCATTTTACCCTACAGG-GGT
* * * *
33446618 TTTTCGATCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
33446645 ATTACGATCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
33446672 ATTATGGTCATTTTA
1 ATTACGGTCATTTTA
33446687 TAAATATTAG
Statistics
Matches: 208, Mismatches: 46, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
26 4 0.02
27 200 0.96
28 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:33446467 original size:54 final size:54
Alignment explanation
Indices: 33446409--33446686 Score: 281
Period size: 54 Copynumber: 5.1 Consensus size: 54
33446399 GGCATTACGA
* * ** *
33446409 TCATTTTACCTTACACGGGTATTTTGGTCATTTAACCCTATGGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATGGGGGTATTATGG
* * * *
33446463 TCATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTATGGGGGTTTTTTGG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATGGGGGTATTATGG
* * * ** * *
33446517 TCATTTTATCCTATAGGGGTATTACGGTCATTTT-CCCTTATAGGGCCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC-TATGGGGGTATTATGG
* * * * *
33446571 TCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATGGAGGT-TTTTCGA
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATGGGGGTATTAT-GG
* * * ** *
33446625 TCATTTTACCCTACAAGGGTATTACGATCATTTTACCTTACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATGGGGGTATTATGG
33446679 TCATTTTA
1 TCATTTTA
33446687 TAAATATTAG
Statistics
Matches: 183, Mismatches: 37, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
53 5 0.03
54 172 0.94
55 6 0.03
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (54 bp):
TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATGGGGGTATTATGG
Found at i:33446521 original size:81 final size:81
Alignment explanation
Indices: 33446399--33446686 Score: 326
Period size: 81 Copynumber: 3.6 Consensus size: 81
33446389 ACCCTCTAGA
* * *
33446399 GGCATTACGATCATTTTACCTTACACGGGTATTTTGGTCATTTAACCCTATGGGGGTATTATGGT
1 GGCATTACGATCATTTTACCCTACAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTATGGT
33446464 CATTTTACCTTACAGG
66 CATTTTACCTTACAGG
* ** * * * *
33446480 GGCATTACGGTCATTTTACCCTATGGGGGTTTTTTGGTCATTTTATCCTATAGGGGTATTACGGT
1 GGCATTACGATCATTTTACCCTACAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTATGGT
* *
33446545 CATTTTCCCTTATAGG
66 CATTTTACCTTACAGG
* * ** * * * *
33446561 GCCATTACGATCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATGGAGGT-TTTTCGA
1 GGCATTACGATCATTTTACCCTACAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTAT-GG
* *
33446625 TCATTTTACCCTACAAG
65 TCATTTTACCTTACAGG
* * * *
33446642 GGTATTACGATCATTTTACCTTACAGGGGCATTATGGTCATTTTA
1 GGCATTACGATCATTTTACCCTACAGGGGTATTTTGGTCATTTTA
33446687 TAAATATTAG
Statistics
Matches: 170, Mismatches: 36, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 2 0.01
81 168 0.99
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (81 bp):
GGCATTACGATCATTTTACCCTACAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTATGGT
CATTTTACCTTACAGG
Found at i:33450375 original size:29 final size:29
Alignment explanation
Indices: 33450342--33450605 Score: 267
Period size: 29 Copynumber: 9.1 Consensus size: 29
33450332 GACTATCGAC
33450342 TATGAAAAGGGATGGTGACGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
* ** * * *
33450371 TATGAAAAGGGATAGTTTCGACTATCGAC
1 TATGAAAAGGGATGGTGACGACCATCAAA
*
33450400 TATGAAAAGGGATGGTAACGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *
33450429 TATGAATAGGGATGGTGATGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *
33450458 TATGAAAAGGGATGGTGACGACCAGCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *
33450487 TATGAAAAGGGATGGTGACGATCATTAAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *** * *
33450516 TATGAAAAGGGATAGTTTTGACTATCAAT
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *** * ****
33450545 TATGAAAAGGGATAGTTTTGACTATTGGT
1 TATGAAAAGGGATGGTGACGACCATCAAA
*
33450574 TATGAAAGGGGATGGTGACGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
33450603 TAT
1 TAT
33450606 AAATGCACTA
Statistics
Matches: 191, Mismatches: 44, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 191 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAA
Done.