Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 106 of 770
Found at i:30516209 original size:21 final size:21
Alignment explanation
Indices: 30516184--30516231 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
30516174 TTTCATGAGA
*
30516184 AAAAACCTGAAAATTAAGAGG
1 AAAAACCTGAAAATCAAGAGG
*
30516205 AAAAACCTGGAAATCAAGAGG
1 AAAAACCTGAAAATCAAGAGG
30516226 AAAAAC
1 AAAAAC
30516232 TTGATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.58, C:0.12, G:0.19, T:0.10
Consensus pattern (21 bp):
AAAAACCTGAAAATCAAGAGG
Found at i:30517561 original size:33 final size:33
Alignment explanation
Indices: 30517519--30517586 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
30517509 TTTTCAAAAG
30517519 AAAGGAAAATTGACTATTAAAGAGTACTTGGCT
1 AAAGGAAAATTGACTATTAAAGAGTACTTGGCT
30517552 AAAGGAAAATTGACTATTAAAGAGTACTTGGCT
1 AAAGGAAAATTGACTATTAAAGAGTACTTGGCT
30517585 AA
1 AA
30517587 GATCAAAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (33 bp):
AAAGGAAAATTGACTATTAAAGAGTACTTGGCT
Found at i:30534399 original size:20 final size:20
Alignment explanation
Indices: 30534376--30534434 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
30534366 TAAACATGGT
30534376 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
30534396 ATGTATGATATGCACATAAT
1 ATGTATGATATGCACATGAC
30534416 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
30534435 TGTCTTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:30534513 original size:25 final size:24
Alignment explanation
Indices: 30534485--30534678 Score: 237
Period size: 24 Copynumber: 8.0 Consensus size: 24
30534475 GAGGAAGTGC
30534485 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
30534509 AAAAAAGGCTTATTCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
30534534 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * *
30534558 AAAAAGTGTTTATGCCCTAATTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
30534583 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
30534607 AAAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
30534631 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
30534655 TAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30534679 ATGATAAAGC
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
24 92 0.64
25 52 0.36
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30534557 original size:49 final size:48
Alignment explanation
Indices: 30534485--30534664 Score: 243
Period size: 49 Copynumber: 3.7 Consensus size: 48
30534475 GAGGAAGTGC
*
30534485 AAAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTTATTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAAAGGCTTATACCCCAGTTATT
* * * *
30534534 AAAAGGGCTTATGCCCCAGTTATTAAAAAGTGTTTATGCCCTAATTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAAG-GCTTATACCCCAGTTATT
* *
30534583 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGCTTATACCCCAGTTATT
* * *
30534631 AAAAGGGCTTTTGCCCTAGTTATTTAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TTAAAAAGGCT
30534665 AGGCCTCCAG
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
48 40 0.35
49 74 0.65
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAAGGCTTATACCCCAGTTATT
Found at i:30534611 original size:73 final size:73
Alignment explanation
Indices: 30534485--30534678 Score: 243
Period size: 73 Copynumber: 2.7 Consensus size: 73
30534475 GAGGAAGTGC
* * * * *
30534485 AAAAGGGC-TTATGCCCCAGTTATTAAAAAAGGCTTATTCCCCAGTTATTAAAAGGGCTTATGCC
1 AAAAGGGCTTTATGCCCTAGTTATT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACC
30534549 CCAGTTATT
65 CCAGTTATT
* *
30534558 AAAAAGTG-TTTATGCCCTAATTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACC
1 -AAAAGGGCTTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACC
30534622 CCAGTTATT
65 CCAGTTATT
* *
30534631 AAAAGGGCTTT-TGCCCTAGTTATTTAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTTATGCCCTAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
30534679 ATGATAAAGC
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
72 27 0.26
73 58 0.55
74 20 0.19
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (73 bp):
AAAAGGGCTTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCC
CAGTTATT
Found at i:30539342 original size:28 final size:28
Alignment explanation
Indices: 30539296--30539364 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
30539286 TTTAAAACCC
*
30539296 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30539323 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30539351 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
30539365 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:30541012 original size:20 final size:20
Alignment explanation
Indices: 30540989--30541026 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30540979 CACATCCAAA
*
30540989 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
30541009 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
30541027 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:30547347 original size:28 final size:28
Alignment explanation
Indices: 30547301--30547369 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
30547291 TTTAAAACCC
*
30547301 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30547328 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30547356 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
30547370 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:30549015 original size:20 final size:20
Alignment explanation
Indices: 30548992--30549029 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30548982 CACATCCAAA
*
30548992 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
30549012 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
30549030 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:30553455 original size:11 final size:11
Alignment explanation
Indices: 30553418--30553474 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
30553408 ACATGGTATG
30553418 TATGATATGCA
1 TATGATATGCA
* *
30553429 CATGACATG--
1 TATGATATGCA
30553438 TATGATATGCA
1 TATGATATGCA
*
30553449 CATGATATG--
1 TATGATATGCA
30553458 TATGATATGCA
1 TATGATATGCA
30553469 TATGAT
1 TATGAT
30553475 GTCTTCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:30553474 original size:20 final size:20
Alignment explanation
Indices: 30553408--30553474 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
30553398 ATTTTGATAA
*
30553408 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30553428 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30553448 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30553468 ATATGAT
1 ACATGAT
30553475 GTCTTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30553551 original size:24 final size:24
Alignment explanation
Indices: 30553524--30553717 Score: 300
Period size: 24 Copynumber: 8.0 Consensus size: 24
30553514 GAGGAAGTGC
30553524 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30553548 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
30553573 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30553597 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30553621 AAAAAGGGCTTATGCCCCAGTTATC
1 -AAAAGGGCTTATGCCCCAGTTATT
* *
30553646 AAAAGGACTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30553670 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30553694 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30553718 ATGATAAAGC
Statistics
Matches: 157, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
24 99 0.63
25 58 0.37
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30553716 original size:49 final size:48
Alignment explanation
Indices: 30553524--30553717 Score: 300
Period size: 49 Copynumber: 4.0 Consensus size: 48
30553514 GAGGAAGTGC
30553524 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
30553573 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* * *
30553621 AAAAAGGGCTTATGCCCCAGTTATCAAAAGGACTTATGCCCTAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
30553670 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
30553718 ATGATAAAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 56 0.42
49 78 0.58
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:30553717 original size:73 final size:73
Alignment explanation
Indices: 30553524--30553697 Score: 312
Period size: 73 Copynumber: 2.4 Consensus size: 73
30553514 GAGGAAGTGC
* *
30553524 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTATCAAAAGGACTTATGCCC
30553589 CAGTTATT
66 CAGTTATT
30553597 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTATCAAAAGGACTTATGCCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTATCAAAAGGACTTATGCCC
*
30553662 TAGTTATT
66 CAGTTATT
*
30553670 AAAAGGGCTTTTGCCCCAGTTATTAAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAA
30553698 GAGGCTAGGC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 97 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTATCAAAAGGACTTATGCCC
CAGTTATT
Found at i:30556057 original size:17 final size:18
Alignment explanation
Indices: 30556035--30556069 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30556025 GATATGATAC
*
30556035 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
30556052 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
30556070 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:30556366 original size:23 final size:22
Alignment explanation
Indices: 30556323--30556380 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
30556313 AAAAGGTATC
* *
30556323 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
30556344 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
30556367 TGCATATCATATCT
1 TACAAATCATATCT
30556381 AAGATGTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:30556383 original size:19 final size:19
Alignment explanation
Indices: 30556359--30556449 Score: 145
Period size: 19 Copynumber: 4.9 Consensus size: 19
30556349 AATCATATCT
30556359 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
30556378 TCTAAGA-TGTCA-ATCATA
1 TCTAAGATTG-CATATCATA
30556396 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
30556413 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
30556432 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
30556450 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 36 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30556611 original size:22 final size:23
Alignment explanation
Indices: 30556558--30556611 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
30556548 TGGACTGAAC
* *
30556558 TTGGACTTCGATTTTTTTTGTTTT
1 TTGGACTT-AATTATTTTTGTTTT
30556582 TTGG-CTTAATTATTTTTG-TTT
1 TTGGACTTAATTATTTTTGTTTT
30556603 TTGGACTTA
1 TTGGACTTA
30556612 TTTCTGGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 13 0.48
23 3 0.11
24 4 0.15
ACGTcount: A:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (23 bp):
TTGGACTTAATTATTTTTGTTTT
Found at i:30561192 original size:19 final size:19
Alignment explanation
Indices: 30561151--30561192 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
30561141 AAAGGAGGGC
*
30561151 TAAGTTAGAAAATAGAAAT
1 TAAGTTAGAAAATAGAAAA
30561170 TAAGTTAGAAAATA-AATAA
1 TAAGTTAGAAAATAGAA-AA
30561189 TAAG
1 TAAG
30561193 CTCTGCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (19 bp):
TAAGTTAGAAAATAGAAAA
Found at i:30567509 original size:93 final size:93
Alignment explanation
Indices: 30567394--30567562 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
30567384 TTGTGCAAAT
* * * *
30567394 GAATTGCAGAATTTATATAATTTATAGGGTTCAAATACAAATTAATTATTATTGTAGTTTGTAGA
1 GAATTGCAAAATTTATATAATTTATAGGGTTAAAATACAAATTAATTATTATTGCAGTTCGTAGA
30567459 ATTACTTGTAAATAAAATGCGTGTAAAC
66 ATTACTTGTAAATAAAATGCGTGTAAAC
*
30567487 GAATTGCAAAATTTATATAATTTATAGGGTTAAAATACAAATTAATTATTATTGCGGTTCGTAGA
1 GAATTGCAAAATTTATATAATTTATAGGGTTAAAATACAAATTAATTATTATTGCAGTTCGTAGA
*
30567552 ATTGCTTGTAA
66 ATTACTTGTAA
30567563 TTCATAAAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (93 bp):
GAATTGCAAAATTTATATAATTTATAGGGTTAAAATACAAATTAATTATTATTGCAGTTCGTAGA
ATTACTTGTAAATAAAATGCGTGTAAAC
Found at i:30568000 original size:25 final size:26
Alignment explanation
Indices: 30567972--30568020 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
30567962 CTGAGTTGTC
30567972 CAAAATCACATATATGG-TATGAACT
1 CAAAATCACATATATGGTTATGAACT
*
30567997 CAAAATCACATATTTGGTTATGAA
1 CAAAATCACATATATGGTTATGAA
30568021 TATGTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (26 bp):
CAAAATCACATATATGGTTATGAACT
Found at i:30568855 original size:18 final size:19
Alignment explanation
Indices: 30568832--30568867 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30568822 AATCGTGTCG
30568832 TTCATTTT-CAAAACAATA
1 TTCATTTTACAAAACAATA
*
30568850 TTCATTTTACAAATCAAT
1 TTCATTTTACAAAACAAT
30568868 GTTGAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
TTCATTTTACAAAACAATA
Found at i:30569925 original size:18 final size:18
Alignment explanation
Indices: 30569881--30569926 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
30569871 GGCCCAGAAT
*
30569881 CCACACT-CCCGTGTGGG
1 CCACACTGCCCGTGTGGC
30569898 CCA-ACATGCCCGTGTGGC
1 CCACAC-TGCCCGTGTGGC
30569916 CCACACTGCCC
1 CCACACTGCCC
30569927 AAATCGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 4 0.16
18 17 0.68
19 2 0.08
ACGTcount: A:0.15, C:0.46, G:0.24, T:0.15
Consensus pattern (18 bp):
CCACACTGCCCGTGTGGC
Found at i:30576187 original size:18 final size:18
Alignment explanation
Indices: 30576161--30576212 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
30576151 AAATCGCGTC
*
30576161 GTTCGTTTTCAAAACAAT
1 GTTCATTTTCAAAACAAT
* *
30576179 GTTCATTTTACAAATCGAT
1 GTTCATTTT-CAAAACAAT
*
30576198 GTTCAATTTCCAAAA
1 GTTC-ATTTTCAAAA
30576213 TGTTTTTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.30
19 15 0.56
20 4 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (18 bp):
GTTCATTTTCAAAACAAT
Found at i:30588524 original size:71 final size:71
Alignment explanation
Indices: 30588438--30588601 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30588428 CGATTTGTCT
30588438 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30588503 CTTTCA
66 CTTTCA
30588509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30588574 CTTTCA
66 CTTTCA
30588580 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30588602 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30588639 original size:71 final size:70
Alignment explanation
Indices: 30588438--30588635 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30588428 CGATTTGTCT
* * * *
30588438 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30588503 CTTTCA
65 CTTTCA
* * * *
30588509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30588574 CTTTCA
65 CTTTCA
* *
30588580 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30588636 TACAAGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30590286 original size:21 final size:21
Alignment explanation
Indices: 30590216--30590287 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
30590206 CCATGGTATC
30590216 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * * *
30590237 TTTCATATCATGTTGCCATGATATC-
1 TTTCA-ACCATG--GTC-TTACA-CA
30590262 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
30590283 TTTCA
1 TTTCA
30590288 TTTCAGAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 7 0.19
24 7 0.19
25 8 0.22
26 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:30590286 original size:46 final size:46
Alignment explanation
Indices: 30589975--30590288 Score: 364
Period size: 46 Copynumber: 6.8 Consensus size: 46
30589965 TTTGACATGA
* * * *
30589975 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGT
* * * * *
30590021 TTCCATAGTATCTTTCAACCATGGTATTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * * *
30590067 TGCCATGGTATTTTTC-ACAATGGTCTTACACATTTCATATCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * *
30590112 TGCCATGGTATTTTTCAACCATGGTCTTATTCATTTCCA-GTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CATGTCACGT
* * *
30590158 TGCCATGGTATCTCTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * *
30590204 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* *
30590250 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
30590289 TTCAGAGAGC
Statistics
Matches: 230, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
45 44 0.19
46 184 0.80
47 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
Found at i:30595192 original size:2 final size:2
Alignment explanation
Indices: 30595185--30595216 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30595175 CGACTCATTC
30595185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30595217 GAATTTGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30595925 original size:3 final size:3
Alignment explanation
Indices: 30595919--30595962 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
30595909 TAAGTAAAAT
30595919 ATA ATA ATA ATA ACTA A-A AT- ATA ATA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30595961 AT
1 AT
30595963 TAAAAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 25 0.69
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:30595938 original size:20 final size:20
Alignment explanation
Indices: 30595913--30595950 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30595903 ATTATTTAAG
30595913 TAAAATATAATAATAATAAC
1 TAAAATATAATAATAATAAC
30595933 TAAAATATAATAATAATA
1 TAAAATATAATAATAATA
30595951 TAATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATATAATAATAATAAC
Found at i:30595976 original size:10 final size:9
Alignment explanation
Indices: 30595913--30595995 Score: 60
Period size: 10 Copynumber: 8.4 Consensus size: 9
30595903 ATTATTTAAG
30595913 TAAAATATAA
1 TAAAATA-AA
*
30595923 TAATAATAAC
1 TAA-AATAAA
30595933 TAAAATATAA
1 TAAAATA-AA
30595943 TAATAATATAA
1 TAA-AATA-AA
* *
30595954 TATAATAAT
1 TAAAATAAA
30595963 TAAAAGTAAA
1 TAAAA-TAAA
30595973 TAAAATAAA
1 TAAAATAAA
30595982 -AGAAATAGAA
1 TA-AAATA-AA
30595992 TAAA
1 TAAA
30595996 GAAAGAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.02
9 18 0.30
10 27 0.45
11 14 0.23
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAATAAA
Found at i:30596907 original size:18 final size:18
Alignment explanation
Indices: 30596884--30596920 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30596874 CTGTGTACCG
30596884 TACTATTACTGATATTTT
1 TACTATTACTGATATTTT
*
30596902 TACTATTACTGTTATTTT
1 TACTATTACTGATATTTT
30596920 T
1 T
30596921 TGGTTTCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.59
Consensus pattern (18 bp):
TACTATTACTGATATTTT
Found at i:30606329 original size:27 final size:28
Alignment explanation
Indices: 30606282--30606343 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
30606272 ATTTAAGTAA
30606282 AATATAATAATAATAACTAAAA-TATAAT
1 AATATAATAATAATAACTAAAAGTA-AAT
*
30606310 AATATAAT-ATAATAATTAAAAGTAAAT
1 AATATAATAATAATAACTAAAAGTAAAT
*
30606337 AAAATAA
1 AATATAA
30606344 AAGAAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AATATAATAATAATAACTAAAAGTAAAT
Found at i:30606339 original size:10 final size:9
Alignment explanation
Indices: 30606279--30606358 Score: 56
Period size: 10 Copynumber: 8.4 Consensus size: 9
30606269 ATTATTTAAG
30606279 TAAAATATAA
1 TAAAATA-AA
*
30606289 TAATAATAAC
1 TAA-AATAAA
30606299 TAAAATATAA
1 TAAAATA-AA
*
30606309 TAATAT-AA
1 TAAAATAAA
* *
30606317 TATAATAAT
1 TAAAATAAA
30606326 TAAAAGTAAA
1 TAAAA-TAAA
30606336 TAAAATAAA
1 TAAAATAAA
30606345 -AGAAATAGAA
1 TA-AAATA-AA
30606355 TAAA
1 TAAA
30606359 GAAAGAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
8 7 0.13
9 18 0.33
10 25 0.45
11 5 0.09
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAATAAA
Found at i:30607264 original size:6 final size:6
Alignment explanation
Indices: 30607253--30607278 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30607243 CTATTACCGA
30607253 TACTGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TA
30607279 TTTTTCGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:30609518 original size:31 final size:31
Alignment explanation
Indices: 30609480--30609558 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
30609470 TTTAACGGTT
*
30609480 ACTGGGCCGAAGCCTTTTTATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
30609511 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
30609542 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
30609559 ATTGTAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:30609642 original size:42 final size:42
Alignment explanation
Indices: 30609583--30609715 Score: 248
Period size: 42 Copynumber: 3.2 Consensus size: 42
30609573 GGCCCATAGT
* *
30609583 CCCATTTCAATAACACATGAAATATCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
30609625 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
30609667 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
30609709 CCCATTT
1 CCCATTT
30609716 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
Found at i:30609888 original size:25 final size:26
Alignment explanation
Indices: 30609860--30609982 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
30609850 CCTCTTTAAT
30609860 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* ***
30609885 AACTAGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
30609910 AACTGGGGCATAAGCCCTTTTAGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30609936 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
30609962 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
30609983 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 30 0.34
26 57 0.66
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:30610813 original size:27 final size:27
Alignment explanation
Indices: 30610783--30610847 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
30610773 GGGCACATTC
*
30610783 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
30610810 GTCACTTCACCCTACAAGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
30610837 GTCTTTTTACC
1 GTCATTTTACC
30610848 TAATAGGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:30610918 original size:27 final size:27
Alignment explanation
Indices: 30610875--30611113 Score: 203
Period size: 27 Copynumber: 8.8 Consensus size: 27
30610865 TTTCATCCTA
* * * *
30610875 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* **
30610902 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
30610929 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* * ** *
30610958 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
30610985 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * *
30611012 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTACAAAC
*
30611039 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
30611066 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
30611093 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
30611114 GTAAATCGAG
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.02
27 135 0.79
28 19 0.11
29 13 0.08
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:30611099 original size:81 final size:82
Alignment explanation
Indices: 30610875--30611103 Score: 239
Period size: 83 Copynumber: 2.8 Consensus size: 82
30610865 TTTCATCCTA
* * * ** ** *
30610875 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * * *
30610940 CTATAATTTTTAGAAAGT
65 CGATAATTTTCACAAAGC
* * ***
30610958 CAAGGGTATTTTTGTAACTTTGTA-AATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTTTGGTAA-TTT-TACAAACAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
30611022 TCGATAA-TTTCACAAA-C
64 TCGATAATTTTCACAAAGC
*
30611039 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
30611104 TAGTAATTTT
Statistics
Matches: 119, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
79 2 0.02
80 6 0.05
81 49 0.41
82 7 0.06
83 50 0.42
84 3 0.03
85 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
GATAATTTTCACAAAGC
Found at i:30611206 original size:54 final size:54
Alignment explanation
Indices: 30611104--30611307 Score: 200
Period size: 54 Copynumber: 3.8 Consensus size: 54
30611094 AAGGGTATTT
* * * *
30611104 TAGTAATTTTGTAAATCGA-GGTAAAATAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
* * *
30611157 TAGTAATTCTATAAATCGAGGATAAAATGGTAATTCTGTAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
* * * * * *
30611211 -AGGTAATTCTGTAAGTCGAGGGCAAAACGATAATTATGTAAATCGGGGGTAAAA
1 TA-GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
** * *
30611265 CGGTAATTATGTAAATCG-GCGGTAAAACT-GTAATTTTGTAAAT
1 TAGTAATTCTGTAAATCGAG-GGTAAAA-TGGTAATTCTGTAAAT
30611308 TGGGGGTACT
Statistics
Matches: 123, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
53 19 0.15
54 104 0.85
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (54 bp):
TAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:30611245 original size:81 final size:80
Alignment explanation
Indices: 30611106--30611299 Score: 196
Period size: 81 Copynumber: 2.4 Consensus size: 80
30611096 GGGTATTTTA
* * * *
30611106 GTAATTTTGTAAATCGAGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAA
1 GTAATTATGTAAATCGAGGTAAAATAGTAATTCTATAAATCAAGGGCAAAAGAGTAATTATATAA
*
30611171 ATCGAGGATAAAATG
66 ATCGAGGATAAAACG
* * * * * *
30611186 GTAATTCTGTAAATTGAGGGTAAAA-AGGTAATTCTGTAAGTCGAGGGCAAAACGA-TAATTATG
1 GTAATTATGTAAATCGA-GGTAAAATA-GTAATTCTATAAATCAAGGGCAAAA-GAGTAATTATA
* *
30611249 TAAATCGGGGGTAAAACG
63 TAAATCGAGGATAAAACG
*
30611267 GTAATTATGTAAATCGGCGGTAAAACT-GTAATT
1 GTAATTATGTAAATC-GAGGTAAAA-TAGTAATT
30611300 TTGTAAATTG
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
80 16 0.17
81 75 0.81
82 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (80 bp):
GTAATTATGTAAATCGAGGTAAAATAGTAATTCTATAAATCAAGGGCAAAAGAGTAATTATATAA
ATCGAGGATAAAACG
Found at i:30611315 original size:27 final size:27
Alignment explanation
Indices: 30611106--30611315 Score: 161
Period size: 27 Copynumber: 7.8 Consensus size: 27
30611096 GGGTATTTTA
* * **
30611106 GTAATTTTGTAAATC-GAGGTAAAATA
1 GTAATTATGTAAATCGGGGGTAAAACG
* * ** **
30611132 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCGGGGGTAAAACG
* * * * *
30611159 GTAATTCTATAAATCGAGGATAAAATG
1 GTAATTATGTAAATCGGGGGTAAAACG
* * * *
30611186 GTAATTCTGTAAATTGAGGGTAAAAAG
1 GTAATTATGTAAATCGGGGGTAAAACG
* * * *
30611213 GTAATTCTGTAAGTCGAGGGCAAAACG
1 GTAATTATGTAAATCGGGGGTAAAACG
*
30611240 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTATGTAAATCGGGGGTAAAACG
* *
30611267 GTAATTATGTAAATCGGCGGTAAAACT
1 GTAATTATGTAAATCGGGGGTAAAACG
* *
30611294 GTAATTTTGTAAATTGGGGGTA
1 GTAATTATGTAAATCGGGGGTA
30611316 CTTTGGTAAT
Statistics
Matches: 157, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 13 0.08
27 144 0.92
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTATGTAAATCGGGGGTAAAACG
Found at i:30611352 original size:54 final size:54
Alignment explanation
Indices: 30611294--30611415 Score: 131
Period size: 54 Copynumber: 2.2 Consensus size: 54
30611284 CGGTAAAACT
* * *
30611294 GTAATTTTGTAAATTGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCA
1 GTAATTTTGTAAATTGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCA
** * * *
30611348 GTAATTTTACAAATTGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTGTAAATTGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCA
30611402 GTAATTTTAGTAAA
1 GTAATTTT-GTAAA
30611416 CTAAAGTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 6 0.11
54 46 0.84
55 3 0.05
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
GTAATTTTGTAAATTGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCA
Found at i:30611369 original size:27 final size:27
Alignment explanation
Indices: 30611294--30611410 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
30611284 CGGTAAAACT
** * *
30611294 GTAATTTTGTAAATTGGGGGTACTTT-G
1 GTAATTTTACAAATTGAGGGTA-TTTCA
* * *
30611321 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
30611348 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * * *
30611375 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAATTGAGGGTATTTCA
30611402 GTAATTTTA
1 GTAATTTTA
30611411 GTAAACTAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
26 3 0.04
27 71 0.96
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATTGAGGGTATTTCA
Found at i:30611424 original size:27 final size:27
Alignment explanation
Indices: 30611321--30611425 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
30611311 GGGTACTTTG
* *
30611321 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
30611348 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAACTAAGAGTATTTCA
* * *
30611375 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
30611402 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
30611426 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 56 0.86
28 7 0.11
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:30613679 original size:31 final size:31
Alignment explanation
Indices: 30613641--30613719 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
30613631 TTTAACGGTT
30613641 ACTGGGCCGAAACCTTTTCATAAATCAAATC
1 ACTGGGCCGAAACCTTTTCATAAATCAAATC
*
30613672 ACTGGGCC-AAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAA-CCTTTTCATAAATCAAATC
*
30613703 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAACCTTT
30613720 ATTGTAAACG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 3 0.07
31 39 0.89
32 2 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAACCTTTTCATAAATCAAATC
Found at i:30613803 original size:42 final size:42
Alignment explanation
Indices: 30613743--30613876 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
30613733 TGGCCCATAG
* *
30613743 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
30613785 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGTAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
30613827 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
30613869 GCCCATTT
1 GCCCATTT
30613877 GGGGAGACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:30614049 original size:25 final size:26
Alignment explanation
Indices: 30614021--30614169 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
30614011 CCTCTTTAAT
*
30614021 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
30614046 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
30614071 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
30614097 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
30614123 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
30614149 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
30614170 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.28
26 81 0.72
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:30614134 original size:52 final size:52
Alignment explanation
Indices: 30614021--30614169 Score: 257
Period size: 52 Copynumber: 2.9 Consensus size: 52
30614011 CCTCTTTAAT
*
30614021 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
30614071 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
30614123 AACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
30614170 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 9 0.10
51 25 0.27
52 59 0.63
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:30615001 original size:27 final size:27
Alignment explanation
Indices: 30614971--30615034 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
30614961 GGGCACATTC
*
30614971 GTCATTTTACCATACAGG-GGTATTACG
1 GTCATTTTACCATACAGGAGCT-TTACG
* * *
30614998 GTCACTTTACCCTATAGGAGCTTTACG
1 GTCATTTTACCATACAGGAGCTTTACG
30615025 GTC-TTTTACC
1 GTCATTTTACC
30615035 TAATAGGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.19
27 23 0.74
28 2 0.06
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGAGCTTTACG
Found at i:30615139 original size:27 final size:27
Alignment explanation
Indices: 30615088--30615370 Score: 151
Period size: 27 Copynumber: 10.4 Consensus size: 27
30615078 GTAAATCTAC
30615088 AAACCAAGGGTATTTCAGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
30615115 AAACCAATGGTA-TTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* ** * *
30615142 AAAGTCAAGGGTATTTTTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
30615170 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
30615197 AAATTGAGGGTATTTGAGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
30615224 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
30615251 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
30615278 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
30615305 AAATCGAGGGTAAAAT-AGTAATTCTAT
1 AAACCAAGGGT-ATTTCAGTAATTTTAT
* **
30615332 AAATCAAGGGTAAAAT-AGTAATTTTAT
1 AAACCAAGGGT-ATTTCAGTAATTTTAT
* *
30615359 AAATCGAGGGTA
1 AAACCAAGGGTA
30615371 AAATGGTAAT
Statistics
Matches: 208, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
26 7 0.03
27 181 0.87
28 15 0.07
29 5 0.02
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:30615315 original size:81 final size:79
Alignment explanation
Indices: 30615065--30615316 Score: 238
Period size: 81 Copynumber: 3.1 Consensus size: 79
30615055 TTTCATCCTA
* * * * ** * * *
30615065 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTATAAACCAATGGTATTC
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
30615130 TA-TAATTTTTAGAAAGT
65 TAGTAATTTTT--AAA-T
* * ***
30615147 CAAGGGTATTTTTGTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTTTGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
* ** *
30615211 TGAGTAATTTCACAAAC
64 TTAGTAATTT-TTAAAT
30615228 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
30615293 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
*
30615309 CGAGGGTA
1 CAAGGGTA
30615317 AAATAGTAAT
Statistics
Matches: 135, Mismatches: 28, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 68 0.50
82 48 0.36
83 9 0.07
84 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:30615326 original size:54 final size:54
Alignment explanation
Indices: 30615177--30615397 Score: 196
Period size: 54 Copynumber: 4.1 Consensus size: 54
30615167 TGTAAATCAG
* * **
30615177 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTGAGTAATT-TCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAAT-AGTAATTCT-ACAAACCAA
* * *** * *
30615231 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTAAAATAGTAATTCTACAAACCAA
** * *
30615285 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTACAAACCAA
*** * * * *
30615339 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTACAAACCAA
30615393 GGGTA
1 GGGTA
30615398 AAACGGTAAT
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 136 0.95
55 6 0.04
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTACAAACCAA
Found at i:30615343 original size:81 final size:81
Alignment explanation
Indices: 30615169--30615343 Score: 190
Period size: 81 Copynumber: 2.2 Consensus size: 81
30615159 TGTAACTTTG
***
30615169 TAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTGAGTAATTTCACAAACCAAGGG
1 TAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGAGTAATTTCACAAACCAAGGG
*** * *
30615234 TATTTTGGTAATTTTA
66 TAAAATAGTAATTCTA
* * *** * *
30615250 CAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGG
1 TAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGAGTAATTTCACAAACCAAGG
30615314 GTAAAATAGTAATTCTA
65 GTAAAATAGTAATTCTA
*
30615331 TAAATCAAGGGTA
1 TAAATCAGGGGTA
30615344 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 73 0.97
82 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (81 bp):
TAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGAGTAATTTCACAAACCAAGGG
TAAAATAGTAATTCTA
Found at i:30615505 original size:27 final size:27
Alignment explanation
Indices: 30615295--30615497 Score: 221
Period size: 27 Copynumber: 7.5 Consensus size: 27
30615285 GGGTATTTTA
* *
30615295 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
30615322 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
30615349 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
30615376 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
30615403 GTAATTCTGTAAGTCGAGGGCAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
30615430 ATAATTATGTAAATCG-GAGGTAAAACG
1 GTAATTCTGTAAATCGAG-GGTAAAATG
* *
30615457 GTAATTATGTAAATCG-GCGGTAAAACG
1 GTAATTCTGTAAATCGAG-GGTAAAATG
30615484 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
30615498 TGGGGGTACT
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 152 0.99
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:30615532 original size:27 final size:27
Alignment explanation
Indices: 30615511--30615600 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
30615501 GGGTACTTTG
*
30615511 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
30615538 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
30615565 GTATTTTTACAAAAT--AAGGGTATTTCG
1 GTAATTTTAC-AAATCGAA-GGTATTTCA
30615592 GTAATTTTA
1 GTAATTTTA
30615601 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.91
28 4 0.07
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:30620404 original size:40 final size:40
Alignment explanation
Indices: 30620360--30620542 Score: 149
Period size: 40 Copynumber: 4.5 Consensus size: 40
30620350 TGACAATTCG
*
30620360 GCTATGTATGGCACTTAGTGTGTGATTCAAGATAGCTTCA
1 GCTATGTATGGCACTTAGTGTGTGATTTAAGATAGCTTCA
* ** * *
30620400 GCTATGTATGGCACTCAGTGTACGATTTGAGATAACTTC-
1 GCTATGTATGGCACTTAGTGTGTGATTTAAGATAGCTTCA
* *
30620439 GACGT-TGTATGGCACATAGCGTGCT-ATTTAAGATAGCTTCA
1 G-C-TATGTATGGCACTTAGTGTG-TGATTTAAGATAGCTTCA
* * * * * *
30620480 GATATGTATGGAACTTAGTGTGCGAGATTGAA-ATAGGTTCG
1 GCTATGTATGGCACTTAGTGT--GTGATTTAAGATAGCTTCA
*
30620521 GCTATGTTTTGGCACTTAGTGT
1 GCTATG-TATGGCACTTAGTGT
30620543 ACGAGAATTC
Statistics
Matches: 110, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
39 2 0.02
40 75 0.68
41 14 0.13
42 19 0.17
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (40 bp):
GCTATGTATGGCACTTAGTGTGTGATTTAAGATAGCTTCA
Found at i:30634778 original size:122 final size:122
Alignment explanation
Indices: 30634554--30634779 Score: 371
Period size: 122 Copynumber: 1.9 Consensus size: 122
30634544 TTCTCATTAT
* *
30634554 TCTATCATTTACTTTGAATTTTTAGGCTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGG
1 TCTATCATTTAATTTGAATTCTTAGGCTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGG
* *
30634619 AAAACCTTATACCCATGACATTCCTATGCTCACTCTCATGCTATCACCATGTCAATA
66 AAAACCTCATACCCATGACATTACTATGCTCACTCTCATGCTATCACCATGTCAATA
* *
30634676 TCTATCATTTAATTTGCATTCTTAGGTTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGG
1 TCTATCATTTAATTTGAATTCTTAGGCTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGG
* * *
30634741 AAAATCTCATACCCATGACATTACTATGCTTATTCTCAT
66 AAAACCTCATACCCATGACATTACTATGCTCACTCTCAT
30634780 AGTTATTTTG
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (122 bp):
TCTATCATTTAATTTGAATTCTTAGGCTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGG
AAAACCTCATACCCATGACATTACTATGCTCACTCTCATGCTATCACCATGTCAATA
Found at i:30644847 original size:43 final size:43
Alignment explanation
Indices: 30644786--30644874 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
30644776 TTAATATCTT
30644786 GAAAATATTAAAACACGAAATAAGCATACATAATTGAGAACAA
1 GAAAATATTAAAACACGAAATAAGCATACATAATTGAGAACAA
* *
30644829 GAAAATGTTAAAACACGAAATAAGCATGCATAATTGAGAACAA
1 GAAAATATTAAAACACGAAATAAGCATACATAATTGAGAACAA
30644872 GAA
1 GAA
30644875 TCAAGTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (43 bp):
GAAAATATTAAAACACGAAATAAGCATACATAATTGAGAACAA
Found at i:30651238 original size:27 final size:27
Alignment explanation
Indices: 30651208--30651482 Score: 356
Period size: 27 Copynumber: 10.2 Consensus size: 27
30651198 AAAGTACTCC
30651208 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30651235 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30651262 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
30651289 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30651316 CAATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
30651343 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
30651370 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
30651397 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
30651424 C-AGTTTACAAAATTATCGTTTGACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
30651451 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30651478 TGATT
1 CGATT
30651483 GTGAAATTAC
Statistics
Matches: 214, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 210 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:30651517 original size:27 final size:27
Alignment explanation
Indices: 30651487--30651681 Score: 214
Period size: 27 Copynumber: 7.2 Consensus size: 27
30651477 TTGATTGTGA
30651487 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
30651514 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
30651541 AATTACTGAAATACACTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
30651568 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
30651595 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
30651622 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
30651649 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
30651676 AATTAC
1 AATTAC
30651682 CATTTTGCCC
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:30651551 original size:54 final size:54
Alignment explanation
Indices: 30651487--30651682 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
30651477 TTGATTGTGA
* ** *
30651487 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
30651541 AATTACTGAAATACACTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
30651595 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
30651649 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
30651683 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:30651593 original size:81 final size:81
Alignment explanation
Indices: 30651495--30651680 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 81
30651485 GAAATTACTG
* * * *
30651495 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACACTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACACCTA
30651560 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * * *
30651576 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACACCTA
* *
30651641 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * * *
30651657 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
30651681 CCATTTTGCC
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACACCTA
TAGGATAGAATTACCA
Found at i:30651919 original size:27 final size:26
Alignment explanation
Indices: 30651881--30651963 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
30651871 CGGAGGAAGC
*
30651881 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
30651908 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
30651934 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
30651961 GTT
1 GTT
30651964 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:30652085 original size:22 final size:22
Alignment explanation
Indices: 30652051--30652109 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
30652041 CCCGTTATTA
* *
30652051 ATGGCTATATGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
30652073 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
30652095 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
30652110 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:30652244 original size:27 final size:27
Alignment explanation
Indices: 30652222--30652295 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
30652212 TAGGTGGGTT
*
30652222 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
* *
30652249 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
30652276 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
30652296 CAGTCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.12
27 34 0.85
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:30652422 original size:6 final size:6
Alignment explanation
Indices: 30652413--30652599 Score: 165
Period size: 6 Copynumber: 30.8 Consensus size: 6
30652403 TTGCATTCAC
* *
30652413 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
30652462 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTA ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* *
30652510 ATTCTG -TCACCT- ATTTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG A-TTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
30652559 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
30652600 CATTTTGGTT
Statistics
Matches: 149, Mismatches: 14, Indels: 36
0.75 0.07 0.18
Matches are distributed among these distances:
5 11 0.07
6 124 0.83
7 11 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:30652553 original size:85 final size:85
Alignment explanation
Indices: 30652413--30652599 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
30652403 TTGCATTCAC
*
30652413 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
30652478 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
30652498 ATTCTAATTCTGATTCTGTCACCTATTTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
30652563 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
30652583 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
30652600 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:30652620 original size:30 final size:30
Alignment explanation
Indices: 30652413--30652599 Score: 244
Period size: 30 Copynumber: 6.4 Consensus size: 30
30652403 TTGCATTCAC
*
30652413 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
30652444 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
30652474 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* * *
30652498 ATTCTAATTCTGATTCTGTCACCTATTTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
30652529 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
30652559 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
30652589 ATTCTGATTCT
1 ATTCTGATTCT
30652600 CATTTTGGTT
Statistics
Matches: 138, Mismatches: 9, Indels: 19
0.83 0.05 0.11
Matches are distributed among these distances:
24 20 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 69 0.50
31 44 0.32
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:30653666 original size:17 final size:17
Alignment explanation
Indices: 30653644--30653676 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30653634 TCTATATGGG
30653644 TTTGCACATGCATAGTA
1 TTTGCACATGCATAGTA
*
30653661 TTTGCACATGCGTAGT
1 TTTGCACATGCATAGT
30653677 GTGAGCGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (17 bp):
TTTGCACATGCATAGTA
Found at i:30654841 original size:21 final size:21
Alignment explanation
Indices: 30654808--30654851 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
30654798 AACAAACTAA
* *
30654808 CAAATTTCTCTAGGACTTAGT
1 CAAATCTCCCTAGGACTTAGT
30654829 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCCTAGGACTTAGT
30654850 CA
1 CA
30654852 TGATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (21 bp):
CAAATCTCCCTAGGACTTAGT
Found at i:30659504 original size:2 final size:2
Alignment explanation
Indices: 30659497--30659525 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30659487 CTAAATGTTA
30659497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30659526 ATTACTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30659618 original size:12 final size:12
Alignment explanation
Indices: 30659581--30659716 Score: 54
Period size: 12 Copynumber: 11.2 Consensus size: 12
30659571 AGAGATATGG
*
30659581 TAAAACATAATA
1 TAAAATATAATA
**
30659593 TAATTTATAA-A
1 TAAAATATAATA
30659604 TAAAATATAATA
1 TAAAATATAATA
*
30659616 TAAATCATATAGTAA
1 TAAA--ATATAAT-A
30659631 TAAAA-ATACATA
1 TAAAATATA-ATA
*
30659643 TAATAAAAT-ATA
1 TAA-AATATAATA
30659655 TAATAATATAATTTA
1 TAA-AATATAA--TA
*
30659670 TAACATATAA-A
1 TAAAATATAATA
*
30659681 AAATAATAT-ATA
1 TAA-AATATAATA
30659693 CTAAAA-AT-ATA
1 -TAAAATATAATA
*
30659704 TATAATA-AATA
1 TAAAATATAATA
30659715 TA
1 TA
30659717 TGATAAAAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
10 4 0.04
11 24 0.25
12 37 0.39
13 7 0.07
14 14 0.15
15 10 0.10
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.34
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:30659626 original size:32 final size:31
Alignment explanation
Indices: 30659590--30659717 Score: 83
Period size: 31 Copynumber: 4.1 Consensus size: 31
30659580 GTAAAACATA
*
30659590 ATATAATTTATAAATAA-A-ATATAATATAAAT
1 ATATAATTAATAAA-AATACATATAATA-AAAT
*
30659621 CATAT-AGTAATAAAAATACATATAATAAAAT
1 -ATATAATTAATAAAAATACATATAATAAAAT
*
30659652 ATATAA-TAATATAATTTATAACATATAA-AAAAT
1 ATATAATTAATA-AA--AAT-ACATATAATAAAAT
* *
30659685 A-AT-ATATACTAAAAATATATATAAT-AAAT
1 ATATAAT-TAATAAAAATACATATAATAAAAT
30659714 ATAT
1 ATAT
30659718 GATAAAAATT
Statistics
Matches: 79, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
29 12 0.15
30 15 0.19
31 16 0.20
32 16 0.20
33 12 0.15
34 8 0.10
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (31 bp):
ATATAATTAATAAAAATACATATAATAAAAT
Found at i:30659637 original size:17 final size:18
Alignment explanation
Indices: 30659611--30659644 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30659601 AAATAAAATA
*
30659611 TAATATAAAT-CATATAG
1 TAATAAAAATACATATAG
30659628 TAATAAAAATACATATA
1 TAATAAAAATACATATA
30659645 ATAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (18 bp):
TAATAAAAATACATATAG
Found at i:30659646 original size:15 final size:15
Alignment explanation
Indices: 30659608--30659789 Score: 93
Period size: 15 Copynumber: 11.3 Consensus size: 15
30659598 TATAAATAAA
*
30659608 ATATAATATAAATCAT
1 ATATAATAAAAAT-AT
*
30659624 ATAGTAATAAAAATAC
1 ATA-TAATAAAAATAT
30659640 ATATAAT-AAAATAT
1 ATATAATAAAAATAT
* *
30659654 ATAATAAT-ATAATTT
1 AT-ATAATAAAAATAT
*
30659669 ATAACATATAAAAAATAAT
1 AT-ATA-AT-AAAAAT-AT
*
30659688 ATATACTAAAAATAT
1 ATATAATAAAAATAT
*
30659703 ATATAATAAATATAT
1 ATATAATAAAAATAT
*
30659718 GATAAAAATTTAAAAATAT
1 -AT-ATAA--TAAAAATAT
30659737 AATAATAGATAAAACATAGT
1 -AT-ATA-ATAAAA-ATA-T
30659757 A-A-AATAAATAATAT
1 ATATAATAAA-AATAT
* *
30659771 ATACAATGAAAATAT
1 ATATAATAAAAATAT
30659786 ATAT
1 ATAT
30659790 GCAAATACAA
Statistics
Matches: 132, Mismatches: 18, Indels: 33
0.72 0.10 0.18
Matches are distributed among these distances:
14 10 0.08
15 51 0.39
16 24 0.18
17 14 0.11
18 11 0.08
19 20 0.15
20 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
ATATAATAAAAATAT
Found at i:30659658 original size:27 final size:27
Alignment explanation
Indices: 30659587--30659717 Score: 82
Period size: 27 Copynumber: 4.9 Consensus size: 27
30659577 ATGGTAAAAC
*
30659587 ATAATATAATTTATAAATAAAATATAAT
1 ATAATATAATATAT-AATAAAATATAAT
*
30659615 ATAA-ATCATATAGTAATAAAA-ATACAT
1 ATAATATAATATA-TAATAAAATATA-AT
*
30659642 ATAATAAAATATATAAT--AATATAAT
1 ATAATATAATATATAATAAAATATAAT
*
30659667 -T--TATAACATATAA-AAAATAATATAT
1 ATAATATAATATATAATAAAAT-ATA-AT
*
30659692 ACTAA-AAATATATATAATAAATATAT
1 A-TAATATA-ATATATAATAAA-ATAT
30659718 GATAAAAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
22 10 0.12
23 3 0.04
24 4 0.05
25 6 0.08
26 6 0.08
27 24 0.30
28 13 0.16
29 7 0.09
30 5 0.06
31 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (27 bp):
ATAATATAATATATAATAAAATATAAT
Found at i:30659703 original size:13 final size:12
Alignment explanation
Indices: 30659605--30659726 Score: 77
Period size: 13 Copynumber: 9.4 Consensus size: 12
30659595 ATTTATAAAT
30659605 AAAATATAATATA
1 AAAATAT-ATATA
*
30659618 AATCATATAGTAATA
1 AA-AATATA-T-ATA
*
30659633 AAAATACATATA
1 AAAATATATATA
30659645 ATAAA-ATATATA
1 A-AAATATATATA
* *
30659657 ATAATATAATTTA
1 AAAATAT-ATATA
* *
30659670 TAACATATA-AAA
1 -AAAATATATATA
30659682 AATAATATATACTA
1 AA-AATATATA-TA
30659696 AAAATATATATA
1 AAAATATATATA
30659708 ATAAATATATGATA
1 A-AAATATAT-ATA
30659722 AAAAT
1 AAAAT
30659727 TTAAAAATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.05
12 22 0.26
13 33 0.39
14 21 0.25
15 5 0.06
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAATATATATA
Found at i:30659740 original size:26 final size:26
Alignment explanation
Indices: 30659640--30659772 Score: 93
Period size: 26 Copynumber: 5.2 Consensus size: 26
30659630 ATAAAAATAC
* *
30659640 ATATAATAAAATATATAATAATATAAT
1 ATATGATAAAA-ATATAAAAATATAAT
*
30659667 -T-T-AT-AACATATAAAAA-ATAAT
1 ATATGATAAAAATATAAAAATATAAT
*
30659688 ATAT-ACTAAAAATATATATAATA-AAT
1 ATATGA-TAAAAATATA-AAAATATAAT
*
30659714 ATATGATAAAAATTTAAAAATATAAT
1 ATATGATAAAAATATAAAAATATAAT
*
30659740 A-ATAGATAAAACATAGTAAAATAAATAAT
1 ATAT-GATAAAA-ATA-TAAAA-ATATAAT
30659769 ATAT
1 ATAT
30659773 ACAATGAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.06
22 9 0.11
23 4 0.05
24 3 0.04
25 15 0.18
26 31 0.36
27 4 0.05
28 5 0.06
29 7 0.08
30 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
ATATGATAAAAATATAAAAATATAAT
Found at i:30659767 original size:19 final size:18
Alignment explanation
Indices: 30659589--30659767 Score: 65
Period size: 18 Copynumber: 9.9 Consensus size: 18
30659579 GGTAAAACAT
*
30659589 AATATAATTTATAAAT-AA
1 AATATAA-TAATAAATAAA
*
30659607 AATATAAT-ATAAAT-CA
1 AATATAATAATAAATAAA
* *
30659623 TATAGTAATAA-AAATACA
1 AATA-TAATAATAAATAAA
* * *
30659641 TATAATAA-AATATATAAT
1 AAT-ATAATAATAAATAAA
*
30659659 AATATAATTTATAACATATAA
1 AATATAA-TAATAA-ATA-AA
* *
30659680 AAAATAAT-ATATACTAAA
1 AATATAATAATA-AATAAA
30659698 AATAT-AT-AT-AATAAA
1 AATATAATAATAAATAAA
* *
30659713 TATATGATAA-AAATTTAAA
1 AATATAATAATAAA--TAAA
*
30659732 AATATAATAATAGATAAA
1 AATATAATAATAAATAAA
30659750 ACATAGTAA-AATAAATAA
1 A-ATA-TAATAATAAATAA
30659768 TATATACAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
15 9 0.07
16 12 0.10
17 22 0.18
18 33 0.26
19 32 0.26
20 10 0.08
21 7 0.06
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (18 bp):
AATATAATAATAAATAAA
Found at i:30661075 original size:48 final size:48
Alignment explanation
Indices: 30661023--30661122 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
30661013 TGGGTGTAAT
*
30661023 GGGTTAATAGATTTTGGGCCAAAGGTTTAGGCTAATAGGGTTGTAACC
1 GGGTTAATAGATTTTGGGCCAAAGGTTTACGCTAATAGGGTTGTAACC
* *
30661071 GGGTTAATAGATTTTGGGCTAAAGGTTTACGCTAATTGGGTTGTAACC
1 GGGTTAATAGATTTTGGGCCAAAGGTTTACGCTAATAGGGTTGTAACC
30661119 GGGT
1 GGGT
30661123 GCTGAGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.33
Consensus pattern (48 bp):
GGGTTAATAGATTTTGGGCCAAAGGTTTACGCTAATAGGGTTGTAACC
Found at i:30662463 original size:207 final size:207
Alignment explanation
Indices: 30661699--30662949 Score: 2089
Period size: 207 Copynumber: 6.1 Consensus size: 207
30661689 ATCTGAGAGT
* * * *
30661699 CAAATCTGCTATGTTCTT-GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATC-T
1 CAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTT
* *
30661762 GCTTCAGTATAAACATCTGAAGGCCAGATATGCTATGTGTCTGCCCTCCGTCGAATATGGAGACG
65 ACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACG
*
30661827 CCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAACTTGCTTCAACGTA
130 CCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTA
30661892 AACACGTGAAAGC
195 AACACGTGAAAGC
*
30661905 CAAATCAGCTATGTCTTCGATTT-TTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATCTTA
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
* * *
30661969 CTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGATGC
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
30662034 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
131 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
30662099 ACACGTGAAAGC
196 ACACGTGAAAGC
*
30662111 CAAATCAGCTATGTCTTCGATTT-TTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATCTTA
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
* *
30662175 CTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGACGC
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
*
30662240 CAAACTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
131 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
30662305 ACACGTGAAAGC
196 ACACGTGAAAGC
30662317 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
* * * * *
30662382 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTGTGTGCCTGCCTTCCGTTGAATATGGAGATGC
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
* *
30662447 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAACTTGCTTCAACATAA
131 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
30662512 ACACGTGAAAGC
196 ACACGTGAAAGC
* * *
30662524 CAAATTAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
* *
30662589 CTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTTGAATATGGAGACGC
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
*
30662654 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAACGTAA
131 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
30662719 ACACGTGAAAGC
196 ACACGTGAAAGC
* *
30662731 CAAATCAGCTATGTCTTCGATTTATTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
* *
30662796 CTTTAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAGGC
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
* * * *
30662861 CAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGA-TCTGCTTCAGCGTG
131 CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACT-TGCTTCAACGTA
* *
30662925 AACACCTGAAGGC
195 AACACGTGAAAGC
* *
30662938 CAGATCTGCTAT
1 CAAATCAGCTAT
30662950 ACTTTATCCT
Statistics
Matches: 990, Mismatches: 51, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
205 38 0.04
206 383 0.39
207 569 0.57
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTA
CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAA
ACACGTGAAAGC
Found at i:30669864 original size:2 final size:2
Alignment explanation
Indices: 30669857--30669897 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
30669847 AATGTTACAA
30669857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30669898 ATTACTAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30669982 original size:5 final size:5
Alignment explanation
Indices: 30669959--30670040 Score: 75
Period size: 5 Copynumber: 16.6 Consensus size: 5
30669949 ATGGTAAAAC
*
30669959 ATAAT ATAAT -TTAT A-AAT ATAAT ATAAT ATAA- ATCATAT AGTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-A-AT A-TAAT
*
30670004 ATAA- ATACAT ATAAT AAAAT AT-AT ATAAT ATAAT ATA
1 ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
30670041 TGAGGAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
4 15 0.23
5 39 0.61
6 7 0.11
7 2 0.03
8 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:30670029 original size:14 final size:15
Alignment explanation
Indices: 30669970--30670041 Score: 94
Period size: 14 Copynumber: 4.7 Consensus size: 15
30669960 TAATATAATT
30669970 TATAAATATAATATAA
1 TATAAATAT-ATATAA
30669986 TATAAATCATATAGTAA
1 TATAAAT-ATATA-TAA
*
30670003 TATAAATACATATAA
1 TATAAATATATATAA
30670018 TA-AAATATATATAA
1 TATAAATATATATAA
30670032 TAT-AATATAT
1 TATAAATATAT
30670042 GAGGAAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 20 0.39
15 5 0.10
16 14 0.27
17 12 0.24
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (15 bp):
TATAAATATATATAA
Found at i:30670184 original size:20 final size:22
Alignment explanation
Indices: 30670145--30670184 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
30670135 TAAATAAAAT
*
30670145 ATATAATAATATAATTTATAAC
1 ATATAATAATATAATATATAAC
30670167 ATATAA-AA-ATAATATATA
1 ATATAATAATATAATATATA
30670185 CTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAATAATATAATATATAAC
Found at i:30670196 original size:15 final size:15
Alignment explanation
Indices: 30670169--30670279 Score: 64
Period size: 15 Copynumber: 6.7 Consensus size: 15
30670159 TTTATAACAT
30670169 ATAAAAATAATATATA
1 ATAAAAAT-ATATATA
*
30670185 CTAAAAATATATATA
1 ATAAAAATATATATA
*
30670200 ATAAATAATATGATAAAA
1 ATAAA-AATAT-AT-ATA
30670218 ATTTAAAAATATAATAATA
1 A--TAAAAATAT-AT-ATA
30670237 GATAAAACATAGTA-A-A
1 -ATAAAA-ATA-TATATA
*
30670253 ATAAATAATATATACA
1 ATAAA-AATATATATA
*
30670269 ATGAAAATATA
1 ATAAAAATATA
30670280 CATGCAAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.03
15 26 0.33
16 19 0.24
17 3 0.04
18 8 0.10
19 14 0.18
20 6 0.08
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (15 bp):
ATAAAAATATATATA
Found at i:30670228 original size:26 final size:26
Alignment explanation
Indices: 30670167--30670263 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 26
30670157 AATTTATAAC
30670167 ATATAAAAAT-AAT-ATAT-ACTAAAA
1 ATATAAAAATAAATAATATGA-TAAAA
*
30670191 ATATATATAATAAATAATATGATAAAA
1 ATATA-AAAATAAATAATATGATAAAA
*
30670218 ATTTAAAAATATAATAATA-GATAAAA
1 ATATAAAAATA-AATAATATGATAAAA
30670244 CATAGT-AAAATAAATAATAT
1 -ATA-TAAAAATAAATAATAT
30670264 ATACAATGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
24 5 0.08
25 4 0.07
26 22 0.36
27 28 0.46
28 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (26 bp):
ATATAAAAATAAATAATATGATAAAA
Found at i:30670260 original size:19 final size:18
Alignment explanation
Indices: 30670138--30670260 Score: 55
Period size: 19 Copynumber: 6.8 Consensus size: 18
30670128 AAACTTATAA
* *
30670138 ATAA-AATATATAATAAT
1 ATAATAATAAATAAAAAT
*
30670155 ATAATTTATAACATATAAAA-
1 ATAA-TAATAA-ATA-AAAAT
*
30670175 ATAAT-ATATACTAAAAAT
1 ATAATAATA-AATAAAAAT
30670193 AT-AT-AT-AATAAATAAT
1 ATAATAATAAATAAA-AAT
*
30670209 ATGATAA-AAATTTAAAAAT
1 ATAATAATAAA--TAAAAAT
*
30670228 ATAATAATAGATAAAACAT
1 ATAATAATAAATAAAA-AT
30670247 AGTAA-AATAAATAA
1 A-TAATAATAAATAA
30670261 TATATACAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 28
0.70 0.07 0.24
Matches are distributed among these distances:
15 5 0.06
16 5 0.06
17 14 0.17
18 15 0.18
19 25 0.30
20 16 0.19
21 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAATAATAAATAAAAAT
Found at i:30671567 original size:48 final size:48
Alignment explanation
Indices: 30671501--30671611 Score: 145
Period size: 48 Copynumber: 2.4 Consensus size: 48
30671491 TTGTTTGGGT
* ****
30671501 TTGGG-TGTAAT-AGGTTAATAGATTTTGGGCCAAAGGTTTGGGGTAA
1 TTGGGTTGTAATCGGGTTAATAGATTTTGGGCCAAAGGTTTACACTAA
*
30671547 TTGGGTTGTAATCGGGTTAATAGATTTTGGGCTAAAGGTTTACACTAA
1 TTGGGTTGTAATCGGGTTAATAGATTTTGGGCCAAAGGTTTACACTAA
*
30671595 TTGGGTTGTAACCGGGT
1 TTGGGTTGTAATCGGGT
30671612 GCTGAGTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 5 0.09
47 6 0.11
48 45 0.80
ACGTcount: A:0.24, C:0.07, G:0.32, T:0.36
Consensus pattern (48 bp):
TTGGGTTGTAATCGGGTTAATAGATTTTGGGCCAAAGGTTTACACTAA
Found at i:30672027 original size:29 final size:28
Alignment explanation
Indices: 30671963--30672027 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
30671953 ACTACGGGTC
* * *
30671963 AATTTTTTTATGATTTTAATAAAATTTT
1 AATTTTTTTACGATTTTAATAAAAATCT
* *
30671991 ACAATTTTTTACGATTTTTATAAAAAATCT
1 A-ATTTTTTTACGATTTTAAT-AAAAATCT
30672021 AATTTTT
1 AATTTTT
30672028 AATTTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.03
29 21 0.72
30 7 0.24
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (28 bp):
AATTTTTTTACGATTTTAATAAAAATCT
Found at i:30672058 original size:19 final size:18
Alignment explanation
Indices: 30672033--30672086 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 18
30672023 TTTTTAATTT
30672033 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
30672051 TTTAATATTTTT-TATAAAA
1 TTT-ATATTTTTAT-TAAAA
30672070 TTTATCATTTATTATTA
1 TTTAT-ATTT-TTATTA
30672087 TTTATAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.19
19 20 0.65
20 4 0.13
21 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:30672232 original size:89 final size:90
Alignment explanation
Indices: 30672099--30672303 Score: 272
Period size: 88 Copynumber: 2.3 Consensus size: 90
30672089 TATAATTTTT
* * * *
30672099 AATAAGAGCAGGGGCTTCATTG-TTTTTTTGAAAAATTTTAAGGGTCTTTTTGATGCATTTTTGA
1 AATAA-AGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCA-TTTCGA
*
30672163 AAGTTCAAGTACCCAATTGAGTGAAAA
64 AAGTTCAAGTACCCAATTGAGTAAAAA
* *
30672190 AA-AAA-TAGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGCATTTCGAAA
1 AATAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTCGAAA
* * *
30672253 TTTCAAGTGCTCAATTGAGTAAAAA
66 GTTCAAGTACCCAATTGAGTAAAAA
*
30672278 AATAAAGTAGGGACTTAATTGCTTTT
1 AATAAAGTAGGGGCTTAATTGCTTTT
30672304 GTAACACCCC
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
88 42 0.42
89 36 0.36
90 20 0.20
91 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (90 bp):
AATAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTCGAAA
GTTCAAGTACCCAATTGAGTAAAAA
Found at i:30673771 original size:27 final size:28
Alignment explanation
Indices: 30673741--30673793 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
30673731 CTATTCAGAA
* *
30673741 ATCAGTGTTAA-CTAGGCCTTAGCCCAT
1 ATCAGTATTAATCTAGGCCATAGCCCAT
*
30673768 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAATCTAGGCCATAGCCC
30673794 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (28 bp):
ATCAGTATTAATCTAGGCCATAGCCCAT
Found at i:30673878 original size:60 final size:59
Alignment explanation
Indices: 30673755--30673889 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
30673745 GTGTTAACTA
* *
30673755 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
30673816 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
30673876 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
30673890 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:30673907 original size:20 final size:20
Alignment explanation
Indices: 30673882--30673927 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30673872 ATTGGGCCTT
30673882 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
30673902 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
30673921 GCCCATA
1 GCCCATA
30673928 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:30678594 original size:28 final size:27
Alignment explanation
Indices: 30678542--30678594 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
30678532 CTATTCAGAA
* *
30678542 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
30678569 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
30678595 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:30678679 original size:60 final size:59
Alignment explanation
Indices: 30678556--30678690 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
30678546 GTGTTAACTA
* *
30678556 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
30678617 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
30678677 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
30678691 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:30678708 original size:20 final size:20
Alignment explanation
Indices: 30678683--30678728 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30678673 ATTGGGCCTT
30678683 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
30678703 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
30678722 GCCCATA
1 GCCCATA
30678729 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:30679059 original size:26 final size:26
Alignment explanation
Indices: 30679030--30679091 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
30679020 AAATTAACCC
* *
30679030 TAGGGGTATGACGGTCATTTTGC-ACT
1 TAGGGGTATAACGGTAATTTT-CAACT
*
30679056 TAGGGGTAAAACGGTAATTTTCATACT
1 TAGGGGTATAACGGTAATTTTCA-ACT
30679083 TAGGGGTAT
1 TAGGGGTAT
30679092 TTCAGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 18 0.60
27 11 0.37
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (26 bp):
TAGGGGTATAACGGTAATTTTCAACT
Found at i:30680053 original size:17 final size:17
Alignment explanation
Indices: 30680031--30680065 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30680021 TGAGAGAAGG
30680031 ATAGAA-AAGAATAAAAA
1 ATAGAAGAAGAA-AAAAA
30680048 ATAGAAGAAGAAAAAAA
1 ATAGAAGAAGAAAAAAA
30680065 A
1 A
30680066 AAAACCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
ATAGAAGAAGAAAAAAA
Found at i:30680064 original size:18 final size:17
Alignment explanation
Indices: 30680031--30680066 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
30680021 TGAGAGAAGG
*
30680031 ATAGAAAAGAATAAAAA
1 ATAGAAAAGAAAAAAAA
30680048 ATAGAAGAAGAAAAAAAA
1 ATAGAA-AAGAAAAAAAA
30680066 A
1 A
30680067 AAACCTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (17 bp):
ATAGAAAAGAAAAAAAA
Found at i:30686365 original size:98 final size:97
Alignment explanation
Indices: 30686103--30686380 Score: 246
Period size: 98 Copynumber: 2.9 Consensus size: 97
30686093 TTTTTAAGTA
* * *
30686103 TTATAATTTATTTAATTTA-CGAGATTCAAATATG-AATTATTGTCATCATTTATTCATATGTAG
1 TTATAATTTATTTAATTTATAG-GATTAAAATA-GAAATTATTATCATCATTTATTCATATGTAG
* * *
30686166 TTCTCAATATTACACGTGTTTGTGAAGATCGATG
64 TTCTTAATATTACACGTGTTTGTGAAGATCAATC
* * * * * * ** *
30686200 ATATAATTGATTTGATTTTTA-GAGTTTAAATACAAACCATTATCTTCATTTATTC-TGATGCTA
1 TTATAATTTATTTAATTTATAGGA-TTAAAATAGAAATTATTATCATCATTTATTCAT-ATG-TA
30686263 -TTCTTAATATTACACGTGTTT-TACGAATG-TCAATC
63 GTTCTTAATATTACACGTGTTTGT--GAA-GATCAATC
** * *
30686298 TTATAATTTATTTAATTTATAGGATTAAAATAGAAATTATTATGGTCATTCATTCATTTGTAGTT
1 TTATAATTTATTTAATTTATAGGATTAAAATAGAAATTATTATCATCATTTATTCATATGTAGTT
* *
30686363 CTTAAAATTACACATGTT
66 CTTAATATTACACGTGTT
30686381 CATGCAAACG
Statistics
Matches: 142, Mismatches: 28, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
96 4 0.03
97 64 0.45
98 70 0.49
99 4 0.03
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (97 bp):
TTATAATTTATTTAATTTATAGGATTAAAATAGAAATTATTATCATCATTTATTCATATGTAGTT
CTTAATATTACACGTGTTTGTGAAGATCAATC
Found at i:30686985 original size:26 final size:26
Alignment explanation
Indices: 30686956--30687008 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
30686946 AGCTGAGTTG
*
30686956 TCCAAAATCACATATATGGTTATGAA
1 TCCAAAATCACATATATGATTATGAA
*
30686982 TCCAAAATCACATATTTGATTATGAA
1 TCCAAAATCACATATATGATTATGAA
30687008 T
1 T
30687009 ATGTCCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (26 bp):
TCCAAAATCACATATATGATTATGAA
Found at i:30689452 original size:23 final size:24
Alignment explanation
Indices: 30689402--30689453 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
30689392 TTGTTTTATT
* * *
30689402 TTTATTTTTATTTTTTTGCCCTTA
1 TTTATTGTTATTTTATTGCCATTA
30689426 -TTATTGTTATTTTATT-CCATTA
1 TTTATTGTTATTTTATTGCCATTA
30689448 TTTATT
1 TTTATT
30689454 TGTTTCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.17, C:0.10, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTATTGTTATTTTATTGCCATTA
Found at i:30689517 original size:3 final size:3
Alignment explanation
Indices: 30689488--30689548 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
30689478 CAAAATTTAG
* * * * * *
30689488 ATT ATT CATT ATT CTT CTT CTT CTT ATT ATT ATT GTT ATT ATT GTT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
30689534 ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT
30689549 TATATTATCG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30689554 original size:12 final size:12
Alignment explanation
Indices: 30689511--30689548 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
30689501 CTTCTTCTTC
* *
30689511 TTATTATTATTG
1 TTATTATTGTTA
30689523 TTATTATTGTTA
1 TTATTATTGTTA
30689535 TTATTATTGTTA
1 TTATTATTGTTA
30689547 TT
1 TT
30689549 TATATTATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:30694566 original size:19 final size:19
Alignment explanation
Indices: 30694542--30694588 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
30694532 CGAAGCCCTT
30694542 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCCCAT-CA
*
30694561 TTTGCATTACATCGCATCA
1 TTTGCATTACATCCCATCA
*
30694580 TATGCATTA
1 TTTGCATTA
30694589 AATTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCCCATCA
Found at i:30698449 original size:23 final size:23
Alignment explanation
Indices: 30698419--30698466 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
30698409 CTAATGATAA
30698419 AAGTAAATAAATAAGAGGATGTG
1 AAGTAAATAAATAAGAGGATGTG
30698442 AAGTAAATAAATAAGAGGATGTG
1 AAGTAAATAAATAAGAGGATGTG
30698465 AA
1 AA
30698467 ACCTATCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (23 bp):
AAGTAAATAAATAAGAGGATGTG
Found at i:30700594 original size:44 final size:44
Alignment explanation
Indices: 30700528--30700919 Score: 273
Period size: 44 Copynumber: 8.5 Consensus size: 44
30700518 ATGGCAAGTT
* ** * *
30700528 TTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGCCACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAATC
* * * ** *
30700572 TTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGTTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAATC
* * * **
30700616 TTATATCCCTGAAGTTGCAGTGAAGTAGACTGAAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-CAAATC
* * * * *
30700661 TTATTTCCTTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTATAGTTC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC--CACA--A-A--TC
* * * **
30700712 TTATCTCCCTAAAGTTGAAGTGGAGCAGATTGAAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-CAAATC
* * * *
30700757 TTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC--C-----ACAAATC
* *
30700808 TTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCACAAA-C
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAATC
* * * * ** *
30700851 ATTATCTCCCTGAAGTTACAGTAGAGTAGGTTTAAGTTACGAATC
1 -TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAATC
30700896 TTATCTCCCTGAAGTTGCAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
30700920 TCAAGTCAAA
Statistics
Matches: 273, Mismatches: 57, Indels: 36
0.75 0.16 0.10
Matches are distributed among these distances:
43 1 0.00
44 128 0.47
45 66 0.24
46 1 0.00
47 2 0.01
48 2 0.01
49 3 0.01
50 1 0.00
51 68 0.25
52 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAATC
Found at i:30700735 original size:51 final size:49
Alignment explanation
Indices: 30700659--30700849 Score: 169
Period size: 51 Copynumber: 3.9 Consensus size: 49
30700649 AGATAGCAAA
* * *
30700659 TCTTATTTCCTTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTATAG
1 TCTTATCTCCCTGAAGTTGAAGTGGAATAGATTAAAGCTACAAATTA-AG
* ** * *
30700709 TTCTTATCTCCCTAAAGTTGAAGTGGAGCAGATTGAAGATAGC--A--AA-
1 -TCTTATCTCCCTGAAGTTGAAGTGGAATAGATTAAAGCTA-CAAATTAAG
* * *
30700755 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACGAA
1 TCTTATCTCCCTGAAGTTGAAGTGGAATAGATTAAAGCTACAAATTA--AG
* *
30700806 TCTTATCTCCCTGAAGTT-ACAGTGGAGTAGATTAAAGCCACAAA
1 TCTTATCTCCCTGAAGTTGA-AGTGGAATAGATTAAAGCTACAAA
30700850 CATTATCTCC
Statistics
Matches: 112, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
44 1 0.01
45 33 0.29
46 1 0.01
47 1 0.01
48 2 0.02
50 2 0.02
51 71 0.63
52 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (49 bp):
TCTTATCTCCCTGAAGTTGAAGTGGAATAGATTAAAGCTACAAATTAAG
Found at i:30700749 original size:96 final size:95
Alignment explanation
Indices: 30700523--30700872 Score: 344
Period size: 96 Copynumber: 3.8 Consensus size: 95
30700513 TTATTATGGC
* * ** * *
30700523 AAGTT-TTATCTCCCTAAAGTTATAGTGGAGCAAATTGAAGCCA-CAAATCTTATCTCCCTGAAA
1 AAGTTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAG
** * * *
30700586 TTGCAGTGGAGCAGGTTGAAGTTAC-----
66 TTGCAGTGGAATAGATTAAAGCTACAAATT
* * * * * * *
30700611 AAG-TCTTATATCCCTGAAGTTGCAGTGAAGTAGACTGAAGATAGCAAATCTTATTTCCTTGAAG
1 AAGTTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAG
30700675 TTGCAGTGGAATAGATTAAAGCTACAAATT
66 TTGCAGTGGAATAGATTAAAGCTACAAATT
30700705 ATAGTTCTTATCTCCCTAAAGTTGA-AGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGA
1 A-AGTTCTTATCTCCCTAAAGTT-ACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGA
30700769 AGTTGCAGTGGAATAGATTAAAGCTACAAATT
64 AGTTGCAGTGGAATAGATTAAAGCTACAAATT
* * * * * ** *
30700801 ACGAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCA-CAAA-CATTATCTCCCTGA
1 AAG-TTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCAAATC-TTATTTCCCTGA
*
30700864 AGTTACAGT
64 AGTTGCAGT
30700873 AGAGTAGGTT
Statistics
Matches: 215, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
87 1 0.00
88 31 0.14
89 37 0.17
94 2 0.01
95 27 0.13
96 117 0.54
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (95 bp):
AAGTTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAG
TTGCAGTGGAATAGATTAAAGCTACAAATT
Found at i:30702678 original size:12 final size:12
Alignment explanation
Indices: 30702646--30702692 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
30702636 TTAAAAAATG
30702646 TTTTATTTAATA
1 TTTTATTTAATA
**
30702658 TTTCCTTTAATA
1 TTTTATTTAATA
*
30702670 TTTTATTT-ATT
1 TTTTATTTAATA
30702681 TATTTATTTAAT
1 T-TTTATTTAAT
30702693 TTCATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 3 0.11
12 23 0.82
13 2 0.07
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:30702690 original size:24 final size:24
Alignment explanation
Indices: 30702646--30702692 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30702636 TTAAAAAATG
*
30702646 TTTTATTTAATATTTCCTTTAATA
1 TTTTATTTAATATTTCATTTAATA
*
30702670 TTTTATTTATTTATTT-ATTTAAT
1 TTTTATTTA-ATATTTCATTTAAT
30702693 TTCATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTATTTAATATTTCATTTAATA
Found at i:30702772 original size:6 final size:6
Alignment explanation
Indices: 30702761--30702788 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30702751 AATTGGCTTG
30702761 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
30702789 TGCCCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:30702819 original size:22 final size:22
Alignment explanation
Indices: 30702775--30702820 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30702765 ATTTTTATTT
* *
30702775 TTATTTTTATTTTTTGCCCTTA
1 TTATTGTTATTTTTTGCCATTA
30702797 TTATTGTTATTTTATT-CCATTA
1 TTATTGTTATTTT-TTGCCATTA
30702819 TT
1 TT
30702821 TATTTGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTGTTATTTTTTGCCATTA
Done.