Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 82 of 410
Found at i:23640873 original size:18 final size:18
Alignment explanation
Indices: 23640847--23640890 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23640837 GACTGGGAAA
* *
23640847 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
23640865 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
23640883 AGGATACA
1 AGGATACA
23640891 CACCTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:23641519 original size:7 final size:7
Alignment explanation
Indices: 23641507--23641559 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
23641497 TTATATAGGT
23641507 AATACTA
1 AATACTA
23641514 AATACTA
1 AATACTA
23641521 AATACTA
1 AATACTA
23641528 AATACTA
1 AATACTA
23641535 AATACTA
1 AATACTA
23641542 AATACTA
1 AATACTA
23641549 AATACTA
1 AATACTA
23641556 AATA
1 AATA
23641560 TGAAATGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:23642745 original size:22 final size:21
Alignment explanation
Indices: 23642713--23642759 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
23642703 AAACAGCTTT
23642713 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
23642733 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
23642755 TTTGA
1 TTTGA
23642760 GAGAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:23650567 original size:2 final size:2
Alignment explanation
Indices: 23650562--23650588 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23650552 TTTTAAAGCA
23650562 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23650589 CACTTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23650720 original size:20 final size:20
Alignment explanation
Indices: 23650697--23650738 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
23650687 TTAGAATTTT
*
23650697 TTTTTTAT-AA-ATTTTGGA
1 TTTTTTATAAATATTTTGAA
23650715 TTTTTTATAAATATTTTGAA
1 TTTTTTATAAATATTTTGAA
23650735 TTTT
1 TTTT
23650739 GAAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 2 0.10
20 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTTTATAAATATTTTGAA
Found at i:23653090 original size:15 final size:14
Alignment explanation
Indices: 23653066--23653095 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
23653056 CTAGATGAAT
23653066 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
23653080 AAAAAAGAAAAAAAG
1 AAAAAA-AAAAAAAG
23653095 A
1 A
23653096 GAGTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:23653859 original size:20 final size:20
Alignment explanation
Indices: 23653814--23653856 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
23653804 AAAAACGTTT
23653814 ACTTAATGTCTGGCATTGAA
1 ACTTAATGTCTGGCATTGAA
23653834 ACTTAATGTCTGGCATT-AA
1 ACTTAATGTCTGGCATTGAA
23653853 ACTT
1 ACTT
23653857 TAAGTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
ACTTAATGTCTGGCATTGAA
Found at i:23673686 original size:2 final size:2
Alignment explanation
Indices: 23673679--23673703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23673669 GATTAATGTG
23673679 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 A
23673704 CAAATGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23678895 original size:140 final size:140
Alignment explanation
Indices: 23678643--23678923 Score: 562
Period size: 140 Copynumber: 2.0 Consensus size: 140
23678633 TGGTCCCTAC
23678643 AAGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTAACACATATTCATCTTTCATTGTTCCT
1 AAGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTAACACATATTCATCTTTCATTGTTCCT
23678708 CCATAATCCATCAAAATACAAGTGACTCATGCATGGGTAAATTTTTAAACATGAACCTTAGCATG
66 CCATAATCCATCAAAATACAAGTGACTCATGCATGGGTAAATTTTTAAACATGAACCTTAGCATG
23678773 AAATATGGGT
131 AAATATGGGT
23678783 AAGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTAACACATATTCATCTTTCATTGTTCCT
1 AAGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTAACACATATTCATCTTTCATTGTTCCT
23678848 CCATAATCCATCAAAATACAAGTGACTCATGCATGGGTAAATTTTTAAACATGAACCTTAGCATG
66 CCATAATCCATCAAAATACAAGTGACTCATGCATGGGTAAATTTTTAAACATGAACCTTAGCATG
23678913 AAATATGGGT
131 AAATATGGGT
23678923 A
1 A
23678924 CAAATGGAGA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (140 bp):
AAGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTAACACATATTCATCTTTCATTGTTCCT
CCATAATCCATCAAAATACAAGTGACTCATGCATGGGTAAATTTTTAAACATGAACCTTAGCATG
AAATATGGGT
Found at i:23688217 original size:24 final size:24
Alignment explanation
Indices: 23688190--23688244 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
23688180 CGCTACCGGG
*
23688190 GAGCCCACTCAAACTACTGTTGAA
1 GAGCCCACTCAAACTACTGCTGAA
* ** *
23688214 GAGCCTACTCAATTTGCTGCTGAA
1 GAGCCCACTCAAACTACTGCTGAA
23688238 GAGCCCA
1 GAGCCCA
23688245 AAAAGACGAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (24 bp):
GAGCCCACTCAAACTACTGCTGAA
Found at i:23698315 original size:40 final size:40
Alignment explanation
Indices: 23698278--23698502 Score: 271
Period size: 40 Copynumber: 5.6 Consensus size: 40
23698268 GCTACTCGTT
*
23698278 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
23698318 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
23698358 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
23698398 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
23698437 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
23698478 CAAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23698503 ATATCATTCG
Statistics
Matches: 163, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 30 0.18
40 103 0.63
41 25 0.15
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23698382 original size:80 final size:80
Alignment explanation
Indices: 23698278--23698504 Score: 307
Period size: 80 Copynumber: 2.8 Consensus size: 80
23698268 GCTACTCGTT
* *
23698278 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
23698343 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* *
23698358 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
23698421 GAATTAGTAACTCTCA
65 GATTTAGTAACTCGCA
* * * * *
23698437 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
23698501 GGAT
64 GGAT
23698505 ATCATTCGAA
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 4 0.03
79 47 0.37
80 64 0.50
81 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:23706642 original size:53 final size:52
Alignment explanation
Indices: 23706465--23706698 Score: 217
Period size: 55 Copynumber: 4.4 Consensus size: 52
23706455 CATTAGGGTT
* **
23706465 CAAGGATACCATGTAAGACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCTAAGG
* * * * * * *
23706520 TAAGGAAATCATGTAAGACCTTGTCAAGACATGTCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C--TAAGG
* * *
23706575 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGG
* *
23706628 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCAA--
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCT-AAGG
23706678 -AAGGATACCATGTAAGACCAT
1 CAAGGATACCATGTAAGACCAT
23706699 AATAAGTCAT
Statistics
Matches: 148, Mismatches: 25, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
49 21 0.14
51 1 0.01
52 8 0.05
53 44 0.30
54 8 0.05
55 62 0.42
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (52 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGG
Found at i:23706672 original size:108 final size:110
Alignment explanation
Indices: 23706473--23706673 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
23706463 TTCAAGGATA
* * * *
23706473 CCATGTAAGACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* * *
23706538 CCTTGTCAAGACATGTCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
23706583 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
23706645 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
23706674 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 25 0.31
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:23706939 original size:16 final size:16
Alignment explanation
Indices: 23706918--23706948 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23706908 GTAAATTTGA
23706918 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
23706934 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
23706949 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:23708449 original size:3 final size:3
Alignment explanation
Indices: 23708441--23708481 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
23708431 CCATAAAACT
23708441 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
23708482 CTAACTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23711608 original size:47 final size:45
Alignment explanation
Indices: 23711536--23711807 Score: 203
Period size: 47 Copynumber: 5.8 Consensus size: 45
23711526 GGTAAAGTGT
* * *
23711536 CGATGCCATGTCCTAAACATGGTCTTACACTAGCTCATATCTCATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCATGC
23711583 CGATGCCATGTCCCAGACATAGTCTTACACT-GACT-ATCATCTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCAT-ATCTCAT-GC
* * * ** *
23711631 CGATGCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTC-ATGC
* *
23711677 CGATGTATGTCCCAGACATGTCTTACACTAGCAC-TATTCTCGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCATA-TCTC-ATGC
* * ** * *
23711723 CGATACCATGTCCCAAACATGGTCTTACACCGGCTCTCATAATGT--GGC
1 CGAT-GCATGTCCCAGACAT-GTCTTACACTAG--CTCAT-ATCTCATGC
* *
23711771 TGATGCATGTCCCAGACATGTCTTACACTAGCCCATA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCATA
23711808 ATAACCCACA
Statistics
Matches: 182, Mismatches: 30, Indels: 30
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
46 71 0.39
47 79 0.43
48 21 0.12
50 2 0.01
51 3 0.02
52 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCATGC
Found at i:23711713 original size:94 final size:94
Alignment explanation
Indices: 23711583--23711802 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 94
23711573 TATCTCATGT
*
23711583 CGATGCCATGTCCCAGACATAGTCTTACACT-G-ACTATCATCTC-ATAGCCGAT-GCATGTCCC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTAT--TCTCGAT-GCCGATACCATGTCCC
* ** * *
23711644 AGACAT-GTCTTACATTGGCT-TACGT-CTCGAGGC
61 AAACATGGTCTTACACCGGCTCT-CATAAT-GAGGC
*
23711677 CGATGTATGTCCCAGACATGTCTTACACTAGCACTATTCTCGATGCCGATACCATGTCCCAAACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTATTCTCGATGCCGATACCATGTCCCAAACA
*
23711742 TGGTCTTACACCGGCTCTCATAATGTGGC
66 TGGTCTTACACCGGCTCTCATAATGAGGC
*
23711771 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
23711803 CCATAATAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
92 20 0.18
93 29 0.27
94 58 0.53
95 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTATTCTCGATGCCGATACCATGTCCCAAACA
TGGTCTTACACCGGCTCTCATAATGAGGC
Found at i:23711795 original size:140 final size:140
Alignment explanation
Indices: 23711543--23711797 Score: 336
Period size: 140 Copynumber: 1.8 Consensus size: 140
23711533 TGTCGATGCC
* * * * *
23711543 ATGTCCTAAACATGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATAGTCT
1 ATGTCCCAAACATGGTCTTACACTAGCACATATCTCATGCCGATACCATGTCCCAAACATAGTCT
* *
23711608 TACACTGACTATCATCTCATAGCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCG
66 TACACCGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCG
23711673 AGGCCGATGT
131 AGGCCGATGT
* *
23711683 ATGTCCCAGACAT-GTCTTACACTAGCAC-TATTCTCGATGCCGATACCATGTCCCAAACATGGT
1 ATGTCCCAAACATGGTCTTACACTAGCACATA-TCTC-ATGCCGATACCATGTCCCAAACATAGT
* * * * *
23711746 CTTACACCGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACA
64 CTTACACCGACTATCAT-ATCATAGCCGATGCATGTCCCAGACATGTCTTACA
23711798 CTAGCCCATA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 2 0.02
139 18 0.18
140 77 0.79
141 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
ATGTCCCAAACATGGTCTTACACTAGCACATATCTCATGCCGATACCATGTCCCAAACATAGTCT
TACACCGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCG
AGGCCGATGT
Found at i:23713686 original size:41 final size:40
Alignment explanation
Indices: 23713610--23713776 Score: 228
Period size: 40 Copynumber: 4.1 Consensus size: 40
23713600 ACAAAAATTA
* ***
23713610 TAAAACACGGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGC
* *
23713651 TAAAAATAGAGCAATAGTGGCGCTTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGC-TTTTGGTAAAACGCCGC
23713692 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
23713732 TAAAAACAGAGCAATAGCGGCACTTTTGGCAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
23713772 TAAAA
1 TAAAA
23713777 GTCATATAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
40 74 0.65
41 36 0.32
42 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:23713758 original size:81 final size:81
Alignment explanation
Indices: 23713610--23713776 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 81
23713600 ACAAAAATTA
* * * *
23713610 TAAAACACGGAGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAATAGAGCAATAGTGGCGCT
1 TAAAACACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCGGCAC-
*
23713675 TTTTGGTAAAACGCCGC
65 TTTTGGCAAAACGCCGC
***
23713692 TAAAA-ACAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCAC
1 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCGGCAC
23713755 TTTTGGCAAAACGCCGC
65 TTTTGGCAAAACGCCGC
23713772 TAAAA
1 TAAAA
23713777 GTCATATAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 21 0.28
81 46 0.61
82 9 0.12
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (81 bp):
TAAAACACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCGGCACT
TTTGGCAAAACGCCGC
Found at i:23713841 original size:47 final size:49
Alignment explanation
Indices: 23713781--23713912 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 49
23713771 CTAAAAGTCA
* * *
23713781 TATAATCCTTAAAACCCTAAACCCCAAAAAAATA-A-TAAACACTAATC
1 TATAACCCTTAAAACCCTAAACCCCAAAAAAAAACACTAAACACTAAAC
* *
23713828 TATAACCCCTAAAACACTAAACCCCTAAATACTAAAAACACTTAAACACTAAAC
1 TATAACCCTTAAAACCCTAAACCCC-AAA-A--AAAAACAC-TAAACACTAAAC
* *
23713882 TATAACCCTTAAAACCCTAAACTCTAAAAAA
1 TATAACCCTTAAAACCCTAAACCCCAAAAAA
23713913 CATCATATGG
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
47 22 0.32
48 3 0.04
49 1 0.01
50 2 0.03
51 4 0.06
52 2 0.03
53 3 0.04
54 32 0.46
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.20
Consensus pattern (49 bp):
TATAACCCTTAAAACCCTAAACCCCAAAAAAAAACACTAAACACTAAAC
Found at i:23714953 original size:14 final size:14
Alignment explanation
Indices: 23714934--23714963 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23714924 CTAATTTTTC
*
23714934 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
23714948 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
23714962 CC
1 CC
23714964 TTCCACCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:23715048 original size:14 final size:14
Alignment explanation
Indices: 23715029--23715056 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23715019 GCATTTTTTA
23715029 CTTCTCTAAATCTC
1 CTTCTCTAAATCTC
23715043 CTTCTCTAAATCTC
1 CTTCTCTAAATCTC
23715057 TATCCCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
CTTCTCTAAATCTC
Found at i:23719374 original size:43 final size:43
Alignment explanation
Indices: 23719326--23719419 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
23719316 TTATATTTCT
* *
23719326 TAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTG
1 TAGCGGCGTCTGCGGGAAAAGCGCCACTAAAGGTCATGGTCTG
* * *
23719369 TAGCGGCATTTGCGGGAAAAGCGCCACTAAAGGTCATGGTCTT
1 TAGCGGCGTCTGCGGGAAAAGCGCCACTAAAGGTCATGGTCTG
23719412 TAGCGGCG
1 TAGCGGCG
23719420 CTTTTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.21
Consensus pattern (43 bp):
TAGCGGCGTCTGCGGGAAAAGCGCCACTAAAGGTCATGGTCTG
Found at i:23725151 original size:29 final size:30
Alignment explanation
Indices: 23725117--23725177 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
23725107 AATTGCGATG
23725117 ATTTAAAAT-TAAATTAAATTAT-ATTTTTT
1 ATTTAAAATAT-AATTAAATTATAATTTTTT
* * *
23725146 ATTTAACATATAATTAATTTTTAATTTTTT
1 ATTTAAAATATAATTAAATTATAATTTTTT
23725176 AT
1 AT
23725178 GATTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTAAAATATAATTAAATTATAATTTTTT
Found at i:23727298 original size:26 final size:26
Alignment explanation
Indices: 23727231--23727312 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
23727221 TAGTTTAAAT
* * *
23727231 TTATTTATATCATAATATTTATTTTTTA
1 TTATTTATAT-ATAATA-ATATATATTA
* *
23727259 TTTTTTTATATATAGTAATATATATTA
1 -TTATTTATATATAATAATATATATTA
*
23727286 TTATTTATATATAATAGTATATATTA
1 TTATTTATATATAATAATATATATTA
23727312 T
1 T
23727313 ATGAAAGAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
26 24 0.53
27 7 0.16
28 5 0.11
29 9 0.20
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (26 bp):
TTATTTATATATAATAATATATATTA
Found at i:23727463 original size:31 final size:32
Alignment explanation
Indices: 23727425--23727492 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
23727415 ATAGATTAAA
23727425 ATTATTTAT-ATTATATATATATAATAATATAT
1 ATTATTTATGATT-TATATATATAATAATATAT
* * *
23727457 -TTATTTATGATTTTTTTATATCATAATATAT
1 ATTATTTATGATTTATATATATAATAATATAT
23727488 ATTAT
1 ATTAT
23727493 ATTAAAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (32 bp):
ATTATTTATGATTTATATATATAATAATATAT
Found at i:23729938 original size:46 final size:46
Alignment explanation
Indices: 23729885--23730060 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
23729875 TATTTGAGCA
*
23729885 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* * * *
23729931 TCTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
* * *
23729976 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* * *
23730024 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23730061 GCGAGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 61 0.57
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:23729992 original size:93 final size:93
Alignment explanation
Indices: 23729882--23730053 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
23729872 GGATATTTGA
* * *
23729882 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
23729947 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
23729975 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23730040 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23730054 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23735544 original size:44 final size:45
Alignment explanation
Indices: 23735460--23735546 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
23735450 TTAAATTAAA
* *
23735460 TACAATAAACACGTGCATATATATACACATAAGCATTACTTTACAT
1 TACAACAAACACGTGCATATATATA-ACATAAGCACTACTTTACAT
* ** *
23735506 TACAACAAACCCGTGCATATATAT-TTATAAGTACTACTTTA
1 TACAACAAACACGTGCATATATATAACATAAGCACTACTTTA
23735547 TTTTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 13 0.37
46 22 0.63
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (45 bp):
TACAACAAACACGTGCATATATATAACATAAGCACTACTTTACAT
Found at i:23736552 original size:23 final size:24
Alignment explanation
Indices: 23736513--23736558 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
23736503 TTTTTTAACA
* *
23736513 TTATTTCTTATTTTATATTTTTTG
1 TTATTTCTTACTTTATATCTTTTG
23736537 TTATTT-TTACTTTATATCTTTT
1 TTATTTCTTACTTTATATCTTTT
23736559 AATCTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (24 bp):
TTATTTCTTACTTTATATCTTTTG
Found at i:23740313 original size:80 final size:80
Alignment explanation
Indices: 23740180--23740331 Score: 295
Period size: 80 Copynumber: 1.9 Consensus size: 80
23740170 TATTCGGATG
*
23740180 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
23740245 TTTGTGCTAGCGACC
66 TTTGTGCTAGCGACC
23740260 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
23740325 TTTGTGC
66 TTTGTGC
23740332 GAGTTGCTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGCGACC
Found at i:23740343 original size:40 final size:40
Alignment explanation
Indices: 23740180--23740327 Score: 260
Period size: 40 Copynumber: 3.7 Consensus size: 40
23740170 TATTCGGATG
23740180 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
23740220 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
23740260 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
23740300 ATATCCGGGCTAAGACCCGAAGGCATTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT
23740328 GTGCGAGTTG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:23745733 original size:11 final size:11
Alignment explanation
Indices: 23745717--23745742 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23745707 TACAAATAAT
23745717 ATAACATATTG
1 ATAACATATTG
23745728 ATAACATATTG
1 ATAACATATTG
23745739 ATAA
1 ATAA
23745743 ACCGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (11 bp):
ATAACATATTG
Found at i:23753868 original size:5 final size:5
Alignment explanation
Indices: 23753858--23753897 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
23753848 GAAAAAAATC
23753858 TTATT TTATTT TTATT TTATT TTATT TTGATT TTATT TTA
1 TTATT TTA-TT TTATT TTATT TTATT TT-ATT TTATT TTA
23753898 AATTAGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:23753872 original size:11 final size:10
Alignment explanation
Indices: 23753858--23753897 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 10
23753848 GAAAAAAATC
23753858 TTATTTTATTT
1 TTATTTTA-TT
23753869 TTATTTTATT
1 TTATTTTATT
23753879 TTATTTTGATT
1 TTATTTT-ATT
23753890 TTATTTTA
1 TTATTTTA
23753898 AATTAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (10 bp):
TTATTTTATT
Found at i:23753879 original size:16 final size:16
Alignment explanation
Indices: 23753858--23753897 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
23753848 GAAAAAAATC
*
23753858 TTATTTTATTTTTATT
1 TTATTTTATTTTGATT
23753874 TTATTTTATTTTGATT
1 TTATTTTATTTTGATT
23753890 TTATTTTA
1 TTATTTTA
23753898 AATTAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTATTTTATTTTGATT
Found at i:23773173 original size:41 final size:40
Alignment explanation
Indices: 23773093--23773177 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
23773083 AGTTAAACTC
* ***
23773093 TATTTTTTAGTTTCCCACTTAAAATCTGATTATGGTAGGT
1 TATTTTTTAGTTTCCCACTTAAAATCTAATTAAAATAGGT
* * *
23773133 TATTTTATTATTTTCTCACTTAAACTCTAATTAAAATAGGT
1 TATTTT-TTAGTTTCCCACTTAAAATCTAATTAAAATAGGT
23773174 TATT
1 TATT
23773178 ATAATATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 6 0.16
41 31 0.84
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (40 bp):
TATTTTTTAGTTTCCCACTTAAAATCTAATTAAAATAGGT
Found at i:23776377 original size:13 final size:13
Alignment explanation
Indices: 23776359--23776383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23776349 CAAGTACCCA
23776359 ACCCAACCCAATT
1 ACCCAACCCAATT
23776372 ACCCAACCCAAT
1 ACCCAACCCAAT
23776384 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:23776475 original size:9 final size:9
Alignment explanation
Indices: 23776461--23776546 Score: 84
Period size: 9 Copynumber: 9.6 Consensus size: 9
23776451 TTCATATAAA
23776461 TAATTCGGT
1 TAATTCGGT
*
23776470 TAATTCAGT
1 TAATTCGGT
*
23776479 TAATTTGGT
1 TAATTCGGT
* *
23776488 TAATTTGTT
1 TAATTCGGT
**
23776497 TAATTTAAG-
1 TAA-TTCGGT
23776506 TAATTCGGT
1 TAATTCGGT
23776515 TAATTCGGT
1 TAATTCGGT
*
23776524 TAATTCGAT
1 TAATTCGGT
*
23776533 TAATTCAGT
1 TAATTCGGT
23776542 TAATT
1 TAATT
23776547 TGATTACTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
8 3 0.05
9 58 0.92
10 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (9 bp):
TAATTCGGT
Found at i:23783416 original size:23 final size:23
Alignment explanation
Indices: 23783390--23783443 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
23783380 TTTAATAATA
23783390 GTCTCAACTTACATAATTTCCTT
1 GTCTCAACTTACATAATTTCCTT
23783413 GTCTCAACTTACATAATTTCCTT
1 GTCTCAACTTACATAATTTCCTT
*
23783436 GTATCAAC
1 GTCTCAAC
23783444 ATATCAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.41
Consensus pattern (23 bp):
GTCTCAACTTACATAATTTCCTT
Found at i:23783849 original size:46 final size:46
Alignment explanation
Indices: 23783769--23784129 Score: 378
Period size: 46 Copynumber: 8.2 Consensus size: 46
23783759 TCCCATCCAC
* * * * * *
23783769 GGTCTTATTTATCTT-TGACATGATGCCATAGTATCTTTCAACTAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
23783814 GGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
23783860 GGTCTTATTCGTTTCCCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
23783906 GG------TC---TTGTG-CA--TTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
23783940 GGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
23783985 GGTCTTGTTC-TTTTCATGTCACGTTACCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
* *
23784031 GGTCTTATTC-TTTTCATGTCACGTTGCCATGGTATTTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
** * *
23784077 GGTCTTACACA-TTTCATATCATGTTGCCGTGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
23784123 GGTCTTA
1 GGTCTTA
23784130 CACATTTCCT
Statistics
Matches: 270, Mismatches: 31, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
34 25 0.09
36 2 0.01
37 2 0.01
40 4 0.01
42 2 0.01
43 2 0.01
45 47 0.17
46 186 0.69
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:23783907 original size:16 final size:16
Alignment explanation
Indices: 23783886--23783942 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
23783876 CGTCATGTTG
23783886 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
23783902 CCATGG--TCTTGTGCATTG
1 CCATGGTATCTT-T-CA--A
23783920 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
23783936 CCATGGT
1 CCATGGT
23783943 CTTATTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 15 0.45
18 8 0.24
19 1 0.03
20 4 0.12
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:23783983 original size:79 final size:80
Alignment explanation
Indices: 23783837--23783992 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 80
23783827 TTCTGTCATG
*
23783837 TTGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCCCGTCATGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCGATTCCCGTCATGTTGCCATGGTATCTTTCAA
23783902 CCATGGTCTTGTGCA
66 CCATGGTCTTGTGCA
23783917 TTGCCATGGTATCTTTCAACCATGGTCTTATTC-ATTCCCGTCATGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCGATTCCCGTCATGTTGCCATGGTATCTTTCAA
23783981 CCATGGTCTTGT
66 CCATGGTCTTGT
23783993 TCTTTTCATG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
79 42 0.56
80 33 0.44
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (80 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTATTCGATTCCCGTCATGTTGCCATGGTATCTTTCAA
CCATGGTCTTGTGCA
Found at i:23784015 original size:125 final size:126
Alignment explanation
Indices: 23783792--23784129 Score: 390
Period size: 125 Copynumber: 2.6 Consensus size: 126
23783782 TTTGACATGA
* * *
23783792 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
* * *
23783857 CATGGTCTTATTCGTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTGCAT
66 CATGGTCTTATTCGTTTCACGTCACGTTACCATGGTATCTTTCAACCATGGTCTTGTGCAT
* *
23783918 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
* * * *
23783982 CATGGTCTTGTTCTTTTCATGTCACGTTACCATGGTATCTTTCAACCATGGTCTTATTCTTTTCA
66 CATGGTCTTATTCGTTTCACGTCACGTTACCATGGTATCTTTCAACCATGG------TC--TT-G
23784047 TGTCACGT
122 TG-CA--T
* * * *** *
23784055 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCGTGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
23784120 CATGGTCTTA
66 CATGGTCTTA
23784130 CACATTTCCT
Statistics
Matches: 179, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
125 74 0.41
126 30 0.17
131 2 0.01
133 2 0.01
134 2 0.01
135 2 0.01
137 31 0.17
138 36 0.20
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (126 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCGTTTCACGTCACGTTACCATGGTATCTTTCAACCATGGTCTTGTGCAT
Found at i:23786199 original size:11 final size:11
Alignment explanation
Indices: 23786183--23786234 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
23786173 CTTTCTTTAT
23786183 ATAATAATAAA
1 ATAATAATAAA
23786194 ATAATAATAAA
1 ATAATAATAAA
* *
23786205 ATATCTTATTAAA
1 ATA--ATAATAAA
*
23786218 ATATTAATAAA
1 ATAATAATAAA
23786229 ATAATA
1 ATAATA
23786235 TTTATCTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 26 0.74
13 9 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:23797182 original size:29 final size:30
Alignment explanation
Indices: 23797122--23797183 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
23797112 TTTTATTTTA
*
23797122 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
23797152 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
23797181 TTG
1 TTG
23797184 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:23798737 original size:18 final size:18
Alignment explanation
Indices: 23798705--23798750 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23798695 TTTTTAATAT
* *
23798705 TATAATATA-ATATATTA
1 TATAATTTATATATATCA
*
23798722 TATTATTTATATATATCA
1 TATAATTTATATATATCA
23798740 TATAATTTATA
1 TATAATTTATA
23798751 ACATATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TATAATTTATATATATCA
Found at i:23801622 original size:20 final size:20
Alignment explanation
Indices: 23801511--23801624 Score: 129
Period size: 20 Copynumber: 5.4 Consensus size: 20
23801501 TCATGGGGTG
23801511 CTTTGGTGGTATTCTGTTTAGC
1 CTTT-GTGGTATTCTG-TTAGC
*
23801533 CTTTGTAGCGTATTCTGGTTTGGC
1 CTTTGT-G-GTATTCT-G-TTAGC
23801557 CTTTGTGGTATTCTGTTAGC
1 CTTTGTGGTATTCTGTTAGC
* * *
23801577 CTTCGAGGTACTCTGTTAGC
1 CTTTGTGGTATTCTGTTAGC
*
23801597 CTTTGTGGTACTCTGTTAGC
1 CTTTGTGGTATTCTGTTAGC
23801617 CTTTGTGG
1 CTTTGTGG
23801625 CATATTCCAT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
20 47 0.57
21 3 0.04
22 12 0.15
23 8 0.10
24 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (20 bp):
CTTTGTGGTATTCTGTTAGC
Found at i:23803091 original size:44 final size:44
Alignment explanation
Indices: 23803026--23803112 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
23803016 TTGATGTCTC
* *
23803026 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACAGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACAGA
* * *
23803070 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACAG
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGACAG
23803113 TTAAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACAGA
Found at i:23803308 original size:47 final size:47
Alignment explanation
Indices: 23803239--23803348 Score: 193
Period size: 47 Copynumber: 2.3 Consensus size: 47
23803229 TCAAGATGTG
* *
23803239 ACCATGTAAGACCATGTTTGGAACATGGTATTTGGTAAGTTAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
23803286 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
*
23803333 ATCATGTAAGACCATG
1 ACCATGTAAGACCATG
23803349 CCAAGGCATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (47 bp):
ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
Found at i:23803456 original size:55 final size:54
Alignment explanation
Indices: 23803327--23803523 Score: 220
Period size: 54 Copynumber: 3.6 Consensus size: 54
23803317 TTGGTAAGAT
* * *
23803327 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATA-AGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-AGAGTTCTATAAGGC
* * *
23803381 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGAAGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGAAGAGTT-CTATAAGGC
* * * * **
23803436 AAAGG-TCCCATGTAAGACCATGCCAGGGCATGTCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGAAGAGTTCTATAAGGC
* *
23803489 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
23803524 ATGGTAAGTT
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 41 0.34
55 39 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGAAGAGTTCTATAAGGC
Found at i:23803549 original size:108 final size:109
Alignment explanation
Indices: 23803335--23803545 Score: 266
Period size: 108 Copynumber: 2.0 Consensus size: 109
23803325 ATAAGGATAT
* * *
23803335 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * **
23803400 ATGTCAAGACATGGCATTGAAGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATGGAAGAGTTACAAAAAGAAAAAGGTCC
* * * * *
23803444 CATGTAAGACCATGCCAGGGCATGTCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
23803508 ATGTCAAGACATGGCAATGGTA-AGTT-CAAAAAGAAAAA
66 ATGTCAAGACATGGC-ATGGAAGAGTTACAAAAAGAAAAA
23803546 AGGTTCCCGA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 8 0.09
108 41 0.47
109 38 0.44
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCATGGAAGAGTTACAAAAAGAAAAAGGTCC
Found at i:23806896 original size:12 final size:12
Alignment explanation
Indices: 23806879--23806980 Score: 82
Period size: 14 Copynumber: 8.1 Consensus size: 12
23806869 TTAAATATAA
23806879 AAATAATAATAT
1 AAATAATAATAT
23806891 AAATAATAATAT
1 AAATAATAATAT
* *
23806903 ATATAAAATAATAC
1 A-A-ATAATAATAT
23806917 ATAATAAATAATAT
1 A-AAT-AATAATAT
*
23806931 GTAATAATAATAT
1 -AAATAATAATAT
*
23806944 AAATATATAATAG
1 AAATA-ATAATAT
23806957 AATATAA-AATA-
1 AA-ATAATAATAT
*
23806968 ACATAATAATAT
1 AAATAATAATAT
23806980 A
1 A
23806981 GTAAAAAACA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.05
11 5 0.07
12 22 0.30
13 19 0.26
14 24 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
AAATAATAATAT
Found at i:23806920 original size:24 final size:22
Alignment explanation
Indices: 23806892--23806953 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 22
23806882 TAATAATATA
23806892 AATAATAATATATATAAAATAAT
1 AATAATAA-ATATATAAAATAAT
**
23806915 ACATAATAAATAATATGTAATAAT
1 A-ATAATAAAT-ATATAAAATAAT
23806939 AAT-ATAAATATATAA
1 AATAATAAATATATAA
23806954 TAGAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 5 0.15
24 18 0.55
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AATAATAAATATATAAAATAAT
Found at i:23806922 original size:7 final size:7
Alignment explanation
Indices: 23806880--23806955 Score: 65
Period size: 7 Copynumber: 11.6 Consensus size: 7
23806870 TAAATATAAA
23806880 AATA-AT
1 AATATAT
23806886 AATATA-
1 AATATAT
23806892 AATA-AT
1 AATATAT
23806898 AATATAT
1 AATATAT
*
23806905 -ATAAAAT
1 AAT-ATAT
*
23806912 AATACAT
1 AATATAT
*
23806919 AATAAAT
1 AATATAT
*
23806926 AATATGT
1 AATATAT
23806933 AATA-AT
1 AATATAT
23806939 AATATA-
1 AATATAT
23806945 AATATAT
1 AATATAT
23806952 AATA
1 AATA
23806956 GAATATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
5 1 0.02
6 25 0.44
7 29 0.51
8 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (7 bp):
AATATAT
Found at i:23806978 original size:3 final size:3
Alignment explanation
Indices: 23806875--23806955 Score: 53
Period size: 3 Copynumber: 26.0 Consensus size: 3
23806865 ATATTTAAAT
*
23806875 ATA AAA ATA ATA AT- ATAA ATA ATA AT- ATA TATA A-A ATA ATA CATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA -ATA
*
23806920 ATAA ATA ATA TGTA ATA ATA AT- ATAA ATA TATA ATA
1 AT-A ATA ATA -ATA ATA ATA ATA AT-A ATA -ATA ATA
23806956 GAATATAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 22
0.71 0.04 0.25
Matches are distributed among these distances:
2 8 0.13
3 37 0.59
4 18 0.29
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23807040 original size:2 final size:2
Alignment explanation
Indices: 23807033--23807063 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23807023 AAGGAATAAA
23807033 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 A
23807064 AAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23807263 original size:30 final size:31
Alignment explanation
Indices: 23807229--23807287 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
23807219 AAAAACTGCG
* *
23807229 ATTAGGATTAAATT-GAAATTAAATAAAAAT
1 ATTAGGACTAAATTAGAAATAAAATAAAAAT
*
23807259 ATTAGGGCTAAATTAGAAATAAAATAAAA
1 ATTAGGACTAAATTAGAAATAAAATAAAA
23807288 CATAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.29
Consensus pattern (31 bp):
ATTAGGACTAAATTAGAAATAAAATAAAAAT
Found at i:23809186 original size:176 final size:175
Alignment explanation
Indices: 23808885--23809267 Score: 545
Period size: 176 Copynumber: 2.2 Consensus size: 175
23808875 GTAAATACAT
* * * * *
23808885 GAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACATAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* ** * * *
23808950 ATCTGCTTCAGTAAAATCATTTGAAGGTTAGATCTGCTATGTATCTGCTCCTCATCGAAATGGAG
66 ATCTACTTCAGTAAAATCACCTGAAGGTTAGACCTGCCATGTACCTGCTCCTCATCGAAATGGAG
* * *
23809015 ATGCGAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
* *
23809060 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATGCCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATG-CCAAATCATCTTG
*
23809125 GATCTACTTCAGTATAAA-CACCTGAAGGTTAGACCTGCCATGTACCTGCT-CTCCGTCGAAATG
65 GATCTACTTCAGTA-AAATCACCTGAAGGTTAGACCTGCCATGTACCTGCTCCT-CATCGAAATG
*
23809188 GAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCT
128 GAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
* *
23809236 GAAAGTCAGATCTGCTATGTCTTCAATTTGCT
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCT
23809268 TAGAGAAGCC
Statistics
Matches: 184, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
175 46 0.25
176 135 0.73
177 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTACTTCAGTAAAATCACCTGAAGGTTAGACCTGCCATGTACCTGCTCCTCATCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
Found at i:23821389 original size:18 final size:18
Alignment explanation
Indices: 23821363--23821469 Score: 89
Period size: 18 Copynumber: 5.9 Consensus size: 18
23821353 ATATTTAAAT
*
23821363 ATAAAAATAATAATATAA
1 ATAATAATAATAATATAA
*
23821381 ATAACAAT-AT-ATATAA
1 ATAATAATAATAATATAA
*
23821397 A-AATAATACATAATAAATA
1 ATAATAATA-ATAATATA-A
*
23821416 ATATGTAATAATAATATAA
1 ATA-ATAATAATAATATAA
*
23821435 ATATATAAT-AGAATATAAA
1 ATA-ATAATAATAATAT-AA
23821454 ATAAT-ATAATAATATA
1 ATAATAATAATAATATA
23821470 GTAAAAAACA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
15 5 0.07
16 7 0.10
17 7 0.10
18 25 0.34
19 16 0.22
20 8 0.11
21 5 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAATATAA
Found at i:23821411 original size:7 final size:7
Alignment explanation
Indices: 23821368--23821444 Score: 56
Period size: 7 Copynumber: 11.6 Consensus size: 7
23821358 TAAATATAAA
23821368 AATA-AT
1 AATATAT
23821374 AATATA-
1 AATATAT
*
23821380 AATA-AC
1 AATATAT
23821386 AATATAT
1 AATATAT
* *
23821393 ATAAAAAT
1 A-ATATAT
*
23821401 AATACAT
1 AATATAT
*
23821408 AATAAAT
1 AATATAT
*
23821415 AATATGT
1 AATATAT
23821422 AATA-AT
1 AATATAT
23821428 AATATA-
1 AATATAT
23821434 AATATAT
1 AATATAT
23821441 AATA
1 AATA
23821445 GAATATAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
5 1 0.02
6 23 0.41
7 27 0.48
8 5 0.09
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (7 bp):
AATATAT
Found at i:23821477 original size:23 final size:23
Alignment explanation
Indices: 23821406--23821477 Score: 60
Period size: 28 Copynumber: 3.0 Consensus size: 23
23821396 AAAATAATAC
*
23821406 ATAATA-AATAATAT-GT-AATA
1 ATAATATAATAATATAGTAAAAA
*
23821426 ATAATATAAATATATAATAGAATATAAA
1 ATAATAT-AATA-AT-ATAG--TAAAAA
23821454 ATAATATAATAATATAGTAAAAA
1 ATAATATAATAATATAGTAAAAA
23821477 A
1 A
23821478 CATGAATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
20 6 0.15
22 4 0.10
23 8 0.20
24 2 0.05
25 5 0.12
26 2 0.05
27 5 0.12
28 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAATATAATAATATAGTAAAAA
Found at i:23824083 original size:27 final size:27
Alignment explanation
Indices: 23824027--23824084 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23824017 TATATATTAT
* * *
23824027 AAAAATAATAATATACTTTTTTTGACA
1 AAAAATAATAATATAATTTTTATGAAA
23824054 AAAAATAATAATATAATTATTTAT-AAA
1 AAAAATAATAATATAATT-TTTATGAAA
23824081 AAAA
1 AAAA
23824085 GTTATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAATAATAATATAATTTTTATGAAA
Found at i:23825076 original size:38 final size:38
Alignment explanation
Indices: 23825030--23825105 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23825020 ACTACCAAAC
23825030 ATGACATGAGAAATTAAGATGTAATTACACTCTATCAG
1 ATGACATGAGAAATTAAGATGTAATTACACTCTATCAG
23825068 ATGACATGAGAAATTAAGATGTAATTACACTCTATCAG
1 ATGACATGAGAAATTAAGATGTAATTACACTCTATCAG
23825106 TCAAACACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (38 bp):
ATGACATGAGAAATTAAGATGTAATTACACTCTATCAG
Found at i:23828955 original size:24 final size:24
Alignment explanation
Indices: 23828928--23828976 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23828918 AAATAAGATA
*
23828928 AGTAATTAATT-AGGTAATAATAAT
1 AGTAA-TAATTGAGGTAATAAAAAT
*
23828952 AGTAATAATTGAGTTAATAAAAAT
1 AGTAATAATTGAGGTAATAAAAAT
23828976 A
1 A
23828977 TATTAGTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (24 bp):
AGTAATAATTGAGGTAATAAAAAT
Found at i:23836832 original size:28 final size:28
Alignment explanation
Indices: 23836786--23836854 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
23836776 TTTAAAACCC
*
23836786 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23836813 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23836841 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
23836855 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:23837520 original size:27 final size:27
Alignment explanation
Indices: 23837490--23837649 Score: 187
Period size: 27 Copynumber: 5.9 Consensus size: 27
23837480 TCTACCCTAC
*
23837490 AAGGGTATTTCGGTAATTTTATAAACA
1 AAGGGTATTTTGGTAATTTTATAAACA
* * *
23837517 AAGGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACA
* *
23837544 AGGGGTATTTTGGTAATTTTGTAAA-A
1 AAGGGTATTTTGGTAATTTTATAAACA
* * *
23837570 TAAGGGTATTTTAGTAATTTTACAAACT
1 -AAGGGTATTTTGGTAATTTTATAAACA
* * *
23837598 AGGGGTATTTTGGTGATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTATAAACA
*
23837625 AAGGGTATTTTGGTAATTCTATAAA
1 AAGGGTATTTTGGTAATTTTATAAA
23837650 TTGAAGGTAA
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACA
Found at i:23837559 original size:54 final size:54
Alignment explanation
Indices: 23837492--23837642 Score: 232
Period size: 54 Copynumber: 2.8 Consensus size: 54
23837482 TACCCTACAA
*
23837492 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* *
23837546 GGGTATTTTGGTAATTTTGTAAA-ATAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACA-AAGGGTATTTTAGTAATTTTACAAACCAG
* * *
23837600 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATT
23837643 CTATAAATTG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.01
54 87 0.99
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:23837587 original size:81 final size:81
Alignment explanation
Indices: 23837490--23837642 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
23837480 TCTACCCTAC
* * *
23837490 AAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
23837555 GGTAATTTTGTAAAAT
66 GGTAATTTTGTAAAAT
* * * * * *
23837571 AAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
23837636 GGTAATT
66 GGTAATT
23837643 CTATAAATTG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GGTAATTTTGTAAAAT
Found at i:23837666 original size:27 final size:27
Alignment explanation
Indices: 23837635--23837885 Score: 331
Period size: 27 Copynumber: 9.3 Consensus size: 27
23837625 AAGGGTATTT
* *
23837635 TGGTAATTCTATAAATTGAAGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
23837662 CGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* * *
23837689 CGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
23837716 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
23837743 TGGTAATTCTGTAAATCGAGGATAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
23837770 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
23837797 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
** *
23837824 CAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
*
23837851 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
23837878 TGGTAATT
1 TGGTAATT
23837886 TTACAAGTCG
Statistics
Matches: 193, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAATTGAGGGTAAAA
Found at i:23837668 original size:81 final size:81
Alignment explanation
Indices: 23837500--23837669 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
23837490 AAGGGTATTT
* * * *
23837500 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
***
23837565 TAAAATAAGGGTATTT
66 TAAAATAAGGGTAAAA
** * * * * *
23837581 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTA
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
*
23837646 TAAATTGAA-GGTAAAA
66 TAAAAT-AAGGGTAAAA
23837662 CGGTAATT
1 CGGTAATT
23837670 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
TAAAATAAGGGTAAAA
Found at i:23837899 original size:54 final size:54
Alignment explanation
Indices: 23837635--23837885 Score: 403
Period size: 54 Copynumber: 4.6 Consensus size: 54
23837625 AAGGGTATTT
* * * **
23837635 TGGTAATTCTATAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
23837689 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
23837743 TGGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
23837797 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
23837851 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
23837886 TTACAAGTCG
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 183 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:23842849 original size:12 final size:12
Alignment explanation
Indices: 23842834--23842869 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
23842824 TTAGAAAACT
23842834 AATAAGAAGATA
1 AATAAGAAGATA
23842846 AATAA-AA-ATA
1 AATAAGAAGATA
23842856 AATAAGAAGATA
1 AATAAGAAGATA
23842868 AA
1 AA
23842870 GTGATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.36
11 4 0.18
12 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (12 bp):
AATAAGAAGATA
Found at i:23844629 original size:30 final size:30
Alignment explanation
Indices: 23844573--23844631 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
23844563 AATCGAAAAC
* * *
23844573 AAATAAAATAAATAAGAGTAATAAATAAAT
1 AAATAAAATAAATAAAAATAAGAAATAAAT
23844603 AAATAAAAT-AATAAAAAATAAGAAATAAA
1 AAATAAAATAAAT-AAAAATAAGAAATAAA
23844632 CCAAACAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (30 bp):
AAATAAAATAAATAAAAATAAGAAATAAAT
Found at i:23850780 original size:22 final size:23
Alignment explanation
Indices: 23850754--23850809 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 23
23850744 TATATTTAAG
*
23850754 GAGAAAATACAATGGTTAA-GAA
1 GAGAAAATACAATAGTTAAGGAA
23850776 GAGAAAATACAATAGTTAAGGAA
1 GAGAAAATACAATAGTTAAGGAA
23850799 -AGAAAATACAA
1 GAGAAAATACAA
23850810 GACTATAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.59, C:0.05, G:0.20, T:0.16
Consensus pattern (23 bp):
GAGAAAATACAATAGTTAAGGAA
Found at i:23850821 original size:22 final size:21
Alignment explanation
Indices: 23850755--23850821 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
23850745 ATATTTAAGG
*
23850755 AGAAAATACAATG-GTTAAGAA
1 AGAAAATACAA-GACTTAAGAA
* *
23850776 GAGAAAATACAATAGTTAAGGAA
1 -AGAAAATACAAGACTTAA-GAA
23850799 AGAAAATACAAGACTATAAGAA
1 AGAAAATACAAGACT-TAAGAA
23850821 A
1 A
23850822 TCTAAATCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 33 0.85
23 6 0.15
ACGTcount: A:0.60, C:0.06, G:0.18, T:0.16
Consensus pattern (21 bp):
AGAAAATACAAGACTTAAGAA
Found at i:23853490 original size:12 final size:12
Alignment explanation
Indices: 23853473--23853519 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
23853463 TGAAGGCATC
23853473 AGAACTCCATAT
1 AGAACTCCATAT
*
23853485 AGAACT-CA-AA
1 AGAACTCCATAT
*
23853495 AGGAACTCCAAAT
1 A-GAACTCCATAT
23853508 AGAACTCCATAT
1 AGAACTCCATAT
23853520 TTAATCCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
10 2 0.07
11 7 0.24
12 18 0.62
13 2 0.07
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (12 bp):
AGAACTCCATAT
Found at i:23854951 original size:43 final size:43
Alignment explanation
Indices: 23854759--23854941 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
23854749 TTATATGGAA
* * * *
23854759 AAACACCGTTATAGAACATGACCATTAGTAGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTTCCCAC
* * *
23854802 AAACGCCGATATAGAACATGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTTCCCAC
* *
23854845 AAACGCCGCTATAGAGCATAACCTTTAGCAGCGC-TTTCCCTAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTTCCC-AC
* * *
23854888 AAATGCCACTATAGAACATGACCTTTAGCGGCG-TTTTCCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTT-CCCAC
23854931 AAACGCCGCTA
1 AAACGCCGCTA
23854942 AAGGTCATGA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 6 0.05
43 110 0.92
44 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTTCCCAC
Found at i:23856401 original size:33 final size:33
Alignment explanation
Indices: 23856345--23856419 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
23856335 CAAGTTGTCG
*
23856345 AATAAGACCATAGCCGGGCTATGGCA-ATCGAAT
1 AATAAGACCATAACCGGGCTATGGCATAT-GAAT
** *
23856378 AATAAGACCATAATTGGGTTATGGCATATGAAT
1 AATAAGACCATAACCGGGCTATGGCATATGAAT
*
23856411 GA-AAGACCA
1 AATAAGACCA
23856420 CGACAGGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 7 0.19
33 27 0.75
34 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (33 bp):
AATAAGACCATAACCGGGCTATGGCATATGAAT
Found at i:23860410 original size:35 final size:35
Alignment explanation
Indices: 23860364--23860436 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
23860354 ATAAAATAAA
23860364 GATGATATCATCCTATTTCCCATTTCTTCTTTATT
1 GATGATATCATCCTATTTCCCATTTCTTCTTTATT
23860399 GATGATATCATCCTATTTCCCATTTCTTCTTTATT
1 GATGATATCATCCTATTTCCCATTTCTTCTTTATT
23860434 GAT
1 GAT
23860437 TTTTTAGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.21, C:0.22, G:0.07, T:0.51
Consensus pattern (35 bp):
GATGATATCATCCTATTTCCCATTTCTTCTTTATT
Found at i:23861394 original size:46 final size:45
Alignment explanation
Indices: 23861239--23861407 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
23861229 TATTGTGAGC
* * *
23861239 TAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATTATGAGAGC
1 TAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGA-TACGA-AGT
* * * *
23861285 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATACG-AGT
1 TAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCGATACGAAGT
* * * *
23861331 GCTAGAGTAAGATATGTCTGGGACATGCATCAGCCTCGAGACGTAAGT
1 --TAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGATACG-AAGT
*
23861379 TAGTGTAAGACATGTCTGGGACATGCATC
1 TAGTGTAAGACATGTCTAGGACATGCATC
23861408 GGCTACGAGA
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
46 51 0.52
47 26 0.26
48 21 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
TAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGATACGAAGT
Found at i:23861417 original size:46 final size:45
Alignment explanation
Indices: 23861238--23861453 Score: 138
Period size: 46 Copynumber: 4.7 Consensus size: 45
23861228 CTATTGTGAG
* * * *
23861238 CTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGA-GAG-
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC--GA-GACGAGT
* * * *
23861284 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGATACGAGT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGACGAGT
* * *
23861331 GCTAGAGTAAGATATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGT
1 -CTAGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGACG--AGT
* *
23861379 -TAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGAGT
* * *
23861423 C-CGTGTAAGACCATTTTTGGGACATGGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC
23861454 AAGACAGATA
Statistics
Matches: 136, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 62 0.46
47 29 0.21
48 19 0.14
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGAGT
Found at i:23868033 original size:21 final size:21
Alignment explanation
Indices: 23868008--23868053 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23867998 GTGTGACCTC
23868008 TGTTTATAAGAAATTTTTC-TA
1 TGTTT-TAAGAAATTTTTCGTA
**
23868029 TGTTTTCTGAAATTTTTCGTA
1 TGTTTTAAGAAATTTTTCGTA
23868050 TGTT
1 TGTT
23868054 ATCGGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.57
Consensus pattern (21 bp):
TGTTTTAAGAAATTTTTCGTA
Found at i:23875917 original size:23 final size:23
Alignment explanation
Indices: 23875854--23875931 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
23875844 GGACTCACAG
23875854 CAGCTCG-AATGAGCTTACCGATATAT
1 CAGCTCGTAA-GAGCTTACCG-T-T-T
* *
23875880 TAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTAAGAGCTTACCGTTT
23875903 CAGCTCGTCAA-AGCTTACCGTTT
1 CAGCTCGT-AAGAGCTTACCGTTT
23875926 CAGCTC
1 CAGCTC
23875932 AATAGAGCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 25 0.54
24 3 0.07
25 1 0.02
26 15 0.33
27 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (23 bp):
CAGCTCGTAAGAGCTTACCGTTT
Found at i:23875940 original size:23 final size:23
Alignment explanation
Indices: 23875889--23875942 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
23875879 TTAGCTCGTA
* *
23875889 AGAGCTTACTGTTTCAGCTCGTC
1 AGAGCTTACCGTTTCAGCTCATC
*
23875912 AAAGCTTACCGTTTCAGCTCAAT-
1 AGAGCTTACCGTTTCAGCTC-ATC
23875935 AGAGCTTA
1 AGAGCTTA
23875943 GTGTCCATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCATC
Found at i:23876105 original size:20 final size:20
Alignment explanation
Indices: 23876082--23876122 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
23876072 TAATGAGCAT
23876082 AAATATTGTTTATATAGATG
1 AAATATTGTTTATATAGATG
*
23876102 AAATATTGTTTATATGGATG
1 AAATATTGTTTATATAGATG
23876122 A
1 A
23876123 GCCATTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (20 bp):
AAATATTGTTTATATAGATG
Found at i:23876129 original size:20 final size:20
Alignment explanation
Indices: 23876086--23876132 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
23876076 GAGCATAAAT
*
23876086 ATTGTTTATATAGATGAAAT
1 ATTGTTTATATAGATGAAAC
* **
23876106 ATTGTTTATATGGATGAGCC
1 ATTGTTTATATAGATGAAAC
23876126 ATTGTTT
1 ATTGTTT
23876133 GCAAATGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (20 bp):
ATTGTTTATATAGATGAAAC
Found at i:23879587 original size:21 final size:21
Alignment explanation
Indices: 23879550--23879589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23879540 ATTTCAGCAT
*
23879550 TTGAACATCATCTATTTACCA
1 TTGAACATCATCAATTTACCA
23879571 TTGAGACATCAT-AATTTAC
1 TTGA-ACATCATCAATTTAC
23879590 AATATGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (21 bp):
TTGAACATCATCAATTTACCA
Found at i:23881646 original size:22 final size:23
Alignment explanation
Indices: 23881620--23881670 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
23881610 CTCTCCTATT
*
23881620 AATATAAATA-ATATATTAGATG
1 AATATAAATAGATATATCAGATG
23881642 AATAT-AATAGATATATCAGATG
1 AATATAAATAGATATATCAGATG
23881664 AAT-TAAA
1 AATATAAA
23881671 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (23 bp):
AATATAAATAGATATATCAGATG
Found at i:23882919 original size:26 final size:26
Alignment explanation
Indices: 23882838--23882921 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
23882828 TGATACAAAT
23882838 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
23882864 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23882890 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23882916 TGATAA
1 TGATAA
23882922 GAATTACATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23888817 original size:20 final size:20
Alignment explanation
Indices: 23888794--23888874 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 20
23888784 GAATCAAGTT
23888794 AAACAATAAAGAATCGATTC
1 AAACAATAAAGAATCGATTC
* * *
23888814 AAACAATAATGAATCAAGTTT
1 AAACAATAAAGAATCGA-TTC
* * *
23888835 AAACAATGAACAATTGATTC
1 AAACAATAAAGAATCGATTC
* *
23888855 AAAGAAGCAAAGAATCGATT
1 AAACAA-TAAAGAATCGATT
23888875 TAAAACAACA
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
20 22 0.49
21 23 0.51
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (20 bp):
AAACAATAAAGAATCGATTC
Found at i:23888877 original size:41 final size:41
Alignment explanation
Indices: 23888792--23888923 Score: 122
Period size: 45 Copynumber: 3.1 Consensus size: 41
23888782 TTGAATCAAG
* * * * * *
23888792 TTAAACAATAAAGAATCGATTCAAACAA-TAATGAATCAAGT
1 TTAAACAATAAACAATTGATTCAAAGAAGCAAAGAATCGA-T
*
23888833 TTAAACAATGAACAATTGATTCAAAGAAGCAAAGAATCGAT
1 TTAAACAATAAACAATTGATTCAAAGAAGCAAAGAATCGAT
* * *
23888874 TTAAAACAACAATCATGAATTGATTCAAAGAAGCAAATAATCGAT
1 TT-AAACAATAA--A-CAATTGATTCAAAGAAGCAAAGAATCGAT
23888919 TTAAA
1 TTAAA
23888924 ACAACAATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
41 27 0.36
42 15 0.20
44 4 0.05
45 29 0.39
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.24
Consensus pattern (41 bp):
TTAAACAATAAACAATTGATTCAAAGAAGCAAAGAATCGAT
Found at i:23888898 original size:45 final size:45
Alignment explanation
Indices: 23888846--23889014 Score: 202
Period size: 45 Copynumber: 3.8 Consensus size: 45
23888836 AACAATGAAC
* *
23888846 AATTGATTCAAAGAAGCAAAGAATCGATTTAAAACAACAATCATG
1 AATTGATTCAAAGAAGCAAATAATCGATTTAAAACAACAATAATG
23888891 AATTGATTCAAAGAAGCAAATAATCGATTTAAAACAACAATAATG
1 AATTGATTCAAAGAAGCAAATAATCGATTTAAAACAACAATAATG
** * * *
23888936 AATCAATTCAAAAAAGAAAATAATCAATTTAAAACAACAA-AA--
1 AATTGATTCAAAGAAGCAAATAATCGATTTAAAACAACAATAATG
* * **
23888978 AATCT-ATTCAAAGAAGAAAAAAATTAATTTAAAACAA
1 AAT-TGATTCAAAGAAGCAAATAATCGATTTAAAACAA
23889015 GAAATTTAGT
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
42 32 0.29
44 2 0.02
45 78 0.70
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.22
Consensus pattern (45 bp):
AATTGATTCAAAGAAGCAAATAATCGATTTAAAACAACAATAATG
Found at i:23888919 original size:21 final size:21
Alignment explanation
Indices: 23888850--23888919 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
23888840 ATGAACAATT
*
23888850 GATTCAAAGAAGCAAAGAATC
1 GATTCAAAGAAGCAAATAATC
* * *
23888871 GATTTAAA-ACAACAATCATGAATT
1 GATTCAAAGA-AGCAA--AT-AATC
23888895 GATTCAAAGAAGCAAATAATC
1 GATTCAAAGAAGCAAATAATC
23888916 GATT
1 GATT
23888920 TAAAACAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 1 0.03
21 18 0.49
22 2 0.05
23 1 0.03
24 14 0.38
25 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (21 bp):
GATTCAAAGAAGCAAATAATC
Found at i:23888962 original size:21 final size:22
Alignment explanation
Indices: 23888908--23889018 Score: 93
Period size: 21 Copynumber: 5.1 Consensus size: 22
23888898 TCAAAGAAGC
* * *
23888908 AAATAATCGATTTAAAACAACA
1 AAATAATCAATTCAAAACAAGA
23888930 ATAATGAATCAATTCAAAA-AAGA
1 A-AAT-AATCAATTCAAAACAAGA
* *
23888953 AAATAATCAATTTAAAACAACA
1 AAATAATCAATTCAAAACAAGA
* *
23888975 AAA-AATCTATTC-AAAGAAGA
1 AAATAATCAATTCAAAACAAGA
* * *
23888995 AAAAAATTAATTTAAAACAAGA
1 AAATAATCAATTCAAAACAAGA
23889017 AA
1 AA
23889019 TTTAGTAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
20 9 0.13
21 25 0.35
22 19 0.27
23 7 0.10
24 11 0.15
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22
Consensus pattern (22 bp):
AAATAATCAATTCAAAACAAGA
Found at i:23891692 original size:24 final size:27
Alignment explanation
Indices: 23891645--23891696 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
23891635 AACCGAGGTA
23891645 AGTTCGTATGTTAAATAAGCTTTAATAT
1 AGTTCGTATGTTAAAT-AGCTTTAATAT
23891673 AGTT-GTAT-TTAAAT-GCTTTAATAT
1 AGTTCGTATGTTAAATAGCTTTAATAT
23891697 TGCATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (27 bp):
AGTTCGTATGTTAAATAGCTTTAATAT
Found at i:23895683 original size:15 final size:14
Alignment explanation
Indices: 23895644--23895691 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
23895634 GATATATATA
* *
23895644 TTTTTGTTTTTGTC
1 TTTTTCTTTTTTTC
*
23895658 TTCTTCTTTTTTTC
1 TTTTTCTTTTTTTC
23895672 TTTTTCTATTTTTTC
1 TTTTTCT-TTTTTTC
23895687 TTTTT
1 TTTTT
23895692 TCCTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:23895786 original size:4 final size:4
Alignment explanation
Indices: 23895779--23895805 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23895769 TTCTCTCTCT
23895779 CTCC CTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTC
23895806 TCATGCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:23910429 original size:20 final size:21
Alignment explanation
Indices: 23910397--23910435 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
23910387 ACTAGACTAA
23910397 AATTCAAATAAAA-TATAATT
1 AATTCAAATAAAACTATAATT
23910417 AATTCGAAA-AAAACTATAA
1 AATTC-AAATAAAACTATAA
23910436 AATGTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (21 bp):
AATTCAAATAAAACTATAATT
Found at i:23917672 original size:112 final size:112
Alignment explanation
Indices: 23917459--23917675 Score: 400
Period size: 112 Copynumber: 1.9 Consensus size: 112
23917449 CGTAAATTTC
*
23917459 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGGGAAACTAGTTGA
1 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
* *
23917524 TAATGTGTCACTATGATTGCATATTTCAAGTTAAAAAAAAAACCCGA
66 TAATGTGTCACAATGACTGCATATTTCAAGTTAAAAAAAAAACCCGA
23917571 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
1 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
23917636 TAATGTGTC-CAATGACTGCATATTTCAAGTTAAAAAAAAA
66 TAATGTGTCACAATGACTGCATATTTCAAGTTAAAAAAAAA
23917676 CCCCAGAAAC
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
111 29 0.28
112 73 0.72
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (112 bp):
TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
TAATGTGTCACAATGACTGCATATTTCAAGTTAAAAAAAAAACCCGA
Found at i:23918479 original size:81 final size:81
Alignment explanation
Indices: 23918344--23918499 Score: 294
Period size: 81 Copynumber: 1.9 Consensus size: 81
23918334 TGACAGGGTC
*
23918344 GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAGTTTTA
1 GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAATTTTA
*
23918409 TTCATTTCAGCATGTT
66 TCCATTTCAGCATGTT
23918425 GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAATTTTA
1 GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAATTTTA
23918490 TCCATTTCAG
66 TCCATTTCAG
23918500 TATGCTATTG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (81 bp):
GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAATTTTA
TCCATTTCAGCATGTT
Found at i:23920949 original size:49 final size:49
Alignment explanation
Indices: 23920893--23921001 Score: 209
Period size: 49 Copynumber: 2.2 Consensus size: 49
23920883 TCTGAATAAG
23920893 AAAAGGCAAAATTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTT
1 AAAAGGCAAAATTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTT
23920942 AAAAGGCAAAATTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTT
1 AAAAGGCAAAATTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTT
*
23920991 AAAAGTCAAAA
1 AAAAGGCAAAA
23921002 CTATTAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (49 bp):
AAAAGGCAAAATTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTT
Found at i:23924905 original size:2 final size:2
Alignment explanation
Indices: 23924898--23924960 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
23924888 CACCCTTATT
* * * *
23924898 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
23924940 TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
23924961 GGTATGTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:23925788 original size:26 final size:26
Alignment explanation
Indices: 23925730--23925782 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23925720 GGGCTTGGCT
23925730 CTAACATCACTCATAAGAAGAAGTTA
1 CTAACATCACTCATAAGAAGAAGTTA
*
23925756 CTAACATCACTCATGAGAAGAAGTTA
1 CTAACATCACTCATAAGAAGAAGTTA
23925782 C
1 C
23925783 AGACATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (26 bp):
CTAACATCACTCATAAGAAGAAGTTA
Found at i:23930107 original size:34 final size:34
Alignment explanation
Indices: 23930061--23930126 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
23930051 TTTCGCATAC
23930061 TTAGTGCCATCTCAAATAACCGAGCCTAAGTCAG
1 TTAGTGCCATCTCAAATAACCGAGCCTAAGTCAG
*
23930095 TTAGTGCTATCTCAAATAACCGAGCCTAAGTC
1 TTAGTGCCATCTCAAATAACCGAGCCTAAGTC
23930127 GGTATCGCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
TTAGTGCCATCTCAAATAACCGAGCCTAAGTCAG
Found at i:23930200 original size:30 final size:29
Alignment explanation
Indices: 23930161--23930218 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
23930151 ATAGCCGAAG
*
23930161 CTAGTTAAATCGCACACTTAGTGCCAAAT
1 CTAGTTAAATCACACACTTAGTGCCAAAT
23930190 CTAGTTTAAATCACACACTTAGTGCCAAA
1 CTAG-TTAAATCACACACTTAGTGCCAAA
23930219 ACTTCCGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (29 bp):
CTAGTTAAATCACACACTTAGTGCCAAAT
Found at i:23937992 original size:40 final size:40
Alignment explanation
Indices: 23937884--23938093 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
23937874 CGGGATTTAA
* * * * *
23937884 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
23937924 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23937964 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23938004 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23938044 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23938084 CCGGATATAT
1 CCGGATATAT
23938094 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:23946127 original size:40 final size:40
Alignment explanation
Indices: 23946019--23946188 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
23946009 CGGGATTTAA
* * * * *
23946019 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
23946059 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23946099 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23946139 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23946179 CCGGATATAT
1 CCGGATATAT
23946189 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:23949749 original size:42 final size:43
Alignment explanation
Indices: 23949702--23949805 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 43
23949692 GCACACAAGC
*
23949702 AGAGACACAGGCGTGTGTCTCAGCCATGTGTGCTACACGG-GT
1 AGAGACACAGGCGTGTGTCTCAGCCATGTGTGCTACACGGCCT
* *
23949744 AGAGACATAGGCGTGTGTCTCAGCCGTGTGTGCTACACGGCCT
1 AGAGACACAGGCGTGTGTCTCAGCCATGTGTGCTACACGGCCT
*
23949787 AGA-ACACAGACGTGTGTCT
1 AGAGACACAGGCGTGTGTCT
23949806 TGGCCTTGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 52 0.93
43 4 0.07
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (43 bp):
AGAGACACAGGCGTGTGTCTCAGCCATGTGTGCTACACGGCCT
Found at i:23963399 original size:40 final size:40
Alignment explanation
Indices: 23963354--23963521 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
23963344 CGGAATATAA
23963354 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
23963394 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23963434 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23963474 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
23963514 CCGGATAT
1 CCGGATAT
23963522 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23963504 original size:80 final size:80
Alignment explanation
Indices: 23963370--23963519 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
23963360 ATAATCACGT
*
23963370 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
23963434 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
23963450 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
23963513 CCCGGAT
64 CCCGGAT
23963520 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:23971351 original size:40 final size:39
Alignment explanation
Indices: 23971306--23971434 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
23971296 CGGAATATAA
23971306 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
23971346 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23971384 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
23971424 CCGGATATAAT
1 CCGGATATAAT
23971435 TTCCAGCATA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
38 32 0.44
40 41 0.56
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:23971371 original size:38 final size:37
Alignment explanation
Indices: 23971322--23971430 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 37
23971312 ATAATCACGT
*
23971322 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AATCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGCAA-CTA
*
23971360 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGA--TAGCAACTA
*
23971400 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
23971431 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 30 0.48
39 2 0.03
40 30 0.48
41 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGCAACTA
Found at i:23971448 original size:40 final size:40
Alignment explanation
Indices: 23971306--23971471 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
23971296 CGGAATATAA
* ** *
23971306 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
*
23971346 CCGGATAGAATCT-C-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * * *
23971384 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
* * *
23971424 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGG-TCTTAGC
23971464 CCGGATAT
1 CCGGATAT
23971472 CATTCAATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
38 29 0.28
39 4 0.04
40 68 0.67
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:23979341 original size:40 final size:39
Alignment explanation
Indices: 23979296--23979460 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
23979286 CGGAATATAA
23979296 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
23979336 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23979374 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
23979414 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
23979453 CCGGATAT
1 CCGGATAT
23979461 CATTCAATTT
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
38 32 0.31
39 13 0.13
40 56 0.54
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:23987382 original size:40 final size:40
Alignment explanation
Indices: 23987274--23987483 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
23987264 CGGGATTTAA
* * * * *
23987274 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
23987314 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23987354 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23987394 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23987434 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
23987474 CCGGATATAT
1 CCGGATATAT
23987484 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:23994007 original size:30 final size:29
Alignment explanation
Indices: 23993973--23994029 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
23993963 GAATTAGATT
* *
23993973 AAATCAAAATTTCTTGTATAAAATTGCACA
1 AAATCAAAATTT-ATATATAAAATTGCACA
*
23994003 AAATCAAAGTTTATATATAAAATTGCA
1 AAATCAAAATTTATATATAAAATTGCA
23994030 TATTAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATCAAAATTTATATATAAAATTGCACA
Found at i:23994805 original size:27 final size:24
Alignment explanation
Indices: 23994749--23994806 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
23994739 AAAATATAAA
* *
23994749 AAAATATAATATATTTTTATAATT
1 AAAATTTAAAATATTTTTATAATT
23994773 ATAAATTTAAAATATGTTTTATACACTT
1 A-AAATTTAAAATAT-TTTTATA-A-TT
23994801 AAAATT
1 AAAATT
23994807 GAAAGTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 7 0.25
27 6 0.21
28 3 0.11
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATTTAAAATATTTTTATAATT
Done.