Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007888.1 Hibiscus syriacus cultivar Beakdansim tig00110270_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1558302
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:312376 original size:41 final size:40
Alignment explanation
Indices: 312308--312441 Score: 126
Period size: 41 Copynumber: 3.3 Consensus size: 40
312298 AGAATTAATT
* *
312308 TAGCGGGGTTTATCAACAAACGCCGCAATAGGTTTGTTTA
1 TAGCGGCGTTTGTCAACAAACGCCGCAATAGGTTTGTTTA
* * * **
312348 TAGCGGCGTTTGTGCAAAAAACACCGCAATAGATTAATAATT-
1 TAGCGGCGTTTGT-CAACAAACGCCGCAATAGGTT--TGTTTA
* * *
312390 TAGCGGCGTTTGTATAACAAACGCCGCCATATGTTTGTTTA
1 TAGCGGCGTTTGT-CAACAAACGCCGCAATAGGTTTGTTTA
*
312431 TAGTGGCGTTT
1 TAGCGGCGTTT
312442 TTAAAAAAAT
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
40 14 0.19
41 28 0.38
42 28 0.38
43 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (40 bp):
TAGCGGCGTTTGTCAACAAACGCCGCAATAGGTTTGTTTA
Found at i:312432 original size:83 final size:82
Alignment explanation
Indices: 312161--312441 Score: 270
Period size: 82 Copynumber: 3.4 Consensus size: 82
312151 TTTATAACTA
* * * * * *
312161 AAACGCCGTAAT-AGATTTGTTTACAGTGGTGTTTTTTCAATAAAA-G-CCGCAATAGAATAGTA
1 AAACGCCGCAATAAG-TTTGTTTATAGTGGCGTTTGTCCAA-AAAACGACCGCAATAG-ATAATA
312223 ATTTAGCGGTGTTTGTATAA-
63 ATTTAGCGG-GTTTGTATAAC
* * * * * * *
312243 AAATGCCGCAACAAGGTTGTTTATAGTGGCATTTGTCCAATAAACGA-CGCTATAGAGAATTAAT
1 AAACGCCGCAATAAGTTTGTTTATAGTGGCGTTTGTCCAAAAAACGACCGCAATAGATAA-TAAT
*
312307 TTAGCGGGGTT-TATCAAC
65 TTAGCGGGTTTGTAT-AAC
* * *
312325 AAACGCCGCAATAGGTTTGTTTATAGCGGCGTTTGTGCAAAAAAC-ACCGCAATAGATTAATAAT
1 AAACGCCGCAATAAGTTTGTTTATAGTGGCGTTTGTCCAAAAAACGACCGCAATAGA-TAATAAT
312389 TTAGCGGCGTTTGTATAAC
65 TTAGCGG-GTTTGTATAAC
* *
312408 AAACGCCGCCATATGTTTGTTTATAGTGGCGTTT
1 AAACGCCGCAATAAGTTTGTTTATAGTGGCGTTT
312442 TTAAAAAAAT
Statistics
Matches: 161, Mismatches: 28, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
80 3 0.02
81 11 0.07
82 103 0.64
83 41 0.25
84 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (82 bp):
AAACGCCGCAATAAGTTTGTTTATAGTGGCGTTTGTCCAAAAAACGACCGCAATAGATAATAATT
TAGCGGGTTTGTATAAC
Found at i:312889 original size:22 final size:22
Alignment explanation
Indices: 312859--312907 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
312849 TGTTTTTCTA
*
312859 CTTTCGAATACAAAAATAATAG
1 CTTTTGAATACAAAAATAATAG
** *
312881 CTTTTGAATATGATAATAATAG
1 CTTTTGAATACAAAAATAATAG
312903 CTTTT
1 CTTTT
312908 CAAAACTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (22 bp):
CTTTTGAATACAAAAATAATAG
Found at i:316474 original size:18 final size:18
Alignment explanation
Indices: 316438--316474 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
316428 AATATTTATT
*
316438 TGATTAATTTAGTATCGA
1 TGATTAATTTAGTAGCGA
*
316456 TGATTAATTTAGTCGCGA
1 TGATTAATTTAGTAGCGA
316474 T
1 T
316475 AATTCTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (18 bp):
TGATTAATTTAGTAGCGA
Found at i:317834 original size:13 final size:14
Alignment explanation
Indices: 317816--317846 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
317806 GTATCATATT
317816 TCACATA-TTCATA
1 TCACATAGTTCATA
317829 TCACATAGTTCATA
1 TCACATAGTTCATA
317843 TCAC
1 TCAC
317847 TTGTATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (14 bp):
TCACATAGTTCATA
Found at i:322256 original size:13 final size:14
Alignment explanation
Indices: 322238--322268 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
322228 GTATCATATT
322238 TCACATA-TTCATA
1 TCACATAGTTCATA
322251 TCACATAGTTCATA
1 TCACATAGTTCATA
322265 TCAC
1 TCAC
322269 TTGCATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (14 bp):
TCACATAGTTCATA
Found at i:323765 original size:17 final size:18
Alignment explanation
Indices: 323726--323765 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
323716 TAGCAAATAA
*
323726 ATGTGAACTTAAATTATT
1 ATGTGAAATTAAATTATT
*
323744 ATGTGAAATTAATTTATT
1 ATGTGAAATTAAATTATT
323762 -TGTG
1 ATGTG
323766 CTTATGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (18 bp):
ATGTGAAATTAAATTATT
Found at i:329781 original size:44 final size:44
Alignment explanation
Indices: 329706--329975 Score: 409
Period size: 44 Copynumber: 6.2 Consensus size: 44
329696 TTTTAACAAT
* * *
329706 CGCCGCTATATATCA-ACCTTTAGCGGTGTTTGTATTCTAAAAA
1 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
329749 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
1 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
* * * * * *
329793 TGACGCTATATACCAGATCTTTAGCGGCATTGGTATTCTAAAAA
1 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
*
329837 CGCCGCTATATGCCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
1 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
329881 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
1 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
* * *
329925 CGCCGCTATATATCAGACCTTTAGCAGTGTTTGTAT-CTAAAAA
1 CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
329968 CGCCGCTA
1 CGCCGCTA
329976 AATCTCAAAA
Statistics
Matches: 206, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 29 0.14
44 177 0.86
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
CGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATCCTAAAAA
Found at i:332560 original size:26 final size:28
Alignment explanation
Indices: 332500--332561 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
332490 GAGTATTGCT
*
332500 GAGCTCGACTCGACTCGAAAACTCTGAAATT
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
332531 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
332557 GAGCT
1 GAGCT
332562 TAAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:333838 original size:31 final size:31
Alignment explanation
Indices: 333760--333839 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
333750 ACTGTTAAAA
* * * *
333760 GTTACAAAATGATTATCAAATTTATTGAACT
1 GTTAAAAAATGATCATTAAGTTTATTGAACT
* *
333791 GTTATAAAATGATCATTAAGTTTATTGAATT
1 GTTAAAAAATGATCATTAAGTTTATTGAACT
*
333822 GTTAAAAAATGGTCATTA
1 GTTAAAAAATGATCATTA
333840 CACTTATCGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.40
Consensus pattern (31 bp):
GTTAAAAAATGATCATTAAGTTTATTGAACT
Found at i:337257 original size:20 final size:20
Alignment explanation
Indices: 337232--337274 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
337222 TGACAATGAA
*
337232 CGGCTGAAAACCGATAGAAC
1 CGGCTGAAAACCGATAAAAC
*
337252 CGGCTGAAAACCGGTAAAAC
1 CGGCTGAAAACCGATAAAAC
337272 CGG
1 CGG
337275 GGTGAACCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.28, T:0.09
Consensus pattern (20 bp):
CGGCTGAAAACCGATAAAAC
Found at i:337265 original size:11 final size:11
Alignment explanation
Indices: 337232--337296 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
337222 TGACAATGAA
337232 CGGCTGAAAAC
1 CGGCTGAAAAC
* *
337243 C-GAT-AGAAC
1 CGGCTGAAAAC
337252 CGGCTGAAAAC
1 CGGCTGAAAAC
337263 CGG-T-AAAAC
1 CGGCTGAAAAC
*
337272 CGGGGTG--AAC
1 C-GGCTGAAAAC
337282 CGGCTGAAAAC
1 CGGCTGAAAAC
337293 CGGC
1 CGGC
337297 AAAATCGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
9 15 0.36
10 11 0.26
11 16 0.38
ACGTcount: A:0.34, C:0.26, G:0.31, T:0.09
Consensus pattern (11 bp):
CGGCTGAAAAC
Found at i:346718 original size:60 final size:60
Alignment explanation
Indices: 346607--346721 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
346597 CTTCTAAATG
* * * **
346607 TTTCAATTTCATTCCTAAACTATGACTATCATTCTAAATTAGTTCTTAAACTTTTGAGCA
1 TTTCAATTTCATCCCCAAACTATGACTATCATTCTAAATTAGTCCCCAAACTTTTGAGCA
346667 TTTCAATTTCATCCCCAAACTATGAC-ATTCATTCTAAATTAGTCCCCAAACTTTT
1 TTTCAATTTCATCCCCAAACTATGACTA-TCATTCTAAATTAGTCCCCAAACTTTT
346722 TGGACATTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (60 bp):
TTTCAATTTCATCCCCAAACTATGACTATCATTCTAAATTAGTCCCCAAACTTTTGAGCA
Found at i:346746 original size:60 final size:60
Alignment explanation
Indices: 346610--346749 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 60
346600 CTAAATGTTT
* * ** *
346610 CAATTTCATTCC-TAAACTATGACTATCATTCTAAATTAGTTCTTAAACTTTTGAGCATTT
1 CAATTTCA-TCCACAAACTATGACTATCATTCTAAATTAGTCCCCAAACTTTTGAGCATTC
*
346670 CAATTTCATCCCCAAACTATGAC-ATTCATTCTAAATTAGTCCCCAAACTTTTTG-GACATTC
1 CAATTTCATCCACAAACTATGACTA-TCATTCTAAATTAGTCCCCAAAC-TTTTGAG-CATTC
*
346731 CAATTTTAT-CACAAACTAT
1 CAATTTCATCCACAAACTAT
346750 ATGTATATAG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 4 0.06
60 48 0.70
61 17 0.25
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (60 bp):
CAATTTCATCCACAAACTATGACTATCATTCTAAATTAGTCCCCAAACTTTTGAGCATTC
Found at i:346980 original size:60 final size:60
Alignment explanation
Indices: 346879--347030 Score: 175
Period size: 60 Copynumber: 2.5 Consensus size: 60
346869 ATGAATTTGA
* * ** * *
346879 GGATGAAATTGAAAGACTCAAAAGTTTGGGGATCAGA-TTAGAAAGAGGA-ACATACTTTAG
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGAT-TGATTTAGAAAGA-GATACATAATTTAG
* *
346939 GGATGAAATT-AGAATATTCAAAAGTTTAAGGATTGATTTAGAATGAGATTCATAATTTAG
1 GGATGAAATTGA-AATATTCAAAAGTTTAAGGATTGATTTAGAAAGAGATACATAATTTAG
*
346999 GGATGAAATTGAAATATTTAAAAGTTTAAGGA
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGA
347031 CAATCTAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
59 5 0.06
60 73 0.92
61 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (60 bp):
GGATGAAATTGAAATATTCAAAAGTTTAAGGATTGATTTAGAAAGAGATACATAATTTAG
Found at i:347434 original size:31 final size:31
Alignment explanation
Indices: 347332--347436 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
347322 CGTGTCATAC
347332 GTTCAAAGTGATGACATGACACATGA-TACAT
1 GTTCAAAGTGATGACATGACACAT-ACTACAT
** * * *
347363 GTTCAAAGTGATGATGTGGCA-ATGCCACAT
1 GTTCAAAGTGATGACATGACACATACTACAT
* *
347393 GTACATAAGTGATGACATAACACATACTACAT
1 GTTCA-AAGTGATGACATGACACATACTACAT
*
347425 GTTTAAAGTGAT
1 GTTCAAAGTGAT
347437 TGTGTGGCAC
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
30 10 0.18
31 37 0.65
32 10 0.18
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (31 bp):
GTTCAAAGTGATGACATGACACATACTACAT
Found at i:348635 original size:60 final size:59
Alignment explanation
Indices: 348588--348706 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 59
348578 CTCGATGATG
* *
348588 GGGTGATGCTTTGTTGAATATCC-TGACTATTAAAAGTTACAAAATGGTTCCCCAACTATA
1 GGGTGATACTTTGTTGAAT-CCCTTGACTATTAAAAGTTACAAAATGG-TCCCCAACTATA
* * * *
348648 TGGTGTTACTTTGTTGAGTCCCTTGACTATTAAAAGTTACAAAATGGTCACCTAACTAT
1 GGGTGATACTTTGTTGAATCCCTTGACTATTAAAAGTTACAAAATGGTC-CCCAACTAT
348707 TCATGTGTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
59 4 0.08
60 47 0.92
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (59 bp):
GGGTGATACTTTGTTGAATCCCTTGACTATTAAAAGTTACAAAATGGTCCCCAACTATA
Found at i:349390 original size:22 final size:22
Alignment explanation
Indices: 349364--349425 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
349354 ACATGTCGAG
349364 TTTAATTTTTTATTTATTTTGA
1 TTTAATTTTTTATTTATTTTGA
* ** *
349386 TTTAACTTTAAATATATTTTGA
1 TTTAATTTTTTATTTATTTTGA
349408 TTATCAATTTATTTATTT
1 TT-T-AATTT-TTTATTT
349426 GTGTTTTATA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
22 20 0.69
23 1 0.03
24 4 0.14
25 4 0.14
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (22 bp):
TTTAATTTTTTATTTATTTTGA
Found at i:351109 original size:15 final size:15
Alignment explanation
Indices: 351089--351140 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
351079 AATTTGAATT
351089 TAAAATATTCAAACA
1 TAAAATATTCAAACA
** **
351104 TAAAATTATTTGAATT
1 TAAAA-TATTCAAACA
351120 TAAAATATTCAAACA
1 TAAAATATTCAAACA
351135 TAAAAT
1 TAAAAT
351141 TATTTGAATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (15 bp):
TAAAATATTCAAACA
Found at i:351116 original size:31 final size:31
Alignment explanation
Indices: 351074--351155 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
351064 TATGAAATTT
351074 AAATTAATTTGAATTTAAAATATTCAAACATA
1 AAATT-ATTTGAATTTAAAATATTCAAACATA
351106 AAATTATTTGAATTTAAAATATTCAAACATA
1 AAATTATTTGAATTTAAAATATTCAAACATA
351137 AAATTATTTGAATTTAAAA
1 AAATTATTTGAATTTAAAA
351156 AATATTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 45 0.90
32 5 0.10
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (31 bp):
AAATTATTTGAATTTAAAATATTCAAACATA
Found at i:351123 original size:16 final size:16
Alignment explanation
Indices: 351068--351173 Score: 83
Period size: 16 Copynumber: 6.7 Consensus size: 16
351058 GAAATTTATG
351068 AAATTT-AAATTAATTT
1 AAATTTAAAATT-ATTT
* *
351084 GAATTTAAAA-TATTC
1 AAATTTAAAATTATTT
**
351099 AAACATAAAATTATTT
1 AAATTTAAAATTATTT
* *
351115 GAATTTAAAA-TATTC
1 AAATTTAAAATTATTT
**
351130 AAACATAAAATTATTT
1 AAATTTAAAATTATTT
* *
351146 GAATTTAAAAAATATTT
1 AAATTT-AAAATTATTT
351163 AAATTTAAAAT
1 AAATTTAAAAT
351174 AACTCAATTA
Statistics
Matches: 66, Mismatches: 20, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
15 21 0.32
16 28 0.42
17 17 0.26
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATTATTT
Found at i:357537 original size:51 final size:50
Alignment explanation
Indices: 357462--357706 Score: 276
Period size: 51 Copynumber: 4.8 Consensus size: 50
357452 AGATGTACAT
* * *
357462 ACTTACATCGGTGTAAATATGTGTTAAGTGCTACAGTTTTTTATTTTATTT
1 ACTTACATC-GTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
357513 ACTTACATCGTTTTAAGTATGTGTTAAATGCTACACTTTTTTATTTTATTC
1 ACTTACATCG-TGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * * *
357564 AGTTGCACTGGTGT-AGTATGTGTTAAGTGCTACACTTTTTTGTTTTATTC
1 ACTTACA-TCGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * * *
357614 ACTTACACCAGTGTAAGTATGTGTTAAGTGTTATACTTGTTTATTTTATTC
1 ACTTACATC-GTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * * * *
357665 AGTTACACTAGTGTAGGTATGTGTTAAGTGCTATATTTTTTT
1 ACTTACA-TCGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
357707 GTAGTATAAA
Statistics
Matches: 163, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
50 44 0.27
51 117 0.72
52 2 0.01
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.49
Consensus pattern (50 bp):
ACTTACATCGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
Found at i:357657 original size:101 final size:102
Alignment explanation
Indices: 357479--357708 Score: 320
Period size: 101 Copynumber: 2.3 Consensus size: 102
357469 TCGGTGTAAA
* * * * *
357479 TATGTGTTAAGTGCTACAGTTTTTTATTTTATTTACTTACATCGTTTTAAGTATGTGTTAAATGC
1 TATGTGTTAAGTGCTACACTTTTTTGTTTTATTCACTTACACCGTTGTAAGTATGTGTTAAATGC
* * *
357544 TACACTTTTTTATTTTATTCAGTTGCACTGGTGTA-G
66 TACACTTGTTTATTTTATTCAGTTACACTAGTGTAGG
*
357580 TATGTGTTAAGTGCTACACTTTTTTGTTTTATTCACTTACACCAG-TGTAAGTATGTGTTAAGTG
1 TATGTGTTAAGTGCTACACTTTTTTGTTTTATTCACTTACACC-GTTGTAAGTATGTGTTAAATG
* *
357644 TTATACTTGTTTATTTTATTCAGTTACACTAGTGTAGG
65 CTACACTTGTTTATTTTATTCAGTTACACTAGTGTAGG
* *
357682 TATGTGTTAAGTGCTATATTTTTTTGT
1 TATGTGTTAAGTGCTACACTTTTTTGT
357709 AGTATAAATT
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 87 0.76
102 27 0.24
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (102 bp):
TATGTGTTAAGTGCTACACTTTTTTGTTTTATTCACTTACACCGTTGTAAGTATGTGTTAAATGC
TACACTTGTTTATTTTATTCAGTTACACTAGTGTAGG
Found at i:357793 original size:29 final size:29
Alignment explanation
Indices: 357751--357816 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
357741 ATTGTAATAG
357751 AATAACTGTTAACATGTAACCGAACCGTT
1 AATAACTGTTAACATGTAACCGAACCGTT
357780 AATAACTGTTAACATGTAACCGAACCGTT
1 AATAACTGTTAACATGTAACCGAACCGTT
357809 AATAACTG
1 AATAACTG
357817 AATCATTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (29 bp):
AATAACTGTTAACATGTAACCGAACCGTT
Found at i:358297 original size:15 final size:16
Alignment explanation
Indices: 358269--358299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
358259 TGACATATGA
358269 GTTAAATTATTTTTTT
1 GTTAAATTATTTTTTT
*
358285 GTTAATTTATTTTTT
1 GTTAAATTATTTTTT
358300 ATTTTTAGTA
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:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
GTTAAATTATTTTTTT
Found at i:360235 original size:5 final size:5
Alignment explanation
Indices: 360227--360259 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
360217 TTTTATTTGA
360227 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
360260 TACTATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:363972 original size:25 final size:25
Alignment explanation
Indices: 363944--363994 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
363934 ATATATATAT
363944 ATATATAT-ATATTATAATTTTGAAA
1 ATATATATGATA-TATAATTTTGAAA
* *
363969 ATATATATGATATATAGTTTTTAAA
1 ATATATATGATATATAATTTTGAAA
363994 A
1 A
363995 CATTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
ATATATATGATATATAATTTTGAAA
Found at i:363976 original size:2 final size:2
Alignment explanation
Indices: 363923--363959 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
363913 TTATTTTATT
363923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
363960 ATTTTGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:364000 original size:36 final size:36
Alignment explanation
Indices: 363960--364326 Score: 420
Period size: 36 Copynumber: 10.0 Consensus size: 36
363950 ATATATTATA
*
363960 ATTTTGAAAATATATATGATATATAGTTTTTAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
* *
363996 ATTTTTGAAAACATATATATTATATAGTTTTTAAAAC
1 A-TTTTGAAAATATATATAATATATAGTTTTTAAAAC
* *
364033 ATTTTGAAAATATGTATAATATATAATTTTTAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
*
364069 ATTTTAAAAATATATATAATATATAGTTTTTAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
364105 ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
364141 ATTTTGAAAATATATATATATATTATATAGTTTTTAAAAC
1 ATTTTG-AAA-ATATATATA-A-TATATAGTTTTTAAAAC
* ** * *
364181 ATTTTAAAAGCATATATATTTTTATATA-TTTTAAAAAG
1 ATTTTGAAA--ATATATA-TAATATATAGTTTTTAAAAC
*
364219 TTTTTGAAAAATATATATAATATATAAGTTTTTAAAAC
1 ATTTTG-AAAATATATATAATATAT-AGTTTTTAAAAC
* *
364257 AATTTTTGAAAATATATAT--TATATAGTTTTGAAAATT
1 -A-TTTTGAAAATATATATAATATATAGTTTTTAAAA-C
** * *
364294 ATTTTTTAAACATATAT--TATATAGTTTTAAAAA
1 ATTTTGAAAATATATATAATATATAGTTTTTAAAA
364327 TGTTTATTAT
Statistics
Matches: 288, Mismatches: 30, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
35 28 0.10
36 123 0.43
37 49 0.17
38 29 0.10
39 24 0.08
40 34 0.12
41 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (36 bp):
ATTTTGAAAATATATATAATATATAGTTTTTAAAAC
Found at i:364338 original size:3 final size:3
Alignment explanation
Indices: 364330--364355 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
364320 TTAAAAATGT
364330 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
364356 TTTACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:364369 original size:18 final size:18
Alignment explanation
Indices: 364329--364385 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
364319 TTTAAAAATG
364329 TTTATTA-TTATTA-TTAT
1 TTTATTATTTATTACTT-T
364346 TATTATTATTT-TTACCTTT
1 T-TTATTATTTATTA-CTTT
*
364365 TTTATTTTTTATTACTTT
1 TTTATTATTTATTACTTT
364383 TTT
1 TTT
364386 TTCTTTCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
17 1 0.03
18 24 0.71
19 7 0.21
20 2 0.06
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTATTTATTACTTT
Found at i:365462 original size:16 final size:15
Alignment explanation
Indices: 365441--365483 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
365431 ATTTAATTTT
365441 TTTATTTCATTTATTA
1 TTTATTT-ATTTATTA
365457 TTTATTTAATTTATTA
1 TTTATTT-ATTTATTA
365473 TTTATTTATTT
1 TTTATTTATTT
365484 TCGGTCTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:365463 original size:4 final size:4
Alignment explanation
Indices: 365431--365483 Score: 56
Period size: 4 Copynumber: 13.0 Consensus size: 4
365421 CACTAGTTTA
*
365431 ATTT AATTT TTTT ATTT CATTT A-TT ATTT ATTT AATTT A-TT ATTT ATTT
1 ATTT -ATTT ATTT ATTT -ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT
365480 ATTT
1 ATTT
365484 TCGGTCTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
3 6 0.14
4 24 0.57
5 12 0.29
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:365635 original size:22 final size:22
Alignment explanation
Indices: 365592--365635 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
365582 TAGAATTTAA
* *
365592 CCTTTTGATGTTACTTTTTTTT
1 CCTTTTCATGTTACTTTGTTTT
365614 CCTTTTCATGTTA-TTCTGTTTT
1 CCTTTTCATGTTACTT-TGTTTT
365636 TTCATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.09, C:0.16, G:0.09, T:0.66
Consensus pattern (22 bp):
CCTTTTCATGTTACTTTGTTTT
Found at i:365674 original size:22 final size:22
Alignment explanation
Indices: 365608--365674 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
365598 GATGTTACTT
* * *
365608 TTTTTTCCTTTTCATGTTATTCTG
1 TTTTTTCATTTT-AT-TTATTTTA
*
365632 TTTTTTCATTTTATTTTTTTTA
1 TTTTTTCATTTTATTTATTTTA
365654 TTTTTTCATTGTT-TTTATTTT
1 TTTTTTCATT-TTATTTATTTT
365675 TTCCTTTGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 22 0.59
23 4 0.11
24 11 0.30
ACGTcount: A:0.10, C:0.09, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTCATTTTATTTATTTTA
Found at i:366734 original size:38 final size:37
Alignment explanation
Indices: 366676--366748 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
366666 GTTTGAAGTT
366676 AGCATGTGGGATAGAGATCATGTCCGGGTAGGAATTAA
1 AGCATGTGGGATAGAGATCATGT-CGGGTAGGAATTAA
* * *
366714 AGCATGTGGGGTAGATATCATGTGGGGTAGGAATT
1 AGCATGTGGGATAGAGATCATGTCGGGTAGGAATT
366749 TTCCACTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.29, C:0.08, G:0.37, T:0.26
Consensus pattern (37 bp):
AGCATGTGGGATAGAGATCATGTCGGGTAGGAATTAA
Found at i:368659 original size:23 final size:22
Alignment explanation
Indices: 368613--368660 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
368603 TGTTAGAGAA
*
368613 AATAAATAAATAAATAAATGTT
1 AATAAATAAAAAAATAAATGTT
368635 AATATAATAAAAAAAGTAAAT-TT
1 AATA-AATAAAAAAA-TAAATGTT
368658 AAT
1 AAT
368661 GAAAAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 14 0.61
24 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AATAAATAAAAAAATAAATGTT
Found at i:368683 original size:18 final size:18
Alignment explanation
Indices: 368674--368732 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
368664 AAGATAAGGG
368674 AAAAATAAAAATAATGAA
1 AAAAATAAAAATAATGAA
*
368692 AAAAATAAAAATAA-AAA
1 AAAAATAAAAATAATGAA
*
368709 ATAAAATAAAATAAAATGAA
1 A-AAAATAAAA-ATAATGAA
368729 AAAA
1 AAAA
368733 CGGAATAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 3 0.09
18 23 0.66
19 6 0.17
20 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAATAATGAA
Found at i:368685 original size:6 final size:6
Alignment explanation
Indices: 368674--368724 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
368664 AAGATAAGGG
*
368674 AAAAAT AAAAAT AATGAA- AAAAAT AAAAAT AAAAA- ATAAAAT -AAAAT
1 AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT
368721 AAAA
1 AAAA
368725 TGAAAAAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 8 0.21
6 28 0.74
7 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:368763 original size:24 final size:23
Alignment explanation
Indices: 368713--368763 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
368703 TAAAAAATAA
* *
368713 AATAAAATAAAATGAAAAAACGG
1 AATAAAATAAAAGGAAAAAAAGG
* *
368736 AATAACATGAAAAGGAAAAAAAGT
1 AATAAAAT-AAAAGGAAAAAAAGG
368760 AATA
1 AATA
368764 TCAAAAGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.69, C:0.04, G:0.14, T:0.14
Consensus pattern (23 bp):
AATAAAATAAAAGGAAAAAAAGG
Found at i:370071 original size:2 final size:2
Alignment explanation
Indices: 370064--370097 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
370054 TGTTTTAAAA
*
370064 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
370098 GTTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:370103 original size:56 final size:55
Alignment explanation
Indices: 370028--370133 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
370018 TTTAAAAACT
370028 TATATATTATATATATTTTTTCAAAATGTTTTAAAAA-TATATATATATATATATG
1 TATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATA-ATATATATATATG
* *
370083 TATATATATATATATGTTTTTTTAAAATGTTTTAAAAACTATAATATATAT
1 TATATAT-TATATATATTTTTTCAAAATGTTTTAAAAACTATAATATATAT
370134 GTTTCAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
55 7 0.15
56 36 0.77
57 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (55 bp):
TATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATAATATATATATATG
Found at i:370164 original size:34 final size:34
Alignment explanation
Indices: 370085--370236 Score: 227
Period size: 34 Copynumber: 4.4 Consensus size: 34
370075 TATATATGTA
*
370085 TATATATATATATGTTTTTTTAAAATGTTTTAAAAAC
1 TATATATATATATG---TTTCAAAATGTTTTAAAAAC
370122 TATA-ATATATATGTTTCAAAATGTTTTAAAAAC
1 TATATATATATATGTTTCAAAATGTTTTAAAAAC
*
370155 TATATATATATATATTTCAAAATGTTTTAAAAAC
1 TATATATATATATGTTTCAAAATGTTTTAAAAAC
370189 TATATATTATATAT-TTTCAAAATGTTTTAAAAAC
1 TATATA-TATATATGTTTCAAAATGTTTTAAAAAC
370223 TATATAATATATAT
1 TATAT-ATATATAT
370237 AAAATATATA
Statistics
Matches: 110, Mismatches: 2, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
33 23 0.21
34 66 0.60
35 8 0.07
36 9 0.08
37 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.47
Consensus pattern (34 bp):
TATATATATATATGTTTCAAAATGTTTTAAAAAC
Found at i:370234 original size:2 final size:2
Alignment explanation
Indices: 370223--370283 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
370213 TTTTAAAAAC
*
370223 TA TA TA -A TA TA TA TA -A AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
370263 TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
370284 AATAAAATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
1 3 0.05
2 52 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:371518 original size:7 final size:7
Alignment explanation
Indices: 371508--371532 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
371498 AAAACAATGA
371508 AAAAAAT
1 AAAAAAT
371515 AAAAAAT
1 AAAAAAT
371522 AAAAAAT
1 AAAAAAT
371529 AAAA
1 AAAA
371533 TAAAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:371538 original size:10 final size:9
Alignment explanation
Indices: 371491--371537 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
371481 AAGACAAGGT
371491 AAAAATAAA
1 AAAAATAAA
* *
371500 AACAATGAA
1 AAAAATAAA
371509 AAAAATAAA
1 AAAAATAAA
371518 AAATAA-AAA
1 AAA-AATAAA
371527 ATAAAATAAA
1 A-AAAATAAA
371537 A
1 A
371538 TGAAATGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (9 bp):
AAAAATAAA
Found at i:371562 original size:28 final size:27
Alignment explanation
Indices: 371518--371570 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
371508 AAAAAATAAA
*
371518 AAATAAAAAATAAAATAAAATGAAATG
1 AAATAAAAAACAAAATAAAATGAAATG
* *
371545 AAATGAAAAAACAGAATAACATGAAA
1 AAAT-AAAAAACAAAATAAAATGAAA
371571 AGGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (27 bp):
AAATAAAAAACAAAATAAAATGAAATG
Found at i:372802 original size:20 final size:18
Alignment explanation
Indices: 372779--372823 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
372769 GAAAGAAAGA
372779 AAAAAAAGTATAAATAAAAT
1 AAAAAAAGTA-AAA-AAAAT
* *
372799 AAAAAAGGTAAAAATAAT
1 AAAAAAAGTAAAAAAAAT
372817 AAAAAAA
1 AAAAAAA
372824 CATTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
19 3 0.14
20 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAAAAGTAAAAAAAAT
Found at i:372894 original size:36 final size:35
Alignment explanation
Indices: 372827--373110 Score: 277
Period size: 39 Copynumber: 7.7 Consensus size: 35
372817 AAAAAAACAT
* * * ** *
372827 TTTTTAAAACTATATA-ATACATGTTTAAAAAATAA
1 TTTTAAAAACTATATATATATATATTTTCAAAAT-G
*
372862 TTTTCAAAACTATATA-ATATATATTTTCAAAAATTG
1 TTTTAAAAACTATATATATATATATTTTC-AAAA-TG
* *
372898 TTTTAAAAACTTATATATTATACATATTTTTCAAAAACG
1 TTTTAAAAAC-TATATA-TATATATA-TTTTC-AAAATG
* *
372937 TTTTAAAAATTATATAAAATATATATATGTTTTTAAAATG
1 TTTTAAAAACTATAT---ATATATATA--TTTTCAAAATG
372977 TTTTAAAAACTATATAATATATATATGTTTTTCAAAATG
1 TTTTAAAAACTATAT-ATATATATA---TTTTCAAAATG
373016 TTTTAAAAACTATATATTATATATATTTTCAAAATG
1 TTTTAAAAACTATATA-TATATATATTTTCAAAATG
* *
373052 TTTTAAAAACTATAT-TACACATATTTTCAAAATG
1 TTTTAAAAACTATATATATATATATTTTCAAAATG
373086 TTTTAAAAACTATATATATATATAT
1 TTTTAAAAACTATATATATATATAT
373111 ATATATATAT
Statistics
Matches: 214, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
34 32 0.15
35 30 0.14
36 39 0.18
37 7 0.03
38 16 0.07
39 49 0.23
40 36 0.17
41 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (35 bp):
TTTTAAAAACTATATATATATATATTTTCAAAATG
Found at i:372998 original size:115 final size:105
Alignment explanation
Indices: 372862--373110 Score: 293
Period size: 115 Copynumber: 2.2 Consensus size: 105
372852 TAAAAAATAA
*
372862 TTTTCAAAACTATATA-ATATATATTTTCAAAAATTGTTTTAAAAACTTATATATTATACATATT
1 TTTTAAAAACTATATATATATATATTTTC-AAAA-TGTTTTAAAAAC-TATATATTATACATA-T
* * * *
372926 TTTCAAAAACGTTTTAAAAATTATATAAAATATATATATGTTTTTAAAATG
62 TTTC-AAAACGTTTTAAAAACTATAT----TACACATA--TTTTCAAAATG
*
372977 TTTTAAAAACTATATAATATATATATGTTTTTCAAAATGTTTTAAAAACTATATATTATATATAT
1 TTTTAAAAACTATAT-ATATATATA---TTTTCAAAATGTTTTAAAAACTATATATTATACATAT
*
373042 TTTCAAAATGTTTTAAAAACTATATTACACATATTTTCAAAATG
62 TTTCAAAACGTTTTAAAAACTATATTACACATATTTTCAAAATG
373086 TTTTAAAAACTATATATATATATAT
1 TTTTAAAAACTATATATATATATAT
373111 ATATATATAT
Statistics
Matches: 122, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
105 1 0.01
108 9 0.07
109 25 0.20
111 6 0.05
115 33 0.27
116 6 0.05
117 21 0.17
118 12 0.10
119 4 0.03
120 5 0.04
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (105 bp):
TTTTAAAAACTATATATATATATATTTTCAAAATGTTTTAAAAACTATATATTATACATATTTTC
AAAACGTTTTAAAAACTATATTACACATATTTTCAAAATG
Found at i:373031 original size:34 final size:34
Alignment explanation
Indices: 372955--373106 Score: 182
Period size: 34 Copynumber: 4.3 Consensus size: 34
372945 ATTATATAAA
372955 ATATATATATGTTTTT-AAAATGTTTTAAAAACTATAT
1 ATATATATATGTTTTTCAAAATGTTTTAAAAAC----T
372992 AATATATATATGTTTTTCAAAATGTTTTAAAAACT
1 -ATATATATATGTTTTTCAAAATGTTTTAAAAACT
*
373027 ATATATTATATATATTTTCAAAATGTTTTAAAAACT
1 ATATA-TATATGT-TTTTCAAAATGTTTTAAAAACT
* * *
373063 ATATTACACAT-ATTTTCAAAATGTTTTAAAAACT
1 ATA-TATATATGTTTTTCAAAATGTTTTAAAAACT
373097 ATATATATAT
1 ATATATATAT
373107 ATATATATAT
Statistics
Matches: 104, Mismatches: 6, Indels: 13
0.85 0.05 0.11
Matches are distributed among these distances:
33 5 0.05
34 30 0.29
35 7 0.07
36 28 0.27
37 2 0.02
38 16 0.15
39 16 0.15
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (34 bp):
ATATATATATGTTTTTCAAAATGTTTTAAAAACT
Found at i:373103 original size:2 final size:2
Alignment explanation
Indices: 373096--373124 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
373086 TTTTAAAAAC
373096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
373125 TTTTCAAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:373151 original size:121 final size:116
Alignment explanation
Indices: 372838--373195 Score: 372
Period size: 121 Copynumber: 3.0 Consensus size: 116
372828 TTTTAAAACT
* * * *
372838 ATATAATACATGTTTAAAAAATAATTTTCAAAAC--TATATA-ATATATA-TTTTCAAAAATTGT
1 ATAT-ATAAATGTTTTAAAAAT-ATTATAAAAACTATATATATATATATATTTTTCAAAAA-TGT
* *
372899 TTTAAAAACTTATATATTATACATATTTTTCAAAAACGTTTTAAAAATTATA-TAAA
63 TTTAAAAAC-TATATATTATATATA-TTTTC-AAAATGTTTTAAAAATTATATTAAA
* * * * *
372955 ATATATATATGTTTTTAAAATGTTTTAAAAACTATATAATATATATATGTTTTTC-AAAATGTTT
1 ATATATAAATGTTTTAAAAATATTATAAAAACTATAT-ATATATATATATTTTTCAAAAATGTTT
* *
373019 TAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATTACAC
65 TAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAATTATATTA-AA
* * *
373072 ATATTTTCAAAATGTTTTAAAAACTATATATATATA-TATATATATATATATATTTTTCAAAAAT
1 ATA-TAT--AAATGTTTTAAAAA-TAT-TATAAAAACTATATATATATATATATTTTTCAAAAAT
* * *
373136 GTTTTAAAAACTATATATCATATATATTTTCAAAATGTTTTCAAAATTATA-TAAT
61 GTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAATTATATTAAA
373191 ATATA
1 ATATA
373196 CATATATATA
Statistics
Matches: 205, Mismatches: 23, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
115 27 0.13
116 21 0.10
117 25 0.12
118 18 0.09
119 14 0.07
120 35 0.17
121 60 0.29
122 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (116 bp):
ATATATAAATGTTTTAAAAATATTATAAAAACTATATATATATATATATTTTTCAAAAATGTTTT
AAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAATTATATTAAA
Found at i:373171 original size:36 final size:36
Alignment explanation
Indices: 373109--373195 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 36
373099 ATATATATAT
373109 ATATATATATATATATTTTTCAAAAATGTTTTAAAA
1 ATATATATATATATATTTTTCAAAAATGTTTTAAAA
*
373145 ACTATATATCATATATA-TTTTC-AAAATGTTTTCAAA
1 A-TATATAT-ATATATATTTTTCAAAAATGTTTTAAAA
373181 AT-TATATAATATATA
1 ATATATAT-ATATATA
373196 CATATATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
34 12 0.26
35 1 0.02
36 15 0.32
37 12 0.26
38 7 0.15
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (36 bp):
ATATATATATATATATTTTTCAAAAATGTTTTAAAA
Found at i:373220 original size:85 final size:85
Alignment explanation
Indices: 373046--373220 Score: 239
Period size: 85 Copynumber: 2.1 Consensus size: 85
373036 ATATATTTTC
373046 AAAATGTTTTAAAAACTATATTACACATATTTTCAAAATGTTTTAAAAACTATATATATATATAT
1 AAAATGTTTTAAAAACTATATTACACATATTTTCAAAATGTTTTAAAAACTATATATATATATAT
* * **
373111 ATATATATATATATTTTTCA
66 ACATATATATATATTATAAA
* * *
373131 AAAATGTTTTAAAAACTATATATCATATATATTTTCAAAATGTTTTCAAAA-T-TATATA-ATAT
1 AAAATGTTTTAAAAACTATAT-T-ACACATATTTTCAAAATGTTTTAAAAACTATATATATATAT
373193 ATACATATATATATATTATAAA
64 ATACATATATATATATTATAAA
373215 TAAAAT
1 -AAAAT
373221 AAAATAAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
84 22 0.28
85 32 0.40
86 2 0.03
87 24 0.30
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (85 bp):
AAAATGTTTTAAAAACTATATTACACATATTTTCAAAATGTTTTAAAAACTATATATATATATAT
ACATATATATATATTATAAA
Found at i:373338 original size:15 final size:16
Alignment explanation
Indices: 373315--373352 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
373305 TAAAATATCA
*
373315 TAATAAAAATAA-TAT
1 TAATTAAAATAATTAT
373330 TAATTAAAATAATTAT
1 TAATTAAAATAATTAT
*
373346 TTATTAA
1 TAATTAA
373353 TCTAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAAAATAATTAT
Found at i:373358 original size:21 final size:20
Alignment explanation
Indices: 373327--373366 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
373317 ATAAAAATAA
373327 TATTAATTAAAATAATTATT
1 TATTAATTAAAATAATTATT
*
373347 TATTAATCTAAAATGATTAT
1 TATTAAT-TAAAATAATTAT
373367 AACATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TATTAATTAAAATAATTATT
Found at i:374053 original size:13 final size:13
Alignment explanation
Indices: 374035--374059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
374025 AAATATTTCA
374035 GATTAAATTAAAT
1 GATTAAATTAAAT
374048 GATTAAATTAAA
1 GATTAAATTAAA
374060 AAGTTAAAGT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
GATTAAATTAAAT
Found at i:374385 original size:18 final size:19
Alignment explanation
Indices: 374336--374375 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
374326 ATTTAAAAAT
374336 AATTTTACAGTTTTTAACATA
1 AATTTT-CA-TTTTTAACATA
374357 AATTTTCATTTTTAA-ATA
1 AATTTTCATTTTTAACATA
374375 A
1 A
374376 TTTCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 2 0.11
21 6 0.32
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (19 bp):
AATTTTCATTTTTAACATA
Found at i:374516 original size:25 final size:26
Alignment explanation
Indices: 374454--374516 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 26
374444 AATTTAATGA
374454 ATAACTATTTAAATAATTTAAATGAATAT
1 ATAACT-TTTAAATAA--TAAATGAATAT
* **
374483 GTATTTTTTAAATAA-AAATGAATAT
1 ATAACTTTTAAATAATAAATGAATAT
374508 ATAACTTTT
1 ATAACTTTT
374517 TTGTAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
25 16 0.57
28 9 0.32
29 3 0.11
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (26 bp):
ATAACTTTTAAATAATAAATGAATAT
Found at i:379153 original size:60 final size:60
Alignment explanation
Indices: 378997--379164 Score: 207
Period size: 60 Copynumber: 2.8 Consensus size: 60
378987 TATTAGAATG
* *
378997 TTAAAAGTTTGAGGACTAATTTAAAATGAGGATCATAGTTTGAA-GATGAAATTAAAATGT
1 TTAAAAGTTTGAGGACCAATTTAAAATGAGGATCATAGTTT-AAGGATGAAATTAAAATAT
* * * * *
379057 TCAAAA-TTTTAGGGACCGATTTAAATTGA-AATTCATAGTTTAAGGATGAAATTAAAATAT
1 TTAAAAGTTTGA-GGACCAATTTAAAATGAGGA-TCATAGTTTAAGGATGAAATTAAAATAT
* *
379117 TTAAAAGTTTGAGGACCAATTTAAAATGAGGATCATAATTTGAGGATG
1 TTAAAAGTTTGAGGACCAATTTAAAATGAGGATCATAGTTTAAGGATG
379165 TGTAATGCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
59 7 0.08
60 77 0.87
61 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.33
Consensus pattern (60 bp):
TTAAAAGTTTGAGGACCAATTTAAAATGAGGATCATAGTTTAAGGATGAAATTAAAATAT
Found at i:379316 original size:2 final size:2
Alignment explanation
Indices: 379251--379297 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
379241 TTTTTATAGA
379251 AT AT AT AT AT 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 AT AT AT AT AT
379293 AT AT A
1 AT AT A
379298 CAGTTTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:380579 original size:10 final size:10
Alignment explanation
Indices: 380559--380600 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
380549 GATTGGAGGA
380559 TTAAGTTTATT
1 TTAA-TTTATT
380570 TTAATTTATT
1 TTAATTTATT
*
380580 TTAATTTAAT
1 TTAATTTATT
*
380590 AT-ATTTATT
1 TTAATTTATT
380599 TT
1 TT
380601 TCACCAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 16 0.59
11 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTAATTTATT
Found at i:381090 original size:18 final size:18
Alignment explanation
Indices: 381059--381097 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
381049 TATTGAGGTC
*
381059 TTAAATAAATTTTTA-AT
1 TTAAATAAAATTTTATAT
381076 TTAACATAAAATTTTATAT
1 TTAA-ATAAAATTTTATAT
381095 TTA
1 TTA
381098 TTTTAGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATAAAATTTTATAT
Found at i:381373 original size:12 final size:12
Alignment explanation
Indices: 381356--381384 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
381346 TAATAAAAAA
381356 TATATCATATTT
1 TATATCATATTT
381368 TATATCATATTT
1 TATATCATATTT
381380 TATAT
1 TATAT
381385 AATTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATCATATTT
Found at i:381957 original size:63 final size:64
Alignment explanation
Indices: 381890--382013 Score: 205
Period size: 64 Copynumber: 2.0 Consensus size: 64
381880 AAAAATAAAA
*
381890 TTTTTGTTAAAG-CTTTCAAACCATAAAACAATTTATAAATAAAAACAAAAAATAATAATAATG
1 TTTTTGTTAAAGACTTTCAAACCATAAAACAAATTATAAATAAAAACAAAAAATAATAATAATG
* * *
381953 TTTTTGTTAAAGATTTTCAAACCGTAAAATAAATTATAAATAAAAACAAAAAATAATAATA
1 TTTTTGTTAAAGACTTTCAAACCATAAAACAAATTATAAATAAAAACAAAAAATAATAATA
382014 TTTACTATCG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
63 12 0.21
64 44 0.79
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (64 bp):
TTTTTGTTAAAGACTTTCAAACCATAAAACAAATTATAAATAAAAACAAAAAATAATAATAATG
Found at i:384299 original size:17 final size:16
Alignment explanation
Indices: 384269--384311 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
384259 AACGCATATC
384269 AAATT-TTTTATCTTTTA
1 AAATTATTTTATC--TTA
384286 AAATTATTTT-TCTTA
1 AAATTATTTTATCTTA
384301 AAATTATTTTA
1 AAATTATTTTA
384312 AAAGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.54
17 7 0.29
18 4 0.17
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTATTTTATCTTA
Found at i:384695 original size:21 final size:19
Alignment explanation
Indices: 384657--384695 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
384647 TAATTTTTAA
*
384657 ATTTTAAATTTTAAATAAG
1 ATTTTAAATTTAAAATAAG
384676 ATTTATAAACTTTAAAATAA
1 ATTT-TAAA-TTTAAAATAA
384696 ATAAACCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTTTAAATTTAAAATAAG
Found at i:386545 original size:24 final size:24
Alignment explanation
Indices: 386518--386569 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
386508 TTCTTTCCTT
*
386518 TTTTAGCTTCAATTT-TTTATTTTA
1 TTTTAG-TTCAATTTAATTATTTTA
* *
386542 TTTTAGTTTAGTTTAATTATTTTA
1 TTTTAGTTCAATTTAATTATTTTA
386566 TTTT
1 TTTT
386570 TATAATGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTTAGTTCAATTTAATTATTTTA
Found at i:387020 original size:21 final size:21
Alignment explanation
Indices: 386994--387033 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
386984 TGTTGGACCG
386994 GGTCTTACAAGGTCAAGAAAA
1 GGTCTTACAAGGTCAAGAAAA
387015 GGTCTTACAAGGTCAAGAA
1 GGTCTTACAAGGTCAAGAA
387034 GATCGAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (21 bp):
GGTCTTACAAGGTCAAGAAAA
Found at i:387232 original size:2 final size:2
Alignment explanation
Indices: 387225--387277 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
387215 ATCTGCATGC
387225 AT AT AT AT AT 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 AT AT AT AT AT
387267 AT AT AT AT AT A
1 AT AT AT AT AT A
387278 AACATACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:390593 original size:15 final size:15
Alignment explanation
Indices: 390573--390602 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
390563 TTATCGAAAC
390573 TAAAATATTATAAAT
1 TAAAATATTATAAAT
*
390588 TAAAATATTTTAAAT
1 TAAAATATTATAAAT
390603 AATAGAGGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATATTATAAAT
Found at i:393363 original size:17 final size:17
Alignment explanation
Indices: 393343--393381 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
393333 ATTTTAAAGT
393343 TATAATTATATAA-AAAA
1 TATAATTATA-AATAAAA
*
393360 TATATTTATAAATAAAA
1 TATAATTATAAATAAAA
393377 TATAA
1 TATAA
393382 ATAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAATTATAAATAAAA
Found at i:393380 original size:11 final size:11
Alignment explanation
Indices: 393366--393390 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
393356 AAAATATATT
393366 TATAAATAAAA
1 TATAAATAAAA
393377 TATAAATAAAA
1 TATAAATAAAA
393388 TAT
1 TAT
393391 TTATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAAAA
Found at i:393539 original size:144 final size:142
Alignment explanation
Indices: 393380--393755 Score: 403
Period size: 142 Copynumber: 2.6 Consensus size: 142
393370 AATAAAATAT
* * *
393380 AAATAAAATATTTATTTATTTAGAAATATCAGAAAAT-GA-ATTCTAGGTGCCTTAAGACATCTC
1 AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACA-TCCAGGTGCCTTAAGAC-TCTC
* * *
393443 TTTTCTTTGATATTAAAAAATAAATAAATAATTAA-AACATTTTTCTAAAAATA-ATA-ATAATA
64 ATTTC-TTAATATTAAAAAATAAATAAAT-ATTAATAA-A--ATT-TAAAAATATATATAT-ATA
393505 GAT-TA-ATATATAATTT-TAA
122 GATATATATATATAATTTAT-A
* * ** *
393524 AAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGTTTTAAGACTGTCAT
1 AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCCTTAAGACTCTCAT
* * *
393589 TTCTTAATATTAATAAATAAATAAATATTAATAAAATTTAAATATATATATATATATATATATAT
66 TTCTTAATATTAAAAAATAAATAAATATTAATAAAATTTAAAAATATATATATATAGATATATAT
393654 ATATAATTTATA
131 ATATAATTTATA
* * * *
393666 AAATAAGATGTTTATTTAATTAAAAATATCAGAAAATAGACATCC-GGTTGCTTTAAGACTGCT-
1 AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGG-TGCCTTAAGACT-CTC
*
393729 ATTTCTTAATATTTAAAAATAAATAAA
64 ATTTCTTAATATTAAAAAATAAATAAA
393756 CATTGTTATC
Statistics
Matches: 199, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
139 7 0.04
140 10 0.05
141 5 0.03
142 95 0.48
143 25 0.13
144 41 0.21
145 15 0.08
146 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (142 bp):
AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCCTTAAGACTCTCAT
TTCTTAATATTAAAAAATAAATAAATATTAATAAAATTTAAAAATATATATATATAGATATATAT
ATATAATTTATA
Found at i:393637 original size:2 final size:2
Alignment explanation
Indices: 393630--393658 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
393620 TAAAATTTAA
393630 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
393659 ATTTATAAAA
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:395053 original size:3 final size:3
Alignment explanation
Indices: 395045--395125 Score: 92
Period size: 3 Copynumber: 26.0 Consensus size: 3
395035 ATATTTTGTT
*
395045 TAA TAA TAA T-A TATA TATA TATA TATA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TA-A TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA TAA
* *
395093 TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
395126 ACTGAAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 53 0.76
4 15 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:396070 original size:76 final size:76
Alignment explanation
Indices: 395248--396043 Score: 1385
Period size: 76 Copynumber: 10.5 Consensus size: 76
395238 GATGGAAATG
* * * * * *
395248 TTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCTAAGGTTTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395313 CCCGAAGGCTT
66 CCCGAAGGCTT
* * *
395324 TTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395389 CCCGAAGGCTT
66 CCCGAAGGCTT
*
395400 TTTGGAAACATCATGCACTGTAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395465 CCCGAAGGCTT
66 CCCGAAGGCTT
*
395476 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACGTCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395541 CCCGAAGGCTT
66 CCCGAAGGCTT
*
395552 TTTGGAAAAATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395617 CCCGAAGGCTT
66 CCCGAAGGCTT
*
395628 TTTGGAAACATCATGCACTGTAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
395693 CCCGAAGACTT
66 CCCGAAGGCTT
* *
395704 TTTGGAAACATCATGCACTGTAGGACTTGCAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
395769 CCCGAAGGTTTT
66 CCCGAAGG-CTT
* * *
395781 TTTGGAAACATCATGTACTGTAGGACTTACAGATGACCCTAACGCTTTGAAAACATCAAAAAACT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395846 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
395857 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTTAAAACATAAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395922 CCCGAAGGCTT
66 CCCGAAGGCTT
395933 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
395998 CCCGAAGGCTT
66 CCCGAAGGCTT
396009 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
396044 TGGGAAATAG
Statistics
Matches: 687, Mismatches: 32, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
76 617 0.90
77 70 0.10
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:396732 original size:22 final size:22
Alignment explanation
Indices: 396707--396786 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
396697 AATAAAGCTT
396707 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
396729 TCATCTTT--AAAGAGATAGGCTA
1 TCATCTTTGAAAAGAGA-A-TCTA
*
396751 TCATCTTTGAAGAA-AGAGTCTA
1 TCATCTTTGAA-AAGAGAATCTA
*
396773 TTATCTTTGAAAAG
1 TCATCTTTGAAAAG
396787 TGTAGATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 7 0.15
21 3 0.06
22 32 0.67
24 4 0.08
25 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:401583 original size:1 final size:1
Alignment explanation
Indices: 401577--401626 Score: 82
Period size: 1 Copynumber: 50.0 Consensus size: 1
401567 TCAAATTTCC
* *
401577 TTTTTTTTTCTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
401627 CCTTATTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:404204 original size:37 final size:36
Alignment explanation
Indices: 404157--404232 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 36
404147 GCATAAATGC
* * * *
404157 AAAAATAAGAATGCAAACTGTGTAATGCAAAGATATA
1 AAAAATAAGAATACAAAATG-GAAATGCAAAGATACA
*
404194 AAAAATAAGAATACAAAATGGAAATGCACAGATACA
1 AAAAATAAGAATACAAAATGGAAATGCAAAGATACA
404230 AAA
1 AAA
404233 TGTAAATGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 16 0.47
37 18 0.53
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.17
Consensus pattern (36 bp):
AAAAATAAGAATACAAAATGGAAATGCAAAGATACA
Found at i:407070 original size:17 final size:17
Alignment explanation
Indices: 407050--407088 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
407040 ATTTCACAGT
407050 TATAATTATATAAAAAA
1 TATAATTATATAAAAAA
* *
407067 TATATTTATATATAAAA
1 TATAATTATATAAAAAA
407084 TATAA
1 TATAA
407089 ATAAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATTATATAAAAAA
Found at i:407376 original size:130 final size:129
Alignment explanation
Indices: 407217--407450 Score: 389
Period size: 130 Copynumber: 1.8 Consensus size: 129
407207 TAATAGATTA
* * * *
407217 ATATATAATTTTAAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATTCAGTTGT
1 ATATATAATTTTAAAAATAAGATATTTATTTAATTAAAAATATCAGAAAATGGACATCCAGTTGC
407282 TTTAAGACTGTCC-TTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTAAAATATAT
66 TTTAAGACTG-CCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTAAAATATAT
*
407346 ATATATAATTTATAAAAATAAGATGTTTATTTAATTAAAAATATCAGAAAATGGACATCCAGTTG
1 ATATATAATTT-TAAAAATAAGATATTTATTTAATTAAAAATATCAGAAAATGGACATCCAGTTG
*
407411 CTTTAAGACTGCCATTTCTTAATATTTAAAAATAAATAAA
65 CTTTAAGACTGCCATTTCTTAATATTAAAAAATAAATAAA
407451 CATTGTTATC
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
129 13 0.13
130 84 0.87
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (129 bp):
ATATATAATTTTAAAAATAAGATATTTATTTAATTAAAAATATCAGAAAATGGACATCCAGTTGC
TTTAAGACTGCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTAAAATATAT
Found at i:413664 original size:6 final size:6
Alignment explanation
Indices: 413653--413852 Score: 337
Period size: 6 Copynumber: 33.3 Consensus size: 6
413643 GGGTGGAGAT
* *
413653 GATGAA GATGAA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
413701 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
413749 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
* * * * *
413797 GATGGA GATGGA GATGAA GATGAA GATGAA GATGAA GATGAA GATGGA
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
413845 GATGGA GA
1 GATGGA GA
413853 GGAAGATTAT
Statistics
Matches: 191, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 191 1.00
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.17
Consensus pattern (6 bp):
GATGGA
Found at i:420116 original size:6 final size:6
Alignment explanation
Indices: 420105--420139 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
420095 ACATTAATTC
420105 GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGA
1 GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGA
420140 ACAGTGAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (6 bp):
GGTGAG
Found at i:422795 original size:21 final size:21
Alignment explanation
Indices: 422771--422840 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
422761 TCGTCGCTGT
*
422771 CGTCATCGTCATCGTCATCAC
1 CGTCATCGTCATCGTCATCGC
* * *
422792 CGTCATCGTCTTCGTCTTCGG
1 CGTCATCGTCATCGTCATCGC
* * *
422813 CGTCCTCGTCATCATCCTCGC
1 CGTCATCGTCATCGTCATCGC
422834 CGTCATC
1 CGTCATC
422841 AACTGACTGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.11, C:0.40, G:0.17, T:0.31
Consensus pattern (21 bp):
CGTCATCGTCATCGTCATCGC
Found at i:422952 original size:21 final size:21
Alignment explanation
Indices: 422905--422952 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
422895 ACCATCATCC
*
422905 TCTTCATCGTCTTCTTCTTCA
1 TCTTCGTCGTCTTCTTCTTCA
*
422926 TCTTCGTCGTCGTTC-TCTTCT
1 TCTTCGTCGTC-TTCTTCTTCA
422947 TCTTCG
1 TCTTCG
422953 CCGCCGTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.04, C:0.33, G:0.10, T:0.52
Consensus pattern (21 bp):
TCTTCGTCGTCTTCTTCTTCA
Found at i:424154 original size:3 final size:3
Alignment explanation
Indices: 424146--424178 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
424136 TTCTATCATG
424146 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
424179 TTTAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:425947 original size:27 final size:27
Alignment explanation
Indices: 425912--425992 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
425902 AAAAATTTTG
425912 TTGCTCAACTCGTTACTCGTTAAAATT
1 TTGCTCAACTCGTTACTCGTTAAAATT
*
425939 TTGCTCAACTCG-TGCTCGTTAAGAAAAATT
1 TTGCTCAACTCGTTACTCGTT----AAAATT
*
425969 TATGCTCAACTCATTACTCGTTAA
1 T-TGCTCAACTCGTTACTCGTTAA
425993 GCTTACCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
26 7 0.16
27 12 0.27
28 2 0.04
30 7 0.16
31 10 0.22
32 7 0.16
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (27 bp):
TTGCTCAACTCGTTACTCGTTAAAATT
Found at i:426199 original size:3 final size:3
Alignment explanation
Indices: 426185--426221 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
426175 TTTTTGGTTG
426185 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TTAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T
426222 TTACTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:428429 original size:14 final size:14
Alignment explanation
Indices: 428406--428442 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
428396 AATAATAAAC
*
428406 GAACACAAACAAAT
1 GAACATAAACAAAT
*
428420 GAACATAAACGAAT
1 GAACATAAACAAAT
428434 GAACATAAA
1 GAACATAAA
428443 ATTAATTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (14 bp):
GAACATAAACAAAT
Found at i:429524 original size:20 final size:20
Alignment explanation
Indices: 429499--429684 Score: 277
Period size: 20 Copynumber: 9.3 Consensus size: 20
429489 TTTTCCTAAT
429499 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
429519 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
429539 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
429559 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
429579 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
429599 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
429619 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
429639 TCACAATGCGAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
* *
429659 TCGAAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
429679 TCGCAA
1 TCGCAA
429685 CATGAATCTG
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
18 1 0.01
19 2 0.01
20 144 0.97
21 1 0.01
22 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:429701 original size:20 final size:20
Alignment explanation
Indices: 429678--429764 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
429668 GAATATGTAA
*
429678 ATCGCAAC-ATGAATCTGACT
1 ATCGCAACGA-GATTCTGACT
429698 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
429718 ATCGAAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
429738 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
429758 ATCGCAA
1 ATCGCAA
429765 TACTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 61 0.98
21 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:430638 original size:24 final size:24
Alignment explanation
Indices: 430606--430659 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
430596 GTATTCGAAA
430606 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
430630 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
430654 TTTGAT
1 TTTGAT
430660 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:432818 original size:20 final size:20
Alignment explanation
Indices: 432793--432838 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
432783 ATAAGTCGAG
432793 AGATGTAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
432813 AGATGTAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
432833 AGATGT
1 AGATGT
432839 TTATAAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (20 bp):
AGATGTAGGGAAATAGAAAT
Found at i:433825 original size:103 final size:103
Alignment explanation
Indices: 433646--433855 Score: 402
Period size: 103 Copynumber: 2.0 Consensus size: 103
433636 GGGTCTACAC
433646 GGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
433711 CCTTAGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
433749 GGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
433814 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
433852 GGTC
1 GGTC
433856 CTTATGGACA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
GGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:433908 original size:23 final size:23
Alignment explanation
Indices: 433874--433919 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
433864 CATTATTATA
* *
433874 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGAAATTATACG
*
433897 TGGCACTTCGGTGAAATTATACG
1 TGGCACTACGGTGAAATTATACG
433920 AGCTGTAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGAAATTATACG
Found at i:434266 original size:20 final size:20
Alignment explanation
Indices: 434243--434290 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
434233 GAACAATGTA
434243 TGTGATATATGTATATGATG
1 TGTGATATATGTATATGATG
434263 TGTGATATATGTATATGATG
1 TGTGATATATGTATATGATG
434283 TGTGATAT
1 TGTGATAT
434291 GAATTGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (20 bp):
TGTGATATATGTATATGATG
Found at i:437573 original size:22 final size:22
Alignment explanation
Indices: 437489--437567 Score: 126
Period size: 22 Copynumber: 3.7 Consensus size: 22
437479 TTCTGGGCAA
* *
437489 GGGGAATCGGTATCCATTCAA-
1 GGGGAATCGATACCCATTCAAT
437510 -GGGAATCGATACCCATTCAAT
1 GGGGAATCGATACCCATTCAAT
437531 GGGGAATCGATACCCATTCAAT
1 GGGGAATCGATACCCATTCAAT
437553 GGGGAATCGATACCC
1 GGGGAATCGATACCC
437568 CCTCAAACGA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
20 18 0.33
22 36 0.67
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
GGGGAATCGATACCCATTCAAT
Found at i:437646 original size:23 final size:22
Alignment explanation
Indices: 437602--437646 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
437592 AATCTCATAG
* *
437602 GGGAACTGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
437624 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
437647 AAATTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:438105 original size:20 final size:20
Alignment explanation
Indices: 438080--438125 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
438070 ATAAGTCGAG
438080 AGATGTAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
*
438100 AGATGTGGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
438120 AGATGT
1 AGATGT
438126 TTATAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (20 bp):
AGATGTAGGGAAATAGAAAT
Found at i:439150 original size:103 final size:103
Alignment explanation
Indices: 438930--439142 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
438920 GGGTCTACGC
*
438930 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
* * *
438995 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATAT
*
439033 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATAATTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
*
439098 CCCTAGTATATGTATATGATTCTTAAGGAATGATATAT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATAT
439136 GGTCCTT
1 GGTCCTT
439143 ATGGACATTA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAATTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATAT
Found at i:439192 original size:23 final size:23
Alignment explanation
Indices: 439159--439226 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
439149 ATTATTATAT
439159 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
439182 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
439205 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
439227 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:441206 original size:20 final size:19
Alignment explanation
Indices: 441181--441273 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 19
441171 GACATTCATT
441181 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAA-A
*
441201 TGACTATCGCAACAGGGAAA
1 TGACTATCGCAAC-GCGAAA
441221 TGACTATCGCAACGCGAAA
1 TGACTATCGCAACGCGAAA
*
441240 TGACTATCACAACGCGGAAA
1 TGACTATCGCAACGC-GAAA
441260 TGACTATCGCAACG
1 TGACTATCGCAACG
441274 AGAGAATCGC
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.28
20 44 0.66
21 4 0.06
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (19 bp):
TGACTATCGCAACGCGAAA
Found at i:441259 original size:39 final size:40
Alignment explanation
Indices: 441181--441273 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 40
441171 GACATTCATT
*
441181 TGACTATCGCAACGCGAATATGACTATCGCAACAGGGAAA
1 TGACTATCGCAACGCGAATATGACTATCACAACAGGGAAA
441221 TGACTATCGCAACGCGAA-ATGACTATCACAAC-GCGGAAA
1 TGACTATCGCAACGCGAATATGACTATCACAACAG-GGAAA
441260 TGACTATCGCAACG
1 TGACTATCGCAACG
441274 AGAGAATCGC
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.02
39 32 0.63
40 18 0.35
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (40 bp):
TGACTATCGCAACGCGAATATGACTATCACAACAGGGAAA
Found at i:441284 original size:14 final size:14
Alignment explanation
Indices: 441265--441318 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
441255 GGAAATGACT
441265 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
441279 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
441298 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
441312 ATCGCAA
1 ATCGCAA
441319 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:441333 original size:34 final size:33
Alignment explanation
Indices: 441256--441340 Score: 143
Period size: 33 Copynumber: 2.5 Consensus size: 33
441246 TCACAACGCG
**
441256 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
441289 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
441322 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
441341 CAAAATTAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 32 0.65
34 17 0.35
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:441396 original size:14 final size:14
Alignment explanation
Indices: 441377--441430 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
441367 CATTTTCGCA
441377 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
441391 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
441408 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
441424 TTGCGAT
1 TTGCGAT
441431 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:441398 original size:34 final size:34
Alignment explanation
Indices: 441355--441450 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
441345 ATTAGTTTCG
441355 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
441389 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
441422 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
441451 AGTCTGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:441575 original size:14 final size:14
Alignment explanation
Indices: 441556--441592 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
441546 CATCAATTAA
441556 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
441570 ACAAATCATCTTTT
1 ACAAATCAACATTT
441584 ACAAATCAA
1 ACAAATCAA
441593 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:443141 original size:23 final size:23
Alignment explanation
Indices: 443115--443160 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
443105 CACCACAGCT
*
443115 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
443138 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
443161 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:443854 original size:63 final size:63
Alignment explanation
Indices: 443748--443906 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
443738 TAATGGAGGC
** * * *
443748 ATGCATCGATGCACTCCTGCTGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
** **
443811 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
443874 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
443907 CTTCAACAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 80 0.95
64 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:443898 original size:19 final size:20
Alignment explanation
Indices: 443874--443911 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
443864 ATTTAAATTA
443874 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
443893 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
443912 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:450033 original size:23 final size:23
Alignment explanation
Indices: 450007--450052 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
449997 CACCACAGCT
*
450007 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
450030 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
450053 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:450306 original size:147 final size:147
Alignment explanation
Indices: 450031--450323 Score: 545
Period size: 147 Copynumber: 2.0 Consensus size: 147
450021 GAAGTGCCAC
450031 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATC
450096 ATATATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACAAATGTTCCACAGAATATATAT
66 ATATATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACAAATGTTCCACAGAATATATAT
450161 ATATCCCGAAGGACCGT
131 ATATCCCGAAGGACCGT
450178 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATC
*
450243 ATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATAT
66 ATAT--ATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACAAATGTTCCACAGAATATAT
450306 ATATATCCCGAAGGACCG
129 ATATATCCCGAAGGACCG
450324 CGTAAACCCT
Statistics
Matches: 143, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
147 91 0.64
148 1 0.01
149 51 0.36
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (147 bp):
GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATC
ATATATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACAAATGTTCCACAGAATATATAT
ATATCCCGAAGGACCGT
Found at i:450891 original size:63 final size:63
Alignment explanation
Indices: 450785--450943 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 63
450775 TAATGGAGGC
** * * *
450785 ATGCATCGATGCACTCCTGCTGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
* ** **
450848 ATGCATCGATGCACTCCTTATGCATCAATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
450911 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
450944 CTTCAACAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 78 0.95
64 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:450935 original size:19 final size:20
Alignment explanation
Indices: 450911--450948 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
450901 ATTTAAATTA
450911 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
450930 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
450949 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:452278 original size:42 final size:42
Alignment explanation
Indices: 452171--452278 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
452161 TCTAGAATGT
* * *
452171 TGGGAG-GGACCTCTTCAACGATGATAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGATAGGGGCCTCTTGAACGA
* * **
452213 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
452255 TAGGG-GAGGCCTCTTGAACGATGA
1 T-GGGAGAGGCCTCTTGAACGATGA
452279 CAGGTGAGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 49 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:452785 original size:20 final size:20
Alignment explanation
Indices: 452762--452964 Score: 193
Period size: 20 Copynumber: 10.3 Consensus size: 20
452752 GAAACTTAAA
452762 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
** * *
452782 ATCGCAACACGGAAATAACT
1 ATCGCAATGCGAAAATGACT
* * *
452802 ATCACAACGCGGAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
452822 ATCGCAACGCGGAAATGACT
1 ATCGCAATGCGAAAATGACT
**
452842 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
* **
452862 GTCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
*
452882 ATCGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
452896 ATCGCAATGCGCGAAAATGACT
1 ATCGCAAT--GCGAAAATGACT
452918 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
452938 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
452958 ATCGCAA
1 ATCGCAA
452965 CGAGAGAATC
Statistics
Matches: 156, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
14 7 0.04
16 2 0.01
17 1 0.01
18 4 0.03
19 2 0.01
20 132 0.85
22 8 0.05
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:452906 original size:34 final size:34
Alignment explanation
Indices: 452863--452983 Score: 143
Period size: 34 Copynumber: 3.3 Consensus size: 34
452853 AATTTGACTG
452863 TCGCAATGCGAATTTGACTATCGCAACGAGAGAA
1 TCGCAATGCGAATTTGACTATCGCAACGAGAGAA
** *
452897 TCGCAATGCGCGAAAATGACTATCGCAATGCGAAAATGACTA
1 TCGCAAT--GCGAATTTGACTATCGCAA--CG-AGA-GA--A
452939 TCGCAATGCGAATTTGACTATCGCAACGAGAGAA
1 TCGCAATGCGAATTTGACTATCGCAACGAGAGAA
452973 TCGCAATGCGA
1 TCGCAATGCGA
452984 TTTTCATTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
34 19 0.26
36 19 0.26
37 2 0.03
38 4 0.05
39 2 0.03
40 19 0.26
42 8 0.11
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (34 bp):
TCGCAATGCGAATTTGACTATCGCAACGAGAGAA
Done.