Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 105 of 276
Found at i:33234966 original size:144 final size:144
Alignment explanation
Indices: 33234742--33235031 Score: 544
Period size: 144 Copynumber: 2.0 Consensus size: 144
33234732 GTGTGTCCTC
33234742 TATATCTTAAAATTGAGAAACAGAATGCTCAGAATTGAGCACACAAGCAAAGACACGAGCATGTG
1 TATATCTTAAAATTGAGAAACAGAATGCTCAGAATTGAGCACACAAGCAAAGACACGAGCATGTG
33234807 TCTTAGCCATGTGTGCTACACGGCCCAGAACACGAGCGTGTGTCTGGCTGTGTGAAACCTGCACT
66 TCTTAGCCATGTGTGCTACACGGCCCAGAACACGAGCGTGTGTCTGGCTGTGTGAAACCTGCACT
33234872 TAATTTTGGAAAAT
131 TAATTTTGGAAAAT
* * *
33234886 TATATCTTAAATTTGAGAAATAGAATGCTTAGAATTGAGCACACAAGCAAAGACACGAGCATGTG
1 TATATCTTAAAATTGAGAAACAGAATGCTCAGAATTGAGCACACAAGCAAAGACACGAGCATGTG
*
33234951 TCTTAGCCATGTGTGCTACGCGGCCCAGAACACGAGCGTGTGTCTGGCTGTGTGAAACCTGCACT
66 TCTTAGCCATGTGTGCTACACGGCCCAGAACACGAGCGTGTGTCTGGCTGTGTGAAACCTGCACT
33235016 TAATTTTGGAAAAT
131 TAATTTTGGAAAAT
33235030 TA
1 TA
33235032 AATTAACCAC
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 142 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (144 bp):
TATATCTTAAAATTGAGAAACAGAATGCTCAGAATTGAGCACACAAGCAAAGACACGAGCATGTG
TCTTAGCCATGTGTGCTACACGGCCCAGAACACGAGCGTGTGTCTGGCTGTGTGAAACCTGCACT
TAATTTTGGAAAAT
Found at i:33237898 original size:15 final size:15
Alignment explanation
Indices: 33237878--33237934 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
33237868 CTTCTTTTTA
33237878 AGTTTTGATTACATG
1 AGTTTTGATTACATG
* *** *
33237893 AGTTTTATATTGTTTTA
1 AGTTTT-GATT-ACATG
33237910 AGTTTTGATTACATG
1 AGTTTTGATTACATG
33237925 AGTTTTGATT
1 AGTTTTGATT
33237935 GCCTTACTCC
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
15 17 0.57
16 6 0.20
17 7 0.23
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.54
Consensus pattern (15 bp):
AGTTTTGATTACATG
Found at i:33244685 original size:31 final size:30
Alignment explanation
Indices: 33244642--33244710 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
33244632 GGCCCAAAAT
*
33244642 CCCACACGCTCGTATGGTTAACCCGTGTGGG
1 CCCACACACTCGTATGGTTAACCCGTGT-GG
*
33244673 CCCACACACTCGTATGGTTAACTCGTGTGG
1 CCCACACACTCGTATGGTTAACCCGTGTGG
*
33244703 CCTACACA
1 CCCACACA
33244711 GCCTAATAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 9 0.26
31 26 0.74
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.23
Consensus pattern (30 bp):
CCCACACACTCGTATGGTTAACCCGTGTGG
Found at i:33249598 original size:59 final size:59
Alignment explanation
Indices: 33249526--33249641 Score: 187
Period size: 59 Copynumber: 2.0 Consensus size: 59
33249516 TTCAAAATTT
* * *
33249526 TTAAAAATGAAGTTATTTAGTTCTTAAATGGTAATAACGTCTTTTCAAAGCTTGAATAA
1 TTAAAAATGAAGTTATTAACTTCTTAAATGGTAATAACGTCTCTTCAAAGCTTGAATAA
* *
33249585 TTAAAAATGAAGTTATTAACTTCTTTAATGGTAATAAGGTCTCTTCAAAGCTTGAAT
1 TTAAAAATGAAGTTATTAACTTCTTAAATGGTAATAACGTCTCTTCAAAGCTTGAAT
33249642 TATTCATTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (59 bp):
TTAAAAATGAAGTTATTAACTTCTTAAATGGTAATAACGTCTCTTCAAAGCTTGAATAA
Found at i:33252960 original size:47 final size:47
Alignment explanation
Indices: 33252909--33253012 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
33252899 AGATAGGTAT
*
33252909 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGGGAAAGTGTATAA
* * * *
33252956 ATGTGACAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGGGAAAGTGTATAA
33253003 ATGTGATAAG
1 ATGTGATAAG
33253013 TCCCGAAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGGGAAAGTGTATAA
Found at i:33265324 original size:13 final size:13
Alignment explanation
Indices: 33265306--33265330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33265296 ACTTGAATGG
33265306 GAAAATGAGAGAA
1 GAAAATGAGAGAA
33265319 GAAAATGAGAGA
1 GAAAATGAGAGA
33265331 GGAGAGAAGA
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:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
GAAAATGAGAGAA
Found at i:33267425 original size:8 final size:8
Alignment explanation
Indices: 33267412--33267436 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33267402 ATATAGACTA
33267412 AATAAAAT
1 AATAAAAT
33267420 AATAAAAT
1 AATAAAAT
33267428 AATAAAAT
1 AATAAAAT
33267436 A
1 A
33267437 TCTTATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:33270785 original size:41 final size:41
Alignment explanation
Indices: 33270734--33270926 Score: 174
Period size: 41 Copynumber: 4.7 Consensus size: 41
33270724 TGGCCTTTTC
* ** * *
33270734 ACTGAACAATAGCGGCACTTTTGGCCCAAACGCCACTAGAA
1 ACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTAAAA
** * *
33270775 ACTGATCAATAGCGGCACTTTTAG-CTAAAACGCCACTAAAA
1 ACTGATCAATAGCGGCGTTTTTGGTC-CAAACGCCACTAAAA
* * * ** **
33270816 ATTGATGAATAGTGGCGTTTTTATTTAAAACGCCACTAAAA
1 ACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTAAAA
* * *
33270857 ACTGAGCAGTAGCGGCGTTTTTGGTCCAAACACCACT-AAA
1 ACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTAAAA
* *
33270897 ACAGATCAATAGTGGCGTTTTTGGTCCAAA
1 ACTGATCAATAGCGGCGTTTTTGGTCCAAA
33270927 TGCCGCAAAA
Statistics
Matches: 125, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
40 30 0.24
41 95 0.76
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (41 bp):
ACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTAAAA
Found at i:33270893 original size:82 final size:81
Alignment explanation
Indices: 33270761--33270918 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 81
33270751 CTTTTGGCCC
* * * *
33270761 AAACGCCACTAGAAACTGATCAATAGCGGCACTTTTAGCTAAAACGCCACTAAAA-ATTGATGAA
1 AAACGCCACTAAAAACTGAGCAATAGCGGCACTTTTAGCTAAAACACCACTAAAACA--GATCAA
33270825 TAGTGGCGTTTTTATTTA
64 TAGTGGCGTTTTTATTTA
* * * * *
33270843 AAACGCCACTAAAAACTGAGCAGTAGCGGC-GTTTTTGGTCCAAACACCACTAAAACAGATCAAT
1 AAACGCCACTAAAAACTGAGCAATAGCGGCACTTTTAGCT-AAAACACCACTAAAACAGATCAAT
33270907 AGTGGCGTTTTT
65 AGTGGCGTTTTT
33270919 GGTCCAAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
81 24 0.37
82 40 0.62
83 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (81 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCACTTTTAGCTAAAACACCACTAAAACAGATCAATA
GTGGCGTTTTTATTTA
Found at i:33271257 original size:21 final size:21
Alignment explanation
Indices: 33271235--33271322 Score: 86
Period size: 21 Copynumber: 4.2 Consensus size: 21
33271225 CCTTAAATCT
* *
33271235 TAAACATTAAACCCTAAACCT
1 TAAACATTAAACCATAAACCC
** *
33271256 TAAATTTTAAAACATAAACCC
1 TAAACATTAAACCATAAACCC
* *
33271277 TAAACACTAATCCATAAACCC
1 TAAACATTAAACCATAAACCC
* * *
33271298 TAAACACTAATCCATAAACTC
1 TAAACATTAAACCATAAACCC
33271319 TAAA
1 TAAA
33271323 ATCCTAAACC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACATTAAACCATAAACCC
Found at i:33271260 original size:28 final size:28
Alignment explanation
Indices: 33271219--33271281 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
33271209 ATGGTTTTCT
33271219 CTAAACCCTTAAATCTT-AAACATTAAACC
1 CTAAA-CCTTAAATCTTAAAACA-TAAACC
*
33271248 CTAAACCTTAAATTTTAAAACATAAACC
1 CTAAACCTTAAATCTTAAAACATAAACC
33271276 CTAAAC
1 CTAAAC
33271282 ACTAATCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAAACCTTAAATCTTAAAACATAAACC
Found at i:33271676 original size:22 final size:21
Alignment explanation
Indices: 33271640--33271696 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
33271630 AAGTATTTAG
*
33271640 GGTTTAAGGTCTTAGTGT-TCAA
1 GGTTTAAGG-GTTAGTGTAT-AA
33271662 GGTTTTAAGGGTTAGTGTATAA
1 GG-TTTAAGGGTTAGTGTATAA
33271684 GGTTTAAGGGTTA
1 GGTTTAAGGGTTA
33271697 ATTGATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 11 0.34
22 13 0.41
23 8 0.25
ACGTcount: A:0.25, C:0.04, G:0.32, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTAGTGTATAA
Found at i:33273877 original size:27 final size:29
Alignment explanation
Indices: 33273847--33273913 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 29
33273837 TATATGTACA
*
33273847 AATAATATATAATATGTACA-AATAAT-T
1 AATAATATATAATATATACATAATAATGT
* *
33273874 AATAAAATAT-ATATATAGATAATAATGT
1 AATAATATATAATATATACATAATAATGT
33273902 AA-AATA-ATAATA
1 AATAATATATAATA
33273914 ATTTGTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.27
27 21 0.64
28 3 0.09
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (29 bp):
AATAATATATAATATATACATAATAATGT
Found at i:33273878 original size:20 final size:20
Alignment explanation
Indices: 33273833--33273872 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33273823 AATATGAAAG
33273833 TATAT-ATATGTACAAATAA
1 TATATAATATGTACAAATAA
33273852 TATATAATATGTACAAATAA
1 TATATAATATGTACAAATAA
33273872 T
1 T
33273873 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
TATATAATATGTACAAATAA
Found at i:33275779 original size:40 final size:40
Alignment explanation
Indices: 33275730--33275830 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
33275720 TTAGCGGCGT
* * *
33275730 TTTTCTAAAAATGCCACTAAAGATCGAGAATTAGCTA-CAA
1 TTTTGTAAAAACGCCGCTAAAGATCGAGAATTAGC-AGCAA
* * * * *
33275770 TTTTGTAAAAACGCCGCAAAAGGTTGAGATTTAGCAGCAC
1 TTTTGTAAAAACGCCGCTAAAGATCGAGAATTAGCAGCAA
33275810 TTTTGTAAAAACGCCGCTAAA
1 TTTTGTAAAAACGCCGCTAAA
33275831 AGTTTAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 50 0.98
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTTGTAAAAACGCCGCTAAAGATCGAGAATTAGCAGCAA
Found at i:33278780 original size:25 final size:25
Alignment explanation
Indices: 33278758--33278832 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
33278748 TCGGCATCGT
* *
33278758 CGTCGGCAGCCCTCTACTACATCTC
1 CGTCGGCATCCCTCTGCTACATCTC
*
33278783 CGTCGGCATCCCTCTGCTGCATCTC
1 CGTCGGCATCCCTCTGCTACATCTC
*
33278808 CGTCGGCATCCCTCTGCTACTTCTC
1 CGTCGGCATCCCTCTGCTACATCTC
33278833 TAGTTTTCTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.11, C:0.44, G:0.17, T:0.28
Consensus pattern (25 bp):
CGTCGGCATCCCTCTGCTACATCTC
Found at i:33279162 original size:6 final size:6
Alignment explanation
Indices: 33279151--33279271 Score: 102
Period size: 6 Copynumber: 20.5 Consensus size: 6
33279141 TTCATTAATT
* * * *
33279151 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG GGAGAG AGTGAG GGAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * *
33279199 AGAGAG GGAGAG AGGGAG AGGGGG AGAGGG AGAGGG AGAGGG AGA-AG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * *
33279246 AG-GGG AAAGAG AGATAG AGAGAG AGA
1 AGAGAG AGAGAG AGAGAG AGAGAG AGA
33279272 ACAAACATGC
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
5 5 0.05
6 88 0.95
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (6 bp):
AGAGAG
Found at i:33279164 original size:8 final size:8
Alignment explanation
Indices: 33279151--33279271 Score: 102
Period size: 8 Copynumber: 15.4 Consensus size: 8
33279141 TTCATTAATT
33279151 AGAGAGAG
1 AGAGAGAG
33279159 AGAGAGAG
1 AGAGAGAG
33279167 AGAGAGAG
1 AGAGAGAG
*
33279175 AGAGAGGG
1 AGAGAGAG
*
33279183 AGAGAGTG
1 AGAGAGAG
* *
33279191 AGGGAGGG
1 AGAGAGAG
*
33279199 AGAGAGGG
1 AGAGAGAG
*
33279207 AGAGAGGG
1 AGAGAGAG
* *
33279215 AGAGGGGG
1 AGAGAGAG
*
33279223 AGAGGGAG
1 AGAGAGAG
*
33279231 AGGGAGAG
1 AGAGAGAG
*
33279239 GGAGA-AG
1 AGAGAGAG
* *
33279246 AG-GGGAA
1 AGAGAGAG
*
33279253 AGAGAGAT
1 AGAGAGAG
33279261 AGAGAGAG
1 AGAGAGAG
33279269 AGA
1 AGA
33279272 ACAAACATGC
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
6 1 0.01
7 6 0.06
8 87 0.93
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (8 bp):
AGAGAGAG
Found at i:33279445 original size:23 final size:23
Alignment explanation
Indices: 33279415--33279460 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33279405 AAAGTATTTG
* *
33279415 GTTAAGAACATTTATTTGATAAT
1 GTTAAGAAAATTCATTTGATAAT
33279438 GTTAAGAAAATTCATTTGATAAT
1 GTTAAGAAAATTCATTTGATAAT
33279461 AATAAAAAAG
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:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (23 bp):
GTTAAGAAAATTCATTTGATAAT
Found at i:33279978 original size:17 final size:17
Alignment explanation
Indices: 33279958--33279999 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
33279948 GTAATACATC
* *
33279958 ATATTTATTAATTTTTT
1 ATATTTAATAATGTTTT
33279975 ATA-TTAATAATGTTTT
1 ATATTTAATAATGTTTT
33279991 AT-TTTAATA
1 ATATTTAATA
33280000 TTTAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATTTAATAATGTTTT
Found at i:33280199 original size:9 final size:9
Alignment explanation
Indices: 33280187--33280429 Score: 203
Period size: 9 Copynumber: 27.4 Consensus size: 9
33280177 TTATATAAAT
*
33280187 ATAATTTAC
1 ATAACTTAC
33280196 ATAACTTAC
1 ATAACTTAC
33280205 ATAACTTAC
1 ATAACTTAC
33280214 ATAACTTAC
1 ATAACTTAC
*
33280223 ATAACTTAG
1 ATAACTTAC
* *
33280232 ATAA-ATAT
1 ATAACTTAC
33280240 ATAACTTAC
1 ATAACTTAC
33280249 ATAACTTAC
1 ATAACTTAC
*
33280258 ATAACTTAT
1 ATAACTTAC
*
33280267 ATAACTTAG
1 ATAACTTAC
* *
33280276 ATAA-ATAT
1 ATAACTTAC
33280284 ATAACTTAC
1 ATAACTTAC
33280293 ATAACTTAC
1 ATAACTTAC
* *
33280302 ATAA-ATAT
1 ATAACTTAC
* *
33280310 ATATCATATC
1 ATAACTTA-C
33280320 ATAACTTAC
1 ATAACTTAC
33280329 ATAA--TAC
1 ATAACTTAC
* *
33280336 ATAA-ATAT
1 ATAACTTAC
* *
33280344 ATATCATATC
1 ATAACTTA-C
33280354 ATAACTTAC
1 ATAACTTAC
33280363 ATAACTTAC
1 ATAACTTAC
* *
33280372 ATAA-ATAT
1 ATAACTTAC
* *
33280380 ATATCATATC
1 ATAACTTA-C
*
33280390 ATATCTTAC
1 ATAACTTAC
33280399 ATAACTTAC
1 ATAACTTAC
*
33280408 AAAACTTAC
1 ATAACTTAC
*
33280417 TTAACTTAC
1 ATAACTTAC
33280426 ATAA
1 ATAA
33280430 TACATAAATA
Statistics
Matches: 192, Mismatches: 33, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
7 7 0.04
8 27 0.14
9 139 0.72
10 19 0.10
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:33280254 original size:44 final size:44
Alignment explanation
Indices: 33280196--33280305 Score: 211
Period size: 44 Copynumber: 2.5 Consensus size: 44
33280186 TATAATTTAC
33280196 ATAACTTACATAACTTACATAACTTACATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTACATAACTTAGATAAATAT
*
33280240 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTACATAACTTAGATAAATAT
33280284 ATAACTTACATAACTTACATAA
1 ATAACTTACATAACTTACATAA
33280306 ATATATATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (44 bp):
ATAACTTACATAACTTACATAACTTACATAACTTAGATAAATAT
Found at i:33280294 original size:70 final size:73
Alignment explanation
Indices: 33280187--33280415 Score: 285
Period size: 70 Copynumber: 3.2 Consensus size: 73
33280177 TTATATAAAT
* * * * * *
33280187 ATAATTTACATAACTTACATA-ACT-TACATAACTTACATAACTTAGATAAATATATAACTTA-C
1 ATAACTTACATAACTTAGATATAATAT-CATAACTTACATAACTTACATAAATATATATCATATC
33280249 ATAACTTAC
65 ATAACTTAC
*
33280258 ATAACTTATATAACTTAGATA-AATAT-ATAACTTACATAACTTACATAAATATATATCATATCA
1 ATAACTTACATAACTTAGATATAATATCATAACTTACATAACTTACATAAATATATATCATATCA
33280321 TAACTTAC
66 TAACTTAC
* * *
33280329 ATAA--TACATAA-ATATATATCATATCATAACTTACATAACTTACATAAATATATATCATATCA
1 ATAACTTACATAACTTAGATATAATATCATAACTTACATAACTTACATAAATATATATCATATCA
*
33280391 TATCTTAC
66 TAACTTAC
*
33280399 ATAACTTACAAAACTTA
1 ATAACTTACATAACTTA
33280416 CTTAACTTAC
Statistics
Matches: 137, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
68 5 0.04
69 10 0.07
70 79 0.58
71 34 0.25
72 7 0.05
73 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.36
Consensus pattern (73 bp):
ATAACTTACATAACTTAGATATAATATCATAACTTACATAACTTACATAAATATATATCATATCA
TAACTTAC
Found at i:33284329 original size:25 final size:28
Alignment explanation
Indices: 33284271--33284337 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 28
33284261 ATTTTTTAAT
33284271 TATATGTATATTATAATTTTAATCTTTC
1 TATATGTATATTATAATTTTAATCTTTC
*
33284299 T-CATGT-TA-TATAA-TTTAA-CTATTC
1 TATATGTATATTATAATTTTAATCT-TTC
33284323 TATATGTACTATTAT
1 TATATGTA-TATTAT
33284338 TGTTGTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
23 2 0.06
24 9 0.28
25 9 0.28
26 2 0.06
27 6 0.19
28 4 0.12
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (28 bp):
TATATGTATATTATAATTTTAATCTTTC
Found at i:33285549 original size:13 final size:14
Alignment explanation
Indices: 33285531--33285562 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
33285521 TTACTATAAA
33285531 TAATTATAAT-GTT
1 TAATTATAATGGTT
33285544 TAATTATAATGGTT
1 TAATTATAATGGTT
33285558 TAATT
1 TAATT
33285563 CGTTGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:33286278 original size:74 final size:74
Alignment explanation
Indices: 33286184--33286340 Score: 296
Period size: 74 Copynumber: 2.1 Consensus size: 74
33286174 TCATTTATTA
*
33286184 ATTTACATTGAAGCACCATTTTCATTTAACATTTTTTGTTGTATTTTTTATGCTACATTTGCTGT
1 ATTT-CATGGAAGCACCATTTTCATTTAACATTTTTTGTTGTATTTTTTATGCTACATTTGCTGT
33286249 TTTTGGTTGG
65 TTTTGGTTGG
33286259 ATTTCATGGAAGCACCATTTTCATTTAACATTTTTTGTTGTATTTTTTATGCTACATTTGCTGTT
1 ATTTCATGGAAGCACCATTTTCATTTAACATTTTTTGTTGTATTTTTTATGCTACATTTGCTGTT
33286324 TTTGGTTGG
66 TTTGGTTGG
33286333 ATTTCATG
1 ATTTCATG
33286341 TTATATTTGC
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
74 77 0.95
75 4 0.05
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (74 bp):
ATTTCATGGAAGCACCATTTTCATTTAACATTTTTTGTTGTATTTTTTATGCTACATTTGCTGTT
TTTGGTTGG
Found at i:33289000 original size:40 final size:40
Alignment explanation
Indices: 33288937--33289013 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
33288927 GTACTTTATG
*
33288937 GTGTGTAGGGTTGGATGGATCGATTTTATCCCCATATTTA
1 GTGTGTAGGGATGGATGGATCGATTTTATCCCCATATTTA
* *
33288977 GTGTGTAGGGATGGGTGGCTCGATTTTATCCCCATAT
1 GTGTGTAGGGATGGATGGATCGATTTTATCCCCATAT
33289014 GGTGTGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (40 bp):
GTGTGTAGGGATGGATGGATCGATTTTATCCCCATATTTA
Found at i:33291637 original size:40 final size:40
Alignment explanation
Indices: 33291590--33291734 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
33291580 CTCGCACAAG
* * * * *
33291590 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
33291630 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
33291670 GCCTT-TGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
33291711 GCCTTCGGGACTTAGCTCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
33291735 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.65
41 25 0.28
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:33298060 original size:83 final size:83
Alignment explanation
Indices: 33297921--33298086 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
33297911 AGTTCGAATG
* * * *
33297921 TGTTGGTTGAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCATCATTCGGGTTACT
1 TGTTGGTTGAACCAATCATTCATCACGCTATAAAAAGCTTGCCTAGCCTCATCATTCGGATTACT
*
33297986 AGCATTAGGTTGAGAGTC
66 AGCAATAGGTTGAGAGTC
*
33298004 TGTTGGTTGAACCAATCATTCATCACGCTATAAAAAGCTTGCCTAGCCTCATCATTCGGATTGCT
1 TGTTGGTTGAACCAATCATTCATCACGCTATAAAAAGCTTGCCTAGCCTCATCATTCGGATTACT
*
33298069 AGCAATCGGTTGAGAGTC
66 AGCAATAGGTTGAGAGTC
33298087 CGCTGGAGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
TGTTGGTTGAACCAATCATTCATCACGCTATAAAAAGCTTGCCTAGCCTCATCATTCGGATTACT
AGCAATAGGTTGAGAGTC
Found at i:33299714 original size:29 final size:27
Alignment explanation
Indices: 33299696--33299765 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
33299686 ATATTAAGTC
33299696 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
33299723 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
33299751 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
33299766 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:33299759 original size:28 final size:28
Alignment explanation
Indices: 33299696--33299793 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
33299686 ATATTAAGTC
*
33299696 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33299723 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33299751 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33299780 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33299794 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33307268 original size:13 final size:13
Alignment explanation
Indices: 33307232--33307292 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
33307222 TCTTCATTGC
33307232 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
* *
33307245 TGTGGAAAAGTGT
1 TTTTGAAAAGTGT
* **
33307258 TTTTGAGAAGTAC
1 TTTTGAAAAGTGT
*
33307271 TTTTGAGAAGTGT
1 TTTTGAAAAGTGT
*
33307284 TTTGGAAAA
1 TTTTGAAAA
33307293 ATTTAAGTGT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.39
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:33310324 original size:23 final size:23
Alignment explanation
Indices: 33310294--33310909 Score: 416
Period size: 23 Copynumber: 26.9 Consensus size: 23
33310284 TAGTAAATGT
*
33310294 TGCAAATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
33310317 TGCAAATTGAAGTGTTT-AGTTGC
1 TGCAAATTGAAGTGTTTAAG-TGC
* * *
33310340 TGGAAATTG-AGATGTTTTA-TCGT
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * * * *
33310363 TG-TAATTGAGGAGTATAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
33310385 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
33310408 TACAAATTGAATTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
* *
33310431 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
33310454 TGCAAATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* * *
33310477 TGTAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
33310500 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
33310523 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
** *
33310546 TATAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
33310569 TGCAATTTGAAGTGTTTGAA-TCC
1 TGCAAATTGAAGTGTTT-AAGTGC
** *
33310592 TATAAATTG-AGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
33310614 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
33310637 TACAGATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* *
33310660 TGTAAATTGAAGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* * * *
33310683 TGTAAATTGAAGTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
*
33310706 TGCAAATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
33310729 TGAAAATTGTAGTGTTT-AGTTGC
1 TGCAAATTGAAGTGTTTAAG-TGC
* * *
33310752 TGGACATTG-AGATGTTTTA-TCGC
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * *
33310775 TG-TAATTGAAGTGTATAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * * *
33310797 TGTTAATT-TAGATGTTAAAGTGA
1 TGCAAATTGAAG-TGTTTAAGTGC
* *
33310820 TACAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
* * *
33310843 TACAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
* * * *
33310866 TGTAAATTGAAGTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
33310889 TGCAAATTGAAGTGTTTAAGT
1 TGCAAATTGAAGTGTTTAAGT
33310910 ACTTATTTTG
Statistics
Matches: 471, Mismatches: 95, Indels: 54
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.00
22 66 0.14
23 385 0.82
24 18 0.04
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
TGCAAATTGAAGTGTTTAAGTGC
Found at i:33310615 original size:183 final size:185
Alignment explanation
Indices: 33310406--33310912 Score: 644
Period size: 183 Copynumber: 2.8 Consensus size: 185
33310396 ATGTTAAAGT
* * * *
33310406 GCTACAAATTGAATTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
1 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTT
* * *
33310471 GAATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGAAG
66 GAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAG
*
33310535 TGTTTTAA-TGCT-ATAAATTGAAGTGTTAAAG-TGCTGCA-ATTTGA-AGTGTTTGAATC
130 TGTTTTAAGTACTGA-AAATTGAAGTGTT-AAGTTGCTGCACA-TTGAGA-TGTTT-AATC
*
33310591 -CTATAAATTG-AGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAGATTGAAGTGTTT
1 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTT
*
33310654 GAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
66 GAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
* * * *
33310719 G-TTTAAGTACTGAAAATTGTAGTGTTTAGTTGCTGGACATTGAGATGTTTTATC
131 GTTTTAAGTACTGAAAATTGAAGTGTTAAGTTGCTGCACATTGAGATGTTTAATC
* * * * * *
33310773 GCTGT-AATTGAAGTGTATAAATGTTGTTAATT-TAGATGTTAAAGTGATACAAATTGAAGTG-T
1 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTACAAATTGAAGTGTT
* **
33310835 TAAAGTGCTACAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAA
65 TGAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAA
33310900 GTG-TTTAAGTACT
129 GTGTTTTAAGTACT
33310913 TATTTTGGGT
Statistics
Matches: 287, Mismatches: 25, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
182 21 0.07
183 249 0.87
184 17 0.06
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (185 bp):
GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTT
GAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
GTTTTAAGTACTGAAAATTGAAGTGTTAAGTTGCTGCACATTGAGATGTTTAATC
Found at i:33312344 original size:20 final size:20
Alignment explanation
Indices: 33312319--33312357 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
33312309 TTTCGACTAG
33312319 GTTCAGCTTGAACCTAAGTA
1 GTTCAGCTTGAACCTAAGTA
33312339 GTTCAGCTTGAACCTAAGT
1 GTTCAGCTTGAACCTAAGT
33312358 CTTTTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
GTTCAGCTTGAACCTAAGTA
Found at i:33314936 original size:37 final size:36
Alignment explanation
Indices: 33314885--33314960 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
33314875 ATTTTAAAAA
*
33314885 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
33314921 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
33314958 TAA
1 TAA
33314961 AGTGGTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:33324970 original size:40 final size:40
Alignment explanation
Indices: 33324915--33325056 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
33324905 TATTCGAACG
33324915 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
33324955 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
33324995 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
33325035 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
33325057 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.15
40 77 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:33332415 original size:33 final size:33
Alignment explanation
Indices: 33332374--33332438 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
33332364 GGACAGCAGT
*
33332374 AGTAAGGTGATTTTGGAAAATCGTCATAATTTC
1 AGTAAGGTGATTTTGGAAAATCGCCATAATTTC
33332407 AGTAAGGTGATTTTGGAAAATCGCCATAATTT
1 AGTAAGGTGATTTTGGAAAATCGCCATAATTT
33332439 GTAGGAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (33 bp):
AGTAAGGTGATTTTGGAAAATCGCCATAATTTC
Found at i:33333579 original size:40 final size:40
Alignment explanation
Indices: 33333509--33333649 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
33333499 TATTCGAATG
33333509 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
33333548 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
33333588 ATATCCGGGCTAAGACCCGAAGACATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
33333628 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
33333650 TACTTGGGTT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 28 0.31
40 60 0.67
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:33337270 original size:20 final size:20
Alignment explanation
Indices: 33337247--33337291 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33337237 TGCAAACAGG
33337247 GGCACTGTA-GTCAAAATAGA
1 GGCACTG-AGGTCAAAATAGA
* *
33337267 GGCACTGAGGTGAAATTAGA
1 GGCACTGAGGTCAAAATAGA
33337287 GGCAC
1 GGCAC
33337292 CAAAGTGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.18
Consensus pattern (20 bp):
GGCACTGAGGTCAAAATAGA
Found at i:33339995 original size:62 final size:60
Alignment explanation
Indices: 33339916--33340058 Score: 146
Period size: 61 Copynumber: 2.3 Consensus size: 60
33339906 TCAAGCCTTA
* * * *
33339916 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATTAATATTAAT
1 CTGGGCCTAA-CCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAATATCAAT
* * *
33339978 CTGGGCCATAACCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAACCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
*
33340039 CTGGGCCGTAGCCCTATTAC
1 CTGGGCC-TAACCCTATTAC
33340059 GTCGAGATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
61 34 0.49
62 29 0.42
63 6 0.09
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
CTGGGCCTAACCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:33340122 original size:19 final size:20
Alignment explanation
Indices: 33340079--33340134 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
33340069 ATTGGGTCTT
33340079 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
33340099 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
33340118 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
33340135 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:33349260 original size:12 final size:12
Alignment explanation
Indices: 33349245--33349270 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33349235 ATATTGCCAC
33349245 TGTTGTTGCTAT
1 TGTTGTTGCTAT
33349257 TGTTGTTGCTAT
1 TGTTGTTGCTAT
33349269 TG
1 TG
33349271 CTAATAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.27, T:0.58
Consensus pattern (12 bp):
TGTTGTTGCTAT
Found at i:33356937 original size:30 final size:29
Alignment explanation
Indices: 33356897--33356960 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
33356887 CACTAATCAT
*
33356897 TTTTCATTATAGACGTAACGGAGCTACCA
1 TTTTCATTATAGACGTAACAGAGCTACCA
* * *
33356926 GTTTTCGTTATAGACTTAACAGAGCTTCCA
1 -TTTTCATTATAGACGTAACAGAGCTACCA
33356956 TTTTC
1 TTTTC
33356961 TATCCCCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (29 bp):
TTTTCATTATAGACGTAACAGAGCTACCA
Found at i:33357103 original size:33 final size:33
Alignment explanation
Indices: 33357030--33357103 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
33357020 CTTGATTCTC
* *
33357030 TTTCCCTCTCCCCTACCATCCCTTTGCTAACCC
1 TTTCCCTCTCCCCCACCATCCCTTTGCTAACCA
** * *
33357063 TCCCCCTCTCCCCCATCGTCCCTTTGCTAACCA
1 TTTCCCTCTCCCCCACCATCCCTTTGCTAACCA
33357096 TTTCCCTC
1 TTTCCCTC
33357104 CGTCCCTTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.11, C:0.53, G:0.04, T:0.32
Consensus pattern (33 bp):
TTTCCCTCTCCCCCACCATCCCTTTGCTAACCA
Found at i:33362331 original size:41 final size:41
Alignment explanation
Indices: 33362274--33362351 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
33362264 GTTTAAACGT
*
33362274 TCACAAAAGATAAGTGTAGGTAAAATATCCAAAATATCAAG
1 TCACAAAAGATAAGTGTAGCTAAAATATCCAAAATATCAAG
* * *
33362315 TCACAAAAGATGAGTGTAGCTAAAATATTCGAAATAT
1 TCACAAAAGATAAGTGTAGCTAAAATATCCAAAATAT
33362352 GAGTATATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (41 bp):
TCACAAAAGATAAGTGTAGCTAAAATATCCAAAATATCAAG
Found at i:33366606 original size:44 final size:44
Alignment explanation
Indices: 33366544--33366643 Score: 182
Period size: 44 Copynumber: 2.2 Consensus size: 44
33366534 ATAGGAAGGG
33366544 TTCTTCATGTTGATATTCATTTTTCTATCATTCTTCTATTTTTTTC
1 TTCTTC-T-TTGATATTCATTTTTCTATCATTCTTCTATTTTTTTC
33366590 TTCTTCTTTGATATTCATTTTTCTATCATTCTTCTATTTTTTTC
1 TTCTTCTTTGATATTCATTTTTCTATCATTCTTCTATTTTTTTC
33366634 TTCTTCTTTG
1 TTCTTCTTTG
33366644 GTTCATTCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 47 0.87
45 1 0.02
46 6 0.11
ACGTcount: A:0.13, C:0.18, G:0.04, T:0.65
Consensus pattern (44 bp):
TTCTTCTTTGATATTCATTTTTCTATCATTCTTCTATTTTTTTC
Found at i:33370120 original size:46 final size:45
Alignment explanation
Indices: 33369973--33370195 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 45
33369963 ATGGGGTAGG
*
33369973 ATGCCGATGCCATGTCCC-GAACATGGTCTTACACTAGC-TCAACTC-
1 ATGCCGATG-CATGTCCCAG-ACAT-GTCTTACACTAGCTTCATCTCA
* * * * *
33370018 GTAGTCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCG
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCA
* * * *
33370065 AGGCTGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TCATCTCA
* * *
33370111 ATGCCGATGCCATGTCCTAGACATGGTCTTACACTAG-TTCTTGT-A
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCATCTCA
*
33370156 ATGTGGCCAATGCATGTCCCAGACATGTCTTACACTAGCT
1 A--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
33370196 CACAATAACC
Statistics
Matches: 146, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 70 0.48
47 31 0.21
48 18 0.12
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCA
Found at i:33378005 original size:24 final size:23
Alignment explanation
Indices: 33377944--33378007 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
33377934 AGAAAACCTA
*
33377944 AAAAAAAAGA-AAATAAAGAAAC
1 AAAAAAAAGAGAAATAAAGAAAT
** *
33377966 AAAAATGAGAGAAAATAAAGAATT
1 AAAAAAAAGAG-AAATAAAGAAAT
33377990 AAATAAAAAGAGAAATAA
1 AAA-AAAAAGAGAAATAA
33378008 GGTATCATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 8 0.24
24 19 0.58
25 6 0.18
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (23 bp):
AAAAAAAAGAGAAATAAAGAAAT
Found at i:33381389 original size:39 final size:39
Alignment explanation
Indices: 33381346--33381773 Score: 694
Period size: 39 Copynumber: 11.0 Consensus size: 39
33381336 ATTATATTAT
* * *
33381346 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33381385 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
33381424 CAGGACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33381463 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
33381502 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
33381541 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33381580 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * * *
33381619 CAGCACAAAGCCTGTGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
33381658 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
33381697 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33381736 CAGCACGAAACCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
33381774 TCAGTGTCTT
Statistics
Matches: 361, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 361 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:33384534 original size:28 final size:28
Alignment explanation
Indices: 33384476--33384545 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
33384466 AATGAGATTG
33384476 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
33384504 GCACCAAGTGTGCGAGTTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
33384532 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33384546 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:33390873 original size:23 final size:22
Alignment explanation
Indices: 33390847--33390892 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
33390837 TTTAAATACA
* *
33390847 TATTTATTTTTAATTATTTTATT
1 TATTTAATTTTAATT-TTTAATT
33390870 TATTTAATTTTAATTTTTAATT
1 TATTTAATTTTAATTTTTAATT
33390892 T
1 T
33390893 GAAATAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTAATTTTAATTTTTAATT
Found at i:33395665 original size:21 final size:21
Alignment explanation
Indices: 33395639--33395682 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33395629 TTCATAAGTA
33395639 TGTACCCTCATATGATATCCT
1 TGTACCCTCATATGATATCCT
33395660 TGTACCCTCATATGATATCCT
1 TGTACCCTCATATGATATCCT
33395681 TG
1 TG
33395683 ATCTCTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (21 bp):
TGTACCCTCATATGATATCCT
Found at i:33397719 original size:43 final size:43
Alignment explanation
Indices: 33397672--33397764 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
33397662 TTGTTAGAAT
* * *
33397672 TATGTGGACAAGCCACTAGTATTTGCAATCAAGCTGCCAAAAA
1 TATGTGGACAAGCCACCAATAATTGCAATCAAGCTGCCAAAAA
* * * *
33397715 TATGTGGACAAGTCACCAATAATTGTAGTCAAGCTGCCAGAAA
1 TATGTGGACAAGCCACCAATAATTGCAATCAAGCTGCCAAAAA
*
33397758 CATGTGG
1 TATGTGG
33397765 TTAAACCCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (43 bp):
TATGTGGACAAGCCACCAATAATTGCAATCAAGCTGCCAAAAA
Found at i:33400078 original size:43 final size:42
Alignment explanation
Indices: 33399987--33400094 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 42
33399977 GATTAACGAG
* *
33399987 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGT
1 ATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT
33400029 ATTGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCG-T
*
33400073 ATGTGAATT-TGTGTAAGACCAT
1 ATGTG-ATTACGTGTAAGACCAT
33400095 AGCTAGGCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
42 1 0.02
43 54 0.90
44 5 0.08
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (42 bp):
ATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT
Found at i:33403832 original size:43 final size:43
Alignment explanation
Indices: 33403782--33403890 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
33403772 AGATTAACAA
** *
33403782 TATGTGATTAAATGTAAGACCATGTATGGGACATTGGCATTGT
1 TATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGT
* *
33403825 TTTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
1 TATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGT
*
33403868 TATGTGATTTCGTGTAAGACCAT
1 TATGTGATTACGTGTAAGACCAT
33403891 AACTAGGTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (43 bp):
TATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGT
Found at i:33403904 original size:43 final size:43
Alignment explanation
Indices: 33403782--33403909 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 43
33403772 AGATTAACAA
** * * *
33403782 TATGTGATTAAATGTAAGACCATGTA-TGGGACATTGGCATTGT
1 TATGTGATTACGTGTAAGACCAT-AACTAGGACATTGGCATCGT
* ** *
33403825 TTTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
1 TATGTGATTACGTGTAAGACCATAACTAGGACATTGGCATCGT
* **
33403868 TATGTGATTTCGTGTAAGACCATAACTAGGTTATTGGCATCG
1 TATGTGATTACGTGTAAGACCATAACTAGGACATTGGCATCG
33403910 ATATAAGATA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
TATGTGATTACGTGTAAGACCATAACTAGGACATTGGCATCGT
Found at i:33407376 original size:46 final size:46
Alignment explanation
Indices: 33407323--33408189 Score: 1637
Period size: 46 Copynumber: 18.8 Consensus size: 46
33407313 ACTCTCTGAT
33407323 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407369 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407415 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407461 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407507 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407553 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407599 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407645 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407691 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407737 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407783 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407829 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407875 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407921 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33407967 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
33408013 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
*
33408059 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
* * * *
33408105 ACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
* * * *
33408151 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
33408190 TCATGTCAAA
Statistics
Matches: 810, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
45 1 0.00
46 809 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
Found at i:33408496 original size:16 final size:17
Alignment explanation
Indices: 33408475--33408507 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33408465 ATGATGGTGC
33408475 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
33408491 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
33408508 TACTTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:33426786 original size:49 final size:49
Alignment explanation
Indices: 33426632--33426803 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 49
33426622 TAAGCCAGTA
33426632 TAAGA-CATGTCTGGGACAT-GCATCGG-CTACG-AGATG-T-G-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCT-CGAAGATGATAGCT-AGTG
* * * * *
33426676 TAAGACCATGTCTGGGACATGGAATCGGCATGGTTATG-TGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCG--AAGATGATAGCTAGTG
* *
33426726 TAGGACCATGTCTGGGACATGGCATAGGCCTCGAAGATGATAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCTAGTG
*
33426775 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
33426804 ACTTTACCCA
Statistics
Matches: 103, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
44 5 0.05
45 14 0.14
46 7 0.07
47 1 0.01
48 4 0.04
49 38 0.37
50 33 0.32
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCTAGTG
Found at i:33445348 original size:25 final size:24
Alignment explanation
Indices: 33445314--33445362 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
33445304 ATTTTTGTAA
*
33445314 TTATTTTGGGTTTATGTTAATATTT
1 TTATTTTGGGTTTATCTT-ATATTT
33445339 TTATTTTGGGTTTATCTTATATTT
1 TTATTTTGGGTTTATCTTATATTT
33445363 CTCGTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.65
Consensus pattern (24 bp):
TTATTTTGGGTTTATCTTATATTT
Found at i:33448284 original size:40 final size:40
Alignment explanation
Indices: 33448240--33448324 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
33448230 TTCATATGCC
33448240 ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
1 ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
*
33448280 ATAGACATGGGCTTACTTACACATATATGGCTCAAAGCCT
1 ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
33448320 -TAGAC
1 ATAGAC
33448325 TCCGTAGAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 5 0.11
40 39 0.89
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (40 bp):
ATAGACATGGACTTACTTACACATATATGGCTCAAAGCCT
Found at i:33450467 original size:21 final size:19
Alignment explanation
Indices: 33450422--33450463 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33450412 GTAGAGAAAG
33450422 AGAAT-GAAAAGAAAAAAT
1 AGAATGGAAAAGAAAAAAT
33450440 AGAATGGAAAAGGAAAAAA-
1 AGAATGGAAAA-GAAAAAAT
33450459 AGAAT
1 AGAAT
33450464 ATGGCAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (19 bp):
AGAATGGAAAAGAAAAAAT
Found at i:33473874 original size:22 final size:22
Alignment explanation
Indices: 33473849--33473932 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
33473839 AGGACAGCTT
*
33473849 AACGCCGTAGACAGGACGACTC
1 AACGTCGTAGACAGGACGACTC
* *
33473871 AACGTCGTAGATAGGATGACTC
1 AACGTCGTAGACAGGACGACTC
* * *
33473893 AATGTCATAGACAGGACGAGTC
1 AACGTCGTAGACAGGACGACTC
*
33473915 AACATCGTAGACAGGACG
1 AACGTCGTAGACAGGACG
33473933 GCTAAAGGCT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.15
Consensus pattern (22 bp):
AACGTCGTAGACAGGACGACTC
Found at i:33482885 original size:109 final size:109
Alignment explanation
Indices: 33482694--33482924 Score: 354
Period size: 109 Copynumber: 2.1 Consensus size: 109
33482684 TTCGAAGGGT
* ** * *
33482694 ACACGGGTGTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACACGGGGTAGGACACGGGCTGA
1 ACACGGGCGTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACACAAGCTAGGACACGGGATGA
* *
33482759 GACATGGCCATGTGATTCCATTTCTAATGTCCACACGGCCTATG
66 GACACGGCCATGTGATTCCATTTCGAATGTCCACACGGCCTATG
* * *
33482803 ACACGGGCGTGTGGTTGGCCATGTGACCTAAGTTAGAGAGTTACATAAGCTAGGACACGGGATGG
1 ACACGGGCGTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACACAAGCTAGGACACGGGATGA
*
33482868 GACACGGCCATGTGATTCCATTTCGAATGTCCACACGGCCTGTG
66 GACACGGCCATGTGATTCCATTTCGAATGTCCACACGGCCTATG
*
33482912 ACACTGGCGTGTG
1 ACACGGGCGTGTG
33482925 TCCCCTGTAC
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (109 bp):
ACACGGGCGTGTGGTTGGCCATGTGACCTAAGTCAGAGAGTTACACAAGCTAGGACACGGGATGA
GACACGGCCATGTGATTCCATTTCGAATGTCCACACGGCCTATG
Found at i:33484445 original size:70 final size:70
Alignment explanation
Indices: 33484331--33484662 Score: 360
Period size: 70 Copynumber: 4.7 Consensus size: 70
33484321 TCTAAAGATT
* * * * * *
33484331 GTAGGTTTAATACCGCAACCTCCAAACAGTTAGCTAGTGATAAAAGCTCCCAATTGTCACTCTAA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
*
33484396 GGTTC
66 GGCTC
* * * *
33484401 GTAGATTTGATACTGCAGCCTCCAAATAGTTAGTGAGAGTTAAAAGCTCCCAATTGTCAATCTAA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
33484466 GGCTC
66 GGCTC
* * * * * * * *
33484471 GTAGGTTTAATATTAC-GACCTTCAAATAATTAGCGAGAGTTAAAAGCTCCTAAGTATCACTCCA
1 GTAGGTTTAATACTGCAG-CCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTA
33484535 AGGCTC
65 AGGCTC
** * * * * * * * *
33484541 ACAGGTTTAGTACTTCAGCCTCTAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTTATTTTCA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
33484606 GGCTC
66 GGCTC
* **
33484611 GTAGGTTTAATACTGCAGCTTTTAAATAGTTAGCGAGAGTTAAAAGCTCCCA
1 GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCA
33484663 GCTGTTATTT
Statistics
Matches: 214, Mismatches: 46, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
69 1 0.00
70 212 0.99
71 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (70 bp):
GTAGGTTTAATACTGCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTCTAA
GGCTC
Found at i:33484957 original size:19 final size:19
Alignment explanation
Indices: 33484909--33484960 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
33484899 TTTTCTTAGG
*
33484909 TCTAAAATTTTGC-TTGAGT
1 TCTAAAA-TTTGCTTTCAGT
*
33484928 T-TGAAAGTTTGCTTTCAGT
1 TCT-AAAATTTGCTTTCAGT
33484947 TCTAAAATTTGCTT
1 TCTAAAATTTGCTT
33484961 AAGTCAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.22
19 20 0.74
20 1 0.04
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (19 bp):
TCTAAAATTTGCTTTCAGT
Found at i:33489090 original size:43 final size:40
Alignment explanation
Indices: 33489000--33489111 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 40
33488990 AATTACATGT
* **
33489000 AAGACCATGTCTGTGACATTGGCATTGTATTAAGATTACGTGT
1 AAGACCATGTCTG-GACATTGGCA-T-CATTAAGATTACGTAC
*
33489043 AAGACCATGTCTAGGACATTGGCATCATTAATCGATTTCGTAC
1 AAGACCATGTCT-GGACATTGGCATCATTAA--GATTACGTAC
*
33489086 AAGA-CACTGTCTGGGACAGTGGCATC
1 AAGACCA-TGTCT-GGACATTGGCATC
33489112 GATATGTGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 5 0.08
42 3 0.05
43 50 0.85
44 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
AAGACCATGTCTGGACATTGGCATCATTAAGATTACGTAC
Found at i:33490908 original size:21 final size:20
Alignment explanation
Indices: 33490881--33490923 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
33490871 TCCTAGGAAT
* *
33490881 AGTGGGTTCAAGTCATGAAC
1 AGTGGGGTCAAATCATGAAC
33490901 AGTGGGGTCAAATCATGAAC
1 AGTGGGGTCAAATCATGAAC
33490921 AGT
1 AGT
33490924 AACAATAAGT
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:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (20 bp):
AGTGGGGTCAAATCATGAAC
Found at i:33493543 original size:11 final size:10
Alignment explanation
Indices: 33493526--33493576 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
33493516 AGAAGAGAAT
33493526 GAAAAAAAAA
1 GAAAAAAAAA
33493536 GAAAAAAAAA
1 GAAAAAAAAA
*
33493546 GAAAAGTTAAAA
1 GAAAA--AAAAA
* *
33493558 GAACATAAAA
1 GAAAAAAAAA
33493568 GAAAAAAAA
1 GAAAAAAAA
33493577 TTAAATTGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 27 0.77
12 8 0.23
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:33497394 original size:56 final size:57
Alignment explanation
Indices: 33497274--33497415 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 57
33497264 TGCAAGCAAC
* * * *
33497274 TTTATACTTGAGAAAATTTGAAAGATAACCAACTAGGGATGTGGATCCGCAAGCTGT
1 TTTATACTTAAGAAAATTTGAAAGATAAACAACTAGGGATGTGAAACCGCAAGCTGT
* * ** *
33497331 TTCATACTTAAGAAAATTTGAAAGATAAAC-AGTTTGGATGTGAAACCGCAAGTTGT
1 TTTATACTTAAGAAAATTTGAAAGATAAACAACTAGGGATGTGAAACCGCAAGCTGT
33497387 TTTATACTTAAGAAAATTTTGAAAGATAA
1 TTTATACTTAAGAAAA-TTTGAAAGATAA
33497416 CATAGTTGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 35 0.47
57 39 0.53
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (57 bp):
TTTATACTTAAGAAAATTTGAAAGATAAACAACTAGGGATGTGAAACCGCAAGCTGT
Found at i:33497514 original size:69 final size:68
Alignment explanation
Indices: 33497435--33497766 Score: 247
Period size: 69 Copynumber: 4.8 Consensus size: 68
33497425 GAGTTTTCAA
* * *
33497435 CTCTCGCTAACTATGTTGGAGGTTGTAGTCTTTATCCTGCGAGCCTTAGTAGGACAGTTGGGAGC
1 CTCTCACTAACTATGTTGGAGGTTGTAGT-TTTATCCTGCGACCCTTAGTATGACAGTTGGGAGC
33497500 TTTG
65 TTTG
* * * * *
33497504 CTCTCACTAACTATGTTGGAAGTTGCAGTTTTTATCCTGCGATCCTTAGTATGATAGCTGGGAGC
1 CTCTCACTAACTATGTTGGAGGTTGTAG-TTTTATCCTGCGACCCTTAGTATGACAGTTGGGAGC
33497569 TTTG
65 TTTG
* * ** * *
33497573 CTCTCACTAATTGTGTTGGA-G-ACTACGATTTTAATCCTGTGACCCTTAATATGACAGTTGGGA
1 CTCTCACTAACTATGTTGGAGGTTGTA-G-TTTT-ATCCTGCGACCCTTAGTATGACAGTTGGGA
33497636 GCTTTG
63 GCTTTG
** * * *** * * * * **
33497642 CTCTTGCTAACTGTGTTGGAGGCTACGGCTTTTCA-CTTGCAAGCCTTAATATGACACCTGGGAG
1 CTCTCACTAACTATGTTGGAGGTTGTAG-TTTT-ATCCTGCGACCCTTAGTATGACAGTTGGGAG
*
33497706 CTTTA
64 CTTTG
* * * * * * * *
33497711 CTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTTATCTTGCGAACCTTAATATGACA
1 CTCTCACTAACTATGTTGGAGGTTGTAG-TTTTATCCTGCGACCCTTAGTATGACA
33497767 TAAATGTTGT
Statistics
Matches: 216, Mismatches: 41, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
67 1 0.00
68 7 0.03
69 200 0.93
70 8 0.04
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (68 bp):
CTCTCACTAACTATGTTGGAGGTTGTAGTTTTATCCTGCGACCCTTAGTATGACAGTTGGGAGCT
TTG
Found at i:33497758 original size:138 final size:138
Alignment explanation
Indices: 33497434--33497766 Score: 355
Period size: 138 Copynumber: 2.4 Consensus size: 138
33497424 GGAGTTTTCA
* * * * * * *
33497434 ACTCTCGCTAACTATGTTGGAGGTTGTAGTCTTTATCCTGCGAGCCTTAGTAGGACAGTTGGGAG
1 ACTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAACCTTAATATGACAGTTGGGAG
* * * * * * * *
33497499 CTTTGCTCTCACTAACTATGTTGGAAGTTGCAGTTTTTATCCTGCGATCCTTAGTATGATAGCTG
66 CTTTGCTCTCACTAACTATGTTGGAAGCTACAGTTTTCATCCTGCAAGCCTTAATATGACACCTG
33497564 GGAGCTTT
131 GGAGCTTT
* * * * * * * *
33497572 GCTCTCACTAATTGTGTTGGAGACTAC-GATTTTAATCCTGTGACCCTTAATATGACAGTTGGGA
1 ACTCTCGCTAACTGTGTTGGAGGCTGCAG-TTTTTATCCTGCGAACCTTAATATGACAGTTGGGA
** * * * *
33497636 GCTTTGCTCTTGCTAACTGTGTTGGAGGCTACGGCTTTTCA-CTTGCAAGCCTTAATATGACACC
65 GCTTTGCTCTCACTAACTATGTTGGAAGCTACAG-TTTTCATCCTGCAAGCCTTAATATGACACC
33497700 TGGGAGCTTT
129 TGGGAGCTTT
* *
33497710 ACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTTATCTTGCGAACCTTAATATGACA
1 ACTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAACCTTAATATGACA
33497767 TAAATGTTGT
Statistics
Matches: 154, Mismatches: 38, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
137 1 0.01
138 147 0.95
139 6 0.04
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (138 bp):
ACTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAACCTTAATATGACAGTTGGGAG
CTTTGCTCTCACTAACTATGTTGGAAGCTACAGTTTTCATCCTGCAAGCCTTAATATGACACCTG
GGAGCTTT
Found at i:33501797 original size:113 final size:113
Alignment explanation
Indices: 33501599--33501824 Score: 398
Period size: 113 Copynumber: 2.0 Consensus size: 113
33501589 ATTTTTGGTC
* * * * *
33501599 AGGCCAATTAGTACAGTTTATTAGTCAAATTCCCCCATGTTACAGGGATTGACTACACTGACCTT
1 AGGCCAATTAATACAGTTTATTAGTCAAAGTCACCCATGTTACAAGGATCGACTACACTGACCTT
*
33501664 TGCGCATTATGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGAT
66 TGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGAT
33501712 AGGCCAATTAATACAGTTTATTAGTCAAAGTCACCCATGTTACAAGGATCGACTACACTGACCTT
1 AGGCCAATTAATACAGTTTATTAGTCAAAGTCACCCATGTTACAAGGATCGACTACACTGACCTT
33501777 TGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGAT
66 TGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGAT
33501825 TCCGTTTGTT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (113 bp):
AGGCCAATTAATACAGTTTATTAGTCAAAGTCACCCATGTTACAAGGATCGACTACACTGACCTT
TGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGAT
Found at i:33502393 original size:46 final size:46
Alignment explanation
Indices: 33502336--33502427 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
33502326 AAGCATATCC
33502336 ACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTT
1 ACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTT
* * *
33502382 ACACTAAATGATTATAACATTATACTCAAACATATATAAGCCATTT
1 ACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTT
33502428 TCGCATGGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (46 bp):
ACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTT
Found at i:33502419 original size:22 final size:22
Alignment explanation
Indices: 33502348--33502420 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
33502338 ACCAAATGAT
* *
33502348 TATAACAATATACTCAAACACA
1 TATAACATTATACTCAAACATA
* *
33502370 TATAAGCCATT-TACACTAA-ATGA
1 TATAA--CATTATACTCAAACAT-A
33502393 TTATAACATTATACTCAAACATA
1 -TATAACATTATACTCAAACATA
33502416 TATAA
1 TATAA
33502421 GCCATTTTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
22 15 0.38
23 14 0.36
24 10 0.26
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (22 bp):
TATAACATTATACTCAAACATA
Found at i:33503764 original size:40 final size:40
Alignment explanation
Indices: 33503709--33503929 Score: 424
Period size: 40 Copynumber: 5.5 Consensus size: 40
33503699 ATTCTCGCAT
33503709 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
33503749 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
33503789 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
*
33503829 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAATTGCC
1 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
*
33503869 TTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
33503909 TTCGGGTCTTAGCCCGGATAT
1 TTCGGGTCTTAGCCCGGATAT
33503930 CATTCAAATG
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (40 bp):
TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
Found at i:33507312 original size:46 final size:45
Alignment explanation
Indices: 33507259--33507434 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
33507249 TATTTGGGCA
**
33507259 TCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
33507305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
33507352 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
33507398 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33507435 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:33507414 original size:93 final size:93
Alignment explanation
Indices: 33507255--33507426 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
33507245 AGGATATTTG
* *
33507255 GGCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33507320 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
33507348 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33507413 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
33507427 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:33509453 original size:15 final size:16
Alignment explanation
Indices: 33509433--33509462 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33509423 ATTTTTATAG
33509433 TTATTTTTA-TTTTAA
1 TTATTTTTACTTTTAA
33509448 TTATTTTTACTTTTA
1 TTATTTTTACTTTTA
33509463 TCATATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTACTTTTAA
Found at i:33513366 original size:2 final size:2
Alignment explanation
Indices: 33513359--33513383 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33513349 AATCCTAATT
33513359 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
33513384 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:33531086 original size:38 final size:38
Alignment explanation
Indices: 33531035--33531902 Score: 1736
Period size: 38 Copynumber: 22.8 Consensus size: 38
33531025 GAGATCACAA
33531035 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531073 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531111 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531149 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531187 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531225 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531263 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531301 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531339 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531377 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531415 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531453 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531491 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531529 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531567 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531605 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531643 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531681 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531719 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531757 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531795 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531833 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
1 CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
33531871 CAGATTTCTATCCTTAATTATAGGGATTCCAA
1 CAGATTTCTATCCTTAATTATAGGGATTCCAA
33531903 CATTTTTCAA
Statistics
Matches: 830, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 830 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (38 bp):
CAGATTTCTATCCTTAATTATAGGGATTCCAATACCAT
Found at i:33535418 original size:36 final size:36
Alignment explanation
Indices: 33535378--33535450 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
33535368 AATACATAGA
33535378 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
1 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
33535414 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
1 AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
33535450 A
1 A
33535451 TATTTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (36 bp):
AAACTTTGAATAAAGTTGCTCATATTTGACATATTT
Found at i:33538394 original size:32 final size:32
Alignment explanation
Indices: 33538358--33538420 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
33538348 GAGGGGGATG
33538358 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTCA
1 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTCA
33538390 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTC
1 GTGTCCTAGTTCAGAAACAGAGTCGAAGCTC
33538421 TCAAAATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (32 bp):
GTGTCCTAGTTCAGAAACAGAGTCGAAGCTCA
Found at i:33557345 original size:28 final size:28
Alignment explanation
Indices: 33557289--33557351 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
33557279 GTCATTATCA
*
33557289 ACCCCATAAGTTATAAAACCCTTCTTAT
1 ACCCCATAAGTTATAAAACCCTTCCTAT
* * **
33557317 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACCCTTCCTAT
33557345 ACCCCAT
1 ACCCCAT
33557352 TAATATGGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACCCTTCCTAT
Found at i:33557930 original size:42 final size:43
Alignment explanation
Indices: 33557845--33557930 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
33557835 ATATTTCATT
*
33557845 TCCATAATCAAACAAATCCAGCACTGTGGAATCAATCAAATTCA
1 TCCATAATCAAACAAATCCAGCAC-GTGGAATCAAACAAATTCA
*
33557889 TCCATAATCAAACAAATCGTA-CAC-TGGAATCAAACAAATTCA
1 TCCATAATCAAACAAATC-CAGCACGTGGAATCAAACAAATTCA
33557931 GAAAATTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 17 0.44
44 21 0.54
45 1 0.03
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.22
Consensus pattern (43 bp):
TCCATAATCAAACAAATCCAGCACGTGGAATCAAACAAATTCA
Found at i:33561256 original size:26 final size:26
Alignment explanation
Indices: 33561219--33561300 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
33561209 TGATACAAAT
* * *
33561219 TGATAATAGGTTATGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33561245 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33561271 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33561297 TGAT
1 TGAT
33561301 TGGAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33562953 original size:27 final size:26
Alignment explanation
Indices: 33562913--33563078 Score: 179
Period size: 27 Copynumber: 6.2 Consensus size: 26
33562903 AGGAAGCGTC
*
33562913 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
33562940 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
33562967 CTAGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
33562994 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
33563021 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTG-AT
* * *
33563049 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
33563075 CTGG
1 CTGG
33563079 CAGCCATGCT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.07
27 93 0.79
28 17 0.14
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:33563077 original size:54 final size:54
Alignment explanation
Indices: 33562913--33563078 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
33562903 AGGAAGCGTC
*
33562913 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
33562967 CTAGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* ** * *
33563021 CTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
33563075 CTGG
1 CTGG
33563079 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 83 0.82
55 18 0.18
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:33565538 original size:40 final size:41
Alignment explanation
Indices: 33565494--33565580 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
33565484 TCAAATACAT
33565494 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * * *
33565534 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
33565575 ATAAAA
1 TTAAAA
33565581 ATTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:33567376 original size:12 final size:12
Alignment explanation
Indices: 33567359--33567392 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
33567349 CGGCCCGCCC
33567359 ATATTAATTTTT
1 ATATTAATTTTT
*
33567371 ATATTATTTTTT
1 ATATTAATTTTT
33567383 ATA-TAATTTT
1 ATATTAATTTT
33567393 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:33567552 original size:30 final size:29
Alignment explanation
Indices: 33567516--33567577 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
33567506 ACTTAATAAG
33567516 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAA-AAAATTAA
*
33567546 CAAATGCCTTTAAAATAATAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAATTAA
33567575 CAA
1 CAA
33567578 TAAAATTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (29 bp):
CAAATGCCTCTAAAATAATAAAAAATTAA
Found at i:33567769 original size:17 final size:17
Alignment explanation
Indices: 33567747--33567780 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33567737 TCTTACCCGA
33567747 GGCACATCACACTCTTT
1 GGCACATCACACTCTTT
*
33567764 GGCACATCATACTCTTT
1 GGCACATCACACTCTTT
33567781 AGCCTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (17 bp):
GGCACATCACACTCTTT
Found at i:33568467 original size:34 final size:34
Alignment explanation
Indices: 33568424--33568491 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
33568414 GTAGCAACAT
*
33568424 CAAATCAGCAGGAAATTAATATCCTTTCACTTTC
1 CAAAGCAGCAGGAAATTAATATCCTTTCACTTTC
*
33568458 CAAAGCAGCAGGAAATTCATATCCTTTCACTTTC
1 CAAAGCAGCAGGAAATTAATATCCTTTCACTTTC
33568492 AGTGGACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (34 bp):
CAAAGCAGCAGGAAATTAATATCCTTTCACTTTC
Found at i:33571884 original size:21 final size:21
Alignment explanation
Indices: 33571824--33571929 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
33571814 TTCCATTTAG
* *
33571824 CTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* * *
33571845 CTCATATAAG-TTTTCGTTCAA
1 CTCTTATGAGCTTCT-GTTCAA
33571866 CTCTTATGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * * * *
33571887 CCCTTATGGGTTTCTGTTTAG
1 CTCTTATGAGCTTCTGTTCAA
* * *
33571908 CACTTATGTGGTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
33571929 C
1 C
33571930 CTTCGGGCTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
20 3 0.05
21 59 0.91
22 3 0.05
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:33580107 original size:22 final size:21
Alignment explanation
Indices: 33580079--33580120 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33580069 AAGGCCGTGG
33580079 CTTCCTTTCTTCTTTCTCTTTT
1 CTTCCTTT-TTCTTTCTCTTTT
*
33580101 CTTCCTTTTTCTTTTTCTTT
1 CTTCCTTTTTCTTTCTCTTT
33580121 CTTTTTCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTCCTTTTTCTTTCTCTTTT
Found at i:33580118 original size:16 final size:17
Alignment explanation
Indices: 33580091--33580127 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
33580081 TCCTTTCTTC
33580091 TTTCTCTTTTCTTCCTT
1 TTTCTCTTTTCTTCCTT
*
33580108 TTTCT-TTTTCTTTCTT
1 TTTCTCTTTTCTTCCTT
33580124 TTTC
1 TTTC
33580128 GTTTGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTCTTTTCTTCCTT
Found at i:33581894 original size:4 final size:4
Alignment explanation
Indices: 33581885--33581918 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
33581875 ACAAATTGTT
* *
33581885 TTTA TTTA TTTA TTTA TTCA TTTA TTTG TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
33581919 ACCTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33584202 original size:78 final size:76
Alignment explanation
Indices: 33584061--33584496 Score: 557
Period size: 78 Copynumber: 5.6 Consensus size: 76
33584051 GGCACGAAGG
* * * * * *
33584061 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTATCCCGGATATAATACCAGCACAAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
33584126 GCGGGATTTAA
66 GCGGGATTTAA
** * * **
33584137 CCCGGATATTTTACCAACATGAAGCCTGCAGGTCTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGC-GGGATTTAA-CCCGGATATAATACCAGCACGAAGC
33584202 CTGCGGGATTTAA
64 CTGCGGGATTTAA
** * * **
33584215 CCCGGATATTTTACCAACATGAAGCCTGCAGGTCTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGC-GGGATTTAA-CCCGGATATAATACCAGCACGAAGC
33584280 CTGCGGGATTTAA
64 CTGCGGGATTTAA
**
33584293 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
**
33584358 GCCGGTCTTTAA
66 G-CGGGATTTAA
* **
33584370 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGTTATTTTACCAGCACGAAGCC
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
**
33584435 TGCCGGTCTTTAA
65 TG-CGGGATTTAA
33584448 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
33584497 CATCGAATAT
Statistics
Matches: 331, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
76 48 0.15
77 20 0.06
78 263 0.79
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:33584297 original size:116 final size:114
Alignment explanation
Indices: 33584061--33584496 Score: 557
Period size: 116 Copynumber: 3.8 Consensus size: 114
33584051 GGCACGAAGG
* * * * * *
33584061 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTATCCCGGATATAATACCAGCACAAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
** * * **
33584126 GCGGGATTTAACCCGGATATTTTACCAACATGAAGCCTGCAGGTCTTTAA
66 GCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGC-GGGATTTAA
** * *
33584176 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAACATGAAGCC
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
**
33584241 TGCAGGTCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
65 TGC-GGGATTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
33584293 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
**
33584358 GCCGGTCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
66 G-CGGGATTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** **
33584409 CCCGGTTATTTTACCAGCACGAAGCCTGCCGGTCTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTG-CGGGATTTAA-CCCGGATATAATACCAGCACGAAGC
33584474 CTGCGGGATTTAACCCGGATATA
64 CTGCGGGATTTAACCCGGATATA
33584497 CATCGAATAT
Statistics
Matches: 286, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
116 204 0.71
117 31 0.11
118 51 0.18
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (114 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:33584395 original size:194 final size:194
Alignment explanation
Indices: 33584060--33584496 Score: 757
Period size: 194 Copynumber: 2.3 Consensus size: 194
33584050 AGGCACGAAG
* * * * *
33584060 GCCCGAATATAATACCAGCACTAGGCCTGCGAGATTTATCCCGGATATAATACCAGCACAAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCC
*
33584125 TGCGGGATTTAACCCGGATATTTTACCAACATGAAGCCTGCAGGTCTTTAAGCCCGGATATAATA
66 TGCGGGATTTAACCCGGATATTTTACCAACACGAAGCCTGCAGGTCTTTAAGCCCGGATATAATA
*
33584190 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAACATGAAGCCTGCAGGTCTTTAA
131 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAACACGAAGCCTGCAGGTCTTTAA
*
33584254 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCC
* *
33584319 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCCGGTCTTTAAGCCCGGATATAATA
66 TGCGGGATTTAACCCGGATATTTTACCAACACGAAGCCTGCAGGTCTTTAAGCCCGGATATAATA
* * *
33584384 CCAGCACGAAGCCTGCGGGATTTAACCCGGTTATTTTACCAGCACGAAGCCTGCCGGTCTTTAA
131 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAACACGAAGCCTGCAGGTCTTTAA
33584448 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
33584497 CATCGAATAT
Statistics
Matches: 230, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 230 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (194 bp):
GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCC
TGCGGGATTTAACCCGGATATTTTACCAACACGAAGCCTGCAGGTCTTTAAGCCCGGATATAATA
CCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAACACGAAGCCTGCAGGTCTTTAA
Found at i:33585625 original size:5 final size:5
Alignment explanation
Indices: 33585599--33585656 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
33585589 ATGTGTTAAA
* *
33585599 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
33585648 ATATT ATAT
1 ATATT ATAT
33585657 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:33585635 original size:10 final size:9
Alignment explanation
Indices: 33585600--33585657 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
33585590 TGTGTTAAAA
33585600 TATATATAT
1 TATATATAT
*
33585609 TAAAT-TAT
1 TATATATAT
33585617 TAT-TATAT
1 TATATATAT
33585625 TATAGTATAT
1 TATA-TATAT
33585635 TATAT-TA-
1 TATATATAT
33585642 TATATTATAT
1 TATA-TATAT
33585652 TATATA
1 TATATA
33585658 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:33585647 original size:12 final size:12
Alignment explanation
Indices: 33585602--33585657 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
33585592 TGTTAAAATA
*
33585602 TATATATTAAAT
1 TATATATTATAT
33585614 TAT-TATTATATT
1 TATATATTATA-T
33585626 ATAGTATATTATAT
1 -TA-TATATTATAT
33585640 TATATATTATAT
1 TATATATTATAT
33585652 TATATA
1 TATATA
33585658 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:33586997 original size:16 final size:17
Alignment explanation
Indices: 33586978--33587012 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
33586968 ATAGATATAT
33586978 ATATATTGAATA-TTGA
1 ATATATTGAATATTTGA
*
33586994 ATATATTGATTATTTGA
1 ATATATTGAATATTTGA
33587011 AT
1 AT
33587013 TGAATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
ATATATTGAATATTTGA
Found at i:33597897 original size:37 final size:37
Alignment explanation
Indices: 33597836--33597944 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
33597826 TACGTATGAT
33597836 CACTTATCAC-TTG-TTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
33597871 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
33597908 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
33597945 TAAAGCTATC
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
35 10 0.14
36 3 0.04
37 58 0.82
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:33597961 original size:46 final size:46
Alignment explanation
Indices: 33597908--33598274 Score: 446
Period size: 46 Copynumber: 7.6 Consensus size: 46
33597898 TAAGTGTAGC
* **
33597908 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
33597954 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
33598000 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
33598052 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
33598104 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
33598150 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
33598196 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
33598248 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
33598275 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:33598027 original size:52 final size:52
Alignment explanation
Indices: 33597951--33598268 Score: 426
Period size: 52 Copynumber: 6.3 Consensus size: 52
33597941 TAGCTAAAGC
* *
33597951 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
33598004 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
33598056 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
33598108 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
33598154 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
33598200 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
33598252 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
33598269 ATCAGAAGTA
Statistics
Matches: 239, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:33598216 original size:196 final size:196
Alignment explanation
Indices: 33597908--33598260 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
33597898 TAAGTGTAGC
* * * * *
33597908 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
33597973 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
33598038 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
33598103 T
196 T
*
33598104 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
33598169 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
33598234 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
33598261 ATCACTTGAT
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:33598263 original size:98 final size:97
Alignment explanation
Indices: 33597908--33598274 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
33597898 TAAGTGTAGC
* * * *
33597908 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
33597973 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
33598007 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
33598072 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
33598111 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
33598171 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
33598203 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
33598268 GATCAGA
65 GATCAGA
33598275 AGTACTCAAA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 150 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:33601609 original size:15 final size:15
Alignment explanation
Indices: 33601589--33601619 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33601579 TAAGAGAATG
*
33601589 CGCTAGGAGGGGCTA
1 CGCTAGGAGGGACTA
33601604 CGCTAGGAGGGACTA
1 CGCTAGGAGGGACTA
33601619 C
1 C
33601620 ACCAGGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.42, T:0.13
Consensus pattern (15 bp):
CGCTAGGAGGGACTA
Found at i:33602323 original size:17 final size:17
Alignment explanation
Indices: 33602301--33602336 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
33602291 TGTAATTTGA
33602301 TCTTCTTCTTCTT-CTTT
1 TCTTCTTCTT-TTGCTTT
33602318 TCTTCTTCTTTTGCTTT
1 TCTTCTTCTTTTGCTTT
33602335 TC
1 TC
33602337 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (17 bp):
TCTTCTTCTTTTGCTTT
Found at i:33604398 original size:12 final size:12
Alignment explanation
Indices: 33604381--33604407 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33604371 AAGGATAAGC
33604381 TTCGATGACAGT
1 TTCGATGACAGT
33604393 TTCGATGACAGT
1 TTCGATGACAGT
33604405 TTC
1 TTC
33604408 AACTGCACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (12 bp):
TTCGATGACAGT
Found at i:33606562 original size:15 final size:15
Alignment explanation
Indices: 33606539--33606569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33606529 TTACACTAAC
*
33606539 TATAGTATTTAAAAA
1 TATAATATTTAAAAA
33606554 TATAATATTTAAAAA
1 TATAATATTTAAAAA
33606569 T
1 T
33606570 GAAAGGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TATAATATTTAAAAA
Found at i:33608467 original size:6 final size:6
Alignment explanation
Indices: 33608459--33608500 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
33608449 TCATTACCCT
* * *
33608459 TTGCCT TTGCCA TTGCCA TTGCCC TTGCCC TTGCCC TTGCCC
1 TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC
33608501 GCATCATCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.05, C:0.43, G:0.17, T:0.36
Consensus pattern (6 bp):
TTGCCC
Found at i:33611365 original size:8 final size:8
Alignment explanation
Indices: 33611354--33611458 Score: 56
Period size: 8 Copynumber: 12.6 Consensus size: 8
33611344 TTAAAAATTT
33611354 TAAAAATA
1 TAAAAATA
33611362 TAAAAA-A
1 TAAAAATA
*
33611369 TACAAAAAA
1 TA-AAAATA
33611378 GGTAAAAAATTA
1 --T-AAAAA-TA
*
33611390 TAAAATTA
1 TAAAAATA
33611398 TTAAAAATGA
1 -TAAAAAT-A
33611408 -AAAAATA
1 TAAAAATA
*
33611415 TTAAAATA
1 TAAAAATA
*
33611423 CAAAAATA
1 TAAAAATA
*
33611431 T-AAATTA
1 TAAAAATA
*
33611438 TATAAACTA
1 TA-AAAATA
33611447 TAAAAATA
1 TAAAAATA
33611455 -AAAA
1 TAAAA
33611459 TTATGAAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
7 14 0.18
8 35 0.46
9 18 0.24
10 2 0.03
11 5 0.07
12 2 0.03
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:33611367 original size:9 final size:9
Alignment explanation
Indices: 33611336--33611434 Score: 53
Period size: 9 Copynumber: 11.2 Consensus size: 9
33611326 TATATCGTAC
*
33611336 AAAAATATTT
1 AAAAATA-TA
* *
33611346 AAAAATTTT
1 AAAAATATA
33611355 AAAAATATA
1 AAAAATATA
*
33611364 AAAAATACA
1 AAAAATATA
**
33611373 AAAAAGGTA
1 AAAAATATA
33611382 AAAAAT-TA
1 AAAAATATA
* *
33611390 TAAAATTATT
1 -AAAAATATA
*
33611400 AAAAAT-GA
1 AAAAATATA
33611408 AAAAATAT-
1 AAAAATATA
* *
33611416 TAAAATA-C
1 AAAAATATA
33611424 AAAAATATA
1 AAAAATATA
33611433 AA
1 AA
33611435 TTATATAAAC
Statistics
Matches: 67, Mismatches: 17, Indels: 11
0.71 0.18 0.12
Matches are distributed among these distances:
8 20 0.30
9 40 0.60
10 7 0.10
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:33611376 original size:18 final size:18
Alignment explanation
Indices: 33611355--33611434 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
33611345 TAAAAATTTT
33611355 AAAAATATAAAAAATACA
1 AAAAATATAAAAAATACA
** *
33611373 AAAAAGGTAAAAAATTA-T
1 AAAAATATAAAAAA-TACA
* * *
33611391 AAAATTATTAAAAAT-GA
1 AAAAATATAAAAAATACA
*
33611408 AAAAATAT-TAAAATAC-
1 AAAAATATAAAAAATACA
33611424 AAAAATATAAA
1 AAAAATATAAA
33611435 TTATATAAAC
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
16 13 0.28
17 9 0.20
18 22 0.48
19 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAATATAAAAAATACA
Found at i:33611383 original size:26 final size:26
Alignment explanation
Indices: 33611354--33611428 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 26
33611344 TTAAAAATTT
33611354 TAAAAATATAAAAAATACAAAAAAGG
1 TAAAAATATAAAAAATACAAAAAAGG
* ** *
33611380 TAAAAA-ATTATAAAATTATTAAAAATG
1 TAAAAATA-TA-AAAAATACAAAAAAGG
* *
33611407 AAAAAATAT-TAAAATACAAAAA
1 TAAAAATATAAAAAATACAAAAA
33611429 TATAAATTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
25 10 0.27
26 8 0.22
27 18 0.49
28 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.23
Consensus pattern (26 bp):
TAAAAATATAAAAAATACAAAAAAGG
Found at i:33611420 original size:36 final size:36
Alignment explanation
Indices: 33611333--33611420 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
33611323 AAATATATCG
* *
33611333 TACAAAAATATTTAAAAATTTTAAAAATATAAAAAA
1 TACAAAAATATTAAAAAATTATAAAAATATAAAAAA
* * *
33611369 TACAAAAA-AGGTAAAAAATTATAAAATTATTAAAAA
1 TACAAAAATA-TTAAAAAATTATAAAAATATAAAAAA
33611405 TGA-AAAAATATTAAAA
1 T-ACAAAAATATTAAAA
33611421 TACAAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
35 1 0.02
36 40 0.93
37 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.27
Consensus pattern (36 bp):
TACAAAAATATTAAAAAATTATAAAAATATAAAAAA
Done.