Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 73 of 313
Found at i:24727433 original size:43 final size:43
Alignment explanation
Indices: 24727288--24727433 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
24727278 TATCCTAGAT
* * * * * *
24727288 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTATCCCAGAT
1 ATGGTCTTACACGTAATCTCAATA-CGATGCCAATGTCCCAGAC
* * * *
24727331 AGGGTCTTACACGAAAT-TATAATACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCT-CAATACGATGCCAATGTCCCAGAC
* *
24727374 ATGGTTTTACACGTAATCTCAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCAATACGATGCCAATGTCCCAGAC
*
24727417 ATGGTCTTACATGTAAT
1 ATGGTCTTACACGTAAT
24727434 TACATCTAGA
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
43 78 0.95
44 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCAATACGATGCCAATGTCCCAGAC
Found at i:24736409 original size:13 final size:13
Alignment explanation
Indices: 24736391--24736416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24736381 TTTAACATAC
24736391 GTCTAGACCGTGT
1 GTCTAGACCGTGT
24736404 GTCTAGACCGTGT
1 GTCTAGACCGTGT
24736417 CAAAATAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GTCTAGACCGTGT
Found at i:24736856 original size:10 final size:10
Alignment explanation
Indices: 24736841--24736883 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
24736831 CAATTCACCA
24736841 ACCAAATCAT
1 ACCAAATCAT
*
24736851 ACCAAATCTAA
1 ACCAAATC-AT
24736862 ACCAAAATCAT
1 ACC-AAATCAT
*
24736873 ACCAAAGCAT
1 ACCAAATCAT
24736883 A
1 A
24736884 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:24737725 original size:43 final size:42
Alignment explanation
Indices: 24737605--24737759 Score: 122
Period size: 43 Copynumber: 3.6 Consensus size: 42
24737595 AGCTAGTTCA
* *
24737605 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTA-ATGTAAATCAAATAT-G
* * *
24737648 ATGCC-ACTGTCCCAGACAG-GGCCTT-ATGCGAAATCAAATATG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTAATG-TAAATCAAATATG
* * *
24737690 ATGCCAATGTCTCAAACGTGGTCTTAAATGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAAACGTGGTCTT-AATGTAAATCA-AA-TATG
*
24737734 ATGCCAACGTCCCAAACTTGGTCTTA
1 ATGCCAACGTCCCAAACGTGGTCTTA
24737760 CACGATAACA
Statistics
Matches: 90, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
41 4 0.04
42 20 0.22
43 37 0.41
44 28 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACGTGGTCTTAATGTAAATCAAATATG
Found at i:24742249 original size:40 final size:40
Alignment explanation
Indices: 24742194--24742275 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
24742184 TCAGTCCTCA
24742194 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
1 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
24742234 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
1 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
24742274 GA
1 GA
24742276 TATTCATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (40 bp):
GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
Found at i:24744713 original size:42 final size:42
Alignment explanation
Indices: 24744640--24744762 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
24744630 AAGCAATCAT
* * * * *
24744640 ACTGGCACATAAGTGCATCATAAAATGAACCGACGCAAATAG
1 ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAATAG
* * *
24744682 ACTGGCATATAAATGCATCATCAGATAAACCGAAGGAAATAT
1 ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAATAG
* * * * *
24744724 ACTAGTATGTAAGTGCATCATCGGATAAACCAAAGCAAA
1 ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAA
24744763 AATTGGCACT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (42 bp):
ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAATAG
Found at i:24744993 original size:43 final size:43
Alignment explanation
Indices: 24744918--24745126 Score: 160
Period size: 43 Copynumber: 4.9 Consensus size: 43
24744908 AACTATACTA
* *
24744918 GCACACACAGTGCATCA-CTGAACATACTAAAGCAACTATATCG
1 GCACACACAGTGCATCATC-GGACATACCAAAGCAACTATATCG
* * *
24744961 GCACACACAGTGCATCATCGGACAAACCAAAGCAAATATATTG
1 GCACACACAGTGCATCATCGGACATACCAAAGCAACTATATCG
* * * * * * *
24745004 GCACAC-TA-TGCATAATCAGATATATCAAAGTATCTATA-CTG
1 GCACACACAGTGCATCATCGGACATACCAAAGCAACTATATC-G
* * *
24745045 GCACACATAGTGCATCATC-GA-ATTACCAAAGAAACTATACCG
1 GCACACACAGTGCATCATCGGACA-TACCAAAGCAACTATATCG
* * * * * *
24745087 GCACACACTGTACATCATCAGATATATCGAAGCAACTATA
1 GCACACACAGTGCATCATCGGACATACCAAAGCAACTATA
24745127 CTAACATACA
Statistics
Matches: 133, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
41 30 0.23
42 35 0.26
43 66 0.50
44 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.21
Consensus pattern (43 bp):
GCACACACAGTGCATCATCGGACATACCAAAGCAACTATATCG
Found at i:24748394 original size:72 final size:72
Alignment explanation
Indices: 24748271--24748411 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
24748261 TTACACATAG
* *
24748271 AGTGCATCATTGGATATACCAAAGAAACTATACTAGCACACACAATGCATCATCGGAAATACCAA
1 AGTGCATCATTGAATATACCAAAGAAACTATACTAGCACACACAATACATCATCGGAAATACCAA
24748336 AGGACAC
66 AGGACAC
* * * * * * *
24748343 AGTGCATCATTGAATATATCGAAGAAAAC-ATATTGGCACACACAGTACATCATCGGATATGCCA
1 AGTGCATCATTGAATATACCAAAG-AAACTATACTAGCACACACAATACATCATCGGAAATACCA
24748407 AAGGA
65 AAGGA
24748412 TAACCTGTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 55 0.93
73 4 0.07
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (72 bp):
AGTGCATCATTGAATATACCAAAGAAACTATACTAGCACACACAATACATCATCGGAAATACCAA
AGGACAC
Found at i:24748646 original size:17 final size:15
Alignment explanation
Indices: 24748607--24748636 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24748597 GTATTGTACG
*
24748607 ATATGTTTCAACTTA
1 ATATATTTCAACTTA
24748622 ATATATTTCAACTTA
1 ATATATTTCAACTTA
24748637 CATTCTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATATTTCAACTTA
Found at i:24752915 original size:39 final size:40
Alignment explanation
Indices: 24752820--24753081 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24752810 TTGAATGATG
*
24752820 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24752858 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
24752899 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24752938 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24752977 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
24753016 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
24753055 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24753082 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24766261 original size:35 final size:35
Alignment explanation
Indices: 24766192--24766319 Score: 130
Period size: 35 Copynumber: 3.6 Consensus size: 35
24766182 AGTACATCAA
* * *
24766192 CAATCCAACCAAAACACATCAGATGCTCACAAGAGC
1 CAATCCAACTAAAACACACCA-ATGCTCATAAGAGC
*
24766228 CAATCCATCTAAAACACACCAATGCTCATAAGAGC
1 CAATCCAACTAAAACACACCAATGCTCATAAGAGC
* *** * *
24766263 TAATCCCTTTGAAACACACCAATGCTCATAAAAGC
1 CAATCCAACTAAAACACACCAATGCTCATAAGAGC
* * *
24766298 TAATCCAACTGAAACCCACCAA
1 CAATCCAACTAAAACACACCAA
24766320 AACAGAAAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 61 0.77
36 18 0.23
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.16
Consensus pattern (35 bp):
CAATCCAACTAAAACACACCAATGCTCATAAGAGC
Found at i:24767707 original size:39 final size:35
Alignment explanation
Indices: 24767609--24767788 Score: 204
Period size: 35 Copynumber: 5.1 Consensus size: 35
24767599 GGTTGTTATA
24767609 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
1 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
** *
24767644 AATGTTGTGGC-AGAATATTAAATGAATGAAGTAAG
1 GGTGTTGTGGCGA-AATATTAAATGAATGAAGTAAC
24767679 GGTGTTGTGGCGAAATATTAAAAT-AATGAAGTAAC
1 GGTGTTGTGGCGAAATATT-AAATGAATGAAGTAAC
* * ** *
24767714 AGTGTTGTGGTGGGATATTAAATGAATGAAGTATC
1 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
* * * *
24767749 GGTGTTGTGGC-AGTATGTTAAAAGAATGAAGTATC
1 GGTGTTGTGGCGA-AATATTAAATGAATGAAGTAAC
24767784 GGTGT
1 GGTGT
24767789 AGTAACGGGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
34 5 0.04
35 113 0.92
36 5 0.04
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (35 bp):
GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
Found at i:24767722 original size:70 final size:70
Alignment explanation
Indices: 24767609--24767781 Score: 233
Period size: 70 Copynumber: 2.5 Consensus size: 70
24767599 GGTTGTTATA
24767609 GGTGTTGTGGCGAAATATT-AAATGAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGA
1 GGTGTTGTGGCGAAATATTAAAAT-AATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGA
*
24767673 AGTAAG
65 AGTAAC
* ** *
24767679 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGTGGGATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGAA
*
24767744 GTATC
66 GTAAC
* * *
24767749 GGTGTTGTGGC-AGTATGTTAAAAGAATGAAGTA
1 GGTGTTGTGGCGA-AATATTAAAATAATGAAGTA
24767782 TCGGTGTAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
69 1 0.01
70 87 0.95
71 4 0.04
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (70 bp):
GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGAA
GTAAC
Found at i:24767799 original size:70 final size:70
Alignment explanation
Indices: 24767609--24767824 Score: 227
Period size: 70 Copynumber: 3.1 Consensus size: 70
24767599 GGTTGTTATA
* * * ** * *
24767609 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGAA
**
24767674 GTAAG
66 GTATC
* * ***
24767679 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGTGGGATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGAA
24767744 GTATC
66 GTATC
* * * * * * *
24767749 GGTGTTGTGGC-AGTATGTTAAAAGAATGAAGTATCGGTGTAGTAACGGGATGTTAATTGAAAGA
1 GGTGTTGTGGCGA-AATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGA
24767813 AGTATC
65 AGTATC
24767819 GGTGTT
1 GGTGTT
24767825 CTGGAAAAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
69 1 0.01
70 124 0.99
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.31
Consensus pattern (70 bp):
GGTGTTGTGGCGAAATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGAA
GTATC
Found at i:24767802 original size:35 final size:35
Alignment explanation
Indices: 24767725--24767823 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
24767715 GTGTTGTGGT
* * **
24767725 GGGATATTAAATGAATGAAGTATCGGTGTTGTGGC
1 GGGATGTTAAATGAATGAAGTATCGGTGTAGTAAC
* * *
24767760 AGTATGTTAAAAGAATGAAGTATCGGTGTAGTAAC
1 GGGATGTTAAATGAATGAAGTATCGGTGTAGTAAC
* *
24767795 GGGATGTTAATTGAAAGAAGTATCGGTGT
1 GGGATGTTAAATGAATGAAGTATCGGTGT
24767824 TCTGGAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.30
Consensus pattern (35 bp):
GGGATGTTAAATGAATGAAGTATCGGTGTAGTAAC
Found at i:24787402 original size:40 final size:40
Alignment explanation
Indices: 24787342--24787458 Score: 180
Period size: 40 Copynumber: 2.9 Consensus size: 40
24787332 CGAATACACG
* * * * *
24787342 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
24787382 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
24787422 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
24787459 TTAGTAACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:24787483 original size:40 final size:40
Alignment explanation
Indices: 24787355--24787537 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 40
24787345 CCAGCATGAT
* * *
24787355 TGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAA
* * *
24787395 TGCTCTTCGGGACTTAGCCCGGATACA-TCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAA
* * *
24787435 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAA
* * *
24787476 TGC-CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAA
1 TGCTCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAA
*
24787516 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
24787538 CATCATTCGA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 98 0.82
41 18 0.15
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
Found at i:24787882 original size:29 final size:29
Alignment explanation
Indices: 24787843--24787921 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
24787833 CTTAATAATC
*
24787843 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
24787873 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
24787902 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
24787922 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:24789489 original size:12 final size:12
Alignment explanation
Indices: 24789474--24789507 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
24789464 AAATCGAGCC
24789474 ATAAATATTTTT
1 ATAAATATTTTT
24789486 ATAAATATTTTT
1 ATAAATATTTTT
24789498 ATAAATATTT
1 ATAAATATTT
24789508 ATGGAGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:24791402 original size:20 final size:19
Alignment explanation
Indices: 24791377--24791442 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 19
24791367 ACGAGCTTCC
24791377 GTTAACTCATATGAGTTTCA
1 GTTAACTC-TATGAGTTTCA
* * *
24791397 GTTAACCCTTTTGGGGTTTCA
1 GTTAACTC-TAT-GAGTTTCA
*
24791418 GTTCAACTCTGATGAGCTTCA
1 GTT-AACTCT-ATGAGTTTCA
24791439 GTTA
1 GTTA
24791443 GCCTCCGGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 10 0.29
21 20 0.57
22 5 0.14
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (19 bp):
GTTAACTCTATGAGTTTCA
Found at i:24791479 original size:39 final size:39
Alignment explanation
Indices: 24791433--24791507 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
24791423 ACTCTGATGA
24791433 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
24791472 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTA
24791508 CCGTTTAGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.13, C:0.28, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:24791513 original size:14 final size:14
Alignment explanation
Indices: 24791494--24791521 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24791484 CTTCGGGCTT
24791494 CCGTTTAGCACTTA
1 CCGTTTAGCACTTA
24791508 CCGTTTAGCACTTA
1 CCGTTTAGCACTTA
24791522 TGTGCTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
CCGTTTAGCACTTA
Found at i:24791517 original size:53 final size:53
Alignment explanation
Indices: 24791455--24791560 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
24791445 CTCCGGGCTT
24791455 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
24791508 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
24791561 TGTGCTTTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (53 bp):
CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
Found at i:24791585 original size:39 final size:39
Alignment explanation
Indices: 24791508--24791586 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
24791498 TTAGCACTTA
* * *
24791508 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTT
1 CCGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
* *
24791547 CCGTTTAGCACTTATGTGCTTTAGCTAGATTTCAGGCTT
1 CCGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
24791586 C
1 C
24791587 AGATCACGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (39 bp):
CCGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
Found at i:24796407 original size:37 final size:39
Alignment explanation
Indices: 24796343--24796431 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
24796333 TAAAATTATA
* **
24796343 TTTAATATAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAA-AAAATAATTATTATATTTATGTAATGTTT
24796382 TTTAATATAAAAAA-AATTATTATATTTATGGTAATGTTT
1 TTTAATATAAAAAATAATTATTATATTTAT-GTAATGTTT
24796421 TTTAATATAAA
1 TTTAATATAAA
24796432 TAATTTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 14 0.31
38 4 0.09
39 27 0.60
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (39 bp):
TTTAATATAAAAAATAATTATTATATTTATGTAATGTTT
Found at i:24798428 original size:369 final size:364
Alignment explanation
Indices: 24797791--24798872 Score: 1520
Period size: 369 Copynumber: 3.0 Consensus size: 364
24797781 TTTGGTTAGT
* ** ** *
24797791 TGAAAATGCAGCTGCTTAAGGAGATAAGAAGTGCATGCAAAGCAATAAAATGAGGATATGGGCTT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATA-AGGCTT
** * * *
24797856 CAATCATTTGATGAAGTGACAATGCAACACTTAGCGAATGTTAAATTGACCATCTTGAAATGAAG
65 CAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAG
* *
24797921 TCATATGGACAGTTGACCTTCTAAGTTCCAACATTGGTGAATTGCCCGTACAATG-TTAGAGAGT
130 -CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAA-GATTAGAGAGT
** *
24797985 AAATGCTATGGAGGAATTCAACTTCAAGTTT-CAGACAAGAAAATAAGAAGCTGCAACCTTAGAT
193 AAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGAT
* *
24798049 TATTACATAAACTGGTGAACACTTGAAGATTGGCATTCACTAAGGAATAAGTGCAAAGCTAGCAG
258 TATTACATAAACTGGT-AACA-TTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCAG
*
24798114 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTATAA
321 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
**
24798158 TGAAACTGTGGCCACTTAAGGAGATAAGAAGTGCATATAGAAGCAATAGAAATGAGGATAAGAGC
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATA-AAGCAATA-AAATGAGGATAAG-GC
* * * *
24798223 TTCAATCATTTGATGAAGTGACAATGTGCCATTTAGCAAATGATAAATTGACCACCTTGGAAGGA
63 TTCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGA
* * *
24798288 AGCCATATGGACACTTGACCTTCTAAGTTCTAA-ATTGGTGCATTGCCAGTAGAAGATTAGAGAG
128 AG-CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAG
* * * *
24798352 TAAATGCCATGAAGGAATTTAACTTCAAGTTTACAAATGAGAAAATAAGAAGCTGCAATCTTAGA
192 TAAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGA
* * *
24798417 TTATTACATAAACTGGTAA-ATAGAAGATCGGCATTCAATAATGAATAAGTACAAAGCTAGCAGC
257 TTATTACATAAACTGGTAACATTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCAGC
*
24798481 TACTAGAGAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
322 TACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
* *
24798524 TGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAACAATAAAAATGAGG-T-AGGCT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATAT-AAAGCAAT-AAAATGAGGATAAGGCT
* *
24798587 TCAATCATTGGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTCGGAATGAA
64 TCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAA
* * *
24798652 G---ATGGACAGTAGGCCTTCTAAGTTCTAACATTGGTGTATTGCCAGTACAAGATTAGAGAGTA
129 GCATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTA
24798714 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
194 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
* * *
24798779 ATTACATAAAATGGCAAACATTTGAAGATTGGGATTCAATAATGAATAAGTGCAAAGCTAG-ATG
259 ATTACATAAACTGG-TAACA-TTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCA-G
* *
24798843 CCACTAGAAATAA-TAGAATTTAGCATAGCA
321 CTACTAGAAA-AAGTAGAATTTTGCATAGCA
24798873 CGGATATAAT
Statistics
Matches: 637, Mismatches: 65, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
359 24 0.04
360 105 0.16
361 2 0.00
362 2 0.00
363 124 0.19
364 4 0.01
365 1 0.00
366 129 0.20
367 36 0.06
368 66 0.10
369 144 0.23
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (364 bp):
TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATAAGGCTTC
AATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAGC
ATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTAAA
TGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATTAT
TACATAAACTGGTAACATTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCAGCTACT
AGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
Found at i:24800590 original size:60 final size:57
Alignment explanation
Indices: 24800508--24800623 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 57
24800498 ACACTGAAAC
* * * *
24800508 CAAACTTAGGTACTTAAATGGGACAAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAGT
1 CAAACTTAAGTACTCAAATGGGAC--A-AAAAACTCAAATACCAAAGTGAACATTGAAGT
* *
24800568 CAAACTTAAGTAC-CAAATTGGGACAAAAAACTCAAATACCGAATTGAACATTGAAG
1 CAAACTTAAGTACTCAAA-TGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAG
24800624 CTAAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 27 0.55
58 1 0.02
59 3 0.06
60 18 0.37
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (57 bp):
CAAACTTAAGTACTCAAATGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAGT
Found at i:24801352 original size:24 final size:24
Alignment explanation
Indices: 24801308--24801354 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
24801298 TTTGACAAGT
24801308 TTAGGTACAAATTGAGAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAGC
24801332 TTAGGTACCAAATT-AGGAAAAAA
1 TTAGGTA-CAAATTGA-GAAAAAA
24801355 ATGTCAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (24 bp):
TTAGGTACAAATTGAGAAAAAAGC
Found at i:24804694 original size:25 final size:25
Alignment explanation
Indices: 24804662--24804709 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24804652 ATCAGCCTAG
24804662 ATAAGCTTCCCATTACATGGCTCAC
1 ATAAGCTTCCCATTACATGGCTCAC
* * *
24804687 ATAAGCTTTCTATTATATGGCTC
1 ATAAGCTTCCCATTACATGGCTC
24804710 GAGAGAGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (25 bp):
ATAAGCTTCCCATTACATGGCTCAC
Found at i:24836046 original size:30 final size:30
Alignment explanation
Indices: 24835990--24836047 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24835980 CACAGCCATA
* *
24835990 ACACACGGGCGTGTGGTCTACGCGTGTGTC
1 ACACACGGGCATGTGGTCTACCCGTGTGTC
24836020 ACACACGGGCATGTGGATC-ACCCGTGTG
1 ACACACGGGCATGTGG-TCTACCCGTGTG
24836048 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGTCTACCCGTGTGTC
Found at i:24845600 original size:22 final size:20
Alignment explanation
Indices: 24845575--24845622 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
24845565 AAAATTGAGC
*
24845575 TTTATCACTTAGCGTAAGGTTG
1 TTTATCACGT-GC-TAAGGTTG
*
24845597 TTTATTCTCGTGCTAAGGTTG
1 TTTA-TCACGTGCTAAGGTTG
24845618 TTTAT
1 TTTAT
24845623 TCTTGTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 6 0.26
23 4 0.17
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (20 bp):
TTTATCACGTGCTAAGGTTG
Found at i:24845637 original size:21 final size:21
Alignment explanation
Indices: 24845589--24845630 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24845579 TCACTTAGCG
24845589 TAAGGTTGTTTATTCTCGTGC
1 TAAGGTTGTTTATTCTCGTGC
*
24845610 TAAGGTTGTTTATTCTTGTGC
1 TAAGGTTGTTTATTCTCGTGC
24845631 ATAGGTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.12, G:0.24, T:0.50
Consensus pattern (21 bp):
TAAGGTTGTTTATTCTCGTGC
Found at i:24849464 original size:30 final size:30
Alignment explanation
Indices: 24849419--24849484 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
24849409 GGGCAGAGAT
* * *
24849419 ACGGCCGTGTGTTTCAGCTGTGTGAAAGAC
1 ACGGTCGTGTATTTCAGCCGTGTGAAAGAC
*
24849449 ACGGTCGTGTATTTCATCCGTGTGAAAGAC
1 ACGGTCGTGTATTTCAGCCGTGTGAAAGAC
*
24849479 ATGGTC
1 ACGGTC
24849485 TAGCACACGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (30 bp):
ACGGTCGTGTATTTCAGCCGTGTGAAAGAC
Found at i:24852742 original size:29 final size:28
Alignment explanation
Indices: 24852721--24852840 Score: 204
Period size: 29 Copynumber: 4.1 Consensus size: 28
24852711 TAATTTAAAT
24852721 TATTAATTAAAATACAACATAAAACCTAA
1 TATTAATTAAAATACAACAT-AAACCTAA
24852750 TATTAATTAAAATACAACATAAAACCTAA
1 TATTAATTAAAATACAACAT-AAACCTAA
24852779 TATTAATTAAAATACAACATAAAACCTAA
1 TATTAATTAAAATACAACAT-AAACCTAA
24852808 TATTAATTAAAATACAACATAAAACCTAA
1 TATTAATTAAAATACAACAT-AAACCTAA
24852837 TATT
1 TATT
24852841 CGAGTTGAAA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.29
Consensus pattern (28 bp):
TATTAATTAAAATACAACATAAACCTAA
Found at i:24852784 original size:58 final size:58
Alignment explanation
Indices: 24852721--24852840 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
24852711 TAATTTAAAT
24852721 TATTAATTAAAATACAACATAAAACCTAATATTAATTAAAATACAACATAAAACCTAA
1 TATTAATTAAAATACAACATAAAACCTAATATTAATTAAAATACAACATAAAACCTAA
24852779 TATTAATTAAAATACAACATAAAACCTAATATTAATTAAAATACAACATAAAACCTAA
1 TATTAATTAAAATACAACATAAAACCTAATATTAATTAAAATACAACATAAAACCTAA
24852837 TATT
1 TATT
24852841 CGAGTTGAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.29
Consensus pattern (58 bp):
TATTAATTAAAATACAACATAAAACCTAATATTAATTAAAATACAACATAAAACCTAA
Found at i:24853734 original size:21 final size:21
Alignment explanation
Indices: 24853710--24853753 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24853700 AAATAGTAGC
*
24853710 AAAATAGTGAAAAAA-AAAGAA
1 AAAATAAT-AAAAAAGAAAGAA
*
24853731 AAAATAATAAAAAAGCAAGAA
1 AAAATAATAAAAAAGAAAGAA
24853752 AA
1 AA
24853754 CAACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAATAATAAAAAAGAAAGAA
Found at i:24853764 original size:22 final size:21
Alignment explanation
Indices: 24853719--24853770 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
24853709 CAAAATAGTG
*
24853719 AAAAAAA--AAGAAAAAATAA
1 AAAAAAAGCAAGAAAAAACAA
*
24853738 TAAAAAAGCAAGAAAACAACAA
1 AAAAAAAGCAAGAAAA-AACAA
*
24853760 AAAAATAGCAA
1 AAAAAAAGCAA
24853771 TTTTTTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
21 7 0.27
22 13 0.50
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAAAGCAAGAAAAAACAA
Found at i:24858830 original size:3 final size:3
Alignment explanation
Indices: 24858822--24858858 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
24858812 ATACAATGGT
24858822 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24858859 CCAAATCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24859394 original size:8 final size:8
Alignment explanation
Indices: 24859383--24859413 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
24859373 GAAGTTAAGT
24859383 TTGTTAGC
1 TTGTTAGC
24859391 TTGTTAGC
1 TTGTTAGC
24859399 TTGTTAGC
1 TTGTTAGC
24859407 TTGTTAG
1 TTGTTAG
24859414 TACGAGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.10, G:0.26, T:0.52
Consensus pattern (8 bp):
TTGTTAGC
Found at i:24859411 original size:50 final size:51
Alignment explanation
Indices: 24859352--24859453 Score: 145
Period size: 50 Copynumber: 2.0 Consensus size: 51
24859342 AGGGAGATTA
*
24859352 TTAGCTTGTTAGTAGGAGTAAGAAGTT-AAGTTTGTT-AGCTTGTTAGCTTG
1 TTAGCTTGTTAGTACGAGTAAGAAGTTGAA-TTTGTTAAGCTTGTTAGCTTG
* *
24859402 TTAGCTTGTTAGTACGAGTAAGAGGTTGAATTTGTTAGAGTTTGTTAGCTTG
1 TTAGCTTGTTAGTACGAGTAAGAAGTTGAATTTGTTA-AGCTTGTTAGCTTG
24859454 AGTTATGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 31 0.67
51 2 0.04
52 13 0.28
ACGTcount: A:0.24, C:0.06, G:0.28, T:0.42
Consensus pattern (51 bp):
TTAGCTTGTTAGTACGAGTAAGAAGTTGAATTTGTTAAGCTTGTTAGCTTG
Found at i:24867219 original size:21 final size:21
Alignment explanation
Indices: 24867189--24867236 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
24867179 GTGGCAACAA
*
24867189 ACATGGCTGTGTGGCTACGCC
1 ACATGCCTGTGTGGCTACGCC
* *
24867210 ACATGCCTGTGTGGCTACTCT
1 ACATGCCTGTGTGGCTACGCC
24867231 ACATGC
1 ACATGC
24867237 TCATGTTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (21 bp):
ACATGCCTGTGTGGCTACGCC
Found at i:24867485 original size:9 final size:9
Alignment explanation
Indices: 24867462--24867491 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
24867452 AAACAAGCTT
24867462 AAAACATACC
1 AAAACATA-C
24867472 AAAACATAC
1 AAAACATAC
24867481 AAAACATAC
1 AAAACATAC
24867490 AA
1 AA
24867492 CCTAAATGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAACATAC
Found at i:24871210 original size:46 final size:44
Alignment explanation
Indices: 24871114--24871324 Score: 167
Period size: 46 Copynumber: 4.6 Consensus size: 44
24871104 CTGATGCTAA
* * * * *
24871114 GTCCCAGACATGGTCTTACACTGACACATCT-CGTAGCCAATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTC-TCTAAGAAGCCGATGCAT
24871159 GTCCCAGACATGTCTTACACTGGCTTACTTCT-AGAAGCCGATGCAT
1 GTCCCAGACATGTCTTACACTGGC-T-C-TCTAAGAAGCCGATGCAT
* * * *
24871205 GTCCCAAACATGTCTTATACTAGCGCTCGTCTCA-ATGCCGATGCCAT
1 GTCCCAGACATGTCTTACACT-G-GCTC-TCTAAGAAGCCGATG-CAT
* **
24871252 GTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCTC-TAA-GAAGCCGATGCAT
* *
24871299 GTCCTAGACATGTCTTACACTAGCTC
1 GTCCCAGACATGTCTTACACTGGCTC
24871325 ACACAAGTGA
Statistics
Matches: 139, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
44 12 0.09
45 13 0.09
46 66 0.47
47 30 0.22
48 18 0.13
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GTCCCAGACATGTCTTACACTGGCTCTCTAAGAAGCCGATGCAT
Found at i:24878886 original size:44 final size:45
Alignment explanation
Indices: 24878838--24878957 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 45
24878828 CTCGTAGCCA
* *
24878838 ATGCATGTCCCAAACATGTCTTACACTG-GCTTACGTCTCGA-G-GG
1 ATGCATGTCCCAAACATGTCTTACACTGCGC-TA-GTCTCAATGCCG
**
24878882 ATGCATGTCCCTGACATGTCTTACACTAGCGCTAGTCTCAATGCCG
1 ATGCATGTCCCAAACATGTCTTACACT-GCGCTAGTCTCAATGCCG
24878928 ATGCCATGTCCCAAACATGGTCTTACACTG
1 ATG-CATGTCCCAAACAT-GTCTTACACTG
24878958 ACTCTCATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
44 31 0.48
45 4 0.06
46 6 0.09
47 13 0.20
48 10 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTGCGCTAGTCTCAATGCCG
Found at i:24879169 original size:158 final size:158
Alignment explanation
Indices: 24878881--24879193 Score: 520
Period size: 158 Copynumber: 2.0 Consensus size: 158
24878871 CGTCTCGAGG
* * * *
24878881 GATGCATGTCCCTGACATGTCTTACACTAGCGCTAGTCTCAATGCCGATGCCATGTCCCAAACAT
1 GATGCATGTCCCTAACATGTCTTACACTAGCACTAGTCTCAATGCCGATACCATGTCCAAAACAT
*
24878946 GGTCTTACACTGACTCTCATAATGTGGCCAATGCATGTCCTAGACATATCTTAGACTAGCTCACA
66 GGTCTTACACTGACTCTCATAATGTGGCCAATGCATGTCCTAGACATATCTTACACTAGCTCACA
24879011 CAAGTGACCCAAATGTCATAGCATGGCC
131 CAAGTGACCCAAATGTCATAGCATGGCC
* *
24879039 GATGCATG-CCCTAAACATGTCTTACACTAGCACTCGTCTCAATGCCGATACCGTGTCCAAAACA
1 GATGCATGTCCCT-AACATGTCTTACACTAGCACTAGTCTCAATGCCGATACCATGTCCAAAACA
* * *
24879103 TGGTCTTGCACTGGCTCTCATAATGTGGCCAATGCATGTCCTAGACATGTCTTACACTAGCTCAC
65 TGGTCTTACACTGACTCTCATAATGTGGCCAATGCATGTCCTAGACATATCTTACACTAGCTCAC
24879168 ACAAGTGACCCAAATGTCATAGCATG
130 ACAAGTGACCCAAATGTCATAGCATG
24879194 AATATCCGAT
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
157 4 0.03
158 140 0.97
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (158 bp):
GATGCATGTCCCTAACATGTCTTACACTAGCACTAGTCTCAATGCCGATACCATGTCCAAAACAT
GGTCTTACACTGACTCTCATAATGTGGCCAATGCATGTCCTAGACATATCTTACACTAGCTCACA
CAAGTGACCCAAATGTCATAGCATGGCC
Found at i:24880945 original size:16 final size:16
Alignment explanation
Indices: 24880924--24880957 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24880914 AGGAGACTAC
24880924 AATGCACTTACCCAAG
1 AATGCACTTACCCAAG
24880940 AATGCACTTACCCAAG
1 AATGCACTTACCCAAG
24880956 AA
1 AA
24880958 ATATTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (16 bp):
AATGCACTTACCCAAG
Found at i:24886279 original size:31 final size:33
Alignment explanation
Indices: 24886244--24886315 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
24886234 TAGCACTTGG
*
24886244 TTAATATATT-ATTCGGTATTTAAG-TTTAGTT
1 TTAATATATTAATTCGATATTTAAGTTTTAGTT
* *
24886275 TTAATAT-TTAATTTGATATTTAAGTTTTTTGTT
1 TTAATATATTAATTCGATATTTAAG-TTTTAGTT
24886308 TTAATATA
1 TTAATATA
24886316 ATACTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 19 0.56
33 13 0.38
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (33 bp):
TTAATATATTAATTCGATATTTAAGTTTTAGTT
Found at i:24888790 original size:47 final size:46
Alignment explanation
Indices: 24888738--24888866 Score: 136
Period size: 47 Copynumber: 2.7 Consensus size: 46
24888728 TTTGGACAAT
* * *
24888738 GCCACTAGAGTTGTAGTTAAACTACCAAATCAGATACATGTGGTC-AA
1 GCCACTATA-TTGCAGTTAAGCTACCAAA-CAGATACATGTGGTCGAA
* * * *
24888785 GCCACTATATTACAGTCAAGCTGCCAAAACAGATACGTGTGGTCGAA
1 GCCACTATATTGCAGTTAAGCTACC-AAACAGATACATGTGGTCGAA
24888832 -CCACTATAATTGCAGTTAAGCTACCAGAACAGATA
1 GCCACTAT-ATTGCAGTTAAGCTACCA-AACAGATA
24888867 TGTTGTTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
46 33 0.49
47 35 0.51
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (46 bp):
GCCACTATATTGCAGTTAAGCTACCAAACAGATACATGTGGTCGAA
Found at i:24888818 original size:46 final size:47
Alignment explanation
Indices: 24888759--24888866 Score: 139
Period size: 46 Copynumber: 2.3 Consensus size: 47
24888749 TGTAGTTAAA
*
24888759 CTACCAAATCAGATACATGTGGTC-AAGCCACTAT-ATTACAGTCAAG
1 CTACCAAAACAGATACATGTGGTCGAA-CCACTATAATTACAGTCAAG
* * * *
24888805 CTGCCAAAACAGATACGTGTGGTCGAACCACTATAATTGCAGTTAAG
1 CTACCAAAACAGATACATGTGGTCGAACCACTATAATTACAGTCAAG
*
24888852 CTACCAGAACAGATA
1 CTACCAAAACAGATA
24888867 TGTTGTTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 28 0.53
47 25 0.47
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (47 bp):
CTACCAAAACAGATACATGTGGTCGAACCACTATAATTACAGTCAAG
Found at i:24891332 original size:14 final size:13
Alignment explanation
Indices: 24891310--24891337 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24891300 ACTTTTCCAC
24891310 AGTACTTTTTAAA
1 AGTACTTTTTAAA
24891323 AGTACTTTTTAAA
1 AGTACTTTTTAAA
24891336 AG
1 AG
24891338 CATTGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (13 bp):
AGTACTTTTTAAA
Found at i:24891507 original size:19 final size:18
Alignment explanation
Indices: 24891460--24891507 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
24891450 ATATAATGAA
* *
24891460 ATTATATATTTTATAAGT
1 ATTATATATTATATAACT
24891478 ATTA-ATA-TATATAACT
1 ATTATATATTATATAACT
24891494 ATTATTATATTATA
1 ATTA-TATATTATA
24891508 GAGTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 11 0.44
17 3 0.12
18 7 0.28
19 4 0.16
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTATATATTATATAACT
Found at i:24896064 original size:15 final size:13
Alignment explanation
Indices: 24896035--24896061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24896025 GCTCGACAGG
24896035 GACACGCCCGTGT
1 GACACGCCCGTGT
24896048 GACACGCCCGTGT
1 GACACGCCCGTGT
24896061 G
1 G
24896062 TGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:24896895 original size:16 final size:17
Alignment explanation
Indices: 24896866--24896898 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24896856 AGATTGAATT
*
24896866 GAAAAATTATCTAGTTA
1 GAAAAATTAACTAGTTA
24896883 GAAAAA-TAACTAGTTA
1 GAAAAATTAACTAGTTA
24896899 TCAATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (17 bp):
GAAAAATTAACTAGTTA
Found at i:24907185 original size:9 final size:9
Alignment explanation
Indices: 24907171--24907247 Score: 102
Period size: 9 Copynumber: 8.6 Consensus size: 9
24907161 ATAAGTATAA
24907171 AATTAACCG
1 AATTAACCG
*
24907180 AATTAACCA
1 AATTAACCG
*
24907189 AATTAATCG
1 AATTAACCG
24907198 AATTAACCG
1 AATTAACCG
*
24907207 AATT-ACCC
1 AATTAACCG
24907215 AATTTAACCG
1 AA-TTAACCG
24907225 AATTAACCG
1 AATTAACCG
*
24907234 AATTAACTG
1 AATTAACCG
24907243 AATTA
1 AATTA
24907248 TTTGTATAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 5 0.08
9 49 0.83
10 5 0.08
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:24907201 original size:27 final size:27
Alignment explanation
Indices: 24907171--24907240 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
24907161 ATAAGTATAA
*
24907171 AATTAACCGAATTAACCAAATTAATCG
1 AATTAACCGAATTAACCAAATTAACCG
* *
24907198 AATTAACCGAATTACCCAATTTAACCG
1 AATTAACCGAATTAACCAAATTAACCG
24907225 AATTAACCGAATTAAC
1 AATTAACCGAATTAAC
24907241 TGAATTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (27 bp):
AATTAACCGAATTAACCAAATTAACCG
Found at i:24907354 original size:5 final size:5
Alignment explanation
Indices: 24907346--24907371 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24907336 GGTGGGGTAA
24907346 TTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG T
24907372 ACTTGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:24910740 original size:23 final size:24
Alignment explanation
Indices: 24910693--24910737 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
24910683 AGACATTAAA
24910693 TGTAATCTTTAGAAGATATGATTC
1 TGTAATCTTTAGAAGATATGATTC
*
24910717 TGTAATC-TTAG-AGATTTGATT
1 TGTAATCTTTAGAAGATATGATT
24910738 TCTTGATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (24 bp):
TGTAATCTTTAGAAGATATGATTC
Found at i:24918188 original size:13 final size:13
Alignment explanation
Indices: 24918170--24918227 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
24918160 CTCTTATGCC
24918170 TCTTTTTTCCTTT
1 TCTTTTTTCCTTT
*
24918183 TCTTTTTTTCTTT
1 TCTTTTTTCCTTT
24918196 T-TTCTTTTCCTTT
1 TCTT-TTTTCCTTT
*
24918209 TC--CTTTCCTTTT
1 TCTTTTTTCC-TTT
24918221 TCTTTTT
1 TCTTTTT
24918228 CTTTTTCTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
11 5 0.14
12 7 0.19
13 22 0.61
14 2 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTTTTCCTTT
Found at i:24918189 original size:6 final size:6
Alignment explanation
Indices: 24918173--24918235 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
24918163 TTATGCCTCT
* * * *
24918173 TTTTTCC TTTTCTT TTTTTC TTTTT- TCTTTTC CTTTTC CTTTCC TTTTTC
1 TTTTT-C TTTT-TC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC
24918223 TTTTTC TTTTTC T
1 TTTTTC TTTTTC T
24918236 AGGCCTGCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
5 1 0.02
6 37 0.79
7 8 0.17
8 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:24920968 original size:3 final size:3
Alignment explanation
Indices: 24920960--24921014 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
24920950 AAATAGGTCT
24920960 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24921008 TAA TAA T
1 TAA TAA T
24921015 CTTAAGATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:24924843 original size:32 final size:31
Alignment explanation
Indices: 24924807--24924902 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
24924797 TGTATCTAAG
24924807 AAAATGGTAGTTGATATTTGTTATCATTTCAC
1 AAAAT-GTAGTTGATATTTGTTATCATTTCAC
*
24924839 AAAAT-TAATGTTG-TAATTTGTTATGATTTCAC
1 AAAATGT-A-GTTGAT-ATTTGTTATCATTTCAC
* *
24924871 AACATG-A--TGATATTTGTTATTATTTCAC
1 AAAATGTAGTTGATATTTGTTATCATTTCAC
24924899 AAAA
1 AAAA
24924903 CCACATGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
28 21 0.38
29 1 0.02
30 1 0.02
31 3 0.05
32 29 0.53
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (31 bp):
AAAATGTAGTTGATATTTGTTATCATTTCAC
Found at i:24924895 original size:28 final size:29
Alignment explanation
Indices: 24924818--24924902 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
24924808 AAATGGTAGT
24924818 TGATATTTGTTATCATTTCACAAAATTAA
1 TGATATTTGTTATCATTTCACAAAATTAA
* * * *
24924847 TGTTGTAATTTGTTATGATTTCACAACA-TGA
1 TG--AT-ATTTGTTATCATTTCACAAAATTAA
*
24924878 TGATATTTGTTATTATTTCACAAAA
1 TGATATTTGTTATCATTTCACAAAA
24924903 CCACATGTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
28 19 0.41
29 3 0.07
31 5 0.11
32 19 0.41
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (29 bp):
TGATATTTGTTATCATTTCACAAAATTAA
Found at i:24926291 original size:16 final size:18
Alignment explanation
Indices: 24926265--24926299 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24926255 TTTAGATACT
24926265 TTTAAATTTTA-TAAAAA
1 TTTAAATTTTAGTAAAAA
24926282 TTTAAA-TTTAGTAAAAA
1 TTTAAATTTTAGTAAAAA
24926299 T
1 T
24926300 AAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTAAATTTTAGTAAAAA
Found at i:24927305 original size:17 final size:17
Alignment explanation
Indices: 24927283--24927341 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 17
24927273 ATGTTTTCTT
24927283 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTTCATA
*
24927300 TTTCTTTT-GTTT--T-
1 TTTCTTTTATTTTCATA
24927313 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTTCATA
24927330 -TTCTTTTATTTT
1 TTTCTTTTATTTT
24927342 TACTTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 8 0.22
14 4 0.11
16 16 0.44
17 8 0.22
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTCTTTTATTTTCATA
Found at i:24927318 original size:13 final size:13
Alignment explanation
Indices: 24927281--24927355 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 13
24927271 ACATGTTTTC
24927281 TTTTTCTTTTATTT
1 TTTTTCTTTTA-TT
*
24927295 TCATATTTCTTTTGTT
1 T--T-TTTCTTTTATT
24927311 TTTTTCTTTTATT
1 TTTTTCTTTTATT
24927324 TTCATATTCTTTTATT
1 TT--T-TTCTTTTATT
24927340 TTTACTT-TTTTATT
1 TTT--TTCTTTTATT
24927354 TT
1 TT
24927356 GTTCCTTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.24
14 12 0.24
15 3 0.06
16 16 0.31
17 8 0.16
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTATT
Found at i:24927333 original size:29 final size:30
Alignment explanation
Indices: 24927281--24927355 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
24927271 ACATGTTTTC
*
24927281 TTTTTCTTTTATTTTCATATTTCTTTTGTT
1 TTTTTCTTTTATTTTCATATTTCTTTTATT
24927311 TTTTTCTTTTATTTTCATA-TTCTTTTATT
1 TTTTTCTTTTATTTTCATATTTCTTTTATT
24927340 TTTACTT-TTTTATTTT
1 TTT--TTCTTTTATTTT
24927356 GTTCCTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 12 0.29
30 28 0.67
31 2 0.05
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.77
Consensus pattern (30 bp):
TTTTTCTTTTATTTTCATATTTCTTTTATT
Found at i:24927390 original size:9 final size:8
Alignment explanation
Indices: 24927372--24927435 Score: 67
Period size: 9 Copynumber: 7.5 Consensus size: 8
24927362 TAATAAATTC
24927372 TTTTTATT
1 TTTTTATT
24927380 TTTTTACTT
1 TTTTTA-TT
24927389 TTTTTATT
1 TTTTTATT
24927397 TTTTT-TCT
1 TTTTTAT-T
*
24927405 TATTTCATT
1 T-TTTTATT
24927414 TTGTTTATT
1 TT-TTTATT
24927423 TTGTTTATT
1 TT-TTTATT
24927432 TTTT
1 TTTT
24927436 ATTATTAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
7 1 0.02
8 18 0.37
9 29 0.59
10 1 0.02
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:24927394 original size:17 final size:17
Alignment explanation
Indices: 24927372--24927435 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
24927362 TAATAAATTC
24927372 TTTTTATTTTTTTACTT
1 TTTTTATTTTTTTACTT
*
24927389 TTTTTATTTTTTTTCTT
1 TTTTTATTTTTTTACTT
* *
24927406 ATTTCATTTTGTTTA-TT
1 TTTTTATTTT-TTTACTT
24927423 TTGTTTATTTTTT
1 TT-TTTATTTTTT
24927436 ATTATTAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 29 0.74
18 10 0.26
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTTTTACTT
Found at i:24927430 original size:35 final size:32
Alignment explanation
Indices: 24927369--24927435 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
24927359 CCTTAATAAA
24927369 TTCTTTTTATTTTTTTACTTTTTTTATTTTTT
1 TTCTTTTTATTTTTTTACTTTTTTTATTTTTT
24927401 TTCTTATTTCATTTTGTTTA-TTTTGTTTATTTTTT
1 TTCTT-TTT-ATTTT-TTTACTTTT-TTTATTTTTT
24927436 ATTATTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 5 0.16
33 3 0.10
34 9 0.29
35 14 0.45
ACGTcount: A:0.10, C:0.06, G:0.03, T:0.81
Consensus pattern (32 bp):
TTCTTTTTATTTTTTTACTTTTTTTATTTTTT
Found at i:24927620 original size:14 final size:14
Alignment explanation
Indices: 24927603--24927629 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24927593 TTTTTTAAAA
24927603 TTTTAAATATTAAT
1 TTTTAAATATTAAT
24927617 TTTTAAATATTAA
1 TTTTAAATATTAA
24927630 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:24927629 original size:37 final size:35
Alignment explanation
Indices: 24927487--24927629 Score: 137
Period size: 37 Copynumber: 4.0 Consensus size: 35
24927477 TTTATAATAC
* *
24927487 TTTTTTAAAATTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAATATTATTTTTAAAATTAA
* * * * *
24927521 TTTTTT-TAACTTTAGATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTTAAATAT-TATTTTTAAAATTAA
* * *
24927556 TTTTTTATATATTTTAAAAATGTATTTTTCAAATTAA
1 TTTTTTA-AAATTTTAAATAT-TATTTTTAAAATTAA
24927593 TTTTTTAAAATTTTAAATATTAATTTTTAAATATTAA
1 TTTTTTAAAATTTTAAATATT-ATTTTTAAA-ATTAA
24927630 CCATATTTTT
Statistics
Matches: 85, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
33 9 0.11
34 16 0.19
35 8 0.09
36 19 0.22
37 33 0.39
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTTTAAAATTTTAAATATTATTTTTAAAATTAA
Found at i:24927636 original size:23 final size:23
Alignment explanation
Indices: 24927588--24927629 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
24927578 TATTTTTCAA
*
24927588 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
24927611 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
24927630 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:24927719 original size:20 final size:19
Alignment explanation
Indices: 24927681--24927727 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
24927671 TTGTAAATAC
24927681 AATTTCTTTAATTTCTTTTT
1 AATTT-TTTAATTTCTTTTT
24927701 AAATTTTTTAACTTT-TTTTT
1 -AATTTTTTAA-TTTCTTTTT
24927721 AATTTTT
1 AATTTTT
24927728 GAAAAGTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 10 0.40
21 8 0.32
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
AATTTTTTAATTTCTTTTT
Found at i:24927845 original size:18 final size:19
Alignment explanation
Indices: 24927822--24927869 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
24927812 TTTTACTTTT
*
24927822 AATAAAAAAATTAA-GAAA
1 AATAAAAAAATTAATAAAA
*
24927840 AATAAAAAATTTAATAAAA
1 AATAAAAAAATTAATAAAA
24927859 AAGTAAAAAAA
1 AA-TAAAAAAA
24927870 AAGGGTGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.52
19 5 0.20
20 7 0.28
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (19 bp):
AATAAAAAAATTAATAAAA
Found at i:24927976 original size:22 final size:23
Alignment explanation
Indices: 24927951--24928000 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
24927941 CCAACTTTTC
*
24927951 AAAATGAA-ATAAAAAGTAAAA-A
1 AAAAAGAATATAAAAA-TAAAAGA
*
24927973 AAAAAGAATATGAAAATAAAAGA
1 AAAAAGAATATAAAAATAAAAGA
24927996 AAAAA
1 AAAAA
24928001 AAACAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAAAGAATATAAAAATAAAAGA
Found at i:24928020 original size:32 final size:30
Alignment explanation
Indices: 24927968--24928036 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 30
24927958 AATAAAAAGT
24927968 AAAAAAAAAAGAATATGAAAATAAAAGAAA
1 AAAAAAAAAAGAATATGAAAATAAAAGAAA
24927998 AAAAAACAAAAGAAATATGAAAATAAAAGAAA
1 AAAAAA-AAAAG-AATATGAAAATAAAAGAAA
*
24928030 AAGAAAA
1 AAAAAAA
24928037 TGTGTCAAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 6 0.17
31 6 0.17
32 24 0.67
ACGTcount: A:0.80, C:0.01, G:0.10, T:0.09
Consensus pattern (30 bp):
AAAAAAAAAAGAATATGAAAATAAAAGAAA
Found at i:24929544 original size:16 final size:16
Alignment explanation
Indices: 24929523--24929592 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
24929513 TTTGGTTCGC
* *
24929523 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
24929539 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
24929555 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
24929571 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
24929587 TGTAAT
1 TGTAAT
24929593 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:24929625 original size:45 final size:44
Alignment explanation
Indices: 24929571--24929665 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
24929561 GGAATAGAGG
*
24929571 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
24929616 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
24929660 TGTAAT
1 TGTAAT
24929666 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:24929846 original size:18 final size:17
Alignment explanation
Indices: 24929825--24929859 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24929815 TTATTATTAA
*
24929825 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24929843 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24929860 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24935206 original size:7 final size:7
Alignment explanation
Indices: 24935196--24935225 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
24935186 TTTTTTTCAA
24935196 TTTAAAT
1 TTTAAAT
24935203 TTTAAA-
1 TTTAAAT
24935209 TTTAAAT
1 TTTAAAT
24935216 TTTAAAT
1 TTTAAAT
24935223 TTT
1 TTT
24935226 GGAGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTAAAT
Found at i:24935210 original size:13 final size:13
Alignment explanation
Indices: 24935189--24935224 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
24935179 CTCTTTTTTT
*
24935189 TTTTCAATTTAAA
1 TTTTAAATTTAAA
24935202 TTTTAAATTTAAA
1 TTTTAAATTTAAA
24935215 TTTTAAATTT
1 TTTTAAATTT
24935225 TGGAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTAAATTTAAA
Found at i:24942086 original size:64 final size:64
Alignment explanation
Indices: 24942006--24942140 Score: 225
Period size: 64 Copynumber: 2.1 Consensus size: 64
24941996 GCGCACTGGC
* * * *
24942006 TTACGGCACTGATGGAGGGTAGTTGGATCGACGCGAGATGAAACGACGTTACTCGGGGCCAGAG
1 TTACGGGACTGATGGAGGGTAGCTGAATCGACGCGAGATGAAACGACGTGACTCGGGGCCAGAG
*
24942070 TTACGGGACTGATGGAGGGTAGCTGAATCGACGCGAGATGAAACGACGTGACTCGGGGCTAGAG
1 TTACGGGACTGATGGAGGGTAGCTGAATCGACGCGAGATGAAACGACGTGACTCGGGGCCAGAG
24942134 TTACGGG
1 TTACGGG
24942141 GAAAGTGGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.25, C:0.18, G:0.39, T:0.19
Consensus pattern (64 bp):
TTACGGGACTGATGGAGGGTAGCTGAATCGACGCGAGATGAAACGACGTGACTCGGGGCCAGAG
Found at i:24942840 original size:43 final size:43
Alignment explanation
Indices: 24942728--24942846 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 43
24942718 TGATATATTT
* * *
24942728 GATTTGCTCCCTGACAATACA-AGGATGTCAAATCTGCTATCTTT
1 GATTTG-TCCTTGACAATACAGA-GATGCCAAATCTGCTATCTTC
* * * * *
24942772 GATCTGCCCTCTGATAATATAGAGATGCCAAATTTGCT-TCTTC
1 GATTTGTCCT-TGACAATACAGAGATGCCAAATCTGCTATCTTC
24942815 GATTTGTTCCTTGACAATACAGAGATGCCAAA
1 GATTTG-TCCTTGACAATACAGAGATGCCAAA
24942847 CCATCTTAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
43 30 0.50
44 29 0.48
45 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (43 bp):
GATTTGTCCTTGACAATACAGAGATGCCAAATCTGCTATCTTC
Found at i:24942983 original size:87 final size:88
Alignment explanation
Indices: 24942810--24943160 Score: 237
Period size: 87 Copynumber: 4.0 Consensus size: 88
24942800 CAAATTTGCT
* * * * * * *
24942810 TCTTCGATTTGT-TCCTTGACAATAC-AGAGATGCCAAACCATCTTAGATTTTCTTCAGCATAAA
1 TCTTCGATTTGTCTCCTTGA-AACACAAGAGACGCCAAATCATCTTGGATCTGCTTCAGTATAAA
* * *
24942873 CA-CGTGAAAGCCAAACCTGCTATG
65 CATC-TGAAAGTCAGATCTGCTATG
*
24942897 TCTTCGATTTGT-TCCTTGTAAACACAAG-GATGCCAAATCATCTTGGATCTGCTTCAGTATAAA
1 TCTTCGATTTGTCTCCTTG-AAACACAAGAGACGCCAAATCATCTTGGATCTGCTTCAGTATAAA
* * *
24942960 CATCTGAAGGTTAGATCTACTATG
65 CATCTGAAAGTCAGATCTGCTATG
* * * ** * *
24942984 ---T-G-TCTGCTCTCCATCG-AATA-TGGAGACGCCAGATCTGTTATCTTGGATCTGCTT-TGA
1 TCTTCGATTTG-TCTCC-TTGAAACACAAGAGACGCCAAATC----ATCTTGGATCTGCTTCAG-
*
24943041 TATGAAAATATCTGAAAGTCAGATCTGCTATG
59 TAT--AAACATCTGAAAGTCAGATCTGCTATG
* * *
24943073 CCTTCGATTT-TCTCCTTGTAAACACAAGA-ACACCAAATCATCTTGGATCTGCTTCAGTAAAAA
1 TCTTCGATTTGTCTCCTTG-AAACACAAGAGACGCCAAATCATCTTGGATCTGCTTCAGTATAAA
* *
24943136 CATCTGAAGGTTAGATCTGCTATG
65 CATCTGAAAGTCAGATCTGCTATG
24943160 T
1 T
24943161 ATCTGCTCTC
Statistics
Matches: 204, Mismatches: 37, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
82 4 0.02
83 14 0.07
84 4 0.02
85 2 0.01
86 1 0.00
87 110 0.54
88 4 0.02
89 40 0.20
90 1 0.00
91 2 0.01
92 6 0.03
93 12 0.06
94 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (88 bp):
TCTTCGATTTGTCTCCTTGAAACACAAGAGACGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
ATCTGAAAGTCAGATCTGCTATG
Found at i:24958735 original size:36 final size:36
Alignment explanation
Indices: 24958653--24958737 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 36
24958643 TAAATAATAA
* *
24958653 ATAATTTAATCATATTTTAACATAATTATTATTAAAT
1 ATAATTTAATAACATTTTAACATAATTATTA-TAAAT
*
24958690 ATAATTTAATAACATTTTAAATATAATTATTA-AAAT
1 ATAATTTAATAACATTTT-AACATAATTATTATAAAT
24958726 ATGAA-TTAATAA
1 AT-AATTTAATAA
24958738 AAATCATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 13 0.30
37 18 0.42
38 12 0.28
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (36 bp):
ATAATTTAATAACATTTTAACATAATTATTATAAAT
Found at i:24962251 original size:39 final size:40
Alignment explanation
Indices: 24962167--24962251 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
24962157 ACTTAATTCA
* * *
24962167 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
24962207 CCAGCATGAAGCCAGCGGGTCTCT-AACTCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
24962246 TCAGCA
1 CCAGCA
24962252 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:24962394 original size:22 final size:22
Alignment explanation
Indices: 24962366--24962442 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
24962356 CTTACACATA
*
24962366 TATCACATTAACCATTCGGCCT
1 TATCACATTAGCCATTCGGCCT
* *
24962388 TATCACATGTATGCACTTTC-GCAT
1 TATCACAT-TA-GC-CATTCGGCCT
*
24962412 TCATCACATTGGCCATTCGGCCT
1 T-ATCACATTAGCCATTCGGCCT
24962435 TATCACAT
1 TATCACAT
24962443 ATACACACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 19 0.43
23 8 0.18
24 6 0.14
25 11 0.25
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.34
Consensus pattern (22 bp):
TATCACATTAGCCATTCGGCCT
Found at i:24962428 original size:47 final size:46
Alignment explanation
Indices: 24962322--24962477 Score: 190
Period size: 47 Copynumber: 3.3 Consensus size: 46
24962312 TGCACACTTT
* * *
24962322 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** * *
24962368 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCGCATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
*
24962415 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
24962462 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
24962478 ATCTTAAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
45 20 0.21
46 5 0.05
47 70 0.74
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:24968045 original size:25 final size:25
Alignment explanation
Indices: 24968017--24968096 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
24968007 CTAAACAAGC
24968017 AATTCCTCATTACAAAAATCAAAGT
1 AATTCCTCATTACAAAAATCAAAGT
*
24968042 AATTCCTAGGAACA-TACAAGAATCAAAGT
1 AATTCCT-----CATTACAAAAATCAAAGT
* * *
24968071 AATTCATCATTATAAACATCAAAGT
1 AATTCCTCATTACAAAAATCAAAGT
24968096 A
1 A
24968097 TCTTGCCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
24 2 0.05
25 20 0.45
29 20 0.45
30 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.26
Consensus pattern (25 bp):
AATTCCTCATTACAAAAATCAAAGT
Found at i:24971202 original size:10 final size:10
Alignment explanation
Indices: 24971144--24971208 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
24971134 TTTGTAATTT
24971144 ATAATTTTT-
1 ATAATTTTTA
24971153 ATAATTTTTAA
1 ATAATTTTT-A
24971164 ATAATTTTTA
1 ATAATTTTTA
24971174 ATAATTCTTT-
1 ATAATT-TTTA
**
24971184 ACCATTTTTA
1 ATAATTTTTA
*
24971194 ATAATTTTTT
1 ATAATTTTTA
24971204 ATAAT
1 ATAAT
24971209 ATTCTAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
9 12 0.26
10 23 0.49
11 12 0.26
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:24971940 original size:19 final size:19
Alignment explanation
Indices: 24971916--24971960 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
24971906 TTGAATGAAT
24971916 AAAAAAAACCATATTATTA
1 AAAAAAAACCATATTATTA
*
24971935 AAAAAAAACCATATTATTT
1 AAAAAAAACCATATTATTA
24971954 AAAAAAA
1 AAAAAAA
24971961 TTTGGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAAACCATATTATTA
Found at i:24983186 original size:18 final size:18
Alignment explanation
Indices: 24983163--24983291 Score: 195
Period size: 18 Copynumber: 7.2 Consensus size: 18
24983153 TACGACCGTT
24983163 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
24983181 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
24983199 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
24983217 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
24983235 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
24983253 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
24983271 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
24983289 TAC
1 TAC
24983292 AGTAGTTGGG
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 100 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:24983216 original size:36 final size:36
Alignment explanation
Indices: 24983169--24983291 Score: 237
Period size: 36 Copynumber: 3.4 Consensus size: 36
24983159 CGTTTACGGC
24983169 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
24983205 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
24983241 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
24983277 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
24983292 AGTAGTTGGG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 86 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:24987361 original size:11 final size:11
Alignment explanation
Indices: 24987345--24987375 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24987335 ATACCCATAC
24987345 CCCATACCTTG
1 CCCATACCTTG
*
24987356 CCCATACCTTT
1 CCCATACCTTG
24987367 CCCATACCT
1 CCCATACCT
24987376 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:24991932 original size:20 final size:20
Alignment explanation
Indices: 24991907--24992027 Score: 75
Period size: 20 Copynumber: 6.0 Consensus size: 20
24991897 AATAATGAAG
*
24991907 TACTGGCAGCTTGTCTGCAA
1 TACTGGTAGCTTGTCTGCAA
* *
24991927 TACTGGTGGCCTGT-T-CACA
1 TACTGGTAGCTTGTCTGCA-A
* * * *
24991946 TTACTGGTAGCTGGTTTACAT
1 -TACTGGTAGCTTGTCTGCAA
* * * * * *
24991967 TACTAGCAGTTTATTTGCAT
1 TACTGGTAGCTTGTCTGCAA
* *
24991987 TACTGGTGGCTTGTCTACAA
1 TACTGGTAGCTTGTCTGCAA
24992007 TACTGGTAGCTTGTCTGCAA
1 TACTGGTAGCTTGTCTGCAA
24992027 T
1 T
24992028 TTTGGCAGTT
Statistics
Matches: 74, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 67 0.91
21 1 0.01
22 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (20 bp):
TACTGGTAGCTTGTCTGCAA
Found at i:24992449 original size:20 final size:20
Alignment explanation
Indices: 24992388--24992450 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
24992378 GTTTATCTGA
*
24992388 ATTACTAGTGGCTTGTCCAC
1 ATTACTGGTGGCTTGTCCAC
* * * * *
24992408 ATTTCTGGTAGTTTATCTAC
1 ATTACTGGTGGCTTGTCCAC
24992428 ATTACTGGTGGCTTGTCCAC
1 ATTACTGGTGGCTTGTCCAC
24992448 ATT
1 ATT
24992451 TTTAAGTACT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTACTGGTGGCTTGTCCAC
Found at i:24993571 original size:22 final size:23
Alignment explanation
Indices: 24993546--24993588 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24993536 ATGCCATATC
*
24993546 ATAAACA-ACCAAATTCATGCTT
1 ATAAACATACCAAAATCATGCTT
*
24993568 ATAATCATACCAAAATCATGC
1 ATAAACATACCAAAATCATGC
24993589 CAAAACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.26
Consensus pattern (23 bp):
ATAAACATACCAAAATCATGCTT
Found at i:25012857 original size:27 final size:27
Alignment explanation
Indices: 25012817--25012982 Score: 179
Period size: 27 Copynumber: 6.1 Consensus size: 27
25012807 GGTCGTTATC
25012817 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
25012844 TGACCGTAACACCCCTGTTGGCTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* **
25012871 TGATCGTAATACCTTTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
25012898 TGATCGTAATACCCTTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * * *
25012925 TCATCGTAATGCCCCGGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * * *
25012952 TGACTGTAATACTCCTGTATGGTAACA
1 TGACCGTAATACCCCTGTAGGGTAAAA
25012979 TGAC
1 TGAC
25012983 GATTATGCCT
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
TGACCGTAATACCCCTGTAGGGTAAAA
Found at i:25013157 original size:27 final size:26
Alignment explanation
Indices: 25013117--25013194 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 26
25013107 ATGGAGGAAG
*
25013117 TACTGTACTGGTGGCTATGTCAC-AT
1 TACTGTACTGGTGGCTATGCCACAAT
25013142 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCACAAT
25013170 TACTGATACTGGTGGC-ATTGCCACA
1 TACTG-TACTGGTGGCTA-TGCCACA
25013195 TTTATTGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 38 0.81
28 3 0.06
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:25022633 original size:46 final size:46
Alignment explanation
Indices: 25022519--25022716 Score: 172
Period size: 47 Copynumber: 4.3 Consensus size: 46
25022509 TTAGACACGA
* * * *
25022519 TCTTACACTAGCTCATATCTCAT-GTTGATGCCATGTCCCAGACATGG
1 TCTTACACTAGCTTACATCTCGTAGCTGATG-CATGTCCCAGACAT-G
* * *
25022566 TCTTAGACTAAC-TATCATCTCGTAGCTGATGCATATCCCAGACATG
1 TCTTACACTAGCTTA-CATCTCGTAGCTGATGCATGTCCCAGACATG
* * *
25022612 TCTTACACTAGCTTACGTCTCG-AGGCTGATACATGTCACAGACATG
1 TCTTACACTAGCTTACATCTCGTA-GCTGATGCATGTCCCAGACATG
* * * *
25022658 ATCTTACACTGGCTCT-CATAAT-GTGGCTGATGCATGTCCTAGACATG
1 -TCTTACACTAGCT-TACAT-CTCGTAGCTGATGCATGTCCCAGACATG
25022705 TCTTACACTAGC
1 TCTTACACTAGC
25022717 CCACAATAAC
Statistics
Matches: 122, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 48 0.39
47 65 0.53
48 8 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (46 bp):
TCTTACACTAGCTTACATCTCGTAGCTGATGCATGTCCCAGACATG
Found at i:25040198 original size:47 final size:46
Alignment explanation
Indices: 25040129--25040297 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 46
25040119 TGTGTGAGCT
* *
25040129 AGTGTAAGACATGTCTGAGACAT-GCATTGGCCACTTTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATAGCATTGGCCA-TTGATGAAAGCC
* *
25040175 AGTGTAAGACCATGTCTGGGACATGGCATTGG-CATTGA-GACAAGAACT
1 AGTGTAAGA-CATGTCTGGGACATAGCATTGGCCATTGATGA-AAG--CC
* * * * *
25040223 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATAGCATTGGCCAT-TGATGAAAGCC
*
25040269 AGTGTAAGACCATGTCAGGGACATAGCAT
1 AGTGTAAGA-CATGTCTGGGACATAGCAT
25040298 CGACTTGAGA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
45 2 0.02
46 30 0.29
47 44 0.43
48 25 0.24
49 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATAGCATTGGCCATTGATGAAAGCC
Found at i:25040290 original size:94 final size:93
Alignment explanation
Indices: 25040127--25040352 Score: 249
Period size: 94 Copynumber: 2.4 Consensus size: 93
25040117 TGTGTGTGAG
* * ** *
25040127 CTAGTGTAAGACATGTCTGAGACATGCATTGGCCACTTTATGAAAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACTAGATGAAAGCCAGTGTAAGACCATGTCA
* * *
25040192 GGGACATGGCATTGGCATTGAGACAAGAA
66 GGGACATAGCATCGAC-TTGAGACAAGAA
* * *
25040221 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTA-TGAGATGATAGTCAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACT-AGATGAAAGCCAGTGTAAGACCATGTC
* * *
25040285 AGGGACATAGCATCGACTTGAGATATGAG
65 AGGGACATAGCATCGACTTGAGACAAGAA
* * *
25040314 CCAATATAAGACCATGTCTGGGACATGGCATCGG-CACTA
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACTA
25040353 TACCCACGTT
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 18 0.16
94 84 0.76
95 8 0.07
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACTAGATGAAAGCCAGTGTAAGACCATGTCA
GGGACATAGCATCGACTTGAGACAAGAA
Found at i:25040307 original size:47 final size:46
Alignment explanation
Indices: 25040174--25040348 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 46
25040164 TTATGAAAGC
* *
25040174 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACA-AGAA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATATAG-A
*
25040221 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGAT-ATAGA
* * * *
25040268 CAGTGTAAGACCATGTCAGGGACATAGCATCGACTTGAGATATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATAT-AGA
* *
25040315 CAATATAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
25040349 ACTATACCCA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
45 1 0.01
46 23 0.21
47 67 0.61
48 19 0.17
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATAGA
Found at i:25041707 original size:177 final size:177
Alignment explanation
Indices: 25041366--25041712 Score: 577
Period size: 177 Copynumber: 2.0 Consensus size: 177
25041356 TTGTAACATC
* * * * *
25041366 AACAGTGGTTTTGAGACCATAAATTCGAGATAGAAATAATTATTATATGATTCTTATGAGTTCTA
1 AACAGTAGTTTCGAGACAAAAAATTCGAGATAGAAATAATTATTATATGATTCTTATGAGGTCTA
*
25041431 TGATATGAATGCATGCTTATGTGAAAGTTTCGAGAAGAAATTATATGCATAAATTGTCTAATTGA
66 TGATATGAATGCATGCTTATGTGAAAGTTTCGAGAAGAAATTATATGCATAAAATGTCTAATTGA
* * * *
25041496 ACTTTAGGGATCAAACTGAATAATATGCAAATTTTGCATTTAGTCGG
131 ACTTTAGGGACCAAACTAAATAAGATGAAAATTTTGCATTTAGTCGG
* *
25041543 AACAGTAGTTTCGAGACAAAAAATTTGAGATATAAATAATTATTATATGATTCTTATGAGGTCTA
1 AACAGTAGTTTCGAGACAAAAAATTCGAGATAGAAATAATTATTATATGATTCTTATGAGGTCTA
*
25041608 TGATATGAATGCATGCTTATGTGAAAGTTTCGTGAAGAAATTATATGCATAAAATGTCTAATTGA
66 TGATATGAATGCATGCTTATGTGAAAGTTTCGAGAAGAAATTATATGCATAAAATGTCTAATTGA
25041673 ACTTTAGGGACCAAACTAAATAAGATGAAAATTTTGCATT
131 ACTTTAGGGACCAAACTAAATAAGATGAAAATTTTGCATT
25041713 CTAGAAGCTT
Statistics
Matches: 157, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
177 157 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (177 bp):
AACAGTAGTTTCGAGACAAAAAATTCGAGATAGAAATAATTATTATATGATTCTTATGAGGTCTA
TGATATGAATGCATGCTTATGTGAAAGTTTCGAGAAGAAATTATATGCATAAAATGTCTAATTGA
ACTTTAGGGACCAAACTAAATAAGATGAAAATTTTGCATTTAGTCGG
Found at i:25052841 original size:14 final size:15
Alignment explanation
Indices: 25052824--25052856 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25052814 AATTTATTTT
*
25052824 ATATAAAAATAA-TA
1 ATATAAAAAAAATTA
25052838 ATATAAAAAAAATTA
1 ATATAAAAAAAATTA
25052853 ATAT
1 ATAT
25052857 TGGCGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATAAAAAAAATTA
Found at i:25062248 original size:114 final size:110
Alignment explanation
Indices: 25061988--25062409 Score: 378
Period size: 114 Copynumber: 3.8 Consensus size: 110
25061978 TGCTTATACA
** * * *
25061988 TTAAATACGAAAAACCGATATAAGATTCTTA-AAAAACATTAATAAAACAAATTAATCAAAC-CT
1 TTAAATACGAAAAACTAATATAAGATAC--ACAAAAACATTAATAAAACAAATTAATCATACATT
* * * *
25062051 TAGTACAAACTTAAACCTAAT-AAA-AC-ACAAC--AATTTTTTTCC
64 TAATACAAACTTAAAACTAATAAAACACAACAACAAAATATATTTCC
* *
25062093 TTAAATACGAAAAATTAATATAAGATACCACAAAAATATTAATAAAACAAATTAATCATACATTT
1 TTAAATACGAAAAACTAATATAAGATA-CACAAAAACATTAATAAAACAAATTAATCATACATTT
*
25062158 AATACAAA-TCTAAAACTAATAAAACACAACAACAAAATATCCTTTCCC
65 AATACAAACT-TAAAACTAATAAAACACAACAACAAAATAT-ATTT-CC
* *
25062206 TTAAATACGAAAAAGCTAATATAAGATACAACAAAAACATTAATAAAATAAACTAATCATACATT
1 TTAAATACGAAAAA-CTAATATAAGATAC-ACAAAAACATTAATAAAACAAATTAATCATACATT
* * * * *
25062271 TAATACAAACTTAAATCTTATAAAACATAACTAA-AAAAAATTATTTCT
64 TAATACAAACTTAAAACTAATAAAACACAAC-AACAAAATA-TATTTCC
* * * * * ** * *
25062319 TCTAAATACAAAAAAACTATTATAAGATATCATAAAAACAATAATAAAATAAACAAACCATACTT
1 T-TAAATAC-GAAAAACTAATATAAGATA-CACAAAAACATTAATAAAACAAATTAATCATACAT
* *
25062384 TTAAAATAAACTT-AAACTTAATAAAA
63 TTAATACAAACTTAAAAC-TAATAAAA
25062410 TACACCACAA
Statistics
Matches: 265, Mismatches: 32, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
104 1 0.00
105 52 0.20
106 19 0.07
107 3 0.01
108 2 0.01
109 5 0.02
111 4 0.02
112 3 0.01
113 22 0.08
114 144 0.54
115 10 0.04
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (110 bp):
TTAAATACGAAAAACTAATATAAGATACACAAAAACATTAATAAAACAAATTAATCATACATTTA
ATACAAACTTAAAACTAATAAAACACAACAACAAAATATATTTCC
Found at i:25065509 original size:85 final size:85
Alignment explanation
Indices: 25065412--25065580 Score: 284
Period size: 85 Copynumber: 2.0 Consensus size: 85
25065402 TGTAAAGCCA
* *
25065412 AAGAGCTTAGAAAAGAAAAACAAAAAGTTGATGTGGGAACTGGAGAGTTTCGTAAAAGATCCTCG
1 AAGAGCTTAGAAAAGAAAAACAAAAAGTTGAGGTGGGAACCGGAGAGTTTCGTAAAAGATCCTCG
25065477 GAAAAGTCTCTTCAACAGGG
66 GAAAAGTCTCTTCAACAGGG
* *
25065497 AAGAGCTTAGAAAGGAAAAACAAAAAGTTGAGGTGGGAACCGGGGAGTTTCGTAAAAGATCCTCG
1 AAGAGCTTAGAAAAGAAAAACAAAAAGTTGAGGTGGGAACCGGAGAGTTTCGTAAAAGATCCTCG
* *
25065562 GGAAGGTCTCTTCAACAGG
66 GAAAAGTCTCTTCAACAGG
25065581 CATCGAAGAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (85 bp):
AAGAGCTTAGAAAAGAAAAACAAAAAGTTGAGGTGGGAACCGGAGAGTTTCGTAAAAGATCCTCG
GAAAAGTCTCTTCAACAGGG
Found at i:25071259 original size:27 final size:27
Alignment explanation
Indices: 25071228--25071405 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
25071218 TAAATTGTAC
*
25071228 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
25071255 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25071281 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25071309 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25071337 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
25071364 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25071391 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25071406 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25071396 original size:82 final size:81
Alignment explanation
Indices: 25071227--25071405 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 81
25071217 TTAAATTGTA
* * *
25071227 CAGCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGT
25071292 GTGCGAATTGACCATG
66 GTGCGAATTGACCATG
* *** *
25071308 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAA
1 CAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAA
* **
25071372 GTGTGCGAGTTGATTATG
64 GTGTGCGAATTGACCATG
* *
25071390 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
25071406 GACTCAATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 16 0.20
82 66 0.80
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGT
GTGCGAATTGACCATG
Found at i:25072890 original size:40 final size:40
Alignment explanation
Indices: 25072756--25072933 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
25072746 GGGTGTTACA
* * * * * *
25072756 GAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGAT-CA
1 GAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCC
*
25072797 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAA-TCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCC
* * * *
25072836 GAAGGCATTGGTGCGAGTTACTAAATCCAGGTTAAGTCCT
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCC
*
25072876 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCC
*
25072916 GAAGGCATTTGAGCGAGT
1 GAAGGCATTTGTGCGAGT
25072934 AGCTATATCC
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.28
40 68 0.59
41 15 0.13
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCC
Found at i:25072948 original size:79 final size:79
Alignment explanation
Indices: 25072797--25072949 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 79
25072787 ACTAAGATCA
* *
25072797 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAATCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAATCCCGAAGGCATTGGAGCGAGTTACTAAAT
25072862 CCAGGTTAAGTCCT
66 CCAGGTTAAGTCCT
* *
25072876 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTA-ATCCCGAAGGCATTGGAGCGAGTTA-CTA
*
25072939 TATCC-GGTTAA
63 AATCCAGGTTAA
25072950 ATTTTGAAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 26 0.39
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAATCCCGAAGGCATTGGAGCGAGTTACTAAAT
CCAGGTTAAGTCCT
Found at i:25080443 original size:47 final size:47
Alignment explanation
Indices: 25080392--25080585 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
25080382 CACTTCCACG
**
25080392 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
25080439 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
25080486 TTCATCACATTGACCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
25080533 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
25080580 TTCATC
1 TTCATC
25080586 TCATAGAATC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:25080470 original size:22 final size:22
Alignment explanation
Indices: 25080442--25080563 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
25080432 GTTCACATTC
25080442 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
25080464 ATCACATATTTG-CATGTTC-ACATT
1 ATCAC--ATTGGCCA--TTCGGCCTT
*
25080488 CATCACATTGACCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
25080511 ATCACATATTTG-CATGTTC-ACATT
1 ATCAC--ATTGGCCA--TTCGGCCTT
25080535 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25080558 ATCACA
1 ATCACA
25080564 CATATGCATG
Statistics
Matches: 72, Mismatches: 14, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
22 22 0.31
23 17 0.24
24 17 0.24
25 16 0.22
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25086133 original size:40 final size:40
Alignment explanation
Indices: 25086056--25086180 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
25086046 ACCCAAGTAT
*
25086056 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
25086095 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
* * *
25086135 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
25086175 CTTCGG
1 CTTCGG
25086181 NTTGGGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 12 0.16
40 60 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:25086324 original size:40 final size:40
Alignment explanation
Indices: 25086251--25086391 Score: 171
Period size: 40 Copynumber: 3.5 Consensus size: 40
25086241 CTCAAGAAAT
*
25086251 CTTCGGGAT-TTAG-CCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
25086290 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
** * *
25086330 CTTCGAATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25086370 CTTCCGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
25086392 CATTCGAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 72 0.84
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25094518 original size:40 final size:40
Alignment explanation
Indices: 25094441--25094661 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
25094431 ACCCAAGTAT
* *** *
25094441 CTTCGGGTTTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAATGC
* * *
25094480 CTTCAGGTCTTAGCCCGGATATAGTGACTTGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAATGC
*
25094520 CTTCGGGACTTAGCCCGGATATAGTCG-CTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGT-GACTAGCACAAATGC
** * *
25094560 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATTC
1 CTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAATGC
* * * *
25094600 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAATGC
* *
25094640 CTTCCGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
25094662 CATTTGAATA
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
39 11 0.07
40 140 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTGACTAGCACAAATGC
Found at i:25098443 original size:14 final size:14
Alignment explanation
Indices: 25098424--25098451 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25098414 TTGTCACATG
25098424 AATTAAATTAATTA
1 AATTAAATTAATTA
25098438 AATTAAATTAATTA
1 AATTAAATTAATTA
25098452 TTGAAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAAATTAATTA
Found at i:25101105 original size:8 final size:8
Alignment explanation
Indices: 25101089--25101131 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
25101079 GTAGATCGGT
*
25101089 AAATCCCG
1 AAATGCCG
25101097 AAATGCCG
1 AAATGCCG
25101105 AAATGCCG
1 AAATGCCG
* *
25101113 AAAAGCTG
1 AAATGCCG
*
25101121 AAATGTCG
1 AAATGCCG
25101129 AAA
1 AAA
25101132 AGCCAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:25101113 original size:16 final size:16
Alignment explanation
Indices: 25101089--25101140 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
25101079 GTAGATCGGT
* *
25101089 AAATCCCGAAATGCCG
1 AAATGCCGAAAAGCCG
*
25101105 AAATGCCGAAAAGCTG
1 AAATGCCGAAAAGCCG
* *
25101121 AAATGTCGAAAAGCCA
1 AAATGCCGAAAAGCCG
25101137 AAAT
1 AAAT
25101141 TTTGGCTACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.13
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:25101438 original size:28 final size:28
Alignment explanation
Indices: 25101361--25101438 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
25101351 CTGTAAAAGT
*
25101361 GATTGGGCCTAGTGGGTCATATAGATGT
1 GATTGGGCCTAGTGGGTCATATAGATGA
* * * *
25101389 GATTTTGACCTAATGGGCCATAT-GAATGA
1 GA-TTGGGCCTAGTGGGTCATATAG-ATGA
25101418 GATTGGGCCTAGTGGGTCATA
1 GATTGGGCCTAGTGGGTCATA
25101439 AGCATGTATG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGTCATATAGATGA
Done.