Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 171 of 311
Found at i:58229933 original size:18 final size:16
Alignment explanation
Indices: 58229889--58229935 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
58229879 TAGCACAATG
58229889 TTTATTACATTATTGTA
1 TTTATTA-ATTATTGTA
*
58229906 TTTATT-ATTATTGTTGT
1 TTTATTAATTATTG-T-A
58229923 TTTATTAATTATT
1 TTTATTAATTATT
58229936 TCTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 12 0.46
18 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATTAATTATTGTA
Found at i:58229943 original size:13 final size:11
Alignment explanation
Indices: 58229907--58229972 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 11
58229897 ATTATTGTAT
*
58229907 TTATTATTATTG
1 TTATT-TTATTA
*
58229919 TTGTTTTATTAA
1 TTATTTTATT-A
58229931 TTATTTCTATTAA
1 TTATTT-TATT-A
*
58229944 TTACTATTATTA
1 TTA-TTTTATTA
58229956 TTATTTTATTA
1 TTATTTTATTA
58229967 TTATTT
1 TTATTT
58229973 ATATATAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 18 0.39
12 13 0.28
13 13 0.28
14 2 0.04
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:58230307 original size:126 final size:126
Alignment explanation
Indices: 58230072--58230315 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
58230062 CATTGATCTT
* * *
58230072 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
58230137 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
58230198 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
* *
58230263 ACATACTGGGTTTCGCTTTCTTTGTTTGTTTTGAGTATTCGAATATCCTCTTA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
58230316 AGGCTAAAAC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:58242209 original size:176 final size:176
Alignment explanation
Indices: 58241915--58242563 Score: 1118
Period size: 176 Copynumber: 3.7 Consensus size: 176
58241905 AAAGATTACA
*
58241915 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTCC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* * *
58241980 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAGATGG
66 AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
* * * * *
58242045 TGAGTCTTTTCTCCATATATTGACTATGGAGCAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACC
* *
58242091 AACCTTATCTCTTTAAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
**
58242156 AGGAAATAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
66 AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
58242221 CGAGTCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACC
58242267 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* *
58242332 AGGAAGCAGACTGAAAGTTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
66 AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
*
58242397 CGAGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACC
* *
58242443 AATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* *
58242508 AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCAGCTATTGAGCAGAT
66 AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGAT
58242564 TTTAGGCACC
Statistics
Matches: 447, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 447 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
CGAGTCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACC
Found at i:58242492 original size:43 final size:45
Alignment explanation
Indices: 58242443--58242540 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 45
58242433 TTTAGCCACC
*
58242443 AATCTTATCTCT-CTGAAGTTGCA-GAGAGCAGATTG-AAGATACA
1 AATCTTATCTCTCCTGAAGTTGCAGGA-AGCAGACTGAAAGATACA
* *
58242486 AGTCTTATCT-TCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACA
1 AATCTTATCTCTCCTGAAGTTGCAGGAAGCAGACTGAAAGATACA
58242530 AATCTTATCTC
1 AATCTTATCTC
58242541 CATGTATCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 1 0.02
43 28 0.60
44 18 0.38
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCTCCTGAAGTTGCAGGAAGCAGACTGAAAGATACA
Found at i:58242554 original size:131 final size:132
Alignment explanation
Indices: 58242401--58242639 Score: 313
Period size: 131 Copynumber: 1.8 Consensus size: 132
58242391 GGATGGCGAG
* * * * *
58242401 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCA-ATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCT-TTATCTCCCTGAAGTTGA
**
58242465 AG-AGAGCAGATTGAAGAT-ACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTA
65 AGTAGAGCAGATTGAAG-TCACAAACCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTA
58242528 CAAA
129 CAAA
* * * *
58242532 TCTTATCTCCATGTATCAGCTATTGAGCAGATTTTAGGCACCGGCTTTGTCTCCCTGAAGTTGAA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCTTTATCTCCCTGAAGTTGAA
* * *
58242597 GTGGAGCAGGTTGAAGTCACAAACCTTATCTTCTTGAAGTTGC
66 GTAGAGCAGATTGAAGTCACAAACCTTATCTTCCTGAAGTTGC
58242640 TGTAAGACTA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
131 56 0.62
132 35 0.38
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (132 bp):
TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCTTTATCTCCCTGAAGTTGAA
GTAGAGCAGATTGAAGTCACAAACCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACA
AA
Found at i:58243925 original size:15 final size:16
Alignment explanation
Indices: 58243905--58243939 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
58243895 TTGGATTACT
58243905 TTATGATTATTA-TTA
1 TTATGATTATTATTTA
58243920 TTATGATTATTATTTA
1 TTATGATTATTATTTA
58243936 TTAT
1 TTAT
58243940 TTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (16 bp):
TTATGATTATTATTTA
Found at i:58244557 original size:37 final size:37
Alignment explanation
Indices: 58244510--58244584 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
58244500 CTAACTCTAT
*
58244510 CACCCTACTAAACCATCCACTACCTCCATCACTCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
** *
58244547 CACCCTACTAAACTGTCCACTACCTCTATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
58244584 C
1 C
58244585 TACCTCCATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.20
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:58244586 original size:18 final size:18
Alignment explanation
Indices: 58244563--58244598 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
58244553 ACTAAACTGT
*
58244563 CCACTACCTCTATCACCC
1 CCACTACCTCCATCACCC
58244581 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
58244599 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.58, G:0.00, T:0.19
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:58244682 original size:11 final size:11
Alignment explanation
Indices: 58244666--58244709 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
58244656 GGGGATTTAG
58244666 AGAGGAATTTT
1 AGAGGAATTTT
*
58244677 AGAGGATTTTT
1 AGAGGAATTTT
*
58244688 AGAGGATTTTT
1 AGAGGAATTTT
* *
58244699 GGGGGAATTTT
1 AGAGGAATTTT
58244710 TTAGAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (11 bp):
AGAGGAATTTT
Found at i:58256692 original size:11 final size:11
Alignment explanation
Indices: 58256676--58256703 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
58256666 AACCGATTCA
58256676 TAATTTCACTC
1 TAATTTCACTC
58256687 TAATTTCACTC
1 TAATTTCACTC
58256698 TAATTT
1 TAATTT
58256704 AAAACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTCACTC
Found at i:58268828 original size:47 final size:46
Alignment explanation
Indices: 58268748--58268964 Score: 139
Period size: 47 Copynumber: 4.7 Consensus size: 46
58268738 AGGGTATAAT
* *
58268748 GCCGATACCATG-CCCTAGACATGGTCTTTCACTGGCTC-TCACGTTAA
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCATCACG-T-A
* * * *
58268795 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCATGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTA
* *
58268841 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCACGTA
** * * *
58268886 GGCAAATG-TATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACGT--A
* *
58268932 TGCCAATGCCATGTCCCAGACAT-GTCTTCCACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
58268965 AGCACGCAAA
Statistics
Matches: 139, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 15 0.11
45 15 0.11
46 48 0.35
47 52 0.37
48 7 0.05
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTA
Found at i:58276089 original size:17 final size:18
Alignment explanation
Indices: 58276062--58276095 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58276052 AATTAAATAT
58276062 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
58276080 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
58276096 TAAAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:58280121 original size:16 final size:17
Alignment explanation
Indices: 58280100--58280132 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58280090 CACATTGAAG
58280100 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
58280116 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
58280133 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:58280945 original size:27 final size:28
Alignment explanation
Indices: 58280907--58281020 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 28
58280897 CTATTCAGAA
* *
58280907 ATCAGTGTTAAT-TGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
58280934 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
58280961 ATTACAATATCAGAGCATACTGGGCC-TAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCATAGCCCAT
* * *
58280995 ATCAGTATCATTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
58281021 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 20 0.29
28 20 0.29
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:58281721 original size:8 final size:8
Alignment explanation
Indices: 58281707--58281746 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
58281697 TCACAAATGC
58281707 CGGCTTTT
1 CGGCTTTT
*
58281715 TGGCTTTT
1 CGGCTTTT
*
58281723 CGACTTTT
1 CGGCTTTT
*
58281731 TGGCTTTT
1 CGGCTTTT
58281739 CGGCTTTT
1 CGGCTTTT
58281747 ACCGATCTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.55
Consensus pattern (8 bp):
CGGCTTTT
Found at i:58281731 original size:16 final size:16
Alignment explanation
Indices: 58281710--58281746 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
58281700 CAAATGCCGG
58281710 CTTTTTGGCTTTTCGA
1 CTTTTTGGCTTTTCGA
*
58281726 CTTTTTGGCTTTTCGG
1 CTTTTTGGCTTTTCGA
58281742 CTTTT
1 CTTTT
58281747 ACCGATCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.19, G:0.19, T:0.59
Consensus pattern (16 bp):
CTTTTTGGCTTTTCGA
Found at i:58283425 original size:15 final size:15
Alignment explanation
Indices: 58283388--58283416 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58283378 TTTTTCTATC
58283388 TAATAATAATAATTA
1 TAATAATAATAATTA
58283403 TAATAATAATAATT
1 TAATAATAATAATT
58283417 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:58303085 original size:28 final size:28
Alignment explanation
Indices: 58303020--58303167 Score: 226
Period size: 28 Copynumber: 5.3 Consensus size: 28
58303010 GAGATTGGCG
* * * *
58303020 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
58303049 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58303077 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58303105 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58303133 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58303160 CTGAGTGT
1 CTAAGTGT
58303168 ACGGACTTAA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 21 0.19
28 76 0.68
29 15 0.13
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:58303181 original size:27 final size:27
Alignment explanation
Indices: 58303045--58303183 Score: 109
Period size: 28 Copynumber: 5.0 Consensus size: 27
58303035 TAAATTGTAC
* * *
58303045 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * * *
58303073 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
58303101 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
58303129 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTGAATATAT
*
58303156 AGCACTGAGTGTACGGACTT-AATATAT
1 AGCACTAAGTGTAC-GACTTGAATATAT
58303183 A
1 A
58303184 CTTTTGAATC
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
27 29 0.28
28 74 0.72
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTGAATATAT
Found at i:58305260 original size:49 final size:49
Alignment explanation
Indices: 58305204--58305435 Score: 313
Period size: 49 Copynumber: 4.7 Consensus size: 49
58305194 CTGGTAGGAA
58305204 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTCGG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTA-TCGGATACACG
* ** *
58305253 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCGGATACACG
* * * * * *
58305303 TAGTAGCCTGCACTTAGCACTACACAAGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCGGATACACG
* *
58305354 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGGATACACG
58305403 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
58305436 TCACAATAGA
Statistics
Matches: 157, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 77 0.49
50 43 0.27
51 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGGATACACG
Found at i:58305426 original size:100 final size:99
Alignment explanation
Indices: 58305204--58305435 Score: 333
Period size: 100 Copynumber: 2.3 Consensus size: 99
58305194 CTGGTAGGAA
*
58305204 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTCGGTACACATAGTAGCCTGCACTTA
* *
58305269 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* * * *
58305303 TAGTAGCCTGCACTTAGCACTACACAAGTGATCGAAGTTA-TCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATTC-GGTACACATAGTAGCCTGCAC
* **
58305367 TTAGTACTACACATGCGACC-AATTATCCGATACACG
63 TTAGTACTACACACGCGACCTAACCATCCGATACACG
58305403 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
58305436 TCACAATAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 30 0.26
100 47 0.40
101 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:58307601 original size:93 final size:93
Alignment explanation
Indices: 58307442--58307613 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
58307432 GGATATTTGA
* * * ** *
58307442 GCATCCGAACTTGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATGTTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
58307507 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58307535 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGTGAACGCCCAAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
58307600 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
58307614 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58307621 original size:46 final size:46
Alignment explanation
Indices: 58307454--58307620 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
58307444 ATCCGAACTT
* * * **
58307454 GTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATGTTCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTC
* *
58307500 GTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC--CCGAGCTC
* *
58307547 GTTGAGTTGAGTCCGAGTTCACTTATGGGTGTGAACGCCCAAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTC
*
58307593 GTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GTTGAGTTGAGTCCGAGTTCACTTATGG
58307621 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 53 0.53
47 27 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (46 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTC
Found at i:58315256 original size:22 final size:23
Alignment explanation
Indices: 58315208--58315256 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
58315198 AAAAAATTCT
* *
58315208 GCCAGTAAAAATGCAGACAACTT
1 GCCAGTAAAAATGCAGACAAATC
*
58315231 GCCAGTAAAAATGC-GATAAATC
1 GCCAGTAAAAATGCAGACAAATC
58315253 GCCA
1 GCCA
58315257 TTCCCCTCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (23 bp):
GCCAGTAAAAATGCAGACAAATC
Found at i:58315471 original size:17 final size:17
Alignment explanation
Indices: 58315449--58315482 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58315439 GTTTGAACTC
58315449 TTTTATGATCTTACCTA
1 TTTTATGATCTTACCTA
58315466 TTTTATGATCTTACCTA
1 TTTTATGATCTTACCTA
58315483 AGCTAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTATGATCTTACCTA
Found at i:58318384 original size:20 final size:20
Alignment explanation
Indices: 58318359--58318396 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
58318349 AAATGCTAAC
58318359 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
58318379 AGAGGCACCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
58318397 TCCCGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.08
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAT
Found at i:58322203 original size:28 final size:28
Alignment explanation
Indices: 58322160--58322223 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
58322150 GGAGGAAGCA
**
58322160 TTCTGGTGGCTTTGCCACAAATATCTGT
1 TTCTGGTGGCCCTGCCACAAATATCTGT
*
58322188 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCCCTGCCACAAATATCTGT
*
58322216 ATCTGGTG
1 TTCTGGTG
58322224 ACTCTATCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCCCTGCCACAAATATCTGT
Found at i:58322234 original size:28 final size:28
Alignment explanation
Indices: 58322174--58322236 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
58322164 GGTGGCTTTG
* * * *
58322174 CCACAAATATCTGTTTCTGGTGGCCCTG
1 CCACAATTATCTGTATCTGGTGACCCTA
*
58322202 CCACAATTATCTGTATCTGGTGACTCTA
1 CCACAATTATCTGTATCTGGTGACCCTA
*
58322230 TCACAAT
1 CCACAAT
58322237 ATTCGTTCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (28 bp):
CCACAATTATCTGTATCTGGTGACCCTA
Found at i:58327564 original size:24 final size:26
Alignment explanation
Indices: 58327524--58327571 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
58327514 TGTTGTTTGA
58327524 TAAAATGAAATTTTAAGTTATAAATT
1 TAAAATGAAATTTTAAGTTATAAATT
58327550 TAAAAT-AAA-TTTAAGTTATAAA
1 TAAAATGAAATTTTAAGTTATAAA
58327572 AAATAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.59
25 3 0.14
26 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAAATGAAATTTTAAGTTATAAATT
Found at i:58327570 original size:13 final size:13
Alignment explanation
Indices: 58327535--58327571 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
58327525 AAAATGAAAT
58327535 TTTAAGTTATAAA
1 TTTAAGTTATAAA
*
58327548 TTTAA--AATAAA
1 TTTAAGTTATAAA
58327559 TTTAAGTTATAAA
1 TTTAAGTTATAAA
58327572 AAATAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
TTTAAGTTATAAA
Found at i:58334768 original size:43 final size:44
Alignment explanation
Indices: 58334676--58334768 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 44
58334666 ATGTTGTGGT
*
58334676 GTTTGTAGCTAGAAGCGCTGCAAAAGATCATGTTCTTCAGTGGC
1 GTTTGTAGCTAGAAGCGCTGCAAAAGATCATGTTCTTCAGCGGC
* * *
58334720 ATTTGTAG-TAGAAGCG-TCGCTAAAGCTCATGTTCTAT-AGCGGC
1 GTTTGTAGCTAGAAGCGCT-GCAAAAGATCATGTTCT-TCAGCGGC
58334763 GTTTGT
1 GTTTGT
58334769 GGAAAAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 33 0.79
44 8 0.19
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
GTTTGTAGCTAGAAGCGCTGCAAAAGATCATGTTCTTCAGCGGC
Found at i:58336360 original size:94 final size:93
Alignment explanation
Indices: 58336169--58336338 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 93
58336159 AATTATGTGA
**
58336169 AAAATAAAATAAAGAACACACAGATTTTAAATGGAAACCCTTTCGGGAAAAAACCACGAGCAAAA
1 AAAATAAAATAAAGAACACACAGATTTTAAATGGAAACCCTTTAAGGAAAAAACCACGAGCAAAA
*
58336234 GAGAAGAAAATATGTGTGAAAAAAATAAAAT
66 GAGAAGAAAATATATGTG---AAAATAAAAT
** * * *
58336265 AAAATAAAATAAAG-A-ACACAGATTTTACGTGGAAACCCTTTAAGGAAAAAACCACGGGCAGAG
1 AAAATAAAATAAAGAACACACAGATTTTAAATGGAAACCCTTTAAGGAAAAAACCACGAGCAAAA
58336328 GAGAAGAAAAT
66 GAGAAGAAAAT
58336339 TCACTATGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
94 52 0.78
95 1 0.01
96 14 0.21
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.16
Consensus pattern (93 bp):
AAAATAAAATAAAGAACACACAGATTTTAAATGGAAACCCTTTAAGGAAAAAACCACGAGCAAAA
GAGAAGAAAATATATGTGAAAATAAAAT
Found at i:58339889 original size:37 final size:36
Alignment explanation
Indices: 58339847--58339923 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 36
58339837 TTTAATCTTG
*
58339847 TTCTGTAGCTTATAGCACTCAGATTTAATATGTCCT
1 TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
*
58339883 ATTCTGTAGCTTATAGCATTCAGATTTAATATGCCCT
1 -TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
58339920 TTCT
1 TTCT
58339924 TCTTACAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (36 bp):
TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
Found at i:58340853 original size:95 final size:96
Alignment explanation
Indices: 58340693--58340880 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 96
58340683 GATACCAATA
* * * *
58340693 TGTGAAGAAATAAAATAAAATAAAATAAAGAATACACAGATTTTATGTGGAAACCCTTTCAGG-A
1 TGTGAAAAAATAAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCAGGAA
58340757 AAAAACCACGAGCAAAAGAGAAGAAAATATG
66 AAAAACCACGAGCAAAAGAGAAGAAAATATG
* *
58340788 TGTGAAAAAATGAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCGGGAA
1 TGTGAAAAAATAAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCAGGAA
* * *
58340853 AAAAACCACGGGCAGAGGAGAAGAAAAT
66 AAAAACCACGAGCAAAAGAGAAGAAAAT
58340881 TCAATATGTC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 57 0.69
96 26 0.31
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (96 bp):
TGTGAAAAAATAAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCAGGAA
AAAAACCACGAGCAAAAGAGAAGAAAATATG
Found at i:58343229 original size:41 final size:41
Alignment explanation
Indices: 58343184--58343312 Score: 179
Period size: 41 Copynumber: 3.1 Consensus size: 41
58343174 CAGTGACATT
* *
58343184 CAGGCTTTATGTCGATGAATTATATCAGGCTTATTGCCTAG
1 CAGGCTTTATGTCGATGTATTATTTCAGGCTTATTGCCTAG
*
58343225 CAGGC-TTATTGTCGATGTATTATTTCAAGCTTATTGCCTAG
1 CAGGCTTTA-TGTCGATGTATTATTTCAGGCTTATTGCCTAG
* * * *
58343266 CAGGCTTTATGCCGGTGTATTATTTCAGGCCTATTGCATAG
1 CAGGCTTTATGTCGATGTATTATTTCAGGCTTATTGCCTAG
58343307 CAGGCT
1 CAGGCT
58343313 CTGTGCCGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.04
41 72 0.92
42 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
CAGGCTTTATGTCGATGTATTATTTCAGGCTTATTGCCTAG
Found at i:58343320 original size:41 final size:40
Alignment explanation
Indices: 58343184--58343329 Score: 166
Period size: 41 Copynumber: 3.5 Consensus size: 40
58343174 CAGTGACATT
* * * *
58343184 CAGGCTTTATGTCGATGAATTATATCAGGCTTATTGCCTAG
1 CAGGC-TTATGCCGGTGTATTATTTCAGGCTTATTGCCTAG
* * *
58343225 CAGGCTTATTGTCGATGTATTATTTCAAGCTTATTGCCTAG
1 CAGGCTTA-TGCCGGTGTATTATTTCAGGCTTATTGCCTAG
* *
58343266 CAGGCTTTATGCCGGTGTATTATTTCAGGCCTATTGCATAG
1 CAGGC-TTATGCCGGTGTATTATTTCAGGCTTATTGCCTAG
*
58343307 CAGGCTCTGTGCCGGTGTATTAT
1 CAGGCT-TATGCCGGTGTATTAT
58343330 ACTAGGCTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 4 0.04
41 86 0.92
42 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (40 bp):
CAGGCTTATGCCGGTGTATTATTTCAGGCTTATTGCCTAG
Found at i:58346490 original size:24 final size:25
Alignment explanation
Indices: 58346437--58346490 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
58346427 ATGGGAAAGA
58346437 AAAAAAATAAGTTAGGGATTTGGGG
1 AAAAAAATAAGTTAGGGATTTGGGG
*
58346462 AAAAAACTAAGTTAGGGATTTGGGG
1 AAAAAAATAAGTTAGGGATTTGGGG
58346487 AAAA
1 AAAA
58346491 CGATTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (25 bp):
AAAAAAATAAGTTAGGGATTTGGGG
Found at i:58348941 original size:62 final size:59
Alignment explanation
Indices: 58348832--58348945 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 59
58348822 AATCACTTTA
* * *
58348832 TTATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATTTAATACAAAATC
1 TTATTAAATTAATAAAATATTTATCAAGAAAAACATTAAATTAAATTTAATACAAAATC
* *
58348891 TTATTAAATTAATAAAATATTTATCTACAAGAGAAGCATTAAATTAAATTTAATA
1 TTATTAAATTAATAAAATATTTA--T-CAAGAAAAACATTAAATTAAATTTAATA
58348946 TTAAGATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 22 0.47
61 1 0.02
62 24 0.51
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (59 bp):
TTATTAAATTAATAAAATATTTATCAAGAAAAACATTAAATTAAATTTAATACAAAATC
Found at i:58348975 original size:20 final size:18
Alignment explanation
Indices: 58348928--58348976 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
58348918 CAAGAGAAGC
58348928 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
58348945 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
58348965 ATTAAATTAATA
1 ATTAAATTAATA
58348977 AATTACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:58352821 original size:43 final size:43
Alignment explanation
Indices: 58352676--58352885 Score: 206
Period size: 43 Copynumber: 4.9 Consensus size: 43
58352666 AACATGCTAA
** * * * * **
58352676 ATAGAACATGACCTTTAGATGCACTTCTACCATAAACGCAACT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
* ** * *
58352719 ATAGAACATGACCTTTAGCGGCG-ATTCCCTACAAACGTCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
*
58352761 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
* *
58352804 ATAGAACATGACATTTAGTGGCGCTTTTACTAAAAACGCCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
** * * ** *
58352847 ATAGAATGTGAGCTTTAGTGGCATTTTTGCTAAAAACGC
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGC
58352886 TACTAAATGT
Statistics
Matches: 138, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
42 33 0.24
43 105 0.76
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
Found at i:58352863 original size:86 final size:85
Alignment explanation
Indices: 58352676--58352882 Score: 207
Period size: 85 Copynumber: 2.4 Consensus size: 85
58352666 AACATGCTAA
** * * * * ** *
58352676 ATAGAACATGACCTTTAGATGCACTTCTACCATAAACGCAACTATAGAACATGACCTTTAGCGGC
1 ATAGAACATGACCTTTAGCGGCACTTTTACTAAAAATGCCGCTATAGAACATGACATTTAGCGGC
* * *
58352741 GATTCCCTACAAACGTCGCT
66 GATTCACTAAAAACGCCGCT
* *
58352761 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCTATAGAACATGACATTTAGTGGC
1 ATAGAACATGACCTTTAGCGGCACTTTTACTAAAAATGCCGCTATAGAACATGACATTTAGCGGC
* *
58352826 GCTTTTACTAAAAACGCCGCT
66 G-ATTCACTAAAAACGCCGCT
** * * * *
58352847 ATAGAATGTGAGCTTTAGTGGCATTTTTGCTAAAAA
1 ATAGAACATGACCTTTAGCGGCACTTTTACTAAAAA
58352883 CGCTACTAAA
Statistics
Matches: 98, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
85 55 0.56
86 43 0.44
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (85 bp):
ATAGAACATGACCTTTAGCGGCACTTTTACTAAAAATGCCGCTATAGAACATGACATTTAGCGGC
GATTCACTAAAAACGCCGCT
Found at i:58352906 original size:43 final size:43
Alignment explanation
Indices: 58352859--58352957 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
58352849 AGAATGTGAG
58352859 CTTTAGTGGCATTTTTGCTAAAAACG-CTACTAAATGTCATGTT
1 CTTTAGTGGCATTTTTGCTAAAAACGTC-ACTAAATGTCATGTT
* * * * ** * *
58352902 CTTTAGCGGC-GTTTTGGTGAAAGTGTCGCTAAATGTCTTGTT
1 CTTTAGTGGCATTTTTGCTAAAAACGTCACTAAATGTCATGTT
58352944 CTTTAGTGGCATTT
1 CTTTAGTGGCATTT
58352958 GTGAAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
42 32 0.73
43 12 0.27
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.41
Consensus pattern (43 bp):
CTTTAGTGGCATTTTTGCTAAAAACGTCACTAAATGTCATGTT
Found at i:58356878 original size:50 final size:50
Alignment explanation
Indices: 58356754--58356990 Score: 255
Period size: 50 Copynumber: 4.7 Consensus size: 50
58356744 AGTCGAAGCT
* * * *
58356754 ATCTGATACGCATAATAGCCTGCACTTAGTACTACACATGTGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * *
58356803 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAGGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
58356853 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CC
* * * * **
58356904 AT-TGAGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGA-CTAATT
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* *
58356953 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACAC
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACAC
58356991 TCGTGTACTT
Statistics
Matches: 159, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 42 0.26
50 80 0.50
51 37 0.23
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:58356964 original size:101 final size:99
Alignment explanation
Indices: 58356769--58356995 Score: 271
Period size: 101 Copynumber: 2.3 Consensus size: 99
58356759 ATACGCATAA
* *
58356769 TAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTAGTAGCCTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACACGTGACCAACAATCTGGTACACATAGTAGCCTGCACTTAGTA
* * *
58356834 CTACACAGGTGACCTCACCATCTGATACACGTAG
66 CTACACAGGCGACCTAACCATATGATACACGTAG
* * *
58356868 TAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCATAGTAGCCTGCATTT
1 TAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATCTG-GTACACATAGTAGCCTGCACTT
* ** *
58356931 AGTACTACACATGCGA-CTAATTAGTATGGTACACGTAG
62 AGTACTACACAGGCGACCTAACCA-TATGATACACGTAG
*
58356969 TAGCCTGCACTTAGTACTACACTCGTG
1 TAGCCTGCACTTAGTACTACACACGTG
58356996 TACTTACAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
99 27 0.25
100 9 0.08
101 73 0.66
102 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAACAATCTGGTACACATAGTAGCCTGCACTTAGTA
CTACACAGGCGACCTAACCATATGATACACGTAG
Found at i:58358944 original size:42 final size:42
Alignment explanation
Indices: 58358897--58358983 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
58358887 TACGCTCATA
*
58358897 TGTGAATCCGTGTGACACACACGACCAATAGACACGCCCGTG
1 TGTGAATCCGTGTGACACACACGACCAATAGACACACCCGTG
* *
58358939 TGTGAATCCGTGTGACACACATGGCCAATAGACACACCCGTG
1 TGTGAATCCGTGTGACACACACGACCAATAGACACACCCGTG
58358981 TGT
1 TGT
58358984 CTAAGCCGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (42 bp):
TGTGAATCCGTGTGACACACACGACCAATAGACACACCCGTG
Found at i:58360082 original size:23 final size:23
Alignment explanation
Indices: 58359998--58360083 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
58359988 GCTGATAAAT
*
58359998 AGTAAGCTC-TATTGAGC-AAAAC
1 AGTAAGCTCTTA-CGAGCTAAAAC
* * * *
58360020 AATAAGCTCTTTCGAGCTGAATC
1 AGTAAGCTCTTACGAGCTAAAAC
* ** *
58360043 GGTAAGCTCCAATGAGCTAAAAC
1 AGTAAGCTCTTACGAGCTAAAAC
58360066 AGTAAGCTCTTACGAGCT
1 AGTAAGCTCTTACGAGCT
58360084 GTGGTGAGTT
Statistics
Matches: 45, Mismatches: 17, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
22 12 0.27
23 33 0.73
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTTACGAGCTAAAAC
Found at i:58364319 original size:9 final size:9
Alignment explanation
Indices: 58364305--58364566 Score: 103
Period size: 9 Copynumber: 30.0 Consensus size: 9
58364295 TAAGTATAAT
58364305 TAAGTTATG
1 TAAGTTATG
58364314 TAAGTTATG
1 TAAGTTATG
58364323 TAAGTTATG
1 TAAGTTATG
58364332 TAAGTTATG
1 TAAGTTATG
* * *
58364341 ATATGATATA
1 -TAAGTTATG
* *
58364351 T-ATTTATA
1 TAAGTTATG
58364359 TAAGTTATG
1 TAAGTTATG
*
58364368 TAAGTAATG
1 TAAGTTATG
*
58364377 -ACATTTATG
1 TA-AGTTATG
*
58364386 -ATA-TGAT-
1 TA-AGTTATG
58364393 TATA-TTCATG
1 TA-AGTT-ATG
58364403 T-A-TTATG
1 TAAGTTATG
58364410 TAAGTTATG
1 TAAGTTATG
58364419 TAAGTTATG
1 TAAGTTATG
* * *
58364428 ATATGATATA
1 -TAAGTTATG
* *
58364438 T-ATTTATA
1 TAAGTTATG
58364446 TAAGTTATG
1 TAAGTTATG
*
58364455 TAAGTAATG
1 TAAGTTATG
*
58364464 -ACATTTATG
1 TA-AGTTATG
*
58364473 -ATA-TGAT-
1 TA-AGTTATG
58364480 TATA-TTCATG
1 TA-AGTT-ATG
58364490 T-A-TTATG
1 TAAGTTATG
58364497 TAAGTTATG
1 TAAGTTATG
58364506 TAAGTTATG
1 TAAGTTATG
* * *
58364515 ATATGATATA
1 -TAAGTTATG
58364525 T-A--TATG
1 TAAGTTATG
58364531 TAAGTTATG
1 TAAGTTATG
*
58364540 TATGTTATG
1 TAAGTTATG
*
58364549 TGAGTTATG
1 TAAGTTATG
58364558 TAAGTTATG
1 TAAGTTATG
58364567 ATAATTTATA
Statistics
Matches: 196, Mismatches: 37, Indels: 40
0.72 0.14 0.15
Matches are distributed among these distances:
6 4 0.02
7 9 0.05
8 34 0.17
9 129 0.66
10 20 0.10
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:58364438 original size:87 final size:87
Alignment explanation
Indices: 58364318--58364541 Score: 425
Period size: 87 Copynumber: 2.6 Consensus size: 87
58364308 GTTATGTAAG
58364318 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTAATGACATTT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTAATGACATTT
58364383 ATGATATGATTATATTCATGTA
66 ATGATATGATTATATTCATGTA
58364405 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTAATGACATTT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTAATGACATTT
58364470 ATGATATGATTATATTCATGTA
66 ATGATATGATTATATTCATGTA
*
58364492 TTATGTAAGTTATGTAAGTTATGATATGATATATA--TATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTA
58364542 TGTTATGTGA
Statistics
Matches: 136, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
85 14 0.10
87 122 0.90
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.46
Consensus pattern (87 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTAATGACATTT
ATGATATGATTATATTCATGTA
Found at i:58364558 original size:52 final size:50
Alignment explanation
Indices: 58364492--58364591 Score: 155
Period size: 52 Copynumber: 2.0 Consensus size: 50
58364482 TATTCATGTA
58364492 TTATGTAAGTTATGTAAGTTATGATATGATATATATATGTAAGTTATGTATG
1 TTATGTAAGTTATGTAAGTTATGATA--ATATATATATGTAAGTTATGTATG
* * *
58364544 TTATGTGAGTTATGTAAGTTATGATAATTTATATATTTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATAATATATATATGTAAGTTATGTA
58364592 ATTTTAAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 20 0.44
52 25 0.56
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (50 bp):
TTATGTAAGTTATGTAAGTTATGATAATATATATATGTAAGTTATGTATG
Found at i:58366350 original size:19 final size:19
Alignment explanation
Indices: 58366323--58366362 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58366313 TTGGGATTTT
* *
58366323 GATTTGGGGAAAATTTAGG
1 GATTAGGGGAAAATTGAGG
*
58366342 GATTAGGGGAGAATTGAGG
1 GATTAGGGGAAAATTGAGG
58366361 GA
1 GA
58366363 AATGGGGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.25
Consensus pattern (19 bp):
GATTAGGGGAAAATTGAGG
Found at i:58366834 original size:123 final size:122
Alignment explanation
Indices: 58366498--58366825 Score: 368
Period size: 123 Copynumber: 2.7 Consensus size: 122
58366488 GACGCTAGTG
* * * * * * *
58366498 CTGATATATTGTGGCATTTATAAGCTAGCGCCGCTAATTCCACTAAAGGGTCATCTAAAACAACG
1 CTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAATTCCACTAAAGAGACACCTAAAACGACG
* * ** *
58366563 ACGTTTTGATTCAATTAAAAATTTTTTTGCGGTGTTTTTAAAAAAGTGCCACTAATA
66 ACGTTTTAATTCAATTAAAAATTTTTTTGCAGCATTTTTAAAAAAGCGCCACTAATA
* ** * * *
58366620 CTGATCTATTGCGATGTTTATAAGCTAGCACCGCTAATTCCACTAAAGAGCCACTTAAAACGACG
1 CTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAATTCCACTAAAGAGACACCTAAAACGACG
* * * * ** *
58366685 ACGTTTTCATTCAACTAAAACATTTTTTTGCAGCATTTTTTAGAAAGCGCTGCTAATT
66 ACGTTTTAATTCAATTAAAA-ATTTTTTTGCAGCATTTTTAAAAAAGCGCCACTAATA
* * * * *
58366743 TTGATCTATTGAGGCGTTTATATGCTAGCGCCGCTAATTTCTCTAAAGCGACACCTAAAACGACG
1 CTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAATTCCACTAAAGAGACACCTAAAACGACG
*
58366808 ACGTTTAAATTCAATTAA
66 ACGTTTTAATTCAATTAA
58366826 CTTTTTTTTG
Statistics
Matches: 169, Mismatches: 36, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
122 72 0.43
123 97 0.57
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (122 bp):
CTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAATTCCACTAAAGAGACACCTAAAACGACG
ACGTTTTAATTCAATTAAAAATTTTTTTGCAGCATTTTTAAAAAAGCGCCACTAATA
Found at i:58367304 original size:7 final size:7
Alignment explanation
Indices: 58367289--58367328 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
58367279 ATTTTATCCC
58367289 TAAACCT
1 TAAACCT
*
58367296 TACACCT
1 TAAACCT
58367303 TAAACCT
1 TAAACCT
*
58367310 TAAACCC
1 TAAACCT
*
58367317 TAAACCA
1 TAAACCT
58367324 TAAAC
1 TAAAC
58367329 ATATACACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:58367308 original size:14 final size:14
Alignment explanation
Indices: 58367286--58367328 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
58367276 CAAATTTTAT
*
58367286 CCCTAAACCTTACA
1 CCCTAAACCTTAAA
*
58367300 CCTTAAACCTTAAA
1 CCCTAAACCTTAAA
*
58367314 CCCTAAACCATAAA
1 CCCTAAACCTTAAA
58367328 C
1 C
58367329 ATATACACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:58367492 original size:12 final size:13
Alignment explanation
Indices: 58367462--58367494 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58367452 ATCAAAATCT
58367462 CTAACCCTAAACC
1 CTAACCCTAAACC
*
58367475 CCAACCCT-AACC
1 CTAACCCTAAACC
58367487 CTAACCCT
1 CTAACCCT
58367495 TAAAACCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAACCCTAAACC
Found at i:58367548 original size:22 final size:22
Alignment explanation
Indices: 58367498--58367559 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
58367488 TAACCCTTAA
*
58367498 AACCAT-AAACACTAAGA-CCCT
1 AACCATAAAACACTAA-ACCCCC
*
58367519 AACTATAAAACACTAAACCCCC
1 AACCATAAAACACTAAACCCCC
* *
58367541 AACCATAAAATAATAAACC
1 AACCATAAAACACTAAACC
58367560 ATAACCCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.15
Consensus pattern (22 bp):
AACCATAAAACACTAAACCCCC
Found at i:58367629 original size:15 final size:15
Alignment explanation
Indices: 58367596--58367634 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
58367586 ACTCAAATTA
*
58367596 CTAAA-CATTAAGCC
1 CTAAACCATAAAGCC
*
58367610 ATAAACCATAAAGCC
1 CTAAACCATAAAGCC
58367625 CTAAACCATA
1 CTAAACCATA
58367635 GACTTAACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (15 bp):
CTAAACCATAAAGCC
Found at i:58367792 original size:41 final size:41
Alignment explanation
Indices: 58367698--58367809 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
58367688 GTATTTTTAT
** *
58367698 AACGCCGCTACTGCTTGACCTTTTGCGACG---TTATCTTA
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
*
58367736 AATGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
* * *
58367777 AACGCTGCTAATGCTTAACCTTTTGCGGTGTTT
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTT
58367810 ATGACTGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 27 0.43
41 36 0.57
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (41 bp):
AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
Found at i:58378023 original size:104 final size:104
Alignment explanation
Indices: 58377868--58378336 Score: 530
Period size: 104 Copynumber: 4.5 Consensus size: 104
58377858 AAAAGAACTT
* * * * ** * * *
58377868 AGGTTGCGAGCGTAAATCAACTAACCTTTAATCATTAGATCAGAACATAGGTCAGTGAATTGTTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
* *
58377933 CGAAGTTGCGAGCTTAACTCGGTTAACTCAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* * * *
58377972 AGGTTACGAGCTTAACTCAACCAACCTTTAATCATCAGTTGGGAACGTAGGTCTGTGAGCTATTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
* * * *
58378037 GGAAGTTGTGAGCTTAACTCGGCTAACTTAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* ** * * *
58378076 AGGTTGCGAGCTTAACTCAGCTAACCTTTAATCATCAACTGGGAACGTAGGTCCGCGAGCTATTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
* * *
58378141 CGGAGTTGTGAGCTTAACTCAGTTAACTCAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* ** * *
58378180 AGGTTGCAAATTTAACTCAACTAACCTTTAATCATCAATTGGGAACGTAGGTCCA--CAAGCTAT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGT-CAGTGAA-CTAT
* *
58378243 TTCGGAGTTGCGAGCTTAACTCAGCTAACTCAAAATAATTGG
64 TTCGAAGTTGCGAGCTTAACTCAGCTAACTC-AAATAACTGG
* * * *
58378285 AGGTTAC-ATGCTTAACTTATCTAACCCTTAATCATCAGTTGGGAACGTAGGT
1 AGGTTGCGA-GCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGT
58378337 GTAATGCCCC
Statistics
Matches: 314, Mismatches: 47, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
103 1 0.00
104 260 0.83
105 53 0.17
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (104 bp):
AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
Found at i:58378178 original size:208 final size:207
Alignment explanation
Indices: 58377819--58378336 Score: 592
Period size: 208 Copynumber: 2.5 Consensus size: 207
58377809 TTTAAATCAG
* * * * * * *
58377819 CGAGCTATTTGGAAGTTGTGATCTTAAATCAGTTAAGTTAAAAGAACT-TAGGTTGCGAGCGTAA
1 CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTT-AAATAACTGGAGGTTGCGAGCTTAA
* * ** * * * *
58377883 ATCAACTAACCTTTAATCATTAGATCAGAACATAGGTCAGTGAATTGTTTCGAAGTTGCGAGCTT
65 CTCAACTAACCTTTAATCATCA-ATGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTT
* * * *
58377948 AACTCGGTTAACTCAAATAACTGGAGGTTACGAGCTTAACTCAACCAACCTTTAATCATCAGTTG
129 AACTCAGTTAACTCAAATAACTGGAGGTTACAAACTTAACTCAACCAACCTTTAATCATCAATTG
**
58378013 GGAACGTAGGTCTG
194 GGAACGTAGGTCCA
* *
58378027 TGAGCTATTTGGAAGTTGTGAGCTTAACTCGGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
1 CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
* * * * *
58378092 TCAGCTAACCTTTAATCATCAACTGGGAACGTAGGTCCGCGAGCTATTTCGGAGTTGTGAGCTTA
66 TCAACTAACCTTTAATCATCAA-TGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTTA
* * *
58378157 ACTCAGTTAACTCAAATAACTGGAGGTTGCAAATTTAACTCAACTAACCTTTAATCATCAATTGG
130 ACTCAGTTAACTCAAATAACTGGAGGTTACAAACTTAACTCAACCAACCTTTAATCATCAATTGG
58378222 GAACGTAGGTCCA
195 GAACGTAGGTCCA
* * * * *
58378235 CAAGCTATTTCGG-AGTTGCGAGCTTAACTCAGCTAACTCAAAATAATTGGAGGTTAC-ATGCTT
1 CGAGCTATTT-GGAAGTTGTGAGCTTAACTCAGCTAACT-TAAATAACTGGAGGTTGCGA-GCTT
* * * *
58378298 AACTTATCTAACCCTTAATCATCAGTTGGGAACGTAGGT
63 AACTCAACTAACCTTTAATCATCA-ATGGGAACGTAGGT
58378337 GTAATGCCCC
Statistics
Matches: 262, Mismatches: 42, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
207 8 0.03
208 199 0.76
209 55 0.21
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (207 bp):
CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
TCAACTAACCTTTAATCATCAATGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTTAA
CTCAGTTAACTCAAATAACTGGAGGTTACAAACTTAACTCAACCAACCTTTAATCATCAATTGGG
AACGTAGGTCCA
Found at i:58380001 original size:43 final size:42
Alignment explanation
Indices: 58379934--58380100 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 42
58379924 AGCTCATACT
* * * **
58379934 ATGCC-ATGTCCCAGATATGATCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCA-ACATGGTCTTACATGTAATCACATATCA
* * * * *
58379976 GTGCCAATGTCCCAACCATGGTCTTACACGAAATCATATAACA
1 ATGCCAATGTCCCAA-CATGGTCTTACATGTAATCACATATCA
58380019 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCC-AACATGGTCTTACATGTAATCACATAT-CA
*
58380062 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCA-ACATGGTCTTACATGTAATCACAT
58380101 CTCAGTAATT
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 7 0.07
43 94 0.91
44 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAACATGGTCTTACATGTAATCACATATCA
Found at i:58382809 original size:42 final size:43
Alignment explanation
Indices: 58382672--58382860 Score: 265
Period size: 43 Copynumber: 4.4 Consensus size: 43
58382662 TTATGTAAAA
* * * * *
58382672 AAACGTCGTTAAAGAACATGACCGTTAGCGACGCTTTTACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
58382715 AAACGCTGCTAAAGAACATGACCTTTAGCGGCAG-TTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGC-GCTTTTCCCAC
**
58382758 AAACGCCGCTAAAGAACATGATATTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
58382800 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
58382843 AAACGCCGCTATAGAACA
1 AAACGCCGCTAAAGAACA
58382861 AACCTGGAAA
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 40 0.31
43 89 0.68
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:58382825 original size:85 final size:86
Alignment explanation
Indices: 58382672--58382860 Score: 265
Period size: 85 Copynumber: 2.2 Consensus size: 86
58382662 TTATGTAAAA
* * * *
58382672 AAACGTCGTTAAAGAACATGACCGTTAGCGACGCTTTTACCACAAACGCTGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACAGTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGAC
58382737 CTTTAGCGGCAG-TTTTCCCAC
66 CTTTAGCGGC-GCTTTTCCCAC
* * * *
58382758 AAACGCCGCTAAAGAACATGATATTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACAGTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGAC
*
58382822 CTTTAGTGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTTTTCCCAC
*
58382843 AAACGCCGCTATAGAACA
1 AAACGCCGCTAAAGAACA
58382861 AACCTGGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 63 0.68
86 28 0.30
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGACAGTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:58388129 original size:15 final size:14
Alignment explanation
Indices: 58388090--58388217 Score: 67
Period size: 14 Copynumber: 8.9 Consensus size: 14
58388080 TTAATCTAAA
58388090 CCCTAAACCCTTAAC
1 CCCT-AACCCTTAAC
*
58388105 CCTTAACCCTTAAC
1 CCCTAACCCTTAAC
* * *
58388119 CCCTATCCCCTAAA
1 CCCTAACCCTTAAC
* ** *
58388133 CCATAAAACATAAC
1 CCCTAACCCTTAAC
* * *
58388147 ACTTAACCCCTTAAT
1 CCCTAA-CCCTTAAC
*
58388162 CCCTAAACTCTTAAC
1 CCCT-AACCCTTAAC
*
58388177 CCGTAACCCTTAAC
1 CCCTAACCCTTAAC
** * *
58388191 TACTAATCATTAAC
1 CCCTAACCCTTAAC
*
58388205 CCCTAAACCTTAA
1 CCCTAACCCTTAA
58388218 ACAACAACCC
Statistics
Matches: 79, Mismatches: 32, Indels: 5
0.68 0.28 0.04
Matches are distributed among these distances:
14 59 0.75
15 18 0.23
16 2 0.03
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:58388246 original size:7 final size:7
Alignment explanation
Indices: 58388229--58388333 Score: 54
Period size: 7 Copynumber: 14.7 Consensus size: 7
58388219 CAACAACCCT
*
58388229 TAAACCG
1 TAAACCA
*
58388236 TAAACTA
1 TAAACCA
58388243 TAAACCA
1 TAAACCA
* *
58388250 TAATCCC
1 TAAACCA
58388257 TAAACTCA
1 TAAAC-CA
*
58388265 TAATCCA
1 TAAACCA
*
58388272 TAAACCT
1 TAAACCA
58388279 TAAA--A
1 TAAACCA
*
58388284 TAGTAACTCC
1 TA--AAC-CA
*
58388294 TAAACCT
1 TAAACCA
*
58388301 TAAACCT
1 TAAACCA
58388308 TAAACCA
1 TAAACCA
*
58388315 TATACTC-
1 TAAAC-CA
58388322 TAAACCA
1 TAAACCA
58388329 TAAAC
1 TAAAC
58388334 AGAAAACGAT
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 60 0.81
8 9 0.12
10 2 0.03
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:58388268 original size:15 final size:14
Alignment explanation
Indices: 58388242--58388277 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
58388232 ACCGTAAACT
58388242 ATAAACCATAATCC
1 ATAAACCATAATCC
*
58388256 CTAAACTCATAATCC
1 ATAAAC-CATAATCC
58388271 ATAAACC
1 ATAAACC
58388278 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAACCATAATCC
Found at i:58388282 original size:22 final size:21
Alignment explanation
Indices: 58388208--58388305 Score: 81
Period size: 22 Copynumber: 4.6 Consensus size: 21
58388198 CATTAACCCC
* * * *
58388208 TAAACCTTAAACAACAACCCT
1 TAAACCTTAAACTATAATCCA
* *
58388229 TAAACCGTAAACTATAAACCA
1 TAAACCTTAAACTATAATCCA
* *
58388250 TAATCCCTAAACTCATAATCCA
1 TAAACCTTAAACT-ATAATCCA
*
58388272 TAAACCTTAAAATAGTAACTCC-
1 TAAACCTTAAACTA-TAA-TCCA
58388294 TAAACCTTAAAC
1 TAAACCTTAAAC
58388306 CTTAAACCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 28 0.45
22 31 0.50
23 3 0.05
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACTATAATCCA
Found at i:58388719 original size:40 final size:40
Alignment explanation
Indices: 58388647--58388753 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 40
58388637 AATGTTTTTT
* * * * *
58388647 GCGGCGTTTTTGACAAAGTGCCACTAAAGCTCGATTTATA
1 GCGGCATTTTTCAAAAAGCGCCACTAAAGCTCGATCTATA
* * *
58388687 GCGGCATTTTTCAGAAAGCGCCATTAATGCTCGATCTATA
1 GCGGCATTTTTCAAAAAGCGCCACTAAAGCTCGATCTATA
* * *
58388727 GTGGAATTTTTCAAAAAGCGCCGCTAA
1 GCGGCATTTTTCAAAAAGCGCCACTAA
58388754 TGACACTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
GCGGCATTTTTCAAAAAGCGCCACTAAAGCTCGATCTATA
Found at i:58388755 original size:40 final size:40
Alignment explanation
Indices: 58388661--58388755 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
58388651 CGTTTTTGAC
* * * * *
58388661 AAAGTGCCACTAAAGCTCGATTTATAGCGGCATTTTTCAG
1 AAAGCGCCACTAATGCTCGATCTATAGCGGAATTTTTCAA
* *
58388701 AAAGCGCCATTAATGCTCGATCTATAGTGGAATTTTTCAA
1 AAAGCGCCACTAATGCTCGATCTATAGCGGAATTTTTCAA
*
58388741 AAAGCGCCGCTAATG
1 AAAGCGCCACTAATG
58388756 ACACTAAAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (40 bp):
AAAGCGCCACTAATGCTCGATCTATAGCGGAATTTTTCAA
Found at i:58388919 original size:40 final size:40
Alignment explanation
Indices: 58388806--58388922 Score: 139
Period size: 40 Copynumber: 2.9 Consensus size: 40
58388796 TTTTTTGTGA
* * * *
58388806 CGTTTTTTAAAAAGCGA-CGGTAATGGTCGACCTACAGCGG
1 CGTTTTTTAAAAAGC-ACCGCTAATGCTCGATCTATAGCGG
* *
58388846 C-TTTTTTAAAAAAGCGCCGCTAATGCTCAATCTATAGCGG
1 CGTTTTTT-AAAAAGCACCGCTAATGCTCGATCTATAGCGG
*
58388886 CGTTTTTTAGAAAGCACCGCTAATGCTCGATCTATAG
1 CGTTTTTTAAAAAGCACCGCTAATGCTCGATCTATAG
58388923 AAAAACGCCG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 6 0.09
40 53 0.82
41 6 0.09
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
CGTTTTTTAAAAAGCACCGCTAATGCTCGATCTATAGCGG
Found at i:58392468 original size:17 final size:17
Alignment explanation
Indices: 58392446--58392480 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58392436 AGGAGGAGTA
58392446 CACACAGAATATCAATC
1 CACACAGAATATCAATC
58392463 CACACAGAATATCAATC
1 CACACAGAATATCAATC
58392480 C
1 C
58392481 TTCAACCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.06, T:0.17
Consensus pattern (17 bp):
CACACAGAATATCAATC
Found at i:58394706 original size:40 final size:40
Alignment explanation
Indices: 58394624--58394844 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
58394614 ACCCAAGTAT
* *
58394624 CTTCGGGAT-TTAG-CCGGATATAAG-CACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATAT-AGTCACTAGCACAAATGC
* * * *
58394662 CTTCGGGTCTTAGCCTGAATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
58394702 CTTCGGGACGTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
58394742 CTTCGGGTTTTGGCCCGGCTATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
58394782 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
58394823 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
58394845 CATTCGAATA
Statistics
Matches: 146, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 13 0.09
40 91 0.62
41 29 0.20
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:58399779 original size:20 final size:19
Alignment explanation
Indices: 58399751--58399788 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
58399741 TTTTAAAGAC
*
58399751 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
58399770 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
58399789 ACATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:58399831 original size:24 final size:24
Alignment explanation
Indices: 58399782--58399832 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
58399772 TACTTTTATC
*
58399782 TTTATTTACATTTTTAAATTACTT
1 TTTATTTACATTTTTAAACTACTT
*
58399806 TTTATTT-TATTTTTAAAACTA-TT
1 TTTATTTACATTTTT-AAACTACTT
58399829 TTTA
1 TTTA
58399833 CTTCATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATTTACATTTTTAAACTACTT
Found at i:58402689 original size:43 final size:43
Alignment explanation
Indices: 58402641--58402791 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 43
58402631 TATCCCATAT
* * *
58402641 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCTCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * *
58402684 ATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* *
58402727 ATGGTCTTACACGTAATCACA-ATACAATTCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
* *
58402770 ATGATCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
58402792 CTCGGTAATT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 92 0.99
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:58406271 original size:13 final size:13
Alignment explanation
Indices: 58406253--58406280 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58406243 GATTTGAATA
58406253 ATGTATTGATGAT
1 ATGTATTGATGAT
58406266 ATGTATTGATGAT
1 ATGTATTGATGAT
58406279 AT
1 AT
58406281 AAATGTGGTA
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:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (13 bp):
ATGTATTGATGAT
Found at i:58418209 original size:14 final size:14
Alignment explanation
Indices: 58418190--58418216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58418180 TACAACAATA
58418190 CCAATTTACACATT
1 CCAATTTACACATT
58418204 CCAATTTACACAT
1 CCAATTTACACAT
58418217 GTTTCGTATT
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:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (14 bp):
CCAATTTACACATT
Found at i:58419718 original size:15 final size:15
Alignment explanation
Indices: 58419700--58419730 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58419690 AAACTCGCAC
58419700 AAACCAAATTCACAT
1 AAACCAAATTCACAT
*
58419715 AAACCAAATTCGCAT
1 AAACCAAATTCACAT
58419730 A
1 A
58419731 CTTGAATCAT
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:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCAAATTCACAT
Found at i:58422974 original size:43 final size:42
Alignment explanation
Indices: 58422927--58423043 Score: 116
Period size: 41 Copynumber: 2.8 Consensus size: 42
58422917 CAATGCCAAC
*
58422927 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ATT
1 GTCCCAGACGTGGTCTTACATGTAAACACATAT-GATGCCGA-T
* * *
58422970 GTCCCAGACAG-GGTCTTATACG-AAACAAATATGATGCCGAT
1 GTCCCAGAC-GTGGTCTTACATGTAAACACATATGATGCCGAT
* *
58423011 GTCCCAGACATGGTCTTAC-TCGTAACCACATAT
1 GTCCCAGACGTGGTCTTACAT-GTAAACACATAT
58423044 ATTGATGCCA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
41 24 0.40
42 17 0.28
43 18 0.30
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACATGTAAACACATATGATGCCGAT
Found at i:58423125 original size:56 final size:56
Alignment explanation
Indices: 58423042--58423147 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
58423032 GTAACCACAT
* *
58423042 ATATTGATGCCAACGTACTAGACGTGGTCTTACTCGCACACATATATCGAAATCAC
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
* *
58423098 ATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAGACATATATCGA
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGA
58423148 TGCCATGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
Found at i:58426089 original size:24 final size:23
Alignment explanation
Indices: 58426055--58426107 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
58426045 GTAGATCACA
* *
58426055 AAAAGTTGAAAAGCCGGAAAGTC
1 AAAAGTCGAAAAGCCGAAAAGTC
*
58426078 GAAAAGTCGAAATGCCGAAAAGTC
1 -AAAAGTCGAAAAGCCGAAAAGTC
58426102 AAAAGT
1 AAAAGT
58426108 TTGGCTGCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.49, C:0.13, G:0.25, T:0.13
Consensus pattern (23 bp):
AAAAGTCGAAAAGCCGAAAAGTC
Found at i:58426107 original size:7 final size:8
Alignment explanation
Indices: 58426055--58426107 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
58426045 GTAGATCACA
*
58426055 AAAAGTTG
1 AAAAGTCG
*
58426063 AAAAGCCG
1 AAAAGTCG
*
58426071 GAAAGTCG
1 AAAAGTCG
58426079 AAAAGTCG
1 AAAAGTCG
* *
58426087 AAATGCCG
1 AAAAGTCG
58426095 AAAAGTC-
1 AAAAGTCG
58426102 AAAAGT
1 AAAAGT
58426108 TTGGCTGCGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
7 6 0.17
8 30 0.83
ACGTcount: A:0.49, C:0.13, G:0.25, T:0.13
Consensus pattern (8 bp):
AAAAGTCG
Found at i:58426348 original size:29 final size:29
Alignment explanation
Indices: 58426315--58426434 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 29
58426305 GCGAGCATGA
* * * * *
58426315 ATATGCATGTGATTTGTGTCTAATGTGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* *
58426344 ATATGAATATGAATTGGGCCTAATGGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
*
58426373 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* *
58426402 ATATGAATGAG-ATTGGGCC-AAGTGAGCC
1 ATATGAATGTGAATTGGGCCTAA-TGGGCC
58426430 ATATG
1 ATATG
58426435 CACATATGTA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
27 1 0.01
28 18 0.23
29 58 0.75
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:58430637 original size:16 final size:17
Alignment explanation
Indices: 58430616--58430654 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
58430606 GTTGTAACGC
58430616 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
58430632 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
58430649 CCCAAA
1 CCCAAA
58430655 CTTTCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.49, C:0.38, G:0.05, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:58432230 original size:29 final size:29
Alignment explanation
Indices: 58432134--58432230 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
58432124 TGCGAGCATG
* * ** *
58432134 AATATGCATGTGATTTGGGTGTAATGGGC
1 AATATGAATGTGAATTGGGCCTGATGGGC
* * *
58432163 CATATGAATATGAATTGGGCTTGATGGGC
1 AATATGAATGTGAATTGGGCCTGATGGGC
*
58432192 TATATGAATGTGAATTGGGCCTGATGGGC
1 AATATGAATGTGAATTGGGCCTGATGGGC
58432221 AATATGAATG
1 AATATGAATG
58432231 AGATTGGACC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (29 bp):
AATATGAATGTGAATTGGGCCTGATGGGC
Found at i:58439290 original size:26 final size:26
Alignment explanation
Indices: 58439260--58439310 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
58439250 ACGAGACTTG
58439260 GCATACCAGTGGTGGAATACTCTCAA
1 GCATACCAGTGGTGGAATACTCTCAA
58439286 GCATACCAGTGGTGGAATACTCTCA
1 GCATACCAGTGGTGGAATACTCTCA
58439311 TGTTTGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (26 bp):
GCATACCAGTGGTGGAATACTCTCAA
Found at i:58444139 original size:27 final size:26
Alignment explanation
Indices: 58444109--58444602 Score: 414
Period size: 27 Copynumber: 18.3 Consensus size: 26
58444099 TACTGAAATG
* *
58444109 CCCTCGACTTGTAAAATTACTGTTTTA
1 CCCTCGA-TTTTAAAATTACCGTTTTA
*
58444136 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
58444163 CCCTCGATTTTTAAAATTACCGTTTTA
1 CCCTCGA-TTTTAAAATTACCGTTTTA
** *
58444190 CCCTCGATTTATTGAATTATCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* *
58444217 CCCTC-AGTTTATAGAATTACTGTTTTA
1 CCCTCGA-TTT-TAAAATTACCGTTTTA
*
58444244 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* *
58444271 CCCTC-AGTTTACAGAATTACTGTTTT-
1 CCCTCGATTTTA-A-AATTACCGTTTTA
*
58444297 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
*
58444324 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
*
58444351 CCCTCGA-TTTACAGAATTACTGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* * *
58444378 CACTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTT-TAAAATTACCGTTTTA
*
58444405 CCCTC-AATTTACAGAATTACCGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* **
58444432 CCCTC-AATTTACAGAATTACTATTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
58444459 CCCTCGA-TTTACAGAATTACCGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
*
58444486 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* *
58444513 CCCTTGA-TTTACAGAATTACTGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* *
58444540 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTT-TAAAATTACCGTTTTA
* *
58444567 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
*
58444594 CCTTCGATT
1 CCCTCGATT
58444603 GTGAAACTAC
Statistics
Matches: 392, Mismatches: 49, Indels: 52
0.80 0.10 0.11
Matches are distributed among these distances:
25 6 0.02
26 37 0.09
27 328 0.84
28 17 0.04
29 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (26 bp):
CCCTCGATTTTAAAATTACCGTTTTA
Found at i:58444167 original size:54 final size:52
Alignment explanation
Indices: 58444120--58444595 Score: 569
Period size: 54 Copynumber: 8.9 Consensus size: 52
58444110 CCTCGACTTG
* *
58444120 TAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTT
1 TAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-A-GTT
* ** *
58444174 TAAAATTACCGTTTTACCCTCGATTTATTGAATTATCGTTTTACCCTCAGTT
1 TAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT
*
58444226 TATAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGTT
1 TA-A-AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT
* *
58444280 TACAGAATTACTGTTTT-CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 TA-A-AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTT
** * *
58444334 GTAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACACTCAGTT
1 -TAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT
** * *
58444387 TACAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAATT
1 T--AAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT
* *
58444441 TACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTT
1 TA-A-AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTT
* * *
58444496 GTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAGTT
1 -TAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT
* *
58444549 TACAAAATTA-TCGTTTTACCCTCGATTTATAGAATTACCATTTTACC
1 T--AAAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACC
58444596 TTCGATTGTG
Statistics
Matches: 372, Mismatches: 36, Indels: 28
0.85 0.08 0.06
Matches are distributed among these distances:
52 7 0.02
53 49 0.13
54 308 0.83
55 6 0.02
56 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (52 bp):
TAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT
Found at i:58444231 original size:81 final size:81
Alignment explanation
Indices: 58444123--58444602 Score: 639
Period size: 81 Copynumber: 5.9 Consensus size: 81
58444113 CGACTTGTAA
* *
58444123 AATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
**
58444188 TACCCTCGATTTATTG
66 TACCCTCGATTTACAG
* * *
58444204 AATTA-TCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGT
1 AATTACT-GTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGT
58444267 TTTACCCTC-AGTTTACAG
64 TTTACCCTCGA-TTTACAG
* * *
58444285 AATTACTGTTTT-CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCATTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
58444349 TACCCTCGATTTACAG
66 TACCCTCGATTTACAG
* * * * * *
58444365 AATTACTGTTTTACACTC-AGTTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTT
1 AATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTT
*
58444429 TTACCCTCAATTTACAG
65 TTACCCTCGATTTACAG
* * *
58444446 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTACCGTTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
*
58444511 TACCCTTGATTTACAG
66 TACCCTCGATTTACAG
* * * *
58444527 AATTACTGTTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCATT
1 AATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTT
*
58444591 TTACCTTCGATT
65 TTACCCTCGATT
58444603 GTGAAACTAC
Statistics
Matches: 352, Mismatches: 37, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
80 77 0.22
81 273 0.78
82 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
TACCCTCGATTTACAG
Found at i:58444642 original size:27 final size:27
Alignment explanation
Indices: 58444610--58444801 Score: 199
Period size: 27 Copynumber: 7.1 Consensus size: 27
58444600 ATTGTGAAAC
58444610 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * *
58444637 TTCTGAAATACCCCTATAGGGTATAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * * *
58444664 TATTGAAATACCCTTATAGGATAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* *
58444691 TACCGAAATACCCCTGTATGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* *
58444718 TA-TCGAAATACCCTTGTAGGGTAGAAA
1 TACT-GAAATACCCCTGTAGGGTAGAAT
*
58444745 TAC-CAAGATACCCCTGTAGGGTAGAAT
1 TACTGAA-ATACCCCTGTAGGGTAGAAT
* * * * *
58444772 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
58444799 TAC
1 TAC
58444802 CATTTTGCCC
Statistics
Matches: 135, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 132 0.98
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAT
Found at i:58444675 original size:54 final size:54
Alignment explanation
Indices: 58444613--58444802 Score: 220
Period size: 54 Copynumber: 3.5 Consensus size: 54
58444603 GTGAAACTAC
* * * *
58444613 TGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTATAATTAT
1 TGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTAT
* * * *
58444667 TGAAATACCCTTATAGGATAGAATTACCGAAATACCCCTGTATGGTAGAATTAT
1 TGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTAT
* * * *
58444721 CGAAATACCCTTGTAGGGTAGAAATACC-AAGATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCTTGTAGGGTAGAATTACCGAA-ATACCCCTATAGGGTAGAATTAT
* * * *
58444775 CGAGATACCCTTGTGGGGTAAAATTACC
1 TGAAATACCCTTGTAGGGTAGAATTACC
58444803 ATTTTGCCCC
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
53 2 0.02
54 115 0.98
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
TGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTAT
Found at i:58445039 original size:27 final size:26
Alignment explanation
Indices: 58445001--58445083 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
58444991 TGGAGGAAGC
*
58445001 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
58445028 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
58445054 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
58445081 GTT
1 GTT
58445084 GATCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:58445434 original size:27 final size:26
Alignment explanation
Indices: 58445394--58445467 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
58445384 TAGGTGGGTT
* *
58445394 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACTC
*
58445421 TGCCACAATGTCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
58445448 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
58445468 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:58445594 original size:6 final size:6
Alignment explanation
Indices: 58445585--58445771 Score: 145
Period size: 6 Copynumber: 30.8 Consensus size: 6
58445575 TTGCATTCAC
* *
58445585 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
58445634 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTA ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
58445682 ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTA ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
58445731 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
58445772 CATTTTGGTT
Statistics
Matches: 143, Mismatches: 22, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
5 11 0.08
6 119 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58445647 original size:30 final size:30
Alignment explanation
Indices: 58445585--58445771 Score: 215
Period size: 30 Copynumber: 6.4 Consensus size: 30
58445575 TTGCATTCAC
* *
58445585 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
58445616 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
58445646 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * **
58445670 ATTCTAATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
* *
58445701 ATTCTGATTCTAATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
58445731 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
58445761 ATTTTGATTCT
1 ATTCTGATTCT
58445772 CATTTTGGTT
Statistics
Matches: 135, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
24 22 0.16
26 1 0.01
29 1 0.01
30 70 0.52
31 41 0.30
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:58445725 original size:85 final size:85
Alignment explanation
Indices: 58445585--58445771 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
58445575 TTGCATTCAC
*
58445585 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
58445650 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
58445670 ATTCTAATTCTGATTCTGTCACCTAATTTTGATTCTGATTCTAATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
58445735 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
58445755 ATTCTGATTTTGATTCT
1 ATTCTGATTCTGATTCT
58445772 CATTTTGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:58445776 original size:12 final size:12
Alignment explanation
Indices: 58445705--58445792 Score: 63
Period size: 12 Copynumber: 7.3 Consensus size: 12
58445695 ATTTTGATTC
*
58445705 TGATTCTAATTC
1 TGATTCTAATTT
*
58445717 TG-TTACTAATAT
1 TGATT-CTAATTT
* *
58445729 TGATTCTGATTC
1 TGATTCTAATTT
* *
58445741 TGATTCT-GTTAC
1 TGATTCTAATT-T
*
58445753 TGATTCTGATTT
1 TGATTCTAATTT
*
58445765 TGATTCTCATTT
1 TGATTCTAATTT
*
58445777 TGGTTCTAATTT
1 TGATTCTAATTT
58445789 TGAT
1 TGAT
58445793 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
11 4 0.07
12 52 0.87
13 4 0.07
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.53
Consensus pattern (12 bp):
TGATTCTAATTT
Found at i:58448440 original size:15 final size:17
Alignment explanation
Indices: 58448415--58448447 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58448405 TTGAATGGAA
58448415 TTATATTTGAAT-TATT
1 TTATATTTGAATATATT
58448431 TTAT-TTTGAATATATT
1 TTATATTTGAATATATT
58448447 T
1 T
58448448 AGATCAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATATTTGAATATATT
Found at i:58448820 original size:43 final size:43
Alignment explanation
Indices: 58448749--58448868 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
58448739 TAGGATTTAT
*
58448749 GATATGTGATTGCGTGTAAGACCATGTCTGGGACA-TCGGCATC
1 GATATGTGATTGCGTGTAAGACCATGTCTGGGACAGT-GACATC
* *
58448792 GTATATGTGATT-CGTGTAAGACCTTGTCTGGGATAGTGACATC
1 G-ATATGTGATTGCGTGTAAGACCATGTCTGGGACAGTGACATC
* ** * *
58448835 GATATGTGATTACAAGTAAGACCACGTTTGGGAC
1 GATATGTGATTGCGTGTAAGACCATGTCTGGGAC
58448869 GTTGGCATTG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 10 0.15
43 44 0.68
44 11 0.17
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATGTGATTGCGTGTAAGACCATGTCTGGGACAGTGACATC
Found at i:58452448 original size:48 final size:48
Alignment explanation
Indices: 58452386--58452598 Score: 417
Period size: 48 Copynumber: 4.4 Consensus size: 48
58452376 TATATATGTG
58452386 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
58452434 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
58452482 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
58452530 CGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
58452578 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
58452599 GTGTTTCGGC
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 163 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:58452821 original size:37 final size:37
Alignment explanation
Indices: 58452771--58452873 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
58452761 GGAAATATAT
58452771 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58452808 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58452845 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
58452874 GGACTATTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58456123 original size:27 final size:27
Alignment explanation
Indices: 58456089--58456414 Score: 377
Period size: 27 Copynumber: 12.1 Consensus size: 27
58456079 CCAAAGTACT
58456089 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
58456116 CTCAATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
58456143 CTCGATTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
58456170 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
58456197 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
58456224 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
58456251 CTTAATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
58456278 CTCGATTTACAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
58456305 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
58456332 CTTGATTTACAGAATTACTGGTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * * *
58456359 CTC-AGTTCACAAAATTATCATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
58456386 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
58456413 CT
1 CT
58456415 TAATTGTGAA
Statistics
Matches: 252, Mismatches: 43, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 248 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:58456415 original size:81 final size:81
Alignment explanation
Indices: 58456092--58456415 Score: 454
Period size: 81 Copynumber: 4.0 Consensus size: 81
58456082 AAGTACTCTC
* * *
58456092 GATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCTCGATTTATAGAA
** *
58456157 TTACTATTTTACCCTC
66 TTACCGTTTTACCCTT
* * *
58456173 GATTTATAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCTCGATTTATAGAA
*
58456238 TTATCGTTTTACCCTT
66 TTACCGTTTTACCCTT
* * * * *
58456254 AATTTACAGAATTACTGTTTTACCCTC-GATTTACAAAATTACCATTTTACCCTCGATTTGTAAA
1 GATTTACAGAATTACCGTTTTACCCTCAG-TTTACAAAATTACTATTTTACCCTCGATTTATAGA
58456318 ATTACCGTTTTACCCTT
65 ATTACCGTTTTACCCTT
* * *
58456335 GATTTACAGAATTACTGGTTTACCCTCAGTTCACAAAATTA-TCATTTTACCCTCGATTTATAGA
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACT-ATTTTACCCTCGATTTATAGA
58456399 ATTACCGTTTTACCCTT
65 ATTACCGTTTTACCCTT
58456416 AATTGTGAAA
Statistics
Matches: 217, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
80 1 0.00
81 215 0.99
82 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
GATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCTCGATTTATAGAA
TTACCGTTTTACCCTT
Found at i:58456454 original size:27 final size:27
Alignment explanation
Indices: 58456424--58456601 Score: 232
Period size: 27 Copynumber: 6.6 Consensus size: 27
58456414 TTAATTGTGA
*
58456424 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
58456451 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
58456478 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
58456505 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
58456532 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTATAGGGTAG
* * *
58456559 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
58456586 AATTACCGAGATACCC
1 AATTACTGAAATACCC
58456602 TTGTGGGGGT
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:58456605 original size:54 final size:54
Alignment explanation
Indices: 58456431--58456603 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
58456421 TGAAATTATT
* * * *
58456431 GAAATACCCCTATAGGGTAGAATTTCTGAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACC
* *
58456485 GAAATACCCTTATAGGATAGAATTACTGAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACC
* * *
58456539 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACC
*
58456593 GAGATACCCTT
1 GAAATACCCTT
58456604 GTGGGGGTAA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACC
Found at i:58456857 original size:27 final size:27
Alignment explanation
Indices: 58456819--58456901 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
58456809 CGGAGGAAGC
*
58456819 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
58456846 GTTCTGGTGGCTCTGCCA-AAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
58456872 GTATTTGGTGACTCTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
58456899 GTT
1 GTT
58456902 GACCGATCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 11 0.22
27 39 0.78
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:58457260 original size:27 final size:27
Alignment explanation
Indices: 58457212--58457285 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
58457202 TAGGTGGGTT
* *
58457212 TGCCACATTATCTG-ATTTTGGTGACTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
58457239 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
* *
58457266 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
58457286 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:58457437 original size:6 final size:6
Alignment explanation
Indices: 58457428--58457565 Score: 124
Period size: 6 Copynumber: 22.8 Consensus size: 6
58457418 CTGTCACATA
* * * *
58457428 ATTCTG ATTCTG ATTCTA ATTTTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
58457476 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
58457525 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
58457566 CATTTTGGTT
Statistics
Matches: 107, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
5 8 0.07
6 91 0.85
7 6 0.06
8 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58457499 original size:61 final size:61
Alignment explanation
Indices: 58457404--58457572 Score: 259
Period size: 61 Copynumber: 2.8 Consensus size: 61
58457394 TGCATTCACC
* *
58457404 TTCTGATTCTAATTCTGTCACATAATTCTGATTCTGATTCTAATTTTGTTACTAATACTGA
1 TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTGTTACTAATACTGA
* * *
58457465 TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGA
1 TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTGTTACTAATACTGA
* * *
58457526 TTCTGATTCTGATTCTGTTA-CTGATTCTGATTCTGATTCTCATTTTG
1 TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTG
58457573 GTTCCAATTC
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
60 24 0.24
61 75 0.76
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (61 bp):
TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTGTTACTAATACTGA
Found at i:58457586 original size:30 final size:30
Alignment explanation
Indices: 58457404--58457565 Score: 227
Period size: 30 Copynumber: 5.3 Consensus size: 30
58457394 TGCATTCACC
* *
58457404 TTCTGATTCTAATTCTGTCACATAATTCTGA
1 TTCTGATTCTGATTCTGTTAC-TAATTCTGA
* * *
58457435 TTCTGATTCTAATTTTGTTACTAATACTGA
1 TTCTGATTCTGATTCTGTTACTAATTCTGA
*
58457465 TTCTGATTCTGATTCTGTCACCTAATTCTGA
1 TTCTGATTCTGATTCTGTTA-CTAATTCTGA
58457496 TTCTGATTCTGATTCTGTTACTAATAT-TGA
1 TTCTGATTCTGATTCTGTTACTAAT-TCTGA
*
58457526 TTCTGATTCTGATTCTGTTACTGATTCTGA
1 TTCTGATTCTGATTCTGTTACTAATTCTGA
58457556 TTCTGATTCT
1 TTCTGATTCT
58457566 CATTTTGGTT
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.59
31 48 0.40
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (30 bp):
TTCTGATTCTGATTCTGTTACTAATTCTGA
Found at i:58460018 original size:40 final size:40
Alignment explanation
Indices: 58459973--58460057 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
58459963 CTTGATATAT
**
58459973 TATATATCTGGGTTAAATCCCGCAAGCTTCA-TGCTGGTAA
1 TATATATCCAGGTTAAATCCCGCAAGCTT-AGTGCTGGTAA
* * *
58460013 TATATATCCAGGTTAAATCCCGTAGGCTTAGTGCTGGTAC
1 TATATATCCAGGTTAAATCCCGCAAGCTTAGTGCTGGTAA
58460053 TATAT
1 TATAT
58460058 CGGGGCTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
TATATATCCAGGTTAAATCCCGCAAGCTTAGTGCTGGTAA
Found at i:58467829 original size:40 final size:40
Alignment explanation
Indices: 58467779--58467862 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
58467769 CTTGATATAT
* * *
58467779 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA
1 TATATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAA
* *
58467819 TATATATCCGGCTTAAATCTCGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAA
58467859 TATA
1 TATA
58467863 CCCGGGCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (40 bp):
TATATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAA
Found at i:58469382 original size:47 final size:46
Alignment explanation
Indices: 58469311--58469574 Score: 188
Period size: 46 Copynumber: 5.7 Consensus size: 46
58469301 TTAATTGTGT
* * * *
58469311 GCTATTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACACATGATGAGA
58469357 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACA-ATGA-GACGATA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACACATGATGA-G--A
* * * *
58469405 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCTCAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACACATGATG-AGA
* * * * *
58469451 GCCAGCGTAAGACATGTCTGGGACATGCATCGGATACAAGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACACATGATGAGA
* * *
58469496 TC-AGTGTAAGACCATTTCTGGGACATGGCAT-TGACTTA-ATGGAT-A-A
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGAC--ACAT-GATGAGA
*
58469542 GCCAGTGTAAGACCATGTCTGGGACATGACATC
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATC
58469575 AGCATTATAC
Statistics
Matches: 175, Mismatches: 24, Indels: 36
0.74 0.10 0.15
Matches are distributed among these distances:
44 8 0.05
45 18 0.10
46 64 0.37
47 62 0.35
48 21 0.12
49 1 0.01
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACACATGATGAGA
Found at i:58470755 original size:21 final size:20
Alignment explanation
Indices: 58470730--58470769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
58470720 GTCATAAAGA
58470730 CCACACGGGCATGTTACCCTT
1 CCACACGGGCATGTT-CCCTT
*
58470751 CCACACGGGCGTGTTCCCT
1 CCACACGGGCATGTTCCCT
58470770 ATTTCCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (20 bp):
CCACACGGGCATGTTCCCTT
Found at i:58471855 original size:6 final size:6
Alignment explanation
Indices: 58471832--58471908 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
58471822 TCAGAACTAA
* * * *
58471832 AATCAA AATCAG AATCAG AATCAG -GTGACAG AATTAG GATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG AATCAG
* *
58471881 TATCAGG TAA-CAG AATCAA AATCAG AAT
1 AATCA-G -AATCAG AATCAG AATCAG AAT
58471909 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
5 3 0.06
6 43 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:58471905 original size:31 final size:31
Alignment explanation
Indices: 58471832--58471908 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
58471822 TCAGAACTAA
*
58471832 AATCAAAATCAGAATCAGAATCAGGTGACAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAG
* ** *
58471863 AATTAGGATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAG
58471894 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
58471909 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAG
Found at i:58472109 original size:27 final size:26
Alignment explanation
Indices: 58472045--58472146 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
58472035 GCTCAGTTAT
* * *
58472045 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
* *
58472072 CAGATACTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
58472098 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
58472126 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
58472147 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 48 0.76
28 8 0.13
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:58472129 original size:54 final size:53
Alignment explanation
Indices: 58472045--58472146 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 53
58472035 GCTCAGTTAT
* * * *
58472045 CAGATATTGTGACAGAGTCACCAAATACAGATACTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAAATACAGATAATGTGGCAAAGCCACCAGAA
* *
58472098 CAGATATTTGTGGCATAGCCACCAGAA-ACAGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCA-AATACAGATAATGTGGCAAAGCCAC
58472147 TTAACAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
53 6 0.15
54 33 0.80
55 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAAATACAGATAATGTGGCAAAGCCACCAGAA
Found at i:58472339 original size:22 final size:22
Alignment explanation
Indices: 58472305--58472369 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
58472295 GCAAATACGT
*
58472305 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
58472327 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
58472349 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
58472370 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:58472854 original size:27 final size:26
Alignment explanation
Indices: 58472796--58472988 Score: 219
Period size: 27 Copynumber: 7.3 Consensus size: 26
58472786 GGGGCAAAAT
* * * *
58472796 GGTAATTTTACCCCACAAGGTATCTC
1 GGTAATTCTACCCTACAGGGTATTTC
58472822 GGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGG-TATTTC
*
58472849 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGTATTTC
* *
58472876 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACA-GGGTATTTC
*
58472903 GGTAATTCT-CCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
58472929 GGTAATTCT-CCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
** *
58472955 GACATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
58472982 GGTAATT
1 GGTAATT
58472989 TTGTAAATCG
Statistics
Matches: 146, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
26 64 0.44
27 77 0.53
28 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Done.