Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 132 of 344
Found at i:44592668 original size:467 final size:467
Alignment explanation
Indices: 44591822--44592753 Score: 1776
Period size: 467 Copynumber: 2.0 Consensus size: 467
44591812 TTAGGGCTTT
*
44591822 TGGCCAATTTGTTTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
1 TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
44591887 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
66 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
44591952 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
131 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
44592017 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
196 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
*
44592082 TATAAATATTTTGTTAATATTAGCCATTTGTTTGGCTTTTATATGGTATGTATATATATATGGCC
261 TATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCC
44592147 TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
326 TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
*
44592212 TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATG
391 TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAATG
44592277 TGTTAATATATA
456 TGTTAATATATA
*
44592289 TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAATGGTAAGTTAAAT
1 TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
44592354 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
66 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
*
44592419 AACTTGGAAGCTCGTTAAGGTTGGAATCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
131 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
*
44592484 CGGTATATATAGTAAATTATTTTGATTATAATGGCATGTATAGGCTAAATTGGCCTA-TGCTGAC
196 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCC-ACTGCTGAC
44592548 ATATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGC
260 ATATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGC
* *
44592613 CTTGTTATGGTTTATATGTGTTGATAAGGTTAAATGATGGTAACATTATAGGTATGTGATGATAT
325 CTTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATAT
44592678 GTTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAAT
390 GTTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAAT
44592743 GTGTTAATATA
455 GTGTTAATATA
44592754 GGTGGAAGGA
Statistics
Matches: 456, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
467 455 1.00
468 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (467 bp):
TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
TATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCC
TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAATG
TGTTAATATATA
Found at i:44594526 original size:10 final size:10
Alignment explanation
Indices: 44594507--44594536 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
44594497 AGTGTCCACT
44594507 AGCA-ATTTA
1 AGCACATTTA
44594516 AGCACATTTA
1 AGCACATTTA
44594526 AGCACATTTA
1 AGCACATTTA
44594536 A
1 A
44594537 CTCAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (10 bp):
AGCACATTTA
Found at i:44595638 original size:5 final size:5
Alignment explanation
Indices: 44595628--44595666 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
44595618 GTAGATGAAG
*
44595628 AGAAA AGAAA AGAAA AGAAA AG-AA GGAAA AGAAGA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAA
44595667 GAAAGGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 3 0.10
5 22 0.73
6 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:44595667 original size:15 final size:14
Alignment explanation
Indices: 44595601--44595675 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
44595591 GGCTATGGAG
44595601 GAAAAGAAGAAG-A
1 GAAAAGAAGAAGAA
* *
44595614 G-AAAGTAGATGAA
1 GAAAAGAAGAAGAA
*
44595627 GAGAA-AAGAA-AA
1 GAAAAGAAGAAGAA
44595639 GAAAAGAA-AAGAA
1 GAAAAGAAGAAGAA
44595652 GGAAAAGAAGAAGAA
1 -GAAAAGAAGAAGAA
*
44595667 GAAAGGAAG
1 GAAAAGAAG
44595676 TAAATGAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
12 16 0.33
13 10 0.20
14 18 0.37
15 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (14 bp):
GAAAAGAAGAAGAA
Found at i:44598144 original size:46 final size:45
Alignment explanation
Indices: 44598077--44598245 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
44598067 AACCCGCCCC
* *
44598077 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATTCA
*
44598123 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATTCA
* * * * *
44598171 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATTCA
44598216 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
44598246 TGGATGCTCA
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 56 0.54
47 28 0.27
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATTCA
Found at i:44598190 original size:93 final size:93
Alignment explanation
Indices: 44598082--44598252 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
44598072 GCCCCTAAGT
* * * *
44598082 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44598147 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
44598175 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
44598240 CGAGTTTGGATGC
66 CGAGTTCGGATGC
44598253 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44598268 original size:46 final size:45
Alignment explanation
Indices: 44598125--44598268 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
44598115 CGCATTCATA
44598125 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
44598172 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
44598218 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
44598264 AGTGA
1 AGTGA
44598269 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.41
47 31 0.40
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:44599571 original size:17 final size:19
Alignment explanation
Indices: 44599551--44599594 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44599541 ACACATACAG
44599551 TAAT-ATTTT-TCTAATAA
1 TAATAATTTTATCTAATAA
*
44599568 TAATAATTTTATCTCATAA
1 TAATAATTTTATCTAATAA
*
44599587 TACTAATT
1 TAATAATT
44599595 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATTTTATCTAATAA
Found at i:44603127 original size:150 final size:148
Alignment explanation
Indices: 44602856--44603342 Score: 565
Period size: 150 Copynumber: 3.3 Consensus size: 148
44602846 TGCTAAGGAG
* *
44602856 ATATGAGAGCTAGTGTAAGACCATGTTGGGGACATGGCATCGGTCTCGATATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGTT-GGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* * * * *
44602921 TAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACATGAGAGTTAGTGTAAGACCTTGTCTGG
65 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTAG
*
44602986 GATATGGCATCAGCCTCGAA
130 GACATGGCAT-AGCCTCGAA
*
44603006 ATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGT-TGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* *
44603071 TAAGACCATGTTTGGGACATGGCATCGGCCTCGAGATATGAGAGCCAGTGTAAGACCATGTCTAG
65 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTAG
* * * *
44603136 GACATGGCATTGGCTTGAT
130 GACATGGCATAGCCTCGAA
* *
44603155 ATAT--G-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGGCAC-CGATAGATGAGAGCTAGT
1 ATATGAGAGCTAGTGTAAGACTATG-TTGGGACATGGCATCGGC-CTCGATATATGAGAGCTAGT
* * * * * * *
44603215 GTAAGACCATGTCTGGGACATGGCATCGACCTCAATATACGAGAGTCAATGTAAGACCATGTTTC
64 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTA
* * * *
44603280 GGACACGGCATCGACTTTG--
129 GGACATGGCATAG-CCTCGAA
* * * * *
44603299 ATGTGTGAGCCAATGTAAGACTATGTTCGGGACATGGCGTCGGC
1 ATATGAGAGCTAGTGTAAGACTATGTT-GGGACATGGCATCGGC
44603343 ACCTTACCCT
Statistics
Matches: 293, Mismatches: 35, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
144 3 0.01
145 114 0.39
146 7 0.02
147 4 0.01
148 28 0.10
149 9 0.03
150 127 0.43
151 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (148 bp):
ATATGAGAGCTAGTGTAAGACTATGTTGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTGT
AAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTAGG
ACATGGCATAGCCTCGAA
Found at i:44603294 original size:50 final size:50
Alignment explanation
Indices: 44602856--44603292 Score: 539
Period size: 50 Copynumber: 8.8 Consensus size: 50
44602846 TGCTAAGGAG
*
44602856 ATATGAGAGCTAGTGTAAGACCATGT-TGGGGACATGGCATCGGTCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCTCGAT
* *
44602906 ATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * * * *
44602956 ACATGAGAGTTAGTGTAAGACCTTGTCTGGGATATGGCATCAGCCTCGAA
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
44603006 ATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
44603056 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * *
44603106 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGG-CTTGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * *
44603155 ATAT--G-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGGCAC-CGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT
* * *
44603201 AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * * *
44603251 ATACGAGAG-TCAATGTAAGACCATGTTTCGGACACGGCATCG
1 ATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
44603293 ACTTTGATGT
Statistics
Matches: 335, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
45 28 0.08
46 7 0.02
47 2 0.01
48 1 0.00
49 11 0.03
50 285 0.85
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
Found at i:44604065 original size:17 final size:17
Alignment explanation
Indices: 44604043--44604076 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44604033 TTGATGTGAG
44604043 ATAGAGTCAGAATGATT
1 ATAGAGTCAGAATGATT
44604060 ATAGAGTCAGAATGATT
1 ATAGAGTCAGAATGATT
44604077 TCAAAATCCC
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:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
ATAGAGTCAGAATGATT
Found at i:44606334 original size:27 final size:28
Alignment explanation
Indices: 44606289--44606407 Score: 122
Period size: 27 Copynumber: 4.4 Consensus size: 28
44606279 CGAGATGTAA
* *
44606289 AAGTACAAGCCAAAATGGCAGATAGTCC
1 AAGTACAAGCCAAAGTGGCAGACAGTCC
* *
44606317 AAGTGCAAGCC-AAGTGGC-GAACAATCC
1 AAGTACAAGCCAAAGTGGCAG-ACAGTCC
*
44606344 AAGTACAAGCC-AAGTGGCAGACAGTCT
1 AAGTACAAGCCAAAGTGGCAGACAGTCC
*
44606371 AAGTACAAGCCAAAG-GG-AGGATAGTCC
1 AAGTACAAGCCAAAGTGGCA-GACAGTCC
*
44606398 AAGTGCAAGC
1 AAGTACAAGC
44606408 TAAAATGGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 61 0.79
28 14 0.18
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (28 bp):
AAGTACAAGCCAAAGTGGCAGACAGTCC
Found at i:44606399 original size:54 final size:55
Alignment explanation
Indices: 44606289--44606415 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
44606279 CGAGATGTAA
* * *
44606289 AAGTACAAGCCAAAATGGCAGATAGTCCAAGTGCAAGCCAAGTGGCGAACAATCC
1 AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCC
* * * * *
44606344 AAGTACAAGCC-AAGTGGCAGACAGTCTAAGTACAAGCCAAAG-GGAGGATAGTCC
1 AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCC-AAGTGGAGAACAATCC
* *
44606398 AAGTGCAAGCTAAAATGG
1 AAGTACAAGCCAAAATGG
44606416 TGAACACTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 40 0.68
55 19 0.32
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.13
Consensus pattern (55 bp):
AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCC
Found at i:44608046 original size:54 final size:55
Alignment explanation
Indices: 44607960--44608088 Score: 136
Period size: 56 Copynumber: 2.3 Consensus size: 55
44607950 ACTTTTGAAG
* * * * * *
44607960 TTGGGACACATGGCCGTGTCCCAGCTCGTG-TCTCTGCCCGTGTAACTCATTTAC
1 TTGGGACACACGGCCGTGTCCCAACCCATGCTCTCTGCCCGTGTAACTCACTAAC
* * *
44608014 TTGGGACACACGGGCGTGTCCCAACCCATGTCTCTCTGCCTGTGTAGCTCACTAAC
1 TTGGGACACACGGCCGTGTCCCAACCCATG-CTCTCTGCCCGTGTAACTCACTAAC
*
44608070 TTGGGTA-ACACGGTCGTGT
1 TTGGG-ACACACGGCCGTGT
44608089 GTCAGCAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 25 0.40
56 36 0.58
57 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (55 bp):
TTGGGACACACGGCCGTGTCCCAACCCATGCTCTCTGCCCGTGTAACTCACTAAC
Found at i:44608160 original size:12 final size:12
Alignment explanation
Indices: 44608143--44608167 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44608133 TTAGGGCACA
44608143 TGCCCATGTGTG
1 TGCCCATGTGTG
44608155 TGCCCATGTGTG
1 TGCCCATGTGTG
44608167 T
1 T
44608168 CACACGGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.32, T:0.36
Consensus pattern (12 bp):
TGCCCATGTGTG
Found at i:44608504 original size:24 final size:26
Alignment explanation
Indices: 44608477--44608525 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
44608467 TGCTAGCAAG
*
44608477 CATTAAGCTAAAC-A-CATACCAAAA
1 CATTAAACTAAACTACCATACCAAAA
*
44608501 CATTAAACTAAGCTACCATACCAAA
1 CATTAAACTAAACTACCATACCAAA
44608526 CATAGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (26 bp):
CATTAAACTAAACTACCATACCAAAA
Found at i:44609045 original size:27 final size:27
Alignment explanation
Indices: 44608991--44609045 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
44608981 ATATATGACT
* *
44608991 TCATTTCAATATTCATATCTCATTTCA
1 TCATTTCAATATTCATATCCCATCTCA
*
44609018 TCATTTC-ATATTTCATTTCCCATCTCA
1 TCATTTCAATA-TTCATATCCCATCTCA
44609045 T
1 T
44609046 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCATCTCA
Found at i:44610215 original size:16 final size:16
Alignment explanation
Indices: 44610194--44610227 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
44610184 TCCTTTTAAT
*
44610194 TTATTTTAATCTATAA
1 TTATTTCAATCTATAA
44610210 TTATTTCAATCTATAA
1 TTATTTCAATCTATAA
44610226 TT
1 TT
44610228 CAACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTCAATCTATAA
Found at i:44612638 original size:44 final size:44
Alignment explanation
Indices: 44612588--44612677 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
44612578 TAAATTTAAT
* * *
44612588 TTAAATTCTAATTATTTTTAAATGTGTAGTTATCACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
*
44612632 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
44612676 TT
1 TT
44612678 TATTTCAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:44613137 original size:17 final size:17
Alignment explanation
Indices: 44613115--44613159 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
44613105 TGCTAACTTG
44613115 TTAAAA-TAGTATTAAAA
1 TTAAAATTA-TATTAAAA
44613132 TTAAAATTATATT-AAA
1 TTAAAATTATATTAAAA
44613148 TTATAAATTATA
1 TTA-AAATTATA
44613160 AAAGTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAAATTATATTAAAA
Found at i:44615185 original size:20 final size:20
Alignment explanation
Indices: 44615162--44615206 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
44615152 TGATATTGGT
44615162 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
44615182 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
44615202 T-GAAT
1 TAGAAT
44615207 TGGTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (20 bp):
TAGAATGCATATAAGGCATA
Found at i:44620564 original size:2 final size:2
Alignment explanation
Indices: 44620559--44620587 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44620549 AATATATATA
44620559 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
44620588 ATCTACGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:44621651 original size:70 final size:70
Alignment explanation
Indices: 44621538--44621676 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
44621528 TTAGTAGAAC
*
44621538 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATCAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
44621603 GCAAT
66 GCAAT
*
44621608 AAAGTAAAAAGGTACTAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
44621673 GCAA
66 GCAA
44621677 AACATTAAGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
GCAAT
Found at i:44621934 original size:48 final size:48
Alignment explanation
Indices: 44621863--44621960 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
44621853 CTCAAGTCAA
44621863 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
1 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
44621911 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
1 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
44621959 AT
1 AT
44621961 CCATCTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.19
Consensus pattern (48 bp):
ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
Found at i:44626046 original size:69 final size:69
Alignment explanation
Indices: 44625935--44626073 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
44625925 GATAGGAAAA
* *
44625935 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTAGTAGG
44626000 GCTG
66 GCTG
*
44626004 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTAGTAGG
1 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTAGTAGG
44626069 GCTG
66 GCTG
44626073 A
1 A
44626074 TAAAGTCTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTAGTAGG
GCTG
Found at i:44635111 original size:43 final size:43
Alignment explanation
Indices: 44635016--44635112 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
44635006 ACACATTGCA
* *
44635016 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTACTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
* * *
44635059 TTATGGATAAACCACCAGGAATTGCAAATAAACTG-TCAGTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCT-ACTAAG
*
44635102 TTGTAGATAAA
1 TTATAGATAAA
44635113 TTGGTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (43 bp):
TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
Found at i:44635186 original size:22 final size:21
Alignment explanation
Indices: 44635117--44635242 Score: 71
Period size: 21 Copynumber: 5.9 Consensus size: 21
44635107 GATAAATTGG
*
44635117 TAGTAAGTTGTGGATAAACCATC
1 TAGTAA-TTGTGAATAAACCA-C
* *
44635140 T-GTAATTGCAGAA-AAACTA-
1 TAGTAATTG-TGAATAAACCAC
44635159 TCAGTAAGTTGTGAATAAACCAC
1 T-AGTAA-TTGTGAATAAACCAC
* **
44635182 TAGTAATTAT-AGATAAACTGC
1 TAGTAATTGTGA-ATAAACCAC
*
44635203 TAGTAATTTATGAATAAACCAC
1 TAGTAA-TTGTGAATAAACCAC
* **
44635225 TAATAATTGCAAATAAAC
1 TAGTAATTGTGAATAAAC
44635243 TGTCAGTAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 40 0.50
22 35 0.44
23 3 0.04
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (21 bp):
TAGTAATTGTGAATAAACCAC
Found at i:44635186 original size:65 final size:65
Alignment explanation
Indices: 44635055--44635199 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
44635045 AAACTGCTAC
* ****
44635055 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTGTCAGTAAGTTGTAGATAAATTGGTAG
1 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
* * * *
44635120 TAAGTTGTGGATAAACCATCTGTAATTGCAGAA-AAACTATCAGTAAGTTGT-GAATAAACCACT
1 TAAGTTATGGATAAACCACCAGGAATTGCA-AATAAACTATCAGTAAGTTGTAG-ATAAACCACT
44635183 AG
64 AG
*
44635185 TAA-TTATAGATAAAC
1 TAAGTTATGGATAAAC
44635200 TGCTAGTAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 11 0.16
65 54 0.81
66 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (65 bp):
TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
Found at i:44635199 original size:21 final size:22
Alignment explanation
Indices: 44635161--44635232 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
44635151 AAAAACTATC
* *
44635161 AGTAAGTTGTGAATAAACCACT
1 AGTAATTTATGAATAAACCACT
**
44635183 AGTAA-TTAT-AGATAAACTGCT
1 AGTAATTTATGA-ATAAACCACT
44635204 AGTAATTTATGAATAAACCACT
1 AGTAATTTATGAATAAACCACT
*
44635226 AATAATT
1 AGTAATT
44635233 GCAAATAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.39
22 23 0.56
23 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (22 bp):
AGTAATTTATGAATAAACCACT
Found at i:44635200 original size:43 final size:42
Alignment explanation
Indices: 44635118--44635251 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 42
44635108 ATAAATTGGT
* *
44635118 AGTAAGTTGTGGATAAACCATCT-GTAATTGCAGAAAAACTATC
1 AGTAAGTTGTGAATAAACCA-CTAGTAATTGCAGATAAACT-TC
** *
44635161 AGTAAGTTGTGAATAAACCACTAGTAATTATAGATAAACTGC
1 AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACTTC
* * * *
44635203 TAGTAATTTATGAATAAACCACTAATAATTGCAAATAAACTGTC
1 -AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACT-TC
44635247 AGTAA
1 AGTAA
44635252 CTTCTTCTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.04
43 72 0.95
44 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (42 bp):
AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACTTC
Found at i:44637353 original size:2 final size:2
Alignment explanation
Indices: 44637346--44637462 Score: 234
Period size: 2 Copynumber: 58.5 Consensus size: 2
44637336 GAATAAGAAT
44637346 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
44637388 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
44637430 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
44637463 TCATAGCGCA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 115 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:44640136 original size:6 final size:6
Alignment explanation
Indices: 44640120--44640171 Score: 77
Period size: 6 Copynumber: 8.5 Consensus size: 6
44640110 TGGGTTTCCA
* *
44640120 AAAATG GAAATA AAAATG AAAATG AAAATG AAAATG AAAATG AAAATAG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G
44640169 AAA
1 AAA
44640172 CTTGCAATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:44641911 original size:28 final size:28
Alignment explanation
Indices: 44641868--44641923 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
44641858 AACAAACCAA
* *
44641868 AAGGAAATTGGTGCTCAGCTTTCACTTG
1 AAGGAAATTGGCGCTCAACTTTCACTTG
44641896 AAGGAAATTGGCGCTCAACTTTCACTTG
1 AAGGAAATTGGCGCTCAACTTTCACTTG
44641924 TTGGCACATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (28 bp):
AAGGAAATTGGCGCTCAACTTTCACTTG
Found at i:44649378 original size:40 final size:40
Alignment explanation
Indices: 44649287--44649456 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
44649277 TCCTCGTTCA
* * * * *
44649287 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
44649326 CATGCCTTCGGGACGTAACCCGAATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44649366 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
44649406 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44649446 AAGGCCTTCGG
1 AATGCCTTCGG
44649457 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 31 0.28
40 79 0.72
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44655266 original size:30 final size:30
Alignment explanation
Indices: 44655230--44655289 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
44655220 GGCATTTAGA
44655230 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
1 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
44655260 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
1 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
44655290 ATTCCTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (30 bp):
CTTAGATAAGTCTTTTGGATTTCTGGTTCT
Found at i:44659909 original size:20 final size:20
Alignment explanation
Indices: 44659884--44659927 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
44659874 ACGAGGTAAG
*
44659884 TTCATATGTTATAATTTTAT
1 TTCATATGTTATAAGTTTAT
44659904 TTCATATGTTATAAGTTTAT
1 TTCATATGTTATAAGTTTAT
44659924 TTCA
1 TTCA
44659928 AATTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TTCATATGTTATAAGTTTAT
Found at i:44665972 original size:40 final size:40
Alignment explanation
Indices: 44665941--44666079 Score: 235
Period size: 40 Copynumber: 3.5 Consensus size: 40
44665931 GGACTAAGAT
44665941 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
44665981 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
44666021 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
*
44666061 CCGAAGGCATTCGTGCGAG
1 CCGAAGGCATTTGTGCGAG
44666080 TTGTTAAATC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 91 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:44666088 original size:40 final size:39
Alignment explanation
Indices: 44665888--44666151 Score: 232
Period size: 40 Copynumber: 6.7 Consensus size: 39
44665878 TTGAATGCTG
* * *
44665888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T--ATAAA
** *
44665928 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATATAAA
* *
44665967 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATAAA
* *
44666007 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATA-TAAA
* * *
44666048 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGAT-ATAAA
* * * *
44666088 TCCGGGTTATGT-CCGAAGGC-GTTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATA-TAAA
* * *
44666126 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
44666152 AACGAGGAGC
Statistics
Matches: 192, Mismatches: 22, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
38 23 0.12
39 19 0.10
40 136 0.71
41 13 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATAAA
Found at i:44666182 original size:78 final size:80
Alignment explanation
Indices: 44665941--44666184 Score: 185
Period size: 80 Copynumber: 3.1 Consensus size: 80
44665931 GGACTAAGAT
** * * * * ** *
44665941 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATAC
1 CCGAAGGCCGTTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
**
44666004 -AAATTCCGGGTTAAGCC
64 TAAA-TCCGGGTTAAATC
* * * ** ** *
44666021 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCGTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
44666086 AATCCGGGTTATGT-
66 AATCCGGGTTAAATC
* * * *
44666100 CCGAAGG-CGTTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCGTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
44666164 TATCC-GGTTAAATC
66 AATCCGGGTTAAATC
44666178 CCGAAGG
1 CCGAAGG
44666185 TACGTGATTT
Statistics
Matches: 136, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
77 6 0.04
78 56 0.41
79 7 0.05
80 61 0.45
81 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCGTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAATC
Found at i:44673951 original size:40 final size:39
Alignment explanation
Indices: 44673907--44674118 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 39
44673897 AGACTAAGAT
*
44673907 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
44673947 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
44673987 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * ** *
44674027 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
44674067 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
44674106 CCGAAGGCATTTG
1 CCGAAGGCATTTG
44674119 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
39 32 0.21
40 119 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:44681645 original size:27 final size:27
Alignment explanation
Indices: 44681614--44681708 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
44681604 TTAGTTTACC
** * *
44681614 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
* *
44681641 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACCCAAA-TACCCTCGATTTGTA
*
44681668 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
*
44681695 AAATTACCGAAATA
1 AAATTACCCAAATA
44681709 AGATAGAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 48 0.86
28 5 0.09
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCGATTTGTA
Found at i:44681743 original size:27 final size:27
Alignment explanation
Indices: 44681713--44681827 Score: 205
Period size: 27 Copynumber: 4.3 Consensus size: 27
44681703 GAAATAAGAT
44681713 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
44681740 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
44681767 GGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
44681794 A-AATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
44681820 AAAATTAC
1 AGAATTAC
44681828 TGAAATACCC
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
26 26 0.31
27 59 0.69
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:44681826 original size:53 final size:54
Alignment explanation
Indices: 44681715--44681827 Score: 201
Period size: 53 Copynumber: 2.1 Consensus size: 54
44681705 AATAAGATAG
**
44681715 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACGG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
44681769 AATTACCATTTTACCCTCGATTTACA-AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
44681822 AATTAC
1 AATTAC
44681828 TGAAATACCC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 31 0.54
54 26 0.46
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
Found at i:44681836 original size:27 final size:26
Alignment explanation
Indices: 44681726--44681918 Score: 111
Period size: 27 Copynumber: 7.2 Consensus size: 26
44681716 ATTACCATTT
* ***
44681726 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CAAAA
** ***
44681753 TACCCTCGATTTACGGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CAAAA
***
44681780 TACCCTCGATTTAC-AAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CAAAA
*
44681806 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTAC-AAAA
* *
44681833 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTA-CAAAA
** *
44681860 TACCCTCGATCAATAAAATTAGCAAAA
1 TACCCTCGATTTACAAAATTA-CAAAA
* **
44681887 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTA-CAAAA
44681914 TACCC
1 TACCC
44681919 CTGATTTGTG
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
26 27 0.19
27 114 0.80
28 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACAAAA
Found at i:44681837 original size:53 final size:53
Alignment explanation
Indices: 44681715--44681856 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 53
44681705 AATAAGATAG
** **
44681715 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACGG
1 AATTACCATAATACCCTCGATTTACA-AATTACCATTTTACCCTCGATTTACAA
**
44681769 AATTACCATTTTACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAA
1 AATTACCATAATACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAA
* * *
44681822 AATTACTGA-AATACCCTTGGTTTACAAAATTACCA
1 AATTAC-CATAATACCCTCGATTTAC-AAATTACCA
44681857 AAATACCCTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 43 0.54
54 36 0.46
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (53 bp):
AATTACCATAATACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAA
Found at i:44681864 original size:80 final size:80
Alignment explanation
Indices: 44681715--44681869 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 80
44681705 AATAAGATAG
* ** ** ***
44681715 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACGGAATTACCATTT
1 AATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTCGATTTACAAAATTACCAAAA
44681780 TACCCTCGATTTACA
66 TACCCTCGATTTACA
* * *
44681795 AATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATACCCTTGGTTTACAAAATTACCAAA
1 AATTACCATTTTACCCTCGATTTACAAAATTAC-CATAATACCCTCGATTTACAAAATTACCAAA
44681859 ATACCCTCGAT
65 ATACCCTCGAT
44681870 CAATAAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 62 0.98
81 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTCGATTTACAAAATTACCAAAA
TACCCTCGATTTACA
Found at i:44681919 original size:27 final size:27
Alignment explanation
Indices: 44681808--44681945 Score: 125
Period size: 27 Copynumber: 5.1 Consensus size: 27
44681798 TACCATTTTA
* **
44681808 CCCTCGATTTACAAAATTACTGAAATAC
1 CCCT-GATTTATAAAATTACCAAAATAC
* * *
44681836 CCTTGGTTTACAAAATTACCAAAATA-
1 CCCTGATTTATAAAATTACCAAAATAC
** *
44681862 CCCTCGATCAATAAAATTAGCAAAATAC
1 CCCT-GATTTATAAAATTACCAAAATAC
* *
44681890 CCCTGGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* * *
44681917 CCCTGATTTGTGAAATTACCGAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
44681944 CC
1 CC
44681946 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.03
27 80 0.89
28 7 0.08
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (27 bp):
CCCTGATTTATAAAATTACCAAAATAC
Found at i:44681942 original size:54 final size:54
Alignment explanation
Indices: 44681789--44681945 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 54
44681779 TTACCCTCGA
*** ** * * *
44681789 TTTAC-AAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCGAAATACCCCTGG
* *
44681842 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTAGCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCGAAATACCCCTGG
** *** *
44681896 TTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAATTACCGAAATACCC
1 TTTACAAAATTACCAAAATACCCTC-GATCAATAAAATTACCGAAATACCC
44681946 TTGTAGGGTA
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCGAAATACCCCTGG
Found at i:44681960 original size:27 final size:27
Alignment explanation
Indices: 44681930--44682071 Score: 203
Period size: 27 Copynumber: 5.3 Consensus size: 27
44681920 TGATTTGTGA
44681930 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
44681957 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
44681984 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
44682011 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
44682038 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
44682065 AATTACC
1 AATTACC
44682072 ATTTTGCCCC
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:44681961 original size:54 final size:54
Alignment explanation
Indices: 44681903--44682072 Score: 191
Period size: 54 Copynumber: 3.1 Consensus size: 54
44681893 TGGTTTGTAA
**
44681903 AATTACCAAAATACCCCTG-ATTTGT-GAAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTA-GGGTAG-AATTACCGAAATACCCTTGTAGGGTAG
* * * * *
44681957 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * * * *
44682011 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTATGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
44682065 AATTACCA
1 AATTACCA
44682073 TTTTGCCCCT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
54 94 0.98
55 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:44681961 original size:81 final size:81
Alignment explanation
Indices: 44681876--44682072 Score: 193
Period size: 81 Copynumber: 2.4 Consensus size: 81
44681866 CGATCAATAA
* ** **
44681876 AATTAGCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACCG
1 AATTACCAAAATA-CCCTGGTAGGGTAAAATTACCAAAATACCCCTGTA-GAGTAG-AATTACCG
*
44681938 AAATACCCTTGTAGGGTAG
63 AAATACCCCTGTAGGGTAG
* * * ** *
44681957 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGAGTAGAATTATCGAAA
1 AATTACCAAAATACCCTGGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTACCGAAA
44682022 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * ** *
44682038 AATTACCGAGATACCCTTATGGGGTAAAATTACCA
1 AATTACCAAAATACCCTGGTAGGGTAAAATTACCA
44682073 TTTTGCCCCT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 6 0.06
81 87 0.92
82 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (81 bp):
AATTACCAAAATACCCTGGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:44682450 original size:31 final size:31
Alignment explanation
Indices: 44682415--44682494 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
44682405 TTGCATTCAC
* *
44682415 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
44682446 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
44682477 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
44682495 ATTCTAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:44682457 original size:6 final size:6
Alignment explanation
Indices: 44682415--44682499 Score: 84
Period size: 6 Copynumber: 13.8 Consensus size: 6
44682405 TTGCATTCAC
* * *
44682415 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
44682464 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
44682500 AGTTTTGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 3 0.05
6 54 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:44682508 original size:18 final size:18
Alignment explanation
Indices: 44682415--44682499 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 18
44682405 TTGCATTCAC
*
44682415 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
* *
44682433 -TTACCTGATACTAATTCTG
1 ATT--CTGATTCTGATTCTG
*
44682452 ATTCTGATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
44682471 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
44682489 ATTCTGATTCT
1 ATTCTGATTCT
44682500 AGTTTTGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
17 3 0.06
18 21 0.39
19 27 0.50
20 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:44688455 original size:18 final size:20
Alignment explanation
Indices: 44688432--44688475 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
44688422 GTAATACATG
44688432 TATTTAATTA-T-TAAAAGA
1 TATTTAATTATTATAAAAGA
44688450 TATTT-ATTATTTATAAAAGA
1 TATTTAATTA-TTATAAAAGA
44688470 TATTTA
1 TATTTA
44688476 TATGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 1 0.05
20 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTAATTATTATAAAAGA
Found at i:44688831 original size:13 final size:13
Alignment explanation
Indices: 44688811--44688845 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
44688801 CAAGGGGGGA
44688811 AAAG-AAAGAAAG
1 AAAGAAAAGAAAG
44688823 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
*
44688836 GAAGAAAAGA
1 AAAGAAAAGA
44688846 GAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:44688831 original size:17 final size:17
Alignment explanation
Indices: 44688809--44688842 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44688799 AGCAAGGGGG
44688809 GAAAAGAAAGAAAGAAA
1 GAAAAGAAAGAAAGAAA
*
44688826 GAAAAGAAAGGAAGAAA
1 GAAAAGAAAGAAAGAAA
44688843 AGAGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAGAAAGAAA
Found at i:44690842 original size:20 final size:22
Alignment explanation
Indices: 44690817--44690865 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
44690807 GGGCTAAGGG
*
44690817 CACGGGCGTG-T-CCTAAGCCA
1 CACGGGCGTGATACATAAGCCA
44690837 CACGGGCGTGATACATAAGCCA
1 CACGGGCGTGATACATAAGCCA
*
44690859 TACGGGC
1 CACGGGC
44690866 CTGTGGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (22 bp):
CACGGGCGTGATACATAAGCCA
Found at i:44693007 original size:27 final size:26
Alignment explanation
Indices: 44692967--44693051 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
44692957 AGGAAGCGTC
* *
44692967 CTGGTGGCTATGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
44692994 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
44693022 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
44693048 CTGG
1 CTGG
44693052 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.10
27 28 0.56
28 17 0.34
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:44700870 original size:27 final size:27
Alignment explanation
Indices: 44700814--44700925 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
44700804 AGGAAGCATC
* *
44700814 CTGGTGGCTATGCGACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
44700841 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
* *
44700868 CTGGTAGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
44700896 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
44700922 CTGG
1 CTGG
44700926 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.12
27 45 0.62
28 17 0.24
29 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:44705316 original size:55 final size:53
Alignment explanation
Indices: 44705208--44705402 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
44705198 ATTAGGGTTT
** * * *
44705208 AAGGATACCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGAC-ATTGG-AAAG-TTCATAAGGC
* *
44705263 AAGGAAATCATGTAAGACCATGTCAAGACATGACATT-GATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGA-AAGTT-C-ATAAGGC
* * * * *
44705318 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGAAAGTTCATAAGGC
*
44705371 AATGATACCATGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGTCAAGACATG
44705403 GCAATGGTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
52 6 0.05
53 35 0.30
54 4 0.03
55 64 0.56
56 6 0.05
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGAAAGTTCATAAGGC
Found at i:44705414 original size:108 final size:110
Alignment explanation
Indices: 44705215--44705415 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
44705205 TTTAAGGATA
*
44705215 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
44705280 CCATGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* * *
44705325 CCATGTAAGACCATGCCAAGGCATGGC-ATTGG--AGAG-TTCATAAGGCAATGATACCATGTAA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAG-GTTTC-TAAGGCAAGGAAACCATGTAA
* *
44705386 GACCATGTCAAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGACAATGATAAGTT
44705416 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 5 0.06
108 46 0.56
109 5 0.06
110 26 0.32
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:44705675 original size:16 final size:16
Alignment explanation
Indices: 44705654--44705684 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44705644 ATAAATTTGA
44705654 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
44705670 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
44705685 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:44710167 original size:27 final size:27
Alignment explanation
Indices: 44710125--44710232 Score: 162
Period size: 27 Copynumber: 4.0 Consensus size: 27
44710115 AATCTCATAT
* * *
44710125 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
44710152 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
44710179 CTATAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
44710206 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
44710233 TTGGTATACA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:44710248 original size:54 final size:54
Alignment explanation
Indices: 44710137--44710258 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
44710127 GTAGGCTAGT
* * * *
44710137 ATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATGCCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
*
44710191 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTGAAAT-ACCCT-T-GGTATACAAA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGG-AT--AAA
44710245 ATTACTG-AATACCC
1 ATTACTGAAATACCC
44710259 TTGGTTTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 2 0.03
52 2 0.03
53 10 0.17
54 45 0.76
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
Found at i:44710255 original size:26 final size:27
Alignment explanation
Indices: 44710217--44710284 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
44710207 TGTAGGGTAG
44710217 AATTACTGAAATACCCTTGGTATACAA
1 AATTACTGAAATACCCTTGGTATACAA
* *
44710244 AATTACTG-AATACCCTTGGTTTAGAA
1 AATTACTGAAATACCCTTGGTATACAA
**
44710270 AATTACCAAAATACC
1 AATTACTGAAATACC
44710285 TCTGGTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTATACAA
Found at i:44710290 original size:27 final size:26
Alignment explanation
Indices: 44710268--44710605 Score: 261
Period size: 27 Copynumber: 12.5 Consensus size: 26
44710258 CTTGGTTTAG
*
44710268 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
44710295 AAAATTACCAAAATACCCCTTG-TTTGT
1 AAAATTACCAAAATA-CCC-TGATTTGT
* *
44710322 AAAATTTCTAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* * * *
44710349 GAAATTATCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* *
44710376 AAAATTACTAAAATACCCTCGATTGGT
1 AAAATTACCAAAATACCCT-GATTTGT
44710403 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
** * *
44710430 AAAATTTTCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATA-CCCTGATTTGT
* * *
44710457 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCC-TGATTTGT
**
44710484 AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATA-CCCTGATTTGT
** *
44710511 AAAATTATAAAAATACCATTGACTTTCG-
1 AAAATTACCAAAATACC-CTGA-TTT-GT
* *
44710539 AAAATTA-CAGAAATACCATTGGTTTGT
1 AAAATTACCA-AAATACC-CTGATTTGT
*
44710566 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* *
44710593 AGATTTACCAAAA
1 AAAATTACCAAAA
44710606 CACCTTATAG
Statistics
Matches: 260, Mismatches: 34, Indels: 34
0.79 0.10 0.10
Matches are distributed among these distances:
26 14 0.05
27 211 0.81
28 35 0.13
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:44710335 original size:54 final size:53
Alignment explanation
Indices: 44710252--44710593 Score: 309
Period size: 54 Copynumber: 6.3 Consensus size: 53
44710242 AAAATTACTG
* * *
44710252 AATACCCTTGGTTTAG-AAAATTACCAAAATACCTCTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTT-GTAAAATTACTAAAATACC-CTGATTTGTAAAATTACCAA
* * * *
44710306 AATACCCCTTG-TTTGTAAAATTTCTAAAATACCCTTGATTTGTGAAATTATCGA
1 AATA-CCCTTGATTTGTAAAATTACTAAAATACCC-TGATTTGTAAAATTACCAA
* * *
44710360 AATACCCTCGACTTGTAAAATTACTAAAATACCCTCGATTGGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACTAAAATACCCT-GATTTGTAAAATTACCAA
* * * * *
44710414 AATACCCTTGATTTGTAAAATT-TTCAAAATACCCCTAATTTGGAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACT-AAAATA-CCCTGATTTGTAAAATTACCAA
* ** **
44710468 AATACCCTTGATTTGGAAAATTAC-AGAAATACCCCTGATTTACAAAATTATAAA
1 AATACCCTTGATTTGTAAAATTACTA-AAATA-CCCTGATTTGTAAAATTACCAA
* * *
44710522 AATACCATTGACTTTCG-AAAATTAC-AGAAATACCATTGGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTT-GTAAAATTACTA-AAATACC-CTGATTTGTAAAATTACCAA
*
44710577 AATACCCTTGGTTTGTA
1 AATACCCTTGATTTGTA
44710594 GATTTACCAA
Statistics
Matches: 238, Mismatches: 37, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
53 11 0.05
54 175 0.74
55 51 0.21
56 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (53 bp):
AATACCCTTGATTTGTAAAATTACTAAAATACCCTGATTTGTAAAATTACCAA
Found at i:44710355 original size:81 final size:81
Alignment explanation
Indices: 44710252--44710593 Score: 338
Period size: 81 Copynumber: 4.2 Consensus size: 81
44710242 AAAATTACTG
* * *
44710252 AATACCCTTGGTTTAG-AAAATTACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCCTT
1 AATACCCTTGATTT-GTAAAATTATCAAAATACCTCTGATTTGTAAAATTACCAAAATA-CCCTT
* *
44710316 G-TTTGTAAAATTTCTAA
64 GATTTGTAAAATTACCAA
* * * * *
44710333 AATACCCTTGATTTGTGAAATTATCGAAATACC-CTCGACTTGTAAAATTACTAAAATACCCTCG
1 AATACCCTTGATTTGTAAAATTATCAAAATACCTCT-GATTTGTAAAATTACCAAAATACCCTTG
*
44710397 ATTGGTAAAATTACCAA
65 ATTTGTAAAATTACCAA
* * * * * *
44710414 AATACCCTTGATTTGTAAAATTTTCAAAATACCCCTAATTTGGAAAATTATCGAAATACCCTTGA
1 AATACCCTTGATTTGTAAAATTATCAAAATACCTCTGATTTGTAAAATTACCAAAATACCCTTGA
*
44710479 TTTGGAAAATTA-CAGA
66 TTTGTAAAATTACCA-A
* ** * *
44710495 AATACCCCTGATTTACAAAATTATAAAAATACCAT-TGACTTTCG-AAAATTA-CAGAAATACCA
1 AATACCCTTGATTTGTAAAATTATCAAAATACC-TCTGA-TTT-GTAAAATTACCA-AAATACCC
*
44710557 TTGGTTTGTAAAATTACCAA
62 TTGATTTGTAAAATTACCAA
*
44710577 AATACCCTTGGTTTGTA
1 AATACCCTTGATTTGTA
44710594 GATTTACCAA
Statistics
Matches: 213, Mismatches: 38, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
80 10 0.05
81 153 0.72
82 47 0.22
83 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (81 bp):
AATACCCTTGATTTGTAAAATTATCAAAATACCTCTGATTTGTAAAATTACCAAAATACCCTTGA
TTTGTAAAATTACCAA
Found at i:44710895 original size:41 final size:41
Alignment explanation
Indices: 44710849--44710972 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
44710839 CGGAGGAAGA
* * *
44710849 AATTGAGGATCGCATGGTCGCTTGACAACTGTGAATCCACC
1 AATTGAGGATCGTATGGTTGCTTGACAACCGTGAATCCACC
* * * *
44710890 GATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGTATGGTTGCTTGACAACCGTGAATCCACC
* * *
44710931 AATT-ATGGATCGTATGGTTGCTTGACGATCGTGGATCCACC
1 AATTGA-GGATCGTATGGTTGCTTGACAACCGTGAATCCACC
44710972 A
1 A
44710973 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
AATTGAGGATCGTATGGTTGCTTGACAACCGTGAATCCACC
Found at i:44711166 original size:22 final size:22
Alignment explanation
Indices: 44711114--44711175 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
44711104 GCCAATTATT
* *
44711114 CTGATTATGGCTTTGCGCTAAC
1 CTGATTATGGCTCTGTGCTAAC
*
44711136 CT-ACATATGGCTCTGTGCTAAC
1 CTGA-TTATGGCTCTGTGCTAAC
*
44711158 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
44711176 CAAACGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCTAAC
Found at i:44719279 original size:46 final size:47
Alignment explanation
Indices: 44719148--44719316 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
44719138 TTTGTGTGCT
* *
44719148 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATA-ATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-TAGATGTAGAACC
* * *
44719194 AGTGTAAGACATGTCTAGGACATGCATTGGCCT-CGAGATGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACTAGATGTAGAACC
* *
44719240 AGTGTAAGACATGTCTGGGACATACATCGGCTACTAGATGT-G--TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACTAGATGTAGAACC
* *
44719284 AGTGCAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
44719317 ACGGATATGC
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.09
45 16 0.16
46 76 0.74
47 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACTAGATGTAGAACC
Found at i:44719346 original size:50 final size:49
Alignment explanation
Indices: 44719148--44719414 Score: 169
Period size: 46 Copynumber: 5.7 Consensus size: 49
44719138 TTTGTGTGCT
* *
44719148 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATAAT-GA-GAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACATGATGGATGAGCC
* * * *
44719194 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGC-C-TCGA--GATGTAAACC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAT-GATGGATG--AGCC
* * * *
44719240 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTAC-T-A--GATGTGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACATGATGGATGAGCC
* *
44719284 AGTGCAAGACCATGTTTGGGACATGGCATCGGCACGGAT-ATGCGA-GAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC--ATGATG-GATGAGCC
* * * *
44719334 AGTGTAAGACCATATTTAGGACATGGCATC--AACTTGATGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
*
44719381 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA
44719415 TTTTACCCCA
Statistics
Matches: 177, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.02
44 12 0.07
45 16 0.09
46 74 0.42
47 34 0.19
48 6 0.03
49 1 0.01
50 29 0.16
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
Found at i:44723982 original size:13 final size:13
Alignment explanation
Indices: 44723964--44723997 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
44723954 TTGATAGTTT
44723964 GAAATTTCGAGAC
1 GAAATTTCGAGAC
44723977 GAAATTTCGAGAC
1 GAAATTTCGAGAC
*
44723990 AAAATTTC
1 GAAATTTC
44723998 TTTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (13 bp):
GAAATTTCGAGAC
Found at i:44724109 original size:3 final size:3
Alignment explanation
Indices: 44724096--44724127 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
44724086 AATTCGGATG
*
44724096 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44724128 TCGTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:44730262 original size:15 final size:16
Alignment explanation
Indices: 44730229--44730269 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
44730219 CTCATCACCC
*
44730229 TTCCATTATTCTCCCTT
1 TTCCATT-TTCTCCATT
44730246 TTCCATTTTCT-CATT
1 TTCCATTTTCTCCATT
44730261 TTCC-TTTTC
1 TTCCATTTTC
44730270 AGTTCCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 4 0.17
17 7 0.30
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (16 bp):
TTCCATTTTCTCCATT
Found at i:44733845 original size:29 final size:29
Alignment explanation
Indices: 44733812--44733869 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
44733802 ATCAAAGAGA
44733812 TAGAATGTACTAGAAATAACATCAGGCGC
1 TAGAATGTACTAGAAATAACATCAGGCGC
44733841 TAGAATGTACTAGAAATAACATCAGGCGC
1 TAGAATGTACTAGAAATAACATCAGGCGC
44733870 GGTAGCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (29 bp):
TAGAATGTACTAGAAATAACATCAGGCGC
Found at i:44737508 original size:47 final size:47
Alignment explanation
Indices: 44737450--44737570 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 47
44737440 GTATTGGCAC
*
44737450 TAAGACAAGGATAGCATGTAAGACCATGTTTGGAAAATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
** *
44737497 TAAGACAAGGATACCATGTAAGA-CATGTTTGGATCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
* * *
44737543 TATGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
44737571 CCAAGGCATG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 40 0.61
47 26 0.39
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
Found at i:44737613 original size:54 final size:54
Alignment explanation
Indices: 44737549--44737756 Score: 226
Period size: 54 Copynumber: 3.9 Consensus size: 54
44737539 TTGGTATGAT
*
44737549 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
44737603 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGTA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGG-C
* * *
44737659 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGGC
1 AAGGATATC-ATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCTATAAGGC
* * * * * *
44737711 AAGGATACCACGTAAGACCATGTCAATACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
44737757 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
52 4 0.03
53 36 0.28
54 46 0.35
55 40 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:44737678 original size:55 final size:53
Alignment explanation
Indices: 44737558--44737745 Score: 202
Period size: 55 Copynumber: 3.5 Consensus size: 53
44737548 TAAGGATATC
* * ***
44737558 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTCCT
* *
44737611 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGTAAAGGTCCT
1 -ATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-CAAGGTCCT
*
44737667 ATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGGCAAGGATACC-
1 ATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGCAAGG-T-CCT
* * *
44737720 ACGTAAGACCATGTCAATACATGGCA
1 ATGTAAGACCATGCCAAGACATGGCA
44737746 ATGGTAAGTT
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
52 4 0.03
53 29 0.25
54 37 0.32
55 40 0.35
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTCCT
Found at i:44748684 original size:24 final size:23
Alignment explanation
Indices: 44748644--44748689 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44748634 AAATAAAAAT
*
44748644 AAAAATACTAAATTTTAAATATA
1 AAAAATAATAAATTTTAAATATA
*
44748667 AAAAATAATTAATATTTAAATAT
1 AAAAATAATAAAT-TTTAAATAT
44748690 TTAATCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAATAATAAATTTTAAATATA
Found at i:44750242 original size:3 final size:3
Alignment explanation
Indices: 44750236--44750286 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
44750226 TTCCTTTCGA
44750236 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44750284 TAT
1 TAT
44750287 CTTTCGTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44758046 original size:19 final size:20
Alignment explanation
Indices: 44758006--44758049 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
44757996 GTTTCTTTTG
* *
44758006 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
44758025 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
44758044 GCATTA
1 GCATTA
44758050 GACTTTCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:44772687 original size:92 final size:92
Alignment explanation
Indices: 44772530--44772709 Score: 342
Period size: 92 Copynumber: 2.0 Consensus size: 92
44772520 TGCTCTAGAG
44772530 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
44772595 CATCTACTAACAAAATCAGCTACATCC
66 CATCTACTAACAAAATCAGCTACATCC
*
44772622 TCCTGATTGGCTGAAGTAACCTAGGCGGACTTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
*
44772687 CATTTACTAACAAAATCAGCTAC
66 CATCTACTAACAAAATCAGCTAC
44772710 GTTCTTCTTC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (92 bp):
TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
CATCTACTAACAAAATCAGCTACATCC
Found at i:44776239 original size:10 final size:10
Alignment explanation
Indices: 44776225--44776260 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
44776215 TAAGCTCGGT
44776225 TGAGCTCAAA
1 TGAGCTCAAA
* *
44776235 CGAGCTGAAA
1 TGAGCTCAAA
44776245 TGAGCTCAAA
1 TGAGCTCAAA
44776255 TGAGCT
1 TGAGCT
44776261 GAATTAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:44776248 original size:20 final size:20
Alignment explanation
Indices: 44776225--44776263 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44776215 TAAGCTCGGT
44776225 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
*
44776245 TGAGCTCAAATGAGCTGAA
1 TGAGCTCAAACGAGCTGAA
44776264 TTAAGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:44776270 original size:20 final size:20
Alignment explanation
Indices: 44776227--44776270 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
44776217 AGCTCGGTTG
*
44776227 AGCTCAAACGAGCTGAAATG
1 AGCTCAAACGAGCTGAAATA
* *
44776247 AGCTCAAATGAGCTGAATTA
1 AGCTCAAACGAGCTGAAATA
44776267 AGCT
1 AGCT
44776271 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
AGCTCAAACGAGCTGAAATA
Found at i:44778788 original size:76 final size:78
Alignment explanation
Indices: 44778651--44778828 Score: 263
Period size: 76 Copynumber: 2.3 Consensus size: 78
44778641 ATGATAACCG
*
44778651 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGT
1 GGCTAAGTCCCGAAGGCATTTGTGC-AGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
44778716 GAGTTACTATATCC
65 GAGTTACTATATCC
* * *
44778730 GGCTATGT-CCGAAGGTATTTGTG-AGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
44778792 GAGTTACTATATTC
65 GAGTTACTATATCC
44778806 GAGCTAAGTCCCGAAGGCATTTG
1 G-GCTAAGTCCCGAAGGCATTTG
44778829 AGCGAGTAGC
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
75 2 0.02
76 48 0.54
77 6 0.07
78 26 0.29
79 7 0.08
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
AGTTACTATATCC
Found at i:44778834 original size:40 final size:39
Alignment explanation
Indices: 44778651--44778861 Score: 261
Period size: 40 Copynumber: 5.4 Consensus size: 39
44778641 ATGATAACCG
* *
44778651 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
44778690 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
44778730 GGCTATGT-CCGAAGGTATTTGT--GAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
44778766 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
44778806 GAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 G-GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
44778846 GGCTAAATCTCGAAGG
1 GGCTAAGTCCCGAAGG
44778862 TACTTGGGTT
Statistics
Matches: 152, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
36 14 0.09
37 7 0.05
38 26 0.17
39 23 0.15
40 81 0.53
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:44787315 original size:15 final size:15
Alignment explanation
Indices: 44787295--44787337 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
44787285 AAATTCATGC
44787295 TTCAATCACCATGTT
1 TTCAATCACCATGTT
*
44787310 TTCAATAACCATGTT
1 TTCAATCACCATGTT
44787325 TTCAATCACCATG
1 TTCAATCACCATG
44787338 ACATCACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (15 bp):
TTCAATCACCATGTT
Found at i:44798458 original size:20 final size:22
Alignment explanation
Indices: 44798419--44798458 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44798409 CTGAAAGCCT
44798419 TTGATACAAGCTCGATTTAGTG
1 TTGATACAAGCTCGATTTAGTG
*
44798441 TTGATTCAAG-TC-ATTTAG
1 TTGATACAAGCTCGATTTAG
44798459 ATTGCCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (22 bp):
TTGATACAAGCTCGATTTAGTG
Found at i:44800629 original size:17 final size:17
Alignment explanation
Indices: 44800609--44800642 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44800599 CTATAAGCCC
44800609 AATTAAACAAGTTAAAT
1 AATTAAACAAGTTAAAT
*
44800626 AATTAAGCAAGTTAAAT
1 AATTAAACAAGTTAAAT
44800643 GGCTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
AATTAAACAAGTTAAAT
Found at i:44813891 original size:5 final size:5
Alignment explanation
Indices: 44813881--44813908 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44813871 ATGCTCATGA
44813881 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
44813909 TATCATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:44816564 original size:2 final size:2
Alignment explanation
Indices: 44816557--44816609 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
44816547 CCTCTCATTT
44816557 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
44816599 TC TC TC TC TC T
1 TC TC TC TC TC T
44816610 TTTTCCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:44820708 original size:46 final size:46
Alignment explanation
Indices: 44820615--44820735 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 46
44820605 TGTAACCCGC
* *
44820615 CCATAAGTGAACTCGGACTCAAA-TCAACGATCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACT-AAACTCAACGATCTCAGGCATTCACAT
*
44820661 CCATAAGTGAACTCGGACTAAACTCAATGAGT-TC-GGACATTCACAT
1 CCATAAGTGAACTCGGACTAAACTCAACGA-TCTCAGG-CATTCACAT
*
44820707 CCATAAGTGAACTCGGACTGAACTCAACG
1 CCATAAGTGAACTCGGACTAAACTCAACG
44820736 CGAGTTCGGA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 5 0.07
46 61 0.91
47 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTAAACTCAACGATCTCAGGCATTCACAT
Found at i:44823118 original size:30 final size:30
Alignment explanation
Indices: 44823083--44823162 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
44823073 CAAGAAAATC
*
44823083 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
44823113 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
44823143 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
44823163 TGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:44823122 original size:15 final size:15
Alignment explanation
Indices: 44823083--44823153 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
44823073 CAAGAAAATC
44823083 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
44823098 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
44823113 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
44823128 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
44823143 GGATAAAGAAA
1 GAATAAAGAAA
44823154 CCCAAGATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:44823162 original size:15 final size:15
Alignment explanation
Indices: 44823085--44823162 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
44823075 AGAAAATCGA
44823085 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
44823100 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44823114 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44823129 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44823145 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44823160 ATA
1 ATA
44823163 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44826161 original size:46 final size:46
Alignment explanation
Indices: 44826094--44826222 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
44826084 TGTAACCCGC
* *
44826094 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
44826140 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44826186 CCATAAGTGAACTCGGACTGAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44826223 TGCCCAAACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 78 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44827577 original size:28 final size:29
Alignment explanation
Indices: 44827518--44827610 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
44827508 CACAATTTCT
44827518 TTCATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
*
44827547 TTCATATGGCCCATTAGG-CCAAATCAAA
1 TTCATATGGCCCATTAGGCCCAAATCACA
44827575 TTCATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
*
44827604 TCCATAT
1 TTCATAT
44827611 TCATGCTTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 27 0.45
29 33 0.55
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCACA
Found at i:44843538 original size:26 final size:26
Alignment explanation
Indices: 44843502--44843553 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44843492 TGAGAGTTAA
44843502 GGCAGTCTGTACTTCGGGAAGCTTAT
1 GGCAGTCTGTACTTCGGGAAGCTTAT
44843528 GGCAGTCTGTACTTCGGGAAGCTTAT
1 GGCAGTCTGTACTTCGGGAAGCTTAT
44843554 AGTAGCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (26 bp):
GGCAGTCTGTACTTCGGGAAGCTTAT
Found at i:44854372 original size:47 final size:47
Alignment explanation
Indices: 44854301--44854623 Score: 493
Period size: 47 Copynumber: 6.8 Consensus size: 47
44854291 CCCTTCGGGA
* * * * * *
44854301 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44854348 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
44854395 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44854442 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44854491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44854538 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44854587 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
44854624 AATCCTAAAT
Statistics
Matches: 255, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 166 0.65
49 89 0.35
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44854496 original size:96 final size:96
Alignment explanation
Indices: 44854301--44854623 Score: 524
Period size: 96 Copynumber: 3.4 Consensus size: 96
44854291 CCCTTCGGGA
* * * * * * *
44854301 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
44854364 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
** *
44854395 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
44854460 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
44854491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
44854556 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
44854587 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
44854624 AATCCTAAAT
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
94 45 0.21
96 167 0.79
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:44854507 original size:143 final size:144
Alignment explanation
Indices: 44854301--44854623 Score: 494
Period size: 143 Copynumber: 2.3 Consensus size: 144
44854291 CCCTTCGGGA
* * * *
44854301 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
44854364 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC-GCATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCAC
44854428 ATCGGCCATTAAGC
131 ATCGGCCATTAAGC
* * *
44854442 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
* *
44854507 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ACATATACACTTTCACATTCATCA
* *
44854572 CATCGGCTATTAGGC
130 CATCGGCCATTAAGC
44854587 CTTATCAC--ATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATATACACTTTCACATTCATCACATCG
44854624 AATCCTAAAT
Statistics
Matches: 166, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 112 0.67
145 43 0.26
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCAC
ATCGGCCATTAAGC
Found at i:44865599 original size:40 final size:40
Alignment explanation
Indices: 44865505--44865720 Score: 224
Period size: 40 Copynumber: 5.4 Consensus size: 40
44865495 TATTCGAATG
* *
44865505 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGACT
* * * * *
44865546 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGACT
* *
44865586 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* *
44865626 ATATCCGGGCTAA-AACTTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGACT
* * *
44865666 ATATCCGGGCTAAG-TCACGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGACT
*
44865706 ACATCCGGGCTAAGA
1 ATATCCGGGCTAAGA
44865721 CCCAAAGACC
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.02
40 114 0.78
41 29 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:44865687 original size:80 final size:80
Alignment explanation
Indices: 44865505--44865718 Score: 252
Period size: 80 Copynumber: 2.7 Consensus size: 80
44865495 TATTCGAATG
* * * *
44865505 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAAATCCGAAGGC
*
44865570 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
44865586 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAA-CTTGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAATC-CGAAGGC
* *
44865650 ATTTGTGCTAG-CGACT
65 ATTCGTGCGAGTCG-CT
* * * *
44865666 ATATCCGGGCTAAGTCACGAAGGCATTTATGCTAGTGACCACATCCGGGCTAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAA
44865719 GACCCAAAGA
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 79 0.70
81 32 0.28
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAATCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:44865719 original size:120 final size:121
Alignment explanation
Indices: 44865505--44865723 Score: 282
Period size: 120 Copynumber: 1.8 Consensus size: 121
44865495 TATTCGAATG
** * *
44865505 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
44865570 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
** * *
44865626 ATATCCGGGCTAAAACTTGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCACGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATC-CGAAGG
* *
44865689 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCC
44865724 AAAGACCTTG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 4 0.05
120 50 0.60
121 29 0.35
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:44873145 original size:40 final size:40
Alignment explanation
Indices: 44873041--44873263 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
44873031 TATTCGAATG
* *
44873041 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * ** *
44873082 ATGA-CCGGACTAAGATCCGAAGGCATTCATGCGAGTTG-CT
1 AT-ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
44873122 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
44873162 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
44873202 ATATCTGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
44873242 ACATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
44873264 ACCTTGCGCA
Statistics
Matches: 149, Mismatches: 29, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
39 2 0.01
40 119 0.80
41 27 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:44873256 original size:120 final size:121
Alignment explanation
Indices: 44873041--44873259 Score: 284
Period size: 120 Copynumber: 1.8 Consensus size: 121
44873031 TATTCGAATG
** * * *
44873041 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATGACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATGACCGGACTAAGATCCAAAGGC
* *
44873106 ATTCATGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
* *
44873162 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTAT-ATCTGGGCTAAG-TCCCAAAG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATGA-CCGGACTAAGAT-CCAAAG
* *
44873224 GCATTTATGCTAG-TGACCACATCCGGGCTAAGACCC
64 GCATTCATGCGAGTTG-CCACATCCGGGCTAAGACCC
44873260 GAAGACCTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
119 4 0.05
120 49 0.58
121 31 0.37
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATGACCGGACTAAGATCCAAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
Found at i:44891472 original size:46 final size:46
Alignment explanation
Indices: 44891393--44891564 Score: 129
Period size: 46 Copynumber: 3.7 Consensus size: 46
44891383 TATAACCCGC
* * *
44891393 CCATAAGCAAACTCAGACTCAACTGAA-GAAGCTCGGCCGTTCGCAT
1 CCATAAGCGAACTCTGACTCAACTCAACG-AGCTCGGCCGTTCGCAT
* *
44891439 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCTGACTCAACTCAACGAGCTC-G--GCC--GTTCGCAT
* * * * * * *
44891489 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGAAT
1 CCATAAGCGAACTCTGACTCAACTCAACGAGCTCGGCCGTTCGCAT
* *
44891532 CCATAAGTGAACTCTGACTCAACTAAACGAGCT
1 CCATAAGCGAACTCTGACTCAACTCAACGAGCT
44891565 TAAATGCCTA
Statistics
Matches: 97, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 3 0.03
45 2 0.02
46 51 0.53
47 25 0.26
48 2 0.02
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCTGACTCAACTCAACGAGCTCGGCCGTTCGCAT
Found at i:44891561 original size:93 final size:93
Alignment explanation
Indices: 44891402--44891663 Score: 339
Period size: 93 Copynumber: 2.8 Consensus size: 93
44891392 CCCATAAGCA
* * * *
44891402 AACTCAGACTCAACTGAA-GAAGCTCGGCCGTTCGCATCCATAAGTGAACTCTGACTCAACTCAA
1 AACTCAGACTCAACTCAACG-AGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCAA
44891466 CGAGCTCGGATGCCTAGTTACATCTCACG
65 CGAGCTCGGATGCCTAGTTACATCTCACG
* * * *
44891495 AACTCGGACTCAACTCAACGAGTTTGGACATTCGAATCCATAAGTGAACTCTGACTCAACTAAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCAAC
*** *
44891560 GAGCTTAAATGCCTAGTTACGTCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* * *
44891588 AACTTAGACTCAACTCAAGGAGTTCGGACGTTCGCATCCATAAGTGAACTC-GAACTCAACTCAA
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTG-ACTCAACTCAA
* *
44891652 TGAGTTCGGATG
65 CGAGCTCGGATG
44891664 TCCAAATATC
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
92 1 0.01
93 141 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:44893792 original size:6 final size:6
Alignment explanation
Indices: 44893759--44893823 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
44893749 AAGCATAAGC
* * **
44893759 AAAATA GAAAATA ACAAATA ACAAATA AAAATA ACAATA ATAATA ATAAAGG
1 AAAATA -AAAATA A-AAATA A-AAATA AAAATA AAAATA AAAATA A-AAATA
44893811 AAAAT- AAAATA AA
1 AAAATA AAAATA AA
44893824 TAGCTAACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
5 5 0.10
6 22 0.45
7 22 0.45
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:44893973 original size:22 final size:22
Alignment explanation
Indices: 44893934--44893978 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44893924 CTGAGTGAAA
* *
44893934 GGGGTGTGGGTGAGGAGAGGGT
1 GGGGTGGGGGTGAGGAGACGGT
44893956 GGGGTGGGGGTG-GTGAGACGGT
1 GGGGTGGGGGTGAG-GAGACGGT
44893978 G
1 G
44893979 ATGGAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.11, C:0.02, G:0.69, T:0.18
Consensus pattern (22 bp):
GGGGTGGGGGTGAGGAGACGGT
Found at i:44894122 original size:12 final size:13
Alignment explanation
Indices: 44894105--44894134 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
44894095 TCCAACAGGA
44894105 AAAAGGGAA-GGG
1 AAAAGGGAATGGG
44894117 AAAAGGGAATGGG
1 AAAAGGGAATGGG
44894130 AAAAG
1 AAAAG
44894135 CCGAAGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.03
Consensus pattern (13 bp):
AAAAGGGAATGGG
Found at i:44896613 original size:40 final size:40
Alignment explanation
Indices: 44896566--44896819 Score: 207
Period size: 40 Copynumber: 6.3 Consensus size: 40
44896556 CTCGCACTAG
* * *
44896566 GCCTTCGGGTCTTAGCCCGGATATGGTC-TCTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAAT
*
44896606 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
* * * *
44896646 GCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACCAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAAT
* * * * *
44896686 GCCTTCGGGACTTAGCTC-GAAATTAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAAT
* * *
44896726 GCCTTCGGGACTCAGCCCGGA-ATTAGTAACTCA-CACAAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TAGCAACT-AGCACAAAT
* * *
44896766 GCCTTCGGGACTCAGCCCGGA-ATTAATC-ACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATA-T-AGCAACTAGCACAAAT
* *
44896806 GTCTTCGGGACTTA
1 GCCTTCGGGTCTTA
44896820 ACCCCGTTAG
Statistics
Matches: 191, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
39 5 0.03
40 183 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
Found at i:44896663 original size:80 final size:81
Alignment explanation
Indices: 44896530--44896819 Score: 285
Period size: 80 Copynumber: 3.7 Consensus size: 81
44896520 ACCCAAGTAT
* * * * * * *
44896530 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-TAGGCCTTCGGGTCTTAGCCCGG-ATATG
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
44896591 GTCTCTAGCATAAATGC
65 GTCTCTAGCACAAATGC
*
44896608 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
** * *
44896672 TAACTCGCACCAATGC
66 TCTCTAGCACAAATGC
* * * *
44896688 CTTCGGGACTTAGCTC-GAAATTAGTAACTCGCACAAATGCCTTCGGGACTCAGCCCGGAATTAG
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
44896752 TAACTC-A-CACAAATGC
66 T--CTCTAGCACAAATGC
* * * *
44896768 CTTCGGGACTCAGCCCGGA-ATTAATC-ACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATATT-AGCAACTCGCACAAATGCCTTCGGGACTTA
44896820 ACCCCGTTAG
Statistics
Matches: 175, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
78 11 0.06
79 21 0.12
80 137 0.78
81 5 0.03
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TCTCTAGCACAAATGC
Found at i:44896743 original size:120 final size:120
Alignment explanation
Indices: 44896602--44896819 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 120
44896592 TCTCTAGCAT
* * * *
44896602 AAATGCCTTCGGGTCTTAGCCCGG-ATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 AAATGCCTTCGGGACTCAGCCCGGAAT-TAGCAACTCACACAAATGCCTTCGGGACTCAGCCCGG
* * *
44896666 AATTAGTAACTCGCACCAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCAC
65 AATTAATAACTAGCACAAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCAC
*
44896722 AAATGCCTTCGGGACTCAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGACTCAGCCCGGA
1 AAATGCCTTCGGGACTCAGCCCGGAATTAGCAACTCACACAAATGCCTTCGGGACTCAGCCCGGA
* *
44896787 ATTAATCACTAGCACAAATGTCTTCGGGACTTA
66 ATTAATAACTAGCACAAATGCCTTCGGGACTTA
44896820 ACCCCGTTAG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 85 0.98
121 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (120 bp):
AAATGCCTTCGGGACTCAGCCCGGAATTAGCAACTCACACAAATGCCTTCGGGACTCAGCCCGGA
ATTAATAACTAGCACAAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCAC
Found at i:44898222 original size:13 final size:13
Alignment explanation
Indices: 44898204--44898228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44898194 ACATGAGAAC
44898204 CTTTTTTTCTTCT
1 CTTTTTTTCTTCT
44898217 CTTTTTTTCTTC
1 CTTTTTTTCTTC
44898229 ATCATTTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTTCT
Found at i:44904883 original size:40 final size:40
Alignment explanation
Indices: 44904788--44905035 Score: 276
Period size: 40 Copynumber: 6.3 Consensus size: 40
44904778 ACCCAAGTAT
* * * *
44904788 CTTCGGGATTTAG-CCGG-ATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGC
* *
44904826 CATCGGGTCTTAGCCCGG-ATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGC
*
44904866 CTTCGGGACTTAGCCCGGAA-TAGTAACTCGCAC-AATGC
1 CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
* * *
44904904 CTTCGGGACTTAGCTCGAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
* *
44904944 CTTCGGGACTCAGCCCGGAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
* * * *
44904984 CTTCGGGACTCAGCCCGGAATTAATC-ACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGAATT-AGCAACTCGCACAAATGC
44905024 CTTCGGGACTTA
1 CTTCGGGACTTA
44905036 ACCCCGTTAG
Statistics
Matches: 185, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 33 0.18
39 43 0.23
40 107 0.58
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
Found at i:44904917 original size:78 final size:79
Alignment explanation
Indices: 44904813--44905035 Score: 299
Period size: 78 Copynumber: 2.8 Consensus size: 79
44904803 GGATATAACC
* * *
44904813 ACTCGCACAAGGCCATCGGGTCTTAGCCCGG-ATATAGCAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGCCTTCGGGACTT
44904877 AGCCCGGAA-TAGTA
65 AGCCCGGAATTAGTA
* * * *
44904891 ACTCGCACAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCACAAATGCCTTCGGGACTCA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGCCTTCGGGACTTA
44904956 GCCCGGAATTAGTA
66 GCCCGGAATTAGTA
* * * *
44904970 ACTCGCACAAATGCCTTCGGGACTCAGCCCGGAATTAATC-ACTAGCACAAATGTCTTCGGGACT
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGAATT-AGCAACTCGCACAAATGCCTTCGGGACT
44905034 TA
64 TA
44905036 ACCCCGTTAG
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 63 0.50
79 15 0.12
80 47 0.37
81 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (79 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGAATTAGTA
Done.