Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 271 of 295
Found at i:92627736 original size:33 final size:32
Alignment explanation
Indices: 92627693--92627801 Score: 102
Period size: 33 Copynumber: 3.4 Consensus size: 32
92627683 GTTTTTTATA
*
92627693 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
* *
92627726 ATTATGTTAAAATT--TTTTT-GT-GTTT-GT
1 ATTATGTTAAAATTAATTTTTAGTAATTTAGG
*
92627753 AGTTATTTTAAAATTAATTTATTAGTAATTTAGG
1 A-TTATGTTAAAATTAATTT-TTAGTAATTTAGG
*
92627787 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
92627802 GTTGTGTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
27 2 0.03
28 15 0.25
29 2 0.03
30 5 0.08
31 5 0.08
32 2 0.03
33 22 0.37
34 7 0.12
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTATGTTAAAATTAATTTTTAGTAATTTAGG
Found at i:92627770 original size:61 final size:63
Alignment explanation
Indices: 92627676--92627801 Score: 193
Period size: 61 Copynumber: 2.0 Consensus size: 63
92627666 GAATGTAATT
* * *
92627676 TTTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTTGTTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
92627738 TTTTTTTG-TGTTTGTAGTTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTTTGTTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
92627800 TT
1 TT
92627802 GTTGTGTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 45 0.78
62 13 0.22
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (63 bp):
TTTTTTTGTTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:92630751 original size:33 final size:33
Alignment explanation
Indices: 92630714--92630788 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
92630704 CAGTGCTCTG
* * *
92630714 CTCCTTCCGGCCCGTATCCACCGCCATACTCCA
1 CTCCTCCCGGCCCGTATCAACCACCATACTCCA
* *
92630747 CTCCTCCCGGCCCGTATCAATCACCGTACTCCA
1 CTCCTCCCGGCCCGTATCAACCACCATACTCCA
92630780 CTCCTCCCG
1 CTCCTCCCG
92630789 ACTCAAGTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.52, G:0.12, T:0.21
Consensus pattern (33 bp):
CTCCTCCCGGCCCGTATCAACCACCATACTCCA
Found at i:92630929 original size:69 final size:69
Alignment explanation
Indices: 92630818--92630955 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
92630808 GTTTGAGACA
*
92630818 TATGATTTTTCATTTATGTTTCGCACACCCCCACATACGGATGAAGAGAATGTTGATCGTCGTAA
1 TATGATTTTTCATTTATGTTTCACACACCCCCACATACGGATGAAGAGAATGTTGATCGTCGTAA
92630883 TCGC
66 TCGC
**
92630887 TATGATTTTTCATTTATGTTTCACACACCCCCACATACGGATGAAGAGAATGTTGATTTTCGTAA
1 TATGATTTTTCATTTATGTTTCACACACCCCCACATACGGATGAAGAGAATGTTGATCGTCGTAA
92630952 TCGC
66 TCGC
92630956 CCGCAACGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (69 bp):
TATGATTTTTCATTTATGTTTCACACACCCCCACATACGGATGAAGAGAATGTTGATCGTCGTAA
TCGC
Found at i:92634391 original size:27 final size:27
Alignment explanation
Indices: 92634324--92634391 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
92634314 TGTGGGCCCC
*
92634324 ACCATTTGCGCCTTTGGGATAGGCACA
1 ACCATTTGCGCCTCTGGGATAGGCACA
* *
92634351 ACCATTTTCACCTCTGAGG-TAGGCACA
1 ACCATTTGCGCCTCTG-GGATAGGCACA
*
92634378 ATCATTTGCGCCTC
1 ACCATTTGCGCCTC
92634392 AAAGAAAGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGGGATAGGCACA
Found at i:92640119 original size:69 final size:68
Alignment explanation
Indices: 92640046--92640180 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 68
92640036 TGATTAAATT
* * * *
92640046 TAATCACTGTAATATTAAATTAATATAACACTTATCAAGATAAATAATAGATTAAATTTAATATT
1 TAATCAATGTAATATTAAATTAATAAAACAC-TATCAAGATAAATAATAAATTAAATTAAATATT
92640111 AAGA
65 AAGA
* * * * * *
92640115 TAATCAATTTAATGTTGAATTAATAAAACACTATTAAGATAAGTATTAAATTAAATTAAATATTA
1 TAATCAATGTAATATTAAATTAATAAAACACTATCAAGATAAATAATAAATTAAATTAAATATTA
92640180 A
66 A
92640181 ATATATTAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 30 0.54
69 26 0.46
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (68 bp):
TAATCAATGTAATATTAAATTAATAAAACACTATCAAGATAAATAATAAATTAAATTAAATATTA
AGA
Found at i:92647098 original size:47 final size:48
Alignment explanation
Indices: 92646873--92647136 Score: 212
Period size: 47 Copynumber: 5.6 Consensus size: 48
92646863 TGTGTGAGCT
* * * *
92646873 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CGTATTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTG-A-GATGATAAGCC
** *
92646919 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGA-GGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGATAAGCC
* * * *
92646967 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGACTTGAGATGATAAGCC
* * *
92647013 AGTGTAAGA-CATGTCTAGGACAT-GCATCG-GTTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTT--GAGATGATAAGCC
* * *
92647059 AGTGTAAGACCATGCCTGGGACATGGCATCAACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGATAAGCC
* *
92647106 AGTGTAAGACCGTGTCTAGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
92647137 GCACCTTACC
Statistics
Matches: 178, Mismatches: 27, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 64 0.36
47 79 0.44
48 28 0.16
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGATAAGCC
Found at i:92647122 original size:140 final size:140
Alignment explanation
Indices: 92646873--92647130 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 140
92646863 TGTGTGAGCT
* * * *
92646873 AGTGTAAGACATGTCTGGGACATGCATCGGCCGTATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGACGTATGATGAGAGCCAGTGTAAGACCATGCCTGG
* * * *
92646938 GACATGGCATCGACATTGAGATGAGGGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGA
66 GACATGGCATCAACATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGA
92647003 GACGTAAGCC
131 GACGTAAGCC
* *
92647013 AGTGTAAGACATGTCTAGGACATGCATCGGTTACG-A-GATGATAGTCAGTGTAAGACCATGCCT
1 AGTGTAAGACATGTCTAGGACATGCATCGG--ACGTATGATGAGAGCCAGTGTAAGACCATGCCT
*
92647076 GGGACATGGCATCAAC-TTGAGAT-ATGAGCCAGTGTAAGACCGTGTCTAGGACATG
64 GGGACATGGCATCAACATTGAGATGA-GAGCCAGTGTAAGA-CATGTCTAGGACATG
92647131 GCATCGGCAC
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 80 0.78
141 1 0.01
142 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGACGTATGATGAGAGCCAGTGTAAGACCATGCCTGG
GACATGGCATCAACATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGA
GACGTAAGCC
Found at i:92648390 original size:21 final size:22
Alignment explanation
Indices: 92648351--92648391 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
92648341 TTGGAATGCT
*
92648351 CACACGGGCGTATTGCCCCTCC
1 CACACGGGCGTAGTGCCCCTCC
92648373 CACACGGGCGT-GTGCCCCT
1 CACACGGGCGTAGTGCCCCT
92648392 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTAGTGCCCCTCC
Found at i:92650519 original size:26 final size:26
Alignment explanation
Indices: 92650483--92650532 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
92650473 GTTTGAGAGA
92650483 GTTCAGGGTTCGAGATTCGAGTTTGG
1 GTTCAGGGTTCGAGATTCGAGTTTGG
92650509 GTTCAGGGTTCGAGATTCGAGTTT
1 GTTCAGGGTTCGAGATTCGAGTTT
92650533 AAAGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (26 bp):
GTTCAGGGTTCGAGATTCGAGTTTGG
Found at i:92659595 original size:13 final size:13
Alignment explanation
Indices: 92659577--92659608 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
92659567 CCCAGTTAAA
92659577 AAAAAATATATTT
1 AAAAAATATATTT
92659590 -AAAAA-ATATTT
1 AAAAAATATATTT
92659601 AAAAAATA
1 AAAAAATA
92659609 AAAGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.35
12 10 0.59
13 1 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAATATATTT
Found at i:92659598 original size:11 final size:11
Alignment explanation
Indices: 92659578--92659608 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
92659568 CCAGTTAAAA
92659578 AAAAATATATTT
1 AAAAA-ATATTT
92659590 AAAAAATATTT
1 AAAAAATATTT
92659601 AAAAAATA
1 AAAAAATA
92659609 AAAGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAAATATTT
Found at i:92661379 original size:28 final size:28
Alignment explanation
Indices: 92661348--92661419 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
92661338 CCGAAAAAGC
*
92661348 TGTTTTTACATATATTTATATTTTAAAT
1 TGTTTTTACATATATTTATACTTTAAAT
*
92661376 TGTTTTTTA-ATAAATTTATACTTTAAAT
1 TG-TTTTTACATATATTTATACTTTAAAT
92661404 TGTTTTTACATATATT
1 TGTTTTTACATATATT
92661420 GTAATGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 6 0.15
28 27 0.69
29 6 0.15
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (28 bp):
TGTTTTTACATATATTTATACTTTAAAT
Found at i:92662714 original size:21 final size:21
Alignment explanation
Indices: 92662690--92662755 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
92662680 TGTCCAACCA
92662690 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
92662711 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
*
92662736 AATAAATTTAATATCTAACA
1 AATAAATTCAATATCTAACA
92662756 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:92666768 original size:17 final size:17
Alignment explanation
Indices: 92666743--92666778 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
92666733 ACAACTAATT
* *
92666743 AATTGCAGCAAACAGCA
1 AATTACAGCAAACAACA
92666760 AATTACAGCAAACAACA
1 AATTACAGCAAACAACA
92666777 AA
1 AA
92666779 ACCAAATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.11, T:0.11
Consensus pattern (17 bp):
AATTACAGCAAACAACA
Found at i:92668728 original size:128 final size:128
Alignment explanation
Indices: 92668569--92668804 Score: 411
Period size: 128 Copynumber: 1.8 Consensus size: 128
92668559 CGCTTTAGAA
* *
92668569 AACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCAGCA
1 AACACGAGTGAAAATCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATAGAAACCCAGCA
*
92668634 CGATAGGACACTATTCCCGGAATTTCCAAACATCAAATATTGCATTGTTTTAGTGTTTGGAAG
66 CGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCATTGTTTTAGTGTTTGGAAG
92668697 AACACGAGT-AAAATCCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAATAGAAACCCAGC
1 AACACGAGTGAAAATCC-AAAGGAATATTCGATTATTTTGAACAAACGGGAAATAGAAACCCAGC
* *
92668761 ACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGC
65 ACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGC
92668805 CTTTATTTTA
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
127 6 0.06
128 96 0.94
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (128 bp):
AACACGAGTGAAAATCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATAGAAACCCAGCA
CGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCATTGTTTTAGTGTTTGGAAG
Found at i:92671034 original size:21 final size:23
Alignment explanation
Indices: 92671010--92671053 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
92671000 CTAGCGCTTG
92671010 GCGT-GAGG-CGTACGGAGGCGC
1 GCGTGGAGGTCGTACGGAGGCGC
* *
92671031 GCGTGGCGGTTGTACGGAGGCGC
1 GCGTGGAGGTCGTACGGAGGCGC
92671054 TGGAGGCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.11, C:0.23, G:0.52, T:0.14
Consensus pattern (23 bp):
GCGTGGAGGTCGTACGGAGGCGC
Found at i:92671230 original size:15 final size:15
Alignment explanation
Indices: 92671209--92671237 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92671199 TTATGATTTA
92671209 TTTTTTTTGTTTTGT
1 TTTTTTTTGTTTTGT
92671224 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
92671238 CGTTTCCACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (15 bp):
TTTTTTTTGTTTTGT
Found at i:92671321 original size:19 final size:19
Alignment explanation
Indices: 92671293--92671332 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
92671283 ATGACATGTG
92671293 TTAAAATAAAAT-TCATATA
1 TTAAAATAAAATAT-ATATA
*
92671312 TTAAATTAAAATATATATA
1 TTAAAATAAAATATATATA
92671331 TT
1 TT
92671333 TACTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAATAAAATATATATA
Found at i:92671485 original size:15 final size:15
Alignment explanation
Indices: 92671465--92671495 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92671455 CGAGTAGGAG
*
92671465 AGAAAAAGGGAGAAA
1 AGAAAAAGAGAGAAA
92671480 AGAAAAAGAGAGAAA
1 AGAAAAAGAGAGAAA
92671495 A
1 A
92671496 TGAGGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAGAGAAA
Found at i:92674919 original size:20 final size:21
Alignment explanation
Indices: 92674880--92674919 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
92674870 TGTTTTAACA
*
92674880 TGTTTTAGATGTATTTGAATG
1 TGTTTTAGATGTAGTTGAATG
*
92674901 TGTTTTAGAT-TGGTTGAAT
1 TGTTTTAGATGTAGTTGAAT
92674920 AAATGGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (21 bp):
TGTTTTAGATGTAGTTGAATG
Found at i:92676729 original size:27 final size:27
Alignment explanation
Indices: 92676669--92676778 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
92676659 CATGGCTGCT
* *
92676669 AGAACAGATAA-TGTGACAGAGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
92676695 AGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAATTGTGGCAGAGCCACC
92676723 AGAACAGA-AATATGTGGCAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
* * *
92676750 AGATCAAATAATTGTGGCATAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
92676777 AG
1 AG
92676779 GACGCATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.67
28 18 0.25
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:92676767 original size:54 final size:54
Alignment explanation
Indices: 92676669--92676778 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
92676659 CATGGCTGCT
* * *
92676669 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACC
* * *
92676723 AGAACAGAAATATGTGGCAGAGCCACCAGAT-CAAATAATTGTGGCATAGCCACC
1 AGAACAGAAA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACC
92676777 AG
1 AG
92676779 GACGCATCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACC
Found at i:92677216 original size:16 final size:15
Alignment explanation
Indices: 92677195--92677224 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
92677185 AAAATACCAA
92677195 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
92677211 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
92677225 CCGATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:92677932 original size:8 final size:8
Alignment explanation
Indices: 92677915--92677949 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
92677905 GGAGTCAAGT
*
92677915 TTTCGAGA
1 TTTCGGGA
92677923 TTTCGGGA
1 TTTCGGGA
92677931 TTTCGGGA
1 TTTCGGGA
92677939 TTTCGGGA
1 TTTCGGGA
92677947 TTT
1 TTT
92677950 GAGACAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.14, C:0.11, G:0.31, T:0.43
Consensus pattern (8 bp):
TTTCGGGA
Found at i:92677940 original size:16 final size:16
Alignment explanation
Indices: 92677915--92677953 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
92677905 GGAGTCAAGT
92677915 TTTCGAGATTTCGGGA
1 TTTCGAGATTTCGGGA
*
92677931 TTTCGGGATTTCGGGA
1 TTTCGAGATTTCGGGA
92677947 TTT-GAGA
1 TTTCGAGA
92677954 CAATCGGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.18, C:0.10, G:0.33, T:0.38
Consensus pattern (16 bp):
TTTCGAGATTTCGGGA
Found at i:92683372 original size:17 final size:17
Alignment explanation
Indices: 92683350--92683387 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
92683340 CAGAATCGAT
92683350 GTCTAGCTACAGTTTCA
1 GTCTAGCTACAGTTTCA
92683367 GTCTAGCTACAGTTTCA
1 GTCTAGCTACAGTTTCA
92683384 GTCT
1 GTCT
92683388 TTTAGCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (17 bp):
GTCTAGCTACAGTTTCA
Found at i:92684598 original size:27 final size:28
Alignment explanation
Indices: 92684550--92684633 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 28
92684540 AGCATAGCTG
* *
92684550 CCAGAATAGAT-A-ATGTGACAGAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
92684576 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
* *
92684603 CCAGATCAGATAAT-TGTGGCATAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
92684630 CCAG
1 CCAG
92684634 GACGTTTCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 10 0.20
27 38 0.75
28 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (28 bp):
CCAGAACAGATAATATGTGGCAGAGCCA
Found at i:92686091 original size:24 final size:24
Alignment explanation
Indices: 92686064--92686123 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
92686054 CCTTTAGCTG
*
92686064 CTCCTAAATCCTATCGCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
92686088 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
92686112 CTCCTAAATCCT
1 CTCCTAAATCCT
92686124 CTCCTGACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.37, G:0.02, T:0.33
Consensus pattern (24 bp):
CTCCTAAATCCTATCCCTTATCAA
Found at i:92687325 original size:40 final size:40
Alignment explanation
Indices: 92687278--92687371 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
92687268 CATTTGAATG
* * *
92687278 AAAAACGCCGCTAAAAAATGAGCATTAGCGGCGCTTATT-A
1 AAAAACGCCGCTAAAAAATCACCATTAGCGGCACTT-TTCA
* ** *
92687318 AAAAACGCCGCTATAAGTTCACCTTTAGCGGCACTTTTCA
1 AAAAACGCCGCTAAAAAATCACCATTAGCGGCACTTTTCA
92687358 AAAAACGCCGCTAA
1 AAAAACGCCGCTAA
92687372 TGCTCGATCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.21
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAAATCACCATTAGCGGCACTTTTCA
Found at i:92687384 original size:40 final size:40
Alignment explanation
Indices: 92687302--92687405 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
92687292 AAAATGAGCA
*
92687302 TTAGCGGCGCTTATT-AAAAAACGCCGCTATAAGTTCACCT
1 TTAGCGGCGCTT-TTCAAAAAACGCCGCTATAAGCTCACCT
* * *
92687342 TTAGCGGCACTTTTCAAAAAACGCCGCTA-ATGCTCGATCT
1 TTAGCGGCGCTTTTCAAAAAACGCCGCTATAAGCTC-ACCT
*
92687382 TTAGCGGCGCTTTACAAAAAACGC
1 TTAGCGGCGCTTTTCAAAAAACGC
92687406 TGCAAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 6 0.11
40 50 0.89
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAAACGCCGCTATAAGCTCACCT
Found at i:92687870 original size:15 final size:15
Alignment explanation
Indices: 92687852--92687881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92687842 TTATTTTAAT
*
92687852 GTTTATGGATTATGG
1 GTTTAGGGATTATGG
92687867 GTTTAGGGATTATGG
1 GTTTAGGGATTATGG
92687882 ATTAAGGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GTTTAGGGATTATGG
Found at i:92687871 original size:22 final size:22
Alignment explanation
Indices: 92687812--92687890 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
92687802 GTTTACGGTA
92687812 TATGG-TTAAGGGTTTAATGTT
1 TATGGATTAAGGGTTTAATGTT
****
92687833 TAT-GAGTTATTATTTTAATGTT
1 TATGGA-TTAAGGGTTTAATGTT
* ** *
92687855 TATGGATTATGGGTTTAGGGAT
1 TATGGATTAAGGGTTTAATGTT
92687877 TATGGATTAAGGGT
1 TATGGATTAAGGGT
92687891 GGTTTAAGGT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 38 0.86
23 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
TATGGATTAAGGGTTTAATGTT
Found at i:92687946 original size:14 final size:14
Alignment explanation
Indices: 92687928--92687974 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
92687918 AGGGTTAGGG
92687928 GTTTAGGGTTTAT-
1 GTTTAGGGTTTATA
* *
92687941 GTTTTAGGATCTATA
1 G-TTTAGGGTTTATA
*
92687956 GTTTAGGGTTTAAA
1 GTTTAGGGTTTATA
92687970 GTTTA
1 GTTTA
92687975 AGAGTTTAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:92688171 original size:15 final size:15
Alignment explanation
Indices: 92688151--92688198 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
92688141 ACTATTTTAA
92688151 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
92688166 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* * *
92688180 AGTTTATGGTTTAAG
1 GGTTTATGGATTATG
92688195 GGTT
1 GGTT
92688199 GGGGTTTAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:92688171 original size:22 final size:21
Alignment explanation
Indices: 92688146--92688195 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
92688136 GAATTACTAT
* *
92688146 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATAGATTAT-GG
* *
92688168 TTTAGGGATTATAGTTTATGG
1 TTTAAGGATTATAGATTATGG
92688189 TTTAAGG
1 TTTAAGG
92688196 GTTGGGGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATAGATTATGG
Found at i:92688204 original size:14 final size:14
Alignment explanation
Indices: 92688187--92688227 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
92688177 TATAGTTTAT
*
92688187 GGTTTAAGGGTTGG
1 GGTTTAAGGGTTAG
*
92688201 GGTTTAAGGCTTAG
1 GGTTTAAGGGTTAG
*
92688215 GGATTAAGGGTTA
1 GGTTTAAGGGTTA
92688228 AGTGTTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.41, T:0.34
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:92692335 original size:19 final size:20
Alignment explanation
Indices: 92692292--92692347 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
92692282 ACTGGGCCTA
*
92692292 GCCCATATCAGTACAGTTGG
1 GCCCATATCAATACAGTTGG
*
92692312 GCCCATTTCAATACAGTT-G
1 GCCCATATCAATACAGTTGG
* *
92692331 GCCCATAACAAAACAGT
1 GCCCATATCAATACAGT
92692348 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
GCCCATATCAATACAGTTGG
Found at i:92695772 original size:23 final size:23
Alignment explanation
Indices: 92695746--92695821 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
92695736 ATAAGTGCCA
92695746 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
92695769 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
92695792 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
92695815 CACTGAT
1 CACTGAT
92695822 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:92695921 original size:8 final size:8
Alignment explanation
Indices: 92695908--92695944 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
92695898 ACCCGGGACT
92695908 CACTGTAA
1 CACTGTAA
92695916 CACTGTAA
1 CACTGTAA
92695924 CACTGTAA
1 CACTGTAA
92695932 CACTGTAA
1 CACTGTAA
92695940 CACTG
1 CACTG
92695945 GTCTCTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:92696075 original size:18 final size:17
Alignment explanation
Indices: 92696049--92696087 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
92696039 ATTTTCCTTC
92696049 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
92696066 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
92696084 CACA
1 CACA
92696088 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:92698647 original size:14 final size:14
Alignment explanation
Indices: 92698610--92698657 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
92698600 GTCACTACCC
92698610 AAAACAAAACAACCAA
1 AAAACAAAAC-A-CAA
*
92698626 ATAA-AAAACACAA
1 AAAACAAAACACAA
*
92698639 AAAACAAAACAAAA
1 AAAACAAAACACAA
92698653 AAAAC
1 AAAAC
92698658 CACCCAACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 6 0.21
14 14 0.50
15 5 0.18
16 3 0.11
ACGTcount: A:0.79, C:0.19, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAACAAAACACAA
Found at i:92698742 original size:11 final size:11
Alignment explanation
Indices: 92698728--92698757 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
92698718 AAAACGAACT
92698728 AAAAAAAAAAC
1 AAAAAAAAAAC
*
92698739 AAAAAAAAGAC
1 AAAAAAAAAAC
92698750 AAAAAAAA
1 AAAAAAAA
92698758 CCAATCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:92704458 original size:23 final size:23
Alignment explanation
Indices: 92704432--92704507 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
92704422 ATAAGTGCCA
92704432 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
92704455 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
92704478 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
92704501 CACTGAT
1 CACTGAT
92704508 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:92704607 original size:8 final size:8
Alignment explanation
Indices: 92704594--92704623 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
92704584 ACCCGGGACT
92704594 CACTGTAA
1 CACTGTAA
92704602 CACTGTAA
1 CACTGTAA
92704610 CACTGTAA
1 CACTGTAA
92704618 CACTGT
1 CACTGT
92704624 CTCTAGTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (8 bp):
CACTGTAA
Found at i:92704752 original size:18 final size:17
Alignment explanation
Indices: 92704726--92704764 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
92704716 ATTTTCCTTC
92704726 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
92704743 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
92704761 CACA
1 CACA
92704765 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:92715475 original size:39 final size:39
Alignment explanation
Indices: 92715448--92715571 Score: 221
Period size: 39 Copynumber: 3.2 Consensus size: 39
92715438 TGAAGTCAAG
*
92715448 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAA
*
92715487 CTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAA
*
92715526 CTGAAGCACACAAGTGCTAAACGGAAGACCGAAGGCTAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAA
92715565 CTGAAGC
1 CTGAAGC
92715572 TCATCAGAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (39 bp):
CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAA
Found at i:92719230 original size:22 final size:22
Alignment explanation
Indices: 92719205--92719246 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
92719195 TAAGATAACT
92719205 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
92719227 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
92719247 ACATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:92719253 original size:22 final size:21
Alignment explanation
Indices: 92719214--92719256 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
92719204 TTTAAAAAAC
* *
92719214 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAACATAAATAA
92719235 AAATGAATAAAAACATAAATAA
1 AAAT-AATAAAAACATAAATAA
92719257 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAACATAAATAA
Found at i:92720285 original size:4 final size:4
Alignment explanation
Indices: 92720269--92720300 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
92720259 ATAATTTAAT
92720269 TTTA TTTA CTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTT
92720301 GTTGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:92720771 original size:43 final size:45
Alignment explanation
Indices: 92720707--92720802 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 45
92720697 ACTGCTTAGG
** * *
92720707 GAGATAAGATCTTCAATCTTCAGTCTGCTTTTTTGCTACCTCAGAA
1 GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCA-AA
*
92720753 -AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTATCTCAAA
1 GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAAA
92720795 GAGATAAG
1 GAGATAAG
92720803 GCTTGAGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 33 0.75
44 1 0.02
45 8 0.18
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (45 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAAA
Found at i:92720828 original size:176 final size:174
Alignment explanation
Indices: 92720461--92720847 Score: 517
Period size: 176 Copynumber: 2.2 Consensus size: 174
92720451 GGACTGGTGA
** *
92720461 CTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCCTTGATGCTCCACAACTGC
1 CTTAAATCTGCTCCATTACCGATACATGGAGATAAGACTCGCCATCCTTGATGCTCCACAACTGC
*
92720526 TTAGGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
66 TTAGGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
* * * *
92720591 CACCAACCTACTCTCTTGTTACCTTAGAGAGATAAGGCTAGTGG
131 CACCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTAGAGG
** * *
92720635 CGAAAATCTGCTCCATTACCGATACATGGAGATAAGACTCGCCAT-CTTCGATCTGCTCCGCTAC
1 CTTAAATCTGCTCCATTACCGATACATGGAGATAAGACTCGCCATCCTT-GA--TGCTCCACAAC
* **
92720699 TGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTTTTGCTACCTCAGAAAGATAAGACT-
63 TGCTTAGGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTA
** * * *
92720763 CAATCTTCAACCTGCTCTCTTGCTATCTCAAAGAGATAAGGCTTGAGG
127 CAATCACCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTAGAGG
** *
92720811 CTTAAATCTGCTCCATTACATATACATAGAGATAAGA
1 CTTAAATCTGCTCCATTACCGATACATGGAGATAAGA
92720848 TTTGCCTCTT
Statistics
Matches: 184, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
173 3 0.02
174 42 0.23
176 92 0.50
177 47 0.26
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (174 bp):
CTTAAATCTGCTCCATTACCGATACATGGAGATAAGACTCGCCATCCTTGATGCTCCACAACTGC
TTAGGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
CACCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTAGAGG
Found at i:92720982 original size:146 final size:146
Alignment explanation
Indices: 92720715--92721141 Score: 712
Period size: 146 Copynumber: 2.9 Consensus size: 146
92720705 GGGAGATAAG
* * *
92720715 ATCTTCAATCTTCAGTCTGCTTTTTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTC
1 ATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTC
* * * **
92720780 TCTTGCTATCTCAAAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTACATATACATAGAGATA
66 TCTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTGCCGATACATAGAGATA
92720845 AGATTTGCCTCTTCCA
131 AGATTTGCCTCTTCCA
* *
92720861 ATCTTCAATCTCCAGTCTGCTTTCTTACTACCTCAGGAAGATAACACTCAATCTTCAACCTGCTC
1 ATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTC
92720926 TCTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTGCCGATACATAGAGATA
66 TCTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTGCCGATACATAGAGATA
92720991 AGATTTGCCTCTTCCA
131 AGATTTGCCTCTTCCA
* *
92721007 ATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGGAAGATAAGACTCATTCTTTAACCTGCTC
1 ATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTC
* *
92721072 TCTTGCTACCTCAGAGAGATAAGG-TTGGCGGCTTAAATCTGCCCCATTGCCGATACATAGAGAT
66 TCTTGCTACCTCAGAGAGATAAGGCTT-GAGGCTTAAATCTGCTCCATTGCCGATACATAGAGAT
92721136 AAGATT
130 AAGATT
92721142 AGCCATCTGC
Statistics
Matches: 264, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
145 2 0.01
146 262 0.99
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (146 bp):
ATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTC
TCTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTGCCGATACATAGAGATA
AGATTTGCCTCTTCCA
Found at i:92721392 original size:176 final size:176
Alignment explanation
Indices: 92721006--92721547 Score: 800
Period size: 176 Copynumber: 3.1 Consensus size: 176
92720996 TGCCTCTTCC
* *
92721006 AATCTTCAA-TCTTCAGTCTGCTTTCTTACTACCTCAGGAAGATAAGACTCATTCTTTAACCTGC
1 AATCTTCAATTC-CCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTCATTCTTTAACCTGC
* * * *
92721070 TCTCTTGCTACCTCAGAGAGATAAGGTTGGCGGCTTAAATCTGCCCCATTGCCGATACATAGAGA
65 TCTCTTGCTACCTCAGAGAGATAAGGCTAGCGG-TAAAATCTGCTCCATTGCCGATACATAGAGA
*
92721135 TAAGATT-AGCCATCTGCGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
129 TAAGATTCA-CCATCTTCG--G-TCTGCTCCGCTGCAACTTCAGGGAGATAA
* * * * * *
92721186 AATTTTCAATTCCCAGTCTGCATCCTTGCTACCTCAGGAAGATAAAACTCACTCTTCAACCTGCT
1 AATCTTCAATTCCCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTCATTCTTTAACCTGCT
** * *
92721251 CTCTTGCTACCTCAGAGAGATAAGGCTAATGGTAAAATCTGCTCCATTGCTGATACATGGAGATA
66 CTCTTGCTACCTCAGAGAGATAAGGCTAGCGGTAAAATCTGCTCCATTGCCGATACATAGAGATA
92721316 AGATTCACCATCTTCGGTCTGCTCCGCTGCAACTTCAGGGAGATAA
131 AGATTCACCATCTTCGGTCTGCTCCGCTGCAACTTCAGGGAGATAA
* *
92721362 AATCTTCAATTCCCAGTCTGCTTTCTTGCTACTTCAGAAAGATAAGACTCATTCTTTAACCTGCT
1 AATCTTCAATTCCCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTCATTCTTTAACCTGCT
*
92721427 CTCTTGCTACCTCAGAGATATAAGGCTAGCGGTAAAATCTGCTCCATTGCCGATACATAGAGATA
66 CTCTTGCTACCTCAGAGAGATAAGGCTAGCGGTAAAATCTGCTCCATTGCCGATACATAGAGATA
** *
92721492 AGATTCACCATCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAA
131 AGATTCACCATCTTCGGTCTGCTCCGCTGCAACTTCAGGGAGATAA
*
92721538 GATCTTCAAT
1 AATCTTCAAT
92721548 CTTCAGTCTA
Statistics
Matches: 326, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
176 198 0.61
177 1 0.00
179 42 0.13
180 83 0.25
181 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (176 bp):
AATCTTCAATTCCCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTCATTCTTTAACCTGCT
CTCTTGCTACCTCAGAGAGATAAGGCTAGCGGTAAAATCTGCTCCATTGCCGATACATAGAGATA
AGATTCACCATCTTCGGTCTGCTCCGCTGCAACTTCAGGGAGATAA
Found at i:92721535 original size:45 final size:44
Alignment explanation
Indices: 92721486--92721587 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 44
92721476 CCGATACATA
* * * *
92721486 GAGATAAGA-TTCACCATCTTCAATCTGCTCCGCTACAACTTCAGG
1 GAGATAAGACTTCA--ATCTTCAATCTACTCCACTACAACCTCAAG
* *
92721531 GAGATAAGATCTTCAATCTTCAGTCTACTCCATTACAACCTCAAG
1 GAGATAAGA-CTTCAATCTTCAATCTACTCCACTACAACCTCAAG
92721576 GAGATAAGACTT
1 GAGATAAGACTT
92721588 GTTATGATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 3 0.06
45 42 0.86
47 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (44 bp):
GAGATAAGACTTCAATCTTCAATCTACTCCACTACAACCTCAAG
Found at i:92723030 original size:9 final size:9
Alignment explanation
Indices: 92723016--92723044 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
92723006 TTATTTCTTC
92723016 TTTTTTTAT
1 TTTTTTTAT
92723025 TTTTTTTA-
1 TTTTTTTAT
92723033 TTTTTTTAT
1 TTTTTTTAT
92723042 TTT
1 TTT
92723045 GATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:92723053 original size:17 final size:17
Alignment explanation
Indices: 92723016--92723053 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
92723006 TTATTTCTTC
*
92723016 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTATTTA
92723033 TTTTTTTATTTTGATTT-
1 TTTTTTTATTTT-ATTTA
92723050 TTTT
1 TTTT
92723054 AAAGTCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (17 bp):
TTTTTTTATTTTATTTA
Found at i:92726981 original size:43 final size:43
Alignment explanation
Indices: 92726920--92727140 Score: 354
Period size: 43 Copynumber: 5.2 Consensus size: 43
92726910 GCATGAAACT
*
92726920 CGGTGAAATAATATCGGGCTTCGAGCCTAACAGGCTATAATGC
1 CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
* *
92726963 CGGTGAAATAATATCGGGCTTCGAGCTTAGCAGGCTATAATGA
1 CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
*
92727006 CGGTGAAATAATATCGGGCTTCGAGCCTAGTAGGCTATAATGC
1 CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
92727049 CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
1 CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
* * * *
92727092 CGATAAAATAATATCGAGCTTCGAGCCTAGCAGGCGA-AATGC
1 CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
*
92727134 CGATGAA
1 CGGTGAA
92727141 TGAATTCAGA
Statistics
Matches: 166, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
42 11 0.07
43 155 0.93
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (43 bp):
CGGTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGC
Found at i:92731561 original size:33 final size:33
Alignment explanation
Indices: 92731504--92731599 Score: 103
Period size: 33 Copynumber: 3.0 Consensus size: 33
92731494 AATATATATA
92731504 AAAAATAATGTATAA-TATAAATTTTAAAATA-
1 AAAAATAATGTATAAGTATAAATTTTAAAATAC
* * *
92731535 ATATATAATGTATAATGTATAAATTTT-GAATAC
1 AAAAATAATGTATAA-GTATAAATTTTAAAATAC
92731568 AAAAATACATGTATAAAG-A-AAATTTTAAAATA
1 AAAAATA-ATGTAT-AAGTATAAATTTTAAAATA
92731600 GAAATTTTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
31 13 0.25
32 11 0.21
33 20 0.38
34 7 0.13
35 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (33 bp):
AAAAATAATGTATAAGTATAAATTTTAAAATAC
Found at i:92731732 original size:22 final size:21
Alignment explanation
Indices: 92731703--92731745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
92731693 TTTAAAACAC
* *
92731703 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
92731724 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
92731746 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:92731860 original size:7 final size:7
Alignment explanation
Indices: 92731848--92731872 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
92731838 AACATGCACC
92731848 TTATACA
1 TTATACA
92731855 TTATACA
1 TTATACA
92731862 TTATACA
1 TTATACA
92731869 TTAT
1 TTAT
92731873 GTTAGTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (7 bp):
TTATACA
Found at i:92733556 original size:82 final size:82
Alignment explanation
Indices: 92733462--92733801 Score: 432
Period size: 82 Copynumber: 4.1 Consensus size: 82
92733452 CTTGAAACAA
* * * * * *
92733462 AATTATTTAATTAAATCTTATTTGAAAACAAAATCAAAACT-GAATAAAATCTGTTAAATGGCGA
1 AATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAA-TAAAATAAAATCTGTTAAATGACGA
92733526 GAATAAATCCCGAAATAG
65 GAATAAATCCCGAAATAG
* * * * *
92733544 AATTATTCAATTAATTCTCGTTTGGAAACAAAATTAAAATAGAATAAAATCTGTTAAACGACGGG
1 AATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAAAATAAAATCTGTTAAATGACGAG
***
92733609 AATAAATTTTGAAATAG
66 AATAAATCCCGAAATAG
* * * *
92733626 AATTATTCAAGTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATCTGTTAAATGGCAAG
1 AATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAAAATAAAATCTGTTAAATGACGAG
*
92733691 AATAAATCCCAAAATAG
66 AATAAATCCCGAAATAG
* * *
92733708 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATTAAATAAAATCTGTTAAATAACTG-
1 AATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAAAATAAAATCTGTTAAATGAC-GA
92733772 GAATAAATCCCGAAATAG
65 GAATAAATCCCGAAATAG
* *
92733790 TATTATTTAATT
1 AATTATTCAATT
92733802 TTAATTTTTT
Statistics
Matches: 222, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 1 0.00
82 221 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.31
Consensus pattern (82 bp):
AATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAAAATAAAATCTGTTAAATGACGAG
AATAAATCCCGAAATAG
Found at i:92733660 original size:164 final size:164
Alignment explanation
Indices: 92733453--92733779 Score: 496
Period size: 164 Copynumber: 2.0 Consensus size: 164
92733443 GGATTGAATC
* * * *
92733453 TTGAAACAAAATTATTTAATTAAATCTTATTTGAAAACAAAATCAAAA-CTGAATAAAATCTGTT
1 TTGAAACAAAATTATTCAAGTAAATCTCATTTGAAAACAAAATCAAAATC-AAATAAAATCTGTT
* * *
92733517 AAATGGCGAGAATAAATCCCGAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATTAAA
65 AAATGGCAAGAATAAATCCCAAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAA
*
92733582 A-TAGAATAAAATCTGTTAAACGACGGGAATAAATT
130 ATTA-AATAAAATCTGTTAAACAACGGGAATAAATT
* * * *
92733617 TTGAAATAGAATTATTCAAGTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATCTGTTA
1 TTGAAACAAAATTATTCAAGTAAATCTCATTTGAAAACAAAATCAAAATCAAATAAAATCTGTTA
92733682 AATGGCAAGAATAAATCCCAAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAA
66 AATGGCAAGAATAAATCCCAAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAA
* *
92733747 TTAAATAAAATCTGTTAAATAACTGGAATAAAT
131 TTAAATAAAATCTGTTAAACAACGGGAATAAAT
92733780 CCCGAAATAG
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
164 144 0.98
165 3 0.02
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (164 bp):
TTGAAACAAAATTATTCAAGTAAATCTCATTTGAAAACAAAATCAAAATCAAATAAAATCTGTTA
AATGGCAAGAATAAATCCCAAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAA
TTAAATAAAATCTGTTAAACAACGGGAATAAATT
Found at i:92734788 original size:353 final size:353
Alignment explanation
Indices: 92734142--92734844 Score: 1131
Period size: 353 Copynumber: 2.0 Consensus size: 353
92734132 GATGTTGAAG
* * *
92734142 TATGTTTTCACAATTTCCTTAACATAGATTGGCCGCTCCTATGGTACTTAAAAAAATGTTGGTCG
1 TATGTTTTCACAATTTCCTTAACACAGATTAGCCGCTCCTATGGTACTTAAAAAAATATTGGTCG
*
92734207 TCTATCTCCTAAGATACAACAACAAAATGATCACGGTAGTAGTACCTACGCAGTGATCAACAAAC
66 TCTATCTCCTAAGATACAACAACAAAATGATCACGGAAGTAGTACCTACGCAGTGATCAACAAAC
* * *
92734272 AAACCTTACCTTCGTCTATTACCAAAACTTTTAAAAATTTGGAGAGAAAAAGAAAAGAATTTTTC
131 AAACCTTACCTTCGTCTATTACCAAAACTTTTAAAAATTTGGAGAGAAAAAGAAAAAAAATTTCC
* *
92734337 AGAGTGAAATAAATTTGTTGTGTATCTCTAAAGAATTCTGCAATATTCTTTAGGCTTTTATAGGC
196 AAAGTGAAATAAATTTGTTGTGTATCTCTAAAGAATTCTGCAATATTCTTCAGGCTTTTATAGGC
* * * *
92734402 ATTCAATATGGAGGAATTTTAAAAATTTCCATAAATAAATATATAAATCTACATTAAATGAGCCT
261 ATTCAATATAGAGGAATTTTAAAAATTTCCATAAATAAATATAAAAATATACATTAAAGGAGCCT
92734467 TTAAGTCAATTTGAAA-AAAATCAATTAA
326 TTAAGTCAATTT-AAATAAAATCAATTAA
* * * * * *
92734495 TATGTTTTCACAGTTTCCTTAAGACAGATTCAGTCGCTCCTATGGTGCTTGAAGAAATATTGGTC
1 TATGTTTTCACAATTTCCTTAACACAGATT-AGCCGCTCCTATGGTACTTAAAAAAATATTGGTC
* *
92734560 GTCTATCTCCTAGGATACAACAACAAAATGATCACGGAAGTAGTACCTATGCA-TGATCAACAAA
65 GTCTATCTCCTAAGATACAACAACAAAATGATCACGGAAGTAGTACCTACGCAGTGATCAACAAA
* *
92734624 CAAACCTTACCTTCTTCTATTACCGAAACTTTTAAAAATTTGGAGAGAAAAAGAAAAAAAATTTC
130 CAAACCTTACCTTCGTCTATTACCAAAACTTTTAAAAATTTGGAGAGAAAAAGAAAAAAAATTTC
*
92734689 CAAAGTGAAATAAATTTGTTGTGTATCTCTAAAGAATTCTGCAATATTCTTCAGGTTTTTATAGG
195 CAAAGTGAAATAAATTTGTTGTGTATCTCTAAAGAATTCTGCAATATTCTTCAGGCTTTTATAGG
** *
92734754 CATTCAATATAGAGGAATTTTGGAAATTTCCATAAATAAATATAAAAATATGCATTAAAGGAGCC
260 CATTCAATATAGAGGAATTTTAAAAATTTCCATAAATAAATATAAAAATATACATTAAAGGAGCC
92734819 TTTAAGTCAATTTAAATAAAATCAAT
325 TTTAAGTCAATTTAAATAAAATCAAT
92734845 CAATTTGATT
Statistics
Matches: 321, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
352 3 0.01
353 240 0.75
354 78 0.24
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (353 bp):
TATGTTTTCACAATTTCCTTAACACAGATTAGCCGCTCCTATGGTACTTAAAAAAATATTGGTCG
TCTATCTCCTAAGATACAACAACAAAATGATCACGGAAGTAGTACCTACGCAGTGATCAACAAAC
AAACCTTACCTTCGTCTATTACCAAAACTTTTAAAAATTTGGAGAGAAAAAGAAAAAAAATTTCC
AAAGTGAAATAAATTTGTTGTGTATCTCTAAAGAATTCTGCAATATTCTTCAGGCTTTTATAGGC
ATTCAATATAGAGGAATTTTAAAAATTTCCATAAATAAATATAAAAATATACATTAAAGGAGCCT
TTAAGTCAATTTAAATAAAATCAATTAA
Found at i:92735338 original size:86 final size:86
Alignment explanation
Indices: 92735227--92735402 Score: 289
Period size: 86 Copynumber: 2.0 Consensus size: 86
92735217 CATTTTGAGC
*
92735227 ATATGGTATAACGTTGTAAAGGTATCATGAAGTAGAATATAAAATCATAAATTTATGATTCAACC
1 ATATAGTATAACGTTGTAAAGGTATCATGAAGTAGAATATAAAATCATAAATTTATGATTCAACC
*
92735292 CTCCACGTTTACTAATCAAGA
66 CTCCACGTTTACCAATCAAGA
* * *
92735313 ATATAGTATACCGTTGTAAAGGTATCGTGAAGTAGAATATAAAATCATAAATTTATGATTCAACT
1 ATATAGTATAACGTTGTAAAGGTATCATGAAGTAGAATATAAAATCATAAATTTATGATTCAACC
* *
92735378 CTCCATGTTTACCAATCGAGA
66 CTCCACGTTTACCAATCAAGA
92735399 ATAT
1 ATAT
92735403 GCCTCAAAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (86 bp):
ATATAGTATAACGTTGTAAAGGTATCATGAAGTAGAATATAAAATCATAAATTTATGATTCAACC
CTCCACGTTTACCAATCAAGA
Found at i:92736250 original size:32 final size:32
Alignment explanation
Indices: 92736214--92736280 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
92736204 ATTTGTCAGC
92736214 AATCTTAAATTAAACATTAAAGCTAAACCCAA
1 AATCTTAAATTAAACATTAAAGCTAAACCCAA
** *
92736246 AATCTTAAATTAAGTATTAAAGTTAAACCCAA
1 AATCTTAAATTAAACATTAAAGCTAAACCCAA
92736278 AAT
1 AAT
92736281 TAGTAGACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (32 bp):
AATCTTAAATTAAACATTAAAGCTAAACCCAA
Found at i:92742608 original size:91 final size:91
Alignment explanation
Indices: 92742427--92742622 Score: 252
Period size: 91 Copynumber: 2.2 Consensus size: 91
92742417 ACTCTTTGTA
* * * *
92742427 TAAGGTTTGGTATATGCATGCTTAGAGCAACGCTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAG
1 TAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAG
92742492 ACAAAACTTTTGAGGAAACACTTTCC
66 ACAAAACTTTTGAGGAAACACTTTCC
* **
92742518 TAAGGGTTGGGATATGTATGCCTAAAGCAACGC-TAGAATAAGAGTTGATTTTTGTCTAGTCCTA
1 TAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTA-AATAAGAGTTG-GCTTTGTCTAGTCCTA
* * * *
92742582 AGACGACACTTTTGTGGCAACA-TTTCC
64 AGACAAAACTTTTGAGGAAACACTTTCC
*
92742609 TAAGTGTTGGGATA
1 TAAGGGTTGGGATA
92742623 GACTATGCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 2 0.02
91 57 0.63
92 32 0.35
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (91 bp):
TAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAG
ACAAAACTTTTGAGGAAACACTTTCC
Found at i:92742799 original size:132 final size:132
Alignment explanation
Indices: 92742518--92743121 Score: 802
Period size: 131 Copynumber: 4.5 Consensus size: 132
92742508 AACACTTTCC
* * **
92742518 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTAGAATAAGAGTTGATTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
92742583 GACGACACTTTTGTGGCAACA-TTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTA
92742647 TA
131 TA
* * *
92742649 TAAGGGTTGGGATATGTATGTCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* **
92742714 GACGACACTTTTTTGGTGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTA
66 GACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTA
92742779 TA
131 TA
* * * *
92742781 TAAGGGTTGGGATATGTATGACTAAGGCAATGCTTGAATAAGAGTTGGCTTTT-TGTAGACCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* * * * *
92742845 TACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGCGATAGACTATGCTCTGGCCCACTCTTTG
66 GACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTA
92742910 TA
131 TA
* * *
92742912 TAAGGGTTGGGATATGTAAGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTCGTTCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* * * *
92742977 GACGACAGTTTT-TGTGCGACACTTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGC
66 GACGACACTTTTGTG-GCAACACTTTCCTAAGTGTTGGGAT--A---G---AC-TATGCTTTGGC
92743041 CAACTCTTTATA
121 CAACTCTTTATA
* * * *
92743053 TAAGGGTTGGGATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGC-TTTGTCCAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
92743117 TACGA
66 GACGA
92743122 TATATATTTT
Statistics
Matches: 413, Mismatches: 48, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
131 196 0.47
132 133 0.32
134 1 0.00
137 1 0.00
140 18 0.04
141 64 0.15
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
GACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTA
TA
Found at i:92743000 original size:263 final size:267
Alignment explanation
Indices: 92742518--92743104 Score: 846
Period size: 263 Copynumber: 2.2 Consensus size: 267
92742508 AACACTTTCC
* * * *
92742518 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTAGAATAAGAGTT-GATTTTTGTCTAGTCCTA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTTG-CTAGACCTA
* *
92742582 AGACGACACTTTTGTGGCAACATTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
65 AGACGACACTTTTGTGGCAACATTTCCTAAGTGTTGCGATAGACTATGCTCTGGCCAACTCTTTG
* *
92742647 TATAAGGGTTGGGATATGTATGTCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCT
130 TATAAGGGTTGGGATATGTAAGCCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCT
* * *
92742712 AAGACGACACTTTTTTGGTGACACTTTCCTAAGTGTTGGGAT-A-G-AC-TATGCTTTGGCCAAC
195 AAGACGACACTTTTTTGGCGACACTTTCCGAAGTGTTGGGATAACGCACATATGCTTTAGCCAAC
92742773 TCTTTATA
260 TCTTTATA
* *
92742781 TAAGGGTTGGGATATGTATGACTAAGGCAATGCTTGAATAAGAGTTGGCTTTTTG-TAGACCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTTGCTAGACCTAA
* *
92742845 TACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGCGATAGACTATGCTCTGGCCCACTCTTTG
66 GACGACACTTTTGTGGCAACA-TTTCCTAAGTGTTGCGATAGACTATGCTCTGGCCAACTCTTTG
* * * *
92742910 TATAAGGGTTGGGATATGTAAGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTCGTTCT
130 TATAAGGGTTGGGATATGTAAGCCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCT
*
92742975 AAGACGACA-GTTTTTGTGCGACACTTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTA
195 AAGACGACACTTTTTTG-GCGACACTTTCCGAAGTGTTGGGATA-AC--G-C-ACATATGCTTTA
92743039 GCCAACTCTTTATA
254 GCCAACTCTTTATA
* * *
92743053 TAAGGGTTGGGATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGCTTT
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTT
92743105 GTCCAGTCCT
Statistics
Matches: 287, Mismatches: 25, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
262 34 0.12
263 173 0.60
264 7 0.02
265 1 0.00
268 1 0.00
271 2 0.01
272 69 0.24
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (267 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTTGCTAGACCTAA
GACGACACTTTTGTGGCAACATTTCCTAAGTGTTGCGATAGACTATGCTCTGGCCAACTCTTTGT
ATAAGGGTTGGGATATGTAAGCCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTA
AGACGACACTTTTTTGGCGACACTTTCCGAAGTGTTGGGATAACGCACATATGCTTTAGCCAACT
CTTTATA
Found at i:92743234 original size:130 final size:130
Alignment explanation
Indices: 92742999--92743239 Score: 349
Period size: 130 Copynumber: 1.9 Consensus size: 130
92742989 TGTGCGACAC
*
92742999 TTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGCCAACTCTTTATATAAGGGTTGGG
1 TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
**
92743064 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCCAGTCCTAATACGATATATAT
66 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAATACGATATATAT
* * * ** * *
92743129 TTTCCTAAGTGTTGGGATAGACTTGCCGACATACGC-TTAGGTTAACTTTTTATATAAGGGTTGT
1 TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTA-GCCAACTCTTTATATAAGGGTTGG
** *
92743193 GATATGCATGCTTAATGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
65 GATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
92743240 ACACTATGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
129 3 0.03
130 94 0.97
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (130 bp):
TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAATACGATATATAT
Found at i:92743364 original size:7 final size:7
Alignment explanation
Indices: 92743349--92743399 Score: 84
Period size: 7 Copynumber: 7.3 Consensus size: 7
92743339 CATGCCTAAT
92743349 GGGTTTA
1 GGGTTTA
*
92743356 GGATTTA
1 GGGTTTA
92743363 GGGTTTA
1 GGGTTTA
92743370 GGGTTTA
1 GGGTTTA
*
92743377 AGGTTTA
1 GGGTTTA
92743384 GGGTTTA
1 GGGTTTA
92743391 GGGTTTA
1 GGGTTTA
92743398 GG
1 GG
92743400 AGTTGGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:92743559 original size:7 final size:7
Alignment explanation
Indices: 92743544--92743605 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
92743534 ATCTTCTATA
*
92743544 TTTAGGG
1 TTTAAGG
92743551 TTTAAGG
1 TTTAAGG
92743558 TTTAAGG
1 TTTAAGG
*
92743565 TTTAGGAG
1 TTTAAG-G
*
92743573 TTTAGGG
1 TTTAAGG
92743580 TTTAAGG
1 TTTAAGG
* *
92743587 TGTATGG
1 TTTAAGG
92743594 TTTTAAGG
1 -TTTAAGG
92743602 TTTA
1 TTTA
92743606 GGATTTTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
7 34 0.74
8 12 0.26
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
TTTAAGG
Found at i:92743581 original size:15 final size:14
Alignment explanation
Indices: 92743544--92743655 Score: 75
Period size: 15 Copynumber: 7.7 Consensus size: 14
92743534 ATCTTCTATA
92743544 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
* *
92743558 TTTAAGGTTTAGGAG
1 TTTAGGGTTTAAG-G
92743573 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
* *
92743587 TGTATGGTTTTAAGG
1 TTTA-GGGTTTAAGG
* *
92743602 TTTAGGATTTTATGG
1 TTTAGG-GTTTAAGG
* *
92743617 TCGT-GAGGTTTAAAG
1 T-TTAG-GGTTTAAGG
92743632 TTT-GTGGTTTAAGG
1 TTTAG-GGTTTAAGG
*
92743646 CTTAGGGTTT
1 TTTAGGGTTT
92743656 TGATAAAAAC
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
14 34 0.45
15 40 0.53
16 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:92743581 original size:22 final size:21
Alignment explanation
Indices: 92743544--92743605 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
92743534 ATCTTCTATA
92743544 TTTAGGGTTTAAGGTTTAAGG
1 TTTAGGGTTTAAGGTTTAAGG
*
92743565 TTTAGGAGTTTAGGGTTTAAGG
1 TTTAGG-GTTTAAGGTTTAAGG
* *
92743587 TGTATGGTTTTAAGGTTTA
1 TTTA-GGGTTTAAGGTTTA
92743606 GGATTTTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.17
22 27 0.77
23 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAAGG
Found at i:92743604 original size:29 final size:29
Alignment explanation
Indices: 92743544--92743645 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 29
92743534 ATCTTCTATA
* *
92743544 TTTAGGGTTTAAGGTTTAAGGTTTAGGAG
1 TTTAGGGTTTAAGGTGTAAGGTTTAAGAG
*
92743573 TTTAGGGTTTAAGGTGTATGGTTTTAAG-G
1 TTTAGGGTTTAAGGTGTAAGG-TTTAAGAG
* * *
92743602 TTTAGGATTTTATGGTCGTGAGGTTTAA-AG
1 TTTAGG-GTTTAAGGT-GTAAGGTTTAAGAG
92743632 TTT-GTGGTTTAAGG
1 TTTAG-GGTTTAAGG
92743646 CTTAGGGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
29 33 0.56
30 22 0.37
31 4 0.07
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (29 bp):
TTTAGGGTTTAAGGTGTAAGGTTTAAGAG
Found at i:92744474 original size:39 final size:39
Alignment explanation
Indices: 92744430--92744512 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
92744420 TACAACTTTG
92744430 AAAGTATTGAGTGTAATAGTAAAATATATTATATTTTAT
1 AAAGTATTGAGTGTAATAGTAAAATATATTATATTTTAT
*
92744469 AAAGTATTGAGTGTAATGGTAAAATATATTATATTTTAT
1 AAAGTATTGAGTGTAATAGTAAAATATATTATATTTTAT
92744508 AAAGT
1 AAAGT
92744513 GAATAAATTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.42
Consensus pattern (39 bp):
AAAGTATTGAGTGTAATAGTAAAATATATTATATTTTAT
Found at i:92751034 original size:47 final size:47
Alignment explanation
Indices: 92750965--92751177 Score: 354
Period size: 47 Copynumber: 4.5 Consensus size: 47
92750955 TTTCAGGTTT
92750965 TTTACCCGGATAAAGTATGTATTATCAGATTCACTAATAATGCATAC
1 TTTACCCGGATAAAGTATGTATTATCAGATTCACTAATAATGCATAC
*
92751012 TTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATAATGCATAC
1 TTTACCCGGATAAAGTATGTATTATCAGATTCACTAATAATGCATAC
* * *
92751059 TGTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATAATGCATAC
1 TTTACCCGGATAAAGTATGTATTATCAGATTCACTAATAATGCATAC
*
92751106 TTTACCCGGATAAAGTATGTATTATCATATTCACTAATAATGCATAC
1 TTTACCCGGATAAAGTATGTATTATCAGATTCACTAATAATGCATAC
* * *
92751153 TTTATCCGGGTAAAGTATGCATTAT
1 TTTACCCGGATAAAGTATGTATTAT
92751178 TTGGTAGGTG
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 156 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (47 bp):
TTTACCCGGATAAAGTATGTATTATCAGATTCACTAATAATGCATAC
Found at i:92756050 original size:35 final size:35
Alignment explanation
Indices: 92756011--92756323 Score: 103
Period size: 35 Copynumber: 8.6 Consensus size: 35
92756001 GCATTGGAAA
**
92756011 AGGTCTATCCCAACCTTTTTAGGGTTG-CTGTAAAC
1 AGGTCTATCCCAACCTTTTTAACGTTGTCT-TAAAC
** * *
92756046 AGGTCTATTTCAACATTTTTAACGTTGTCTTAGAC
1 AGGTCTATCCCAACCTTTTTAACGTTGTCTTAAAC
* * * * *
92756081 AGGTCAATCCCAACCTTTGCTAAAAGTCGCCTTAGATA-
1 AGGTCTATCCCAACCTTT--TTAACGTTGTCTTA-A-AC
* * * * * ** *
92756119 AGATATATACCAACGTTTTTAAGGTTACCTTAGA-
1 AGGTCTATCCCAACCTTTTTAACGTTGTCTTAAAC
* * *
92756153 AGAATCTATCACAACCTTTTTAATGTTG-CTTTAAAC
1 AG-GTCTATCCCAACCTTTTTAACGTTGTC-TTAAAC
* * * *
92756189 AAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGAC
1 AGGTCTATCCCAACC--TTTTTAACGTTGTCTTAAAC
* * * * * *
92756226 AATGTCTATTCTAACATTTTTAAAAGGTTGCCTTAAAC
1 -AGGTCTATCCCAACCTTTTT--AACGTTGTCTTAAAC
* * * * * *
92756264 ATGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGAC
1 AGGTCTATCCCAACCTTT--TTAACGTTGTCTTAAAC
* *
92756301 AAGATCTATCCCAACTTTTTTAA
1 -AGGTCTATCCCAACCTTTTTAA
92756324 AAAGTTTCTT
Statistics
Matches: 208, Mismatches: 53, Indels: 33
0.71 0.18 0.11
Matches are distributed among these distances:
34 4 0.02
35 74 0.36
36 21 0.10
37 54 0.26
38 53 0.25
39 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (35 bp):
AGGTCTATCCCAACCTTTTTAACGTTGTCTTAAAC
Found at i:92756246 original size:38 final size:38
Alignment explanation
Indices: 92756157--92756518 Score: 187
Period size: 38 Copynumber: 9.8 Consensus size: 38
92756147 CTTAGAAGAA
* * *
92756157 TCTATCACAACC-TTTTT-AATGTTGCTTTAAACAA-G
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* *
92756192 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAATG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* * * *
92756230 TCTATTCTAACATTTTTAAAAGGTTGCCTTAAAC-ATG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* ** *
92756267 CCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAA-G
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* * * * * *
92756304 ATCTATCCCAA-CTTTTTTAAAAAGTTTCTTTAGATAAGG
1 -TCTATCCCAACCTTTTTT-AAAGGTTGCCTTAAACAATG
* * ** * * * * *
92756343 TTTATACCAATTTTTTTTAAGGGTTACTTTAGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* **
92756381 CCTATCCCAACC-TTTTT-AAGGTTGCCTTAAATGA-G
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* * * ** *
92756416 TCAATCCCAACC--TTTTAAAGGTTGCCATAGACGGTA
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
* * * *
92756452 TCTATGCCAA-CTATTCTTAAAAGTTGCCTTAGACAA-G
1 TCTATCCCAACCT-TTTTTAAAGGTTGCCTTAAACAATG
* * *
92756489 AACTATACCAACC-TTTTTATA-GTTGCCTTA
1 -TCTATCCCAACCTTTTTTAAAGGTTGCCTTA
92756519 TACAGGTTTA
Statistics
Matches: 250, Mismatches: 62, Indels: 29
0.73 0.18 0.09
Matches are distributed among these distances:
34 4 0.02
35 36 0.14
36 33 0.13
37 60 0.24
38 109 0.44
39 8 0.03
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (38 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAATG
Found at i:92756273 original size:75 final size:75
Alignment explanation
Indices: 92756139--92756504 Score: 223
Period size: 75 Copynumber: 4.9 Consensus size: 75
92756129 CAACGTTTTT
* * * * * *
92756139 AAGGTTACCTTAG--AAGAATCTATCACAACCTTTTT--AATGTTGCTTTAAACAAGTCTATCCC
1 AAGGTTGCCTTAGACAAG-ATCTATCCCAACATTTTTAAAAGGTTGCCTTAAACAAGCCTATCCC
** *
92756200 AACCTTTTTTT
65 AACCTTTCCTA
* * *
92756211 AAGGTTGCCTTAGACAATG-TCTATTCTAACATTTTTAAAAGGTTGCCTTAAACATGCCTATCCC
1 AAGGTTGCCTTAGACAA-GATCTATCCCAACATTTTTAAAAGGTTGCCTTAAACAAGCCTATCCC
92756275 AACCTTTCCTA
65 AACCTTTCCTA
* * * * * * ** *
92756286 AAGGTTGCCTTAGACAAGATCTATCCCAACTTTTTTAAAAAGTTTCTTTAGATAAGGTTTATACC
1 AAGGTTGCCTTAGACAAGATCTATCCCAACATTTTTAAAAGGTTGCCTTAAACAA-GCCTATCCC
** **
92756351 AATTTTTTTTA
65 AACCTTTCCTA
* * * ** * ** * *
92756362 AGGGTTACTTTAGACAAGGCCTATCCCAACCTTTTT--AAGGTTGCCTTAAATGAGTCAATCCCA
1 AAGGTTGCCTTAGACAAGATCTATCCCAACATTTTTAAAAGGTTGCCTTAAACAAGCCTATCCCA
92756425 ACCTTT--TA
66 ACCTTTCCTA
* * * * * * *
92756433 AAGGTTGCCATAGAC-GGTATCTATGCCAACTATTCTTAAAA-GTTGCCTTAGACAAGAACTATA
1 AAGGTTGCCTTAGACAAG-ATCTATCCCAAC-ATTTTTAAAAGGTTGCCTTAAACAAG-CCTATC
92756496 CCAACCTTT
63 CCAACCTTT
92756505 TTATAGTTGC
Statistics
Matches: 222, Mismatches: 60, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
70 1 0.00
71 22 0.10
72 16 0.07
73 36 0.16
74 29 0.13
75 75 0.34
76 43 0.19
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (75 bp):
AAGGTTGCCTTAGACAAGATCTATCCCAACATTTTTAAAAGGTTGCCTTAAACAAGCCTATCCCA
ACCTTTCCTA
Found at i:92756506 original size:147 final size:148
Alignment explanation
Indices: 92756193--92756506 Score: 323
Period size: 147 Copynumber: 2.1 Consensus size: 148
92756183 TTAAACAAGT
* * * * * *
92756193 CTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAATGTCTATTCTAACATTTTTAAAAGGTTGCC
1 CTATACCAACC-TTTTTTAAGGTTACCTTAGACAAGGCCTATCCCAACATTTTT-AAAGGTTGCC
* * *
92756258 TTAAACATGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACTTTTTTA
64 TTAAACATGCCAATCCCAACCTTT-CTAAAGGTTGCCATAGACAAGATCTATCCCAACTTTCTTA
* * * **
92756323 AAAAGTTTCTTTAGATAAGGT
128 AAAAGTTGCCTTAGACAAGAA
* ** * *
92756344 TTATACCAATTTTTTTTAAGGGTTACTTTAGACAAGGCCTATCCCAACCTTTTT-AAGGTTGCCT
1 CTATACCAACCTTTTTTAA-GGTTACCTTAGACAAGGCCTATCCCAACATTTTTAAAGGTTGCCT
* * * *
92756408 TAAATGA-GTCAATCCCAACCTTT-TAAAGGTTGCCATAGAC-GGTATCTATGCCAACTATTCTT
65 TAAA-CATGCCAATCCCAACCTTTCTAAAGGTTGCCATAGACAAG-ATCTATCCCAACT-TTCTT
92756470 -AAAAGTTGCCTTAGACAAGAA
127 AAAAAGTTGCCTTAGACAAGAA
92756491 CTATACCAACCTTTTT
1 CTATACCAACCTTTTT
92756507 ATAGTTGCCT
Statistics
Matches: 133, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
146 1 0.01
147 57 0.43
148 4 0.03
149 28 0.21
150 9 0.07
151 34 0.26
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (148 bp):
CTATACCAACCTTTTTTAAGGTTACCTTAGACAAGGCCTATCCCAACATTTTTAAAGGTTGCCTT
AAACATGCCAATCCCAACCTTTCTAAAGGTTGCCATAGACAAGATCTATCCCAACTTTCTTAAAA
AGTTGCCTTAGACAAGAA
Found at i:92760115 original size:32 final size:32
Alignment explanation
Indices: 92760074--92760137 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
92760064 GGTATCTTGT
*
92760074 TCAGCCAACTACAGAAAATCATGGATAAAATG
1 TCAGCCAACTACAGAAAATCACGGATAAAATG
* *
92760106 TCAGCCAACTCCAGACAATCACGGATAAAATG
1 TCAGCCAACTACAGAAAATCACGGATAAAATG
92760138 ATCCAATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (32 bp):
TCAGCCAACTACAGAAAATCACGGATAAAATG
Found at i:92769109 original size:73 final size:73
Alignment explanation
Indices: 92768990--92769136 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
92768980 TAAATTTTAC
92768990 CTATTTCATGGTTTCCATGAATTAGCTAGCAATTTAGCATACATAACACCAAATATGATTATGAT
1 CTATTTCATGGTTTCCATGAATTAGCTAGCAATTTAGCATACATAACACCAAATATGATTATGAT
92769055 TAGCCATT
66 TAGCCATT
92769063 CTATTTCATGGTTTCCATGAATTAGCTAGCAATTTAGCATACATAACACCAAATATGATTATGAT
1 CTATTTCATGGTTTCCATGAATTAGCTAGCAATTTAGCATACATAACACCAAATATGATTATGAT
92769128 TAGCCATT
66 TAGCCATT
92769136 C
1 C
92769137 CAATGGCTAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (73 bp):
CTATTTCATGGTTTCCATGAATTAGCTAGCAATTTAGCATACATAACACCAAATATGATTATGAT
TAGCCATT
Found at i:92769808 original size:93 final size:93
Alignment explanation
Indices: 92769696--92769867 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
92769686 GCCCATAAGT
* * *
92769696 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCTA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
92769761 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
92769789 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
92769854 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
92769868 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:92769863 original size:46 final size:46
Alignment explanation
Indices: 92769688--92769863 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
92769678 TGTAACCCGC
* * *
92769688 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
92769734 CCATAAGTGAACTCGGACTCAACTCTACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
92769780 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
92769827 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
92769864 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:92772023 original size:25 final size:25
Alignment explanation
Indices: 92771994--92772060 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
92771984 GCCCTCAAGC
92771994 CGGTGTTATCTATCAGGCCTTGTGA
1 CGGTGTTATCTATCAGGCCTTGTGA
* * *
92772019 TGGTGTGT-T-TATCAGGCTTTGTGC
1 CGGTGT-TATCTATCAGGCCTTGTGA
*
92772043 CGGTGTTATCTATTAGGC
1 CGGTGTTATCTATCAGGC
92772061 GTTGAGTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 19 0.56
25 13 0.38
26 1 0.03
ACGTcount: A:0.13, C:0.16, G:0.30, T:0.40
Consensus pattern (25 bp):
CGGTGTTATCTATCAGGCCTTGTGA
Found at i:92778566 original size:15 final size:15
Alignment explanation
Indices: 92778546--92778576 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92778536 GTCATGTAAG
92778546 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
92778561 TGAAAGGTCTAGAGT
1 TGAAAGGTCAAGAGT
92778576 T
1 T
92778577 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:92778766 original size:17 final size:17
Alignment explanation
Indices: 92778733--92778771 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
92778723 TAAGCTTTTG
92778733 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
92778750 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
92778767 ATTTT
1 ATTTT
92778772 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:92779537 original size:15 final size:15
Alignment explanation
Indices: 92779513--92779542 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92779503 TGGAGATCGA
*
92779513 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
92779528 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
92779543 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:92782923 original size:15 final size:15
Alignment explanation
Indices: 92782903--92782933 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92782893 GTCATGTAAG
92782903 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
92782918 TGAAAGGTCTAGAGT
1 TGAAAGGTCAAGAGT
92782933 T
1 T
92782934 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:92783123 original size:17 final size:17
Alignment explanation
Indices: 92783090--92783128 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
92783080 TAAGCTTTTG
92783090 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
92783107 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
92783124 ATTTT
1 ATTTT
92783129 CCACAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:92784150 original size:40 final size:40
Alignment explanation
Indices: 92784068--92784152 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
92784058 AAAAATTATA
* * * *
92784068 TTTAATACAATAAAATATTTATTATATTTATTTAAGTTTT
1 TTTAATAAAATAAAACATTTATTATATTTATGTAAGTATT
92784108 TTTAATAAAATAAAACATTTATTATATTTATGGT-AGTATT
1 TTTAATAAAATAAAACATTTATTATATTTAT-GTAAGTATT
92784148 TTTAA
1 TTTAA
92784153 GTATTAATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATATTTATGTAAGTATT
Found at i:92785021 original size:17 final size:18
Alignment explanation
Indices: 92784999--92785032 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92784989 GAGATTGATT
92784999 AGAAAT-TACAAATTAAG
1 AGAAATATACAAATTAAG
*
92785016 AGAAATATCCAAATTAA
1 AGAAATATACAAATTAA
92785033 AAAACACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (18 bp):
AGAAATATACAAATTAAG
Found at i:92786292 original size:278 final size:282
Alignment explanation
Indices: 92785657--92786347 Score: 1081
Period size: 278 Copynumber: 2.4 Consensus size: 282
92785647 TAAAAATATA
*
92785657 ATAAAAGGTCTCAGACATCCAAGGAAGG-ATAAAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGG
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAAT-GAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGG
*
92785721 CGAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTGTCATCATAAA
65 CGAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAA
92785786 CCCATAAAAATGAAATATATTATCCTTTGACACAATTTTAAGAATATCGTTTATCAATTGAACTG
130 CCCATAAAAATGAAATATATTATCCTTTGACACAATTTTAAGAATATCGTTTATCAATTGAACTG
* *** * *
92785851 ATAAAAAAAAGGAAAAAATATACAACCAGATTTCTGTGGAAGTAATTGGATTTTCAAGCACAAAT
195 AT----AAAA-GAAAAAATATACAACCAAATTTCTGAAAAAGTAACTGAATTTTCAAGCACAAAT
*
92785916 AATGAAAACCAACAATTATATACAAGTC
255 AATGAAAACCAACAATCATATACAAGTC
*
92785944 ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAAGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
***
92786009 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTTGGA-TTATCATCATAAAC
66 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
* *
92786073 CCATACACAA-GAAATATATTTTCCTTTGACTA-AATTTTAAGAATATCGTTTATCAATTGAACT
131 CCATA-AAAATGAAATATATTATCCTTTGAC-ACAATTTTAAGAATATCGTTTATCAATTGAACT
**
92786136 GAT-AAA-AAAAAATATGGAACCAAATTTCTGAAAAAGTAACTGAATTTTCAAGCACAAATAATG
194 GATAAAAGAAAAAATATACAACCAAATTTCTGAAAAAGTAACTGAATTTTCAAGCACAAATAATG
*
92786199 AAAA-CAACAATCATATAGAAGTC
259 AAAACCAACAATCATATACAAGTC
*
92786222 ATAAAAGATCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
*
92786287 GAAAGCTCTTAGACGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCAT
66 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCAT
92786348 CGACTTTTAT
Statistics
Matches: 376, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
278 126 0.34
279 63 0.17
281 3 0.01
286 71 0.19
287 111 0.30
288 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (282 bp):
ATAAAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
CCATAAAAATGAAATATATTATCCTTTGACACAATTTTAAGAATATCGTTTATCAATTGAACTGA
TAAAAGAAAAAATATACAACCAAATTTCTGAAAAAGTAACTGAATTTTCAAGCACAAATAATGAA
AACCAACAATCATATACAAGTC
Found at i:92788963 original size:21 final size:21
Alignment explanation
Indices: 92788937--92788976 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
92788927 AAGTTGAAAA
*
92788937 TAGTTACAACAACTAACTAGT
1 TAGTTACAAAAACTAACTAGT
92788958 TAGTTACAAAAACTAACTA
1 TAGTTACAAAAACTAACTA
92788977 CCATTAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (21 bp):
TAGTTACAAAAACTAACTAGT
Found at i:92791949 original size:72 final size:72
Alignment explanation
Indices: 92791857--92792002 Score: 247
Period size: 72 Copynumber: 2.0 Consensus size: 72
92791847 AAGCTTAAAT
* * * *
92791857 AGTCAATGTGATATCGGAAATCTCGGCTAAGAAAAGACAAGACAAAGTCAACGGGAGTTAGCTCG
1 AGTCAATGTAATACCAGAAATCTCGGCTAAGAAAAGACAAGACAAAATCAACGGGAGTTAGCTCG
92791922 GAAATTA
66 GAAATTA
*
92791929 AGTCAATGTAATACCAGAAATCTCGGCTAAGAAAGGACAAGACAAAATCAACGGGAGTTAGCTCG
1 AGTCAATGTAATACCAGAAATCTCGGCTAAGAAAAGACAAGACAAAATCAACGGGAGTTAGCTCG
92791994 GAAATTA
66 GAAATTA
92792001 AG
1 AG
92792003 ATTTGTATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (72 bp):
AGTCAATGTAATACCAGAAATCTCGGCTAAGAAAAGACAAGACAAAATCAACGGGAGTTAGCTCG
GAAATTA
Found at i:92792719 original size:45 final size:45
Alignment explanation
Indices: 92792603--92792719 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
92792593 CGACTACTGC
* **
92792603 TACTGTTACTGTTACTTTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTTAGCACTTTGTGTGTCGAA
* * *
92792648 TACTGTTACTGTTACCGTTATCGATTTAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTTAGCACTTTGTGTGTCGAA
92792693 TACTGTTACTGTTACTGTT-CCGGATTT
1 TACTGTTACTGTTACTGTTACC-GATTT
92792720 GTTCCGATGA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 62 0.98
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTTAGCACTTTGTGTGTCGAA
Found at i:92792850 original size:18 final size:18
Alignment explanation
Indices: 92792829--92793019 Score: 149
Period size: 18 Copynumber: 10.6 Consensus size: 18
92792819 TAACTGATTA
92792829 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * *
92792847 TTACCGGATAATTGACTA
1 TTACTGAATAATTGACTG
92792865 TTACTGAAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
92792883 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
92792901 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
92792919 TTATTGAATAACTGATTG
1 TTACTGAATAATTGACTG
**
92792937 TCGCTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
92792955 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
92792974 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
92792991 TTACTTAATAATTGACTG
1 TTACTGAATAATTGACTG
*
92793009 TTACTGGATAA
1 TTACTGAATAA
92793020 CCGATCAATT
Statistics
Matches: 136, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
17 19 0.14
18 99 0.73
19 18 0.13
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:92792908 original size:10 final size:10
Alignment explanation
Indices: 92792863--92792910 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
92792853 GATAATTGAC
92792863 TATTACTGAA
1 TATTACTGAA
*
92792873 TATTA--GAC
1 TATTACTGAA
*
92792881 TGTTACTGAA
1 TATTACTGAA
92792891 TA--ACTGAA
1 TATTACTGAA
92792899 TATTACTGAA
1 TATTACTGAA
92792909 TA
1 TA
92792911 ATTGATCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
8 14 0.47
10 16 0.53
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (10 bp):
TATTACTGAA
Found at i:92793020 original size:54 final size:54
Alignment explanation
Indices: 92792817--92793099 Score: 196
Period size: 54 Copynumber: 5.1 Consensus size: 54
92792807 AAAAGTATAA
* * *
92792817 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTATTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTATTACTG
* * * * * * * *
92792871 AAT-ATTAGACTGTTACTGAATAACTGAATATTACTGAATAATTGATCATTATTG
1 AATAACT-GATTATTACTGAATAATTGACTGTTACTGAATAATTGATTATTACTG
* ** * *
92792925 AATAACTGATTGTCGCTGAATGAA-TGACTGTTACTGAATAACTTAATTGTTACTG
1 AATAACTGATTATTACTGAAT-AATTGACTGTTACTGAATAA-TTGATTATTACTG
* * *
92792980 AATATCTGATT-TTACTTAATAATTGACTGTTACTGGATAACCGATCAATTGATCGA-TACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACT-G---A---AT-AATTGAT-TATTACTG
* * * * * * *
92793041 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTATTACTG
92793095 AATAA
1 AATAA
92793100 ATAATTGTTC
Statistics
Matches: 175, Mismatches: 38, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
53 4 0.02
54 101 0.58
55 26 0.15
58 2 0.01
61 21 0.12
62 21 0.12
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (54 bp):
AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTATTACTG
Found at i:92793108 original size:18 final size:18
Alignment explanation
Indices: 92792817--92793112 Score: 112
Period size: 18 Copynumber: 16.1 Consensus size: 18
92792807 AAAAGTATAA
* *
92792817 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* * *
92792835 AATAATTGACTGTTACCG
1 AATAAATGATTGTTACTG
* * * *
92792853 GATAATTGACTATTACTG
1 AATAAATGATTGTTACTG
* *
92792871 AAT-ATTAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
92792889 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
* ** *
92792907 AATAATTGATCATTATTG
1 AATAAATGATTGTTACTG
* **
92792925 AATAACTGATTGTCGCTG
1 AATAAATGATTGTTACTG
* *
92792943 AATGAATGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
92792961 AATAACTTAATTGTTACTG
1 AATAA-ATGATTGTTACTG
** *
92792980 AATATCTGATT-TTACTT
1 AATAAATGATTGTTACTG
* *
92792997 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
92793015 GATAACCGATCAATTGATCGATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
92793041 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
92793059 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
92793077 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
92793095 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
92793112 A
1 A
92793113 GTGTTAATGA
Statistics
Matches: 206, Mismatches: 60, Indels: 25
0.71 0.21 0.09
Matches are distributed among these distances:
17 20 0.10
18 152 0.74
19 16 0.08
21 2 0.01
22 5 0.02
23 2 0.01
26 9 0.04
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:92795184 original size:11 final size:10
Alignment explanation
Indices: 92795155--92795188 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
92795145 GAAATATTTA
92795155 TTTT-AATAT
1 TTTTAAATAT
92795164 TTTTAAATAT
1 TTTTAAATAT
92795174 TTTTAATATAT
1 TTTTAA-ATAT
92795185 TTTT
1 TTTT
92795189 TAGTTAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 11 0.48
11 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:92797387 original size:5 final size:6
Alignment explanation
Indices: 92797376--92797400 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
92797366 TCAGTTCAAC
92797376 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
92797401 CAAGACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:92799972 original size:23 final size:21
Alignment explanation
Indices: 92799925--92799974 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
92799915 AATAAATTAA
92799925 TTTTTAATTTCTTCTTCTTCT
1 TTTTTAATTTCTTCTTCTTCT
92799946 TTTTTAAACTTTCTT-TTCTTTTCT
1 TTTTT-AA-TTTCTTCTTC--TTCT
92799970 TTTTT
1 TTTTT
92799975 TGGTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.20
22 5 0.20
23 6 0.24
24 9 0.36
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTAATTTCTTCTTCTTCT
Found at i:92800598 original size:29 final size:30
Alignment explanation
Indices: 92800561--92800639 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
92800551 TGTAAAAGTT
* * *
92800561 TCAAATTTAGTCCTTATACTTTT-ATTTGA
1 TCAATTTTAGTCCATATACTTTTAAATTGA
* *
92800590 TCAATTTTAGTCCATGTACTTTTCAAATTGC
1 TCAATTTTAGTCCATATACTTTT-AAATTGA
* *
92800621 TCACTTTTAGTCCCTATAC
1 TCAATTTTAGTCCATATAC
92800640 ATTTGTAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 20 0.50
31 20 0.50
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (30 bp):
TCAATTTTAGTCCATATACTTTTAAATTGA
Found at i:92803788 original size:30 final size:30
Alignment explanation
Indices: 92803754--92803813 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
92803744 ACTTAACAAG
92803754 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
92803784 CAAATGCCTCTAAAATTATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
92803814 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:92805880 original size:2 final size:2
Alignment explanation
Indices: 92805873--92805898 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92805863 TGTATTGTCA
92805873 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
92805899 TTTAAATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92813338 original size:34 final size:35
Alignment explanation
Indices: 92813295--92813368 Score: 141
Period size: 34 Copynumber: 2.1 Consensus size: 35
92813285 TTAAATATAT
92813295 ATAATACATTAAAAATATTGTAGAAACTAACATTG
1 ATAATACATTAAAAATATTGTAGAAACTAACATTG
92813330 ATAA-ACATTAAAAATATTGTAGAAACTAACATTG
1 ATAATACATTAAAAATATTGTAGAAACTAACATTG
92813364 ATAAT
1 ATAAT
92813369 GGCAATATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (35 bp):
ATAATACATTAAAAATATTGTAGAAACTAACATTG
Found at i:92816810 original size:25 final size:24
Alignment explanation
Indices: 92816773--92816819 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
92816763 TATAACAAAT
92816773 TAATAAACAATTTCCACATTTCATA
1 TAATAAACAATTTCCA-ATTTCATA
* * *
92816798 TAATAACCCATTTTCAATTTCA
1 TAATAAACAATTTCCAATTTCA
92816820 ATTGCCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAAACAATTTCCAATTTCATA
Found at i:92817961 original size:41 final size:43
Alignment explanation
Indices: 92817864--92817989 Score: 132
Period size: 41 Copynumber: 3.0 Consensus size: 43
92817854 ATATCGTACA
* * * *
92817864 ATGCCAAAGTCCCAAAC-GTGGTCTTACATGCAATCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGCAATCAAATATCG
*
92817907 ATGCCATTGTCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGCAATCAAATATCG
* * * * *
92817948 ATGCCAATGTCCCAGACATGGTTTTACATGTAATCACATATC
1 ATGCCAATGTCCCAGACAGGGTCTTACACGCAATCAAATATC
92817990 AGAAATCCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 28 0.40
42 16 0.23
43 25 0.36
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGCAATCAAATATCG
Found at i:92818894 original size:22 final size:22
Alignment explanation
Indices: 92818866--92818912 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
92818856 TTGATGTAAG
92818866 TAAAAGCCTGAGTTCAAATAGA
1 TAAAAGCCTGAGTTCAAATAGA
92818888 TAAAAGCCTGAGTTCAAATAGA
1 TAAAAGCCTGAGTTCAAATAGA
92818910 TAA
1 TAA
92818913 GGAACTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (22 bp):
TAAAAGCCTGAGTTCAAATAGA
Found at i:92821552 original size:33 final size:33
Alignment explanation
Indices: 92821461--92821533 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
92821451 CAACAATTTG
92821461 GTCACAAAAGATTAAATATATGTGACATTTTTT
1 GTCACAAAAGATTAAATATATGTGACATTTTTT
92821494 GTCACAAAAGATTAAATATATGTGACATTTTTT
1 GTCACAAAAGATTAAATATATGTGACATTTTTT
92821527 GTCACAA
1 GTCACAA
92821534 TTGCTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (33 bp):
GTCACAAAAGATTAAATATATGTGACATTTTTT
Found at i:92822480 original size:11 final size:11
Alignment explanation
Indices: 92822461--92822519 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
92822451 AATGAAACCC
*
92822461 TAATATAATAT
1 TAATCTAATAT
*
92822472 TAATCTAATAC
1 TAATCTAATAT
*
92822483 TAATCTCTAATGT
1 TAA--TCTAATAT
92822496 TAATCTAATAT
1 TAATCTAATAT
* *
92822507 TTATCTGATAT
1 TAATCTAATAT
92822518 TA
1 TA
92822520 GTGTCGACAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 29 0.76
13 9 0.24
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (11 bp):
TAATCTAATAT
Found at i:92825626 original size:6 final size:6
Alignment explanation
Indices: 92825589--92825677 Score: 54
Period size: 6 Copynumber: 14.2 Consensus size: 6
92825579 GAGGAAGGGA
* * * * * *
92825589 AAAG-G AAAAAG ATAGAG AAAGGG ATAGGG AAAGAG AAAGGAG AGATAGGG
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAA-GAG A-A-AGAG
* *
92825639 ATAAGGAG AAAGAG AAAGAG AAAGAG AGAGAG AAGGAG A
1 A-AA-GAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG A
92825678 GGAGAGAGAG
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
5 3 0.05
6 46 0.71
7 7 0.11
8 8 0.12
9 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.04
Consensus pattern (6 bp):
AAAGAG
Found at i:92825638 original size:27 final size:29
Alignment explanation
Indices: 92825602--92825739 Score: 95
Period size: 27 Copynumber: 5.2 Consensus size: 29
92825592 GGAAAAAGAT
92825602 AGAGAAAGGGAT-AGG-GAAAGAGAAAGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
*
92825629 AGAGATAGGGATAAGGAGAAAGAG-AA--
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
* * *
92825655 AGAGAAAGAGA-GA-GAG-AAG-GAGAGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
* * *
92825680 AGAGAGAGGGAAAAGGAG--AGAGAGAGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
* *
92825707 AGAGAAAAGGAGAAGGAG-AAG-GAAAGGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAA-GG
92825735 AGAGA
1 AGAGA
92825740 GAGAGGAGAG
Statistics
Matches: 89, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
22 1 0.01
23 4 0.04
24 3 0.03
25 10 0.11
26 12 0.13
27 38 0.43
28 14 0.16
29 7 0.08
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (29 bp):
AGAGAAAGGGATAAGGAGAAAGAGAAAGG
Found at i:92825645 original size:51 final size:51
Alignment explanation
Indices: 92825584--92825742 Score: 153
Period size: 51 Copynumber: 3.0 Consensus size: 51
92825574 CAGTAGAGGA
* * * * *
92825584 AGGGAAAAGGA-AAA-AGATAGAGAAAGGGATAGGGAAAGAGAAAGGAGAGAT
1 AGGGAAAAGGAGAAAGAGAAAGAGAAAGAGAGAGAG-AAG-GAAAGGAGAGAG
* *
92825635 AGGGATAAGGAGAAAGAGAAAGAGAAAGAGAGAGAGAAGGAGAGGAGAGAG
1 AGGGAAAAGGAGAAAGAGAAAGAGAAAGAGAGAGAGAAGGAAAGGAGAGAG
* *
92825686 AGGGAAAAGGAGAGAGAGAGGAGAGAAA-AGGAGAAGGAGAAGGAAAGGGAGAGAG
1 AGGGAAAAGGAGAAAGAGA-AAGAGAAAGA-GAG-A-GAGAAGGAAA-GGAGAGAG
92825741 AG
1 AG
92825743 AGGAGAGAGA
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
51 38 0.42
52 16 0.18
53 17 0.19
54 9 0.10
55 10 0.11
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.03
Consensus pattern (51 bp):
AGGGAAAAGGAGAAAGAGAAAGAGAAAGAGAGAGAGAAGGAAAGGAGAGAG
Found at i:92825668 original size:2 final size:2
Alignment explanation
Indices: 92825644--92825754 Score: 59
Period size: 2 Copynumber: 62.0 Consensus size: 2
92825634 TAGGGATAAG
* * *
92825644 GA GA AA GA GA AA GA GA AA GA GA GA GA GA -A G- GA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
92825683 GA GA GG GA -A AA G- GA GA GA GA GA G- GA GA GA -A AA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
92825720 -A G- GA GA -A G- GA AA GG GA GA GA GA GA G- GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
92825755 AGCAGCAGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 26
0.67 0.11 0.21
Matches are distributed among these distances:
1 13 0.16
2 69 0.84
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:92825681 original size:35 final size:35
Alignment explanation
Indices: 92825617--92825755 Score: 101
Period size: 35 Copynumber: 3.9 Consensus size: 35
92825607 AAGGGATAGG
* * *
92825617 GAAAGAGAAAG-GAGAGATAGGGATAAGGAGAAAGA
1 GAAAGAGAAAGAGAGAGAGAAGGA-GAGGAGAAAGA
*
92825652 GAAAGAGAAAGAGAGAGAGAAGGAGAGGAGAGAGAGG
1 GAAAGAGAAAGAGAGAGAGAAGGAGAGGAGA-A-AGA
* *
92825689 GAAAAGGAGAGAGAGAGGAGAGAA--A-AGGAGAAGGA
1 G-AAA-GAGAAAGAGA-GAGAGAAGGAGAGGAGAAAGA
*
92825724 G-AAG-GAAAGGGAGAGAGAGAGGAGAGAGAGAA
1 GAAAGAGAAAGAGAGAGAGA-AGGAGAG-GAGAA
92825756 GCAGCAGTAG
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
30 6 0.07
31 7 0.08
32 1 0.01
33 3 0.04
34 2 0.02
35 24 0.29
36 12 0.14
37 9 0.11
38 4 0.05
39 9 0.11
40 7 0.08
ACGTcount: A:0.53, C:0.00, G:0.46, T:0.01
Consensus pattern (35 bp):
GAAAGAGAAAGAGAGAGAGAAGGAGAGGAGAAAGA
Found at i:92825702 original size:78 final size:76
Alignment explanation
Indices: 92825602--92825744 Score: 178
Period size: 78 Copynumber: 1.9 Consensus size: 76
92825592 GGAAAAAGAT
* * * * *
92825602 AGAGAAAGGGATAGGGAAAGAGAAAGGAGAGATAGGGATAAGGAGAAAGAGAAAGAGAAAGAGAG
1 AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAAGGAGAAGGAG-AAG-GAAAGAGAAAGAGAG
92825667 AGAGAAGGAGAGG
64 AGAGAAGGAGAGG
* * * * *
92825680 AGAGAGAGGGAAAAGGAGAGAGAGAGGAGAGAAAAGGAGAAGGAGAAGGAAAGGGAGAGAGAGAG
1 AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAAGGAGAAGGAGAAGGAAAGAGAAAGAGAGAG
92825745 GAGAGAGAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 15 0.27
77 3 0.05
78 37 0.67
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (76 bp):
AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAAGGAGAAGGAGAAGGAAAGAGAAAGAGAGAG
AGAAGGAGAGG
Found at i:92825718 original size:37 final size:39
Alignment explanation
Indices: 92825655--92825750 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 39
92825645 AGAAAGAGAA
* * *
92825655 AGAGAAAGA-GAGAGAGAAGGAGAGGAGAGAGAGGGAAAAGG
1 AGAGAGAGAGGAGAGAAAAGGAGA--AG-GAGAAGGAAAAGG
*
92825696 AGAGAGAGAGGAGAGAAAAGGAGAAGGAGAAGGAAAGGG
1 AGAGAGAGAGGAGAGAAAAGGAGAAGGAGAAGGAAAAGG
92825735 AGAGAGAGAGGAGAGA
1 AGAGAGAGAGGAGAGA
92825751 GAGAAGCAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 27 0.54
40 2 0.04
41 8 0.16
42 13 0.26
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (39 bp):
AGAGAGAGAGGAGAGAAAAGGAGAAGGAGAAGGAAAAGG
Done.