Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 225 of 230
Found at i:66622364 original size:6 final size:6
Alignment explanation
Indices: 66622353--66622378 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66622343 AACTAGATTA
66622353 TTGGAT TTGGAT TTGGAT TTGGAT TT
1 TTGGAT TTGGAT TTGGAT TTGGAT TT
66622379 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (6 bp):
TTGGAT
Found at i:66629483 original size:6 final size:6
Alignment explanation
Indices: 66629472--66629499 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
66629462 AAACTAGATT
66629472 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
66629500 TAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (6 bp):
ATTTGG
Found at i:66635725 original size:15 final size:15
Alignment explanation
Indices: 66635705--66635735 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66635695 AAAACAACAT
66635705 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
66635720 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
66635735 A
1 A
66635736 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:66640035 original size:15 final size:15
Alignment explanation
Indices: 66640015--66640045 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66640005 ACAACAACAT
66640015 AACTCTTGAACTTTC
1 AACTCTTGAACTTTC
*
66640030 AACTCTTGACCTTTC
1 AACTCTTGAACTTTC
66640045 A
1 A
66640046 CTTACATAAC
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:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGAACTTTC
Found at i:66648930 original size:29 final size:30
Alignment explanation
Indices: 66648883--66648939 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
66648873 TTGATTTAAT
* *
66648883 GTGCAATTGTATACATG-AACTTTAATTTG
1 GTGCAATTGTACACATGAAACTCTAATTTG
*
66648912 GTGCAATTGTACACGTGAAACTCTAATT
1 GTGCAATTGTACACATGAAACTCTAATT
66648940 GTTGTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (30 bp):
GTGCAATTGTACACATGAAACTCTAATTTG
Found at i:66649147 original size:30 final size:29
Alignment explanation
Indices: 66649113--66649192 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
66649103 GAATCGAATC
* *
66649113 AAATCAAAATTTCATTTATAAAATTGCACA
1 AAATC-AAAGTTCATGTATAAAATTGCACA
*
66649143 AAATCAAAGTTCATGTATACAATTGCACA
1 AAATCAAAGTTCATGTATAAAATTGCACA
* *
66649172 TTAAACCATAGTTCATGTATA
1 --AAATCAAAGTTCATGTATA
66649193 GTTTTGAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTGCACA
Found at i:66650074 original size:13 final size:13
Alignment explanation
Indices: 66650056--66650080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66650046 ATTTACAAGA
66650056 TTACATAATCAAT
1 TTACATAATCAAT
66650069 TTACATAATCAA
1 TTACATAATCAA
66650081 ATCTAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:66650546 original size:16 final size:16
Alignment explanation
Indices: 66650525--66650558 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66650515 ATTATGATAA
* *
66650525 TATTTTTTATTTTTTT
1 TATTTTATATCTTTTT
66650541 TATTTTATATCTTTTT
1 TATTTTATATCTTTTT
66650557 TA
1 TA
66650559 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TATTTTATATCTTTTT
Found at i:66655246 original size:3 final size:3
Alignment explanation
Indices: 66655238--66655268 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
66655228 TAAAGGATTG
66655238 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
66655269 TTTAATAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:66658698 original size:20 final size:20
Alignment explanation
Indices: 66658673--66658712 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
66658663 TCTTTCAATT
* *
66658673 TTAAAATGAAATTTTTAAAA
1 TTAAAAAGAAATATTTAAAA
*
66658693 TTAAAAAGATATATTTAAAA
1 TTAAAAAGAAATATTTAAAA
66658713 GATCATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAAAAGAAATATTTAAAA
Found at i:66668630 original size:21 final size:23
Alignment explanation
Indices: 66668600--66668641 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
66668590 ATTTAAAAAA
66668600 TTTTATAAAATACATA-AATATT
1 TTTTATAAAATACATATAATATT
*
66668622 TTTTA-AAAATATATATAATA
1 TTTTATAAAATACATATAATA
66668642 ATAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTATAAAATACATATAATATT
Found at i:66668659 original size:25 final size:24
Alignment explanation
Indices: 66668631--66668702 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
66668621 TTTTTAAAAA
*
66668631 TATATATAATAATAAATTAAAAT-TT
1 TATAT-TAATAATAAA-TAAAATAAT
*
66668656 TATATTAATACTAAATAAATATAAT
1 TATATTAATAATAAATAAA-ATAAT
66668681 TATATTAAT-ATAAATAAAATAA
1 TATATTAATAATAAATAAAATAA
66668703 AAATCCTCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.19
24 19 0.45
25 15 0.36
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATTAATAATAAATAAAATAAT
Found at i:66672365 original size:251 final size:247
Alignment explanation
Indices: 66672048--66672553 Score: 625
Period size: 251 Copynumber: 2.0 Consensus size: 247
66672038 AAAAAAAGAG
* * *
66672048 AAAAACGTAATTAAAGAAGAAAAAAAAGGAAGTAATAAAATGAAAATGAAAAATCTTACTTAAAC
1 AAAAACATAATTAAAG-AGAAAAAAAAGCAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAAC
*
66672113 TCGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAATATAAACCTTAAACAAATGCATT
65 TCGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAAT--A--
* * *
66672178 TGATAGCTTCCAAGCATAAAT-TGCT-G-A-ATACCAAGCTAAGTACTAAATTACTTAAGTAACT
126 T-AT---TT--AAACA-AAATCTGCTGGTAGATACCAAGCTAAGTACTAAACTACTCAAGTAACT
* * *
66672239 CATATTTTAGGGGA-AAAA-TAATTCAGCAATTAGATTTCAAAATCAAAGAAATCTATCAAACA
184 AACATTTTAGGGGACAAAAGTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
* *
66672301 CAAAAACATAATTAAAG-GGAAAAAAA-CAAGTAATAAATTGAAAAAGAAAAATCTTA-TATAAA
1 -AAAAACATAATTAAAGAGAAAAAAAAGCAAGTAATAAAATGAAAAAGAAAAATCTTACT-TAAA
* * * * *
66672363 CTCGGATATATGTTAGCCATATTTTCTTAGCAACCAAACAGACGATAAACCTTAACCAAATATAT
64 CTCGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATATAT
* * **
66672428 TTAAACAAAATCTGGTGGTAGTTGTCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAG
129 TTAAACAAAATCTGCTGGTAGATACCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAG
66672493 GGGACAAAAGTTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
194 GGGACAAAAG-TAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
66672548 AAAAAC
1 AAAAAC
66672554 CAAGACGTAA
Statistics
Matches: 223, Mismatches: 21, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
240 4 0.02
241 7 0.03
242 1 0.00
243 3 0.01
244 41 0.18
245 4 0.02
246 8 0.04
247 44 0.20
249 1 0.00
250 1 0.00
251 86 0.39
252 8 0.04
254 15 0.07
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (247 bp):
AAAAACATAATTAAAGAGAAAAAAAAGCAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAACT
CGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATATATTT
AAACAAAATCTGCTGGTAGATACCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGG
GACAAAAGTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
Found at i:66678611 original size:91 final size:91
Alignment explanation
Indices: 66678334--66678592 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
66678324 TTAAATGTAT
66678334 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
66678399 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
66678425 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
66678490 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
66678516 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
66678581 GAAAATTTATTA
66 GAAAATTTATTA
66678593 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:66678956 original size:39 final size:42
Alignment explanation
Indices: 66678911--66679011 Score: 100
Period size: 44 Copynumber: 2.4 Consensus size: 42
66678901 TTCCATTATG
66678911 CTATTACACCTCTATTC-T-ATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCATAATTCAACCAAACACAAGATTTA
* * *** *
66678950 CTATTACGCCTATATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-CA-TA-ATTCAACCAAACACAAGATTTA
66678995 CTATTACACCTCTATTC
1 CTATTACACCTCTATTC
66679012 CATTACACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
39 14 0.29
40 1 0.02
42 1 0.02
44 16 0.33
45 16 0.33
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (42 bp):
CTATTACACCTCTATTCATAATTCAACCAAACACAAGATTTA
Found at i:66679012 original size:45 final size:44
Alignment explanation
Indices: 66678909--66679018 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
66678899 TTTTCCATTA
66678909 TGCTATTACACCTCTATT-C--T--ATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
66678948 TACTATTACGCCTATATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
66678993 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
66679019 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
42 1 0.02
44 15 0.27
45 24 0.43
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:66679018 original size:16 final size:16
Alignment explanation
Indices: 66678999--66679050 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
66678989 GATTTGCTAT
* *
66678999 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
66679015 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
66679031 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
66679047 TACA
1 TACA
66679051 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:66683907 original size:19 final size:19
Alignment explanation
Indices: 66683876--66683921 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
66683866 GGTCTGGTTA
*
66683876 AAAAATT-ATTAAAATTTC
1 AAAAATTAATAAAAATTTC
66683894 AAAAATATAATAAAAATTTC
1 AAAAAT-TAATAAAAATTTC
66683914 AATAAATT
1 AA-AAATT
66683922 CTGGTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 1 0.04
20 13 0.54
21 4 0.17
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTAATAAAAATTTC
Found at i:66685046 original size:7 final size:7
Alignment explanation
Indices: 66685034--66685063 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
66685024 AAGTACTTGA
66685034 TCCAGAT
1 TCCAGAT
66685041 TCCAGAT
1 TCCAGAT
66685048 TCCAGAT
1 TCCAGAT
66685055 TCCAGAT
1 TCCAGAT
66685062 TC
1 TC
66685064 ATCAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (7 bp):
TCCAGAT
Found at i:66685909 original size:31 final size:29
Alignment explanation
Indices: 66685874--66685961 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 29
66685864 GTGACCACTT
*
66685874 CGTAACAAAATGATAACATAAGTGACTAAAA
1 CGTAAC-AAATCA-AACATAAGTGACTAAAA
**
66685905 CGTAACATTTCAAACATAAGTGACTAAAA
1 CGTAACAAATCAAACATAAGTGACTAAAA
* *
66685934 TGTAATCTAAATCAAACAAAAGTGACTA
1 CGTAA-C-AAATCAAACATAAGTGACTA
66685962 TTTTTATAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 21 0.44
30 4 0.08
31 23 0.48
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (29 bp):
CGTAACAAATCAAACATAAGTGACTAAAA
Found at i:66685929 original size:29 final size:31
Alignment explanation
Indices: 66685888--66685961 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 31
66685878 ACAAAATGAT
**
66685888 AACATAAGTGACTAAAACGTAA-C-ATTTCA
1 AACATAAGTGACTAAAACGTAATCTAAATCA
*
66685917 AACATAAGTGACTAAAATGTAATCTAAATCA
1 AACATAAGTGACTAAAACGTAATCTAAATCA
*
66685948 AACAAAAGTGACTA
1 AACATAAGTGACTA
66685962 TTTTTATAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 21 0.54
30 1 0.03
31 17 0.44
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (31 bp):
AACATAAGTGACTAAAACGTAATCTAAATCA
Found at i:66691839 original size:29 final size:33
Alignment explanation
Indices: 66691792--66691869 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 33
66691782 TCAGCCCAAC
66691792 TATATTATATTATAA-AATTATTATAT-TA-A-T
1 TATATTATATTA-AATAATTATTATATATATATT
66691822 TATA-TATATTAAATAATTATTATATATATATT
1 TATATTATATTAAATAATTATTATATATATATT
66691854 TATACTTATATTAAAT
1 TATA-TTATATTAAAT
66691870 CACTAACCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
28 2 0.05
29 18 0.43
30 6 0.14
31 1 0.02
32 5 0.12
34 10 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
TATATTATATTAAATAATTATTATATATATATT
Found at i:66699919 original size:11 final size:11
Alignment explanation
Indices: 66699900--66699930 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
66699890 TAATTAGTTT
66699900 AATATAATAAC
1 AATATAATAAC
*
66699911 AATAAAATAAC
1 AATATAATAAC
66699922 AATATAATA
1 AATATAATA
66699931 TTACTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (11 bp):
AATATAATAAC
Found at i:66700069 original size:14 final size:13
Alignment explanation
Indices: 66700043--66700093 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
66700033 ATTTATTTGA
66700043 AATATAATAATAT
1 AATATAATAATAT
66700056 AATATAATTAATAT
1 AATATAA-TAATAT
* *
66700070 AAT-TTACAATAT
1 AATATAATAATAT
*
66700082 AATAAAATAATA
1 AATATAATAATA
66700094 ATATACTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:66718859 original size:39 final size:39
Alignment explanation
Indices: 66718814--66718895 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
66718804 CTTTTTCATG
66718814 TTTCTATTACATGATGAAAAATCTCAAAATTTTCTAATC
1 TTTCTATTACATGATGAAAAATCTCAAAATTTTCTAATC
*
66718853 TTTCTATTACATGATGAAAAATCTCAAAATTTTCTGATC
1 TTTCTATTACATGATGAAAAATCTCAAAATTTTCTAATC
66718892 TTTC
1 TTTC
66718896 ATGTGTTGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (39 bp):
TTTCTATTACATGATGAAAAATCTCAAAATTTTCTAATC
Found at i:66719280 original size:31 final size:32
Alignment explanation
Indices: 66719231--66719298 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
66719221 CGCGTGAACA
* * *
66719231 ATAGTAAAAGGATCAAAGTGAGAA-TTTCATT
1 ATAGTAAAAGGATAAAAGTGAAAATTTTCACT
* *
66719262 ATAGTACAAGGGTAAAAGTGAAAATTTTCACT
1 ATAGTAAAAGGATAAAAGTGAAAATTTTCACT
66719294 ATAGT
1 ATAGT
66719299 GTATATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (32 bp):
ATAGTAAAAGGATAAAAGTGAAAATTTTCACT
Found at i:66722402 original size:26 final size:26
Alignment explanation
Indices: 66722348--66722403 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
66722338 TTTTGTCGAG
*
66722348 AATT-CAAATGCTTAAAAAGACAACG
1 AATTACAAATGCTTAAAAAGACAACA
* * *
66722373 AATTACAAATGCTTGAAAAGATAATA
1 AATTACAAATGCTTAAAAAGACAACA
66722399 AATTA
1 AATTA
66722404 TAAAATAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (26 bp):
AATTACAAATGCTTAAAAAGACAACA
Found at i:66728063 original size:2 final size:2
Alignment explanation
Indices: 66728056--66728090 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
66728046 ATAAATTTAG
66728056 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
66728091 ACATTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:66728944 original size:22 final size:23
Alignment explanation
Indices: 66728905--66728951 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
66728895 TTTTTTATTG
* *
66728905 TTGTTTTTAGTATTGTTTTGTTA
1 TTGTTTTTAGTATCGTTTAGTTA
*
66728928 TTGTTTTT-GTGTCGTTTAGTTA
1 TTGTTTTTAGTATCGTTTAGTTA
66728950 TT
1 TT
66728952 ATATTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.11, C:0.02, G:0.19, T:0.68
Consensus pattern (23 bp):
TTGTTTTTAGTATCGTTTAGTTA
Found at i:66748562 original size:195 final size:194
Alignment explanation
Indices: 66748311--66748685 Score: 515
Period size: 195 Copynumber: 1.9 Consensus size: 194
66748301 TGGGAAAAAA
* * **
66748311 AAAACAATGTAATTAATTGCTTAATTTTCCTGCAGTTTCTTTTCTCAGTAACCAAACACAAATTG
1 AAAACAATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAAG
* *
66748376 AATCAAACAAATCTAAG-AACAAGAAA-CCATCCTTTCCA-CACCAATTACTAG-AAAACCAAAT
66 AA--AAACAAATCTAAGAAACAA-AAAGCCATCCTTACCACCA-CAATAACTAGCAAAACCAAAT
66748437 TATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCA
127 TATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCA
66748502 GTT
192 GTT
* *
66748505 AAAACTAATGTAATTAATTGATTAATTTTCCTGGAGTTCCTTTTCTCAGTGACCAAACACAAAAA
1 AAAAC-AATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAA
* * * *
66748570 GAAAAACAAATTTGAGAAACAAAAAGCCATTCTTACCACCACAATAACTAGCAAAACCAAATTCT
65 GAAAAACAAATCTAAGAAACAAAAAGCCATCCTTACCACCACAATAACTAGCAAAACCAAATTAT
** * * **
66748635 GCATTTAGTATTTCATTATCCAACGAAAAATTTTAACTTTCAAAATATAAA
130 GCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAA
66748686 ACAAATAAAA
Statistics
Matches: 158, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
193 14 0.09
194 29 0.18
195 115 0.73
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (194 bp):
AAAACAATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAAG
AAAAACAAATCTAAGAAACAAAAAGCCATCCTTACCACCACAATAACTAGCAAAACCAAATTATG
CATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCAGTT
Found at i:66753078 original size:79 final size:79
Alignment explanation
Indices: 66752970--66753125 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
66752960 GCTTACATTT
* * *
66752970 TCACTTTTATTATTATTATTTTCTTGAAATAATGTGTTTGGTTGCCGAGAAACTGAAGTGAACAG
1 TCACGTTTATTATTATTATTTTCTTGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAG
66753035 TTTAAAAGAGAATC
66 TTTAAAAGAGAATC
* * * *
66753049 TCACGTTTATTTTTATT-TTTAT-TTGGAAATACTGTGTTTGGTTGCATAGAAACTGAAGTAAAT
1 TCACGTTTATTATTATTATTT-TCTT-GAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAAC
66753112 AGTTTAAAAGAGAA
64 AGTTTAAAAGAGAA
66753126 AATGAATACT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 5 0.07
79 63 0.93
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (79 bp):
TCACGTTTATTATTATTATTTTCTTGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAG
TTTAAAAGAGAATC
Found at i:66764026 original size:54 final size:55
Alignment explanation
Indices: 66763931--66764145 Score: 170
Period size: 57 Copynumber: 3.8 Consensus size: 55
66763921 TCTTGGGCAA
* * * *
66763931 AAAAAAAAGTTCAAGCCCCAATGTGGGAAGTATTGCCAAGTTCAGG-GC-C-TGGAAT
1 AAAAAAAAGTTC-AGCCCCAATGTGAGAA-AATTGCTAAGTTCAGGACCACTTGG-AT
*
66763986 AAAAAAAAGTTCAGTCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGAT
1 AAAAAAAAGTTCAG-CCCCAATGTGAGAAAATTGCTAAGTTCAGGACC--ACTTGGAT
* * * * *
66764044 GAAACAAA-TTCAGGCCCCAATATGAGAAAATTGCTAAGTTTAGGACCTAACTTGGAC
1 AAAAAAAAGTTCA-GCCCCAATGTGAGAAAATTGCTAAGTTCAGGACC--ACTTGGAT
* * * *
66764101 GAAAAAAA-TTCAGGCCCCAATGTAGGGAAAGTTGCCAAGTTCAGG
1 AAAAAAAAGTTCA-GCCCCAATGT-GAGAAAATTGCTAAGTTCAGG
66764146 CCCTAAAAAG
Statistics
Matches: 137, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
54 15 0.11
55 26 0.19
57 66 0.48
58 27 0.20
59 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (55 bp):
AAAAAAAAGTTCAGCCCCAATGTGAGAAAATTGCTAAGTTCAGGACCACTTGGAT
Found at i:66764062 original size:57 final size:57
Alignment explanation
Indices: 66763987--66764151 Score: 231
Period size: 57 Copynumber: 2.9 Consensus size: 57
66763977 GCCTGGAATA
* *
66763987 AAAAAAAGTTCAGTCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGATG
1 AAAAAAA-TTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
* *
66764045 AAACAAATTCAGGCCCCAATATGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
1 AAAAAAATTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
* * * * *
66764102 AAAAAAATTCAGGCCCCAATGTAGGGAAAGTTGCCAAGTTCAGGCCCTAA
1 AAAAAAATTCAGGCCCCAATGT-GAGAAAATTGCTAAGTTTAGGACCTAA
66764152 AAAGTAATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 67 0.71
58 28 0.29
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (57 bp):
AAAAAAATTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
Found at i:66771794 original size:24 final size:23
Alignment explanation
Indices: 66771749--66771794 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
66771739 TCTTCCTTTT
* *
66771749 TTTTTATTTGCTTCTTTTTGGTA
1 TTTTTATTTGCTTCATTGTGGTA
*
66771772 TTTTTGTTTGCTTTCATTGTGGT
1 TTTTTATTTGC-TTCATTGTGGT
66771795 TGTGGTGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.07, C:0.09, G:0.17, T:0.67
Consensus pattern (23 bp):
TTTTTATTTGCTTCATTGTGGTA
Found at i:66796972 original size:11 final size:11
Alignment explanation
Indices: 66796956--66796980 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66796946 TATTTATAAA
66796956 AAATTAATTTT
1 AAATTAATTTT
66796967 AAATTAATTTT
1 AAATTAATTTT
66796978 AAA
1 AAA
66796981 ACCGATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:66800049 original size:33 final size:32
Alignment explanation
Indices: 66799978--66800049 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
66799968 ATTAATTCAA
**
66799978 ATTTATTAGATATTAAATATTAAATATTTTTT
1 ATTTATTAGATATTAAATATTAAATATTTAAT
*
66800010 CATTTATTAGAATTTTAAATATATAAATATTTAAT
1 -ATTTATTAG-ATATTAAATAT-TAAATATTTAAT
66800045 -TTTAT
1 ATTTAT
66800050 ATAATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 14 0.41
34 10 0.29
35 10 0.29
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (32 bp):
ATTTATTAGATATTAAATATTAAATATTTAAT
Found at i:66800600 original size:16 final size:17
Alignment explanation
Indices: 66800579--66800610 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
66800569 TCTTTCACTT
66800579 TATTTATTT-ATCCATG
1 TATTTATTTAATCCATG
66800595 TATTTATTTAATCCAT
1 TATTTATTTAATCCAT
66800611 CCCCCCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTATTTAATCCATG
Found at i:66801547 original size:234 final size:236
Alignment explanation
Indices: 66801003--66801715 Score: 997
Period size: 234 Copynumber: 3.0 Consensus size: 236
66800993 GGTCACTTGA
* *
66801003 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTTCTCGGAATTTCTGCATTTCCTCGTCTGGG
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGT-TGGG
* ** * * * *
66801068 TCATCTCCAATTTTTGATAGCTTTTATGTTTTGTTTTTCGTTCATAATGAGTTCTCTTCTACTCC
65 TCATCTCCAATATTTGATATATTTTATG---T-TTTTT--TTCAT--TG-GCTATATTCTGCTCC
* * * *
66801133 TTTG-TTTTGTTT-AATCATTAATTTTGATATTTTGTTTAAGATGATTG-ATTTTCTAATTAAAT
121 TTTGTTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAAT
* * *
66801195 TGGCTACACTGCATTTGATAATTCACTCTGATTTACTTGTTTATTATTACT
186 TGGCTACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
* *
66801246 GATTTTCTCTGTTTTTTCTTATCTCTTGTTTGTTTCCTTGGAATTTCTGCATTTTCTCGTTGGGT
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
66801311 CATCTCCAATATTTGATATATTTTATGTTTTTTTTCATTGGCT-TATTCTGCTCCTTTGTTTTTT
66 CATCTCCAATATTTGATATATTTTATGTTTTTTTTCATTGGCTATATTCTGCTCCTTTGTTTTTT
* *
66801375 TTTAAATCATTAATTTGGATATGTTGTTTAAGATTACTGAATTTTCTAATTAAATTGGCTACATT
131 TTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGCTACACT
66801440 GCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
196 GCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
66801481 GATTTTCTCTG-TTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
66801545 CATCTCCAATATTTGATATATTTTAAT-TTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTTG
66 CATCTCCAATATTTGATATATTTT-ATGTTTTTTTTCATTGGCTATATTCTGCTCC-----TTTG
*
66801609 TTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTAGC
125 TTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGC
* ** * **
66801674 TATACTGTGTTTGATAATTTGCTCTGATTTATAAGTTTATGA
190 TACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGA
66801716 ATGGATTGCT
Statistics
Matches: 431, Mismatches: 29, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
232 13 0.03
233 9 0.02
234 125 0.29
235 86 0.20
236 5 0.01
238 5 0.01
239 1 0.00
240 102 0.24
242 29 0.07
243 56 0.13
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.54
Consensus pattern (236 bp):
GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
CATCTCCAATATTTGATATATTTTATGTTTTTTTTCATTGGCTATATTCTGCTCCTTTGTTTTTT
TTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGCTACACT
GCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
Found at i:66803077 original size:18 final size:18
Alignment explanation
Indices: 66803054--66803089 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66803044 AGAAAGTGTG
66803054 GTTATTATACAAGGAAAT
1 GTTATTATACAAGGAAAT
66803072 GTTATTATACAAGGAAAT
1 GTTATTATACAAGGAAAT
66803090 TTCAGACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
GTTATTATACAAGGAAAT
Found at i:66805405 original size:3 final size:3
Alignment explanation
Indices: 66805397--66805423 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
66805387 CTTCCTTTAA
66805397 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
66805424 TCTTCTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:66807713 original size:104 final size:104
Alignment explanation
Indices: 66807327--66807940 Score: 530
Period size: 104 Copynumber: 5.8 Consensus size: 104
66807317 TCATTAACTT
* * *
66807327 TTTTGGCATGTCAAAATTCGTAGTATCT-ATATAGTAGTTGATGATTTCATTTGAACTATAGTTT
1 TTTTGGCATGTCGAAATTCATAGTAT-TGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTT
* * * *
66807391 GATTCGTAAAAGCTGAA-CAATGTATACACGAATTATTAAA
65 GATTCGTAAAACCTGAATC-ATGGATACATGAATTAGTAAA
66807431 TTTTGGCAT-TCCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTT
1 TTTTGGCATGT-CGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTT
* ** * * *
66807495 GGTTCGTAAAACCTCG-ATCATGGATATTTTG-CTTGGTAAC
65 GATTCGTAAAACCT-GAATCATGGATA-CATGAATTAGTAAA
** * * * * * ** * *
66807535 TTTTCCTCCTAT-TAAGGCAAACTACA-A-TATTGGTTTAATAGTAGATGATTTGGTTTCAACTG
1 TTTT--GGC-ATGT--CG-AAA-TTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTA
* * *
66807597 TAGTTTGATTCGTAAAACCTGAATCATGGATACACGAATCATTAAA
59 TAGTTTGATTCGTAAAACCTGAATCATGGATACATGAATTAGTAAA
* *
66807643 TTTTGGCATGTTGAAATTCATAGTATTGGTGTAGTAGTTGATGATTTCATTTGAACTATAGTTTG
1 TTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
* * ** *** **
66807708 GTTCGTAAAACCTCAATCATGGATATTTTTCTCGGTAACTA
66 ATTCGTAAAACCTGAATCATGGATACATGAATTAGTAA--A
* * * * * ** *
66807749 TTCCT-CCTAT-TACGCAAATT-ACAGTATTGGTTTAGTAGTTGGTGATTTGGTTTGAACTGTAG
1 TT-TTGGC-ATGT-CG-AAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAG
*
66807811 TTTGATTCGTAAAACCTGAATCATGGATACATGAATTACTAAA
62 TTTGATTCGTAAAACCTGAATCATGGATACATGAATTAGTAAA
* * *
66807854 TTTTGGCATGTCGAAATTTATAGCATTGGTATAGAAGTTGATGATTTCATTTGAACTATAGTTTG
1 TTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
*
66807919 GTTCGTAAAACCTGAATCATGG
66 ATTCGTAAAACCTGAATCATGG
66807941 TTATTTTGCT
Statistics
Matches: 400, Mismatches: 85, Indels: 50
0.75 0.16 0.09
Matches are distributed among these distances:
102 3 0.01
103 11 0.03
104 213 0.53
105 10 0.03
106 8 0.02
107 77 0.19
108 71 0.18
109 4 0.01
110 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (104 bp):
TTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
ATTCGTAAAACCTGAATCATGGATACATGAATTAGTAAA
Found at i:66807733 original size:212 final size:212
Alignment explanation
Indices: 66807358--66808049 Score: 1018
Period size: 211 Copynumber: 3.3 Consensus size: 212
66807348 AGTATCTATA
* * *
66807358 TAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAAGCTGAA-CAATGTATACACGA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATC-ATGGATACACGA
66807422 ATTATTAAATTTTGGCAT-TCCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAA
65 ATTATTAAATTTTGGCATGT-CGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAA
* *
66807486 CTATAGTTTGGTTCGTAAAACCTCGATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAAG
129 CTATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAAC
* *
66807551 GCAAACTACAATATTGGTT
194 GCAAATTACAGTATTGGTT
* * * * *
66807570 TAATAGTAGATGATTTGGTTTCAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
* * *
66807635 TCATTAAATTTTGGCATGTTGAAATTCATAGTATTGGTGTAGTAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * *
66807700 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTTCTCGGTAACTATTCCTCCTATT-ACGC
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
66807764 AAATTACAGTATTGGTT
196 AAATTACAGTATTGGTT
* * * *
66807781 TAGTAGTTGGTGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACATGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
* * * *
66807846 TTACTAAATTTTGGCATGTCGAAATTTATAGCATTGGTATAGAAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * *
66807911 ATAGTTTGGTTCGTAAAACCTGAATCATGGTTATTTTGCTTGGTAACTTTT-CTCCTATTAACTC
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
* *
66807975 AAATTACAGTATAGGTA
196 AAATTACAGTATTGGTT
* *
66807992 TAGTAGTTGATGATTTCGTTT--ACTTATAGTTTGGTTCATAAAACCTGAATCATGGATA
1 TAGTAGTTGATGATTTCGTTTGAAC-TATAGTTTGATTCGTAAAACCTGAATCATGGATA
66808050 GTTACTCAGT
Statistics
Matches: 433, Mismatches: 43, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
209 2 0.00
210 39 0.09
211 219 0.51
212 171 0.39
213 2 0.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (212 bp):
TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
TTATTAAATTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
AAATTACAGTATTGGTT
Found at i:66812504 original size:8 final size:8
Alignment explanation
Indices: 66812491--66812528 Score: 62
Period size: 7 Copynumber: 5.0 Consensus size: 8
66812481 CTGAACCCTA
66812491 AAAAAAAT
1 AAAAAAAT
66812499 -AAAAAAT
1 AAAAAAAT
66812506 AAAAAAAT
1 AAAAAAAT
66812514 -AAAAAAT
1 AAAAAAAT
66812521 AAAAAAAT
1 AAAAAAAT
66812529 GTTTTATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:66812511 original size:15 final size:15
Alignment explanation
Indices: 66812491--66812528 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
66812481 CTGAACCCTA
66812491 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
66812506 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
66812521 AAAAAAAT
1 AAAAAAAT
66812529 GTTTTATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:66829632 original size:23 final size:23
Alignment explanation
Indices: 66829606--66829649 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
66829596 GTAATTATAA
66829606 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
66829629 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
66829650 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:66837659 original size:23 final size:23
Alignment explanation
Indices: 66837626--66837669 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
66837616 GTAATTATAA
66837626 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
66837649 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
66837670 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:66839458 original size:25 final size:25
Alignment explanation
Indices: 66839420--66839468 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
66839410 AAGAAATTTA
66839420 AATTATAAATAATTTTTAAA-AAAAC
1 AATTATAAATAA-TTTTAAATAAAAC
66839445 AATTA-AAATGAATTTTAAATAAAA
1 AATTATAAAT-AATTTTAAATAAAA
66839469 TTTGTTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
AATTATAAATAATTTTAAATAAAAC
Found at i:66840359 original size:6 final size:6
Alignment explanation
Indices: 66840343--66840377 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
66840333 AAATCTTATT
*
66840343 CATATA TATATA CATATA CATATA CATATA CATAT
1 CATATA CATATA CATATA CATATA CATATA CATAT
66840378 GTGCATTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (6 bp):
CATATA
Found at i:66846494 original size:3 final size:3
Alignment explanation
Indices: 66846488--66846596 Score: 83
Period size: 3 Copynumber: 36.0 Consensus size: 3
66846478 TAAAAAAATT
* **
66846488 TAA TAA TAA TAA TAC TGG TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * ** *
66846534 TAA TAA TAA TAA TCA TGA TGA TGA TGA TGA TGA TGG TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
66846582 TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA
66846597 AAATCTTAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66849113 original size:14 final size:15
Alignment explanation
Indices: 66849096--66849134 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
66849086 AAAAATAATA
66849096 TAATAAACAAAA-CC
1 TAATAAACAAAAGCC
* *
66849110 TAATAAATAAAAGTC
1 TAATAAACAAAAGCC
66849125 TAATAAACAA
1 TAATAAACAA
66849135 TTCAGTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.21
Consensus pattern (15 bp):
TAATAAACAAAAGCC
Found at i:66855343 original size:82 final size:83
Alignment explanation
Indices: 66855229--66855385 Score: 262
Period size: 82 Copynumber: 1.9 Consensus size: 83
66855219 GACCCCGCAA
* * * *
66855229 AAAATGATAAAAATTTGATTTAATTCTTTAAAATTTATAAAGATATAGGCTATTAAAGTGGTAAA
1 AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGGCTATTAAAATAGTAAA
66855294 ATTATATTTTGGCCTCCC
66 ATTATATTTTGGCCTCCC
*
66855312 AAAATGAT-AAAATTTGATATAATTCTATAAAATTTATAAAGATATAGTCTATTAAAATAGTAAA
1 AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGGCTATTAAAATAGTAAA
66855376 ATTATATTTT
66 ATTATATTTT
66855386 TACTATCATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 61 0.88
83 8 0.12
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (83 bp):
AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGGCTATTAAAATAGTAAA
ATTATATTTTGGCCTCCC
Found at i:66858731 original size:21 final size:21
Alignment explanation
Indices: 66858705--66858745 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66858695 AGACGAGCAA
* *
66858705 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
66858726 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
66858746 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:66864130 original size:14 final size:15
Alignment explanation
Indices: 66864113--66864152 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
66864103 TAAATTCATT
66864113 CTAATAAACAAAA-C
1 CTAATAAACAAAAGC
* *
66864127 CTAATAAATAAAAGT
1 CTAATAAACAAAAGC
66864142 CTAATAAACAA
1 CTAATAAACAA
66864153 TTCAGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.62, C:0.15, G:0.03, T:0.20
Consensus pattern (15 bp):
CTAATAAACAAAAGC
Found at i:66865502 original size:20 final size:20
Alignment explanation
Indices: 66865455--66865494 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
66865445 TTATATTATT
* *
66865455 TTTATGTATTATTTTATTTA
1 TTTATTTATTATTTCATTTA
*
66865475 TTTATTTATTATTTCCTTTA
1 TTTATTTATTATTTCATTTA
66865495 CTTTTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTATTTATTATTTCATTTA
Found at i:66865565 original size:23 final size:23
Alignment explanation
Indices: 66865535--66865588 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
66865525 TTGTATTTCC
*
66865535 TTTTTATTGTGCGCTTTTTTAT-T
1 TTTTTATTGTGC-CTTTATTATCT
*
66865558 TTTTTATTTTGCCTTTATTATCT
1 TTTTTATTGTGCCTTTATTATCT
*
66865581 TTATTATT
1 TTTTTATT
66865589 TCATTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTTATTGTGCCTTTATTATCT
Found at i:66865600 original size:4 final size:4
Alignment explanation
Indices: 66865580--66865617 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
66865570 CTTTATTATC
*
66865580 TTTA -TTA TTTCA TTTA TTTA TTTA TTTA TTTA TGTA TT
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TT
66865618 ACCCTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:66866736 original size:13 final size:14
Alignment explanation
Indices: 66866712--66866740 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
66866702 CATGTTTACA
66866712 AAATATGTATATAT
1 AAATATGTATATAT
66866726 AAATATG-ATATAT
1 AAATATGTATATAT
66866739 AA
1 AA
66866741 GTGAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
AAATATGTATATAT
Found at i:66866957 original size:29 final size:30
Alignment explanation
Indices: 66866894--66866965 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
66866884 AAAAATATAA
66866894 ATACAATATA-TT-TGTAAATTATATAAAT
1 ATACAATATATTTATGTAAATTATATAAAT
*
66866922 ATA-AATATATTTATGTATA-TATA-AATAT
1 ATACAATATATTTATGTAAATTATATAA-AT
66866950 ATACAATATATTTATG
1 ATACAATATATTTATG
66866966 CTTCATCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 8 0.21
28 14 0.36
29 17 0.44
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (30 bp):
ATACAATATATTTATGTAAATTATATAAAT
Found at i:66869611 original size:9 final size:9
Alignment explanation
Indices: 66869599--66869628 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
66869589 GATGAACATA
66869599 AAATTTAGT
1 AAATTTAGT
66869608 AAATTTAGT
1 AAATTTAGT
*
66869617 AAATTTACT
1 AAATTTAGT
66869626 AAA
1 AAA
66869629 CATAACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (9 bp):
AAATTTAGT
Found at i:66870066 original size:27 final size:27
Alignment explanation
Indices: 66870028--66870089 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
66870018 TTTTAGTCCT
**
66870028 GTGCCGCCTCTGGTAAAGGCACCTTTG
1 GTGCCGCCTCTGCCAAAGGCACCTTTG
*
66870055 GTGCCGCCTCTGCCACAGGCACCTTTG
1 GTGCCGCCTCTGCCAAAGGCACCTTTG
66870082 GTGCCGCC
1 GTGCCGCC
66870090 CGTGGCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (27 bp):
GTGCCGCCTCTGCCAAAGGCACCTTTG
Found at i:66870525 original size:32 final size:32
Alignment explanation
Indices: 66870491--66870554 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
66870481 GAATTATATA
* *
66870491 TTTTGATTTAAATTTATTATGATATTTTTTTAT
1 TTTTGACTTAAATTT-TTATGATAGTTTTTTAT
* *
66870524 TTTTTACTTGAATTTTTATGATAGTTTTTTA
1 TTTTGACTTAAATTTTTATGATAGTTTTTTA
66870555 CTTAGCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (32 bp):
TTTTGACTTAAATTTTTATGATAGTTTTTTAT
Found at i:66871274 original size:33 final size:33
Alignment explanation
Indices: 66871237--66871303 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
66871227 TGGTTGGGAC
66871237 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
1 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
*
66871270 TAAGGAAATAATTATCCAAATGTCCCTTCATGA
1 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
66871303 T
1 T
66871304 CCATGTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
TAAGGAAATAATTATCCAAATGCCCCTTCATGA
Found at i:66878301 original size:28 final size:27
Alignment explanation
Indices: 66878238--66878311 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
66878228 TAAAATAAAA
* *
66878238 AATATTTTATAAATTTTATAATAATTTT
1 AATATTTT-TAATTTTTAAAATAATTTT
*
66878266 AATGATTTTTAATTTTTAAAAATAGTTTT
1 AAT-ATTTTTAATTTTT-AAAATAATTTT
*
66878295 TATATTTTTTAATTTTT
1 AATA-TTTTTAATTTTT
66878312 TAATTTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
AATATTTTTAATTTTTAAAATAATTTT
Found at i:66883341 original size:18 final size:18
Alignment explanation
Indices: 66883314--66883370 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
66883304 TACGACCGTT
*
66883314 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
66883332 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
66883350 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
66883368 TAC
1 TAC
66883371 AGTAGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:66888859 original size:27 final size:26
Alignment explanation
Indices: 66888828--66888878 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
66888818 AATATTTTTT
*
66888828 ATATTTTTAATAGTGTTTTTAATATAA
1 ATATTTTTAAT-GTATTTTTAATATAA
*
66888855 ATATTTTTAATGTATTTTTTATAT
1 ATATTTTTAATGTATTTTTAATAT
66888879 GTTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (26 bp):
ATATTTTTAATGTATTTTTAATATAA
Found at i:66892228 original size:31 final size:31
Alignment explanation
Indices: 66892182--66892243 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
66892172 ATCAACTTAA
* *
66892182 GAAAAAGTGTCAAGTTTAGGTACTAAATTAG
1 GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
*
66892213 GAAAAATTGTAAAGTTTAGGTACCAAATTAG
1 GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
66892244 ACCAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (31 bp):
GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
Found at i:66893892 original size:27 final size:27
Alignment explanation
Indices: 66893846--66893903 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
66893836 ATATATTTTA
* *
66893846 TTTTTATTTTTTTATGTTAATATACTT
1 TTTTTATTTTTTTATGTTAAAATAATT
*
66893873 TTTTTA-TTTTTTATTTTTAAAATAATT
1 TTTTTATTTTTTTA-TGTTAAAATAATT
66893900 TTTT
1 TTTT
66893904 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTTATTTTTTTATGTTAAAATAATT
Found at i:66894210 original size:12 final size:12
Alignment explanation
Indices: 66894193--66894217 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66894183 GACTGATAAC
66894193 TCGACCCTTGAA
1 TCGACCCTTGAA
66894205 TCGACCCTTGAA
1 TCGACCCTTGAA
66894217 T
1 T
66894218 AGATCTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCGACCCTTGAA
Found at i:66894967 original size:3 final size:3
Alignment explanation
Indices: 66894953--66894985 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
66894943 AAATTTTAGA
*
66894953 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66894986 ATTGTGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66897066 original size:33 final size:35
Alignment explanation
Indices: 66897028--66897124 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
66897018 ATAGTTATAT
66897028 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
66897061 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
66897096 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
66897125 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 25 0.49
34 5 0.10
35 11 0.22
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:66897655 original size:6 final size:7
Alignment explanation
Indices: 66897630--66897654 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66897620 ATAATAAATA
66897630 TTTTTAT
1 TTTTTAT
66897637 TTTTTAT
1 TTTTTAT
66897644 TTTTTAT
1 TTTTTAT
66897651 TTTT
1 TTTT
66897655 AAAATAAATT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:66897683 original size:18 final size:18
Alignment explanation
Indices: 66897641--66897715 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 18
66897631 TTTTATTTTT
*
66897641 TATTTTTTATTTTTAAAA
1 TATTTTTTAATTTTAAAA
*
66897659 TAAATTTTTTAATTTTAAAC
1 T--ATTTTTTAATTTTAAAA
*
66897679 TATTTTTAAATTTTTTTTAAAA
1 TATTTTTTAA----TTTTAAAA
66897701 TACTTTTTTAATTTT
1 TA-TTTTTTAATTTT
66897716 TTAATTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
18 9 0.20
19 4 0.09
20 16 0.36
22 9 0.20
23 7 0.16
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTTTAATTTTAAAA
Found at i:66897713 original size:23 final size:22
Alignment explanation
Indices: 66897671--66897737 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 22
66897661 AATTTTTTAA
*
66897671 TTTTAAACTATTTTTAAATTTT
1 TTTTAAAATATTTTTAAATTTT
*
66897693 TTTTAAAATACTTTTTTAATTTTTT
1 TTTTAAAATA--TTTTTAA-ATTTT
66897718 AATTTTAAAATATTTTTAAA
1 --TTTTAAAATATTTTTAAA
66897738 ATACTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 9 0.24
24 7 0.19
25 11 0.30
27 10 0.27
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAAAATATTTTTAAATTTT
Found at i:66897768 original size:49 final size:48
Alignment explanation
Indices: 66897661--66897766 Score: 133
Period size: 49 Copynumber: 2.1 Consensus size: 48
66897651 TTTTAAAATA
* *
66897661 AATTTTTTAATTTTAAACTATTTTTAAATTTTTTTTAAAATACTTTTTT
1 AATTTTTTAATTTTAAAATATTTTTAAATCTTTTTT-AAATACTTTTTT
**
66897710 AATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT-AATTTTTGTTTT
1 AATTTTTTAATTTTAAAATATTTTT-AAAT-CTTTTTTAAATACTT-TTTT
66897760 AATTTTT
1 AATTTTT
66897767 AAAATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
49 29 0.58
50 15 0.30
51 6 0.12
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (48 bp):
AATTTTTTAATTTTAAAATATTTTTAAATCTTTTTTAAATACTTTTTT
Found at i:66898348 original size:3 final size:3
Alignment explanation
Indices: 66898340--66898368 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
66898330 TATTTTAGAA
66898340 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
66898369 ATTGTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:66901216 original size:22 final size:24
Alignment explanation
Indices: 66901173--66901224 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
66901163 TCTGCTATTC
*
66901173 TCTTATTCATTCTTTCTTCTTCCT
1 TCTTATTCATTATTTCTTCTTCCT
*
66901197 TTTTATTC-TTATTT-TTCTTCCT
1 TCTTATTCATTATTTCTTCTTCCT
66901219 TCTTAT
1 TCTTAT
66901225 CTGCTGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.52
23 5 0.20
24 7 0.28
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTATTCATTATTTCTTCTTCCT
Found at i:66903215 original size:82 final size:83
Alignment explanation
Indices: 66903117--66903298 Score: 242
Period size: 82 Copynumber: 2.2 Consensus size: 83
66903107 ATAATTTTAA
* * * *
66903117 ATTAATAATAGTAAAATTACACTTTGACC-CCCAAAATGATAAAAATTTAATTTAATTCTTTAAA
1 ATTAA-AATAGCAAAATTACACTTTGACCTCCCAAAATGATAAAAAATTAATATAATCCTTTAAA
66903181 ATTTATAAAGATATAGGCT
65 ATTTATAAAGATATAGGCT
* * * *
66903200 ATTAAAATGGCAAAA-TGCACTTTGGCCTCCCAAAATGATAAAAAATTGATATAATCCTTTAAAA
1 ATTAAAATAGCAAAATTACACTTTGACCTCCCAAAATGATAAAAAATTAATATAATCCTTTAAAA
* *
66903264 TTTATAAAGATATTGTCT
66 TTTATAAAGATATAGGCT
*
66903282 ATTAAAATAGTAAAATT
1 ATTAAAATAGCAAAATT
66903299 GCATTCTTAC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 10 0.12
82 69 0.81
83 6 0.07
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (83 bp):
ATTAAAATAGCAAAATTACACTTTGACCTCCCAAAATGATAAAAAATTAATATAATCCTTTAAAA
TTTATAAAGATATAGGCT
Found at i:66906309 original size:21 final size:21
Alignment explanation
Indices: 66906283--66906323 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66906273 ATCTGCTCAA
* *
66906283 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
66906304 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
66906324 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:66911279 original size:61 final size:60
Alignment explanation
Indices: 66911180--66911295 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 60
66911170 TTTGGGATCT
* * * ** * *
66911180 CTCATTGAGATCTCAATAAGAGAAATTTGAGGTTACCAAATATTAAGGGACCATTGGCAA
1 CTCATTGAAATCTAAAGAAGAGAAATTTGAGGCCACCAAAAATGAAGGGACCATTGGCAA
66911240 CTCATTGAAATCTAAAGAATGAGAAATTTGAGGCCACCAAAAATGAAGGGACCATT
1 CTCATTGAAATCTAAAGAA-GAGAAATTTGAGGCCACCAAAAATGAAGGGACCATT
66911296 CACAAACAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 16 0.33
61 32 0.67
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (60 bp):
CTCATTGAAATCTAAAGAAGAGAAATTTGAGGCCACCAAAAATGAAGGGACCATTGGCAA
Found at i:66912491 original size:19 final size:19
Alignment explanation
Indices: 66912469--66912507 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
66912459 AGACTAAAGG
66912469 TTTTCAATGACTTTAAATA
1 TTTTCAATGACTTTAAATA
* * *
66912488 TTTTCCATGATTTTTAATA
1 TTTTCAATGACTTTAAATA
66912507 T
1 T
66912508 GCTTTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTCAATGACTTTAAATA
Found at i:66913698 original size:19 final size:19
Alignment explanation
Indices: 66913668--66913731 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
66913658 CAACAAAAAT
66913668 AAAATAATTTTTAAAAATTC
1 AAAATAA-TTTTAAAAATTC
* * *
66913688 AAAATAATTTTTAAATTTA
1 AAAATAATTTTAAAAATTC
* * *
66913707 AAAATACTTATAAAAGTTCC
1 AAAATAATTTTAAAAATT-C
66913727 AAAAT
1 AAAAT
66913732 TTATACTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:66926834 original size:17 final size:17
Alignment explanation
Indices: 66926812--66926845 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
66926802 TTGGTATAGT
66926812 TGGAATATAT-AACACAA
1 TGGAATAT-TCAACACAA
66926829 TGGAATATTCAACACAA
1 TGGAATATTCAACACAA
66926846 ACAGCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
TGGAATATTCAACACAA
Found at i:66928501 original size:5 final size:5
Alignment explanation
Indices: 66928491--66928515 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66928481 AACATTATTC
66928491 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
66928516 GAAGTGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:66929787 original size:19 final size:19
Alignment explanation
Indices: 66929753--66929801 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
66929743 CTAAACAATT
66929753 TAATAATATAAA--TAATA
1 TAATAATATAAATTTAATA
*
66929770 TAA-AATATGAAATTTAATT
1 TAATAATAT-AAATTTAATA
66929789 TAATAATATAAAT
1 TAATAATATAAAT
66929802 AGTAGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
19 11 0.41
20 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAATATAAATTTAATA
Found at i:66936681 original size:31 final size:30
Alignment explanation
Indices: 66936612--66936683 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
66936602 TAAAAAATTT
66936612 GACTAATTTGCTATTTGATTTAACAAAAAG
1 GACTAATTTGCTATTTGATTTAACAAAAAG
* * ** *
66936642 GACCAATTTGCTCTTTGATTTAATGTATAAG
1 GACTAATTTGCTATTTGATTTAA-CAAAAAG
66936673 GACTAATTTGC
1 GACTAATTTGC
66936684 CCATTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (30 bp):
GACTAATTTGCTATTTGATTTAACAAAAAG
Found at i:66937229 original size:15 final size:15
Alignment explanation
Indices: 66937209--66937239 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66937199 AATTCAAATG
66937209 TAGTGCATATTTGAT
1 TAGTGCATATTTGAT
66937224 TAGTGCATATTTGAT
1 TAGTGCATATTTGAT
66937239 T
1 T
66937240 TTTCCTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (15 bp):
TAGTGCATATTTGAT
Found at i:66961963 original size:4 final size:4
Alignment explanation
Indices: 66961954--66961987 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
66961944 AGGGGAGAGG
*
66961954 ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
66961988 CAGTGCAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:66964807 original size:21 final size:23
Alignment explanation
Indices: 66964777--66964819 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
66964767 AATAAAATTT
*
66964777 AAATATTAAA-TA-ATTTATTAA
1 AAATAATAAATTATATTTATTAA
66964798 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
66964820 TATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAATAAATTATATTTATTAA
Found at i:66974186 original size:37 final size:37
Alignment explanation
Indices: 66974145--66974320 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
66974135 TTTGAGTACT
66974145 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
66974182 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
66974219 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
66974256 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
66974293 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
66974321 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:66974392 original size:45 final size:46
Alignment explanation
Indices: 66974283--66974406 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
66974273 GTGATAAGTG
* *
66974283 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
66974329 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
66974374 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
66974407 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:66981882 original size:37 final size:37
Alignment explanation
Indices: 66981841--66982016 Score: 280
Period size: 37 Copynumber: 4.8 Consensus size: 37
66981831 TTTGAGTACT
66981841 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
66981878 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
* * *
66981915 TCTGATCAAGAAACAAAATGATAAGTAGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
66981952 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
66981989 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
66982017 TAGCTTCAGC
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 130 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:66982088 original size:45 final size:46
Alignment explanation
Indices: 66981979--66982102 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
66981969 GTGATAAGTG
* *
66981979 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
66982025 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
66982070 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
66982103 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:66985590 original size:14 final size:14
Alignment explanation
Indices: 66985559--66985617 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
66985549 CTTTTAAAAC
* * *
66985559 AAATAAATTTTTAT
1 AAATATATTTATAA
66985573 AAATATATTTATAA
1 AAATATATTTATAA
*
66985587 AAAT-TCGATATA-AA
1 AAATAT--ATTTATAA
66985601 AAATATATTTATAA
1 AAATATATTTATAA
66985615 AAA
1 AAA
66985618 AAGTATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 5 0.14
14 26 0.72
15 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
AAATATATTTATAA
Found at i:66985626 original size:15 final size:15
Alignment explanation
Indices: 66985573--66985618 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
66985563 AAATTTTTAT
66985573 AAATATATTTAT-AA
1 AAATATATTTATAAA
***
66985587 AAAT-TCGATATAAA
1 AAATATATTTATAAA
66985601 AAATATATTTATAAA
1 AAATATATTTATAAA
66985616 AAA
1 AAA
66985619 AGTATTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
13 4 0.17
14 10 0.42
15 10 0.42
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATATATTTATAAA
Found at i:66985628 original size:28 final size:28
Alignment explanation
Indices: 66985573--66985633 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
66985563 AAATTTTTAT
**
66985573 AAATATATTTATAAAAATTCGATATAAA
1 AAATATATTTATAAAAATAAGATATAAA
**
66985601 AAATATATTTATAAAAA-AAG-TATTTA
1 AAATATATTTATAAAAATAAGATATAAA
66985627 AAATATA
1 AAATATA
66985634 GATATTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.38
27 1 0.03
28 17 0.59
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (28 bp):
AAATATATTTATAAAAATAAGATATAAA
Found at i:66989928 original size:16 final size:15
Alignment explanation
Indices: 66989905--66989948 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
66989895 TTTCAATAAA
66989905 TAAAAATATTAAATT
1 TAAAAATATTAAATT
* *
66989920 TAAATAATATGAATTT
1 TAAA-AATATTAAATT
*
66989936 TAAAAAAATTAAA
1 TAAAAATATTAAA
66989949 AATAATATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
TAAAAATATTAAATT
Found at i:66995692 original size:21 final size:21
Alignment explanation
Indices: 66995668--66995737 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
66995658 AATACATGCA
*
66995668 TAAGGTATCGATACCTCGTAG
1 TAAGGTATCAATACCTCGTAG
**
66995689 TAA-GTATCAATACC-C-TCCC
1 TAAGGTATCAATACCTCGT-AG
66995708 TAAGGTATCAATACCTCGTAG
1 TAAGGTATCAATACCTCGTAG
*
66995729 CAAGGTATC
1 TAAGGTATC
66995738 GAAACTATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.03
19 4 0.10
20 21 0.54
21 12 0.31
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (21 bp):
TAAGGTATCAATACCTCGTAG
Found at i:67000860 original size:43 final size:42
Alignment explanation
Indices: 67000773--67000915 Score: 207
Period size: 42 Copynumber: 3.4 Consensus size: 42
67000763 CACTTACAGA
*
67000773 AAAAAACGCCGCTAAAGAACATGA-TCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCAT-ATTCTTTAGCGGCGCTTAGG
*
67000815 AAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTTAGG
* * * *
67000857 GAAAAACGCCGCTAAAGATCATGTTCTTTAGCGTCGCTTTGG
1 AAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTTAGG
67000899 AAGAAAACGCCGCTAAA
1 AA-AAAACGCCGCTAAA
67000916 AGTAGAGTTC
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 77 0.84
43 14 0.15
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTTAGG
Found at i:67000926 original size:43 final size:42
Alignment explanation
Indices: 67000773--67000939 Score: 196
Period size: 42 Copynumber: 4.0 Consensus size: 42
67000763 CACTTACAGA
* * *
67000773 AAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCAAGTTCTTTAGCGGCGCTTAGG
*
67000815 AAAAAACGCCGCTAAAGATCATA-TTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCA-AGTTCTTTAGCGGCGCTTAGG
* * * *
67000857 GAAAAACGCCGCTAAAGATCATGTTCTTTAGCGTCGCTTTGG
1 AAAAAACGCCGCTAAAGATCAAGTTCTTTAGCGGCGCTTAGG
*
67000899 AAGAAAACGCCGCTAAA-AGT-AGAGTTCTTTAGTGGCGCTTA
1 AA-AAAACGCCGCTAAAGA-TCA-AGTTCTTTAGCGGCGCTTA
67000940 TTTCACAAAC
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
42 77 0.72
43 30 0.28
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCAAGTTCTTTAGCGGCGCTTAGG
Found at i:67001392 original size:12 final size:12
Alignment explanation
Indices: 67001375--67001414 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
67001365 TTTTGAACCT
67001375 CTGCTTCTATCG
1 CTGCTTCTATCG
* *
67001387 CTGCTTCTTTCA
1 CTGCTTCTATCG
*
67001399 CTGCTTCTCTCG
1 CTGCTTCTATCG
67001411 CTGC
1 CTGC
67001415 GGCCTTTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.15, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:67001426 original size:21 final size:21
Alignment explanation
Indices: 67001399--67001467 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
67001389 GCTTCTTTCA
*
67001399 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
67001420 TTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
67001441 CTGCTTCCCTCGTTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
67001462 CTGCTT
1 CTGCTT
67001468 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.01, C:0.41, G:0.20, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:67006988 original size:9 final size:9
Alignment explanation
Indices: 67006971--67007195 Score: 134
Period size: 9 Copynumber: 25.8 Consensus size: 9
67006961 TATGTATTAA
*
67006971 GTAAATTAT
1 GTAAGTTAT
67006980 GTAAGTTAT
1 GTAAGTTAT
*
67006989 GT-A-TTAA
1 GTAAGTTAT
*
67006996 GTAAGCTAT
1 GTAAGTTAT
* *
67007005 TTAAGTTGT
1 GTAAGTTAT
67007014 GT-A-TTAT
1 GTAAGTTAT
67007021 GTAAGTTAT
1 GTAAGTTAT
** *
67007030 CAAAGTAAT
1 GTAAGTTAT
*
67007039 GTATGTTAT
1 GTAAGTTAT
67007048 GTAAG-T-T
1 GTAAGTTAT
67007055 GTAAGTTAT
1 GTAAGTTAT
*
67007064 -TATGTATTAT
1 GTAAG--TTAT
*
67007074 GTAGGTTAT
1 GTAAGTTAT
67007083 GTAAGTTAT
1 GTAAGTTAT
*
67007092 GTAAGTTTT
1 GTAAGTTAT
67007101 GT-A-TTAT
1 GTAAGTTAT
**
67007108 GTAAGTCGT
1 GTAAGTTAT
67007117 GTAAGTTAT
1 GTAAGTTAT
* *
67007126 GTATGCTAT
1 GTAAGTTAT
*
67007135 GTAAGTAAT
1 GTAAGTTAT
67007144 GT-A-TTAT
1 GTAAGTTAT
67007151 GTAAGTTTAT
1 GTAAG-TTAT
*
67007161 ATAAGTTAATAT
1 GTAAG-T--TAT
*
67007173 GTAAGTAAT
1 GTAAGTTAT
67007182 GT-A-TTAT
1 GTAAGTTAT
67007189 GTAAGTT
1 GTAAGTT
67007196 TATATAAAAA
Statistics
Matches: 162, Mismatches: 36, Indels: 36
0.69 0.15 0.15
Matches are distributed among these distances:
7 31 0.19
8 15 0.09
9 91 0.56
10 14 0.09
11 4 0.02
12 7 0.04
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:67006991 original size:25 final size:25
Alignment explanation
Indices: 67006960--67007262 Score: 127
Period size: 25 Copynumber: 11.7 Consensus size: 25
67006950 TGATATATAT
*
67006960 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
67006985 TTATGTATTAAGTAAGCTATTTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * **
67007010 TTGTGTATTATGTAAGTTATCAAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
67007035 TAATGTATGTTATGTAAG-T-TGTAAG
1 TTATGTA--TTAAGTAAGTTATGTAAG
* *
67007060 TTATTATGTATTATGTAGGTTATGTAAG
1 ---TTATGTATTAAGTAAGTTATGTAAG
**
67007088 TTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
** * * *
67007113 TCGTGTAAGTTATGTATGCTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* * *
67007140 TAATGTATTATGTAAGTTTATATAAG
1 TTATGTATTAAGTAAG-TTATGTAAG
*
67007166 TTA-ATATGTAAGTAATGTATTATGTAAG
1 TTATGTAT-TAAGTAA-G--TTATGTAAG
* * * *
67007194 TT-TATA-TAA-AAATTTTATATAAG
1 TTATGTATTAAGTAA-GTTATGTAAG
* *
67007217 TCATGTATTATGTAAGTTAACATGTAAG
1 TTATGTATTAAGTAAGTT---ATGTAAG
*
67007245 TTATGTATTATGTAAGTT
1 TTATGTATTAAGTAAGTT
67007263 TAATAACTGT
Statistics
Matches: 215, Mismatches: 41, Indels: 41
0.72 0.14 0.14
Matches are distributed among these distances:
23 9 0.04
24 3 0.01
25 96 0.45
26 31 0.14
27 28 0.13
28 48 0.22
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:67006994 original size:16 final size:16
Alignment explanation
Indices: 67006975--67007262 Score: 74
Period size: 16 Copynumber: 16.8 Consensus size: 16
67006965 TATTAAGTAA
67006975 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* * *
67006991 ATTAAGTAAGCTATTT
1 ATTATGTAAGTTATGT
*
67007007 AAGTTGTGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
** *
67007023 AAGTTATCAAAGTAATGT
1 -A-TTATGTAAGTTATGT
*
67007041 ATGTTATGTAAGTTGTAAGTT
1 A--TTATGTAAG-T-TATG-T
67007062 ATTATGT-A-TTATGT
1 ATTATGTAAGTTATGT
67007076 AGGTTATGTAAGTTATGT
1 A--TTATGTAAGTTATGT
*
67007094 AAGTTTTGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
**
67007110 AAGTCGTGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
*
67007128 ATGCTATGTAAGTAATGT
1 AT--TATGTAAGTTATGT
67007146 ATTATGTAAGTTTATATAAGTT
1 ATTATGTAAG--T-TAT--G-T
* *
67007168 AATATGTAAGTAATGT
1 ATTATGTAAGTTATGT
*
67007184 ATTATGTAAGTTTATAT
1 ATTATGTAAG-TTATGT
* *
67007201 AAAAATTTTATATAAGTCATGT
1 ----A--TTATGTAAGTTATGT
67007223 ATTATGTAAGTTA---
1 ATTATGTAAGTTATGT
*
67007236 A-CATGTAAGTTATGT
1 ATTATGTAAGTTATGT
67007251 ATTATGTAAGTT
1 ATTATGTAAGTT
67007263 TAATAACTGT
Statistics
Matches: 203, Mismatches: 35, Indels: 68
0.66 0.11 0.22
Matches are distributed among these distances:
12 10 0.05
13 1 0.00
14 2 0.01
15 4 0.02
16 81 0.40
17 13 0.06
18 51 0.25
19 12 0.06
20 3 0.01
21 4 0.02
22 14 0.07
23 8 0.04
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.45
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:67007097 original size:87 final size:87
Alignment explanation
Indices: 67006975--67007194 Score: 217
Period size: 87 Copynumber: 2.6 Consensus size: 87
67006965 TATTAAGTAA
* *
67006975 ATTATGTAAGTTATGTATTAAGTAAGCTATTTAAGTTGTGTATTATGTAAGTTATCAAAGTAATG
1 ATTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTTGTGTATTATGTAAGTCATCAAAGTAATG
*
67007040 TATGTTATGTAAGTTGTAAGTT
66 TATGCTATGTAAGTTGTAAGTT
* * * * ** *
67007062 ATTATGT-A-TTATGTAGGTTATGTAAGTTATGTAAGTTTTGTATTATGTAAGTCGTGTAAGTTA
1 ATTATGTAAGTTATGTA--TTAAGTAAGCTATGTAAGTTGTGTATTATGTAAGTCATCAAAGTAA
67007125 TGTATGCTATGTAA---GTAA-TGT
64 TGTATGCTATGTAAGTTGTAAGT-T
* **
67007146 ATTATGTAAGTT-TATA-TAAGTTAA--TATGTAAGTAATGTATTATGTAAGT
1 ATTATGTAAGTTATGTATTAAG-TAAGCTATGTAAGTTGTGTATTATGTAAGT
67007195 TTATATAAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
81 23 0.20
82 3 0.03
83 4 0.04
84 12 0.11
85 11 0.10
86 3 0.03
87 57 0.50
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (87 bp):
ATTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTTGTGTATTATGTAAGTCATCAAAGTAATG
TATGCTATGTAAGTTGTAAGTT
Found at i:67007109 original size:34 final size:37
Alignment explanation
Indices: 67007064--67007175 Score: 85
Period size: 34 Copynumber: 3.2 Consensus size: 37
67007054 TGTAAGTTAT
*
67007064 TATGTATTATGTAGGTTATGTAAGTTATGTAAG-T-T
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAT
** * *
67007099 T-TGTATTATGTAAGTCGTGTAAGTTATGTATGCTAT
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * *
67007135 GTAAGTA--ATGT-A-TTATGTAAGTTTATATAAGTTAA
1 -TATGTATTATGTAAGTTATGTAAG-TTATGTAAGTTAT
67007170 TATGTA
1 TATGTA
67007176 AGTAATGTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
34 39 0.65
35 12 0.20
36 5 0.08
37 1 0.02
38 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (37 bp):
TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:67007177 original size:38 final size:38
Alignment explanation
Indices: 67007132--67007234 Score: 145
Period size: 38 Copynumber: 2.7 Consensus size: 38
67007122 TTATGTATGC
*
67007132 TATGTAAGTAATGTATTATGTAAGTTTATAT-AAGTTAA
1 TATGTAAGTAATGTATTATGTAAGTTTATATAAAATT-A
*
67007170 TATGTAAGTAATGTATTATGTAAGTTTATATAAAAATTT
1 TATGTAAGTAATGTATTATGTAAGTTTATAT-AAAATTA
* *
67007209 TATATAAGTCATGTATTATGTAAGTT
1 TATGTAAGTAATGTATTATGTAAGTT
67007235 AACATGTAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
38 31 0.53
39 24 0.41
40 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.46
Consensus pattern (38 bp):
TATGTAAGTAATGTATTATGTAAGTTTATATAAAATTA
Found at i:67007490 original size:13 final size:13
Alignment explanation
Indices: 67007472--67007557 Score: 81
Period size: 13 Copynumber: 6.8 Consensus size: 13
67007462 AAGTAATATA
67007472 TATTTAAGTAATG
1 TATTTAAGTAATG
*
67007485 TATTTAA--AATT
1 TATTTAAGTAATG
*
67007496 TATATAAGTTAAT-
1 TATTTAAG-TAATG
*
67007509 T-TGTAAGTAATG
1 TATTTAAGTAATG
*
67007521 TATTTAAGTAATT
1 TATTTAAGTAATG
*
67007534 TATTTAAGTAATA
1 TATTTAAGTAATG
*
67007547 TATTCAAGTAA
1 TATTTAAGTAA
67007558 ATTTTAGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
11 13 0.21
12 6 0.10
13 39 0.64
14 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (13 bp):
TATTTAAGTAATG
Found at i:67008414 original size:14 final size:14
Alignment explanation
Indices: 67008395--67008421 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67008385 GAACAGCAAC
67008395 ATGATTAACTAAAG
1 ATGATTAACTAAAG
67008409 ATGATTAACTAAA
1 ATGATTAACTAAA
67008422 AAACCTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (14 bp):
ATGATTAACTAAAG
Found at i:67009127 original size:30 final size:30
Alignment explanation
Indices: 67009092--67009191 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
67009082 AAAAAAATTG
* * *
67009092 CATTTTGACCCCTATACTCTTCAAAATTTA
1 CATTTTAACCCCTAAACTTTTCAAAATTTA
*
67009122 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
1 CATTTTAACCCCTAAACTTTTC-AAAATTTA
* *
67009151 CATTTCAACCCTTAAACTTTCTCAAAATTT-
1 CATTTTAACCCCTAAACTTT-TCAAAATTTA
67009181 CATTTTAACCC
1 CATTTTAACCC
67009192 TTCAAATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
29 19 0.32
30 37 0.62
31 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTTCAAAATTTA
Found at i:67009676 original size:14 final size:15
Alignment explanation
Indices: 67009648--67009676 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67009638 CAATCAAATA
67009648 AAGAAAAGAGAAGAG
1 AAGAAAAGAGAAGAG
67009663 AAGAAAAG-GAAGAG
1 AAGAAAAGAGAAGAG
67009677 GGGAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAGAAGAG
Found at i:67009815 original size:12 final size:12
Alignment explanation
Indices: 67009777--67009818 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
67009767 AGAGGAAAAG
67009777 AAAGA-AAAGAAA
1 AAAGAGAAAG-AA
*
67009789 AAAGAGAGAATAA
1 AAAGAGA-AAGAA
67009802 AAAGAGAAAGAA
1 AAAGAGAAAGAA
67009814 AAAGA
1 AAAGA
67009819 AAAAAATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 14 0.54
13 10 0.38
14 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AAAGAGAAAGAA
Found at i:67009829 original size:11 final size:10
Alignment explanation
Indices: 67009772--67009831 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 10
67009762 GAAGGAGAGG
*
67009772 AAAAG-AAAG
1 AAAAGAAAAA
67009781 AAAAGAAAAA
1 AAAAGAAAAA
*
67009791 AGAGAGAATAAA
1 A-AAAGAA-AAA
* *
67009803 AAGAGAAAGA
1 AAAAGAAAAA
67009813 AAAAGAAAAA
1 AAAAGAAAAA
67009823 AATAAGAAA
1 AA-AAGAAA
67009832 GACAGCAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
9 5 0.12
10 16 0.38
11 17 0.40
12 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:67010390 original size:20 final size:20
Alignment explanation
Indices: 67010365--67010402 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67010355 AAAAATATTC
67010365 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
67010385 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
67010403 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:67010549 original size:17 final size:17
Alignment explanation
Indices: 67010522--67010567 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
67010512 AAAAAAACCG
67010522 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
67010539 TGTCTTCAAAATTTCTCC
1 TGT-TTCAAAATTTCTCA
67010557 TGTTTCAAAAT
1 TGTTTCAAAAT
67010568 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:67010666 original size:34 final size:33
Alignment explanation
Indices: 67010628--67010702 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
67010618 TTAAATTTTC
*
67010628 CGTGTTTCAAAAATTCTCGTGAATAAAAAAAATT
1 CGTGTTTC-AAAATTCCCGTGAATAAAAAAAATT
** * *
67010662 CGTGTTTTCAAAATTCCCGTGTTTGAAAAAATTT
1 CGTG-TTTCAAAATTCCCGTGAATAAAAAAAATT
67010696 CGTGTTT
1 CGTGTTT
67010703 TCGGGTTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.09
34 28 0.80
35 4 0.11
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (33 bp):
CGTGTTTCAAAATTCCCGTGAATAAAAAAAATT
Found at i:67010775 original size:19 final size:19
Alignment explanation
Indices: 67010750--67011074 Score: 143
Period size: 18 Copynumber: 17.4 Consensus size: 19
67010740 TTGGATGTTA
67010750 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* * * *
67010769 CCGTG-TTT-GACAAATTT
1 TCGTGTTTTCAAAAAATTC
67010786 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
*
67010805 TCGTG-TTTC-AAAAATTT
1 TCGTGTTTTCAAAAAATTC
* *
67010822 TCGTGTTTTCAAAATTTTCATGTTT
1 TCGTGTTTTCAAAA-----A-ATTC
67010847 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* *
67010866 TCGTGTTTTTAAAAAAAAGT-
1 TCGTG-TTTT-CAAAAAATTC
** *
67010886 TCGTGTTTAAAAAAAAAT-
1 TCGTGTTTTCAAAAAATTC
* *
67010904 TCATGTTTTC--AAAATTT
1 TCGTGTTTTCAAAAAATTC
* *
67010921 TCGTGTTTTC-AAAATTTT
1 TCGTGTTTTCAAAAAATTC
67010939 TCGTG---TCAAAAAAATTC
1 TCGTGTTTTC-AAAAAATTC
* * * *
67010956 TCATGTATT-GAAAATTTC
1 TCGTGTTTTCAAAAAATTC
67010974 -CGTGTTTTCAAAAAAATTC
1 TCGTGTTTTC-AAAAAATTC
67010993 T-GTGTTTTCAAAAAAAAATT-
1 TCGTGTTTTC---AAAAAATTC
* * *
67011013 TTGTG-TTTC-AAAGATTT
1 TCGTGTTTTCAAAAAATTC
*
67011030 TCGTGTTTTCAAAAATTATTA
1 TCGTGTTTTCAAAAA--ATTC
*
67011051 TTGTG-TTTC--AAAATTC
1 TCGTGTTTTCAAAAAATTC
67011067 TCGTGTTT
1 TCGTGTTT
67011075 AAAAACAAAA
Statistics
Matches: 237, Mismatches: 38, Indels: 64
0.70 0.11 0.19
Matches are distributed among these distances:
15 2 0.01
16 18 0.08
17 53 0.22
18 54 0.23
19 46 0.19
20 20 0.08
21 26 0.11
24 1 0.00
25 17 0.07
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
TCGTGTTTTCAAAAAATTC
Found at i:67010790 original size:17 final size:17
Alignment explanation
Indices: 67010750--67010846 Score: 77
Period size: 17 Copynumber: 5.5 Consensus size: 17
67010740 TTGGATGTTA
*
67010750 TCGTGTTTTCAAAAAATTC
1 TCGTG-TTT-AAAAAATTT
* * *
67010769 CCGTGTTTGACAAATTT
1 TCGTGTTTAAAAAATTT
*
67010786 TCGTGTTTTCAAAAAATTC
1 TCGTG-TTT-AAAAAATTT
*
67010805 TCGTGTTTCAAAAATTT
1 TCGTGTTTAAAAAATTT
**
67010822 TCGTGTTTTCAAAATTT
1 TCGTGTTTAAAAAATTT
*
67010839 TCATGTTT
1 TCGTGTTT
67010847 TCGTGTTTTC
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
17 39 0.62
18 9 0.14
19 15 0.24
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.46
Consensus pattern (17 bp):
TCGTGTTTAAAAAATTT
Found at i:67010917 original size:16 final size:17
Alignment explanation
Indices: 67010897--67010935 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
67010887 CGTGTTTAAA
*
67010897 AAAAAATTCATGTTTTC
1 AAAATATTCATGTTTTC
* *
67010914 AAAATTTTCGTGTTTTC
1 AAAATATTCATGTTTTC
67010931 AAAAT
1 AAAAT
67010936 TTTTCGTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (17 bp):
AAAATATTCATGTTTTC
Found at i:67010991 original size:20 final size:19
Alignment explanation
Indices: 67010848--67011008 Score: 83
Period size: 19 Copynumber: 8.8 Consensus size: 19
67010838 TTCATGTTTT
67010848 CGTGTTTTC-AAAAAATTC
1 CGTGTTTTCAAAAAAATTC
*
67010866 TCGTGTTTTTAAAAAAAAGTT-
1 -CGTG-TTTTCAAAAAAA-TTC
**
67010887 CGTGTTTAAAAAAAAATT-
1 CGTGTTTTCAAAAAAATTC
* * *
67010905 CATGTTTTC--AAAATTTT
1 CGTGTTTTCAAAAAAATTC
** *
67010922 CGTGTTTTC-AAAATTTTT
1 CGTGTTTTCAAAAAAATTC
67010940 CGTG---TCAAAAAAATTC
1 CGTGTTTTCAAAAAAATTC
* * * *
67010956 TCATGTATT--GAAAATTTC
1 -CGTGTTTTCAAAAAAATTC
67010974 CGTGTTTTCAAAAAAATTC
1 CGTGTTTTCAAAAAAATTC
*
67010993 TGTGTTTTCAAAAAAA
1 CGTGTTTTCAAAAAAA
67011009 AATTTTGTGT
Statistics
Matches: 111, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
15 2 0.02
16 12 0.11
17 17 0.15
18 26 0.23
19 37 0.33
20 9 0.08
21 6 0.05
22 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
CGTGTTTTCAAAAAAATTC
Done.