Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 303 of 320
Found at i:96462792 original size:25 final size:25
Alignment explanation
Indices: 96462757--96462843 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
96462747 ACCTTAGTGC
* **
96462757 GCTCTCGGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTAAGT
96462782 GCTCTCTGATTATTAGCACGTAAGT
1 GCTCTCTGATTATTAGCACGTAAGT
* * * *
96462807 GCTTTCTAATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACGTAAGT
* *
96462832 GTTCTCCGATTA
1 GCTCTCTGATTA
96462844 GCACATTTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTAAGT
Found at i:96462859 original size:22 final size:22
Alignment explanation
Indices: 96462818--96462859 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
96462808 CTTTCTAATT
*
96462818 ATTAGCACATCAGTGTTCTCCG
1 ATTAGCACATCAGTGCTCTCCG
**
96462840 ATTAGCACATTTGTGCTCTC
1 ATTAGCACATCAGTGCTCTC
96462860 TGTTTATTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (22 bp):
ATTAGCACATCAGTGCTCTCCG
Found at i:96464771 original size:21 final size:21
Alignment explanation
Indices: 96464745--96464811 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
96464735 AGAGCTAAAT
96464745 AGAAACCCATAAGGGTTGAAC
1 AGAAACCCATAAGGGTTGAAC
* * * * *
96464766 AGAAACTCGTAAGAGCTGAAT
1 AGAAACCCATAAGGGTTGAAC
* *
96464787 GGAAACCCATAAGGGTTAAAC
1 AGAAACCCATAAGGGTTGAAC
96464808 AGAA
1 AGAA
96464812 GCTTAAAAGA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (21 bp):
AGAAACCCATAAGGGTTGAAC
Found at i:96464822 original size:42 final size:42
Alignment explanation
Indices: 96464719--96464857 Score: 134
Period size: 42 Copynumber: 3.3 Consensus size: 42
96464709 GCCCGAAGGC
* ** * *
96464719 TAAATAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTGAATGGAAACCCATAAGGGT
* * **
96464761 TGAACAGAAACTCGTAAGAGCTGAATGGAAACCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTGAATGGAAACCCATAAGGGT
* * * * * **
96464803 TAAACAGAAGCTTAAAAGAGCTGAACGAAAACTCATATGAAT
1 TAAACAGAAGCTCAAAAGAGCTGAATGGAAACCCATAAGGGT
96464845 TAAACAGAAGCTC
1 TAAACAGAAGCTC
96464858 GTGAGAGCTA
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
TAAACAGAAGCTCAAAAGAGCTGAATGGAAACCCATAAGGGT
Found at i:96464865 original size:42 final size:42
Alignment explanation
Indices: 96464747--96464871 Score: 115
Period size: 42 Copynumber: 3.0 Consensus size: 42
96464737 AGCTAAATAG
** * * * *
96464747 AAACCCATAAGGGTTGAACAGAAACTCGTAAGAGCTGAATGG
1 AAACCCATAAGAATTAAACAGAAGCTCGTAAGAGCTGAACGA
** ***
96464789 AAACCCATAAGGGTTAAACAGAAGCTTAAAAGAGCTGAACGA
1 AAACCCATAAGAATTAAACAGAAGCTCGTAAGAGCTGAACGA
* * * *
96464831 AAACTCATATGAATTAAACAGAAGCTCGTGAGAGCTAAACG
1 AAACCCATAAGAATTAAACAGAAGCTCGTAAGAGCTGAACG
96464872 GAAAGCAAAC
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
AAACCCATAAGAATTAAACAGAAGCTCGTAAGAGCTGAACGA
Found at i:96468131 original size:4 final size:4
Alignment explanation
Indices: 96468106--96468165 Score: 93
Period size: 4 Copynumber: 15.0 Consensus size: 4
96468096 AATTTAGCTT
* * *
96468106 TACA TACA TGCA TGCA TGCA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
96468154 TACA TACA TACA
1 TACA TACA TACA
96468166 AGATTGAGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:96476629 original size:31 final size:31
Alignment explanation
Indices: 96476594--96476654 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
96476584 AAATTATGGC
96476594 TAAATTCATTAAAAAA-TGTAAATATTAAAGA
1 TAAATTCA-TAAAAAATTGTAAATATTAAAGA
96476625 TAAATTCATAAAAAATTGTAAATATTAAAG
1 TAAATTCATAAAAAATTGTAAATATTAAAG
96476655 CTAACTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCATAAAAAATTGTAAATATTAAAGA
Found at i:96476676 original size:5 final size:5
Alignment explanation
Indices: 96476666--96476693 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
96476656 TAACTCATTA
96476666 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
96476694 TTAAATCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:96477255 original size:13 final size:12
Alignment explanation
Indices: 96477227--96477254 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
96477217 TTTTACCTTT
96477227 AAAATTTATAAA
1 AAAATTTATAAA
96477239 AAAATTTATAAA
1 AAAATTTATAAA
96477251 AAAA
1 AAAA
96477255 ACATAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:96477332 original size:22 final size:21
Alignment explanation
Indices: 96477307--96477349 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
96477297 ATAAAAAAAC
96477307 ATTAATATGCAAAAAT-TATAAA
1 ATTAATAT--AAAAATATATAAA
*
96477329 ATTATTATAAAAATATATAAA
1 ATTAATATAAAAATATATAAA
96477350 TTATGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTAATATAAAAATATATAAA
Found at i:96477367 original size:17 final size:17
Alignment explanation
Indices: 96477317--96477436 Score: 61
Period size: 17 Copynumber: 6.8 Consensus size: 17
96477307 ATTAATATGC
96477317 AAAAATTATAAAATTATTAT
1 AAAAA-TATAAAA--ATTAT
*
96477337 AAAAATATATAAATTAT
1 AAAAATATAAAAATTAT
96477354 GAAAAATA-AAAAATGTA-
1 -AAAAATATAAAAAT-TAT
*
96477371 AAAATTATAAAAATGT-T
1 AAAAATATAAAAAT-TAT
* *
96477388 TAAGATATAGAAAATTAAT
1 AAAAATATA-AAAATT-AT
*
96477407 TAAAATATTATAAAA-TA-
1 AAAAATA-TA-AAAATTAT
*
96477424 AAAAATACAAAAA
1 AAAAATATAAAAA
96477437 ATGTATTATT
Statistics
Matches: 82, Mismatches: 10, Indels: 21
0.73 0.09 0.19
Matches are distributed among these distances:
15 4 0.05
16 7 0.09
17 31 0.38
18 15 0.18
19 14 0.17
20 11 0.13
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:96477375 original size:25 final size:24
Alignment explanation
Indices: 96477289--96477384 Score: 77
Period size: 25 Copynumber: 3.7 Consensus size: 24
96477279 AAAATATTTT
*
96477289 TAAAAATTATAAAAA-AACATTAATA
1 TAAAAATTATAAAAATAA-A-AAATA
96477314 TGCAAAAATTATAAAATTATTATAAAAATA
1 T--AAAAATTATAAAA--A-TA-AAAAATA
* *
96477344 TATAAATTATGAAAAATAAAAAATG
1 TAAAAATTAT-AAAAATAAAAAATA
96477369 TAAAAATTATAAAAAT
1 TAAAAATTATAAAAAT
96477385 GTTTAAGATA
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
24 6 0.10
25 16 0.27
26 2 0.03
27 14 0.24
28 8 0.14
29 5 0.08
30 5 0.08
31 2 0.03
32 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (24 bp):
TAAAAATTATAAAAATAAAAAATA
Found at i:96477524 original size:8 final size:8
Alignment explanation
Indices: 96477479--96477526 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
96477469 AAAATATTGA
96477479 AAAAATA-
1 AAAAATAT
96477486 AAATAATAT
1 AAA-AATAT
* *
96477495 AAAACTAC
1 AAAAATAT
*
96477503 AAAAACAT
1 AAAAATAT
96477511 AAAAATAT
1 AAAAATAT
96477519 AAAAATAT
1 AAAAATAT
96477527 TTACAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
7 3 0.09
8 27 0.82
9 3 0.09
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:96480366 original size:18 final size:17
Alignment explanation
Indices: 96480334--96480372 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
96480324 AGAAAAAAAA
96480334 AAGAAGAAGAGGAGGAG
1 AAGAAGAAGAGGAGGAG
96480351 AAGAAGAAGAAGGAGGAG
1 AAGAAGAAG-AGGAGGAG
96480369 AAGA
1 AAGA
96480373 GGAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAGGAGGAG
Found at i:96483924 original size:33 final size:34
Alignment explanation
Indices: 96483887--96483980 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 34
96483877 AAAAGGTTAG
96483887 GTATACTTTGTGTATACCA-TATGAAAA-GAAAAT
1 GTATACTTTGTGTATACCACT-TGAAAAGGAAAAT
96483920 GTATACTTTGTGTATACCACTTGAAAAGGAAAA-
1 GTATACTTTGTGTATACCACTTGAAAAGGAAAAT
* * * *
96483953 GTACACTATATGTGTA-CACTTGAAAAGG
1 GTATACTTTGTGTATACCACTTGAAAAGG
96483981 TTATGTGCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
32 12 0.22
33 37 0.67
34 6 0.11
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (34 bp):
GTATACTTTGTGTATACCACTTGAAAAGGAAAAT
Found at i:96483993 original size:65 final size:66
Alignment explanation
Indices: 96483924--96484056 Score: 153
Period size: 65 Copynumber: 2.0 Consensus size: 66
96483914 GAAAATGTAT
* * * **
96483924 ACTTTGTGTATACCACTTGAAAAGGAAAAGTACACTAT-ATGTGTA-CACTTGAAAAGGTTATGT
1 ACTTTGTATATACAAATTGAAAAGGAAAAGTACA-TATCATGTGTACCACTTGAAAAGGGAATGT
96483987 GC
65 GC
* ** * *
96483989 ACTTTGTATGTACAAATTGAAAAGGGTATGTACATTTCATGTGTACCACTTGAAAAGGGAATGTG
1 ACTTTGTATATACAAATTGAAAAGGAAAAGTACATATCATGTGTACCACTTGAAAAGGGAATGTG
96484054 C
66 C
96484055 AC
1 AC
96484057 CTCGGGTGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
64 2 0.04
65 34 0.61
66 20 0.36
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (66 bp):
ACTTTGTATATACAAATTGAAAAGGAAAAGTACATATCATGTGTACCACTTGAAAAGGGAATGTG
C
Found at i:96484034 original size:33 final size:32
Alignment explanation
Indices: 96483918--96484052 Score: 110
Period size: 33 Copynumber: 4.1 Consensus size: 32
96483908 TGAAAAGAAA
* * * **
96483918 ATGTATACTTTGTGTATACCACTTGAAAAGGAA
1 ATGTACACTTTATGTGTA-CACTTGAAAAGGGT
* * *
96483951 AAGTACACTATATGTGTACACTTGAAAAGGTT
1 ATGTACACTTTATGTGTACACTTGAAAAGGGT
* * * *
96483983 ATGTGCACTTTGTATGTACAAATTGAAAAGGGT
1 ATGTACACTTTATGTGTAC-ACTTGAAAAGGGT
*
96484016 ATGTACA-TTTCATGTGTACCACTTGAAAAGGGA
1 ATGTACACTTT-ATGTGTA-CACTTGAAAAGGGT
96484049 ATGT
1 ATGT
96484053 GCACCTCGGG
Statistics
Matches: 80, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
32 29 0.36
33 50 0.62
34 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (32 bp):
ATGTACACTTTATGTGTACACTTGAAAAGGGT
Found at i:96486240 original size:27 final size:29
Alignment explanation
Indices: 96486184--96486243 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
96486174 TACACCCCCT
* *
96486184 AAAAAACAATCACTATATGTATATTATAA
1 AAAAAACAATCACTACATGCATATTATAA
*
96486213 AAAAAATAATCACTACATGCATATTA-AA
1 AAAAAACAATCACTACATGCATATTATAA
96486241 AAA
1 AAA
96486244 TAGTTAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (29 bp):
AAAAAACAATCACTACATGCATATTATAA
Found at i:96487973 original size:15 final size:15
Alignment explanation
Indices: 96487961--96487990 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96487951 CTTTCAGATG
*
96487961 CATCGCTACCAGACA
1 CATCACTACCAGACA
96487976 CATCACTACCAGACA
1 CATCACTACCAGACA
96487991 TGTCTTCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.40, G:0.10, T:0.13
Consensus pattern (15 bp):
CATCACTACCAGACA
Found at i:96488362 original size:89 final size:89
Alignment explanation
Indices: 96488205--96488384 Score: 288
Period size: 89 Copynumber: 2.0 Consensus size: 89
96488195 AGGTAAATAA
* * * * * *
96488205 CAAATTTTGATTTTGCCACTTACAATATAGTAGCTTGGATACAAACAATGGCAGATATACGCAGC
1 CAAATTTTAATTTTGCCACATACAATATAGCAGCTTGAATACAAACAATGGCAGATATACACAAC
96488270 AAACATCAATTTGATAATGGCATT
66 AAACATCAATTTGATAATGGCATT
*
96488294 CAAATTTTAATTTTGCCACATACAATATAGCAGCTTGAATACTAACAATGGCAGATATACACAAC
1 CAAATTTTAATTTTGCCACATACAATATAGCAGCTTGAATACAAACAATGGCAGATATACACAAC
*
96488359 AAACATCAGTTTGATAATGGCATT
66 AAACATCAATTTGATAATGGCATT
96488383 CA
1 CA
96488385 TACAATGGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (89 bp):
CAAATTTTAATTTTGCCACATACAATATAGCAGCTTGAATACAAACAATGGCAGATATACACAAC
AAACATCAATTTGATAATGGCATT
Found at i:96488510 original size:12 final size:12
Alignment explanation
Indices: 96488493--96488553 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
96488483 ACTGAGTGTT
*
96488493 TCAAAATTGAAA
1 TCAAAATTAAAA
*
96488505 TCAAAATCAAAA
1 TCAAAATTAAAA
* *
96488517 TCAAAATCAGAA
1 TCAAAATTAAAA
*
96488529 TCAAAATCAAAA
1 TCAAAATTAAAA
* *
96488541 TTAAAATTGAAA
1 TCAAAATTAAAA
96488553 T
1 T
96488554 AACCCTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (12 bp):
TCAAAATTAAAA
Found at i:96488548 original size:6 final size:6
Alignment explanation
Indices: 96488502--96488547 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
96488492 TTCAAAATTG
* *
96488502 AAATCA AAATCA AAATCA AAATCA GAATCA AAATCA AAATTA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
96488548 TGAAATAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:96489007 original size:21 final size:21
Alignment explanation
Indices: 96488981--96489020 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
96488971 AACGTGGCAA
*
96488981 GTTAACTTGCCACATCAGCTG
1 GTTAACATGCCACATCAGCTG
96489002 GTTAACATGCCACATCAGC
1 GTTAACATGCCACATCAGC
96489021 AGTCTCGTTA
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:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (21 bp):
GTTAACATGCCACATCAGCTG
Found at i:96490273 original size:19 final size:20
Alignment explanation
Indices: 96490235--96490282 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
96490225 ATTACAAAAT
*
96490235 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTATAAA
96490255 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
96490274 AATTTCAAA
1 AA-TTCAAA
96490283 TTTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:96490287 original size:18 final size:18
Alignment explanation
Indices: 96490235--96490289 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
96490225 ATTACAAAAT
*
96490235 AATTCAAAATAATTTTTAAA
1 AATTCAAAAT--TTTATAAA
96490255 AATTCAAAATATTTATAAA
1 AATTCAAAAT-TTTATAAA
96490274 AATTTC-AAATTTTATA
1 AA-TTCAAAATTTTATA
96490290 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 6 0.18
19 14 0.42
20 13 0.39
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTCAAAATTTTATAAA
Found at i:96490478 original size:16 final size:17
Alignment explanation
Indices: 96490448--96490480 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
96490438 CTTTGAAATA
96490448 GTTTTCAAATATATATG
1 GTTTTCAAATATATATG
*
96490465 GTTTT-AAATTTATATG
1 GTTTTCAAATATATATG
96490481 CTCTAGCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (17 bp):
GTTTTCAAATATATATG
Found at i:96498274 original size:65 final size:65
Alignment explanation
Indices: 96498198--96498329 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
96498188 AGGGTGGTCC
96498198 AAAACTATTGGAATAAAATTTTGTTGTAACTTAAAATAAAGAAAGAAAAAGGCTGGGAGAAAAGA
1 AAAACTATTGGAATAAAATTTTGTTGTAACTTAAAATAAAGAAAGAAAAAGGCTGGGAGAAAAGA
96498263 AAAACTATTGGAATAAAATTTTGTTGTAACTTAAAATAAAGAAAGAAAAAGGCTGGGAGAAAAGA
1 AAAACTATTGGAATAAAATTTTGTTGTAACTTAAAATAAAGAAAGAAAAAGGCTGGGAGAAAAGA
96498328 AA
1 AA
96498330 TATGGAAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.23
Consensus pattern (65 bp):
AAAACTATTGGAATAAAATTTTGTTGTAACTTAAAATAAAGAAAGAAAAAGGCTGGGAGAAAAGA
Found at i:96502220 original size:23 final size:23
Alignment explanation
Indices: 96502193--96502241 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
96502183 GAAAAAATTC
*
96502193 ATATTCATATGAGATTACAGAAA
1 ATATTCATATGAGACTACAGAAA
96502216 ATATTCATATGAGACTACAGAAA
1 ATATTCATATGAGACTACAGAAA
96502239 ATA
1 ATA
96502242 ACATAGCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (23 bp):
ATATTCATATGAGACTACAGAAA
Found at i:96508854 original size:19 final size:19
Alignment explanation
Indices: 96508833--96508948 Score: 103
Period size: 19 Copynumber: 5.8 Consensus size: 19
96508823 AAATTACAAA
96508833 AAAAATT-AAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
96508851 AAAAAATTCAAAGTAATTTT
1 -AAAAATTCAAAATAATTTT
* *
96508871 TAAAATTCAAAATAATTAT
1 AAAAATTCAAAATAATTTT
96508890 AAAAATTCCAAAATTTATATTTT
1 AAAAATT-CAAAA--TA-ATTTT
96508913 AAAAATT-ATAAA-AATTTT
1 AAAAATTCA-AAATAATTTT
*
96508931 AAAATTTTCTAAAATAAT
1 AAAA-ATTC-AAAATAAT
96508949 AATTTTCTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
18 9 0.11
19 32 0.40
20 18 0.22
21 5 0.06
22 5 0.06
23 11 0.14
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:96508990 original size:26 final size:25
Alignment explanation
Indices: 96508930--96508983 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
96508920 ATAAAAATTT
* *
96508930 TAAAATTTTCTAAAATAATAATTTTC
1 TAAAATTTTCTAAAATAAT-ATATAC
96508956 TAAAATTTTCTAAAATAAT-TATAC
1 TAAAATTTTCTAAAATAATATATAC
96508980 TAAA
1 TAAA
96508984 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
26 19 0.73
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAAATTTTCTAAAATAATATATAC
Found at i:96518729 original size:63 final size:66
Alignment explanation
Indices: 96518653--96518777 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 66
96518643 TTTATTAAAT
* *
96518653 TTGTGTGATTAAATATTTATTTCCAT-GTTTTATATGGAT-G-A-AATAATAATAAATTTAAAAA
1 TTGTGTCATTAAAT-TTTATTTCCATGGTTTTATATGAATCGCATAATAATAATAAATTTAAAAA
96518714 AG
65 AG
**
96518716 TTGTGTCATTAAATTTTATTTTGATGGTTTTATATGAATCGCATAATAATAATAAATTTAAA
1 TTGTGTCATTAAATTTTATTTCCATGGTTTTATATGAATCGCATAATAATAATAAATTTAAA
96518778 GTGGTAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
62 9 0.17
63 25 0.46
64 1 0.02
65 1 0.02
66 18 0.33
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (66 bp):
TTGTGTCATTAAATTTTATTTCCATGGTTTTATATGAATCGCATAATAATAATAAATTTAAAAAA
G
Found at i:96538077 original size:22 final size:21
Alignment explanation
Indices: 96538035--96538074 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
96538025 AAATTCATAT
*
96538035 TCATATGAGATTACAGAAATA
1 TCATATGAGACTACAGAAATA
96538056 TCATATGAGACTACAGAAA
1 TCATATGAGACTACAGAAA
96538075 ATAACATAGC
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:0.12, G:0.15, T:0.25
Consensus pattern (21 bp):
TCATATGAGACTACAGAAATA
Found at i:96538082 original size:22 final size:21
Alignment explanation
Indices: 96538036--96538082 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96538026 AATTCATATT
* *
96538036 CATATGAGATTACAGAAATAT
1 CATATGAGACTACAGAAATAA
96538057 CATATGAGACTACAGAAAATAA
1 CATATGAGACTACAG-AAATAA
96538079 CATA
1 CATA
96538083 GCTCTTGCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (21 bp):
CATATGAGACTACAGAAATAA
Found at i:96544631 original size:19 final size:19
Alignment explanation
Indices: 96544598--96544709 Score: 106
Period size: 19 Copynumber: 5.8 Consensus size: 19
96544588 AAAATTACAA
96544598 AAAAATT-AAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
96544616 AAAAATTCAAAGTAATTTT
1 AAAAATTCAAAATAATTTT
* *
96544635 TAAAATTCAAAATAATTAT
1 AAAAATTCAAAATAATTTT
*
96544654 -AAAATTCCAAAATTTATATTT
1 AAAAATT-CAAAA-TAAT-TTT
96544675 AAAAATT-ATAAA-AATTTT
1 AAAAATTCA-AAATAATTTT
*
96544693 AAAATTTCTAAAATAAT
1 AAAAATTC-AAAATAAT
96544710 AATTTTCTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
18 22 0.29
19 36 0.47
20 8 0.10
21 5 0.06
22 6 0.08
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:96544696 original size:39 final size:36
Alignment explanation
Indices: 96544598--96544698 Score: 105
Period size: 39 Copynumber: 2.7 Consensus size: 36
96544588 AAAATTACAA
96544598 AAAAATTAAAATAATTTTAAAAATTCAAAGTAATTTT
1 AAAAATTAAAATAATTTT-AAAATTCAAAGTAATTTT
* * * *
96544635 TAAAATTCAAAATAATTATAAAATTCCAAAATTTATATTT
1 AAAAATT-AAAATAATTTTAAAATT-C-AAAGTAAT-TTT
96544675 AAAAATTATAAA-AATTTTAAAATT
1 AAAAATTA-AAATAATTTTAAAATT
96544699 TCTAAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
37 12 0.23
38 11 0.21
39 18 0.34
40 12 0.23
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (36 bp):
AAAAATTAAAATAATTTTAAAATTCAAAGTAATTTT
Found at i:96544749 original size:25 final size:24
Alignment explanation
Indices: 96544692--96544743 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
96544682 ATAAAAATTT
* *
96544692 TAAAATTTCTAAAATAATAATTTTC
1 TAAAATTTCTAAAATAAT-ATATAC
96544717 TAAAATTTCTAAAATAAT-TATAC
1 TAAAATTTCTAAAATAATATATAC
96544740 TAAA
1 TAAA
96544744 GTATTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
25 18 0.72
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATTTCTAAAATAATATATAC
Found at i:96554473 original size:63 final size:66
Alignment explanation
Indices: 96554397--96554521 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 66
96554387 TTTATTAAAT
* *
96554397 TTGTGTGATTAAATATTTATTTCCAT-GTTTTATATGGAT-G-A-AATAATAATAAATTTAAAAA
1 TTGTGTCATTAAAT-TTTATTTCCATGGTTTTATATGAATCGCATAATAATAATAAATTTAAAAA
96554458 AG
65 AG
**
96554460 TTGTGTCATTAAATTTTATTTTGATGGTTTTATATGAATCGCATAATAATAATAAATTTAAA
1 TTGTGTCATTAAATTTTATTTCCATGGTTTTATATGAATCGCATAATAATAATAAATTTAAA
96554522 GTGGTAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
62 9 0.17
63 25 0.46
64 1 0.02
65 1 0.02
66 18 0.33
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (66 bp):
TTGTGTCATTAAATTTTATTTCCATGGTTTTATATGAATCGCATAATAATAATAAATTTAAAAAA
G
Found at i:96563840 original size:6 final size:6
Alignment explanation
Indices: 96563829--96563857 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
96563819 TGCTAGTATA
96563829 TACATG TACATG TACATG TACATG TACAT
1 TACATG TACATG TACATG TACATG TACAT
96563858 AGTCATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (6 bp):
TACATG
Found at i:96575231 original size:23 final size:23
Alignment explanation
Indices: 96575201--96575248 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
96575191 TCAAAAAGAC
96575201 AGAGAGTCACTAACAATAAATCT
1 AGAGAGTCACTAACAATAAATCT
96575224 AGAGAGTCACTAACAATAAATCT
1 AGAGAGTCACTAACAATAAATCT
96575247 AG
1 AG
96575249 TATTCTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (23 bp):
AGAGAGTCACTAACAATAAATCT
Found at i:96578998 original size:50 final size:50
Alignment explanation
Indices: 96578923--96579099 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
96578913 CCATGGCAAC
*
96578923 AAGTGATAAGTGAGAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
96578973 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
96579023 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
96579073 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
96579100 CTGATCAGTG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 95 0.81
51 23 0.19
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:96579113 original size:31 final size:31
Alignment explanation
Indices: 96579075--96579254 Score: 279
Period size: 31 Copynumber: 5.8 Consensus size: 31
96579065 ACAAATGACA
* *
96579075 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
96579106 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
96579137 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
96579168 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
96579199 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
96579230 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
96579255 AAGTGCCAAG
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 138 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:96579342 original size:47 final size:46
Alignment explanation
Indices: 96579272--96579436 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
96579262 AAGTGATTTT
* *
96579272 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
96579318 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
96579365 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
96579407 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
96579437 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:96579434 original size:88 final size:89
Alignment explanation
Indices: 96579270--96579437 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
96579260 CCAAGTGATT
* * *
96579270 TTCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGACCATATC
1 TTCGTATAAGACCATAGCTGGGATATGGCATC---G-GATATATGATACTGTATAAGACCATAGC
96579335 TGGGATATGGCATCAGTGAGATATGTGA
62 TGGGATATGGCATCAGTGAGATATGTGA
* * *
96579363 TTCGTGTAAGACCATAGCTGGGCTATGGCATC-GATATATGAATA-TGTGTAAGACCATAGCTGG
1 TTCGTATAAGACCATAGCTGGGATATGGCATCGGATATATG-ATACTGTATAAGACCATAGCTGG
*
96579426 GCTATGGCATCA
65 GATATGGCATCA
96579438 TTATGTGAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 36 0.54
89 2 0.03
93 29 0.43
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (89 bp):
TTCGTATAAGACCATAGCTGGGATATGGCATCGGATATATGATACTGTATAAGACCATAGCTGGG
ATATGGCATCAGTGAGATATGTGA
Found at i:96579473 original size:42 final size:42
Alignment explanation
Indices: 96579366--96579463 Score: 162
Period size: 42 Copynumber: 2.3 Consensus size: 42
96579356 TATGTGATTC
*
96579366 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
*
96579408 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
96579450 GTGTAAGACCATAG
1 GTGTAAGACCATAG
96579464 TTGAACTATG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:96586001 original size:17 final size:17
Alignment explanation
Indices: 96585979--96586013 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
96585969 AAATGGGTAC
96585979 AAGTGTATA-AATTAAAA
1 AAGTGTATATAA-TAAAA
96585996 AAGTGTATATAATAAAA
1 AAGTGTATATAATAAAA
96586013 A
1 A
96586014 TAGTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AAGTGTATATAATAAAA
Found at i:96590970 original size:24 final size:24
Alignment explanation
Indices: 96590931--96591000 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
96590921 TATTGACATC
*
96590931 CAAATCAGCACACATAGTGCCATT
1 CAAATCTGCACACATAGTGCCATT
*
96590955 CAATTCTGCACACATAGTGCCATT
1 CAAATCTGCACACATAGTGCCATT
*
96590979 CAAATCTGCACACTTAGTGCCA
1 CAAATCTGCACACATAGTGCCA
96591001 ATGTTGACCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (24 bp):
CAAATCTGCACACATAGTGCCATT
Found at i:96603823 original size:46 final size:46
Alignment explanation
Indices: 96603756--96603848 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
96603746 TGCTAAAAAA
96603756 AGGGGATTTTCTATAAAGTTTGATGAGAAGATGCTTTCAAGTACAT
1 AGGGGATTTTCTATAAAGTTTGATGAGAAGATGCTTTCAAGTACAT
96603802 AGGGGATTTTCTATAAAGTTTGATGAGAAGATGCTTTCAAGTACAT
1 AGGGGATTTTCTATAAAGTTTGATGAGAAGATGCTTTCAAGTACAT
96603848 A
1 A
96603849 ATTTTCTACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (46 bp):
AGGGGATTTTCTATAAAGTTTGATGAGAAGATGCTTTCAAGTACAT
Found at i:96611370 original size:22 final size:22
Alignment explanation
Indices: 96611342--96611384 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
96611332 ATATTAACTG
96611342 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
96611364 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
96611385 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:96615100 original size:22 final size:22
Alignment explanation
Indices: 96615072--96615114 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
96615062 AGGGGGAGTG
96615072 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
96615094 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
96615115 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:96622573 original size:61 final size:61
Alignment explanation
Indices: 96622503--96622625 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
96622493 AGAGGGGTGC
96622503 TGAAAATAGTTGTTCATTGCCTGCTTTCTATGTTTTAAGTCGGCAAAAATCAATGGGGGTA
1 TGAAAATAGTTGTTCATTGCCTGCTTTCTATGTTTTAAGTCGGCAAAAATCAATGGGGGTA
96622564 TGAAAATAGTTGTTCATTGCCTGCTTTCTATGTTTTAAGTCGGCAAAAATCAATGGGGGTA
1 TGAAAATAGTTGTTCATTGCCTGCTTTCTATGTTTTAAGTCGGCAAAAATCAATGGGGGTA
96622625 T
1 T
96622626 CTTTTTGCTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (61 bp):
TGAAAATAGTTGTTCATTGCCTGCTTTCTATGTTTTAAGTCGGCAAAAATCAATGGGGGTA
Found at i:96623370 original size:5 final size:5
Alignment explanation
Indices: 96623360--96623384 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96623350 TGTAGCCCAT
96623360 ATCCC ATCCC ATCCC ATCCC ATCCC
1 ATCCC ATCCC ATCCC ATCCC ATCCC
96623385 CTAACCAAGC
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:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
ATCCC
Found at i:96624098 original size:28 final size:28
Alignment explanation
Indices: 96624065--96624122 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
96624055 AATGCAAATT
*
96624065 TAACGATAATGTGCGAATAAAAAATAAC
1 TAACGATAATGTGCAAATAAAAAATAAC
96624093 TAACGATAATGTGCAAATAAAAAATAAC
1 TAACGATAATGTGCAAATAAAAAATAAC
96624121 TA
1 TA
96624123 TCAAAGGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (28 bp):
TAACGATAATGTGCAAATAAAAAATAAC
Found at i:96631469 original size:20 final size:20
Alignment explanation
Indices: 96631444--96631499 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 20
96631434 TTTTATCTAA
96631444 CTTAATATAAGAATATAACT
1 CTTAATATAAGAATATAACT
* *
96631464 CTTAATAAAAAAATATATAACT
1 CTTAAT-ATAAGA-ATATAACT
96631486 CTTAATATAAGAAT
1 CTTAATATAAGAAT
96631500 TTTAATAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.27
21 8 0.27
22 14 0.47
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (20 bp):
CTTAATATAAGAATATAACT
Found at i:96633619 original size:23 final size:23
Alignment explanation
Indices: 96633585--96633630 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96633575 TAAGAGTATG
96633585 TACATAATATATAGGAAATATAC
1 TACATAATATATAGGAAATATAC
**
96633608 TACAT-ATAATATTTGAAATATAC
1 TACATAAT-ATATAGGAAATATAC
96633631 ATGAAGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (23 bp):
TACATAATATATAGGAAATATAC
Found at i:96633980 original size:29 final size:26
Alignment explanation
Indices: 96633938--96634010 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 26
96633928 TACGTGATAT
*
96633938 ATACATATATATAAAATAAATATTGAAAA
1 ATACATATACATAAAAT--ATA-TGAAAA
*
96633967 ATACATGTACATAAAATATATGAAAA
1 ATACATATACATAAAATATATGAAAA
96633993 AT--ATATACATAATAATAT
1 ATACATATACATAA-AATAT
96634011 TAAAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.22
25 5 0.12
26 8 0.20
27 3 0.08
29 15 0.38
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (26 bp):
ATACATATACATAAAATATATGAAAA
Found at i:96633992 original size:25 final size:24
Alignment explanation
Indices: 96633955--96634017 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
96633945 TATATAAAAT
*
96633955 AAATATTGAAAAATACATGTACATA
1 AAATATTG-AAAATACATATACATA
*
96633980 AAATATATGAAAA-ATATATACATA
1 AAATAT-TGAAAATACATATACATA
96634004 ATAATATT-AAAATA
1 A-AATATTGAAAATA
96634018 AAATGATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 4 0.12
24 12 0.36
25 15 0.45
26 2 0.06
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
AAATATTGAAAATACATATACATA
Found at i:96634248 original size:22 final size:23
Alignment explanation
Indices: 96634190--96634248 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
96634180 ATATACAAAA
*
96634190 ATATAACATTAA-AAATATATAT
1 ATATAATATTAAGAAATATATAT
* *
96634212 ATGTAATATACAAGAAATATATAT
1 ATATAATAT-TAAGAAATATATAT
*
96634236 A-ATAGTATTAAGA
1 ATATAATATTAAGA
96634249 CTAAAAACAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 11 0.38
23 7 0.24
24 11 0.38
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAATATTAAGAAATATATAT
Found at i:96634371 original size:19 final size:21
Alignment explanation
Indices: 96634328--96634372 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
96634318 CACATATGTG
* *
96634328 AATAAGTAATAACATCATTAA
1 AATAAGTAATAACATAATGAA
96634349 AATAAGTAAT-A-ATAATGAA
1 AATAAGTAATAACATAATGAA
96634368 AATAA
1 AATAA
96634373 TAAGATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAAGTAATAACATAATGAA
Found at i:96635112 original size:17 final size:17
Alignment explanation
Indices: 96635090--96635131 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
96635080 GCCAAAATTC
*
96635090 TATTTTTTTTGTTTTTT
1 TATTTTTTTTATTTTTT
96635107 TATTTTTTTTATTTTTT
1 TATTTTTTTTATTTTTT
96635124 TACTTTTT
1 TA-TTTTT
96635132 GCTTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (17 bp):
TATTTTTTTTATTTTTT
Found at i:96635130 original size:9 final size:8
Alignment explanation
Indices: 96635093--96635131 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
96635083 AAAATTCTAT
*
96635093 TTTTTTTG
1 TTTTTTTA
96635101 TTTTTTTA
1 TTTTTTTA
96635109 TTTTTTTTA
1 -TTTTTTTA
96635118 TTTTTTTA
1 TTTTTTTA
96635126 CTTTTT
1 -TTTTT
96635132 GCTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:96635146 original size:9 final size:9
Alignment explanation
Indices: 96635090--96635124 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
96635080 GCCAAAATTC
96635090 TATTTTTTT
1 TATTTTTTT
*
96635099 T-GTTTTTT
1 TATTTTTTT
96635107 TATTTTTTT
1 TATTTTTTT
96635116 TATTTTTTT
1 TATTTTTTT
96635125 ACTTTTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.89
Consensus pattern (9 bp):
TATTTTTTT
Found at i:96636364 original size:88 final size:88
Alignment explanation
Indices: 96636215--96636559 Score: 371
Period size: 88 Copynumber: 3.9 Consensus size: 88
96636205 AAAATAGAAA
* * * ** ** * *
96636215 TTGAAAATAGCTCAGCACGTGAGCAAAGGCTCAACTCATTTCTCGCAATATTAGTTGATTTTTTA
1 TTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
96636280 -AAACAGAATTTGCAAAACAGATT
66 CAAACAGAAATTG-AAAACAGATT
* * *
96636303 TTGAAAATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * *
96636368 -AAAGCATAAATTGAAAAAACATT
66 CAAA-CAGAAATTGAAAACAGATT
*
96636391 AATTGAAAATACCTCAGCA--TG-CCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTT
1 --TTGAAAATACCTCAGCATGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* **
96636452 TGACGAACAGAAATTGAAAAACAGAAA
63 TGACAAACAGAAATTG-AAAACAGATT
* * *
96636479 TTGAAAAGACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTG
1 TTGAAAATACCTCAGCATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
96636543 ACAAACAGAAATTGAAA
65 ACAAACAGAAATTGAAA
96636560 TTACCTCAGC
Statistics
Matches: 215, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
86 16 0.07
87 17 0.08
88 140 0.65
89 25 0.12
90 17 0.08
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (88 bp):
TTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
CAAACAGAAATTGAAAACAGATT
Found at i:96636474 original size:14 final size:14
Alignment explanation
Indices: 96636457--96636485 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96636447 GATTTTGACG
96636457 AACAGAAATTGAAA
1 AACAGAAATTGAAA
96636471 AACAGAAATTGAAA
1 AACAGAAATTGAAA
96636485 A
1 A
96636486 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:96636511 original size:176 final size:176
Alignment explanation
Indices: 96636241--96636724 Score: 472
Period size: 176 Copynumber: 2.8 Consensus size: 176
96636231 ACGTGAGCAA
* * * * * **
96636241 AGGCTCAACTCATTTCTCGCAATATTAGTTGATTTTTTAAAACAGAATTTGCAAAACAGATTTTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTG
* * * * *
96636306 AAAATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA-AA
66 AAAAGACCTCAGCATGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA
*
96636370 AGCATAAATTGAAAAAACATTAATTGAAAATACCTCAGCATGCCTCG
131 A-CAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCATGCCTCG
*
96636417 AGGCTCAACTCACCTT-TCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAAT
1 AGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAAACAGAAAT
*
96636480 TGAAAAGACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGA
64 TGAAAAGACCTCAGCATGTGA-CCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
96636544 CAAACAGAAATTG-------A--AA-T-----TACCTCAGCGTGTCCT-G
128 CAAACAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCATG-CCTCG
* * * * *
96636578 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGAGCAAAAATTGGAAAGCAGA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA----TTTTTGAA-AACAGAAATTGAAAAACAGA
* * * * *
96636643 AATCGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
61 AATTGAAAAGACCTCAGCATGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
96636706 TGACAAACATAAATTGAAA
125 TGACAAACAGAAATTGAAA
96636725 TTACCTCAGC
Statistics
Matches: 262, Mismatches: 29, Indels: 42
0.79 0.09 0.13
Matches are distributed among these distances:
160 2 0.01
161 40 0.15
162 3 0.01
163 2 0.01
164 33 0.13
165 19 0.07
166 39 0.15
167 2 0.01
169 1 0.00
175 5 0.02
176 109 0.42
177 7 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (176 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTG
AAAAGACCTCAGCATGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA
ACAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCATGCCTCG
Found at i:96636603 original size:73 final size:74
Alignment explanation
Indices: 96636465--96636870 Score: 223
Period size: 81 Copynumber: 5.2 Consensus size: 74
96636455 CGAACAGAAA
*
96636465 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCGATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
96636530 GAGTTGATTT
65 GAGTTGATTT
* ** * *
96636540 TTGACAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-AAGGCTCAACTCACCTCTCGCAATAT
96636603 GAGTTGATTTTTTT
65 GAGTTGA----TTT
* * * * ** * * *
96636617 TTGAAGAGCAAAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
1 TTGAAAAACAGAAATT-GAAA--AG--A-C----CT-CAGCAGTGAG-CC-AAGGCTCAACTCAC
*
96636682 CTATCGCAATATGAGTTGATTTT
53 CTCTCGCAATATGAGTTGA-TTT
* * ** * * * *
96636705 TTGACAAACATAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCCCAACTCACCTCTCGCAACAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-AAGGCTCAACTCACCTCTCGCAATAT
*
96636768 GAGTTGGTTTTT
65 GAGTT-G-ATTT
* * *
96636780 TTGAAAAGCAGAAGCAGAAATTGAAAATACCTCAGC-GTG-CCCTGAGGCTCAACTCACCTCTCG
1 TTG--AA--A-AA-CAGAAATTGAAAAGACCTCAGCAGTGAGCC-AAGGCTCAACTCACCTCTCG
*
96636843 CAATATGAGTTGA-AT
59 CAATATGAGTTGATTT
*
96636858 TTGAAAAGCAGAA
1 TTGAAAAACAGAA
96636871 GTAAAACATC
Statistics
Matches: 262, Mismatches: 42, Indels: 57
0.73 0.12 0.16
Matches are distributed among these distances:
72 7 0.03
73 35 0.13
74 32 0.12
75 34 0.13
76 4 0.02
77 18 0.07
78 9 0.03
79 1 0.00
80 3 0.01
81 55 0.21
82 2 0.01
83 2 0.01
87 5 0.02
88 18 0.07
89 2 0.01
91 35 0.13
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTT
Found at i:96636738 original size:165 final size:161
Alignment explanation
Indices: 96636384--96636855 Score: 608
Period size: 165 Copynumber: 3.0 Consensus size: 161
96636374 TAAATTGAAA
* * * *
96636384 AAACATTAATTGAAAATACCTCAGCATG-CCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTG
1 AAACATAAATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * * * * *
96636448 A---TTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-AAGGC
65 ATTTTTTTGAAGAGCA-AAATTGGAAAGCAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGC
*
96636509 TCAACTCACCTCTCGCGATATGAGTTGATTTTTGAC
126 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
*
96636545 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
96636610 TTTTTTTTTGAAGAGCAAAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTC
66 --TTTTTTTGAAGAGC-AAAATTGGAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTC
*
96636675 AACTCACCTATCGCAATATGAGTTGATTTTTTGAC
128 AACTCACCTCTCGCAATATGAGTTGA-TTTTTGAC
* * *
96636710 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTGG
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
96636775 TTTTTTTGAAAAGC---A---G-AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
66 TTTTTTTGAAGAGCAAAATTGGAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
96636833 TCACCTCTCGCAATATGAGTTGA
131 TCACCTCTCGCAATATGAGTTGA
96636856 ATTTGAAAAG
Statistics
Matches: 280, Mismatches: 22, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
155 63 0.22
156 1 0.00
159 1 0.00
161 56 0.20
162 3 0.01
163 15 0.05
164 33 0.12
165 69 0.25
166 38 0.14
167 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (161 bp):
AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAGAGCAAAATTGGAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAC
Found at i:96636773 original size:74 final size:78
Alignment explanation
Indices: 96636636--96636855 Score: 313
Period size: 81 Copynumber: 2.8 Consensus size: 78
96636626 AAAAATTGGA
* *
96636636 AAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
96636701 TTTTTTG-A-CA-
66 TTTTTTGAAGCAG
* * * * *
96636711 AA-CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTGG
1 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G
*
96636775 TTTTTTTGAAAAGCAG
65 ATTTTTTG--AAGCAG
96636791 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
96636856 ATTTGAAAAG
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
74 53 0.43
75 10 0.08
78 1 0.01
79 2 0.02
80 3 0.02
81 55 0.44
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (78 bp):
AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGAAGCAG
Found at i:96648963 original size:23 final size:23
Alignment explanation
Indices: 96648929--96648974 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96648919 TAAGAGTATG
96648929 TACATAATATATAGGAAATATAC
1 TACATAATATATAGGAAATATAC
**
96648952 TACAT-ATAATATTTGAAATATAC
1 TACATAAT-ATATAGGAAATATAC
96648975 ATGAAGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (23 bp):
TACATAATATATAGGAAATATAC
Found at i:96649324 original size:29 final size:26
Alignment explanation
Indices: 96649282--96649354 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
96649272 TACGTGATAT
*
96649282 ATACATATATATAAAATAAATATTGAAAA
1 ATACATATACATAAAAT--ATA-TGAAAA
* *
96649311 ATACATGTACATAACATATATGAAAA
1 ATACATATACATAAAATATATGAAAA
96649337 AT--ATATACATAATAATAT
1 ATACATATACATAA-AATAT
96649355 TAAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.24
25 4 0.11
26 8 0.21
27 3 0.08
29 14 0.37
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (26 bp):
ATACATATACATAAAATATATGAAAA
Found at i:96650473 original size:1 final size:1
Alignment explanation
Indices: 96650467--96650518 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
96650457 CAAAATTCTA
* * ** * *
96650467 TTTTTTTTGTTTTTTTTTTATTTTTTTTTTGCTTTTTGTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
96650519 GGTATTTGTT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:96650495 original size:22 final size:24
Alignment explanation
Indices: 96650467--96650518 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
96650457 CAAAATTCTA
96650467 TTTTTTTTG-TTTT-TTTTTTATT
1 TTTTTTTTGCTTTTGTTTTTTATT
96650489 TTTTTTTTGCTTTTTGTTTTTTATT
1 TTTTTTTTGC-TTTTGTTTTTTATT
96650514 TTTTT
1 TTTTT
96650519 GGTATTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.33
24 4 0.15
25 14 0.52
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.88
Consensus pattern (24 bp):
TTTTTTTTGCTTTTGTTTTTTATT
Found at i:96650519 original size:22 final size:22
Alignment explanation
Indices: 96650468--96650538 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
96650458 AAAATTCTAT
*
96650468 TTTTTTTGTTTTT-TTTTTATTT
1 TTTTTTTGTTTTTGTTTTTA-TA
96650490 TTTTTTTGCTTTTTGTTTTT-TA
1 TTTTTTTG-TTTTTGTTTTTATA
* **
96650512 TTTTTTTGGTATTTGTTAATATA
1 TTTTTTT-GTTTTTGTTTTTATA
96650535 TTTT
1 TTTT
96650539 ATGTGTATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 24 0.59
23 12 0.29
24 5 0.12
ACGTcount: A:0.10, C:0.01, G:0.08, T:0.80
Consensus pattern (22 bp):
TTTTTTTGTTTTTGTTTTTATA
Found at i:96650526 original size:29 final size:29
Alignment explanation
Indices: 96650470--96650526 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
96650460 AATTCTATTT
** *
96650470 TTTTTGTTTTTTTTTTATTTTTTTTTTGC
1 TTTTTGTTTTTTTTTTATTTGGTATTTGC
96650499 TTTTTGTTTTTTATTTT-TTTGGTATTTG
1 TTTTTGTTTTTT-TTTTATTTGGTATTTG
96650527 TTAATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.82
Consensus pattern (29 bp):
TTTTTGTTTTTTTTTTATTTGGTATTTGC
Found at i:96664502 original size:68 final size:68
Alignment explanation
Indices: 96664389--96664526 Score: 222
Period size: 68 Copynumber: 2.0 Consensus size: 68
96664379 CCAGGGACTA
* * *
96664389 TAACACCCCTTGCCCGACCTGATTGCCGGGTCTAAGCTACTAAATGTTACAATCATTGCCAGAAC
1 TAACACCCCTCGCCCGACCTGATTACCGGGTCTAAGCTACGAAATGTTACAATCATTGCCAGAAC
96664454 AAC
66 AAC
* * *
96664457 TAACACCCCTCGCCCGACCTGATTACCGGGTCTGAGCTACGAAATGTTACAATCGTTGCCGGAAC
1 TAACACCCCTCGCCCGACCTGATTACCGGGTCTAAGCTACGAAATGTTACAATCATTGCCAGAAC
96664522 AAC
66 AAC
96664525 TA
1 TA
96664527 CCGTCAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (68 bp):
TAACACCCCTCGCCCGACCTGATTACCGGGTCTAAGCTACGAAATGTTACAATCATTGCCAGAAC
AAC
Found at i:96682262 original size:12 final size:12
Alignment explanation
Indices: 96682242--96682283 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
96682232 TCCACATAAC
96682242 TAAAAATACAAA
1 TAAAAATACAAA
*
96682254 TACAAATACAAA
1 TAAAAATACAAA
*
96682266 TAAAAATAAAAAA
1 TAAAAAT-ACAAA
96682279 TAAAA
1 TAAAA
96682284 TGACAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAATACAAA
Found at i:96687447 original size:11 final size:11
Alignment explanation
Indices: 96687431--96687459 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
96687421 CAACGATTAA
96687431 CACAAAATAAT
1 CACAAAATAAT
96687442 CACAAAATAAT
1 CACAAAATAAT
96687453 CACAAAA
1 CACAAAA
96687460 AGAGATGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.14
Consensus pattern (11 bp):
CACAAAATAAT
Found at i:96692651 original size:30 final size:29
Alignment explanation
Indices: 96692599--96692669 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 29
96692589 TAAATTTATT
96692599 AAAATAAAAACATTAAATTTAAAT-TTTAA
1 AAAATAAAAA-ATTAAATTTAAATATTTAA
96692628 AAAATAAAAAATTATAATATTAAATATTTAA
1 AAAATAAAAAATTA-AAT-TTAAATATTTAA
* *
96692659 ATATTAAAAAA
1 AAAATAAAAAA
96692670 CATTTTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.11
29 13 0.35
30 6 0.16
31 14 0.38
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATAAAAAATTAAATTTAAATATTTAA
Found at i:96692663 original size:15 final size:15
Alignment explanation
Indices: 96692611--96692666 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
96692601 AATAAAAACA
96692611 TTAAAT-TTAAAT-T
1 TTAAATATTAAATAT
* * * *
96692624 TTAAAAAATAAAAAA
1 TTAAATATTAAATAT
96692639 TTATAATATTAAATAT
1 TTA-AATATTAAATAT
96692655 TTAAATATTAAA
1 TTAAATATTAAA
96692667 AAACATTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 5 0.16
14 4 0.12
15 12 0.38
16 11 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATATTAAATAT
Found at i:96717869 original size:44 final size:45
Alignment explanation
Indices: 96717821--96717906 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
96717811 GAATTATTCT
*
96717821 TGTCTCCAATGCCATA-TATAATATGAACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATTATAATATGAACTTACATGGCTCAATCC
* *
96717865 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA-TTATAATATGAACTTACATGGCTCA
96717907 TTTCTGTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 15 0.41
46 22 0.59
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (45 bp):
TGTCTCCAAAGCCATATTATAATATGAACTTACATGGCTCAATCC
Found at i:96725014 original size:47 final size:47
Alignment explanation
Indices: 96724945--96725070 Score: 252
Period size: 47 Copynumber: 2.7 Consensus size: 47
96724935 GGATGGTTGA
96724945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
96724992 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
96725039 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
96725071 ACTTATGGAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96727819 original size:43 final size:45
Alignment explanation
Indices: 96727753--96727859 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 45
96727743 ATTCTTTGAC
** * * *
96727753 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TAT-AT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
*
96727796 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA-TTATAAT
96727842 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96727860 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 33 0.60
45 2 0.04
46 20 0.36
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:96740812 original size:46 final size:44
Alignment explanation
Indices: 96740708--96740815 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
96740698 TGTCTTTGAC
** * * *
96740708 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
96740752 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
96740798 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96740816 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:96747942 original size:47 final size:47
Alignment explanation
Indices: 96747873--96747998 Score: 252
Period size: 47 Copynumber: 2.7 Consensus size: 47
96747863 GGATGGTTGA
96747873 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
96747920 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
96747967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
96747999 ACTTATGGAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96750898 original size:44 final size:45
Alignment explanation
Indices: 96750845--96750947 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
96750835 TTTCTTTGAC
* * * *
96750845 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
96750889 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
96750935 ATGGACTTACATG
1 ATGGACTTACATG
96750948 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:96750946 original size:46 final size:44
Alignment explanation
Indices: 96750867--96750952 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
96750857 GAATTATTCT
*
96750867 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
96750911 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
96750953 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:96752978 original size:21 final size:21
Alignment explanation
Indices: 96752953--96752996 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
96752943 TTGTAAAGTT
96752953 TAGTCACATTTTGTATCGAGG
1 TAGTCACATTTTGTATCGAGG
96752974 TAGTCACATTTTGTATCGAGG
1 TAGTCACATTTTGTATCGAGG
96752995 TA
1 TA
96752997 AGTTTACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (21 bp):
TAGTCACATTTTGTATCGAGG
Found at i:96753257 original size:46 final size:48
Alignment explanation
Indices: 96753184--96753286 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 48
96753174 GACAGAACAT
* **
96753184 GACAGAAATGAGCCATGTAAGTTCATA-T-CAGATATATGGCT-TTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGG-TATTGGA
* *
96753230 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGTATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGTATTGGA
96753278 GACAGGAAT
1 GACAGGAAT
96753287 AATTCATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 24 0.49
47 2 0.04
48 23 0.47
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGTATTGGA
Found at i:96762898 original size:20 final size:21
Alignment explanation
Indices: 96762861--96762899 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96762851 AAAAGATTGA
96762861 AAAAAATAAAATATAAATGGT
1 AAAAAATAAAATATAAATGGT
* *
96762882 AAAAATTAAATTA-AAATG
1 AAAAAATAAAATATAAATG
96762900 ATGTGGGGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (21 bp):
AAAAAATAAAATATAAATGGT
Found at i:96785152 original size:37 final size:37
Alignment explanation
Indices: 96785082--96785154 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
96785072 ATAAAAATAA
*
96785082 ATAATTTAACTATATTTTAATATAATTATTATTAAAT
1 ATAATTTAACTACATTTTAATATAATTATTATTAAAT
96785119 ATAATTTAA-TAACATTCTTAATATAATTA-TATTAAA
1 ATAATTTAACT-ACATT-TTAATATAATTATTATTAAA
96785155 ATGTTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 1 0.03
37 20 0.61
38 12 0.36
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (37 bp):
ATAATTTAACTACATTTTAATATAATTATTATTAAAT
Found at i:96785190 original size:17 final size:17
Alignment explanation
Indices: 96785145--96785192 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
96785135 CTTAATATAA
* *
96785145 TTATATTAAAATGTTTT
1 TTATATTTAAATATTTT
*
96785162 TTAT-TTT-TATATTTT
1 TTATATTTAAATATTTT
96785177 TTATATTTAAATATTT
1 TTATATTTAAATATTT
96785193 AAATAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.40
16 5 0.20
17 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTATATTTAAATATTTT
Found at i:96788790 original size:20 final size:20
Alignment explanation
Indices: 96788748--96788792 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
96788738 TTTAATCGTA
* *
96788748 TAAAAATTAATTTGTCATTT
1 TAAAAATTAATATATCATTT
96788768 TAAAAATTAATATAT-ATTGT
1 TAAAAATTAATATATCATT-T
96788788 TAAAA
1 TAAAA
96788793 CTAAACTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
TAAAAATTAATATATCATTT
Found at i:96799798 original size:51 final size:51
Alignment explanation
Indices: 96799722--96799933 Score: 343
Period size: 51 Copynumber: 4.2 Consensus size: 51
96799712 CTGATCACAT
96799722 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * * *
96799773 TTATCACTTGTCATTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
96799824 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * * *
96799875 TTATCACTTGCCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATAAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
96799926 TTGTCACT
1 TTATCACT
96799934 GATCAGAAGT
Statistics
Matches: 148, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 148 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:96799837 original size:102 final size:102
Alignment explanation
Indices: 96799719--96799922 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
96799709 ACACTGATCA
*
96799719 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGC
96799784 CATTGATCAAATAAGTGTAGCTAAAGCTACCACTTAT
66 CATTGATCAAATAAGTGTAGCTAAAGCTACCACTTAT
96799821 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGC
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGC
*
96799886 CATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CATTGATCAAATAAGTGTAGCTAAAGCTACCACTTAT
96799923 AACTTGTCAC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGC
CATTGATCAAATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:96811315 original size:47 final size:47
Alignment explanation
Indices: 96811206--96811316 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
96811196 CCGGGATAAG
*
96811206 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * * *
96811253 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
96811300 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
96811317 ACTCAATATC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:96812088 original size:4 final size:4
Alignment explanation
Indices: 96812079--96812111 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
96812069 CCCTTTTCTA
96812079 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
96812112 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:96812152 original size:16 final size:16
Alignment explanation
Indices: 96812131--96812163 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96812121 TCTCTGTAAC
96812131 TCTTTCTATCTTTTTT
1 TCTTTCTATCTTTTTT
*
96812147 TCTTTCTTTCTTTTTT
1 TCTTTCTATCTTTTTT
96812163 T
1 T
96812164 TAACTTACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTTCTATCTTTTTT
Found at i:96817038 original size:46 final size:46
Alignment explanation
Indices: 96816971--96817192 Score: 229
Period size: 46 Copynumber: 4.8 Consensus size: 46
96816961 TGTAACCCGC
*
96816971 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CGTTCGCAT
* * * *
96817017 CCATAAGTGAACACTGACTCAACTCAACGAGCTCAGATACCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GA-C--GTTCGCAT
* * * *
96817067 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
96817110 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
96817156 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
96817193 TGCCCAAATA
Statistics
Matches: 145, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 3 0.02
46 100 0.69
47 24 0.17
48 2 0.01
49 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:96818706 original size:46 final size:48
Alignment explanation
Indices: 96818602--96818721 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
96818592 TGACTTCGAC
** * *
96818602 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATCTAAT
* *
96818650 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATAT-T-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATCTAAT
*
96818696 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
96818722 ATGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.42
47 1 0.02
48 36 0.56
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATCTAAT
Found at i:96823630 original size:43 final size:43
Alignment explanation
Indices: 96823564--96823782 Score: 361
Period size: 43 Copynumber: 5.1 Consensus size: 43
96823554 CCAGCATTAC
*
96823564 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
96823607 GCCTGCTAGGCACGAAGGGCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
96823650 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
96823693 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
96823736 GCCTGCTAGGTACGAAGGCCTGAATATA-AT-ACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
96823777 GCCTGC
1 GCCTGC
96823783 GGGTCTTTAA
Statistics
Matches: 167, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 16 0.10
42 2 0.01
43 149 0.89
ACGTcount: A:0.31, C:0.32, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:96826709 original size:30 final size:29
Alignment explanation
Indices: 96826667--96826723 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
96826657 AAAGATAACA
* *
96826667 AGAAAGCCGAATAAAGAAATCCAAGATTG
1 AGAAACCCGAATAAAGAAACCCAAGATTG
96826696 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAACCC-GAATAAAGAAACCCAAGAT
96826724 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.54, C:0.18, G:0.18, T:0.11
Consensus pattern (29 bp):
AGAAACCCGAATAAAGAAACCCAAGATTG
Found at i:96827352 original size:23 final size:23
Alignment explanation
Indices: 96827326--96827370 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
96827316 AAGTAAATTT
96827326 ATTCTTTAACTGGGATAGTACAC
1 ATTCTTTAACTGGGATAGTACAC
96827349 ATTCTTTAACTGGGATAGTACA
1 ATTCTTTAACTGGGATAGTACA
96827371 TAGCTCCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (23 bp):
ATTCTTTAACTGGGATAGTACAC
Found at i:96829879 original size:46 final size:46
Alignment explanation
Indices: 96829729--96829939 Score: 162
Period size: 46 Copynumber: 4.6 Consensus size: 46
96829719 TGTAACCCGC
* * ****
96829729 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCACAT
*
96829775 CCATAAGTGAACTCGGACTC-ACTCAACAAGCTCGGATACCCAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-A--CA-TTCACAT
* * * **
96829824 -C-TCA-CGAACTCGGACCCAACTCAACGAGCTCGAACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCACAT
* * * ** *
96829867 CCATAAGTGAACTCGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCACAT
* *
96829913 CCATAAGTGAAATCAGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
96829940 TGAGTTCGGA
Statistics
Matches: 132, Mismatches: 23, Indels: 20
0.75 0.13 0.11
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
44 1 0.01
45 15 0.11
46 88 0.67
47 14 0.11
48 1 0.01
49 4 0.03
50 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCACAT
Found at i:96837351 original size:24 final size:24
Alignment explanation
Indices: 96837295--96837357 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
96837285 ATCCGGGCTG
*
96837295 TATAACAGGAAGCTCATAAGAGCC
1 TATAACAAGAAGCTCATAAGAGCC
* **
96837319 -ATATTCAAGAAGCTCATGCGAGCC
1 TATA-ACAAGAAGCTCATAAGAGCC
*
96837343 TATAACAAGTAGCTC
1 TATAACAAGAAGCTC
96837358 TGAAGAACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (24 bp):
TATAACAAGAAGCTCATAAGAGCC
Found at i:96844664 original size:12 final size:13
Alignment explanation
Indices: 96844647--96844683 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
96844637 GAACCGGACA
96844647 CGAACCGAA-CTC
1 CGAACCGAAGCTC
96844659 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
96844671 CGAACCGTAGCTC
1 CGAACCGAAGCTC
96844684 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:96868847 original size:63 final size:63
Alignment explanation
Indices: 96868778--96868903 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
96868768 GAAGAAGTCA
96868778 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
1 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
96868841 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
1 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
96868904 TTTTTCTTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (63 bp):
CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
Found at i:96875776 original size:17 final size:17
Alignment explanation
Indices: 96875754--96875787 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96875744 TTGATATATT
96875754 TTATTTAAATATTAACA
1 TTATTTAAATATTAACA
*
96875771 TTATTTAAATCTTAACA
1 TTATTTAAATATTAACA
96875788 AGTTCTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATTTAAATATTAACA
Found at i:96894035 original size:13 final size:13
Alignment explanation
Indices: 96894017--96894043 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96894007 CATTGGCTTT
96894017 TCTAGAAGTCTGA
1 TCTAGAAGTCTGA
96894030 TCTAGAAGTCTGA
1 TCTAGAAGTCTGA
96894043 T
1 T
96894044 GTCTCTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TCTAGAAGTCTGA
Found at i:96897776 original size:18 final size:17
Alignment explanation
Indices: 96897748--96897782 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96897738 ATTATTAAGA
*
96897748 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96897765 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96897783 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:96897803 original size:120 final size:120
Alignment explanation
Indices: 96897657--96898039 Score: 757
Period size: 120 Copynumber: 3.2 Consensus size: 120
96897647 TTTTCAAGTT
*
96897657 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
96897722 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
96897777 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
96897842 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
96897897 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
96897962 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
96898017 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
96898040 TAAATATGAT
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 262 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:96897896 original size:18 final size:17
Alignment explanation
Indices: 96897868--96897902 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96897858 ATTATTAAGA
*
96897868 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96897885 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96897903 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:96898016 original size:18 final size:17
Alignment explanation
Indices: 96897988--96898022 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96897978 ATTATTAAGA
*
96897988 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96898005 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96898023 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:96898279 original size:16 final size:16
Alignment explanation
Indices: 96898258--96898325 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
96898248 GATTTGCTAT
96898258 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
96898274 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
96898290 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
96898306 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
96898322 TACA
1 TACA
96898326 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:96898703 original size:36 final size:36
Alignment explanation
Indices: 96898656--96898729 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
96898646 GTCCACCATT
96898656 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
1 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
96898692 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
1 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
96898728 AG
1 AG
96898730 ACAGCTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (36 bp):
AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
Found at i:96902173 original size:22 final size:22
Alignment explanation
Indices: 96902143--96902184 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
96902133 ACAGTTTTTA
*
96902143 AATAATTTTTATAAATAAATTT
1 AATAATTTTAATAAATAAATTT
* *
96902165 AATATTTTTAATTAATAAAT
1 AATAATTTTAATAAATAAAT
96902185 ACAATTAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATTTTAATAAATAAATTT
Found at i:96907753 original size:181 final size:180
Alignment explanation
Indices: 96907407--96907941 Score: 1011
Period size: 181 Copynumber: 3.0 Consensus size: 180
96907397 GGAGATTTCG
96907407 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
*
96907472 TGATCTTTCCGAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
96907537 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
96907587 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
96907652 TGATCTTTCCAAGTGTTAAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTAC
66 TGATCTTTCCAAGTGTT-AATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTAC
*
96907717 ACCGATACTAGCTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
130 ACCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
96907768 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
96907833 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAA-C-CACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
* *
96907896 CCGAAACTAGTTTCATACTAGCAGGTTATGTTACAATTTGTAAAAC
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAAC
96907942 ATTATACTGA
Statistics
Matches: 349, Mismatches: 5, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
178 54 0.15
179 1 0.00
180 115 0.33
181 179 0.51
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (180 bp):
AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
Found at i:96911872 original size:39 final size:38
Alignment explanation
Indices: 96911802--96911886 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
96911792 TATTTCTATA
* *
96911802 TATAAAAATACCAAATTTGTTTTTTTATTAGGTATTTT
1 TATAAAAATACCAAAATTATTTTTTTATTAGGTATTTT
* * * *
96911840 TATAACAATATCAAAATTATTTATTTTGTTAGGTCTTTT
1 TATAAAAATACCAAAATTATTT-TTTTATTAGGTATTTT
96911879 CT-TAAAAA
1 -TATAAAAA
96911887 GAATGAACCT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 18 0.47
39 19 0.50
40 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (38 bp):
TATAAAAATACCAAAATTATTTTTTTATTAGGTATTTT
Found at i:96913288 original size:21 final size:21
Alignment explanation
Indices: 96913262--96913302 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
96913252 AATTAAAAAG
96913262 TATGATAAATTTTAAAATAAT
1 TATGATAAATTTTAAAATAAT
96913283 TATGATAAATTTTAAAATAA
1 TATGATAAATTTTAAAATAA
96913303 ATTTTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TATGATAAATTTTAAAATAAT
Found at i:96916982 original size:20 final size:20
Alignment explanation
Indices: 96916957--96916994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96916947 CACATATGAA
96916957 ATAAATTATTAT-ATAATTAT
1 ATAAA-TATTATGATAATTAT
96916977 ATAAATATTATGATAATT
1 ATAAATATTATGATAATT
96916995 TTATCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATAAATATTATGATAATTAT
Found at i:96917198 original size:13 final size:14
Alignment explanation
Indices: 96917172--96917207 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
96917162 GAAAAAAATG
96917172 AAATTAATATTTTA
1 AAATTAATATTTTA
*
96917186 ACATTAA-ATTTTA
1 AAATTAATATTTTA
96917199 AAATTAATA
1 AAATTAATA
96917208 GATAATTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTAATATTTTA
Found at i:96920443 original size:16 final size:16
Alignment explanation
Indices: 96920424--96920463 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
96920414 TGAATGTAAA
*
96920424 AAAATATTTTTATTTT
1 AAAATATTTATATTTT
*
96920440 AAAATAATTATATTTT
1 AAAATATTTATATTTT
*
96920456 AGAATATT
1 AAAATATT
96920464 AAGTTTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AAAATATTTATATTTT
Done.