Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 39 of 362
Found at i:11489352 original size:7 final size:7
Alignment explanation
Indices: 11489340--11489375 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
11489330 TTTTTAGTTC
11489340 TCATTTT
1 TCATTTT
11489347 TCATTTT
1 TCATTTT
11489354 TCATTTT
1 TCATTTT
11489361 TCATTTT
1 TCATTTT
11489368 TCATTTT
1 TCATTTT
11489375 T
1 T
11489376 GAAATTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TCATTTT
Found at i:11489524 original size:9 final size:9
Alignment explanation
Indices: 11489512--11489628 Score: 69
Period size: 10 Copynumber: 12.4 Consensus size: 9
11489502 TATGAATATG
11489512 TTATAAAAA
1 TTATAAAAA
*
11489521 TTAT-ACAA
1 TTATAAAAA
11489529 TTATAGAAAA
1 TTATA-AAAA
* * *
11489539 TCAGAAATA
1 TTATAAAAA
*
11489548 TTATTAAATA
1 TTA-TAAAAA
*
11489558 TTACTAAAACT
1 TTA-TAAAA-A
11489569 TTATGAAAAA
1 TTAT-AAAAA
*
11489579 -TATGAAATTA
1 TTAT-AAA-AA
11489589 TTATAAAAA
1 TTATAAAAA
*
11489598 TT-TAGAAA
1 TTATAAAAA
11489606 TTATAGAAAA
1 TTATA-AAAA
11489616 TTATAAAAA
1 TTATAAAAA
11489625 TTAT
1 TTAT
11489629 TACAGCGAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
8 14 0.17
9 29 0.35
10 31 0.37
11 10 0.12
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:11489605 original size:20 final size:20
Alignment explanation
Indices: 11489569--11489630 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 20
11489559 TACTAAAACT
*
11489569 TTATGAAAAATAT-GAAATTA
1 TTAT-AAAAATTTAGAAATTA
11489589 TTATAAAAATTTAGAAATTA
1 TTATAAAAATTTAGAAATTA
* *
11489609 -TA-GAAAATTATAAAAATTA
1 TTATAAAAATT-TAGAAATTA
11489628 TTA
1 TTA
11489631 CAGCGAAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.17
19 17 0.47
20 13 0.36
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (20 bp):
TTATAAAAATTTAGAAATTA
Found at i:11489608 original size:17 final size:19
Alignment explanation
Indices: 11489588--11489628 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11489578 ATATGAAATT
*
11489588 ATTATA-AAAATT-TAGAA
1 ATTATAGAAAATTATAAAA
11489605 ATTATAGAAAATTATAAAA
1 ATTATAGAAAATTATAAAA
11489624 ATTAT
1 ATTAT
11489629 TACAGCGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTATAGAAAATTATAAAA
Found at i:11496416 original size:49 final size:49
Alignment explanation
Indices: 11496344--11496441 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
11496334 TCAGTCACAG
11496344 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
1 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
11496393 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
1 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
11496442 TCGAGACATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (49 bp):
AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
Found at i:11499242 original size:27 final size:26
Alignment explanation
Indices: 11499212--11499274 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11499202 AGACAATTAG
11499212 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
11499239 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
11499266 AATATAAAT
1 AATA-AAAT
11499275 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:11499261 original size:15 final size:15
Alignment explanation
Indices: 11499241--11499270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11499231 ATAATCCTAA
*
11499241 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11499256 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11499271 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11500859 original size:5 final size:5
Alignment explanation
Indices: 11500849--11500894 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
11500839 TTAATATCTG
*
11500849 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAA AATAAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AAT
11500895 TTGGGTTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.09
4 4 0.11
5 23 0.66
6 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:11500865 original size:13 final size:14
Alignment explanation
Indices: 11500849--11500892 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
11500839 TTAATATCTG
11500849 AATAAAATAAAAT-
1 AATAAAATAAAATA
*
11500862 AATAAGATAAAATA
1 AATAAAATAAAATA
11500876 AATAAAATAAAAATA
1 AATAAAAT-AAAATA
11500891 AA
1 AA
11500893 ATTTGGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 12 0.44
14 7 0.26
15 8 0.30
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:11500880 original size:22 final size:20
Alignment explanation
Indices: 11500853--11500894 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
11500843 TATCTGAATA
11500853 AAATAAAATAATAAGATAAAAT
1 AAATAAAATAA-AA-ATAAAAT
11500875 AAATAAAATAAAAATAAAAT
1 AAATAAAATAAAAATAAAAT
11500895 TTGGGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAAAATAAAAATAAAAT
Found at i:11504010 original size:30 final size:30
Alignment explanation
Indices: 11503915--11504011 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
11503905 AGCTCACTCC
* *
11503915 TAGCTC-ACTTTCAACTCACGAGCTAAAGTT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
11503945 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
11503975 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
11504005 TAGCTCA
1 TAGCTCA
11504012 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 3 0.06
30 39 0.80
31 7 0.14
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:11508997 original size:20 final size:20
Alignment explanation
Indices: 11508959--11508999 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11508949 TAAATTTTAA
* **
11508959 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
11508979 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
11508999 A
1 A
11509000 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:11509031 original size:27 final size:26
Alignment explanation
Indices: 11509001--11509063 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11508991 AGATAATTAG
11509001 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
11509028 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
11509055 AATATAAAT
1 AATA-AAAT
11509064 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:11509050 original size:15 final size:15
Alignment explanation
Indices: 11509030--11509059 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11509020 ATAATCCTAA
*
11509030 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11509045 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11509060 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11514707 original size:26 final size:26
Alignment explanation
Indices: 11514671--11514727 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
11514661 ATGAAATTTC
11514671 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
11514697 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
11514723 TATCA
1 TATCA
11514728 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:11518846 original size:8 final size:8
Alignment explanation
Indices: 11518833--11518858 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11518823 AATAATATAT
11518833 TTATTTTC
1 TTATTTTC
11518841 TTATTTTC
1 TTATTTTC
11518849 TTATTTTC
1 TTATTTTC
11518857 TT
1 TT
11518859 TTAAAACGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTC
Found at i:11519875 original size:154 final size:156
Alignment explanation
Indices: 11519708--11519998 Score: 550
Period size: 158 Copynumber: 1.9 Consensus size: 156
11519698 TGTTATGTGT
11519708 AGATTTAATGTGTTAAGT-GTG-TTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGG
1 AGATTTAATGTGTTAAGTAGTGTTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGG
11519771 AAAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAA
66 AAAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAA
11519836 ATGTTGATTGATGTAAATCCTTTAGC
131 ATGTTGATTGATGTAAATCCTTTAGC
11519862 AGATTTAATGTGTTAAGTGAAGTGTTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGG
1 AGATTTAATGTGTTAAGT--AGTGTTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGG
11519927 GGAAAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGA
64 GGAAAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGA
11519992 AAATGTT
129 AAATGTT
11519999 TCGCCTTAAA
Statistics
Matches: 133, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 18 0.14
157 3 0.02
158 112 0.84
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (156 bp):
AGATTTAATGTGTTAAGTAGTGTTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGG
AAAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAA
ATGTTGATTGATGTAAATCCTTTAGC
Found at i:11520028 original size:158 final size:151
Alignment explanation
Indices: 11519712--11520032 Score: 502
Period size: 158 Copynumber: 2.1 Consensus size: 151
11519702 ATGTGTAGAT
11519712 TTAATGTGTTAAGTGTGTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGGAAAAGT
1 TTAATGTGTTAAGTGTGTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGGAAAAGT
11519777 GTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAAATGTTG
66 GTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAAATGTTG
*
11519842 ATTGATGTAAATCCTTTAGCAGA
131 ATTAATGTAAATCCTTTAGC--A
11519865 TTTAATGTGTTAAGTGAAGTGTTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGGA
1 -TTAATGTGTTAAGT---GTG-TTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGGA
11519930 AAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAAA
61 AAAGTGTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAAA
* *
11519995 TGTTTCGCCTTAAATTTAAATCCTTTAGC-
126 TG-TT-G-ATT-AATGTAAATCCTTTAGCA
11520024 TTAAT-TGTT
1 TTAATGTGTT
11520033 TAGATGAGAT
Statistics
Matches: 156, Mismatches: 3, Indels: 13
0.91 0.02 0.08
Matches are distributed among these distances:
154 14 0.09
157 7 0.04
158 115 0.74
159 2 0.01
160 1 0.01
161 2 0.01
162 15 0.10
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.36
Consensus pattern (151 bp):
TTAATGTGTTAAGTGTGTTGTAGGGGTAATAATTAAATGAAGTAAGAAGAGAAAGGGGGAAAAGT
GTGATTCCCCATTAAAAAATAATAATTGTTACTTCAATTTTGTTGGATGAATTTGGAAAATGTTG
ATTAATGTAAATCCTTTAGCA
Found at i:11520933 original size:21 final size:22
Alignment explanation
Indices: 11520884--11520934 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
11520874 TAAAATAGTG
* * *
11520884 AAAAAAACAACAATAAAATATC
1 AAAAAAATAACAATAAAAAATA
*
11520906 AATAAAATAA-AATAAAAAATA
1 AAAAAAATAACAATAAAAAATA
11520927 AAAAAAAT
1 AAAAAAAT
11520935 TATTTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAAAAATAACAATAAAAAATA
Found at i:11522483 original size:2 final size:2
Alignment explanation
Indices: 11522472--11522505 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11522462 CGCCTCATCT
*
11522472 TA TA -A TA TA TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11522506 GTTGGGTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11523252 original size:7 final size:7
Alignment explanation
Indices: 11523234--11523290 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
11523224 AATAACATTA
11523234 TAAAAAT
1 TAAAAAT
11523241 ATAAAAAT
1 -TAAAAAT
11523249 TAAATTATAT
1 TAAA--A-AT
11523259 TAAAAAT
1 TAAAAAT
11523266 TAAAAAT
1 TAAAAAT
**
11523273 TAATGAT
1 TAAAAAT
*
11523280 TAAAATT
1 TAAAAAT
11523287 TAAA
1 TAAA
11523291 TTGAAGTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
7 26 0.63
8 8 0.20
9 1 0.02
10 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (7 bp):
TAAAAAT
Found at i:11524031 original size:31 final size:31
Alignment explanation
Indices: 11523955--11524030 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
11523945 GTTATTAAAT
*
11523955 TATTTAAA-CATTTTCATTTAAGTCACTGAAC
1 TATTTAAATC-TTTTTATTTAAGTCACTGAAC
* **
11523986 TATTTGAATCTTTTTATTTAAGTCACTGGGC
1 TATTTAAATCTTTTTATTTAAGTCACTGAAC
*
11524017 TA-TTAAATATTTTT
1 TATTTAAATCTTTTT
11524031 TTAAAAAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 10 0.26
31 27 0.71
32 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (31 bp):
TATTTAAATCTTTTTATTTAAGTCACTGAAC
Found at i:11524830 original size:19 final size:19
Alignment explanation
Indices: 11524808--11524844 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11524798 AGGAAAATCC
11524808 AAAAAAAAAAGAAAAAAGG
1 AAAAAAAAAAGAAAAAAGG
* *
11524827 AAAAAAAAGAGAAGAAAG
1 AAAAAAAAAAGAAAAAAG
11524845 TTACATGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAGG
Found at i:11535585 original size:20 final size:20
Alignment explanation
Indices: 11535569--11535768 Score: 111
Period size: 20 Copynumber: 9.9 Consensus size: 20
11535559 TTTCTCATTT
11535569 TTTTTGGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
* **
11535589 TTTTTAGTACATT--CTCATTT
1 TTTTTGGT--ATTCCCTCATAA
*
11535609 TTTTTGGCACTT-CCTCATAA
1 TTTTTGGTA-TTCCCTCATAA
*
11535629 TTGTTGGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
** * *
11535649 TTTTTGGTATTTTCTAAGAA
1 TTTTTGGTATTCCCTCATAA
* **
11535669 TTTTTAGTACTT-CCTCATGTTC
1 TTTTTGGTA-TTCCCTCA--TAA
*
11535691 TTTTTTGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
* * *
11535711 TTTTTTGTACTCCCTCATAT
1 TTTTTGGTATTCCCTCATAA
* ** *
11535731 TTTTTGATACACCCTCATTA
1 TTTTTGGTATTCCCTCATAA
* * *
11535751 CTTTTGATAATCCCTCAT
1 TTTTTGGTATTCCCTCAT
11535769 GCTTTTTTTT
Statistics
Matches: 138, Mismatches: 33, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.01
19 4 0.03
20 113 0.82
21 4 0.03
22 16 0.12
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTTGGTATTCCCTCATAA
Found at i:11535604 original size:40 final size:41
Alignment explanation
Indices: 11535550--11535736 Score: 156
Period size: 40 Copynumber: 4.7 Consensus size: 41
11535540 TTTCATACTT
*
11535550 TTTTTA-TAC-TTTCTCATTTTTTTTGGTATTCCCTCATAA
1 TTTTTAGTACATTCCTCATTTTTTTTGGTATTCCCTCATAA
*
11535589 TTTTTAGTACATT-CTCATTTTTTTTGGCACTT-CCTCATAA
1 TTTTTAGTACATTCCTCATTTTTTTTGGTA-TTCCCTCATAA
* * ** ** * *
11535629 TTGTTGGT--ATTCCCTCATAATTTTTGGTATTTTCTAAGAA
1 TTTTTAGTACATT-CCTCATTTTTTTTGGTATTCCCTCATAA
*
11535669 TTTTTAGTAC-TTCCTCATGTTCTTTTTTGTATTCCCTCATAA
1 TTTTTAGTACATTCCTCAT-TT-TTTTTGGTATTCCCTCATAA
* * *
11535711 TTTTTTGTAC-TCCCTCATATTTTTTG
1 TTTTTAGTACATTCCTCATTTTTTTTG
11535737 ATACACCCTC
Statistics
Matches: 116, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
38 3 0.03
39 8 0.07
40 67 0.58
41 7 0.06
42 31 0.27
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (41 bp):
TTTTTAGTACATTCCTCATTTTTTTTGGTATTCCCTCATAA
Found at i:11535673 original size:60 final size:61
Alignment explanation
Indices: 11535572--11535720 Score: 156
Period size: 60 Copynumber: 2.4 Consensus size: 61
11535562 CTCATTTTTT
* *** *
11535572 TTGGTATTCCCTCATAATTTTTAGTACATTCTCATTTTTTTTGGCACTTCCTCA-TAATTG
1 TTGGTATTCCCTCATAATTTTTAGTACATTCTAAGAATTTTTAGCACTTCCTCAGTAATTG
* ** * ** *
11535632 TTGGTATTCCCTCATAATTTTTGGTATTTTCTAAGAATTTTTAGTACTTCCTCATGTTCTTT
1 TTGGTATTCCCTCATAATTTTTAGTACATTCTAAGAATTTTTAGCACTTCCTCA-GTAATTG
* *
11535694 TTTGTATTCCCTCATAATTTTTTGTAC
1 TTGGTATTCCCTCATAATTTTTAGTAC
11535721 TCCCTCATAT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 45 0.62
62 27 0.38
ACGTcount: A:0.19, C:0.18, G:0.10, T:0.52
Consensus pattern (61 bp):
TTGGTATTCCCTCATAATTTTTAGTACATTCTAAGAATTTTTAGCACTTCCTCAGTAATTG
Found at i:11536241 original size:20 final size:20
Alignment explanation
Indices: 11536210--11536279 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 20
11536200 TGGTATCCCT
11536210 TCATATTTTTTTGATACTTCC
1 TCATATTTTTTTG-TACTTCC
11536231 TCATATTTTTTTGGTA-TTCCC
1 TCATATTTTTTT-GTACTT-CC
* *
11536252 ACATAATTTTTTGTACTTCC
1 TCATATTTTTTTGTACTTCC
11536272 TCATATTT
1 TCATATTT
11536280 ATTGGTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 13 0.31
21 28 0.67
22 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.06, T:0.56
Consensus pattern (20 bp):
TCATATTTTTTTGTACTTCC
Found at i:11536273 original size:41 final size:41
Alignment explanation
Indices: 11536198--11536289 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 41
11536188 ACAAACCAAA
* *
11536198 ATTGGTA-TCCCTTCATATTTTTTTGATACTTCCTCATATTTT
1 ATTGGTATTCCC-ACATAATTTTTTGATACTTCCTCATA-TTT
*
11536240 TTTGGTATTCCCACATAATTTTTTG-TACTTCCTCATATTT
1 ATTGGTATTCCCACATAATTTTTTGATACTTCCTCATATTT
11536280 ATTGGTATTC
1 ATTGGTATTC
11536290 TCTTAGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 12 0.27
41 12 0.27
42 17 0.38
43 4 0.09
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.53
Consensus pattern (41 bp):
ATTGGTATTCCCACATAATTTTTTGATACTTCCTCATATTT
Found at i:11536897 original size:34 final size:35
Alignment explanation
Indices: 11536829--11536897 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
11536819 TTTATAGTGT
11536829 GACATACCTAAATCCTGAGTGGATGACAGACTATG
1 GACATACCTAAATCCTGAGTGGATGACAGACTATG
11536864 GACATACCTAAATCCTGAGTGGAT-ACAGACTATG
1 GACATACCTAAATCCTGAGTGGATGACAGACTATG
11536898 TATGCGTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (35 bp):
GACATACCTAAATCCTGAGTGGATGACAGACTATG
Found at i:11537534 original size:9 final size:9
Alignment explanation
Indices: 11537522--11537560 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
11537512 CACTCAAATC
*
11537522 CAATTCTAT
1 CAATTCTCT
*
11537531 CAATTCTTT
1 CAATTCTCT
*
11537540 CTATTCTCT
1 CAATTCTCT
11537549 CAATTCTCT
1 CAATTCTCT
11537558 CAA
1 CAA
11537561 GATTAGTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (9 bp):
CAATTCTCT
Found at i:11540555 original size:50 final size:50
Alignment explanation
Indices: 11540446--11540560 Score: 189
Period size: 48 Copynumber: 2.3 Consensus size: 50
11540436 ATGTCACCTT
* * *
11540446 ACTTTTATATATAAGTGTATAGATATGGCTTAGTATTTGATATCAATGAA
1 ACTTTTATATATAAGTGTATAGATACGGCTTAGTATTTGATATAAATAAA
11540496 ACTTTTATATAT--GTGTATAGATACGGCTTAGTATTTGATATAAATAAA
1 ACTTTTATATATAAGTGTATAGATACGGCTTAGTATTTGATATAAATAAA
11540544 ACTTTTATATATAAGTG
1 ACTTTTATATATAAGTG
11540561 CATGAAAGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
48 45 0.75
50 15 0.25
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.43
Consensus pattern (50 bp):
ACTTTTATATATAAGTGTATAGATACGGCTTAGTATTTGATATAAATAAA
Found at i:11541184 original size:47 final size:47
Alignment explanation
Indices: 11541116--11541217 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
11541106 TACAATGACA
*
11541116 TTAAAC-AACACAAGTAAGCTTAATGAAGCTTAATAAGTTTAACAAG
1 TTAAACGATCACAAGTAAGCTTAATGAAGCTTAATAAGTTTAACAAG
*
11541162 TTAAACGATCACAAGTAAGCTTAATGAAGCTTAATAAGTTTGACAAG
1 TTAAACGATCACAAGTAAGCTTAATGAAGCTTAATAAGTTTAACAAG
11541209 TTAAACGAT
1 TTAAACGAT
11541218 AAATCTTACC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
46 6 0.11
47 47 0.89
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (47 bp):
TTAAACGATCACAAGTAAGCTTAATGAAGCTTAATAAGTTTAACAAG
Found at i:11541747 original size:138 final size:139
Alignment explanation
Indices: 11541488--11541795 Score: 447
Period size: 138 Copynumber: 2.2 Consensus size: 139
11541478 CAAAAACTCA
* * * *
11541488 AGAGAGCTGAACAGAAGCTCGTAACAACTGATCCACCTAAATCACACCAAACAGAAAGTAAAAGA
1 AGAGAGCTGAACAGAAGCTCGTAAGAGCTGATCCACCCAAATCACACCAAACAGAAAGTAAAACA
* * *
11541553 TGAGAGTTTGCAACAAATGCTAAACCCTGATTTACTTGGGTAATATGCCGACAGAACACGCCAAT
66 CGAAAGTTTGCAACAAATGCTAAACCCTGATTTACTTGGGTAATATGCCGACAGAACACGCCAAC
11541618 AGAAGCTCG
131 AGAAGCTCG
* * * *
11541627 AGGGAGCTGAACAAAAGCTCGTAAGAGCTGATCTACCCAAATCAC-GCAAACAGAAAGTAAAACA
1 AGAGAGCTGAACAGAAGCTCGTAAGAGCTGATCCACCCAAATCACACCAAACAGAAAGTAAAACA
* * * *
11541691 CGAAAGTTTGCAACAAATGCTAAACCCTGGTTTACTTGGGTAATATGCTGATAGAACACGCCAGC
66 CGAAAGTTTGCAACAAATGCTAAACCCTGATTTACTTGGGTAATATGCCGACAGAACACGCCAAC
11541756 AGAAGCTCG
131 AGAAGCTCG
* * *
11541765 AGAGAGCTTAACAGAAGCTCATGAGAGCTGA
1 AGAGAGCTGAACAGAAGCTCGTAAGAGCTGA
11541796 ATAGAAGCTC
Statistics
Matches: 149, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
138 110 0.74
139 39 0.26
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (139 bp):
AGAGAGCTGAACAGAAGCTCGTAAGAGCTGATCCACCCAAATCACACCAAACAGAAAGTAAAACA
CGAAAGTTTGCAACAAATGCTAAACCCTGATTTACTTGGGTAATATGCCGACAGAACACGCCAAC
AGAAGCTCG
Found at i:11541781 original size:21 final size:21
Alignment explanation
Indices: 11541755--11541816 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
11541745 AACACGCCAG
*
11541755 CAGAAGCTCGAGAGAGCTTAA
1 CAGAAGCTCGAGAGAGCTGAA
11541776 CAGAAGCTC-ATGAGAGCTGAA
1 CAGAAGCTCGA-GAGAGCTGAA
*
11541797 TAGAAGCTCGTA-AGAGCTGA
1 CAGAAGCTCG-AGAGAGCTGA
11541817 TCCACCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (21 bp):
CAGAAGCTCGAGAGAGCTGAA
Found at i:11544467 original size:16 final size:15
Alignment explanation
Indices: 11544434--11544475 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
11544424 AAAATAGTAA
*
11544434 AAAACCTTAACCCAT
1 AAAACCTTAAACCAT
11544449 AAAATCCTTAAACC-T
1 AAAA-CCTTAAACCAT
*
11544464 TAAACCTTAAAC
1 AAAACCTTAAAC
11544476 TGTAAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAACCTTAAACCAT
Found at i:11545411 original size:26 final size:26
Alignment explanation
Indices: 11545382--11545447 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
11545372 CTTAAACCAA
11545382 ACTTTTCAAAAATA-TTTCTCAAAATC
1 ACTTTTCAAAAATACTTT-TCAAAATC
* * *
11545408 ACTTTTCCAAAGTACTTTTTAAAATC
1 ACTTTTCAAAAATACTTTTCAAAATC
* *
11545434 ACTTCTAAAAAATA
1 ACTTTTCAAAAATA
11545448 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (26 bp):
ACTTTTCAAAAATACTTTTCAAAATC
Found at i:11549527 original size:3 final size:3
Alignment explanation
Indices: 11549514--11549552 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
11549504 TAAATACCTG
*
11549514 AAT AA- AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11549553 GACAAGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11550600 original size:13 final size:13
Alignment explanation
Indices: 11550582--11550606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11550572 TATGTGATAT
11550582 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11550595 GTGTGAAAATTT
1 GTGTGAAAATTT
11550607 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11551261 original size:43 final size:43
Alignment explanation
Indices: 11551213--11551325 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 43
11551203 TGTGATATCA
*
11551213 TGTAAGACCATGTCTGGGACATTGGCATTAATCTAAGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATTAATATAAGATT-TCG
* ** *
11551256 TGTAAGACCATGTCTAGGACATTGGCA-TCGTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTAATATAAGATTTCG
* *
11551298 TGTAAGACCCTGTCTGGGACAATGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
11551326 CGATATTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 33 0.55
43 26 0.43
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTAATATAAGATTTCG
Found at i:11551318 original size:42 final size:42
Alignment explanation
Indices: 11551213--11551367 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 42
11551203 TGTGATATCA
** * *
11551213 TGTAAGACCATGTCTGGGACATTGGCATTAATCTAAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCA-TCGTATATGATTATG
*
11551256 TGTAAGACCATGTCTAGGACATTGGCATCGTATATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTAT-G
* * * * * **
11551298 TGTAAGACCCTGTCTGGGACAATGGCATCGATATTTAATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTATG
* *
11551341 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
11551368 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 42 0.45
43 50 0.54
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTATG
Found at i:11555213 original size:6 final size:6
Alignment explanation
Indices: 11555163--11555195 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
11555153 AATAATTAAT
11555163 TTTATA TTTATA TTTATA TTTATA TTTATA TTT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTT
11555196 TTTAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:11556480 original size:81 final size:81
Alignment explanation
Indices: 11556332--11557269 Score: 995
Period size: 81 Copynumber: 11.6 Consensus size: 81
11556322 TCCATCGCCG
** * * * *** * * * *
11556332 TCTTACATTAAACGCCTTGAAAGCAAGTACAAACCTGGTTACATAATGGATGAAGAAGACGACAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
**
11556397 GAGTTCTTCCTTGTCT
66 GAGTTCTTCCTCATCT
* * * * *
11556413 TCTTACATTTTACGCCTTCAAAGCAAATACAAACCAGGTTATGTAGTGGAT-AGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGA-AGCAGAGGAAA
*
11556477 AGAGTTCTTCCTCGTCT
65 AGAGTTCTTCCTCATCT
* * *
11556494 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
11556559 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * ** * * *
11556577 TCGT--ATTGCACGCCTTGAGAGCAAGTACAAGCCAAGCTATAGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
11556640 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* *
11556656 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
11556721 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * ** * * *
11556739 TCGT--ATTGCACGCCTTGAGAGCAAGTACAAGCCAAGCTATAGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
11556802 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* *
11556818 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
* * *
11556883 GAATTCTT-CTCCCTCA
66 GAGTTCTTCCT-CATCT
* * * * * * *
11556899 TCTCATATTGCACGCCTTGAGAGCAAGTACAAGCCGGATTATGGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
11556964 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* * *
11556980 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGAGTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
11557045 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * * *
11557063 TCGT--ATTGCAAGCCTTGAGAGCAAGTACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
11557126 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* *
11557142 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
11557207 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * *
11557225 TCGT--ATTGCACGCCTTGAAAGCAAATATAAGCCGGGTTATGGAGT
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGT
11557270 TGACAAAGAT
Statistics
Matches: 715, Mismatches: 117, Indels: 50
0.81 0.13 0.06
Matches are distributed among these distances:
78 21 0.03
79 12 0.02
80 6 0.01
81 626 0.88
82 7 0.01
83 16 0.02
84 27 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (81 bp):
TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
GAGTTCTTCCTCATCT
Found at i:11557266 original size:162 final size:162
Alignment explanation
Indices: 11556424--11557269 Score: 1478
Period size: 162 Copynumber: 5.2 Consensus size: 162
11556414 CTTACATTTT
* * * * * *
11556424 ACGCCTTCAAAGCAAATACAAACCAGGTTATGTAGTGGATAGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* *
11556489 CGTCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
11556554 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* * *
11556586 ACGCCTTGAGAGCAAGTACAAGCCAAGCTATAGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
11556651 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
11556716 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* * *
11556748 ACGCCTTGAGAGCAAGTACAAGCCAAGCTATAGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
11556813 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
*
11556878 GAAAAGAATTCTTCTCCCTCATCTCATATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
11556910 ACGCCTTGAGAGCAAGTACAAGCC-GGATTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCC
1 ACGCCTTGAGAGCAAGTACAAGCCAGG-TTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCC
*
11556974 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGAGTTATGGAGTGGATGAAGTAGA
65 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGA
11557039 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
130 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* *
11557072 AAGCCTTGAGAGCAAGTACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
11557137 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
11557202 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* * * *
11557234 ACGCCTTGAAAGCAAATATAAGCCGGGTTATGGAGT
1 ACGCCTTGAGAGCAAGTACAAGCCAGGTTATGGAGT
11557270 TGACAAAGAT
Statistics
Matches: 659, Mismatches: 23, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
161 1 0.00
162 656 1.00
163 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (162 bp):
ACGCCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
Found at i:11566813 original size:99 final size:99
Alignment explanation
Indices: 11566634--11567125 Score: 858
Period size: 99 Copynumber: 5.0 Consensus size: 99
11566624 CCATTCTTCA
* * * *
11566634 CCAGAAACTTGGGTGGTCTCCCACGCTTGCATTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
*
11566699 TTCACTTCACTATGAGACTGATCATTCCCCATAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
11566733 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
* *
11566798 TTCACTTTACCATGAGACTGATCATTCCCCTTAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
* *
11566832 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCTATCTTTCCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
11566897 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
11566931 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
11566996 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
* * * *
11567030 CCACCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTTCTCTGCACATCA
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
*
11567095 TTCACTTCAGTATGAGACTGATCATTCCCCT
66 TTCACTTCACTATGAGACTGATCATTCCCCT
11567126 CCTTAACCAC
Statistics
Matches: 375, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 375 1.00
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.32
Consensus pattern (99 bp):
CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
TTCACTTCACTATGAGACTGATCATTCCCCTTAT
Found at i:11575467 original size:177 final size:177
Alignment explanation
Indices: 11575171--11575526 Score: 712
Period size: 177 Copynumber: 2.0 Consensus size: 177
11575161 AAATTCTTAT
11575171 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
1 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
11575236 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
66 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
11575301 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
131 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
11575348 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
1 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
11575413 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
66 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
11575478 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
131 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
11575525 AA
1 AA
11575527 TGTCTTACTA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 179 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (177 bp):
AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
Found at i:11575947 original size:21 final size:22
Alignment explanation
Indices: 11575905--11575947 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
11575895 GCGACGCGAT
*
11575905 GAGGAACCTCCGACATCGCAAC
1 GAGGAACCTCCGACATCACAAC
**
11575927 GAGGAACC-CCGATGTCACAAC
1 GAGGAACCTCCGACATCACAAC
11575948 ATCAACCTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.35, G:0.23, T:0.09
Consensus pattern (22 bp):
GAGGAACCTCCGACATCACAAC
Found at i:11576803 original size:50 final size:50
Alignment explanation
Indices: 11576728--11576827 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
11576718 TAAATCTAAG
11576728 ATAAATCATGAACTTTCAGGATATACTTGTAACACCCCTGTACCCAAGAC
1 ATAAATCATGAACTTTCAGGATATACTTGTAACACCCCTGTACCCAAGAC
11576778 ATAAATCATGAACTTTCAGGATATACTTGTAACACCCCTGTACCCAAGAC
1 ATAAATCATGAACTTTCAGGATATACTTGTAACACCCCTGTACCCAAGAC
11576828 CATCGCAGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (50 bp):
ATAAATCATGAACTTTCAGGATATACTTGTAACACCCCTGTACCCAAGAC
Found at i:11578182 original size:46 final size:46
Alignment explanation
Indices: 11578115--11578382 Score: 246
Period size: 46 Copynumber: 5.8 Consensus size: 46
11578105 TGTAACCCGC
** *
11578115 CCATAAGTGAACTTAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
11578161 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
11578211 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
11578254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * **
11578304 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
11578347 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
11578383 ATGCTCAAAT
Statistics
Matches: 178, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 2 0.01
45 4 0.02
46 88 0.49
47 53 0.30
48 5 0.03
49 2 0.01
50 6 0.03
51 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:11578233 original size:47 final size:47
Alignment explanation
Indices: 11578169--11578335 Score: 214
Period size: 47 Copynumber: 3.6 Consensus size: 47
11578159 ATCCATAAGT
*
11578169 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * *
11578216 GAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
*
11578262 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
11578309 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
11578336 AACGTTCGCA
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 34 0.35
47 60 0.61
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11578237 original size:93 final size:93
Alignment explanation
Indices: 11578130--11578386 Score: 469
Period size: 93 Copynumber: 2.8 Consensus size: 93
11578120 AGTGAACTTA
* * *
11578130 GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGTTC
1 GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
11578195 GGATGCCTAGTTACATTTCACGAACTCG
66 GGATGCCTAGTTACATTTCACGAACTCG
*
11578223 GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTT
1 GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
11578288 GGATGCCTAGTTACATTTCACGAACTCG
66 GGATGCCTAGTTACATTTCACGAACTCG
*
11578316 GACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
11578381 GGATGC
66 GGATGC
11578387 TCAAATATCC
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 158 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
GGATGCCTAGTTACATTTCACGAACTCG
Found at i:11580054 original size:30 final size:29
Alignment explanation
Indices: 11579998--11580054 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
11579988 AAAGATAACA
*
11579998 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAAACCAAGATTG
*
11580027 AGAAACCCAGAATAAA-AAAACCTAAGAT
1 AGAAAACC-GAATAAAGAAAACC-AAGAT
11580055 ATGATACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAAACCAAGATTG
Found at i:11583079 original size:46 final size:45
Alignment explanation
Indices: 11583011--11583231 Score: 259
Period size: 46 Copynumber: 4.8 Consensus size: 45
11583001 GTAACCCGCC
* * * * *
11583011 CATAAGCGAACTAGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
11583056 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * * *
11583106 -TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCA-T
11583150 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
11583195 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11583232 TGCTAAAATA
Statistics
Matches: 151, Mismatches: 14, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
42 3 0.02
43 2 0.01
44 2 0.01
45 4 0.03
46 103 0.68
47 28 0.19
48 2 0.01
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:11583124 original size:93 final size:93
Alignment explanation
Indices: 11583017--11583185 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
11583007 CGCCCATAAG
* * *
11583017 CGAACTAGGACTCAACTCAACGAGCTCGGGCGTTTGCA-TCAATAAGTGAACTCGGACTCAACTC
1 CGAACTAGGACTCAACTCAACGAGCTCAGACGTTCGCATTC-ATAAGTGAACTCGGACTCAACTC
11583081 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* *
11583110 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTAGGACTCAACTCAACGAGCTCAGACGTTCGCATTCATAAGTGAACTCGGACTCAACTCA
11583175 ACGAGTTCGGA
66 ACGAGTTCGGA
11583186 CGTTCGCATC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTAGGACTCAACTCAACGAGCTCAGACGTTCGCATTCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:11585683 original size:56 final size:56
Alignment explanation
Indices: 11585616--11585770 Score: 222
Period size: 56 Copynumber: 2.8 Consensus size: 56
11585606 GAAAAATATG
*
11585616 TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACAT
* * *
11585672 TGGCATCGATATGTGATTCTGATATACGTGTGCGAGTAAGTCCACGTTTCATACAT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACAT
* * * *
11585728 TGGCATCAATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACC
11585771 CTATCAGGGA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 2 0.02
56 86 0.98
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACAT
Found at i:11592793 original size:21 final size:21
Alignment explanation
Indices: 11592767--11592808 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11592757 AAATACATAG
11592767 GATATACTAAGTCTTCCACGA
1 GATATACTAAGTCTTCCACGA
11592788 GATATACTAAGTCTTCCACGA
1 GATATACTAAGTCTTCCACGA
11592809 CTGCTCGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
GATATACTAAGTCTTCCACGA
Found at i:11593686 original size:13 final size:15
Alignment explanation
Indices: 11593649--11593678 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11593639 AAAAATTAAC
11593649 CTCTAAGTTTTTTAG
1 CTCTAAGTTTTTTAG
11593664 CTCTAAGTTTTTTAG
1 CTCTAAGTTTTTTAG
11593679 TTCAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
CTCTAAGTTTTTTAG
Found at i:11593797 original size:79 final size:80
Alignment explanation
Indices: 11593747--11593906 Score: 306
Period size: 79 Copynumber: 2.0 Consensus size: 80
11593737 TTTTTTTGTG
11593747 CTCTCGATGTCCCTTTTATGGTCCATGTTAAGGGTTCATATTTGCCCTTT-ACACTAAATGTTGT
1 CTCTCGATGTCCCTTTTATGGTCCATGTTAAGGGTTCATATTTGCCCTTTAACACTAAATGTTGT
11593811 CTCCAAAGTTTGAAC
66 CTCCAAAGTTTGAAC
11593826 CTCTCGATGTCCCTTTTATGGTCCATGTTAAGGGTTCATATTTGCCCTTT-ACACTAAATGTTGT
1 CTCTCGATGTCCCTTTTATGGTCCATGTTAAGGGTTCATATTTGCCCTTTAACACTAAATGTTGT
11593890 CTCCAAAGTTTGAAC
66 CTCCAAAGTTTGAAC
11593905 CT
1 CT
11593907 ACATTTTCTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (80 bp):
CTCTCGATGTCCCTTTTATGGTCCATGTTAAGGGTTCATATTTGCCCTTTAACACTAAATGTTGT
CTCCAAAGTTTGAAC
Found at i:11598713 original size:20 final size:20
Alignment explanation
Indices: 11598690--11598729 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11598680 TTTATTAACA
*
11598690 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
* *
11598710 TAATAAACTTTATTTTAATT
1 TAATAAACCTTACTTTAATT
11598730 AAGCTATTAA
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:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:11612041 original size:24 final size:23
Alignment explanation
Indices: 11611997--11612042 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
11611987 AATAAAACTA
*
11611997 AACCCCAAAACCTGAAAACAAAG
1 AACCCCAAAACATGAAAACAAAG
11612020 AACCCTCAAAACAT-AAACACAAA
1 AACCC-CAAAACATGAAA-ACAAA
11612043 ATTCTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.59, C:0.30, G:0.04, T:0.07
Consensus pattern (23 bp):
AACCCCAAAACATGAAAACAAAG
Found at i:11612513 original size:23 final size:23
Alignment explanation
Indices: 11612459--11612518 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
11612449 TTAAAACTTA
*
11612459 ATTTTAATTT-TATATTAATTTTT
1 ATTTTAATTTAT-TTTTAATTTTT
* * *
11612482 AGTTGAATTTATTTTTTATTTTT
1 ATTTTAATTTATTTTTAATTTTT
*
11612505 ATTTTAATTAATTT
1 ATTTTAATTTATTT
11612519 ATTTTTCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (23 bp):
ATTTTAATTTATTTTTAATTTTT
Found at i:11612739 original size:17 final size:17
Alignment explanation
Indices: 11612717--11612753 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11612707 TATTTTTAAT
11612717 TAAAAATATATA-ATAAA
1 TAAAAA-ATATAGATAAA
11612734 TAAAAAATATAGATAAA
1 TAAAAAATATAGATAAA
11612751 TAA
1 TAA
11612754 TAAGAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAAAATATAGATAAA
Found at i:11612741 original size:18 final size:17
Alignment explanation
Indices: 11612718--11612753 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
11612708 ATTTTTAATT
11612718 AAAAATATATAATAAATA
1 AAAAATATA-AATAAATA
*
11612736 AAAAATATAGATAAATA
1 AAAAATATAAATAAATA
11612753 A
1 A
11612754 TAAGAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAATATAAATAAATA
Found at i:11613745 original size:26 final size:30
Alignment explanation
Indices: 11613716--11613775 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 30
11613706 TTTTTTTAAA
*
11613716 TTGGTAACCCAGCT-A-TG-GATT-TTTTT
1 TTGGTAACCCAACTAATTGAGATTATTTTT
*
11613742 TTGGTCACCCAACTAATTGAGATTATTTTT
1 TTGGTAACCCAACTAATTGAGATTATTTTT
11613772 TTGG
1 TTGG
11613776 GTCCATTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.43
27 1 0.04
28 2 0.07
29 4 0.14
30 9 0.32
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (30 bp):
TTGGTAACCCAACTAATTGAGATTATTTTT
Found at i:11614024 original size:22 final size:25
Alignment explanation
Indices: 11613975--11614024 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 25
11613965 ATACATAAGT
*
11613975 ATTTTCAAAAAATATATAATAATAA
1 ATTTTCAAAAAATATATAAAAATAA
*
11614000 ATTTT-AAAAAATA-A-AAAAATTA
1 ATTTTCAAAAAATATATAAAAATAA
11614022 ATT
1 ATT
11614025 GTTTACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 1 0.04
24 8 0.35
25 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTTTCAAAAAATATATAAAAATAA
Found at i:11614594 original size:106 final size:106
Alignment explanation
Indices: 11614409--11614619 Score: 413
Period size: 106 Copynumber: 2.0 Consensus size: 106
11614399 ATTTAACGTG
*
11614409 TTATGTGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTATC
1 TTATGAGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTATC
11614474 TCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTAA
66 TCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTAA
11614515 TTATGAGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTATC
1 TTATGAGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTATC
11614580 TCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
66 TCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
11614620 CCATGTTTGA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.51
Consensus pattern (106 bp):
TTATGAGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTATC
TCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTAA
Found at i:11618489 original size:13 final size:13
Alignment explanation
Indices: 11618471--11618496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11618461 AAATATTCAG
11618471 CAAGTAAACTGCA
1 CAAGTAAACTGCA
11618484 CAAGTAAACTGCA
1 CAAGTAAACTGCA
11618497 GTACGAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CAAGTAAACTGCA
Found at i:11619286 original size:33 final size:33
Alignment explanation
Indices: 11619244--11619307 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
11619234 AAAGAAGTAA
11619244 AAAAAAAGTCAAAGGAGGATATATTAAACAGAG
1 AAAAAAAGTCAAAGGAGGATATATTAAACAGAG
11619277 AAAAAAAGTCAAAGGAGGATATATTAAACAG
1 AAAAAAAGTCAAAGGAGGATATATTAAACAG
11619308 TGGAAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.58, C:0.06, G:0.20, T:0.16
Consensus pattern (33 bp):
AAAAAAAGTCAAAGGAGGATATATTAAACAGAG
Found at i:11619642 original size:17 final size:17
Alignment explanation
Indices: 11619622--11619656 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11619612 AAAAATATGG
11619622 GACGGAATAAAACATTA
1 GACGGAATAAAACATTA
11619639 GACGGAATAAAACATTA
1 GACGGAATAAAACATTA
11619656 G
1 G
11619657 GAACTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.17
Consensus pattern (17 bp):
GACGGAATAAAACATTA
Found at i:11623047 original size:30 final size:30
Alignment explanation
Indices: 11623008--11623072 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
11622998 CACTCAACTC
11623008 TCCTCCTCCTCCTCC-CCCTTCTTCTTCCCTA
1 TCCTCCTCCTCCTCCTCCC--CTTCTTCCCTA
11623039 TCCT-CTCCTCCTCCTTCCCCTTCTTCCCTA
1 TCCTCCTCCTCCTCC-TCCCCTTCTTCCCTA
11623069 TCCT
1 TCCT
11623073 TTCTCTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 25 0.78
31 4 0.12
32 3 0.09
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (30 bp):
TCCTCCTCCTCCTCCTCCCCTTCTTCCCTA
Found at i:11624034 original size:14 final size:14
Alignment explanation
Indices: 11624015--11624042 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11624005 TTTAAAACTC
11624015 TTGCCTTTTAGTTT
1 TTGCCTTTTAGTTT
11624029 TTGCCTTTTAGTTT
1 TTGCCTTTTAGTTT
11624043 ATCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.14, T:0.64
Consensus pattern (14 bp):
TTGCCTTTTAGTTT
Found at i:11630345 original size:26 final size:26
Alignment explanation
Indices: 11630302--11630368 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
11630292 CCTTTACATA
* * *
11630302 TATGCTCTCACAAACTGTGAAAAGAG
1 TATGCTCACACGAGCTGTGAAAAGAG
*
11630328 TATGCTCACACGAGCTGTGAAATGAG
1 TATGCTCACACGAGCTGTGAAAAGAG
** *
11630354 CCTGCTCACATGAGC
1 TATGCTCACACGAGC
11630369 CATGGGTCGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
TATGCTCACACGAGCTGTGAAAAGAG
Found at i:11637779 original size:53 final size:53
Alignment explanation
Indices: 11637699--11637804 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
11637689 ATTATAAGTG
11637699 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
1 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
11637752 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
1 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
11637805 AGCCCTTGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (53 bp):
TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
Found at i:11641395 original size:160 final size:157
Alignment explanation
Indices: 11641139--11641441 Score: 394
Period size: 160 Copynumber: 1.9 Consensus size: 157
11641129 TAAAAAAGTA
* * *
11641139 ATTTCAATTTTTCGTGGCCATGGAATCAGATATTATTGATTTTTTTTTCTTGTTTATGACTTGCT
1 ATTTCAATTTTTCGTGGCCATGGAAACAGATATTATTGATTTTTTTTTCTTGTTTATAACTAGCT
* * * * * * *
11641204 TTATTCATGAAGGGAATTGATTTTTAAGAATGATCACAGTCACATCAACCATGAAAGGAGGATTG
66 CTATTCATAAAGGGAATTAATCTTTAAGAATGATCACAATCACATCAACCATAAAAGAAGGATTG
*
11641269 ATCCGTGTACTTTCTCAAGGAGTACTT
131 ATCAGTGTACTTTCTCAAGGAGTACTT
*
11641296 ATTTCAATTTTT-GTGGCCAT-GAAACAGATATTATTGATTTTATTTTATGTTTTGCTTTATAAC
1 ATTTCAATTTTTCGTGGCCATGGAAACAGATATTATTGA-TTT-TTTT-T-TCTTG-TTTATAAC
* * * * *
11641359 TAGCTCTATTCATAAATGGAATTAATCTTTAAGAATGATCATAATCGCATGAACCTTAAAAGAAG
61 TAGCTCTATTCATAAAGGGAATTAATCTTTAAGAATGATCACAATCACATCAACCATAAAAGAAG
11641424 GATTGATCAGTGTACTTT
126 GATTGATCAGTGTACTTT
11641442 AGAAGGATTG
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
155 16 0.13
156 11 0.09
157 16 0.13
158 1 0.01
159 4 0.03
160 76 0.61
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (157 bp):
ATTTCAATTTTTCGTGGCCATGGAAACAGATATTATTGATTTTTTTTTCTTGTTTATAACTAGCT
CTATTCATAAAGGGAATTAATCTTTAAGAATGATCACAATCACATCAACCATAAAAGAAGGATTG
ATCAGTGTACTTTCTCAAGGAGTACTT
Found at i:11641449 original size:23 final size:23
Alignment explanation
Indices: 11641419--11641464 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11641409 GAACCTTAAA
11641419 AGAAGGATTGATCAGTGTACTTT
1 AGAAGGATTGATCAGTGTACTTT
11641442 AGAAGGATTGATCAGTGTACTTT
1 AGAAGGATTGATCAGTGTACTTT
11641465 CTCAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (23 bp):
AGAAGGATTGATCAGTGTACTTT
Found at i:11641974 original size:26 final size:26
Alignment explanation
Indices: 11641943--11641996 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11641933 GAAAGAATGC
11641943 AGCTGAATTGATAAGAAAGATTTCTT
1 AGCTGAATTGATAAGAAAGATTTCTT
11641969 AGCTGAATTGATAAGAAAGATTTCTT
1 AGCTGAATTGATAAGAAAGATTTCTT
11641995 AG
1 AG
11641997 GCTGCCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
AGCTGAATTGATAAGAAAGATTTCTT
Found at i:11642723 original size:21 final size:21
Alignment explanation
Indices: 11642698--11642750 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11642688 CGCTATTTCT
* *
11642698 AATCTCATCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11642719 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11642740 AATCTCACCGC
1 AATCTCACCGC
11642751 CACCACTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11644045 original size:2 final size:2
Alignment explanation
Indices: 11644038--11644067 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11644028 CTTCAGCAGA
*
11644038 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11644068 TTATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11647836 original size:2 final size:2
Alignment explanation
Indices: 11647829--11647854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11647819 AAGAAAGGAA
11647829 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
11647855 GCAATTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11648549 original size:25 final size:25
Alignment explanation
Indices: 11648520--11648570 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11648510 TATGTTTTTG
* *
11648520 TATAAATTAATTT-AATTATTTATAT
1 TATAAATAAATTTGAATCATTT-TAT
11648545 TATAAATAAATTTGAATCATTTTAT
1 TATAAATAAATTTGAATCATTTTAT
11648570 T
1 T
11648571 GCAAGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
TATAAATAAATTTGAATCATTTTAT
Found at i:11667641 original size:68 final size:69
Alignment explanation
Indices: 11667521--11667693 Score: 181
Period size: 68 Copynumber: 2.5 Consensus size: 69
11667511 CTTTCCAAGG
* ***
11667521 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCAAGGTATTTTTAATTTA
11667584 T-TTAA
65 TGTT-A
** * *
11667589 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCAAGGTATTTTTAATTTAT
*
11667654 GTTT
66 GTTA
* ** * *
11667658 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
11667694 TTTAATTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
68 52 0.59
69 34 0.39
70 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCAAGGTATTTTTAATTTAT
GTTA
Found at i:11667729 original size:122 final size:123
Alignment explanation
Indices: 11667589--11667817 Score: 316
Period size: 122 Copynumber: 1.9 Consensus size: 123
11667579 AATTTTTTAA
* * * * * *
11667589 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCAAGGTAATTTCAATTTAT
** **
11667654 GTTTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTC
** *
11667711 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCAAGGTAATTTCAATTTAT
*
11667776 GTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
66 GTTTT-AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCT
11667818 CAGGACACGC
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 61 0.67
124 30 0.33
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (123 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCAAGGTAATTTCAATTTAT
GTTTTAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:11667814 original size:71 final size:71
Alignment explanation
Indices: 11667697--11667993 Score: 443
Period size: 71 Copynumber: 4.1 Consensus size: 71
11667687 TAAGCCTTTT
*
11667697 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
11667762 TAATTTC
65 TAATTTC
11667769 AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
1 AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
11667834 AATTTC
66 AATTTC
** * **
11667840 AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGT
1 AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
*
11667905 ATTTTC
66 AATTTC
** *
11667911 AATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGTTGA
1 AATTTCTG-TTTTC--AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
*
11667975 GGTATTTTC
63 GGTAATTTC
*
11667984 AATTTTTGTT
1 AATTTCTGTT
11667994 CAATTTATGT
Statistics
Matches: 213, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
71 136 0.64
72 14 0.07
73 25 0.12
74 38 0.18
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (71 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTC
Found at i:11668048 original size:83 final size:73
Alignment explanation
Indices: 11667992--11668361 Score: 366
Period size: 69 Copynumber: 5.2 Consensus size: 73
11667982 TCAATTTTTG
*
11667992 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
11668057 GAGGTAAT
66 GAGGTAAT
*
11668065 TTCAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGC-
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
11668127 -CGGT-AT
66 GAGGTAAT
** * *
11668133 TTCAA-TTC--TACTTC-AAAATCAACTCATATTGCGAAAGGTGAGTTGA-CCT--GGCTCACG-
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGC
* *
11668190 TGTTGAGTCATT
65 TG-AG-GT-AAT
* *
11668202 TTCAATTTTTATGTCTGTTTTC--TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-C
1 TTCAA--TTTCTG--T-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
11668263 ACGCTGAGGTATT
61 ACGCTGAGGTAAT
* * *
11668276 TTCAA-TTATG-TTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA-GCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
11668338 GAGGTATT
66 GAGGTAAT
*
11668346 TTCCATTTCTGTTTTT
1 TTCAATTTCTGTTTTT
11668362 TACTTATGTT
Statistics
Matches: 252, Mismatches: 21, Indels: 49
0.78 0.07 0.15
Matches are distributed among these distances:
63 2 0.01
64 7 0.03
65 35 0.14
66 1 0.00
67 9 0.04
68 7 0.03
69 43 0.17
70 17 0.07
71 18 0.07
72 42 0.17
73 16 0.06
74 8 0.03
75 2 0.01
76 35 0.14
77 8 0.03
78 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (73 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAAT
Found at i:11668053 original size:157 final size:155
Alignment explanation
Indices: 11667693--11668916 Score: 943
Period size: 142 Copynumber: 8.0 Consensus size: 155
11667683 GAGTTAAGCC
* **
11667693 TTTT-AATTTTTGTTTTTC-AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * **
11667756 CTGAGGTAATTTCAATTTCTG-TTTTC--AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
65 TTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
11667818 CAGGACACGCTGAGG-----T-AA---
130 CA-GACACGCTGAGGTATTTTCAATTT
* * *
11667836 -TTTCAATTTCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAT
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
11667899 TGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 TGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
11667964 AGACACGTTGAGGTATTTTCAATTT
131 AGACACGCTGAGGTATTTTCAATTT
11667989 TTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TT-TTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
11668054 GCTGAGGTAATTTCAATTTCTGTTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
64 GTTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
11668117 TCGGGCACGC--CGGTA-TTTCAA---
129 TCAGACACGCTGAGGTATTTTCAATTT
* * *
11668138 --TTC----TA---CTTC-AAAATCAACTCATATTGCGAAAGGTGAGTTGA-CCT--GGCTCACG
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-
* *
11668190 TGTTGA-GTCATTTTCAATTTTTATGTCTGTTTTC---TAATCAACTCATATTGCGAGAGGTGAG
64 -GTTGAGGT-ATTTTCAA--TTTCTG-C--TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
*
11668251 TTGAGCCTC-GGCACGCTGAGG-----T--A---
122 TTGAGCCTCAGACACGCTGAGGTATTTTCAATTT
* * *
11668274 TTTTCAA-TTATGTTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA-GC
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
* * * *
11668337 TGAGGTATTTTCCATTTCTGTTTTTTACTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTG
66 TGAGGTATTTTCAATTTCTG-CTTTT-C--A-------AAAAATCAACTCATATTGCGAGAGGTG
* * * *
11668402 AATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAATAGATTT
120 AGTTGAGCCTCA-G--ACACGCTGAGGTATTTTC---A-ATTT
* * ** *
11668445 TTTTCAATTTCTGCTTTTCAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
11668510 TTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 TTGAGGTATTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
11668575 TCGGCTCGCACGCTGAGGTATTTTCAATTTTTCACT
129 TCAG---ACACGCTGAGGTATTTTCAA---TT---T
* * **
11668611 TTTTCAATTTATGCTTTCAAACTACTTTTCAAAATCACTCATATTGC-AGAAATGAGTTGAGCCT
1 TTTTCAATTTATGTTTTCAAA--A---ATC---A--ACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
11668675 CAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAATCAATTCATATTGCGAGAGGTGA
56 CAGGACACGTTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
**
11668739 GTTGAGCCTCAGACACATTGAGGTATTTTCAA---
121 GTTGAGCCTCAGACACGCTGAGGTATTTTCAATTT
*
11668771 -TTTC------TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTATG-TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
11668829 CGTTGAGGTATTTTCAATTTTTGCTTTTC-AAAATTCAACTCATATTGC--GA--TGAGTTGAGC
63 CGTTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
11668889 CTCGGACACGCCGAGGTATTTTCAATTT
128 CTCAGACACGCTGAGGTATTTTCAATTT
11668917 CTGTTGTCAA
Statistics
Matches: 889, Mismatches: 92, Indels: 197
0.75 0.08 0.17
Matches are distributed among these distances:
134 2 0.00
135 3 0.00
136 6 0.01
137 42 0.05
138 7 0.01
139 5 0.01
140 11 0.01
141 38 0.04
142 83 0.09
143 43 0.05
144 24 0.03
145 70 0.08
146 17 0.02
147 60 0.07
148 7 0.01
149 1 0.00
150 2 0.00
151 2 0.00
152 6 0.01
153 37 0.04
154 6 0.01
155 54 0.06
156 7 0.01
157 75 0.08
159 4 0.00
160 1 0.00
161 1 0.00
162 1 0.00
163 3 0.00
164 51 0.06
165 7 0.01
166 13 0.01
167 1 0.00
168 1 0.00
169 17 0.02
170 1 0.00
171 8 0.01
172 44 0.05
173 53 0.06
174 64 0.07
175 11 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (155 bp):
TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
TGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGACACGCTGAGGTATTTTCAATTT
Found at i:11668382 original size:294 final size:290
Alignment explanation
Indices: 11667697--11668965 Score: 931
Period size: 294 Copynumber: 4.2 Consensus size: 290
11667687 TAAGCCTTTT
* * * **
11667697 AATTTTTGTTTTTC-AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
**
11667761 GTAATTTCAATTTC--TGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
66 GTAATTTCAATTTCTGTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
** *
11667824 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
131 ACGC-GAGGTAATTTCAATTTCTGACTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
*
11667889 CAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
195 -AAGACACATTGAGGTATTTTCAATTTATGCTTTTC--AAAATCAACTCATATTGCGAGAGGTGA
*
11667954 GTTGAGCCTCAGACACGTTGAGGTATTTTCAATTTTTGTTC
257 GTTGAGCCTCAGACACGCTGAGG----TT-AA--TTTGTTC
* *
11667995 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
11668060 GTAATTTCAATTTCTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGC
66 GTAATTTCAATTTCTGTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
11668123 ACGC-CGGT-ATTTCAA-TTCT-ACTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGA-CCT-
131 ACGCGAGGTAATTTCAATTTCTGACTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTA
* * * *
11668182 GGCTCACGTGTTGA-GTCATTTTCAATTTTTATGTCTGTTTTC-TAATCAACTCATATTGCGAGA
196 AG-ACAC--ATTGAGGT-ATTTTCAA--TTTATG-C--TTTTCAAAATCAACTCATATTGCGAGA
*
11668245 GGTGAGTTGAGCCTC-GGCACGCTGAGG-T-A-TT-TTC
252 GGTGAGTTGAGCCTCAGACACGCTGAGGTTAATTTGTTC
11668279 AA-TTATG-TTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA-GCTGAG
1 AATTTATGTTTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * * * * *
11668341 GTATTTTCCATTTCTGTTTTTTACTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATG
66 GTAATTTCAATTTCTG-----------TGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTT
*
11668406 GAGCCTCAGGTCATACGCCGAGGTATTTTCAATAGATTTTTTTCAATTTCTG-CTTTTCAAAAAT
119 GAGCCTCAGG--ACACG-CGAGG---------TA-A----TTTCAATTTCTGAC--TTC-AAAAT
* * * * *
11668470 TAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
164 CAACTCATATTGCGA-AAGGTGAGTTGAGCCT-AAGACACATTGAGGTATTTTCAATTTATGCTT
* *
11668534 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCACGCTGAGGTATTTT
227 TTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---ACACGCTGAGG----TT
*
11668599 CAATTTTTCACTTTTTC
282 -AA----T---TTGTTC
* * * **
11668616 AATTTATGCTTT-CAAACTACTTTTCAAAATCACTCATATTGC-AGAAATGAGTTGAGCCTCAGG
1 AATTTATGTTTTGCAAA--A---ATC---A--ACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG
* *
11668679 ACACGCTGAGGTAATTTCAATTTC--TGTTGTCAAAAAATCAATTCATATTGCGAGAGGTGAGTT
56 ACACGCTGAGGTAATTTCAATTTCTGTGTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTT
** *
11668742 GAGCCTCA-GACACATTGAGGTATTTTCAATTTCTG-CTTTTCAAGAAAATCAACTCATATTGCG
119 GAGCCTCAGGACAC-GCGAGGTAATTTCAATTTCTGAC--TTC---AAAATCAACTCATATTGCG
* * *
11668805 AGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGCTTTTCAAAATTCAACTC
178 AAAGGTGAGTTGAGCCT-AAGACACATTGAGGTATTTTCAATTTATGCTTTTCAAAA-TCAACTC
* *
11668870 ATATTGC--GA--TGAGTTGAGCCTCGGACACGCCGAGG-T-A-TT-TTC
241 ATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTTAATTTGTTC
* * * * *
11668912 AATTTCTGTTGT-CAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAG
1 AATTTATGTTTTGC-AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAG
11668966 TTCACATGTT
Statistics
Matches: 808, Mismatches: 63, Indels: 210
0.75 0.06 0.19
Matches are distributed among these distances:
281 20 0.02
282 47 0.06
283 5 0.01
284 5 0.01
285 2 0.00
287 11 0.01
288 19 0.02
289 1 0.00
290 1 0.00
291 1 0.00
292 6 0.01
293 10 0.01
294 79 0.10
295 17 0.02
296 60 0.07
297 12 0.01
298 14 0.02
299 76 0.09
300 40 0.05
301 1 0.00
305 1 0.00
307 1 0.00
308 1 0.00
310 1 0.00
312 9 0.01
313 5 0.01
314 6 0.01
315 20 0.02
316 5 0.01
317 40 0.05
318 45 0.06
319 39 0.05
320 4 0.00
321 77 0.10
324 2 0.00
326 1 0.00
328 1 0.00
333 7 0.01
335 7 0.01
336 38 0.05
337 5 0.01
338 9 0.01
339 3 0.00
340 1 0.00
343 2 0.00
346 1 0.00
347 22 0.03
348 28 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (290 bp):
AATTTATGTTTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTCAATTTCTGTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCGAGGTAATTTCAATTTCTGACTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTA
AGACACATTGAGGTATTTTCAATTTATGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGACACGCTGAGGTTAATTTGTTC
Found at i:11668535 original size:89 final size:87
Alignment explanation
Indices: 11668274--11668706 Score: 312
Period size: 84 Copynumber: 5.0 Consensus size: 87
11668264 CGCTGAGGTA
* *
11668274 TTTTCAATTATGTTTGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA-GCT
1 TTTTCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
11668338 GAGGTATTTTCCATTTCTG-TT
66 GAGGTATTTTCAATTTCTGTTT
* * * * * *
11668359 TTTT-ACTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACG
1 TTTTCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACG
* *
11668423 CCGAGGTATTTTCAA--T-AGATTT
64 CTGAGGTATTTTCAATTTCTG-TTT
* * ** *
11668445 TTTTCAATTTCTGCTTTTCAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAA-TTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
11668510 TTGAGGTATTTTCAATTTCTG--T
64 CTGAGGTATTTTCAATTTCTGTTT
*
11668532 TTTTC-A--A-------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCGCAC
1 TTTTCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACAC
* ***
11668586 GCTGAGGTATTTTCAATTTTTCACT
63 GCTGAGGTATTTTCAATTTCTGTTT
* * **
11668611 TTTTCAATTTATGCTTTCAAACTACTTTTCAAAATCACTCATATTGC-AGAAATGAGTTGAGCCT
1 TTTTCAA-TTATGTTTTCAAA--A---ATC---A--ACTCATATTGCGAGAGGTGAGTTGAGCCT
*
11668675 CAGGACACGCTGAGGTAATTTCAATTTCTGTT
55 CAGGACACGCTGAGGTATTTTCAATTTCTGTT
11668707 GTCAAAAAAT
Statistics
Matches: 267, Mismatches: 43, Indels: 64
0.71 0.11 0.17
Matches are distributed among these distances:
74 1 0.00
75 35 0.13
77 22 0.08
79 6 0.02
80 1 0.00
83 1 0.00
84 47 0.18
85 5 0.02
86 9 0.03
87 38 0.14
88 4 0.01
89 39 0.15
90 4 0.01
92 1 0.00
95 2 0.01
97 22 0.08
98 1 0.00
99 16 0.06
100 13 0.05
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTTCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTTT
Found at i:11668910 original size:68 final size:72
Alignment explanation
Indices: 11668641--11668964 Score: 394
Period size: 72 Copynumber: 4.5 Consensus size: 72
11668631 ACTACTTTTC
* * *
11668641 AAAATC-ACTCATATTGCAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAAATCAACTCATATTGCAG-AGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
*
11668705 -TTGTCAA
65 CTTTTCAA
* **
11668712 AAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGC-AGA-GTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
11668776 GCTTTTCAA
64 GCTTTTCAA
* *
11668785 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGC-AGA-GTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
11668850 TGCTTTTC-A
63 TGCTTTTCAA
* * *
11668859 AAATTCAACTCATATTGC-GA-TGAGTTGAGCCTC-GGACACGCCGAGGTATTTTCAATTTCTG-
1 AAAATCAACTCATATTGCAGAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGC
*
11668920 TTGTCAA
66 TTTTCAA
*
11668927 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCA
1 AAAATCAACTCATATTGC--AGAGTGAGTTGAGCCTCA
11668965 GTTCACATGT
Statistics
Matches: 223, Mismatches: 18, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
67 4 0.02
68 42 0.19
69 13 0.06
71 9 0.04
72 48 0.22
73 38 0.17
74 37 0.17
75 32 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCAGAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGC
TTTTCAA
Found at i:11668993 original size:143 final size:143
Alignment explanation
Indices: 11668641--11668964 Score: 408
Period size: 147 Copynumber: 2.3 Consensus size: 143
11668631 ACTACTTTTC
* * * * *
11668641 AAAATC-ACTCATATTGC-AGAAA-TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCAAGACACGTTGAGATATTTTCAATTTT
* * * **
11668703 TG-TTGTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATTGAGGTATTT
65 TGCTTTTC-AAAATTCAACTCATATTGC--GA--TGAGTTGAGCCTCAGACACACCGAGGTATTT
*
11668767 TCAATTTCTGCTTTTCAAG
125 TCAATTTCTGCTTGTCAAG
* * *
11668786 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAAGACACGTTGAGATATTTTCAATTTTT
* *
11668851 GCTTTTCAAAATTCAACTCATATTGCGATGAGTTGAGCCTCGGACACGCCGAGGTATTTTCAATT
66 GCTTTTCAAAATTCAACTCATATTGCGATGAGTTGAGCCTCAGACACACCGAGGTATTTTCAATT
11668916 TCTG-TTGTCAA-
131 TCTGCTTGTCAAG
11668927 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCA
1 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCA
11668965 GTTCACATGT
Statistics
Matches: 159, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
141 36 0.23
142 6 0.04
143 37 0.23
145 8 0.05
146 12 0.08
147 56 0.35
148 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (143 bp):
AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAAGACACGTTGAGATATTTTCAATTTTT
GCTTTTCAAAATTCAACTCATATTGCGATGAGTTGAGCCTCAGACACACCGAGGTATTTTCAATT
TCTGCTTGTCAAG
Found at i:11670070 original size:18 final size:19
Alignment explanation
Indices: 11670034--11670071 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11670024 GCATACATCG
**
11670034 AATACAAAAAGCAGAGGAA
1 AATACAAAAAAAAGAGGAA
11670053 AATACAAAAAAAAG-GGAA
1 AATACAAAAAAAAGAGGAA
11670071 A
1 A
11670072 CAAGGAACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.08, G:0.18, T:0.05
Consensus pattern (19 bp):
AATACAAAAAAAAGAGGAA
Found at i:11671203 original size:15 final size:14
Alignment explanation
Indices: 11671174--11671207 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
11671164 TTGATATTAG
*
11671174 TATATGTTTATATA
1 TATATCTTTATATA
11671188 TATATCTTTAATATA
1 TATATCTTT-ATATA
11671203 TATAT
1 TATAT
11671208 ATAGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TATATCTTTATATA
Found at i:11673407 original size:29 final size:30
Alignment explanation
Indices: 11673348--11673407 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11673338 GATAGAAGGG
* * * *
11673348 GAGTAAAAGTTTTGGGGGGAAAGTAGGAAA
1 GAGTAAAAATTTTGAGGGAAAAGTAGAAAA
11673378 GAGTAAAAATTTTGAGGGAAAAGTA-AAAA
1 GAGTAAAAATTTTGAGGGAAAAGTAGAAAA
11673407 G
1 G
11673408 GTTTGGGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (30 bp):
GAGTAAAAATTTTGAGGGAAAAGTAGAAAA
Found at i:11673412 original size:21 final size:21
Alignment explanation
Indices: 11673373--11673412 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11673363 GGGGAAAGTA
*
11673373 GGAAAGAGTAAAAATTTTGAG
1 GGAAAGAGTAAAAAGTTTGAG
11673394 GGAAA-AGTAAAAAGGTTTG
1 GGAAAGAGTAAAAA-GTTTG
11673413 GGAGTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GGAAAGAGTAAAAAGTTTGAG
Found at i:11673464 original size:9 final size:9
Alignment explanation
Indices: 11673450--11673486 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11673440 TATAGTTTAA
11673450 TATTCGAAT
1 TATTCGAAT
11673459 TATTCGAAT
1 TATTCGAAT
*
11673468 TATTCGAGT
1 TATTCGAAT
11673477 TATTCGAAT
1 TATTCGAAT
11673486 T
1 T
11673487 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11673550 original size:9 final size:9
Alignment explanation
Indices: 11673536--11673568 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
11673526 ATTCGAGTTG
11673536 ACTCGAATA
1 ACTCGAATA
*
11673545 ACTCGATTA
1 ACTCGAATA
11673554 ACTCGAATA
1 ACTCGAATA
11673563 ACTCGA
1 ACTCGA
11673569 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:11673559 original size:18 final size:18
Alignment explanation
Indices: 11673536--11673570 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11673526 ATTCGAGTTG
11673536 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
11673554 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
11673571 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:11674105 original size:22 final size:21
Alignment explanation
Indices: 11674076--11674131 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
11674066 ACATAAACTA
11674076 AGCAAAAACTAAGAACGAAAT
1 AGCAAAAACTAAGAACGAAAT
11674097 ATGCAAAAACTAAGAACGAAAT
1 A-GCAAAAACTAAGAACGAAAT
11674119 A--AAAAACTAAGAA
1 AGCAAAAACTAAGAA
11674132 TGATTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.35
21 1 0.03
22 21 0.62
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.11
Consensus pattern (21 bp):
AGCAAAAACTAAGAACGAAAT
Found at i:11683736 original size:41 final size:41
Alignment explanation
Indices: 11683679--11683761 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
11683669 AGAGTGAACG
*
11683679 AGTCTGTACTGAGGGGGTCAAATCCACGGTGTCACTCTATC
1 AGTCTGTACTGAGGGGGTCAAATCCACAGTGTCACTCTATC
11683720 AGTCTGTACTGAGGGGGTCAAATCCACAGTGTCACTCTATC
1 AGTCTGTACTGAGGGGGTCAAATCCACAGTGTCACTCTATC
11683761 A
1 A
11683762 TCCTCATGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (41 bp):
AGTCTGTACTGAGGGGGTCAAATCCACAGTGTCACTCTATC
Found at i:11685037 original size:26 final size:26
Alignment explanation
Indices: 11684976--11685032 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11684966 GAAATAACGC
*
11684976 AAAATAA-AATAGTAATAAAGAACTA
1 AAAATAATAATACTAATAAAGAACTA
*
11685001 AGAATAATAATACTAATAAA-AA-TA
1 AAAATAATAATACTAATAAAGAACTA
11685025 AAAATAAT
1 AAAATAAT
11685033 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.32
25 8 0.29
26 11 0.39
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAATAATAATACTAATAAAGAACTA
Found at i:11685250 original size:19 final size:18
Alignment explanation
Indices: 11685226--11685291 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
11685216 GGAGAAAGTC
11685226 AAAGAAAGAGGAAAGAAAG
1 AAAGAAA-AGGAAAGAAAG
*
11685245 AAAGAAAAGAGAAGGAAAG
1 AAAGAAAAG-GAAAGAAAG
*
11685264 AAAGAGAAGGGAAAG-AAG
1 AAAGA-AAAGGAAAGAAAG
11685282 -AAGAAAAGGA
1 AAAGAAAAGGA
11685292 GAGCAAGGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.12
17 4 0.10
18 5 0.12
19 24 0.59
20 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGGAAAGAAAG
Found at i:11685257 original size:15 final size:15
Alignment explanation
Indices: 11685226--11685289 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
11685216 GGAGAAAGTC
*
11685226 AAAGAAAGAGGAA-AG
1 AAAGAAAGA-AAAGAG
11685241 AAAGAAAGAAAAGAG
1 AAAGAAAGAAAAGAG
*
11685256 AAGGAAAG-AAAGAG
1 AAAGAAAGAAAAGAG
*
11685270 AAGGGAAAGAAGAAGA-
1 AA-AGAAAGAA-AAGAG
11685286 AAAG
1 AAAG
11685290 GAGAGCAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.24
15 25 0.60
16 3 0.07
17 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAGAG
Found at i:11685282 original size:14 final size:14
Alignment explanation
Indices: 11685236--11685280 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
11685226 AAAGAAAGAG
11685236 GAAAGA-AA-GAAA
1 GAAAGAGAAGGAAA
11685248 GAAAAGAGAAGGAAA
1 G-AAAGAGAAGGAAA
11685263 GAAAGAGAAGGGAAA
1 GAAAGAGAA-GGAAA
11685278 GAA
1 GAA
11685281 GAAGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 5 0.17
14 10 0.34
15 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAAGAGAAGGAAA
Found at i:11686392 original size:90 final size:90
Alignment explanation
Indices: 11686239--11686419 Score: 326
Period size: 90 Copynumber: 2.0 Consensus size: 90
11686229 TTTCTTCGTG
*
11686239 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCTTAGGGGACTCCT
1 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
11686304 ACAAAGAAGTTTAAGTTGTAACATT
66 ACAAAGAAGTTTAAGTTGTAACATT
* *
11686329 AATCGCTCTGTTTTTGTGACATGGATTAGAATGAGGCTCCATCTCGTTCTTCCTAGGGGACTCCT
1 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
*
11686394 ACAAAGAAGTTTGAGTTGTAACATT
66 ACAAAGAAGTTTAAGTTGTAACATT
11686419 A
1 A
11686420 CTTAAATTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (90 bp):
AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
ACAAAGAAGTTTAAGTTGTAACATT
Found at i:11690084 original size:30 final size:30
Alignment explanation
Indices: 11690049--11690106 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
11690039 CATGACCGTG
11690049 ACACACGGGCATGTGG-TCTACCCGTGTGTC
1 ACACACGGGCATGTGGATC-ACCCGTGTGTC
11690079 ACACACGGGCATGTGGATCACCCGTGTG
1 ACACACGGGCATGTGGATCACCCGTGTG
11690107 GAAGTGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGATCACCCGTGTGTC
Found at i:11690219 original size:61 final size:60
Alignment explanation
Indices: 11690124--11690245 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
11690114 CTAGGCCGTG
* * **
11690124 TGCCATGCTAAATTAGGCACATTTTGTCCGTTTTTTGGTCTGTTTCTTGCTCTTTTCGCTA
1 TGCCACGCTAAATTAGGCACATTTTGTCCG-TTTTTGGCCCATTTCTTGCTCTTTTCGCTA
*
11690185 TGCCACGCTGAATTAGGCACATTTTGTCCGTTTTTGGCCCATTTCTTGCTCTTTTCGCTA
1 TGCCACGCTAAATTAGGCACATTTTGTCCGTTTTTGGCCCATTTCTTGCTCTTTTCGCTA
11690245 T
1 T
11690246 CCTAAGCTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 28 0.50
61 28 0.50
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (60 bp):
TGCCACGCTAAATTAGGCACATTTTGTCCGTTTTTGGCCCATTTCTTGCTCTTTTCGCTA
Found at i:11701755 original size:55 final size:55
Alignment explanation
Indices: 11701635--11701774 Score: 138
Period size: 55 Copynumber: 2.5 Consensus size: 55
11701625 GACATGGCAG
* * * * ** *
11701635 TGGGCGAACCTGCCAAAATAGCACGGGCGTGCGACACGCTCGTGCCTTGAACCCG
1 TGGGCGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAACCCA
* * * *
11701690 TGGCCTAACCTGTCAAATTAACACGGGTGTGCGACACGCCCGTTCCAAGCAA-CCA
1 TGGGCGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAG-AACCCA
* * *
11701745 TGGGCGAACCTATTAAATTAACACGAGCGT
1 TGGGCGAACCTGTCAAATTAACACGGGCGT
11701775 AGGCCTACAT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
55 65 0.97
56 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (55 bp):
TGGGCGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAACCCA
Found at i:11702312 original size:23 final size:23
Alignment explanation
Indices: 11702286--11702331 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11702276 CATTCTCTTG
*
11702286 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
11702309 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
11702332 CAATGTCACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:11707810 original size:4 final size:4
Alignment explanation
Indices: 11707801--11707827 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11707791 TATTTTGCTA
11707801 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
11707828 TTAATATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:11708580 original size:6 final size:6
Alignment explanation
Indices: 11708557--11708606 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
11708547 TCTATGAAAT
*
11708557 TTTTATA TTTTTA GTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
11708606 T
1 T
11708607 AATTTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:11713264 original size:43 final size:43
Alignment explanation
Indices: 11713211--11713367 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 43
11713201 GTGCCAGAAA
* *
11713211 CGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGGGGGAAG
1 CGCCACTAAAGGTCATGTTCTTTAGCGGAATTTGTGAGGGAAG
* * ** *
11713254 CGCCGCTAAAGGTCATGTTATTTAGCGGCGTTTGTGAGAGAAG
1 CGCCACTAAAGGTCATGTTCTTTAGCGGAATTTGTGAGGGAAG
* * * *
11713297 CGCTACTAAAGGTCATGTTCTTTAGCGGTGA-TTATGAGGAAAG
1 CGCCACTAAAGGTCATGTTCTTTAGCGG-AATTTGTGAGGGAAG
* * *
11713340 CGTCGCTAAAGGTCATGTTCTATAGCGG
1 CGCCACTAAAGGTCATGTTCTTTAGCGG
11713368 CGTTTTTCCA
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
CGCCACTAAAGGTCATGTTCTTTAGCGGAATTTGTGAGGGAAG
Found at i:11713366 original size:86 final size:86
Alignment explanation
Indices: 11713206--11713372 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 86
11713196 CGTTCGTGCC
* * * *
11713206 AGAAACGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGGGGGAAGCGCCGCTAAAGGTCATG
1 AGAAACGCCACTAAAGGTCATGTTCTTTAGCGGAATTTATGAGGAAAGCGCCGCTAAAGGTCATG
*
11713271 TTATTTAGCGGCGTTTGTGAG
66 TTATATAGCGGCGTTTGTGAG
* * * *
11713292 AGAAGCGCTACTAAAGGTCATGTTCTTTAGCGGTGA-TTATGAGGAAAGCGTCGCTAAAGGTCAT
1 AGAAACGCCACTAAAGGTCATGTTCTTTAGCGG-AATTTATGAGGAAAGCGCCGCTAAAGGTCAT
*
11713356 GTTCTATAGCGGCGTTT
65 GTTATATAGCGGCGTTT
11713373 TTCCATATAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
86 69 0.99
87 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (86 bp):
AGAAACGCCACTAAAGGTCATGTTCTTTAGCGGAATTTATGAGGAAAGCGCCGCTAAAGGTCATG
TTATATAGCGGCGTTTGTGAG
Found at i:11723299 original size:42 final size:42
Alignment explanation
Indices: 11723252--11723335 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
11723242 GAATGAGTAG
11723252 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
1 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
11723294 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
1 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
11723336 TCATGCTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (42 bp):
AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
Found at i:11724289 original size:38 final size:38
Alignment explanation
Indices: 11724233--11724355 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
11724223 GTAAAAGAAG
*
11724233 AAATTCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
** * *
11724271 AAATCCGGACTTAAAGTCCAAATGCTATATGCTAGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
*
11724309 AAATCCGGACTTAAAGTCCGCAGGCTA-AGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
11724347 AATATCCGG
1 AA-ATCCGG
11724356 GTTAAGGACC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 66 0.90
39 6 0.08
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
Found at i:11736062 original size:20 final size:20
Alignment explanation
Indices: 11736039--11736084 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
11736029 TAAATTAATT
11736039 ATTTTAG-AAATATATTAAAA
1 ATTTTAGAAAATAT-TTAAAA
11736059 ATTTT-GAAAATATTTAAAA
1 ATTTTAGAAAATATTTAAAA
11736078 ACTTTTA
1 A-TTTTA
11736085 AGATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTTTAGAAAATATTTAAAA
Found at i:11736258 original size:39 final size:40
Alignment explanation
Indices: 11736215--11736296 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 40
11736205 TATTTAATAC
* *
11736215 AATAAAATATTTATTATATTTAT-TTTTGTTTTTTAACAT
1 AATAAAAAATTTATTATATTTATATTGTGTTTTTTAACAT
*
11736254 AATAAAAAATTTATTATATTTATAGTTGTGTTTTTTAATAT
1 AATAAAAAATTTATTATATTTATA-TTGTGTTTTTTAACAT
11736295 AA
1 AA
11736297 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 22 0.58
41 16 0.42
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (40 bp):
AATAAAAAATTTATTATATTTATATTGTGTTTTTTAACAT
Found at i:11736389 original size:14 final size:14
Alignment explanation
Indices: 11736370--11736403 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11736360 TATATATATT
*
11736370 AAAAATTATTTTTA
1 AAAAATTAATTTTA
11736384 AAAAATTAATTTTA
1 AAAAATTAATTTTA
11736398 AAAAAT
1 AAAAAT
11736404 CAAGTATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATTAATTTTA
Found at i:11736689 original size:7 final size:7
Alignment explanation
Indices: 11736677--11736701 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11736667 ACATTGATTT
11736677 GCAAGTG
1 GCAAGTG
11736684 GCAAGTG
1 GCAAGTG
11736691 GCAAGTG
1 GCAAGTG
11736698 GCAA
1 GCAA
11736702 CTCCTTGTAA
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:0.32, C:0.16, G:0.40, T:0.12
Consensus pattern (7 bp):
GCAAGTG
Found at i:11738696 original size:19 final size:20
Alignment explanation
Indices: 11738672--11738723 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
11738662 AGATGAGTAC
*
11738672 AAATTTGTAAAAAATTA-TA
1 AAATTTATAAAAAATTACTA
* *
11738691 AAATTTTTGAAAAATTACTA
1 AAATTTATAAAAAATTACTA
*
11738711 AAAATTATAAAAA
1 AAATTTATAAAAA
11738724 TATAAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAATTTATAAAAAATTACTA
Found at i:11738724 original size:19 final size:19
Alignment explanation
Indices: 11738681--11738731 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
11738671 CAAATTTGTA
* *
11738681 AAAAATTATAAAATTTTTG
1 AAAAATTATAAAAATTATG
11738700 AAAAATTACTAAAAATTAT-
1 AAAAATTA-TAAAAATTATG
11738719 AAAAA-TATAAAAA
1 AAAAATTATAAAAA
11738732 ACACAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 13 0.45
20 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATTATG
Found at i:11738731 original size:8 final size:9
Alignment explanation
Indices: 11738681--11738781 Score: 62
Period size: 10 Copynumber: 10.7 Consensus size: 9
11738671 CAAATTTGTA
11738681 AAAAATTAT
1 AAAAATTAT
* *
11738690 AAAATTTTT
1 AAAAATTAT
11738699 GAAAAATTACT
1 -AAAAATTA-T
11738710 AAAAATTAT
1 AAAAATTAT
11738719 AAAAA-TAT
1 AAAAATTAT
** *
11738727 AAAAAACACA
1 AAAAATTA-T
11738737 AAAAATTAATT
1 AAAAATT-A-T
*
11738748 AATAATTTAT
1 AA-AAATTAT
11738758 AAAAA-TAT
1 AAAAATTAT
*
11738766 AAAATTTAAT
1 AAAAATT-AT
11738776 AAAAAT
1 AAAAAT
11738782 GCACATCTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 15 0.21
9 17 0.24
10 29 0.41
11 5 0.07
12 4 0.06
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:11738780 original size:39 final size:37
Alignment explanation
Indices: 11738681--11738781 Score: 89
Period size: 39 Copynumber: 2.6 Consensus size: 37
11738671 CAAATTTGTA
*
11738681 AAAAATTATAAAATTT-TTGAAAAATTACTAAAAATTAT
1 AAAAA-TATAAAATTTAAT-AAAAATTACTAAAAATTAT
*** * *
11738719 AAAAATATAAAAAACACA-AAAAATTAATTAATAATTTAT
1 AAAAATATAAAATTTA-ATAAAAATT-ACTAA-AAATTAT
11738758 AAAAATATAAAATTTAATAAAAAT
1 AAAAATATAAAATTTAATAAAAAT
11738782 GCACATCTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
37 14 0.29
38 10 0.20
39 25 0.51
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (37 bp):
AAAAATATAAAATTTAATAAAAATTACTAAAAATTAT
Done.