Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 29 of 109
Found at i:9564804 original size:108 final size:108
Alignment explanation
Indices: 9564674--9564885 Score: 356
Period size: 108 Copynumber: 2.0 Consensus size: 108
9564664 TCTGCTATCT
*
9564674 TCGATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCT-TTGCC
1 TCGATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTAC-TCTGTTGCC
*
9564738 AAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTG
65 AAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCGCTG
* *
9564782 TCGATCTACT-CTGCTGCCAAATACATGAAGATAAGATCTGCTATCTTCGATCTACTCTGTTGCC
1 TCGATCTACTCCT-CTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCTGTTGCC
9564846 AAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCC
65 AAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCC
9564886 TCTGCCAAAT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
107 5 0.05
108 93 0.95
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (108 bp):
TCGATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCTGTTGCCA
AATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCGCTG
Found at i:9564837 original size:46 final size:46
Alignment explanation
Indices: 9564782--9564920 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
9564772 TACTCCGCTG
* *
9564782 TCGATCTACTCTGCTGCCAAATACATGAAGATAAGATCTGCTATCT
1 TCGATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCT
* *
9564828 TCGATCTACTCTGTTGCCAAATACAGGAAGACAAGATCTACTATCT
1 TCGATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCT
9564874 TCGATCTACTCCT-CTGCCAAATACAGGAAGACAAGATCTGCTATCT
1 TCGATCTACT-CTGCTGCCAAATACAGGAAGACAAGATCTGCTATCT
9564920 T
1 T
9564921 TTAGTCTATT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
46 84 0.98
47 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (46 bp):
TCGATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCT
Found at i:9564910 original size:154 final size:154
Alignment explanation
Indices: 9564630--9564920 Score: 478
Period size: 154 Copynumber: 1.9 Consensus size: 154
9564620 TGCTATCTTT
9564630 GATCTACTTCGCTACCAAATACATGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAA
1 GATCTACTTCGCTACCAAATACATGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAA
* * * *
9564695 TACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCTTTGCCAAATACAGGAAGACAAGATCTG
66 TACAAGAAGACAAGATCTACTATCTTCGATCTACTCCTCTGCCAAATACAGGAAGACAAGATCTG
9564760 CTATCTTCGATCTACTCCGCTGTC
131 CTATCTTCGATCTACTCCGCTGTC
* * *
9564784 GATCTAC-TCTGCTGCCAAATACATGAAGATAAGATCTGCTATCTTCGATCTACT-CTGTTGCCA
1 GATCTACTTC-GCTACCAAATACATGAAGACAAGATCTGCTATCTTCGATCTACTCCT-CTGCCA
*
9564847 AATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCTCTGCCAAATACAGGAAGACAAGATC
64 AATACAAGAAGACAAGATCTACTATCTTCGATCTACTCCTCTGCCAAATACAGGAAGACAAGATC
9564912 TGCTATCTT
129 TGCTATCTT
9564921 TTAGTCTATT
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
153 4 0.03
154 123 0.97
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (154 bp):
GATCTACTTCGCTACCAAATACATGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAA
TACAAGAAGACAAGATCTACTATCTTCGATCTACTCCTCTGCCAAATACAGGAAGACAAGATCTG
CTATCTTCGATCTACTCCGCTGTC
Found at i:9566004 original size:103 final size:97
Alignment explanation
Indices: 9565815--9566107 Score: 301
Period size: 98 Copynumber: 2.9 Consensus size: 97
9565805 AAATTGCTTT
** * * * *
9565815 AAAAAGATTATTACAATGGACAAGATG-AAATTTTATAGAGAACGAAGCTCGCAATGAATAAATT
1 AAAAAGATTAGCACAATGGATAAAATGAAAATTTTATTGAGAAC-AAGCTCGAAATGAATAAATT
* *
9565879 AATCAAGAT-GACAACTTTTGCTAAGATACGAACTG
65 AATCAAGATAG-CAAATTTTGCTAAGATAAG-A-TG
*
9565914 AATAAGA-T-GCA-AA-GGATTATCACAATGGATAAGATTTTATTGAGAACAAGGCTCGAAATGA
1 AAAAAGATTAGCACAATGGA-TA--A-AAT-GA-AA-ATTTTATTGAGAACAA-GCTCGAAATGA
*
9565975 ATAAATTAATCAAGATAGCAAATTTTGCTAAAATAAGATG
58 ATAAATTAATCAAGATAGCAAATTTTGCTAAGATAAGATG
* * *
9566015 AAAAAGATTATCACAATGGATAAGATGAAAATTTTATTGAGAACAAAGCTCAAAATGAATAAATT
1 AAAAAGATTAGCACAATGGATAAAATGAAAATTTTATTGAGAAC-AAGCTCGAAATGAATAAATT
*
9566080 AATCAAGATAGAAAATTTTGCTAAGATA
65 AATCAAGATAGCAAATTTTGCTAAGATA
9566108 TGAAATGAGA
Statistics
Matches: 163, Mismatches: 16, Indels: 31
0.78 0.08 0.15
Matches are distributed among these distances:
95 3 0.02
96 3 0.02
97 1 0.01
98 59 0.36
99 12 0.07
100 3 0.02
101 10 0.06
102 7 0.04
103 57 0.35
104 5 0.03
105 3 0.02
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (97 bp):
AAAAAGATTAGCACAATGGATAAAATGAAAATTTTATTGAGAACAAGCTCGAAATGAATAAATTA
ATCAAGATAGCAAATTTTGCTAAGATAAGATG
Found at i:9566094 original size:49 final size:49
Alignment explanation
Indices: 9565947--9566098 Score: 134
Period size: 49 Copynumber: 3.1 Consensus size: 49
9565937 AATGGATAAG
* * *
9565947 ATTTTATTGAGAACAAGGCTCGAAATGAATAAATTAATCAAGATAGCAA
1 ATTTTATTGAGAACAAAGCTCAAAATGAATAAATTAATCAAGATAGAAA
** * * * **
9565996 ATTTTGCT-A-AA-ATAAGATGAAAAAGATTATCACAATGGAT-AAGAT-GAAA
1 ATTTTATTGAGAACA-AAGCTCAAAATGA--AT-A-AATTAATCAAGATAGAAA
9566045 ATTTTATTGAGAACAAAGCTCAAAATGAATAAATTAATCAAGATAGAAA
1 ATTTTATTGAGAACAAAGCTCAAAATGAATAAATTAATCAAGATAGAAA
9566094 ATTTT
1 ATTTT
9566099 GCTAAGATAT
Statistics
Matches: 76, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
46 1 0.01
47 15 0.20
48 7 0.09
49 28 0.37
50 7 0.09
51 17 0.22
52 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.28
Consensus pattern (49 bp):
ATTTTATTGAGAACAAAGCTCAAAATGAATAAATTAATCAAGATAGAAA
Found at i:9566448 original size:7 final size:7
Alignment explanation
Indices: 9566436--9566469 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
9566426 TGGCCTCTCC
9566436 TTTTTCT
1 TTTTTCT
9566443 TTTTTCT
1 TTTTTCT
*
9566450 TTTTTCA
1 TTTTTCT
9566457 TTTTTCAT
1 TTTTTC-T
9566465 TTTTT
1 TTTTT
9566470 TTGTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:9570473 original size:31 final size:31
Alignment explanation
Indices: 9570437--9570506 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
9570427 GACGCACGGC
9570437 GGTGGCGGTAGAAGACCAA-AGGTCTGAACCA
1 GGTGGCGGTAGAAGACCAACA-GTCTGAACCA
* *
9570468 GGTGGCGCTTAGGAGACCAACAGTCTGAACCA
1 GGTGGCG-GTAGAAGACCAACAGTCTGAACCA
9570500 GG-GGCGG
1 GGTGGCGG
9570507 CCAACTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 11 0.32
32 22 0.65
33 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.39, T:0.13
Consensus pattern (31 bp):
GGTGGCGGTAGAAGACCAACAGTCTGAACCA
Found at i:9571645 original size:27 final size:27
Alignment explanation
Indices: 9571610--9571730 Score: 116
Period size: 27 Copynumber: 4.5 Consensus size: 27
9571600 ATTGTTTCTC
* * *
9571610 TCAATGTTCACCATACGTACCATTCCT
1 TCAAAGTTCTCCATACGTACTATTCCT
* * * **
9571637 TCAGAGTTCGCCATATGTACTATTTTT
1 TCAAAGTTCTCCATACGTACTATTCCT
* * *
9571664 TCAATGTTCTCCATACGCACTATTCTT
1 TCAAAGTTCTCCATACGTACTATTCCT
* *
9571691 TCAAAATTTTCCATACGTACTATTCCT
1 TCAAAGTTCTCCATACGTACTATTCCT
*
9571718 TCAAAGTTATCCA
1 TCAAAGTTCTCCA
9571731 CACATATCAT
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (27 bp):
TCAAAGTTCTCCATACGTACTATTCCT
Found at i:9571705 original size:54 final size:54
Alignment explanation
Indices: 9571610--9571714 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
9571600 ATTGTTTCTC
* * * *
9571610 TCAATGTTCACCATACGTACCATTCCTTCAGAGTTCGCCATATGTACTATTTTT
1 TCAATGTTCACCATACGCACCATTCCTTCAAAATTCGCCATACGTACTATTTTT
* * * **
9571664 TCAATGTTCTCCATACGCACTATTCTTTCAAAATTTTCCATACGTACTATT
1 TCAATGTTCACCATACGCACCATTCCTTCAAAATTCGCCATACGTACTATT
9571715 CCTTCAAAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (54 bp):
TCAATGTTCACCATACGCACCATTCCTTCAAAATTCGCCATACGTACTATTTTT
Found at i:9571890 original size:27 final size:27
Alignment explanation
Indices: 9571860--9571940 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
9571850 TGTTTCTTTC
*
9571860 CATAGATCGCTACAAAGGCTTCCATTT
1 CATAGATCGCCACAAAGGCTTCCATTT
* ** *
9571887 CATAGATTGCCACGTAGTCTTCCATTT
1 CATAGATCGCCACAAAGGCTTCCATTT
* *
9571914 TATAGA-CTGCCACAAAGGCTTTCATTT
1 CATAGATC-GCCACAAAGGCTTCCATTT
9571941 TTCCAGTGTA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (27 bp):
CATAGATCGCCACAAAGGCTTCCATTT
Found at i:9571941 original size:27 final size:27
Alignment explanation
Indices: 9571871--9571941 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
9571861 ATAGATCGCT
* *
9571871 ACAAAGGCTTCCATTTCATAGATTGCC
1 ACAAAGGCTTCCATTTTATAGACTGCC
** *
9571898 ACGTAGTCTTCCATTTTATAGACTGCC
1 ACAAAGGCTTCCATTTTATAGACTGCC
*
9571925 ACAAAGGCTTTCATTTT
1 ACAAAGGCTTCCATTTT
9571942 TCCAGTGTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (27 bp):
ACAAAGGCTTCCATTTTATAGACTGCC
Found at i:9574011 original size:86 final size:87
Alignment explanation
Indices: 9573866--9574039 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 87
9573856 ACGTTATTTT
9573866 TTAAATAAACGTTTAGTTATTTTTCAAGCCATCCCCATCTACAATTAGGATAATTATTTTGGAAT
1 TTAAATAAACGTTTAGTTATTTTTCAAGCCATCCCCATCTACAATTAGGATAATTATTTTGGAAT
9573931 AATTAAAATAC-TCAACGCTTA
66 AATTAAAATACTTCAACGCTTA
9573952 TTAAATAAACGTTTAGTTATTTTTCAAGCCATCCCCATCTACAATTAGGATAATTATTTTGGAAT
1 TTAAATAAACGTTTAGTTATTTTTCAAGCCATCCCCATCTACAATTAGGATAATTATTTTGGAAT
9574017 AATTAAAATACTTCAACGCTTA
66 AATTAAAATACTTCAACGCTTA
9574039 T
1 T
9574040 CAAGCTCTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 76 0.87
87 11 0.13
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (87 bp):
TTAAATAAACGTTTAGTTATTTTTCAAGCCATCCCCATCTACAATTAGGATAATTATTTTGGAAT
AATTAAAATACTTCAACGCTTA
Found at i:9575148 original size:27 final size:27
Alignment explanation
Indices: 9575099--9575191 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
9575089 TCATTATACA
* **
9575099 TACTATTC-TTCAAAGTTCGCCATATG
1 TACTATTCTTTCAGAGTTTTCCATATG
* *
9575125 TACTATTCTTTCAGTGTTTTCCATACG
1 TACTATTCTTTCAGAGTTTTCCATATG
* *
9575152 TACTATTCTTTTAGAGTTTTTCATATG
1 TACTATTCTTTCAGAGTTTTCCATATG
9575179 TACTATTCTTTCA
1 TACTATTCTTTCA
9575192 AATTTAGCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 8 0.14
27 48 0.86
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (27 bp):
TACTATTCTTTCAGAGTTTTCCATATG
Found at i:9589069 original size:21 final size:21
Alignment explanation
Indices: 9589045--9589094 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
9589035 TAACTTCTAT
9589045 GGAGAAAAAGAAATAATAAAA
1 GGAGAAAAAGAAATAATAAAA
*
9589066 GGAGAAAAAGAAGTAATAAAA
1 GGAGAAAAAGAAATAATAAAA
*
9589087 GAAGAAAA
1 GGAGAAAA
9589095 TAAGAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (21 bp):
GGAGAAAAAGAAATAATAAAA
Found at i:9590140 original size:18 final size:19
Alignment explanation
Indices: 9590117--9590155 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9590107 TCCCTTAATA
9590117 TTTATC-TATTT-TTTCATT
1 TTTATCTTATTTATTT-ATT
9590135 TTTATCTTATTTATTTATT
1 TTTATCTTATTTATTTATT
9590154 TT
1 TT
9590156 ATCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 10 0.53
20 3 0.16
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATCTTATTTATTTATT
Found at i:9590731 original size:28 final size:28
Alignment explanation
Indices: 9590689--9590745 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
9590679 AAAGTTGATA
*
9590689 AGTCAATCGCTATTAGTTTAAATGTGTT
1 AGTCAATCGCAATTAGTTTAAATGTGTT
9590717 AGTCAATCGCAATTAGTTTAAATGTGTT
1 AGTCAATCGCAATTAGTTTAAATGTGTT
9590745 A
1 A
9590746 ATTGATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (28 bp):
AGTCAATCGCAATTAGTTTAAATGTGTT
Found at i:9594307 original size:10 final size:10
Alignment explanation
Indices: 9594294--9594366 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
9594284 GGGATAGGAC
9594294 ATGATATGTT
1 ATGATATGTT
9594304 ATGATATGTT
1 ATGATATGTT
9594314 ATGATATGTT
1 ATGATATGTT
* *
9594324 ACGCTATGTT
1 ATGATATGTT
* * *
9594334 ACGAAATGAT
1 ATGATATGTT
*
9594344 ATGATATGAT
1 ATGATATGTT
**
9594354 ACAATATGTT
1 ATGATATGTT
9594364 ATG
1 ATG
9594367 TTTTAATAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 51 1.00
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (10 bp):
ATGATATGTT
Found at i:9594311 original size:5 final size:5
Alignment explanation
Indices: 9594294--9594354 Score: 50
Period size: 5 Copynumber: 12.2 Consensus size: 5
9594284 GGGATAGGAC
* * * * * * * *
9594294 ATGAT ATGTT ATGAT ATGTT ATGAT ATGTT ACGCT ATGTT ACGAA ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
9594344 ATGAT ATGAT A
1 ATGAT ATGAT A
9594355 CAATATGTTA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:9594334 original size:30 final size:30
Alignment explanation
Indices: 9594297--9594366 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
9594287 ATAGGACATG
* * * *
9594297 ATATGTTATGATATGTTATGATATGTTACG
1 ATATGTTATGAAATGATATGATATGATACA
* *
9594327 CTATGTTACGAAATGATATGATATGATACA
1 ATATGTTATGAAATGATATGATATGATACA
9594357 ATATGTTATG
1 ATATGTTATG
9594367 TTTTAATAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (30 bp):
ATATGTTATGAAATGATATGATATGATACA
Found at i:9597972 original size:2 final size:2
Alignment explanation
Indices: 9597965--9597989 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9597955 CATTTTCTGC
9597965 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9597990 TACTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9599959 original size:31 final size:31
Alignment explanation
Indices: 9599924--9599993 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
9599914 TTAATATAAT
9599924 ATTTGGTACTTAAACTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
*
9599955 ATTTGGTACTTAAGCTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
9599986 ATTTGGTA
1 ATTTGGTA
9599994 TTTGATCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTGACACTTTTTCTTA
Found at i:9600063 original size:58 final size:59
Alignment explanation
Indices: 9599979--9600091 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
9599969 CTTGACACTT
* ** *
9599979 TTTCTTAATTTGGTATTTGATC-TTTTTTGGAGTTCAATTTGGTACCTGAACTTGACTC
1 TTTCCTAATTTGGTACCTGAACTTTTTTTGGAGTTCAATTTGGTACCTGAACTTGACTC
*** *
9600037 TTTCCTAATTTGGTACCTGAACTTTTTTTTTTGTTCAATTTGGTACTTGAACTTG
1 TTTCCTAATTTGGTACCTGAACTTTTTTTGGAGTTCAATTTGGTACCTGAACTTG
9600092 TCAAATGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
58 18 0.39
59 28 0.61
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (59 bp):
TTTCCTAATTTGGTACCTGAACTTTTTTTGGAGTTCAATTTGGTACCTGAACTTGACTC
Found at i:9600079 original size:30 final size:30
Alignment explanation
Indices: 9600010--9600091 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 30
9600000 CTTTTTTGGA
9600010 GTTCAATTTGGTACCTGAACTTGACTCTTT
1 GTTCAATTTGGTACCTGAACTTGACTCTTT
** *** *
9600040 CCT-AATTTGGTACCTGAACTTTTTTTTTT
1 GTTCAATTTGGTACCTGAACTTGACTCTTT
*
9600069 GTTCAATTTGGTACTTGAACTTG
1 GTTCAATTTGGTACCTGAACTTG
9600092 TCAAATGTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.48
Consensus pattern (30 bp):
GTTCAATTTGGTACCTGAACTTGACTCTTT
Found at i:9600879 original size:22 final size:24
Alignment explanation
Indices: 9600840--9600883 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
9600830 TGTTTCAAAT
9600840 TTATTGATTTTTAAAATTTTATTA
1 TTATTGATTTTTAAAATTTTATTA
*
9600864 TTATT-ATTTTT-TAATTTTAT
1 TTATTGATTTTTAAAATTTTAT
9600884 GAAATACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTATTGATTTTTAAAATTTTATTA
Found at i:9601643 original size:13 final size:11
Alignment explanation
Indices: 9601606--9601639 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9601596 CATCCATGCG
*
9601606 TTTTAAATACAA
1 TTTTTAATA-AA
9601618 TTTTTAATAAA
1 TTTTTAATAAA
9601629 TTTTTAATAAA
1 TTTTTAATAAA
9601640 AATTAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTTTAATAAA
Found at i:9601911 original size:23 final size:23
Alignment explanation
Indices: 9601848--9601912 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
9601838 AATCTACATT
* *
9601848 TAAAATAAATAAATTTAAATATA
1 TAAAATATATAAATTTAATTATA
** *
9601871 TAATTTATTTAAATTTAATTATA
1 TAAAATATATAAATTTAATTATA
9601894 -AAAATATATAAATATTAAT
1 TAAAATATATAAAT-TTAAT
9601913 ACAGAACATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAATATATAAATTTAATTATA
Found at i:9605739 original size:21 final size:21
Alignment explanation
Indices: 9605713--9605763 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9605703 TTAATTTATT
9605713 GTTTC-TAGCTTATTTAAGTTA
1 GTTTCTTA-CTTATTTAAGTTA
9605734 GTTTCTTACTTATTTAAGTTA
1 GTTTCTTACTTATTTAAGTTA
9605755 G-TTCTTACT
1 GTTTCTTACT
9605764 GCTTTGGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.28
21 19 0.66
22 2 0.07
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
GTTTCTTACTTATTTAAGTTA
Found at i:9607405 original size:20 final size:20
Alignment explanation
Indices: 9607369--9607406 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9607359 TACTAAAATA
**
9607369 TTTTTAAAATATTTTTTTAT
1 TTTTTAAAATAAATTTTTAT
9607389 TTTTTAAAATAAATTTTT
1 TTTTTAAAATAAATTTTT
9607407 GGCATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAAAATAAATTTTTAT
Found at i:9613857 original size:13 final size:13
Alignment explanation
Indices: 9613841--9613866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9613831 AAATTATATT
9613841 TATTTAATTAAAA
1 TATTTAATTAAAA
9613854 TATTTAATTAAAA
1 TATTTAATTAAAA
9613867 AAATTGATTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:9614601 original size:28 final size:28
Alignment explanation
Indices: 9614569--9614631 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
9614559 TAAATATAAC
*
9614569 TGTAATACTAATTAAGTGATAATTAAAA
1 TGTAACACTAATTAAGTGATAATTAAAA
9614597 TGTAACACTAATTAAGTGATAATTAAAA
1 TGTAACACTAATTAAGTGATAATTAAAA
9614625 TGTAACA
1 TGTAACA
9614632 TCCTAAGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.33
Consensus pattern (28 bp):
TGTAACACTAATTAAGTGATAATTAAAA
Found at i:9616861 original size:27 final size:27
Alignment explanation
Indices: 9616830--9616891 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
9616820 AGAACACTTA
*
9616830 AACAGGAAGCACTC-TCTCGAGCCATTT
1 AACAGGAAGCACTCATCT-GAGCCATGT
*
9616857 AACAGGAA--ACTCATGTGAGCCATGT
1 AACAGGAAGCACTCATCTGAGCCATGT
9616882 AACAGGAAGC
1 AACAGGAAGC
9616892 TTATCTCGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 20 0.67
26 2 0.07
27 8 0.27
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (27 bp):
AACAGGAAGCACTCATCTGAGCCATGT
Found at i:9617116 original size:25 final size:26
Alignment explanation
Indices: 9617051--9617116 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
9617041 AAGCGAGCAC
* *
9617051 TATCATGAAGCTCACAAAGAGCCAATT
1 TATCAGGAAGCTCACAAAGAGCC-ATA
*
9617078 TAAT-AGGAAGCTCACGAAGAGCC-TA
1 T-ATCAGGAAGCTCACAAAGAGCCATA
9617103 TATCAGGAAGCTCA
1 TATCAGGAAGCTCA
9617117 TAAGAGCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 2 0.06
25 12 0.35
27 18 0.53
28 2 0.06
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCAGGAAGCTCACAAAGAGCCATA
Found at i:9618828 original size:34 final size:34
Alignment explanation
Indices: 9618725--9618836 Score: 102
Period size: 34 Copynumber: 3.3 Consensus size: 34
9618715 CAAACACTTA
* *
9618725 ATAAACATGATTATTTGCTACTG-AGTTTATCTGTT
1 ATAAGCAT-ATTATTTGCTACTGTA-TTGATCTGTT
* * **
9618760 ATAAACATATTATTTGCTATTGTATTGAAATGTT
1 ATAAGCATATTATTTGCTACTGTATTGATCTGTT
* *
9618794 ATAAGCATATT-TATTGTTACTGTATTGTTCTGTT
1 ATAAGCATATTAT-TTGCTACTGTATTGATCTGTT
*
9618828 AAAAGCATA
1 ATAAGCATA
9618837 ATTAAATTCT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
33 1 0.02
34 54 0.84
35 9 0.14
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (34 bp):
ATAAGCATATTATTTGCTACTGTATTGATCTGTT
Found at i:9620334 original size:2 final size:2
Alignment explanation
Indices: 9620327--9620406 Score: 58
Period size: 2 Copynumber: 41.0 Consensus size: 2
9620317 AATTCGTGCT
* * *
9620327 TA TA TA TA TA TA TA TA TA TA TGA TA GA T- TA TA AA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* * * * *
9620368 TA AA TA GA TA CA AA TA -A TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9620407 ATAGAATATT
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
1 3 0.05
2 54 0.92
3 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (2 bp):
TA
Found at i:9620887 original size:29 final size:28
Alignment explanation
Indices: 9620847--9620965 Score: 80
Period size: 29 Copynumber: 4.1 Consensus size: 28
9620837 ATTTTAATAA
* * *
9620847 AAAATATTTAAAAGTTATTAAAAATTAG
1 AAAATATTTAAAAATCATAAAAAATTAG
* *
9620875 AAAATTTTATAAAAATCATAAAAAATTAT
1 AAAATATT-TAAAAATCATAAAAAATTAG
* * * *
9620904 AAAATATATAGAAATAT-AGAAAAAATAAT
1 AAAATATTTA-AAA-ATCATAAAAAATTAG
* *
9620933 AAAAT-TTTATAAAGTCATAAGAAAATTAT
1 AAAATATTTA-AAAATCATAA-AAAATTAG
9620962 AAAA
1 AAAA
9620966 AAAATGTAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 18 0.25
29 51 0.71
30 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (28 bp):
AAAATATTTAAAAATCATAAAAAATTAG
Found at i:9620897 original size:19 final size:18
Alignment explanation
Indices: 9620825--9620945 Score: 66
Period size: 19 Copynumber: 6.2 Consensus size: 18
9620815 AAAAGATAAA
9620825 AAAAATAATAAAATTTTAAT
1 AAAAAT-ATAAAATTTT-AT
9620845 AAAAAATATTTAAAAGTTATTA-
1 -AAAAATA--TAAAA-TT-TTAT
* *
9620867 AAAATTAGAAAATTTTAT
1 AAAAATATAAAATTTTAT
**
9620885 AAAAATCATAAAAAATTAT
1 AAAAAT-ATAAAATTTTAT
* *
9620904 AAAATATATAGAAA-TATAGA
1 AAAA-ATATA-AAATTTTA-T
9620924 AAAAATAATAAAATTTTAT
1 AAAAAT-ATAAAATTTTAT
9620943 AAA
1 AAA
9620946 GTCATAAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
17 3 0.04
18 7 0.09
19 30 0.38
20 16 0.21
21 12 0.15
22 5 0.06
23 3 0.04
24 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATATAAAATTTTAT
Found at i:9620956 original size:39 final size:41
Alignment explanation
Indices: 9620834--9620987 Score: 115
Period size: 39 Copynumber: 3.8 Consensus size: 41
9620824 AAAAAATAAT
* * * *
9620834 AAAATTTTAATAAAAAATATTTAAAAGTTATTAAAA-AT-TAG
1 AAAATTATAA-AAAAAATAATAAAAAATTA-TAAAATATATAG
* * *
9620875 AAAATT-TTATAAAAATCATAAAAAATTATAAAATATATAG
1 AAAATTATAAAAAAAATAATAAAAAATTATAAAATATATAG
* ** *
9620915 -AAA-TATAGAAAAAATAATAAAATTTTATAAAGTCATA-AG
1 AAAATTATAAAAAAAATAATAAAAAATTATAAAAT-ATATAG
*
9620954 AAAATTATAAAAAAAAT-GTAAAGAAATTATAAAA
1 AAAATTATAAAAAAAATAATAAA-AAATTATAAAA
9620988 ATTATTGTAT
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
38 6 0.07
39 42 0.48
40 15 0.17
41 25 0.28
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (41 bp):
AAAATTATAAAAAAAATAATAAAAAATTATAAAATATATAG
Found at i:9621439 original size:10 final size:10
Alignment explanation
Indices: 9621424--9621456 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
9621414 TTCTATTTGA
9621424 TTTTATAATT
1 TTTTATAATT
9621434 TTTTATAATTT
1 TTTTATAA-TT
9621445 TTTTATAATT
1 TTTTATAATT
9621455 TT
1 TT
9621457 ATATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:9621448 original size:11 final size:11
Alignment explanation
Indices: 9621424--9621456 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
9621414 TTCTATTTGA
9621424 TTTTATAA-TT
1 TTTTATAATTT
9621434 TTTTATAATTT
1 TTTTATAATTT
9621445 TTTTATAATTT
1 TTTTATAATTT
9621456 T
1 T
9621457 ATATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:9621465 original size:16 final size:16
Alignment explanation
Indices: 9621444--9621475 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9621434 TTTTATAATT
*
9621444 TTTTTATAATTTTATA
1 TTTTTACAATTTTATA
9621460 TTTTTACAATTTTATA
1 TTTTTACAATTTTATA
9621476 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTACAATTTTATA
Found at i:9623075 original size:16 final size:17
Alignment explanation
Indices: 9623056--9623090 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9623046 TTTTCACGTT
9623056 TTTTTAT-TTTTTAAAA
1 TTTTTATCTTTTTAAAA
9623072 TTTTTATCTTTTTAAAA
1 TTTTTATCTTTTTAAAA
9623089 TT
1 TT
9623091 ATAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATCTTTTTAAAA
Found at i:9623100 original size:17 final size:16
Alignment explanation
Indices: 9623061--9623103 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9623051 ACGTTTTTTT
**
9623061 ATTTTTTAAAATTTTT
1 ATTTTTTAAAATTTAA
9623077 ATCTTTTTAAAATTATAA
1 AT-TTTTTAAAATT-TAA
9623095 ATTTTTTAA
1 ATTTTTTAA
9623104 CATATAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTTAAAATTTAA
Found at i:9624069 original size:19 final size:20
Alignment explanation
Indices: 9624034--9624071 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9624024 AAAAAATTTC
*
9624034 AAATTTTATTTTATTTTTTG
1 AAATTTTATTATATTTTTTG
9624054 AAATTTTA-TATATTTTTT
1 AAATTTTATTATATTTTTT
9624072 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
AAATTTTATTATATTTTTTG
Found at i:9625576 original size:21 final size:19
Alignment explanation
Indices: 9625540--9625578 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
9625530 CCTGTTAAGT
9625540 TTTTTTTCTTTTCTTCTTA
1 TTTTTTTCTTTTCTTCTTA
9625559 TTTTTTTCTTCTTCCTTCTT
1 TTTTTTTCTT-TT-CTTCTT
9625579 TTCCTTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTTTTCTTCTTA
Found at i:9628028 original size:138 final size:138
Alignment explanation
Indices: 9627771--9628054 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 138
9627761 TCTAGATTGT
* * *
9627771 CACTAAATCTTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCGATCAGT
1 CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCAATCAGT
*
9627836 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAGTGAATAGCT
66 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
9627901 TAGAATGC
131 TAGAATGC
*
9627909 CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCAATTAGT
1 CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCAATCAGT
9627974 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
66 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
9628039 TAGAATGC
131 TAGAATGC
9628047 CACTCAAT
1 CACTCAAT
9628055 CTTTAGACGC
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 141 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (138 bp):
CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCAATCAGT
CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
TAGAATGC
Found at i:9628780 original size:14 final size:15
Alignment explanation
Indices: 9628742--9628783 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
9628732 AGAGAAACAA
* *
9628742 AAAATAAAATCAAAG
1 AAAAGAAAATAAAAG
9628757 AAAAGAAAATAAAAG
1 AAAAGAAAATAAAAG
*
9628772 -AAAGTAAATAAA
1 AAAAGAAAATAAA
9628784 TAAAATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (15 bp):
AAAAGAAAATAAAAG
Found at i:9628801 original size:19 final size:18
Alignment explanation
Indices: 9628763--9628802 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
9628753 AAAGAAAAGA
*
9628763 AAATAAAAGAAAGTAAAT
1 AAATAAAAGAAAGGAAAT
*
9628781 AAATAAAATATAAGGAAAT
1 AAATAAAAGA-AAGGAAAT
9628800 AAA
1 AAA
9628803 GGGATTAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
AAATAAAAGAAAGGAAAT
Found at i:9639730 original size:26 final size:26
Alignment explanation
Indices: 9639701--9639753 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
9639691 TCCAGCAGTT
9639701 AATATCCCAA-ACAA-ATTTGGTAAAAA
1 AATATCCCAATA-AACA-TTGGTAAAAA
*
9639727 AATATGCCAATAAACATTGGTAAAAA
1 AATATCCCAATAAACATTGGTAAAAA
9639753 A
1 A
9639754 TGCAAGCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.23
Consensus pattern (26 bp):
AATATCCCAATAAACATTGGTAAAAA
Found at i:9644217 original size:6 final size:6
Alignment explanation
Indices: 9644193--9644229 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
9644183 TATTGGTTAT
*
9644193 ATGAAA AT-AGA AT-AAA ATGAAA ATGAAA ATGAAA ATG
1 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA ATG
9644230 TTGACTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 8 0.29
6 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (6 bp):
ATGAAA
Found at i:9646499 original size:24 final size:24
Alignment explanation
Indices: 9646465--9646515 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
9646455 TCGTCGCCAG
*
9646465 AATAGGGTTACAAAGCATTACCGA
1 AATAGGATTACAAAGCATTACCGA
9646489 AATAGGATTACAAAGCATTACCGA
1 AATAGGATTACAAAGCATTACCGA
9646513 AAT
1 AAT
9646516 TTAAAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.22
Consensus pattern (24 bp):
AATAGGATTACAAAGCATTACCGA
Found at i:9647868 original size:25 final size:24
Alignment explanation
Indices: 9647838--9647931 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 24
9647828 GCACTCTCTC
9647838 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCAT-T
* *
9647863 GAGCCATGTAACAGGAAGCTTATT
1 GAGCCATATAACAGGAAGCTCATT
* * *
9647887 CAG-GATGTATAACAGGAAGCTCATAA
1 GAGCCA--TATAACAGGAAGCTCAT-T
*
9647913 GAGCCATAT-TCAGGAAGCT
1 GAGCCATATAACAGGAAGCT
9647932 TATACGAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.02
24 12 0.22
25 39 0.71
26 2 0.04
27 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (24 bp):
GAGCCATATAACAGGAAGCTCATT
Found at i:9647964 original size:24 final size:25
Alignment explanation
Indices: 9647937--9647991 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
9647927 AAGCTTATAC
* *
9647937 GAGCCAATAA-CGGGTAGCTCCGAA
1 GAGCCAATAACCAGGAAGCTCCGAA
* *
9647961 GAGCCATTAACCAGGAAGCTCCGGA
1 GAGCCAATAACCAGGAAGCTCCGAA
9647986 GAGCCA
1 GAGCCA
9647992 TTAATTAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.33, C:0.27, G:0.29, T:0.11
Consensus pattern (25 bp):
GAGCCAATAACCAGGAAGCTCCGAA
Found at i:9648001 original size:25 final size:25
Alignment explanation
Indices: 9647952--9648032 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
9647942 AATAACGGGT
**
9647952 AGCTCCGAAGAGCCATTAACCAGGA
1 AGCTCCGAAGAGCCATTAATTAGGA
*
9647977 AGCTCCGGAGAGCCATTAATTAGGA
1 AGCTCCGAAGAGCCATTAATTAGGA
* * * *
9648002 ACCTCACAAAGAGCCTTTAATTAGAA
1 AGCTC-CGAAGAGCCATTAATTAGGA
9648028 AGCTC
1 AGCTC
9648033 ATGAAAAGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 26 0.57
26 20 0.43
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATTAGGA
Found at i:9656102 original size:90 final size:90
Alignment explanation
Indices: 9656000--9656328 Score: 640
Period size: 90 Copynumber: 3.7 Consensus size: 90
9655990 AATTTTAGGG
* *
9656000 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
9656065 TAAAAATTAGATTAGGGTTTAGGAT
66 TAAAAATTAGATTAGGGTTTAGGAT
9656090 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
9656155 TAAAAATTAGATTAGGGTTTAGGAT
66 TAAAAATTAGATTAGGGTTTAGGAT
9656180 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
9656245 TAAAAATTAGATTAGGGTTTAGGAT
66 TAAAAATTAGATTAGGGTTTAGGAT
9656270 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
1 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
9656329 NNNNNNNNNN
Statistics
Matches: 237, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 237 1.00
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (90 bp):
TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
TAAAAATTAGATTAGGGTTTAGGAT
Found at i:9658707 original size:17 final size:17
Alignment explanation
Indices: 9658685--9658722 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
9658675 ATATTTTTTT
9658685 ATTATTTTATCAACTCA
1 ATTATTTTATCAACTCA
9658702 ATTATTTTATCAACTCA
1 ATTATTTTATCAACTCA
9658719 ATTA
1 ATTA
9658723 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATTTTATCAACTCA
Found at i:9658799 original size:18 final size:18
Alignment explanation
Indices: 9658754--9658802 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
9658744 CAATTAACTA
*
9658754 ATATTTATATAATTTAAAT
1 ATATTT-TATAATATAAAT
* *
9658773 AAATATTATAATATAAAT
1 ATATTTTATAATATAAAT
*
9658791 TTATTTTATAAT
1 ATATTTTATAAT
9658803 GTGACTTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTATAATATAAAT
Found at i:9660585 original size:3 final size:3
Alignment explanation
Indices: 9660577--9660603 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9660567 GATTTTTGAA
9660577 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
9660604 TAAGCTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:9669733 original size:19 final size:18
Alignment explanation
Indices: 9669693--9669763 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
9669683 TCTAGTCCTA
* **
9669693 ATTTATATATATTTATCT
1 ATTTATATATATTTTTAG
9669711 ATTTCATATATATTTTTAG
1 ATTT-ATATATATTTTTAG
* *
9669730 ATTTTATCTATATTTTTTG
1 A-TTTATATATATTTTTAG
*
9669749 AATTTATTTATATTT
1 -ATTTATATATATTT
9669764 ATATTTCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.09
19 36 0.82
20 4 0.09
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTATATATATTTTTAG
Found at i:9669741 original size:21 final size:19
Alignment explanation
Indices: 9669719--9669763 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9669709 CTATTTCATA
* *
9669719 TATATTTTTAGATTTTATC
1 TATATTTTTTGAATTTATC
*
9669738 TATATTTTTTGAATTTATT
1 TATATTTTTTGAATTTATC
9669757 TATATTT
1 TATATTT
9669764 ATATTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TATATTTTTTGAATTTATC
Found at i:9669805 original size:8 final size:8
Alignment explanation
Indices: 9669792--9669825 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
9669782 TCATTTTTCA
9669792 TATATTTT
1 TATATTTT
9669800 TATATTTT
1 TATATTTT
*
9669808 TAAATTTT
1 TATATTTT
9669816 TATAATTTT
1 TAT-ATTTT
9669825 T
1 T
9669826 TCTGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TATATTTT
Found at i:9669838 original size:21 final size:20
Alignment explanation
Indices: 9669812--9669867 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
9669802 TATTTTTAAA
9669812 TTTTTATAATTTTTTCTGAAT
1 TTTTTATAATTTTTT-TGAAT
**
9669833 TTTTTAT-ATGTTTATTTTCAT
1 TTTTTATAAT-TTT-TTTGAAT
9669854 TTTTTATAATTTTT
1 TTTTTATAATTTTT
9669868 ATAACTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTATAATTTTTTTGAAT
Found at i:9669868 original size:9 final size:9
Alignment explanation
Indices: 9669784--9669871 Score: 54
Period size: 11 Copynumber: 9.1 Consensus size: 9
9669774 TTTTATTTTC
9669784 ATTTTTCATA
1 ATTTTT-ATA
9669794 TATTTTTAT-
1 -ATTTTTATA
9669803 ATTTTTA-A
1 ATTTTTATA
9669811 ATTTTTATA
1 ATTTTTATA
*
9669820 ATTTTTTCTGA
1 A-TTTTTAT-A
9669831 ATTTTTTATA
1 A-TTTTTATA
* *
9669841 TGTTTATTTTCA
1 -ATTT-TTAT-A
*
9669853 TTTTTTATA
1 ATTTTTATA
9669862 ATTTTTATA
1 ATTTTTATA
9669871 A
1 A
9669872 CTTTATATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
8 14 0.22
9 12 0.19
10 15 0.24
11 21 0.33
12 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:9670817 original size:14 final size:14
Alignment explanation
Indices: 9670798--9670850 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
9670788 TTCTTGTGAT
9670798 AAATATTAATACTG
1 AAATATTAATACTG
* *
9670812 AAATATTAACACTC
1 AAATATTAATACTG
9670826 AAATATTAAT--TG
1 AAATATTAATACTG
9670838 AAATATTAATACT
1 AAATATTAATACT
9670851 CAATGAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.33
14 22 0.67
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (14 bp):
AAATATTAATACTG
Found at i:9670845 original size:26 final size:27
Alignment explanation
Indices: 9670798--9670853 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
9670788 TTCTTGTGAT
9670798 AAATATTAATACTGAAATATTAACACTC
1 AAATATTAATA-TGAAATATTAACACTC
*
9670826 AAATATTAAT-TGAAATATTAATACTC
1 AAATATTAATATGAAATATTAACACTC
9670852 AA
1 AA
9670854 TGAATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.63
28 10 0.37
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (27 bp):
AAATATTAATATGAAATATTAACACTC
Found at i:9673547 original size:19 final size:19
Alignment explanation
Indices: 9673523--9673584 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
9673513 NNNNNNNNNN
9673523 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
*
9673542 ATATCATATCTAAGATTAC
1 ATATCATATCTAAGATTGC
9673561 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
9673580 ATATC
1 ATATC
9673585 CTTGAAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:9674192 original size:45 final size:44
Alignment explanation
Indices: 9674132--9674548 Score: 155
Period size: 44 Copynumber: 9.8 Consensus size: 44
9674122 TTGTTTATTT
* * * *
9674132 AGTCTGCCCCGCTGCAATTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTG-CCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
*
9674177 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGC-CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *** ** * *
9674222 GGTCTGCCCACTGCAAC--GA-CTTGAT--TTCTTGA-GTC-T-
1 AGTCTGCCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
*
9674258 -G-CT--CCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* ** * *
9674298 GGTCTGCTCCACTGCAACTTCAAAGAGATAAGACCCGA-TGC--G
1 AGTCTGC-CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * * *
9674340 A-TTTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTG
* ** * * * * *
9674382 AATCCACTCCACTGCAACTTTAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGC-CCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTG
* * * * *
9674426 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCA--TCTTC
1 AGTCTGC-CCACTGCAACTTCAGGGAGATAAGACTCG-ATTTCTTG
* * * * *
9674470 AGTCTGCCTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCC-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTG
*
9674514 ATTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 AGTCTGC-CCACTGCAACTTCAGGGAGATAAGACT
9674549 AGATGTGATC
Statistics
Matches: 276, Mismatches: 63, Indels: 67
0.68 0.16 0.17
Matches are distributed among these distances:
32 10 0.04
34 3 0.01
35 4 0.01
37 4 0.01
38 4 0.01
39 4 0.01
40 23 0.08
41 10 0.04
42 9 0.03
43 8 0.03
44 118 0.43
45 78 0.28
47 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
AGTCTGCCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:9674289 original size:76 final size:77
Alignment explanation
Indices: 9674163--9674315 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 77
9674153 AGGGGGATAA
9674163 GACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 GACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
9674228 C-CCACTGCAAC
66 CTCCACTGCAAC
9674239 GACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 GACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
9674304 CTCCACTGCAAC
66 CTCCACTGCAAC
9674316 TTCAAAGAGA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 66 0.87
77 10 0.13
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (77 bp):
GACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
CTCCACTGCAAC
Found at i:9674488 original size:44 final size:44
Alignment explanation
Indices: 9674253--9674548 Score: 184
Period size: 44 Copynumber: 6.8 Consensus size: 44
9674243 TGATTTCTTG
* * *
9674253 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* ** ** * *
9674297 GGGTCTGCTCCACTGCAACTTCAAAGAGATAAGACCCG-ATGC-G
1 -AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * *
9674340 A-TTTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTG-AT-TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTT
* ** * * *
9674382 AATCCACTCCACTGCAACTTTAGGGAGATAGGA-TT--ATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCA-T-AC-TT
* * *
9674426 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCAT-CTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * *
9674469 CAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT
1 -AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTT
*
9674514 ATTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
9674549 AGATGTGATC
Statistics
Matches: 198, Mismatches: 35, Indels: 37
0.73 0.13 0.14
Matches are distributed among these distances:
40 23 0.12
41 8 0.04
42 5 0.03
43 9 0.05
44 109 0.55
45 42 0.21
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
Found at i:9681355 original size:19 final size:19
Alignment explanation
Indices: 9681331--9681377 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
9681321 TGATTAATGT
9681331 TTAATTAATTAAGATTAAG
1 TTAATTAATTAAGATTAAG
* *
9681350 TTAATTAATTAAGTTTAAT
1 TTAATTAATTAAGATTAAG
9681369 TATAATTAA
1 T-TAATTAA
9681378 ACCTAGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
TTAATTAATTAAGATTAAG
Found at i:9686465 original size:23 final size:23
Alignment explanation
Indices: 9686439--9686496 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
9686429 ATGCTTGGCA
9686439 TAAGTTGGCATATACATGTTTAG-
1 TAAGTTGGCATATACATG-TTAGC
*
9686462 TAAGTAT-ACATATACATGTTAGC
1 TAAGT-TGGCATATACATGTTAGC
*
9686485 TAACTTGGCATA
1 TAAGTTGGCATA
9686497 AGTTTAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 5 0.17
23 23 0.79
24 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (23 bp):
TAAGTTGGCATATACATGTTAGC
Found at i:9687212 original size:42 final size:41
Alignment explanation
Indices: 9687149--9687311 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 41
9687139 AACCGAAGCA
* * *
9687149 ATTGGCACATATAGTGTATCATCAGATAAACCGAAGCAGTCAT
1 ATTGACACATA-AGTGCATCATCAGATAAACCGAAGCAAT-AT
* * ** *
9687192 ATTGACACATAAGTGTATCATCAAATAAATTGAAGAAAATAT
1 ATTGACACATAAGTGCATCATCAGATAAACCGAAG-CAATAT
** *
9687234 ACTTGCACACAT-AGTGCATCATTTGATAAATCGAAGCAAATAT
1 A-TTG-ACACATAAGTGCATCATCAGATAAACCGAAGC-AATAT
* *
9687277 ATTGGCACATAAGTGCATCATCAGTTAAACCGAAG
1 ATTGACACATAAGTGCATCATCAGATAAACCGAAG
9687312 TATTAACCCG
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 5 0.05
42 47 0.48
43 40 0.41
44 6 0.06
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (41 bp):
ATTGACACATAAGTGCATCATCAGATAAACCGAAGCAATAT
Found at i:9691964 original size:16 final size:16
Alignment explanation
Indices: 9691940--9691975 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9691930 ACATGTTACC
*
9691940 TATTGAATAATAATTA
1 TATTGAATAATAATCA
*
9691956 TATTTAATAATAATCA
1 TATTGAATAATAATCA
9691972 TATT
1 TATT
9691976 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TATTGAATAATAATCA
Found at i:9693451 original size:2 final size:2
Alignment explanation
Indices: 9693412--9693438 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9693402 TGTGAAGATG
9693412 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9693439 CACGAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9695990 original size:32 final size:32
Alignment explanation
Indices: 9695949--9696013 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9695939 ATAAAGAAAA
*
9695949 AAAAAATCCACACTTTGATTTCCAGCAATCAT
1 AAAAAATCCACACTTTGATTTCCAACAATCAT
9695981 AAAAAATCCACACTTTGATTTCCAACAATCAT
1 AAAAAATCCACACTTTGATTTCCAACAATCAT
9696013 A
1 A
9696014 TGCATATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.28
Consensus pattern (32 bp):
AAAAAATCCACACTTTGATTTCCAACAATCAT
Found at i:9698750 original size:27 final size:27
Alignment explanation
Indices: 9698712--9698765 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9698702 TAGAAAAAAG
*
9698712 TTAACAAAGGACTTTTCCTGCATTAAC
1 TTAACAAAGGACTTTGCCTGCATTAAC
9698739 TTAACAAAGGACTTTGCCTGCATTAAC
1 TTAACAAAGGACTTTGCCTGCATTAAC
9698766 GATAGAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (27 bp):
TTAACAAAGGACTTTGCCTGCATTAAC
Found at i:9701092 original size:125 final size:125
Alignment explanation
Indices: 9700776--9701216 Score: 731
Period size: 125 Copynumber: 3.5 Consensus size: 125
9700766 GATAAAATCA
* * * *
9700776 AAGCAAGATGCTTTATCAGAAGAATTTCTGAAGTCGCGCCCACGTGGACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
9700841 AGGTCTTGGAAAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTAT-AAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTC
* * *
9700900 AAGCAGGATGTTTTATCAGAAGAATTTCTGAAATTGCGCCCTCATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
9700965 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTC
* * * *
9701025 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGTGCCTTCGTGGACGCGCTTTTTCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
9701090 AGGTTCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTC
9701150 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
9701215 AG
66 AG
9701217 CATGTTTGGG
Statistics
Matches: 293, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
124 103 0.35
125 190 0.65
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTC
Found at i:9704118 original size:53 final size:53
Alignment explanation
Indices: 9703970--9704178 Score: 208
Period size: 53 Copynumber: 3.8 Consensus size: 53
9703960 ATGCCCAAAC
* *
9703970 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTT-AGTACCAGTCAAAA
1 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAATTA-CA-T---TA
* * ** * *
9704027 CATT--TTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTACATTG
1 -ATTGCTAGTAAAAT-TATCAAATT-ATA-TCAAATTATTAATTGTTAATTACATTA
* * **
9704082 ATTGTTAGTAAATTTATCAAATTATATCAAATTATTAATTGTTAATTGTATTA
1 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAATTACATTA
9704135 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
1 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
9704179 GTACCAGTCA
Statistics
Matches: 126, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
53 66 0.52
54 5 0.04
55 6 0.05
56 15 0.12
57 6 0.05
58 6 0.05
59 19 0.15
60 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (53 bp):
ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAATTACATTA
Found at i:9704253 original size:165 final size:165
Alignment explanation
Indices: 9703970--9704280 Score: 577
Period size: 165 Copynumber: 1.9 Consensus size: 165
9703960 ATGCCCAAAC
9703970 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGT
1 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGT
*
9704035 AAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTACATTGATTGTTAGTAAATTTATC
66 AAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTACATTAATTGTTAGTAAATTTATC
9704100 AAATTATATCAAATTATTAATTGTTAATTGTATTA
131 AAATTATATCAAATTATTAATTGTTAATTGTATTA
9704135 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGT
1 ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGT
* **
9704200 AAAATCTAACATTTTGTTAGTCAAATTATTAATTTTTAATTGTATTAATTGTTAGTAAATTTATC
66 AAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTACATTAATTGTTAGTAAATTTATC
*
9704265 AAATTATATCATATTA
131 AAATTATATCAAATTA
9704281 GGGTTAGGGT
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 141 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (165 bp):
ATTGCTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGT
AAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTACATTAATTGTTAGTAAATTTATC
AAATTATATCAAATTATTAATTGTTAATTGTATTA
Found at i:9704370 original size:22 final size:22
Alignment explanation
Indices: 9704359--9704562 Score: 333
Period size: 22 Copynumber: 9.4 Consensus size: 22
9704349 AGGGTTATGG
9704359 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
9704381 TTAGAGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
9704402 TTAGGGTTTTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
9704424 TTAGGGTATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
9704446 TTAGGGTTTTTAAGTTAAGGTT
1 TTAGGGTTTTTAAGTTAAGGGT
*
9704468 TTAGGGTTTTCAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
9704490 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
9704511 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
9704533 TTAGGATTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
9704554 TTAGGGTTT
1 TTAGGGTTT
9704563 AGGGTTAGGG
Statistics
Matches: 168, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
21 48 0.29
22 120 0.71
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:9704381 original size:15 final size:15
Alignment explanation
Indices: 9704329--9704382 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
9704319 GGGCTTAGAT
9704329 AGTTAAGGGTTTTTA
1 AGTTAAGGGTTTTTA
* *
9704344 ATTTAAGGG-TTAT-
1 AGTTAAGGGTTTTTA
*
9704357 GGTT-AGGGTTTTTA
1 AGTTAAGGGTTTTTA
9704371 AGTTAAGGGTTT
1 AGTTAAGGGTTT
9704383 AGAGTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 6 0.20
15 15 0.50
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (15 bp):
AGTTAAGGGTTTTTA
Found at i:9704411 original size:43 final size:44
Alignment explanation
Indices: 9704359--9704562 Score: 333
Period size: 43 Copynumber: 4.7 Consensus size: 44
9704349 AGGGTTATGG
*
9704359 TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* *
9704402 TTAGGGTTTTTAAGTTAAAGGTTTAGGGTATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* *
9704446 TTAGGGTTTTTAAGTTAAGGTTTTAGGGTTTTCAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
9704490 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
*
9704533 TTAGGATTTTTAAGTTAAGGG-TTAGGGTTT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
9704563 AGGGTTAGGG
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
43 90 0.60
44 60 0.40
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (44 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
Found at i:9704430 original size:65 final size:65
Alignment explanation
Indices: 9704359--9704562 Score: 313
Period size: 65 Copynumber: 3.1 Consensus size: 65
9704349 AGGGTTATGG
*
9704359 TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGT
* * * *
9704424 TTAGGGTATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTTAGGGTTTTCAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAAAGG
9704489 T
65 T
*
9704490 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGATTTTTAAGTT-AAGG
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAAGG
*
9704553 G
65 T
9704554 TTAGGGTTT
1 TTAGGGTTT
9704563 AGGGTTAGGG
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
64 12 0.10
65 74 0.59
66 40 0.32
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (65 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGT
Found at i:9704568 original size:13 final size:13
Alignment explanation
Indices: 9704550--9704575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9704540 TTTTAAGTTA
9704550 AGGGTTAGGGTTT
1 AGGGTTAGGGTTT
9704563 AGGGTTAGGGTTT
1 AGGGTTAGGGTTT
9704576 TTGTTAGGGT
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
AGGGTTAGGGTTT
Found at i:9704850 original size:21 final size:22
Alignment explanation
Indices: 9704826--9704886 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
9704816 TTGTCCAGCT
* * *
9704826 TCCGGTGAGGG-TTGTGGTTGC
1 TCCGGTCAGGGATTCTGGTTCC
9704847 TCCGG-CAGGGATTCTGGTTCC
1 TCCGGTCAGGGATTCTGGTTCC
* *
9704868 TCCGGTAAGGCA-TCTGGTT
1 TCCGGTCAGGGATTCTGGTT
9704887 GTCTGTGTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.10, C:0.21, G:0.38, T:0.31
Consensus pattern (22 bp):
TCCGGTCAGGGATTCTGGTTCC
Found at i:9707614 original size:32 final size:31
Alignment explanation
Indices: 9707568--9707638 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 31
9707558 TTACAAAATG
9707568 GTCATTGAACTATTCAAAAGCTCTCATTTAA
1 GTCATTGAACTATTCAAAAGCTCTCATTTAA
* * * *
9707599 GTCAGTTGGACTATTCAGAAGTTTTCATTTAA
1 GTCA-TTGAACTATTCAAAAGCTCTCATTTAA
9707631 GTCATTGA
1 GTCATTGA
9707639 GTTGTTATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAGCTCTCATTTAA
Found at i:9712893 original size:4 final size:4
Alignment explanation
Indices: 9712870--9712910 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
9712860 TGATAAAAAT
* *
9712870 ACAA AAAA ACAA ACAT ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA A
9712911 ACGTACAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.22, G:0.00, T:0.02
Consensus pattern (4 bp):
ACAA
Found at i:9714534 original size:49 final size:49
Alignment explanation
Indices: 9714474--9714655 Score: 149
Period size: 49 Copynumber: 3.7 Consensus size: 49
9714464 GATAATAATA
* *
9714474 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGCATGTTTCTTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGCATGTTTCTCGTAC
* * * * *
9714523 TGCCAATGCCATATCTCAGATATGGTCTTACATGGGA-G-TTCTCATATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGCATGTTTCTCGTA-C
* * ** * * *
9714571 GGTGCCCATGCCATGTCCCA-AAATGGTCTTACGGGGACCTATCATCTCG-A-
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-CATGT-TTCTCGTAC
*
9714621 TGCCAATGCTATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
9714656 GACCTCTCAT
Statistics
Matches: 102, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
47 6 0.06
48 18 0.18
49 58 0.57
50 15 0.15
52 1 0.01
53 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGCATGTTTCTCGTAC
Found at i:9718564 original size:238 final size:239
Alignment explanation
Indices: 9718129--9718610 Score: 831
Period size: 238 Copynumber: 2.0 Consensus size: 239
9718119 TCCCAACAAT
*
9718129 CTCTCACTTGCCCTAGTGAAGTAAATGTGTCATGTTTCACATTCTTATATCATTGACATGTTTGT
1 CTCTCACTTGCCCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCATTGACATGTTTGT
9718194 TAAAACTCCTAATTATAAGAGTCTCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
66 TAAAACTCCTAATTATAAGAGTCTCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
* * * *
9718259 ACCACGTCTACTTGTCCTTCAACTAAACATATATCTGGACATGTGCAAAGCATAGCATAGCATAC
131 ACCACATCTACTAGTCCTTCAACTAAACATATATCTGAACATGTGCAAAGCATAGCATAGAATAC
*
9718324 ATAAGGCTTCTAATCGCCAATGCATATTGATCCTTACTCTTATG
196 ATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
*
9718368 CTCTCACTTG-CCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCCTTGACATGTTTGT
1 CTCTCACTTGCCCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCATTGACATGTTTGT
* * *
9718432 TAAAACTCCTAATTATAATAGTCTCAACAAACGAATCCGAAAGTTTGTATTGAGAAGTTACTTTC
66 TAAAACTCCTAATTATAAGAGTCTCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
* * *
9718497 ACCGCATCTACTAGTCCTTCAACTAAACATATATTTGAACGTGTGCAAAGCATAGCATAGAATAC
131 ACCACATCTACTAGTCCTTCAACTAAACATATATCTGAACATGTGCAAAGCATAGCATAGAATAC
*
9718562 ATAAGGCTTCTAATCGTCAATGCATATGGATCCTTACTCTTATG
196 ATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
9718606 CTCTC
1 CTCTC
9718611 TTTCTTCTAC
Statistics
Matches: 229, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
238 219 0.96
239 10 0.04
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (239 bp):
CTCTCACTTGCCCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCATTGACATGTTTGT
TAAAACTCCTAATTATAAGAGTCTCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
ACCACATCTACTAGTCCTTCAACTAAACATATATCTGAACATGTGCAAAGCATAGCATAGAATAC
ATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
Found at i:9730445 original size:13 final size:13
Alignment explanation
Indices: 9730427--9730451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9730417 ATTTTTTTTG
9730427 GTACATAGGAGCA
1 GTACATAGGAGCA
9730440 GTACATAGGAGC
1 GTACATAGGAGC
9730452 GGTCCAAGAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GTACATAGGAGCA
Found at i:9740022 original size:10 final size:11
Alignment explanation
Indices: 9740003--9740039 Score: 60
Period size: 10 Copynumber: 3.5 Consensus size: 11
9739993 GTTGACTTCT
9740003 TTTCTTCTTTC
1 TTTCTTCTTTC
9740014 TTT-TTCTTTC
1 TTTCTTCTTTC
9740024 TTTCTT-TTTC
1 TTTCTTCTTTC
9740034 TTTCTT
1 TTTCTT
9740040 AGTTTGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTCTTTC
Found at i:9740026 original size:14 final size:14
Alignment explanation
Indices: 9740002--9740039 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
9739992 CGTTGACTTC
9740002 TTTTC-TTCTTTCT
1 TTTTCTTTCTTTCT
9740015 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
9740029 TTTTCTTTCTT
1 TTTTCTTTCTT
9740040 AGTTTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:9744323 original size:83 final size:83
Alignment explanation
Indices: 9744178--9744335 Score: 226
Period size: 83 Copynumber: 1.9 Consensus size: 83
9744168 TTCAATTTGT
* * * *
9744178 TATTGATTGTTAACTTACACATAACCCATGATAGATAGTAATAAGGACGAAGGTATTTTTTGAAT
1 TATTGATTGTTAACTTACACATAACCCATGATAGATAATAATAAGAACAAAGGTATTGTTTGAAT
*
9744243 GAGTAACCTCTATTTTTA
66 GAATAACCTCTATTTTTA
* * * * *
9744261 TATTTATTGTTAACTTACACATTACTCATGATAGATAATAATAATAACAAATGTATTGTTTGAAT
1 TATTGATTGTTAACTTACACATAACCCATGATAGATAATAATAAGAACAAAGGTATTGTTTGAAT
9744326 GAATAACCTC
66 GAATAACCTC
9744336 AGTTTTTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (83 bp):
TATTGATTGTTAACTTACACATAACCCATGATAGATAATAATAAGAACAAAGGTATTGTTTGAAT
GAATAACCTCTATTTTTA
Found at i:9744342 original size:83 final size:82
Alignment explanation
Indices: 9744172--9744349 Score: 225
Period size: 83 Copynumber: 2.2 Consensus size: 82
9744162 TTTTGGTTCA
* * * * * *
9744172 ATTTGTTATTGATTGTTAACTTACACATAACCCATGATAGATAGTAATAAGGACGAAGGTATTTT
1 ATTTTTTATTTATTGTTAACTTACACATAACCCATGATAGATAATAATAAGAACAAAGGTATTGT
*
9744237 TTGAATGAGTAACCTCT
66 TTGAATGAATAACCTCT
* * * *
9744254 ATTTTTATATTTATTGTTAACTTACACATTACTCATGATAGATAATAATAATAACAAATGTATTG
1 ATTTTT-TATTTATTGTTAACTTACACATAACCCATGATAGATAATAATAAGAACAAAGGTATTG
9744319 TTTGAATGAATAACCTC-
65 TTTGAATGAATAACCTCT
9744336 AGTTTTTT-TTTATT
1 A-TTTTTTATTTATT
9744350 TATGATATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
81 6 0.07
82 7 0.08
83 70 0.84
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (82 bp):
ATTTTTTATTTATTGTTAACTTACACATAACCCATGATAGATAATAATAAGAACAAAGGTATTGT
TTGAATGAATAACCTCT
Found at i:9744501 original size:12 final size:13
Alignment explanation
Indices: 9744484--9744515 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9744474 GAACGTACAA
9744484 CTGGAGGTGT-TT
1 CTGGAGGTGTATT
9744496 CTGGAGGTGTATT
1 CTGGAGGTGTATT
9744509 C-GGAGGT
1 CTGGAGGT
9744516 ATGGGCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.12, C:0.09, G:0.44, T:0.34
Consensus pattern (13 bp):
CTGGAGGTGTATT
Found at i:9745811 original size:20 final size:21
Alignment explanation
Indices: 9745769--9745824 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
9745759 GGTTAGGTAG
*
9745769 TGAAGAAGAAAAATTGTGTTT
1 TGAAGAAGAAAAATGGTGTTT
9745790 TGAAGAAGAAAAATGGTGTTT
1 TGAAGAAGAAAAATGGTGTTT
*
9745811 GGCAAGAGAGAAAA
1 TG-AAGA-AGAAAA
9745825 TGAGAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 21 0.68
22 4 0.13
23 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (21 bp):
TGAAGAAGAAAAATGGTGTTT
Found at i:9746063 original size:66 final size:66
Alignment explanation
Indices: 9745957--9746082 Score: 218
Period size: 66 Copynumber: 1.9 Consensus size: 66
9745947 GAAATGAGCT
9745957 AACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATAGCAG
1 AACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATAGCAG
9746022 C
66 C
* *
9746023 AACCATGTGTTTTGAATAA-AAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAT
1 AACCATATGTTTTGAAGAAGAAAAA-TGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAT
9746083 TTTGTTAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
65 5 0.09
66 52 0.91
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.21
Consensus pattern (66 bp):
AACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATAGCAG
C
Found at i:9748675 original size:43 final size:42
Alignment explanation
Indices: 9748628--9748731 Score: 129
Period size: 43 Copynumber: 2.5 Consensus size: 42
9748618 ATGTCAATAG
*
9748628 CCCAGTCATGGTCTTACACGAAATCACATATCAATGCCAATGT
1 CCCAGTCATGGTCTTACACGAAATCACATATCAATGCC-ATAT
* * * * *
9748671 CCCAGACATGGTCTTACACGAATTCTCATATCGATTCCATAT
1 CCCAGTCATGGTCTTACACGAAATCACATATCAATGCCATAT
9748713 CCCAGAT-ATGGTCTTACAC
1 CCCAG-TCATGGTCTTACAC
9748732 ATAATCTCGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 20 0.38
43 33 0.62
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (42 bp):
CCCAGTCATGGTCTTACACGAAATCACATATCAATGCCATAT
Found at i:9754662 original size:18 final size:19
Alignment explanation
Indices: 9754631--9754672 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
9754621 GGAAATTTGG
9754631 GGAAA-GAGGAGGGGAGGA
1 GGAAAGGAGGAGGGGAGGA
*
9754649 GTAAAGGAGG-GGGGAGGA
1 GGAAAGGAGGAGGGGAGGA
9754667 GGAAAG
1 GGAAAG
9754673 AGAAGGTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (19 bp):
GGAAAGGAGGAGGGGAGGA
Found at i:9769590 original size:87 final size:86
Alignment explanation
Indices: 9769439--9769599 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 86
9769429 CATAAGGCTG
* * * * *
9769439 AGTTTTTACTCTTAATGAATTTATAGCCCAGATTTTGGGTGGTCTTATTGAGACGAATTTGATGA
1 AGTTTTTACTCTTAATGAATTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACGAACTTGATGA
9769504 ATTCACCGACTTGAGAGGTTA
66 ATTCACCGACTTGAGAGGTTA
* * * *
9769525 AGTTTGTTACTTTTAATGAGTTCATATCCCAAAGTTTGGGTGGTCCTATTGAGATTG-ACTTGAT
1 AGTTT-TTACTCTTAATGAATTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGA-CGAACTTGAT
9769589 GAATTCACCGA
64 GAATTCACCGA
9769600 ACTTAAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 5 0.08
87 58 0.91
88 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (86 bp):
AGTTTTTACTCTTAATGAATTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACGAACTTGATGA
ATTCACCGACTTGAGAGGTTA
Found at i:9772436 original size:17 final size:18
Alignment explanation
Indices: 9772403--9772436 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9772393 AGCAACTCAT
*
9772403 TTATTAATCTAAGATGAG
1 TTATTAATCTAAAATGAG
9772421 TTATTAA-CTAAAATGA
1 TTATTAATCTAAAATGA
9772437 ACTCAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAAATGAG
Found at i:9775412 original size:50 final size:51
Alignment explanation
Indices: 9775320--9775417 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
9775310 TCTAGGGGAT
* * * *
9775320 GATGTGTAGCCTTTGGGCTTGGCACTTAGTGTCCATGCGTGTTTTTGGAGG
1 GATGTGTAGCCTTCGGGCTTGGCACTCAGTGTCCAGGCGTGTTCTTGGAGG
*
9775371 GATGT-TAGCCTTCGGGCTTGGCACTCAGTG-CCTAGGTGTGTTCTTGG
1 GATGTGTAGCCTTCGGGCTTGGCACTCAGTGTCC-AGGCGTGTTCTTGG
9775418 TTGGTTTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.05
50 34 0.83
51 5 0.12
ACGTcount: A:0.11, C:0.18, G:0.35, T:0.36
Consensus pattern (51 bp):
GATGTGTAGCCTTCGGGCTTGGCACTCAGTGTCCAGGCGTGTTCTTGGAGG
Found at i:9776622 original size:30 final size:30
Alignment explanation
Indices: 9776586--9776652 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
9776576 TGCTACATGG
9776586 CCGTGTGTCTCACACAGTTGGTTGACACGA
1 CCGTGTGTCTCACACAGTTGGTTGACACGA
* *
9776616 TCGTGTGTCTTACACAGTTGGTTGACACGA
1 CCGTGTGTCTCACACAGTTGGTTGACACGA
9776646 CCGTGTG
1 CCGTGTG
9776653 CTACTGGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (30 bp):
CCGTGTGTCTCACACAGTTGGTTGACACGA
Found at i:9777690 original size:19 final size:19
Alignment explanation
Indices: 9777668--9777710 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
9777658 AGGTTTAAAT
9777668 AGTTAATTAAGTAAAAAGG
1 AGTTAATTAAGTAAAAAGG
9777687 AGTTAATTAAGTAAAAAGG
1 AGTTAATTAAGTAAAAAGG
9777706 A-TTAA
1 AGTTAA
9777711 ATCGTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (19 bp):
AGTTAATTAAGTAAAAAGG
Found at i:9778823 original size:41 final size:40
Alignment explanation
Indices: 9778778--9778884 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 40
9778768 TTTCTGAATC
*
9778778 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGGATAATA
1 AATGAAAA-GTTGAAAAGGAAGTTATCCGAAAAGGATAACA
* *
9778819 AATGAAAAGGTTAAAAAGGAAGTTATCTGAAAAGGATAACA
1 AATGAAAA-GTTGAAAAGGAAGTTATCCGAAAAGGATAACA
*
9778860 AATGAAAAGATTGAAAAGGATGTTA
1 AATGAAAAG-TTGAAAAGGAAGTTA
9778885 ACCAGTGTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.02
41 58 0.98
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.21
Consensus pattern (40 bp):
AATGAAAAGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
Found at i:9779337 original size:21 final size:22
Alignment explanation
Indices: 9779295--9779337 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
9779285 AGGACGAACG
* *
9779295 AAAAAAGAGAATAGCAGCAAAAA
1 AAAAAAGAAAATAG-AGAAAAAA
9779318 AAAAAAGAAAATAG-GAAAAA
1 AAAAAAGAAAATAGAGAAAAA
9779338 CGAAATACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
23 13 0.72
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (22 bp):
AAAAAAGAAAATAGAGAAAAAA
Found at i:9782998 original size:18 final size:17
Alignment explanation
Indices: 9782967--9783000 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9782957 AGTATTGTAA
*
9782967 TTTGGTTTTTAATTGTT
1 TTTGGTTTTGAATTGTT
9782984 TTTGGTTTATGAATTGT
1 TTTGGTTT-TGAATTGT
9783001 GATGCCTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (17 bp):
TTTGGTTTTGAATTGTT
Found at i:9790361 original size:17 final size:18
Alignment explanation
Indices: 9790339--9790372 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9790329 TTTTTAATTA
9790339 TTATTT-AGAAAAATATT
1 TTATTTAAGAAAAATATT
*
9790356 TTATTTAAGAACAATAT
1 TTATTTAAGAAAAATAT
9790373 AAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (18 bp):
TTATTTAAGAAAAATATT
Found at i:9790423 original size:15 final size:15
Alignment explanation
Indices: 9790396--9790437 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
9790386 AAAGTATTAG
*
9790396 TAATTATTATTATTT
1 TAATTAATATTATTT
*
9790411 TATTTAATATTATTT
1 TAATTAATATTATTT
*
9790426 TAATTAAAATTA
1 TAATTAATATTA
9790438 GTTATGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTAATATTATTT
Found at i:9790677 original size:16 final size:16
Alignment explanation
Indices: 9790658--9790688 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9790648 AATATCATAA
*
9790658 AAAATAATTTTATTAT
1 AAAATAATTTGATTAT
9790674 AAAATAATTTGATTA
1 AAAATAATTTGATTA
9790689 AATATAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AAAATAATTTGATTAT
Found at i:9792032 original size:30 final size:30
Alignment explanation
Indices: 9791993--9792062 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
9791983 TTTTAATTTC
* * *
9791993 TTAAATAATTTTTAA-AAAAATTAAATTATT
1 TTAATTAATTTCTAAGAAAAACTAAA-TATT
9792023 TTAATTAA-TTCTAAGGAAAAACTAAATATT
1 TTAATTAATTTCTAA-GAAAAACTAAATATT
9792053 TTAATTAATT
1 TTAATTAATT
9792063 GTATAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 5 0.15
30 19 0.56
31 10 0.29
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TTAATTAATTTCTAAGAAAAACTAAATATT
Found at i:9793156 original size:2 final size:2
Alignment explanation
Indices: 9793106--9793138 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9793096 GAATTCTAGT
9793106 TA TA TA TA TA TA TA 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 T
9793139 TCAAACCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9794032 original size:34 final size:34
Alignment explanation
Indices: 9793975--9794058 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
9793965 CATGCAATGT
*
9793975 AATATGACATGATTATAACAGATCAATACAGTAGC
1 AATA-GACATGTTTATAACAGATCAATACAGTAGC
* * *
9794010 AATAGACATGTTTATGATAGATCAATGCAGTAGC
1 AATAGACATGTTTATAACAGATCAATACAGTAGC
* *
9794044 AAAAGTCATGTTTAT
1 AATAGACATGTTTAT
9794059 CAAGTATTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (34 bp):
AATAGACATGTTTATAACAGATCAATACAGTAGC
Found at i:9801440 original size:21 final size:21
Alignment explanation
Indices: 9801407--9801455 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
9801397 GAAGTATATT
* *
9801407 ATTA-ATTTATTATATTGTAA
1 ATTATATTAATTATATTATAA
*
9801427 ATTATATTAATTATATTATAT
1 ATTATATTAATTATATTATAA
9801448 ATTATATT
1 ATTATATT
9801456 CCAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTATATTAATTATATTATAA
Found at i:9808488 original size:22 final size:22
Alignment explanation
Indices: 9808462--9808505 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9808452 TTCTTATTTA
9808462 ATTCAGACATTTAAACAAGCCT
1 ATTCAGACATTTAAACAAGCCT
9808484 ATTCAGACATTTAAACAAGCCT
1 ATTCAGACATTTAAACAAGCCT
9808506 TTGTCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (22 bp):
ATTCAGACATTTAAACAAGCCT
Found at i:9812927 original size:15 final size:15
Alignment explanation
Indices: 9812907--9812961 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
9812897 CCCAACCAGC
9812907 TTCTTCCGCCGCCCA
1 TTCTTCCGCCGCCCA
* *
9812922 TTCTTCCTCCAAACCCA
1 TTCTTCCGCC--GCCCA
*
9812939 CTTCTGCCGCCGCCCA
1 -TTCTTCCGCCGCCCA
9812955 TTCTTCC
1 TTCTTCC
9812962 TCCAAACCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 15 0.48
16 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.11, C:0.51, G:0.09, T:0.29
Consensus pattern (15 bp):
TTCTTCCGCCGCCCA
Found at i:9812943 original size:18 final size:17
Alignment explanation
Indices: 9812918--9812976 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
9812908 TCTTCCGCCG
9812918 CCCATTCTTCCTCCAAA
1 CCCATTCTTCCTCCAAA
* * *
9812935 CCCACTTCTGCCGCC--G
1 CCCA-TTCTTCCTCCAAA
9812951 CCCATTCTTCCTCCAAA
1 CCCATTCTTCCTCCAAA
9812968 CCCACTTCT
1 CCCA-TTCT
9812977 GCCACCCCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 8 0.25
18 12 0.38
ACGTcount: A:0.17, C:0.51, G:0.05, T:0.27
Consensus pattern (17 bp):
CCCATTCTTCCTCCAAA
Found at i:9812949 original size:33 final size:33
Alignment explanation
Indices: 9812906--9813015 Score: 141
Period size: 33 Copynumber: 3.3 Consensus size: 33
9812896 TCCCAACCAG
*
9812906 CTTCTTCCGCCGCCCATTCTTCCTCCAAACCCA
1 CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
9812939 CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
1 CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
* * * *
9812972 CTTCTGCCACC-CCCAGTGCTCCCTCCTAACCCA
1 CTTCTGCCGCCGCCCA-TTCTTCCTCCAAACCCA
* *
9813005 TTTCAGCCGCC
1 CTTCTGCCGCC
9813016 ACCAGCTCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 4 0.06
33 64 0.94
ACGTcount: A:0.15, C:0.52, G:0.09, T:0.25
Consensus pattern (33 bp):
CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
Found at i:9813085 original size:36 final size:36
Alignment explanation
Indices: 9812999--9813092 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
9812989 GCTCCCTCCT
* *
9812999 AACCCATTTCAGCCGCCACCAGCTCCACTAGTTCCA
1 AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
9813035 AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
1 AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
* *
9813071 GACCCATTGCAGCCTCCTCCAG
1 AACCCATTGCAGCCTCCACCAG
9813093 AACCTGCAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.23, C:0.45, G:0.13, T:0.19
Consensus pattern (36 bp):
AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
Found at i:9816015 original size:2 final size:2
Alignment explanation
Indices: 9816008--9816033 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9815998 TAAAGAAAGA
9816008 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9816034 GAAGGCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9824404 original size:29 final size:30
Alignment explanation
Indices: 9824364--9824447 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 30
9824354 GGGTAACCTA
*
9824364 ATATAA-GTCAGCTTGTTTGAGCAACCTTG
1 ATATAATGTCAGCTTGTTTGAGCAACCCTG
** * * *
9824393 ATA-CGTTTCAGCTTGCTTGAGGAACCCTG
1 ATATAATGTCAGCTTGTTTGAGCAACCCTG
*
9824422 ATATAATGTCAGCTTGTGTGAGCAAC
1 ATATAATGTCAGCTTGTTTGAGCAAC
9824448 TTACTCACTA
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
ATATAATGTCAGCTTGTTTGAGCAACCCTG
Done.