Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 325 of 378
Found at i:98762434 original size:41 final size:41
Alignment explanation
Indices: 98762341--98762435 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
98762331 CACGCTTATA
* ** * *
98762341 TGCGAGGCCGTATAAGTCACATGGTTTACCACATGCCCGTG
1 TGCGAGGCCGTGTGGGTCACACGGTCTACCACATGCCCGTG
* *
98762382 TGCGAGGCCGTGTGGGTCACACGGTCTACCACCTGCCTGTG
1 TGCGAGGCCGTGTGGGTCACACGGTCTACCACATGCCCGTG
*
98762423 TGCTAGGCCGTGT
1 TGCGAGGCCGTGT
98762436 ATCTTACACA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.24
Consensus pattern (41 bp):
TGCGAGGCCGTGTGGGTCACACGGTCTACCACATGCCCGTG
Found at i:98771564 original size:14 final size:13
Alignment explanation
Indices: 98771534--98771579 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
98771524 AAATTATTAA
98771534 TTAAGTTTAATAAT
1 TTAA-TTTAATAAT
*
98771548 TTAATTTAATAGCT
1 TTAATTTAATA-AT
98771562 TTAATTTAA-AAT
1 TTAATTTAATAAT
98771574 TTAATT
1 TTAATT
98771580 ATAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 8 0.28
14 14 0.48
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (13 bp):
TTAATTTAATAAT
Found at i:98772081 original size:21 final size:20
Alignment explanation
Indices: 98772057--98772107 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
98772047 TTTTTATACA
*
98772057 AATAATATAAAATATTATATT
1 AATAAGATAAAA-ATTATATT
*
98772078 AATAAGATTAAAATTATA--
1 AATAAGATAAAAATTATATT
*
98772096 AATATGATAAAA
1 AATAAGATAAAA
98772108 TAATAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 10 0.38
20 6 0.23
21 10 0.38
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AATAAGATAAAAATTATATT
Found at i:98772800 original size:2 final size:2
Alignment explanation
Indices: 98772793--98772825 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
98772783 GGATTCCTAA
98772793 AT AT AT 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 AT AT AT A
98772826 AACTAAATTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98773151 original size:30 final size:29
Alignment explanation
Indices: 98773115--98773174 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
98773105 ATGCATAAAC
** *
98773115 ATAAAATGATATGAAATCAAAATTTCATAT
1 ATAAAATGATACAAAATC-AAAGTTCATAT
*
98773145 ATAAAATTATACAAAATCAAAGTTCATAT
1 ATAAAATGATACAAAATCAAAGTTCATAT
98773174 A
1 A
98773175 CACAATTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (29 bp):
ATAAAATGATACAAAATCAAAGTTCATAT
Found at i:98774930 original size:13 final size:13
Alignment explanation
Indices: 98774892--98774974 Score: 50
Period size: 12 Copynumber: 6.6 Consensus size: 13
98774882 TTAATTTTCC
*
98774892 ATTTTATTATTAA
1 ATTTTATTATTAT
* *
98774905 AATTGATTAATTAT
1 ATTTTATT-ATTAT
98774919 A-TTTATTTATTA-
1 ATTTTA-TTATTAT
98774931 ATTTTATTATTAT
1 ATTTTATTATTAT
**
98774944 -TGCTATTATTAT
1 ATTTTATTATTAT
* *
98774956 -TATTATCATTAT
1 ATTTTATTATTAT
98774968 -TTTTATT
1 ATTTTATT
98774975 CTGTTATTGT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
12 31 0.56
13 17 0.31
14 7 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTTTATTATTAT
Found at i:98775252 original size:3 final size:3
Alignment explanation
Indices: 98775244--98775295 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
98775234 ATATATTTAC
**
98775244 ATT ATT ATT GCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
98775292 ATT A
1 ATT A
98775296 GACATAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:98777583 original size:26 final size:27
Alignment explanation
Indices: 98777531--98777584 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
98777521 TTTACAAAAA
*
98777531 TGCCTTCGATATATATATAAAGTATTTT
1 TGCCTTCAATATATATATAAAG-ATTTT
*
98777559 TGCCTTCAATATATATATTAA-ATTTT
1 TGCCTTCAATATATATATAAAGATTTT
98777585 AATTCTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
28 19 0.79
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (27 bp):
TGCCTTCAATATATATATAAAGATTTT
Found at i:98778012 original size:21 final size:21
Alignment explanation
Indices: 98777986--98778028 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
98777976 AGTATTAAAA
*
98777986 AATATAGTCATGTATTATTAT
1 AATATAATCATGTATTATTAT
98778007 AATATAATCATGTATTATTAT
1 AATATAATCATGTATTATTAT
98778028 A
1 A
98778029 TCAATTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (21 bp):
AATATAATCATGTATTATTAT
Found at i:98780513 original size:22 final size:21
Alignment explanation
Indices: 98780483--98780529 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
98780473 TGCAAATTAA
98780483 ATCTCCAAGATTACAGGATCAT
1 ATCTCCAAGATTACA-GATCAT
* * *
98780505 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
98780526 ATCT
1 ATCT
98780530 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:98780535 original size:19 final size:19
Alignment explanation
Indices: 98780500--98780578 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
98780490 AGATTACAGG
98780500 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
98780521 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
98780538 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98780557 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98780576 ATC
1 ATC
98780579 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98780555 original size:36 final size:38
Alignment explanation
Indices: 98780500--98780572 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
98780490 AGATTACAGG
98780500 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
98780538 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
98780573 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:98780587 original size:36 final size:35
Alignment explanation
Indices: 98780501--98780588 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
98780491 GATTACAGGA
98780501 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
98780537 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
98780573 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
98780589 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:98781328 original size:206 final size:206
Alignment explanation
Indices: 98780967--98781743 Score: 1203
Period size: 206 Copynumber: 3.8 Consensus size: 206
98780957 AATCTGTTAT
* *
98780967 CTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
** * * * * *
98781032 GCAAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCACCTT
* * * *
98781097 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
*
98781162 GACACGCCAAA
196 GAGACGCCAAA
* *
98781173 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
98781238 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTGAGCACAAGAATACCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCACCTT
* *
98781303 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
98781368 GAGACGCCAAA
196 GAGACGCCAAA
* *
98781379 CTTTGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
98781444 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCACCTT
* ** * * * *
98781509 GGATCTGCTTCAGTATAAACATATAAAGGCCAGATCTACTATGTGTCTACTCTCCATCGAATATA
131 GGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
98781574 GAGACGCCAAA
196 GAGACGCCAAA
* * * *
98781585 CTTCGATTTATTCTCTGATAATACAGAGATGCCAAATCATCTTTGATTTGTTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
98781650 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCACCTT
*
98781715 GGATCGGCTTCAGTATAAACATATGAAGG
131 GGATCTGCTTCAGTATAAACATATGAAGG
98781744 CCAGATCTAC
Statistics
Matches: 526, Mismatches: 45, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 526 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCACCTT
GGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:98781870 original size:44 final size:43
Alignment explanation
Indices: 98781748--98782178 Score: 275
Period size: 44 Copynumber: 9.8 Consensus size: 43
98781738 TGAAGGCCAG
* *
98781748 ATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGAT-GC-C
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACA-GGATATCAC
** * * * * * *
98781790 ATGCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATATTAG
1 AT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG-ATATCAC
** *
98781836 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACA-GGATATCAC
* *
98781880 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGA-ATGC-C
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGATAT-CAC
** * * * * * *
98781922 ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG-ATATCAC
* ** *
98781968 ATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGGATGCCAA
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACAC-AGGATATCAC
* * *
98782012 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT-GC-C
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACA-GGATATCAC
** * * *
98782054 ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGAT-GC-C
1 AT-CTGCTATCTTCGATTTGTTCCCTATAAACACA-GGATATCAC
** * * * * * *
98782097 ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAG
1 AT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGGA-TATCAC
98782143 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
98782179 GATGCCAAAT
Statistics
Matches: 307, Mismatches: 63, Indels: 36
0.76 0.16 0.09
Matches are distributed among these distances:
42 6 0.02
43 91 0.30
44 154 0.50
45 49 0.16
46 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGATATCAC
Found at i:98781914 original size:88 final size:86
Alignment explanation
Indices: 98781748--98782178 Score: 352
Period size: 88 Copynumber: 4.9 Consensus size: 86
98781738 TGAAGGCCAG
* ** *
98781748 ATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGA-TCTGT
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAACT-TG-
* * * * *
98781811 TTCGCTGTAAGCACAGGAATATTAG
63 TTCCCTATAAACACAGG-ATATGAC
98781836 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAACTTGTT
*
98781901 CCCTATAAACACAGGA-ATGCC
65 CCCTATAAACACAGGATATGAC
** * * * * * * *
98781922 ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAATTTG
1 AT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAACTTG
*** *
98781987 TTCCCTATAAACACAAGGATGCCAA
63 TTCCCTATAAACAC-AGGATATGAC
* * **
98782012 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTT
1 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAACTTGTT
* *
98782076 CCCTATAAACACAGG-GATGCC
65 CCCTATAAACACAGGATATGAC
** * * * * * * *
98782097 ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATTT
1 AT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGCTATCTTCAACTT
98782161 GTTCCCTATAAACACAGG
62 GTTCCCTATAAACACAGG
98782179 GATGCCAAAT
Statistics
Matches: 273, Mismatches: 56, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
85 2 0.01
86 24 0.09
87 59 0.22
88 153 0.56
89 30 0.11
90 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (86 bp):
ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCTTCAACTTGTTC
CCTATAAACACAGGATATGAC
Found at i:98781970 original size:132 final size:130
Alignment explanation
Indices: 98781743--98782185 Score: 577
Period size: 132 Copynumber: 3.4 Consensus size: 130
98781733 ACATATGAAG
* * * *
98781743 GCCAGATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATC
1 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATC
* *
98781808 TGTTTCGCTGTAAGCACAGGAATATTAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGG
66 TG-TTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACA-GG
98781873 AT
129 AT
*
98781875 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATC
1 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATC
*
98781940 TGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGG
66 TG-TTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACAC-AGG
98782005 AT
129 AT
*
98782007 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC-AAC
1 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATC
* * * * * ** * * * *
98782071 TTGTTCCCTATAAACACAGGGATG-C-CATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAG
66 -TGTTCGCTGTAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAG
98782134 GAGT
128 GA-T
* * * *
98782138 GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
98782186 AATCTTGTTT
Statistics
Matches: 279, Mismatches: 27, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
129 2 0.01
130 18 0.06
131 75 0.27
132 183 0.66
133 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (130 bp):
GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATC
TGTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGAT
Found at i:98782098 original size:175 final size:175
Alignment explanation
Indices: 98781836--98782190 Score: 613
Period size: 175 Copynumber: 2.0 Consensus size: 175
98781826 GGAATATTAG
* * **
98781836 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGAAATCTTCAACTTGTT
98781901 CCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
65 CCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
98781966 AGATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGGATGCCAA
130 AGATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGGATGCCAA
98782012 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGAAATCTTCAACTTGTT
* *
98782076 CCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
65 CCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
* *
98782141 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAA
130 AGATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGGATGCCAA
98782187 ATCT
1 ATCT
98782191 TGTTTCTTTG
Statistics
Matches: 170, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
174 2 0.01
175 128 0.75
176 40 0.24
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (175 bp):
ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAATCTGAAATCTTCAACTTGTTC
CCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCA
GATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGGATGCCAA
Found at i:98782179 original size:88 final size:88
Alignment explanation
Indices: 98781880--98782185 Score: 390
Period size: 88 Copynumber: 3.5 Consensus size: 88
98781870 GGGATGCCAA
*
98781880 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
*
98781945 CGCTGTAAGCACAGGAATGTCAG
66 CGCTGTAAGCACAGGAGTGTCAG
* * ** *
98781968 ATCTGCTATCTTCAATTTGTTCCCTATAAACACAAGGATGCCAAAT-CTGCTATCTTC-AACTTG
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC-TG
* * * *
98782031 -TTCCCTATAAACACAGG-GATG-C-C
63 CTTCGCTGTAAGCACAGGAG-TGTCAG
**
98782054 ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCT
1 AT-CTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCT
98782119 TCGCTGTAAGCACAGGAGTGTCAG
65 TCGCTGTAAGCACAGGAGTGTCAG
* *
98782143 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
98782186 AATCTTGTTT
Statistics
Matches: 181, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
85 2 0.01
86 13 0.07
87 55 0.30
88 96 0.53
89 13 0.07
90 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (88 bp):
ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
CGCTGTAAGCACAGGAGTGTCAG
Found at i:98783049 original size:14 final size:15
Alignment explanation
Indices: 98783030--98783058 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
98783020 TTGGCCTCTC
98783030 CATTTTTCT-TTTTT
1 CATTTTTCTCTTTTT
98783044 CATTTTTCTCTTTTT
1 CATTTTTCTCTTTTT
98783059 TTTTGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
CATTTTTCTCTTTTT
Found at i:98784956 original size:21 final size:21
Alignment explanation
Indices: 98784930--98784971 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
98784920 CTCTAAATAC
98784930 ATATCACACTCAAAAGGAACT
1 ATATCACACTCAAAAGGAACT
98784951 ATATCACACTCAAAAGGAACT
1 ATATCACACTCAAAAGGAACT
98784972 CTGAATCTGT
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:0.48, C:0.24, G:0.10, T:0.19
Consensus pattern (21 bp):
ATATCACACTCAAAAGGAACT
Found at i:98785531 original size:2 final size:2
Alignment explanation
Indices: 98785520--98785552 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
98785510 AGCCGTGACC
*
98785520 CT CT -T CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
98785553 TTTTAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:98788961 original size:17 final size:18
Alignment explanation
Indices: 98788919--98788967 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
98788909 AGTTGAAAAG
98788919 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
98788938 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
98788955 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
98788968 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:98789856 original size:40 final size:40
Alignment explanation
Indices: 98789790--98789956 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
98789780 AAATTGAATG
* * *
98789790 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
98789829 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
98789869 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
98789909 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
98789949 ATATCCGG
1 ATATCCGG
98789957 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:98796971 original size:17 final size:18
Alignment explanation
Indices: 98796929--98796977 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
98796919 AGTTGAAAAG
98796929 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
98796948 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
98796965 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
98796978 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:98797865 original size:40 final size:40
Alignment explanation
Indices: 98797799--98797965 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
98797789 AAATTGAATG
* * *
98797799 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
98797838 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
98797878 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
98797918 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
98797958 ATATCCGG
1 ATATCCGG
98797966 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:98799914 original size:19 final size:19
Alignment explanation
Indices: 98799879--98799976 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
98799869 AGATTATAAG
98799879 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
98799900 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
98799919 ATCAAATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
98799936 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98799955 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98799974 ATC
1 ATC
98799977 CTTAAAAATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98799941 original size:36 final size:37
Alignment explanation
Indices: 98799890--98799976 Score: 140
Period size: 36 Copynumber: 2.3 Consensus size: 37
98799880 TCATATCTTC
98799890 AAGATTGCATATCATATCTAAGATTGCATATCAAATCT
1 AAGATTG-ATATCATATCTAAGATTGCATATCAAATCT
*
98799928 AAGATTG-TATCATATCTAAGATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATCAAATCT
98799964 AAGATTGCATATC
1 AAGATTG-ATATC
98799977 CTTAAAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 35 0.76
38 11 0.24
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATCAAATCT
Found at i:98819100 original size:16 final size:16
Alignment explanation
Indices: 98819079--98819111 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
98819069 CAATGACTTT
*
98819079 AAGAAAGCTATGGCTA
1 AAGAAAGCTATGACTA
98819095 AAGAAAGCTATGACTA
1 AAGAAAGCTATGACTA
98819111 A
1 A
98819112 GGAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.18
Consensus pattern (16 bp):
AAGAAAGCTATGACTA
Found at i:98826400 original size:9 final size:9
Alignment explanation
Indices: 98826384--98826558 Score: 85
Period size: 9 Copynumber: 19.3 Consensus size: 9
98826374 GTATATCTGT
98826384 TATA-TATG
1 TATATTATG
98826392 TATATTATG
1 TATATTATG
*
98826401 TATGTTATG
1 TATATTATG
98826410 TATATTATTG
1 TATATTA-TG
* *
98826420 TTTATGTCTG
1 TATAT-TATG
*
98826430 TATATTA-C
1 TATATTATG
*
98826438 TATGTTATG
1 TATATTATG
98826447 TAGTA-TAT-
1 TA-TATTATG
*
98826455 TACTGTTTATG
1 TA-T-ATTATG
*
98826466 TATTTTATG
1 TATATTATG
* *
98826475 CATGTTATG
1 TATATTATG
*
98826484 TTTATTATTG
1 TATATTA-TG
*
98826494 TTTATGTATG
1 TATAT-TATG
98826504 TATATTATG
1 TATATTATG
*
98826513 TATGTTATG
1 TATATTATG
*
98826522 TACATTAT-
1 TATATTATG
98826530 TAT-TTAT-
1 TATATTATG
*
98826537 AATATGTATG
1 TATAT-TATG
* *
98826547 TTTATCATG
1 TATATTATG
98826556 TAT
1 TAT
98826559 GTATATTACA
Statistics
Matches: 127, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
7 6 0.05
8 16 0.13
9 67 0.53
10 33 0.26
11 5 0.04
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (9 bp):
TATATTATG
Found at i:98826433 original size:20 final size:19
Alignment explanation
Indices: 98826408--98826511 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 19
98826398 ATGTATGTTA
98826408 TGTATATTATTGTTTATGT
1 TGTATATTATTGTTTATGT
98826427 CTGTATATTACTATG-TTATGT
1 -TGTATATTA-T-TGTTTATGT
* *
98826448 AGTATATTACTGTTTATGT
1 TGTATATTATTGTTTATGT
* *
98826467 AT-TTTATGCA-TG-TTATG-
1 -TGTATAT-TATTGTTTATGT
98826484 T-T-TATTATTGTTTATGT
1 TGTATATTATTGTTTATGT
98826501 ATGTATATTAT
1 -TGTATATTAT
98826512 GTATGTTATG
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
14 1 0.01
15 5 0.07
16 7 0.10
18 8 0.12
19 13 0.19
20 24 0.36
21 7 0.10
22 2 0.03
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.58
Consensus pattern (19 bp):
TGTATATTATTGTTTATGT
Found at i:98826496 original size:34 final size:34
Alignment explanation
Indices: 98826388--98826502 Score: 113
Period size: 34 Copynumber: 3.2 Consensus size: 34
98826378 ATCTGTTATA
* * *
98826388 TATGTATATTATGTATGTTATGTATATTATTGTT
1 TATGTATTTTATGCATGTTATGTTTATTATTGTT
* * * *
98826422 TATGTCTGTATATTACTATGTTATGTAGTATATTACTGTT
1 TATGTAT-TTTA-TGC-ATGTTATGT--T-TATTATTGTT
98826462 TATGTATTTTATGCATGTTATGTTTATTATTGTT
1 TATGTATTTTATGCATGTTATGTTTATTATTGTT
98826496 TATGTAT
1 TATGTAT
98826503 GTATATTATG
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
34 22 0.34
35 3 0.05
36 1 0.02
37 18 0.28
38 2 0.03
39 3 0.05
40 15 0.23
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.57
Consensus pattern (34 bp):
TATGTATTTTATGCATGTTATGTTTATTATTGTT
Found at i:98826560 original size:38 final size:39
Alignment explanation
Indices: 98826383--98826583 Score: 145
Period size: 38 Copynumber: 5.3 Consensus size: 39
98826373 AGTATATCTG
* * *
98826383 TTAT-ATATGTATATTATGTATGTTATGTATATTATTGT
1 TTATAATATGTATTTTATGCATGTTATGTATATTATTAT
* * *
98826421 TTAT-GTCTGTATATTA--CTATGTTATGTAGTA-TATTACT
1 TTATAATATGTATTTTATGC-ATGTTATGTA-TATTATTA-T
* * *
98826459 GT-T--TATGTATTTTATGCATGTTATGTTTATTATTGT
1 TTATAATATGTATTTTATGCATGTTATGTATATTATTAT
* * * *
98826495 TTAT-GTATGTATATTATGTATGTTATGTACATTATTAT
1 TTATAATATGTATTTTATGCATGTTATGTATATTATTAT
**
98826533 TTATAATATGTATGTTTAT-CATG-TATGTATATTACAAT
1 TTATAATATGTAT-TTTATGCATGTTATGTATATTATTAT
*
98826571 TTATATTATGTAT
1 TTATAATATGTAT
98826584 GTGTAGTGTT
Statistics
Matches: 131, Mismatches: 22, Indels: 20
0.76 0.13 0.12
Matches are distributed among these distances:
36 13 0.10
37 29 0.22
38 75 0.57
39 10 0.08
40 4 0.03
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (39 bp):
TTATAATATGTATTTTATGCATGTTATGTATATTATTAT
Found at i:98830348 original size:6 final size:6
Alignment explanation
Indices: 98830328--98830377 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
98830318 CTAAGAAAAT
* *
98830328 AACTATA AACATAA AACTAA AACTAA AACTAA AAATAA AAATAA AA-TAA
1 AACTA-A AAC-TAA AACTAA AACTAA AACTAA AACTAA AACTAA AACTAA
98830377 A
1 A
98830378 TGGACTCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 4 0.10
6 28 0.68
7 7 0.17
8 2 0.05
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (6 bp):
AACTAA
Found at i:98835680 original size:27 final size:26
Alignment explanation
Indices: 98835643--98835757 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
98835633 AGCATGGCTG
* *
98835643 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
98835669 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
98835697 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
98835724 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
98835751 CCAGAAC
1 CCAGAAC
98835758 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:98835702 original size:54 final size:54
Alignment explanation
Indices: 98835643--98835757 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
98835633 AGCATGGCTG
*
98835643 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
98835697 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
98835751 CCAGAAC
1 CCAGAAC
98835758 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:98835877 original size:24 final size:25
Alignment explanation
Indices: 98835850--98835903 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
98835840 TTTCAGTCAA
*
98835850 AATTAAC-CCTAGGGGTATAACGGT
1 AATTAACACCTAGGGGTATAACAGT
**
98835874 AATTTTGCACCTAGGGGTATAACAGT
1 AA-TTAACACCTAGGGGTATAACAGT
98835900 AATT
1 AATT
98835904 TTCCATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.08
25 5 0.20
26 18 0.72
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (25 bp):
AATTAACACCTAGGGGTATAACAGT
Found at i:98837408 original size:26 final size:26
Alignment explanation
Indices: 98837372--98837481 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
98837362 CATGAAATTC
98837372 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
98837398 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98837424 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
98837450 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98837476 TTATCA
1 TTATCA
98837482 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98841489 original size:27 final size:26
Alignment explanation
Indices: 98841452--98841566 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
98841442 AGCATGGCTG
* *
98841452 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
98841478 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
98841506 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
98841533 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
98841560 CCAGAAC
1 CCAGAAC
98841567 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:98841511 original size:54 final size:54
Alignment explanation
Indices: 98841452--98841566 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
98841442 AGCATGGCTG
*
98841452 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
98841506 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
98841560 CCAGAAC
1 CCAGAAC
98841567 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:98843216 original size:26 final size:26
Alignment explanation
Indices: 98843180--98843289 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
98843170 CATGAAATTC
98843180 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
98843206 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
98843232 ATATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
98843258 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98843284 TTATCA
1 TTATCA
98843290 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98850566 original size:27 final size:27
Alignment explanation
Indices: 98850534--98850587 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
98850524 TAATATGAAT
98850534 GTGGATTATATTTAATTGTGTTTGTGA
1 GTGGATTATATTTAATTGTGTTTGTGA
98850561 GTGGATTATATTTAATTGTGTTTGTGA
1 GTGGATTATATTTAATTGTGTTTGTGA
98850588 ATAGTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (27 bp):
GTGGATTATATTTAATTGTGTTTGTGA
Found at i:98855808 original size:30 final size:31
Alignment explanation
Indices: 98855773--98855845 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
98855763 TCATATGTCC
* *
98855773 GTGTGGCCCATAC-GCCCAACAAGCCAGATT
1 GTGTGGCCCACACGGCCCAACAAGCCAGACT
*
98855803 GTGTGGCCCACACGGCCCAACAGGCCAGACT
1 GTGTGGCCCACACGGCCCAACAAGCCAGACT
98855834 GTGTGGCCCACA
1 GTGTGGCCCACA
98855846 TGCCTTACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 12 0.31
31 27 0.69
ACGTcount: A:0.23, C:0.36, G:0.27, T:0.14
Consensus pattern (31 bp):
GTGTGGCCCACACGGCCCAACAAGCCAGACT
Found at i:98868956 original size:59 final size:58
Alignment explanation
Indices: 98868850--98868960 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 58
98868840 ATTTATAAAG
* ** * * *
98868850 AATTTTAAAATTTTATAAAAGTTGTAAAAATTGTAAAATATATAGAAATATAGAAAAA
1 AATTATAAAATTTTATAAAAGTCATAAAAATTATAAAAAATAAAGAAATATAGAAAAA
98868908 AATTATAAAATTTTAT-AAAGTCATAACAAAATTATAAAAAATAAAGAAATATA
1 AATTATAAAATTTTATAAAAGTCAT-A-AAAATTATAAAAAATAAAGAAATATA
98868961 AAATTCGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 6 0.13
58 16 0.36
59 23 0.51
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.32
Consensus pattern (58 bp):
AATTATAAAATTTTATAAAAGTCATAAAAATTATAAAAAATAAAGAAATATAGAAAAA
Found at i:98869177 original size:19 final size:20
Alignment explanation
Indices: 98869140--98869183 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
98869130 AACAATCCTA
*
98869140 ATTTTTAATAAATTCTAAAT
1 ATTTTTAATAAAATCTAAAT
*
98869160 ATTTTTATTAAAAT-TAAAT
1 ATTTTTAATAAAATCTAAAT
98869179 ATTTT
1 ATTTT
98869184 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTAATAAAATCTAAAT
Found at i:98870317 original size:21 final size:22
Alignment explanation
Indices: 98870291--98870374 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 22
98870281 TAAAAAGTAC
98870291 ATATT-TAAAATTTTAAAAAAT
1 ATATTATAAAATTTTAAAAAAT
* *
98870312 ATATT-T-AAAGTTTAAGAAAT
1 ATATTATAAAATTTTAAAAAAT
* *
98870332 AATATTATAAAAAATTTAAAATAT
1 -ATATTAT-AAAATTTTAAAAAAT
* *
98870356 ATATTATAATATTATAAAA
1 ATATTATAAAATTTTAAAA
98870375 TAAATAATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 12 0.24
21 11 0.22
22 10 0.20
23 7 0.14
24 11 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATTATAAAATTTTAAAAAAT
Found at i:98870331 original size:20 final size:21
Alignment explanation
Indices: 98870280--98870342 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
98870270 TTTTATAATA
* *
98870280 TTAAAAAGTACATATTTAAAATT
1 TTAAAAAATA-ATATTT-AAAGT
98870303 TTAAAAAAT-ATATTTAAAGT
1 TTAAAAAATAATATTTAAAGT
*
98870323 TTAAGAAATAATATTATAAA
1 TTAAAAAATAATATT-TAAA
98870343 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 12 0.34
21 11 0.31
22 4 0.11
23 8 0.23
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAGT
Found at i:98870376 original size:44 final size:44
Alignment explanation
Indices: 98870272--98870385 Score: 107
Period size: 44 Copynumber: 2.6 Consensus size: 44
98870262 TTTAAATTTT
*
98870272 TTATAATATTA-AAAAGTACATATT-T-AAAATTTTAAAAAATATA
1 TTATAATATTATAAAA-TA-ATATTATAAAAAATTTAAAAAATATA
*
98870315 TT-TAA-AGTT-TAAGAAATAATATTATAAAAAATTTAAAATATATA
1 TTATAATA-TTAT-A-AAATAATATTATAAAAAATTTAAAAAATATA
*
98870359 TTATAATATTATAAAATAA-ATAATAAA
1 TTATAATATTATAAAATAATATTATAAA
98870386 CAAACAAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
41 1 0.02
42 10 0.17
43 13 0.22
44 27 0.46
45 6 0.10
46 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.39
Consensus pattern (44 bp):
TTATAATATTATAAAATAATATTATAAAAAATTTAAAAAATATA
Found at i:98874460 original size:13 final size:11
Alignment explanation
Indices: 98874432--98874461 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
98874422 TTGATTATTT
98874432 AATATATTTTA
1 AATATATTTTA
98874443 AATATATTTTA
1 AATATATTTTA
*
98874454 ATTATATT
1 AATATATT
98874462 CAATAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATATATTTTA
Found at i:98878367 original size:80 final size:80
Alignment explanation
Indices: 98878234--98878480 Score: 476
Period size: 80 Copynumber: 3.1 Consensus size: 80
98878224 TGTCTTAATG
98878234 TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTCAGACCGTAATAATTTGAGTTAAAAAT
1 TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTCAGACCGTAATAATTTGAGTTAAAAAT
98878299 CAAGAATCCTTCGCT
66 CAAGAATCCTTCGCT
98878314 TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTCAGACCGTAATAATTTGAGTTAAAAAT
1 TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTCAGACCGTAATAATTTGAGTTAAAAAT
98878379 CAAGAATCCTTCGCT
66 CAAGAATCCTTCGCT
* *
98878394 TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTAAAACCGTAATAATTTGAGTTAAAAAT
1 TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTCAGACCGTAATAATTTGAGTTAAAAAT
98878459 CAAGAATCCTTCGCT
66 CAAGAATCCTTCGCT
98878474 TCAAAAG
1 TCAAAAG
98878481 AATATAAACA
Statistics
Matches: 165, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 165 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (80 bp):
TCAAAAGCTTAAAAGAATTTAGAAATAAGATCTCTTTTCAGACCGTAATAATTTGAGTTAAAAAT
CAAGAATCCTTCGCT
Found at i:98879139 original size:19 final size:19
Alignment explanation
Indices: 98879108--98879160 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
98879098 AAAGGACGCA
98879108 AAAATA-AATAAAAATTAT
1 AAAATACAATAAAAATTAT
*
98879126 AAACATA-TATAAAAA--AT
1 AAA-ATACAATAAAAATTAT
98879143 AAAATACAATAAAAATTA
1 AAAATACAATAAAAATTA
98879161 AATGAGGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
18 3 0.10
19 11 0.38
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATACAATAAAAATTAT
Found at i:98879402 original size:3 final size:3
Alignment explanation
Indices: 98879394--98879466 Score: 60
Period size: 3 Copynumber: 23.3 Consensus size: 3
98879384 TTAAAATTAT
* *
98879394 ATA ATA ATAA ATA ATGA ATA ATT ATA ATA TATA ATA A-A ATA ACA ATA
1 ATA ATA AT-A ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
98879441 ATA TATA ATA A-A ATG ATA TATA ATA A
1 ATA -ATA ATA ATA ATA ATA -ATA ATA A
98879467 AATGTATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.07
3 38 0.67
4 15 0.26
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:98879461 original size:15 final size:15
Alignment explanation
Indices: 98879431--98879488 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
98879421 TATATAATAA
*
98879431 AATAACAATAATATAT
1 AATAA-AATGATATAT
98879447 AATAAAATGATATAT
1 AATAAAATGATATAT
98879462 AATAAAATG-TATA-
1 AATAAAATGATATAT
98879475 AATCAAAAT-ATATA
1 AAT-AAAATGATATA
98879489 ATGAAATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 3 0.08
14 13 0.33
15 18 0.46
16 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAAAATGATATAT
Found at i:98879463 original size:28 final size:28
Alignment explanation
Indices: 98879432--98879488 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
98879422 ATATAATAAA
98879432 ATAACAATAATATAT-AAT-AAAATGATAT
1 ATAACAA-AATATATAAATCAAAAT-ATAT
* *
98879460 ATAATAAAATGTATAAATCAAAATATAT
1 ATAACAAAATATATAAATCAAAATATAT
98879488 A
1 A
98879489 ATGAAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.24
28 14 0.56
29 5 0.20
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAACAAAATATATAAATCAAAATATAT
Found at i:98879482 original size:14 final size:13
Alignment explanation
Indices: 98879442--98879498 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 13
98879432 ATAACAATAA
98879442 TATATAATAAAATG
1 TATA-AATAAAATG
98879456 ATATATAATAAAATG
1 -TATA-AATAAAATG
*
98879471 TATAAATCAAAATA
1 TATAAAT-AAAATG
*
98879485 TAT-AATGAAATG
1 TATAAATAAAATG
98879497 TA
1 TA
98879499 AATGATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 12 0.32
15 14 0.37
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (13 bp):
TATAAATAAAATG
Found at i:98881634 original size:44 final size:44
Alignment explanation
Indices: 98881133--98881626 Score: 682
Period size: 44 Copynumber: 11.2 Consensus size: 44
98881123 CAAATGTCAG
* *
98881133 ATCTGCTATCTTCGATCTGCTCTTTGTCAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
98881177 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
98881221 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACCCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
98881265 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAAAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
98881309 ATCGGCTATATTCGATTTTCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * * *
98881353 ATCGGCTATCTTCGATCTACTCTCTATCAATATAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
98881397 ATCTGCTATCTTTGATCTGCTCTCTATCAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* **
98881441 ATCTGTTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
98881485 ATCTGTTATCTTTGATCTACTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
** * *
98881529 ATCTATTATCTTCGATCTGCTCTTTGTCAATACAGAGAAGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
98881573 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
98881617 ATCTACTATC
1 ATCTGCTATC
98881627 GGTGATCTAT
Statistics
Matches: 402, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 402 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:98894695 original size:20 final size:19
Alignment explanation
Indices: 98894659--98894700 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
98894649 AATATATGTA
98894659 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
98894679 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
98894698 TTA
1 TTA
98894701 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:98894715 original size:23 final size:18
Alignment explanation
Indices: 98894659--98894700 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
98894649 AATATATGTA
98894659 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
98894679 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
98894698 TTA
1 TTA
98894701 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:98894891 original size:19 final size:18
Alignment explanation
Indices: 98894826--98894913 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 18
98894816 CATATTATTA
*
98894826 TTATTATATATTTTTAAA
1 TTATTATATATTTTTAAT
98894844 TTATTAT-TA-TTTTACATT
1 TTATTATATATTTTTA-A-T
*
98894862 ATTATTTATATATTTTTACT
1 -TTA-TTATATATTTTTAAT
*
98894882 TGTATTATATCTTTATTAA-
1 T-TATTATATATTT-TTAAT
98894901 TTATTTATATATT
1 TTA-TTATATATT
98894914 ATACATTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 9 0.16
19 22 0.39
20 10 0.18
21 2 0.04
22 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATATATTTTTAAT
Found at i:98894904 original size:38 final size:36
Alignment explanation
Indices: 98894820--98894913 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 36
98894810 TTATTTCATA
98894820 TTATTATTA-TTATATATTTTTAAATTATTATTATT
1 TTATTATTATTTATATATTTTTAAATTATTATTATT
**
98894855 TTACATTATTATTTATATATTTTTACTTGTATTA-TATCT
1 TT--ATTATTATTTATATATTTTTAAAT-TATTATTAT-T
98894894 TTATTAATTATTTATATATT
1 TTATT-ATTATTTATATATT
98894914 ATACATTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
35 2 0.04
37 10 0.20
38 31 0.61
39 8 0.16
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TTATTATTATTTATATATTTTTAAATTATTATTATT
Found at i:98894993 original size:22 final size:22
Alignment explanation
Indices: 98894968--98895012 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
98894958 TATTTTATAT
98894968 TATGTCATTT-TTTATACTATTA
1 TATGTCATTTATTTATAC-ATTA
**
98894990 TATGTTTTTTATTTATACATTA
1 TATGTCATTTATTTATACATTA
98895012 T
1 T
98895013 TATCATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (22 bp):
TATGTCATTTATTTATACATTA
Found at i:98896762 original size:3 final size:3
Alignment explanation
Indices: 98896754--98896826 Score: 60
Period size: 3 Copynumber: 23.3 Consensus size: 3
98896744 TTAAAATTAT
* *
98896754 ATA ATA ATAA ATA ATGA ATA ATT ATA ATA TATA ATA A-A ATA ACA ATA
1 ATA ATA AT-A ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
98896801 ATA TATA ATA A-A ATG ATA TATA ATA A
1 ATA -ATA ATA ATA ATA ATA -ATA ATA A
98896827 AATGTATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.07
3 38 0.67
4 15 0.26
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:98896821 original size:15 final size:15
Alignment explanation
Indices: 98896791--98896848 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
98896781 TATATAATAA
*
98896791 AATAACAATAATATAT
1 AATAA-AATGATATAT
98896807 AATAAAATGATATAT
1 AATAAAATGATATAT
98896822 AATAAAATG-TATA-
1 AATAAAATGATATAT
98896835 AATCAAAAT-ATATA
1 AAT-AAAATGATATA
98896849 ATGAAATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 3 0.08
14 13 0.33
15 18 0.46
16 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAAAATGATATAT
Found at i:98896823 original size:28 final size:28
Alignment explanation
Indices: 98896792--98896848 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
98896782 ATATAATAAA
98896792 ATAACAATAATATAT-AAT-AAAATGATAT
1 ATAACAA-AATATATAAATCAAAAT-ATAT
* *
98896820 ATAATAAAATGTATAAATCAAAATATAT
1 ATAACAAAATATATAAATCAAAATATAT
98896848 A
1 A
98896849 ATGAAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.24
28 14 0.56
29 5 0.20
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAACAAAATATATAAATCAAAATATAT
Found at i:98896842 original size:14 final size:13
Alignment explanation
Indices: 98896802--98896858 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 13
98896792 ATAACAATAA
98896802 TATATAATAAAATG
1 TATA-AATAAAATG
98896816 ATATATAATAAAATG
1 -TATA-AATAAAATG
*
98896831 TATAAATCAAAATA
1 TATAAAT-AAAATG
*
98896845 TAT-AATGAAATG
1 TATAAATAAAATG
98896857 TA
1 TA
98896859 AATGATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 12 0.32
15 14 0.37
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (13 bp):
TATAAATAAAATG
Found at i:98910596 original size:30 final size:30
Alignment explanation
Indices: 98910547--98910603 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
98910537 CATGGGCTGG
* * *
98910547 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGACCAGCCCGTGTGGCT
98910577 CACACGGGCATGTGACCAGCCCGTGTG
1 CACACGGGCATGTGACCAGCCCGTGTG
98910604 TAATGCCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.32, G:0.37, T:0.18
Consensus pattern (30 bp):
CACACGGGCATGTGACCAGCCCGTGTGGCT
Found at i:98916737 original size:22 final size:22
Alignment explanation
Indices: 98916703--98916759 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
98916693 TGTGGAAGGT
*
98916703 CACAAGCCCGTGTAAAAAGAGG
1 CACACGCCCGTGTAAAAAGAGG
* * *
98916725 CACACGCCTGTGTGAAGAGAGG
1 CACACGCCCGTGTAAAAAGAGG
*
98916747 CACACGGCCGTGT
1 CACACGCCCGTGT
98916760 GACTGAAGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.32, T:0.12
Consensus pattern (22 bp):
CACACGCCCGTGTAAAAAGAGG
Found at i:98917560 original size:13 final size:14
Alignment explanation
Indices: 98917511--98917555 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
98917501 AGAATAATAA
*
98917511 TAAAAATAAAAAG-
1 TAAAAATAAATAGT
*
98917524 TAAAAAT--AGAGT
1 TAAAAATAAATAGT
98917536 TAAAAATAAATAGT
1 TAAAAATAAATAGT
98917550 TAAAAA
1 TAAAAA
98917556 GAATAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.11
12 7 0.26
13 7 0.26
14 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (14 bp):
TAAAAATAAATAGT
Found at i:98918040 original size:22 final size:22
Alignment explanation
Indices: 98917999--98918040 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
98917989 ATATTTATAA
*
98917999 TTTATTAACATTATATACATTC
1 TTTATTAACATTATAAACATTC
98918021 TTTATTAA-ATTTATAAACAT
1 TTTATTAACA-TTATAAACAT
98918041 AAACAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATTAACATTATAAACATTC
Found at i:98918743 original size:17 final size:17
Alignment explanation
Indices: 98918721--98918758 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
98918711 AACATTTAAA
98918721 AAAATTATAATATT-TTT
1 AAAATT-TAATATTATTT
*
98918738 AAAATTTTATATTATTT
1 AAAATTTAATATTATTT
98918755 AAAA
1 AAAA
98918759 AAATTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATTTAATATTATTT
Found at i:98918760 original size:19 final size:18
Alignment explanation
Indices: 98918708--98918765 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
98918698 TTGATATACA
*
98918708 TATAACATTTAAAAAAAT
1 TATAATATTTAAAAAAAT
* **
98918726 TATAATATTTTTAAAATTT
1 TATAATA-TTTAAAAAAAT
*
98918745 TATATTATTTAAAAAAAT
1 TATAATATTTAAAAAAAT
98918763 TAT
1 TAT
98918766 CTTGAATAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAATATTTAAAAAAAT
Found at i:98920398 original size:2 final size:2
Alignment explanation
Indices: 98920391--98920417 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
98920381 ATTTTTAATA
98920391 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
98920418 ATTTTGTAAA
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:98923449 original size:2 final size:2
Alignment explanation
Indices: 98923444--98923474 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
98923434 GGTTGCATAA
98923444 AT AT 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 AT AT A
98923475 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98923479 original size:2 final size:2
Alignment explanation
Indices: 98923474--98923500 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
98923464 ATATATATAT
98923474 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
98923501 AATACAAGTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:98937371 original size:57 final size:58
Alignment explanation
Indices: 98937277--98937390 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
98937267 AGAAATGTTG
* * * *
98937277 AAAATGGATAAATGAGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATT
1 AAAATGGAAAAATGAGAAACATTTGGAAATAAATATGGTTTTCGCCAAAATGAAAATT
* *
98937335 AAAATGGAAAAATG-GAATCATTTGGAAATAAATATGGTTTTCGCTAAAATGAAAAT
1 AAAATGGAAAAATGAGAAACATTTGGAAATAAATATGGTTTTCGCCAAAATGAAAAT
98937391 GACTTGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 37 0.74
58 13 0.26
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (58 bp):
AAAATGGAAAAATGAGAAACATTTGGAAATAAATATGGTTTTCGCCAAAATGAAAATT
Found at i:98942429 original size:26 final size:26
Alignment explanation
Indices: 98942399--98942480 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
98942389 TGAAATTCCC
*
98942399 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
98942425 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
98942451 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
98942477 ATCA
1 ATCA
98942481 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:98948188 original size:25 final size:23
Alignment explanation
Indices: 98948145--98948195 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
98948135 AAAATAATAG
98948145 ATAAT-AAATAATATTAATATAT
1 ATAATAAAATAATATTAATATAT
*
98948167 ATAATAAAATAATCTTACA-ATAT
1 ATAATAAAATAATATTA-ATATAT
98948190 ATAATA
1 ATAATA
98948196 TAAAAGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 20 0.77
24 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAATAAAATAATATTAATATAT
Found at i:98957142 original size:40 final size:40
Alignment explanation
Indices: 98957085--98957288 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 40
98957075 TGAATGATAC
* * * * *
98957085 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
**
98957125 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* * ** *
98957165 CCGGGCTAAGACCCGAAGACAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
98957205 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
98957245 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
98957285 CCGG
1 CCGG
98957289 TTGAATCCCG
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 130 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:98957287 original size:80 final size:80
Alignment explanation
Indices: 98957085--98957288 Score: 221
Period size: 80 Copynumber: 2.5 Consensus size: 80
98957075 TGAATGATAC
* * * *
98957085 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
** *** *
98957150 TGCGGGTTGTTATAT
66 TGCAAGTTACCAAAT
* * * ** *
98957165 CCGGGCTAAGACCCGAAGACAATTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
98957229 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * *
98957245 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGG
98957289 TTGAATCCCG
Statistics
Matches: 98, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
80 95 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:98965275 original size:40 final size:40
Alignment explanation
Indices: 98965215--98965373 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 40
98965205 TGAATGATAC
* * *
98965215 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
98965254 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-A--G-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGATTATAT
* * ** *
98965290 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
98965330 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
98965370 CCGG
1 CCGG
98965374 TTAATCCGAA
Statistics
Matches: 98, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
36 30 0.31
37 5 0.05
39 13 0.13
40 50 0.51
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:98965294 original size:36 final size:36
Alignment explanation
Indices: 98965248--98965357 Score: 141
Period size: 36 Copynumber: 2.9 Consensus size: 36
98965238 ATGCTAGTGA
98965248 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AG
1 TTATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAG
98965284 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAG
* *
98965321 TTACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TT---ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC
98965358 TTGTGGTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
36 30 0.45
37 7 0.10
40 30 0.45
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (36 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTGTGCAAG
Found at i:98967210 original size:27 final size:27
Alignment explanation
Indices: 98967172--98967226 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
98967162 AATCATCCAT
98967172 AGGCAGCAAAGTAGATATCTAGGTGTA
1 AGGCAGCAAAGTAGATATCTAGGTGTA
98967199 AGGCAGCAAAGTAGATATCTAGGTGTA
1 AGGCAGCAAAGTAGATATCTAGGTGTA
98967226 A
1 A
98967227 CTCTAAATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (27 bp):
AGGCAGCAAAGTAGATATCTAGGTGTA
Found at i:98969604 original size:55 final size:52
Alignment explanation
Indices: 98969449--98969656 Score: 188
Period size: 55 Copynumber: 3.8 Consensus size: 52
98969439 ATCCTTTTGA
* *
98969449 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATG
* * * * *
98969502 AACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G
* *
98969556 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG
* * *
98969609 AAACCTTACCAATTTCCAAGCCTT-AGCATGGTCTTACATGATATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATG-TATCCTT
98969657 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 10 0.08
55 68 0.54
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (52 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATG
Found at i:98977208 original size:21 final size:21
Alignment explanation
Indices: 98977184--98977229 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
98977174 GCACTCTGTT
*
98977184 TTGAGCAATAGCAACCCAGTG
1 TTGAGCAATAACAACCCAGTG
* **
98977205 TTGAGCCATAACAACCTTGTG
1 TTGAGCAATAACAACCCAGTG
98977226 TTGA
1 TTGA
98977230 ACCATAACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
TTGAGCAATAACAACCCAGTG
Found at i:98979330 original size:23 final size:23
Alignment explanation
Indices: 98979304--98979349 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
98979294 AAAGTTGGTC
*
98979304 TCTGTAGGTGAAAATTTAACAAA
1 TCTGAAGGTGAAAATTTAACAAA
98979327 TCTGAAGGTGAAAATTTAACAAA
1 TCTGAAGGTGAAAATTTAACAAA
98979350 GGTTCACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (23 bp):
TCTGAAGGTGAAAATTTAACAAA
Found at i:98981550 original size:18 final size:18
Alignment explanation
Indices: 98981511--98981567 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
98981501 TGGTAAGATA
*
98981511 TTTTGTGTT-GTTATTAGAT
1 TTTTGTGTTGGTT-TT-GTT
98981530 TTTTGTGTTGGTTTTGTT
1 TTTTGTGTTGGTTTTGTT
*
98981548 TTTTGGGTTGAGTTTTGTT
1 TTTTGTGTTG-GTTTTGTT
98981567 T
1 T
98981568 AACTAATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 11 0.32
19 20 0.59
20 3 0.09
ACGTcount: A:0.07, C:0.00, G:0.26, T:0.67
Consensus pattern (18 bp):
TTTTGTGTTGGTTTTGTT
Found at i:98981551 original size:19 final size:19
Alignment explanation
Indices: 98981529--98981567 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
98981519 TGTTATTAGA
*
98981529 TTTTTGTGTTG-GTTTTGT
1 TTTTTGGGTTGAGTTTTGT
98981547 TTTTTGGGTTGAGTTTTGT
1 TTTTTGGGTTGAGTTTTGT
98981566 TT
1 TT
98981568 AACTAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (19 bp):
TTTTTGGGTTGAGTTTTGT
Found at i:98986450 original size:32 final size:32
Alignment explanation
Indices: 98986409--98986473 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
98986399 ATAAGGAAAA
98986409 TGAAGAAGATGATACTAGTTGTTTTATTTATG
1 TGAAGAAGATGATACTAGTTGTTTTATTTATG
98986441 TGAAGAAGATGATACTAGTTGTTTTATTTATG
1 TGAAGAAGATGATACTAGTTGTTTTATTTATG
98986473 T
1 T
98986474 TTTTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.45
Consensus pattern (32 bp):
TGAAGAAGATGATACTAGTTGTTTTATTTATG
Found at i:98996160 original size:39 final size:39
Alignment explanation
Indices: 98996044--98996166 Score: 192
Period size: 39 Copynumber: 3.2 Consensus size: 39
98996034 GAAGCCCGAA
*
98996044 GGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCA
1 GGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCG
* *
98996083 GGCTTCCATTTAGTACTTATGTGCTTCAGTTAGCCTTCG
1 GGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCG
* **
98996122 GGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTTCG
1 GGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCG
98996161 GGCTTC
1 GGCTTC
98996167 AGATCACGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.38
Consensus pattern (39 bp):
GGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCG
Found at i:98997667 original size:39 final size:40
Alignment explanation
Indices: 98997578--98997753 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
98997568 ACCCAAGTAT
*
98997578 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTC-GGATCTTAGCCCGGATATAGCAACTCGCACAAATGC
98997617 CTTCGGATCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGATCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
98997657 C-TCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGATCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
98997696 CTTCGGGA-CATAGCCCGGATATAGCAACTCACACGAATGC
1 CTTC-GGATCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
98997736 CTTCGGATCTTAGTCCGG
1 CTTCGGATCTTAGCCCGG
98997754 TTATCATCCG
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.03
39 45 0.39
40 65 0.56
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGATCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:98997710 original size:79 final size:79
Alignment explanation
Indices: 98997578--98997753 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 79
98997568 ACCCAAGTAT
* *
98997578 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGC
1 CTTC-GGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGATCATAGCCCGGATATAGC
*
98997642 AACTCGCACAAATGC
65 AACTCACACAAATGC
* *
98997657 C-TCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGA-CATAGCCCGGATATA
1 CTTCGGATCTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTC-GGATCATAGCCCGGATATA
*
98997719 GCAACTCACACGAATGC
63 GCAACTCACACAAATGC
98997736 CTTCGGATCTTAGTCCGG
1 CTTCGGATCTTAG-CCGG
98997754 TTATCATCCG
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
77 3 0.04
78 6 0.07
79 57 0.68
80 18 0.21
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGATCATAGCCCGGATATAGCA
ACTCACACAAATGC
Found at i:99000373 original size:43 final size:43
Alignment explanation
Indices: 99000283--99000376 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
99000273 TTACACATCG
* * * *
99000283 GCATTGTATATGTGATTCGTGTAAGACCCTATCTAGAACAGTG
1 GCATTGTATATATGATTCATGTAAGACCATATCTAGAACAGTA
* *
99000326 GCATTG-ATATATGATTACATGTAAGACCATGTCTGGAA-AGATA
1 GCATTGTATATATGATT-CATGTAAGACCATATCTAGAACAG-TA
99000369 GCATTGTA
1 GCATTGTA
99000377 CGATATGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
42 11 0.26
43 30 0.71
44 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (43 bp):
GCATTGTATATATGATTCATGTAAGACCATATCTAGAACAGTA
Found at i:99001065 original size:2 final size:2
Alignment explanation
Indices: 99001058--99001084 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
99001048 GATTTTAGAG
99001058 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 T
99001085 GATAACCATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99006625 original size:190 final size:191
Alignment explanation
Indices: 99006299--99006679 Score: 656
Period size: 190 Copynumber: 2.0 Consensus size: 191
99006289 AAACGCCTTA
* * *
99006299 GAGCAATATTCACCACCATGATCAGTTTGGAAAGCCTAAATGGTCCTTCCCTTCTCATTTTCTAC
1 GAGCAATATTCACCACCACGATCAATTTGGAAAGCCTAAATGGTCCTTCCCTTCTCATTTTCAAC
* * * *
99006364 ATGAGCCTTGAAGTTTTTAAATGCACTAAAAGTCTTTGATTTTTCTTGTAAAAGGTAAACCTAAA
66 ACGAGCCTTGAAGTTTTTAAATGCACTAAAAGCCTTTGATTTTTCTTATAAAAGGTAAACCCAAA
*
99006429 TTTTACAAGAATAATCATCAATAAAGCTAATAAAATATCTTTTACCTCCATTAGAAATTGG
131 TTTTACAAGAATAATCATCAATAAAGCTAATAAAATATCTTTTACCTACATTAGAAATTGG
*
99006490 GAGCAATATTCACCACCACGATCAATTTGGAGAGCCT-AATGGTCCTTCCCTTCTCATTTTCAAC
1 GAGCAATATTCACCACCACGATCAATTTGGAAAGCCTAAATGGTCCTTCCCTTCTCATTTTCAAC
*
99006554 ACGAGCCTTGAAGTTTTTAAATGCACTAAAAGCCTTTGATTTTTCTTATAAAAGGTAAACCCAAG
66 ACGAGCCTTGAAGTTTTTAAATGCACTAAAAGCCTTTGATTTTTCTTATAAAAGGTAAACCCAAA
*
99006619 TTTTACAAGAATAATCATCAATAAAGGTAATAAAATATCTTTTACCTACATTAGAAATTGG
131 TTTTACAAGAATAATCATCAATAAAGCTAATAAAATATCTTTTACCTACATTAGAAATTGG
99006680 ATTTATTAGC
Statistics
Matches: 179, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
190 145 0.81
191 34 0.19
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (191 bp):
GAGCAATATTCACCACCACGATCAATTTGGAAAGCCTAAATGGTCCTTCCCTTCTCATTTTCAAC
ACGAGCCTTGAAGTTTTTAAATGCACTAAAAGCCTTTGATTTTTCTTATAAAAGGTAAACCCAAA
TTTTACAAGAATAATCATCAATAAAGCTAATAAAATATCTTTTACCTACATTAGAAATTGG
Found at i:99010246 original size:20 final size:21
Alignment explanation
Indices: 99010216--99010257 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
99010206 AACCTCTGCT
* *
99010216 TTTATTAAAAATTAGAAAAAA
1 TTTATTAAAAAATAAAAAAAA
99010237 TTTA-TAAAAAATAAAAAAAA
1 TTTATTAAAAAATAAAAAAAA
99010257 T
1 T
99010258 AAATTTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TTTATTAAAAAATAAAAAAAA
Found at i:99010567 original size:28 final size:28
Alignment explanation
Indices: 99010535--99010624 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
99010525 ATTTATATTT
99010535 CTTTACATTTTGTATAATTTTCTTACGA
1 CTTTACATTTTGTATAATTTTCTTACGA
* ** * ***
99010563 CTTTATAAAAATT-TAT-ATTTTTTATATTT
1 C-TT-TACATTTTGTATAATTTTCT-TACGA
99010592 CTTTACATTTTGTATAATTTTCTTACGA
1 CTTTACATTTTGTATAATTTTCTTACGA
99010620 CTTTA
1 CTTTA
99010625 TAAAAATTTA
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
27 5 0.12
28 19 0.44
29 14 0.33
30 5 0.12
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (28 bp):
CTTTACATTTTGTATAATTTTCTTACGA
Found at i:99010615 original size:21 final size:20
Alignment explanation
Indices: 99010531--99010611 Score: 55
Period size: 19 Copynumber: 4.2 Consensus size: 20
99010521 TGAAATTTAT
99010531 ATTTCTTTACATTTTGTATA
1 ATTTCTTTACATTTTGTATA
*
99010551 ATTT-TCTTACGA-CTT-TATA
1 ATTTCT-TTAC-ATTTTGTATA
*** * *
99010570 A-AAATTTATATTTTTTAT-
1 ATTTCTTTACATTTTGTATA
99010588 ATTTCTTTACATTTTGTATA
1 ATTTCTTTACATTTTGTATA
99010608 ATTT
1 ATTT
99010612 TCTTACGACT
Statistics
Matches: 44, Mismatches: 10, Indels: 14
0.65 0.15 0.21
Matches are distributed among these distances:
17 1 0.02
18 6 0.14
19 22 0.50
20 14 0.32
21 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTTCTTTACATTTTGTATA
Found at i:99010639 original size:28 final size:28
Alignment explanation
Indices: 99010551--99010640 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
99010541 ATTTTGTATA
99010551 ATTTTCTTACGACTTTATAAAAATTTAT
1 ATTTTCTTACGACTTTATAAAAATTTAT
* * * * **
99010579 ATTTT-TTA-TATTTCTTTACATTTTGTAT
1 ATTTTCTTACGACTT-TATAAAAATT-TAT
99010607 AATTTTCTTACGACTTTATAAAAATTTAT
1 -ATTTTCTTACGACTTTATAAAAATTTAT
99010636 ATTTT
1 ATTTT
99010641 TATATTTCTA
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
26 3 0.07
27 9 0.20
28 13 0.29
29 8 0.18
30 9 0.20
31 3 0.07
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (28 bp):
ATTTTCTTACGACTTTATAAAAATTTAT
Found at i:99010665 original size:28 final size:30
Alignment explanation
Indices: 99010634--99010699 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
99010624 ATAAAAATTT
* *
99010634 ATATTTTTAT-ATTTCTAT-ACATTTTATA
1 ATATTTTTATGATTTCTATAAAATTTTACA
*
99010662 ATATTTTTATGATTTTTATAAAATTTTACA
1 ATATTTTTATGATTTCTATAAAATTTTACA
*
99010692 ATTTTTTT
1 ATATTTTT
99010700 CTAATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 10 0.31
29 7 0.22
30 15 0.47
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (30 bp):
ATATTTTTATGATTTCTATAAAATTTTACA
Found at i:99010668 original size:56 final size:56
Alignment explanation
Indices: 99010512--99010658 Score: 249
Period size: 57 Copynumber: 2.6 Consensus size: 56
99010502 ATTTTTATAA
**
99010512 AAAAATTTATGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTAT
1 AAAAATTTAT-ATTTTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTAT
99010569 AAAAATTTATATTTTTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTAT
1 AAAAATTTATA-TTTTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTAT
*
99010626 AAAAATTTATATTTTTATATTTCTATACATTTT
1 AAAAATTTATATTTTTATATTTCTTTACATTTT
99010659 ATAATATTTT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
56 22 0.26
57 64 0.74
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (56 bp):
AAAAATTTATATTTTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTAT
Found at i:99010696 original size:56 final size:56
Alignment explanation
Indices: 99010526--99010697 Score: 233
Period size: 57 Copynumber: 3.1 Consensus size: 56
99010516 ATTTATGAAA
*
99010526 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAATTTATATTT
1 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAATTTA-AATT
*
99010583 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAATTTATATT
1 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAATTTAAATT
* * * *
99010639 TTTATATTTCTATACA-TTT-TATAATATTT-TTATGATTTTTATAAAATTTTACAATT
1 TTTATATTTCTTTACATTTTGTATAAT-TTTCTTACGA-CTTTATAAAAATTTA-AATT
99010695 TTT
1 TTT
99010698 TTCTAATTTT
Statistics
Matches: 105, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
54 11 0.10
55 19 0.18
56 23 0.22
57 52 0.50
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (56 bp):
TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAATTTAAATT
Found at i:99010699 original size:30 final size:28
Alignment explanation
Indices: 99010634--99010717 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
99010624 ATAAAAATTT
* * *
99010634 ATATTTTTATATTTCTATACATTTTATA
1 ATATTTTTATATTTTTATAAATTTTACA
99010662 ATATTTTTATGATTTTTATAAAATTTTACA
1 ATATTTTTAT-ATTTTTAT-AAATTTTACA
* * *
99010692 ATTTTTTTCTAATTTTTA-ATATTTTA
1 ATATTTTTAT-ATTTTTATAAATTTTA
99010718 ATTTTTATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 17 0.36
29 7 0.15
30 23 0.49
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (28 bp):
ATATTTTTATATTTTTATAAATTTTACA
Found at i:99010896 original size:90 final size:84
Alignment explanation
Indices: 99010800--99011015 Score: 254
Period size: 89 Copynumber: 2.5 Consensus size: 84
99010790 ATAAAAGAAA
* *
99010800 GGGCTTAATTGCTTTTTTCGAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTACAAGTATC
1 GGGCTTAATTGCTTTTTT-GAAAAATTTGAGGG-CTTTTTGATGCATTTTGAAAGTACAAATATC
*
99010865 CAATTGAGTGCAAAAAAAAAAGTAG
64 CAAATGAGTGC---AAAAAAA-TAG
* * ** *
99010890 GGGCTTAATTG-TTTTTTTAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAATATT
1 GGGCTTAATTGCTTTTTTGAAAA-ATTTGAGGG-CTTTTTGATGCATTTTGAAAGTACAAATATC
99010954 CAAATGAGTGCAAAAAAATAG
64 CAAATGAGTGCAAAAAAATAG
*
99010975 GGGCTTAATTACTTTTTTTGAAAAAATTTGAGGGCTTTTTG
1 GGGCTTAATTGC-TTTTTTG-AAAAATTTGAGGGCTTTTTG
99011016 TACCCTTAAG
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
85 13 0.12
86 14 0.13
87 14 0.13
88 8 0.07
89 51 0.46
90 11 0.10
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (84 bp):
GGGCTTAATTGCTTTTTTGAAAAATTTGAGGGCTTTTTGATGCATTTTGAAAGTACAAATATCCA
AATGAGTGCAAAAAAATAG
Found at i:99016922 original size:27 final size:28
Alignment explanation
Indices: 99016883--99016939 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
99016873 TATCTAAGCG
*
99016883 TTTTTCTTTTTCAATTTAGTACCTAAAC
1 TTTTTCTTGTTCAATTTAGTACCTAAAC
*
99016911 TTTTT-TTGTTCAATTTAGTACTTAAAC
1 TTTTTCTTGTTCAATTTAGTACCTAAAC
99016938 TT
1 TT
99016940 GTCAAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTTCTTGTTCAATTTAGTACCTAAAC
Found at i:99023026 original size:14 final size:14
Alignment explanation
Indices: 99023007--99023034 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
99022997 AAATATTTCT
99023007 TTCCACCTAATGTA
1 TTCCACCTAATGTA
99023021 TTCCACCTAATGTA
1 TTCCACCTAATGTA
99023035 GGAGTATTAT
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:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TTCCACCTAATGTA
Found at i:99024486 original size:23 final size:23
Alignment explanation
Indices: 99024456--99024499 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
99024446 TTAAAGTGTA
99024456 AATATGAAAAT-TTTGAAGGGAT
1 AATATGAAAATATTTGAAGGGAT
*
99024478 AATAGTGAAAATATTTTAAGGG
1 AATA-TGAAAATATTTGAAGGG
99024500 TGGAAGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (23 bp):
AATATGAAAATATTTGAAGGGAT
Found at i:99024776 original size:11 final size:11
Alignment explanation
Indices: 99024760--99024784 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99024750 ATATGATATT
99024760 TTATTATTTTA
1 TTATTATTTTA
99024771 TTATTATTTTA
1 TTATTATTTTA
99024782 TTA
1 TTA
99024785 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:99029712 original size:26 final size:26
Alignment explanation
Indices: 99029682--99029737 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
99029672 TGAAATTCCC
99029682 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99029708 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99029734 ATCA
1 ATCA
99029738 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99036401 original size:26 final size:26
Alignment explanation
Indices: 99036371--99036426 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
99036361 TGAAATTCCC
99036371 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99036397 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99036423 ATCA
1 ATCA
99036427 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99043409 original size:26 final size:26
Alignment explanation
Indices: 99043379--99043434 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
99043369 TGAAATTCCC
99043379 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99043405 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99043431 ATCA
1 ATCA
99043435 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99045234 original size:26 final size:24
Alignment explanation
Indices: 99045194--99045253 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
99045184 TTATGTCATT
* * *
99045194 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
99045218 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
99045244 AAATAAATAT
1 AAATAAATAT
99045254 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:99045265 original size:22 final size:22
Alignment explanation
Indices: 99045224--99045282 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
99045214 ATAATAAATC
* *
99045224 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
99045244 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
99045266 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
99045283 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:99047687 original size:43 final size:44
Alignment explanation
Indices: 99047619--99047783 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 44
99047609 AGCTCGAACA
* * * *
99047619 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATAT-CG
1 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATATACG
* * *
99047661 ATGCCACTGTCCCAGATAAAGG-CTTACACG-AATCA-ATATATG
1 ATGCCAATGTCCCAGAT-ATGGTCTTACACGTAATCACATATACG
* * *
99047703 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACA-ATACA
1 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATATACG
*
99047746 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA
99047784 ACTCAATAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
41 7 0.07
42 33 0.32
43 58 0.57
44 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (44 bp):
ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATATACG
Found at i:99048369 original size:15 final size:15
Alignment explanation
Indices: 99048349--99048380 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
99048339 TATAAAACAT
99048349 AATTGAAACTTTATA
1 AATTGAAACTTTATA
99048364 AATTGAAACTTTATA
1 AATTGAAACTTTATA
99048379 AA
1 AA
99048381 ATCATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
AATTGAAACTTTATA
Found at i:99055776 original size:49 final size:49
Alignment explanation
Indices: 99055713--99055819 Score: 196
Period size: 49 Copynumber: 2.2 Consensus size: 49
99055703 AATAAATAAA
99055713 TCATTTAATAAAATCATTCACATGCATTAATAAGGTTTGTGATCTTATT
1 TCATTTAATAAAATCATTCACATGCATTAATAAGGTTTGTGATCTTATT
*
99055762 TCATTTAATAAAATCATTCACATGCATTCATAAGGTTTGTGATCTTATT
1 TCATTTAATAAAATCATTCACATGCATTAATAAGGTTTGTGATCTTATT
*
99055811 TCATCTAAT
1 TCATTTAAT
99055820 TACAGGGTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (49 bp):
TCATTTAATAAAATCATTCACATGCATTAATAAGGTTTGTGATCTTATT
Found at i:99061303 original size:23 final size:23
Alignment explanation
Indices: 99061277--99061356 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
99061267 AAAAAATGAC
99061277 ATAATATAAAATAATTATAATAT
1 ATAATATAAAATAATTATAATAT
99061300 ATAATATGAAAGTATATATGTAT-ATA-
1 ATAATAT-AAA--ATA-AT-TATAATAT
99061326 AT-ATATATAAATAATTAATAAATAT
1 ATAATATA-AAATAATT-AT-AATAT
99061351 ATAATA
1 ATAATA
99061357 CATGTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 10 0.22
24 7 0.15
25 8 0.17
26 8 0.17
27 5 0.11
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAATATAAAATAATTATAATAT
Found at i:99061447 original size:7 final size:7
Alignment explanation
Indices: 99061418--99061474 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
99061408 TTGTGAAAAG
99061418 TAATATA
1 TAATATA
*
99061425 TAATAAA
1 TAATATA
**
99061432 TAGCA-A
1 TAATATA
99061438 TAATATA
1 TAATATA
*
99061445 TAATAAAA
1 TAAT-ATA
99061453 TAATTATA
1 TAA-TATA
99061461 TAATATA
1 TAATATA
99061468 TAATATA
1 TAATATA
99061475 AAAATAAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
6 4 0.10
7 25 0.62
8 10 0.25
9 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (7 bp):
TAATATA
Found at i:99061472 original size:18 final size:15
Alignment explanation
Indices: 99061436--99061474 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
99061426 AATAAATAGC
99061436 AATAATATATAATAA
1 AATAATATATAATAA
99061451 AATAATTATATAAT-A
1 AATAA-TATATAATAA
*
99061466 TATAATATA
1 AATAATATA
99061475 AAAATAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATATAATAA
Found at i:99066373 original size:2 final size:2
Alignment explanation
Indices: 99066366--99066400 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99066356 AACTTAACTA
99066366 AT AT AT AT 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 AT AT AT AT A
99066401 CCGATTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:99072341 original size:31 final size:31
Alignment explanation
Indices: 99072303--99072362 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
99072293 AAATTTTCCA
* *
99072303 GTGACCAAAATGAAAGCGACCTAGAAGTTGG
1 GTGACCAAAATGAAAACGACCTAAAAGTTGG
*
99072334 GTGACCAAAATGAAAACGCCCTAAAAGTT
1 GTGACCAAAATGAAAACGACCTAAAAGTT
99072363 TAGTGATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (31 bp):
GTGACCAAAATGAAAACGACCTAAAAGTTGG
Done.