Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 64 of 345
Found at i:17739439 original size:21 final size:21
Alignment explanation
Indices: 17739392--17739439 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17739382 GCCTAAAATG
*
17739392 TAAATTGGATTAAATTGAGTA
1 TAAATTGCATTAAATTGAGTA
*
17739413 TGAATTGCATTAAATTGATGT-
1 TAAATTGCATTAAATTGA-GTA
17739434 TAAATT
1 TAAATT
17739440 TACTTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.42
Consensus pattern (21 bp):
TAAATTGCATTAAATTGAGTA
Found at i:17739619 original size:14 final size:16
Alignment explanation
Indices: 17739592--17739622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17739582 AATTGTATGA
17739592 ATGTGATGGTATATAT
1 ATGTGATGGTATATAT
*
17739608 ATGTGATGATATATA
1 ATGTGATGGTATATA
17739623 AATCATATAT
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:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (16 bp):
ATGTGATGGTATATAT
Found at i:17743125 original size:39 final size:41
Alignment explanation
Indices: 17743064--17743145 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 41
17743054 CTAATCCCAT
* ** *
17743064 TACAGATTCAGATGTAGTTTA-GGCCTTAGCCTAT-TCAGA
1 TACAGATTCAGATATAAATTAGGGCCTTAGCCCATCTCAGA
*
17743103 TACAGTTTCAGATATAAATTAGGGCCTTAGCCCATCTCAGA
1 TACAGATTCAGATATAAATTAGGGCCTTAGCCCATCTCAGA
17743144 TA
1 TA
17743146 TAGTATGCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 17 0.47
40 12 0.33
41 7 0.19
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (41 bp):
TACAGATTCAGATATAAATTAGGGCCTTAGCCCATCTCAGA
Found at i:17747520 original size:27 final size:27
Alignment explanation
Indices: 17747490--17747687 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
17747480 TACTAAAATG
**
17747490 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
17747517 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
17747544 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
17747571 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17747598 CCCTCAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
17747625 TCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
17747652 CCCGC-AGTTTACAAAATTATCATTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
17747679 CCCTTGATT
1 CCCTCGATT
17747688 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:17747608 original size:81 final size:81
Alignment explanation
Indices: 17747490--17747682 Score: 264
Period size: 81 Copynumber: 2.4 Consensus size: 81
17747480 TACTAAAATG
* * *
17747490 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTA
*
17747555 CAAAATTA-TCGTTTTA
66 CAAAATTACT-ATTTTA
* *
17747571 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTATCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTA
17747636 CAAAATTACTATTTTA
66 CAAAATTACTATTTTA
* * * *
17747652 CCCGC-AGTTTACAAAATTATCATTTTACCCT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCT
17747683 TGATTGTGAA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
80 1 0.01
81 98 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACTATTTTA
Found at i:17747749 original size:27 final size:27
Alignment explanation
Indices: 17747719--17747894 Score: 230
Period size: 27 Copynumber: 6.5 Consensus size: 27
17747709 TGTAGGATAG
17747719 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
17747746 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
17747773 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
17747800 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
17747827 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
17747854 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
17747881 AATTA-CAGAAATAC
1 AATTACCA-AAATAC
17747895 TCTTGACTTT
Statistics
Matches: 131, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.04
27 122 0.93
28 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:17747947 original size:27 final size:27
Alignment explanation
Indices: 17747908--17747959 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17747898 TGACTTTCTA
17747908 AAAATTATGGAAATACAATTGGTTTAC
1 AAAATTATGGAAATACAATTGGTTTAC
**
17747935 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TGGAAATACAATTGGTTT
17747960 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACAATTGGTTTAC
Found at i:17748826 original size:20 final size:20
Alignment explanation
Indices: 17748785--17748871 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
17748775 GATATGATAT
*
17748785 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
* *
17748805 ACACGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
17748825 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
17748845 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
17748865 ACATGAT
1 ACATGAT
17748872 GTATTCATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:17748953 original size:26 final size:26
Alignment explanation
Indices: 17748921--17749043 Score: 203
Period size: 26 Copynumber: 4.8 Consensus size: 26
17748911 GAGGAAGTGC
**
17748921 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
17748947 AAGAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17748973 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17748999 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17749025 AAAAGGGCTT-TGCCCCAGT
1 AAAAGGGCTTATGCCCCAGT
17749044 ATTAAAAGAG
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 9 0.10
26 84 0.90
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:17749236 original size:42 final size:42
Alignment explanation
Indices: 17749189--17749280 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
17749179 TATTCTCCCC
* ** *
17749189 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
17749231 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
17749273 AAATGGGC
1 AAATGGGC
17749281 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:17749339 original size:31 final size:31
Alignment explanation
Indices: 17749304--17749413 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
17749294 CGTTTACAGT
*
17749304 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17749335 AAAGGCTTCGGCCCAGAGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
17749366 AAAGGCTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17749397 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
17749414 AACCGTTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:17759384 original size:22 final size:22
Alignment explanation
Indices: 17759356--17759432 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
17759346 GCTAAAAACG
17759356 GTAAGCTCTATTGAGCTGAATA
1 GTAAGCTCTATTGAGCTGAATA
*
17759378 GTAAGCTCT-TTCGAGCTGAATCG
1 GTAAGCTCTATT-GAGCTGAAT-A
* * *
17759401 GTAAGTTCCAATGAGCTGAAATA
1 GTAAGCTCTATTGAGCTG-AATA
17759424 GTAAGCTCT
1 GTAAGCTCT
17759433 TACAAGCTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.05
22 18 0.41
23 20 0.45
24 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAATA
Found at i:17759416 original size:45 final size:47
Alignment explanation
Indices: 17759331--17759433 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 47
17759321 GCTGATAAAC
* * * *
17759331 AGTAAGCTCTATCGGGCTAAAAACGGTAAGCTCTATTGAGCTG-AAT
1 AGTAAGCTCTTTCGAGCTAAAAACGGTAAGCTCCAATGAGCTGAAAT
* * *
17759377 AGTAAGCTCTTTCGAGCT-GAATCGGTAAGTTCCAATGAGCTGAAAT
1 AGTAAGCTCTTTCGAGCTAAAAACGGTAAGCTCCAATGAGCTGAAAT
17759423 AGTAAGCTCTT
1 AGTAAGCTCTT
17759434 ACAAGCTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
45 19 0.39
46 30 0.61
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (47 bp):
AGTAAGCTCTTTCGAGCTAAAAACGGTAAGCTCCAATGAGCTGAAAT
Found at i:17763279 original size:19 final size:17
Alignment explanation
Indices: 17763255--17763291 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
17763245 TAGTTAAATG
17763255 ATAAAATAATACAAAGAAA
1 ATAAAAT-ATA-AAAGAAA
17763274 ATAAAATATAAAAGAAA
1 ATAAAATATAAAAGAAA
17763291 A
1 A
17763292 ACAAAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
ATAAAATATAAAAGAAA
Found at i:17764119 original size:40 final size:40
Alignment explanation
Indices: 17764067--17764147 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
17764057 AATTATGGGA
* * * *
17764067 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTAAATATTGTTATGAATACTGAATTGAACCGTAAAAT
* *
17764107 TACTAAATATTGTTATGTATACTGCATTGAACCGTAAAAT
1 TACTAAATATTGTTATGAATACTGAATTGAACCGTAAAAT
17764147 T
1 T
17764148 TCTGATGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (40 bp):
TACTAAATATTGTTATGAATACTGAATTGAACCGTAAAAT
Found at i:17766131 original size:21 final size:22
Alignment explanation
Indices: 17766106--17766164 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
17766096 CAAAACACAT
* *
17766106 TAATATTATACATACAGTA-AA
1 TAATAATATAAATACAGTACAA
* *
17766127 TAATAAGATAAATATAGTACAA
1 TAATAATATAAATACAGTACAA
*
17766149 TAATAATATAATTACA
1 TAATAATATAAATACA
17766165 ATAAAAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (22 bp):
TAATAATATAAATACAGTACAA
Found at i:17766377 original size:20 final size:20
Alignment explanation
Indices: 17766352--17766394 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
17766342 TCAACATTTC
17766352 AATAAATCAAAAA-AAATTCA
1 AATAAATCAAAAACAAATT-A
17766372 AATAAATCAAAAACAAATTA
1 AATAAATCAAAAACAAATTA
17766392 AAT
1 AAT
17766395 TACATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAATCAAAAACAAATTA
Found at i:17766512 original size:104 final size:102
Alignment explanation
Indices: 17766404--17766660 Score: 293
Period size: 104 Copynumber: 2.4 Consensus size: 102
17766394 TTACATTACA
* * * * *
17766404 AAAAAATCACAATAAACAGTAAACTAAAC-CTAAACAATTTGTAGCCTAATAATAAATTACTAAC
1 AAAAAATCAAAATAAACACTAAACTAAACAC-AAACAATTTATAACATAATAATAAATTACTAAC
*
17766468 AAAATAACTTTAAAAATAATTTTAAAAAATTTAGATTCAT
65 AAAATAACTTT--AAATAATTTAAAAAAATTTAGATTCAT
* *
17766508 AAAAAATCAAAATAAACACTAAACTAAACACAAATAATTTATAACATAATCATAAATTACTAACA
1 AAAAAATCAAAATAAACACTAAACTAAACACAAACAATTTATAACATAATAATAAATTACTAACA
* *
17766573 AAATAACTTTAAATAATTTAAAAAAAACAAAAAATTACATTCAT
66 AAATAACTTTAAATAATTT------AA-AAAAATTTAGATTCAT
* *
17766617 AAAAAATTACAAA-AAACACTAAATTAAACACAAACAATTTATAA
1 AAAAAATCA-AAATAAACACTAAACTAAACACAAACAATTTATAA
17766661 TAATTACTAA
Statistics
Matches: 131, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
102 9 0.07
104 66 0.50
105 1 0.01
108 1 0.01
109 51 0.39
110 3 0.02
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.26
Consensus pattern (102 bp):
AAAAAATCAAAATAAACACTAAACTAAACACAAACAATTTATAACATAATAATAAATTACTAACA
AAATAACTTTAAATAATTTAAAAAAATTTAGATTCAT
Found at i:17766739 original size:26 final size:30
Alignment explanation
Indices: 17766710--17766770 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 30
17766700 ACATAAAAAA
*
17766710 ACTAATCCCTTC-TA-TTT-AAAAA-AATT
1 ACTAATCCCTTCAAATTTTAAAAAATAATT
17766736 ACTAATCCCTTCAAATTTTAAAAAATAATT
1 ACTAATCCCTTCAAATTTTAAAAAATAATT
17766766 ACTAA
1 ACTAA
17766771 CAAACATACC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 12 0.40
27 1 0.03
28 3 0.10
29 5 0.17
30 9 0.30
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTAATCCCTTCAAATTTTAAAAAATAATT
Found at i:17766761 original size:27 final size:25
Alignment explanation
Indices: 17766703--17766762 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
17766693 GAAAATAACA
*
17766703 TAAAAAA-ACTAATCCCTTCTATTT
1 TAAAAAATACTAATCCCTTCAATTT
*
17766727 AAAAAAATTACTAATCCCTTCAAATTT
1 TAAAAAA-TACTAATCCCTTC-AATTT
17766754 TAAAAAATA
1 TAAAAAATA
17766763 ATTACTAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
26 14 0.47
27 10 0.33
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAAAATACTAATCCCTTCAATTT
Found at i:17772179 original size:42 final size:42
Alignment explanation
Indices: 17772116--17772279 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
17772106 CTTCGTTTTC
** *
17772116 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
17772159 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
17772200 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
17772249 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
17772280 GAATCACATA
Statistics
Matches: 106, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 37 0.35
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:17772259 original size:49 final size:48
Alignment explanation
Indices: 17772186--17772291 Score: 176
Period size: 49 Copynumber: 2.2 Consensus size: 48
17772176 TATGGTCTTA
* *
17772186 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACATAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
17772236 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
17772284 CACATATC
1 CACATATC
17772292 TCACTGATGT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 11 0.20
49 37 0.69
50 6 0.11
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:17772425 original size:31 final size:31
Alignment explanation
Indices: 17772390--17772538 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
17772380 CTTGTCACTT
*
17772390 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
17772421 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17772452 GTAGTC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
17772483 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
17772514 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
17772539 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
31 104 0.99
32 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:17772688 original size:50 final size:50
Alignment explanation
Indices: 17772514--17772690 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
17772504 CACTGATCAG
* *
17772514 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
17772565 GTAGCCGAAGCTATCACTTATCATTTTCACTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
17772615 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
17772665 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
17772691 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 93 0.80
51 23 0.20
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:17775857 original size:25 final size:25
Alignment explanation
Indices: 17775824--17775872 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
17775814 ATTTGCCCGG
17775824 CCCGCTTACAACCCCTAAACCCAAT
1 CCCGCTTACAACCCCTAAACCCAAT
* *
17775849 CCCGTTTACAGCCCCTAAACCCAA
1 CCCGCTTACAACCCCTAAACCCAA
17775873 CACCCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.47, G:0.06, T:0.16
Consensus pattern (25 bp):
CCCGCTTACAACCCCTAAACCCAAT
Found at i:17778867 original size:132 final size:132
Alignment explanation
Indices: 17778628--17778885 Score: 331
Period size: 132 Copynumber: 2.0 Consensus size: 132
17778618 TAAAAATTCC
* ** * * *
17778628 TTAAAATGGAGGCGATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACCGTGCTTGGTTGC
1 TTAAAATGAAGGAAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTACCGTGCTGGGTTGC
* * * * * **
17778693 AATTTCTCTGTTGCCCAAAATAATTGAATGTCTCTTTAGAATTTCATTTGTGTTTTCTAAAAACT
66 AATCTCCCTGTTGCCCAAAATAATCGAATATCCCTTTAGAATTTCATCCGTGTTTTCTAAAAACT
17778758 TT
131 TT
*
17778760 TTAAAATGAAGGAAATGTTCGATG-TTGAGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTG
1 TTAAAATGAAGGAAATGTTCGATGTTTG-GAAATTCGGGGAATAGTGCCCTACCGTGCTGGGTTG
** *
17778824 CAATCTCCCAT-TTGTTCAAAATAATCGAATATCCCTTTGGAATTTCATCCGTGTTTTCTAAA
65 CAATCTCCC-TGTTGCCCAAAATAATCGAATATCCCTTTAGAATTTCATCCGTGTTTTCTAAA
17778886 GGCGAGGCAA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
131 3 0.03
132 103 0.96
133 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (132 bp):
TTAAAATGAAGGAAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTACCGTGCTGGGTTGC
AATCTCCCTGTTGCCCAAAATAATCGAATATCCCTTTAGAATTTCATCCGTGTTTTCTAAAAACT
TT
Found at i:17780198 original size:75 final size:74
Alignment explanation
Indices: 17780111--17780279 Score: 190
Period size: 75 Copynumber: 2.3 Consensus size: 74
17780101 GTTTTCCTCA
* * **
17780111 TTGAAATACCATACCTACATTTTTCA-A-CTCGGTATGGGA-AATGCCATACCTACAATTCTTAA
1 TTGAAATACCATACCTACA--TTTCAGAGCTCAGTAT-GGATAATACCATACCTACAATTCACAA
17780173 CTCAGTATGGAT
63 CTCAGTATGGAT
* *
17780185 TTGATAATACCATACCTACATTTCAGAGCTTAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCAGAGCTCAGTATGGATAATACCATACCTACAATTCACAACT
17780250 CAGTATGGA-
65 CAGTATGGAT
*
17780259 -TG--ATACCATAACTACATTTCA
1 TTGAAATACCATACCTACATTTCA
17780280 CACTTTTCCA
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
70 18 0.21
73 7 0.08
74 8 0.10
75 51 0.61
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCAGAGCTCAGTATGGATAATACCATACCTACAATTCACAACTC
AGTATGGAT
Found at i:17780275 original size:35 final size:35
Alignment explanation
Indices: 17780115--17780281 Score: 165
Period size: 35 Copynumber: 4.6 Consensus size: 35
17780105 TCCTCATTGA
** *
17780115 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* * **
17780150 AATGCCATACCTACAATTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
* * *
17780190 AATACCATACCTACATTTCAGAGCTTAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17780225 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
17780260 GATACCATAACTACATTTCACA
1 AATACCATACCTACATTTCACA
17780282 CTTTTCCATG
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
35 83 0.75
39 3 0.03
40 25 0.23
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17786897 original size:27 final size:27
Alignment explanation
Indices: 17786865--17786925 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 27
17786855 TTTTGCAATC
17786865 ACAAAGTAAATCCACCCTTGAAATCAA
1 ACAAAGTAAATCCACCCTTGAAATCAA
17786892 ACAAAGTAAATCCACCCTTGAAATCAA
1 ACAAAGTAAATCCACCCTTGAAATCAA
17786919 ACGAAAG
1 AC-AAAG
17786926 CAAGATAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.49, C:0.25, G:0.10, T:0.16
Consensus pattern (27 bp):
ACAAAGTAAATCCACCCTTGAAATCAA
Found at i:17787066 original size:15 final size:15
Alignment explanation
Indices: 17787046--17787074 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17787036 ATAGCCAAAT
17787046 AAGAAAAATACAATA
1 AAGAAAAATACAATA
17787061 AAGAAAAATACAAT
1 AAGAAAAATACAAT
17787075 CTTTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
AAGAAAAATACAATA
Found at i:17788330 original size:13 final size:14
Alignment explanation
Indices: 17788304--17788332 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17788294 ACTAATGACG
17788304 AATTAAACCATTAT
1 AATTAAACCATTAT
17788318 AATTAAA-CATTAT
1 AATTAAACCATTAT
17788331 AA
1 AA
17788333 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:17789287 original size:17 final size:18
Alignment explanation
Indices: 17789252--17789293 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
17789242 AATCTTCTCT
*
17789252 ATAACATACCCATATGAA
1 ATAACATACCCAAATGAA
17789270 ATAACATA-CCAAATGAA
1 ATAACATACCCAAATGAA
*
17789287 ACAACAT
1 ATAACAT
17789294 GAAGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.55, C:0.21, G:0.05, T:0.19
Consensus pattern (18 bp):
ATAACATACCCAAATGAA
Found at i:17791191 original size:38 final size:36
Alignment explanation
Indices: 17791116--17791195 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 36
17791106 CTCGGCCCAC
* *
17791116 ACCATAAACTTAACATACTATACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTATACCATTAAACCCTAA
*
17791152 ACCATAAACTTAAAATA-TATTCTACCATTAAACCTTAA
1 ACCATAAACTTAAAATACTA---TACCATTAAACCCTAA
17791190 ACCATA
1 ACCATA
17791196 GGCCTTAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 2 0.05
36 16 0.42
38 20 0.53
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (36 bp):
ACCATAAACTTAAAATACTATACCATTAAACCCTAA
Found at i:17791351 original size:7 final size:7
Alignment explanation
Indices: 17791339--17791410 Score: 54
Period size: 7 Copynumber: 10.1 Consensus size: 7
17791329 ATTTTTTTAG
17791339 AGGGTTT
1 AGGGTTT
17791346 AGGGTTTT
1 AGGG-TTT
*
17791354 AGAGTTT
1 AGGGTTT
* *
17791361 ATGGATT
1 AGGGTTT
*
17791368 AGTGTTT
1 AGGGTTT
*
17791375 ATGGTTT
1 AGGGTTT
* *
17791382 ATGATTT
1 AGGGTTT
**
17791389 AGAATTT
1 AGGGTTT
17791396 AGGGTTT
1 AGGGTTT
17791403 AGGGTTT
1 AGGGTTT
17791410 A
1 A
17791411 ATGTTTAAGA
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 44 0.88
8 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
AGGGTTT
Found at i:17791390 original size:21 final size:21
Alignment explanation
Indices: 17791351--17791417 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
17791341 GGTTTAGGGT
*
17791351 TTTAGAGTTTATGGA-TTAGTG
1 TTTAGGGTTTAT-GATTTAGTG
* **
17791372 TTTATGGTTTATGATTTAGAA
1 TTTAGGGTTTATGATTTAGTG
* * *
17791393 TTTAGGGTTTAGGGTTTAATG
1 TTTAGGGTTTATGATTTAGTG
17791414 TTTA
1 TTTA
17791418 AGATTTAAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTATGATTTAGTG
Found at i:17791818 original size:41 final size:40
Alignment explanation
Indices: 17791721--17792133 Score: 445
Period size: 41 Copynumber: 10.2 Consensus size: 40
17791711 AACTTTTTGC
*
17791721 GGCGTTTGGACCAAAAACACCGCTATTGATCAG-TTTTAGT
1 GGCGTTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
17791761 GGCGTTTGGACCAAAAACGCTGCTGTTGCTCAGTTTTTAGT
1 GGCGTTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * ** *
17791802 GGCATTTTATG-TAAAAACGCTACTATTGATCAGGTTTTAGT
1 GGC-GTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
17791843 GGCGTTTAGGCAAAAAATGCAGCTCTTGATCAGTTTTTAGT
1 GGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
17791884 GGCGTTTGGGCCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
17791925 GGCGTTTGGCCAAAAACGCTGCTATTCATAAGTTTTTAGT
1 GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
17791965 GGCGTTTGGGCTAAAAACGCCGCAATTGATCAGTTTTTAGT
1 GGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
**
17792006 GGCACTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
17792046 GGCATTTGGGCTAAAAACGCCGCTATTGATAAG-TTTTAGT
1 GGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * * *
17792086 GGCGTTTTGGCCAAAAACACTGCTTTTGTTCAGTTTTTTGC
1 GGCG-TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
17792127 GGCGTTT
1 GGCGTTT
17792134 TTAATTAAAC
Statistics
Matches: 316, Mismatches: 49, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
40 140 0.44
41 172 0.54
42 3 0.01
43 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:17791828 original size:81 final size:80
Alignment explanation
Indices: 17791721--17792133 Score: 495
Period size: 81 Copynumber: 5.1 Consensus size: 80
17791711 AACTTTTTGC
* * * *
17791721 GGCGTTTGGACCAAAAACACCGCTATTGATCAGTTTTAGTGGCGTTTGGACCAAAAACGCTGCTG
1 GGCGTTTGGGCTAAAAACGCCGCTATTGATCAGTTTTAGTGGCGTTTGG-CCAAAAACGCTGCTA
*
17791786 TTGCTCAGTTTTTAGT
65 TTGATCAGTTTTTAGT
* ** ** * * *
17791802 GGCATTTTATG-TAAAAACGCTACTATTGATCAGGTTTTAGTGGCGTTTAGGCAAAAAATGCAGC
1 GGC-GTTTGGGCTAAAAACGCCGCTATTGATCA-GTTTTAGTGGCGTTT-GGCCAAAAACGCTGC
*
17791866 TCTTGATCAGTTTTTAGT
63 TATTGATCAGTTTTTAGT
* *
17791884 GGCGTTTGGGCCAAAAACGCCGCTATTAATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCTGCTA
1 GGCGTTTGGGCTAAAAACGCCGCTATTGATCAG-TTTTAGTGGCGTTTGGCCAAAAACGCTGCTA
* *
17791949 TTCATAAGTTTTTAGT
65 TTGATCAGTTTTTAGT
* ** *
17791965 GGCGTTTGGGCTAAAAACGCCGCAATTGATCAGTTTTTAGTGGCACTTGGCCAAAAACGCCGCTA
1 GGCGTTTGGGCTAAAAACGCCGCTATTGATCAG-TTTTAGTGGCGTTTGGCCAAAAACGCTGCTA
17792030 TTGATCAGTTTTTAGT
65 TTGATCAGTTTTTAGT
* * * *
17792046 GGCATTTGGGCTAAAAACGCCGCTATTGATAAGTTTTAGTGGCGTTTTGGCCAAAAACACTGCTT
1 GGCGTTTGGGCTAAAAACGCCGCTATTGATCAGTTTTAGTGGCG-TTTGGCCAAAAACGCTGCTA
* * *
17792111 TTGTTCAGTTTTTTGC
65 TTGATCAGTTTTTAGT
17792127 GGCGTTT
1 GGCGTTT
17792134 TTAATTAAAC
Statistics
Matches: 280, Mismatches: 46, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
80 10 0.04
81 190 0.68
82 78 0.28
83 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (80 bp):
GGCGTTTGGGCTAAAAACGCCGCTATTGATCAGTTTTAGTGGCGTTTGGCCAAAAACGCTGCTAT
TGATCAGTTTTTAGT
Found at i:17792278 original size:35 final size:35
Alignment explanation
Indices: 17792200--17792270 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
17792190 ATATATAAAC
*
17792200 TCAATATAAACTCACATGCAACCAAATACACATGT
1 TCAATATAAACTCACATGCAACCAAATACACAAGT
* * * *
17792235 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACATGCAACCAAATACACAAGT
17792270 T
1 T
17792271 TGATATAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.27
Consensus pattern (35 bp):
TCAATATAAACTCACATGCAACCAAATACACAAGT
Found at i:17793092 original size:21 final size:21
Alignment explanation
Indices: 17793058--17793100 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17793048 ATACTCGTAC
*
17793058 TAGTCCATATATTTCA-TATTT
1 TAGTCCATAAATTT-ATTATTT
*
17793079 TAGTCCCTAAATTTATTATTT
1 TAGTCCATAAATTTATTATTT
17793100 T
1 T
17793101 TGCAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (21 bp):
TAGTCCATAAATTTATTATTT
Found at i:17793437 original size:3 final size:3
Alignment explanation
Indices: 17793429--17793468 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
17793419 TGGCTTTCTT
17793429 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17793469 ATGTTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17795834 original size:25 final size:25
Alignment explanation
Indices: 17795795--17795856 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
17795785 AGAAAAAAAT
*
17795795 TTTATTAAGTTTAATAA--TTATTTAA
1 TTTATT-ATTTTAATAATGTTA-TTAA
17795820 TATTATTATTTTAATAATGTTATTAA
1 T-TTATTATTTTAATAATGTTATTAA
17795846 TTTATTATTTT
1 TTTATTATTTT
17795857 TTATACTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 20 0.61
26 10 0.30
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTATTATTTTAATAATGTTATTAA
Found at i:17795945 original size:21 final size:21
Alignment explanation
Indices: 17795871--17795949 Score: 77
Period size: 21 Copynumber: 3.6 Consensus size: 21
17795861 ACTTAAAATT
*
17795871 TTTAATAATTTTGAAATTAAG
1 TTTAATAATTTTGAAATTATG
* * *
17795892 TTTCATAATTTTTTAATATTATTA
1 TTTAATAA-TTTTGAA-ATTA-TG
*
17795916 TTTGAATAATTCTGAAATTATG
1 TTT-AATAATTTTGAAATTATG
17795938 TTTAATAATTTT
1 TTTAATAATTTT
17795950 TTAATATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 15 0.33
22 10 0.22
23 8 0.18
24 8 0.18
25 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTAATAATTTTGAAATTATG
Found at i:17795967 original size:25 final size:25
Alignment explanation
Indices: 17795896--17795990 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
17795886 ATTAAGTTTC
*
17795896 ATAATTTTTTAATATTATTATTTGA
1 ATAATTTTTTAATATTATTATTTTA
* * *
17795921 ATAA-TTCTGAA-ATTA-T-GTTTA
1 ATAATTTTTTAATATTATTATTTTA
17795942 ATAATTTTTTAATATTATTATTTTA
1 ATAATTTTTTAATATTATTATTTTA
*
17795967 ATAATGTTATTAAT-TTATTATTTT
1 ATAAT-TTTTTAATATTATTATTTT
17795991 TTATGCTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.12
22 6 0.11
23 8 0.14
24 6 0.11
25 23 0.40
26 7 0.12
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (25 bp):
ATAATTTTTTAATATTATTATTTTA
Found at i:17796057 original size:87 final size:88
Alignment explanation
Indices: 17795920--17796145 Score: 341
Period size: 87 Copynumber: 2.6 Consensus size: 88
17795910 TTATTATTTG
* *
17795920 AATAATTCTGAAATTATGTTTAATAATTTTTTAATATTATTATTTTAATAATGT-T-ATTAATTT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAAT-TCTGA-TAATTT
17795983 ATTATTTTTTATGCTTAAATTTTTT
64 ATTATTTTTTATGCTTAAATTTTTT
17796008 AATAATTTTGAAATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAATTCTGATAATTTAT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAATTCTGATAATTTAT
*
17796072 TATTTTTTATGCTTAGATTTTTT
66 TATTTTTTATGCTTAAATTTTTT
* * * * *
17796095 AATATTTTTAAAATTAAGTCTAATAATTTTTTAGTATTATTAATTTAATAA
1 AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAA
17796146 ATTTTTATTG
Statistics
Matches: 127, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.01
87 79 0.62
88 47 0.37
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (88 bp):
AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAATTCTGATAATTTAT
TATTTTTTATGCTTAAATTTTTT
Found at i:17796127 original size:134 final size:133
Alignment explanation
Indices: 17795804--17796063 Score: 414
Period size: 134 Copynumber: 2.0 Consensus size: 133
17795794 TTTTATTAAG
* * *
17795804 TTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATACTTAAAA
1 TTTAATAATTTTTTAATATTATTATTTTAATAATGTTATTAATTAATAATTTTTTATACTTAAAA
*
17795869 TTTTTAATAATTTTGAAATTAAGTTTCATAATTTTTTAATATTATTATTTGAATAATTCTGAAAT
66 TTTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCTG-AAT
*
17795934 TATG
130 TATA
* * * *
17795938 TTTAATAATTTTTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATGCTTAAAT
1 TTTAATAATTTTTTAATATTATTATTTTAATAATGTTATTAATTAATAATTTTTTATACTTAAAA
*
17796003 TTTTTAATAATTTTGAAATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAATTCTGA
66 TTTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCTGA
17796064 TAATTTATTA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
132 1 0.01
133 28 0.23
134 92 0.76
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (133 bp):
TTTAATAATTTTTTAATATTATTATTTTAATAATGTTATTAATTAATAATTTTTTATACTTAAAA
TTTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCTGAATT
ATA
Found at i:17799413 original size:3 final size:3
Alignment explanation
Indices: 17799407--17799454 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
17799397 TAACATTTTT
17799407 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
17799454 T
1 T
17799455 CTCTCTGCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:17801733 original size:21 final size:22
Alignment explanation
Indices: 17801692--17801733 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17801682 TGTATAACAG
*
17801692 TTTTATGCAAAATATTACATTT
1 TTTTATGCAAAACATTACATTT
*
17801714 TTTTATTCAAAACATT-CATT
1 TTTTATGCAAAACATTACATT
17801734 GAAAAAGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTATGCAAAACATTACATTT
Found at i:17808149 original size:19 final size:18
Alignment explanation
Indices: 17808125--17808160 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17808115 TGCTACAGCC
17808125 AATTAAATTGCTTTTAGCT
1 AATTAAATTG-TTTTAGCT
*
17808144 AATTAATTTGTTTTAGC
1 AATTAAATTGTTTTAGC
17808161 ACCTACAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (18 bp):
AATTAAATTGTTTTAGCT
Found at i:17809348 original size:6 final size:6
Alignment explanation
Indices: 17809334--17809372 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
17809324 TTGGAAATGG
* *
17809334 AAAGGA AAAGGA AAAGCA AAAGCA AAAGCA AAAGCA AAA
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAA
17809373 ATTTTCGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.69, C:0.10, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:17811791 original size:3 final size:3
Alignment explanation
Indices: 17811717--17811775 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
17811707 CTTTATAAAA
17811717 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17811765 TAT TAT TAT TA
1 TAT TAT TAT TA
17811776 GTATATGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17811941 original size:18 final size:17
Alignment explanation
Indices: 17811906--17811945 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17811896 GTTATGTGTA
*
17811906 TATGTTTTTTTTAATAT
1 TATGTTTTTTATAATAT
*
17811923 TATGTTTTTATATACTAT
1 TATGTTTTT-TATAATAT
17811941 TATGT
1 TATGT
17811946 ATATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (17 bp):
TATGTTTTTTATAATAT
Found at i:17811970 original size:22 final size:23
Alignment explanation
Indices: 17811928--17812004 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
17811918 AATATTATGT
17811928 TTTTATATACTATTATGTATATA
1 TTTTATATACTATTATGTATATA
*
17811951 TTTTA-ATATTATTA-GTTATATA
1 TTTTATATACTATTATG-TATATA
*
17811973 CCTTT-TATACTATTGTATGTATAT-
1 -TTTTATATACTA-T-TATGTATATA
*
17811997 TTCTATAT
1 TTTTATAT
17812005 TGTATATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
21 1 0.02
22 14 0.33
23 15 0.36
24 4 0.10
25 7 0.17
26 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTATATACTATTATGTATATA
Found at i:17816418 original size:5 final size:5
Alignment explanation
Indices: 17816410--17816434 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17816400 ATTTCATCTC
17816410 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
17816435 AATGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:17817319 original size:27 final size:27
Alignment explanation
Indices: 17817289--17817400 Score: 88
Period size: 30 Copynumber: 4.1 Consensus size: 27
17817279 ACACATCATC
17817289 AATTAATTAATTTTTTAAAAATATTAA
1 AATTAATTAATTTTTTAAAAATATTAA
*
17817316 AATTAATATAATTTTTTAAATAAT-TT-T
1 AATTAAT-TAATTTTTTAAA-AATATTAA
* *
17817343 AATGACTT-ATTTTTTAAAAATAGTTTTTAA
1 AATTAATTAATTTTTTAAAAATA----TTAA
* * *
17817373 AATT-TTTAAATTTTTAAAAATTTTAA
1 AATTAATTAATTTTTTAAAAATATTAA
17817399 AA
1 AA
17817401 ATTTTAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
24 3 0.04
25 10 0.15
26 7 0.10
27 12 0.18
28 14 0.21
29 7 0.10
30 15 0.22
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (27 bp):
AATTAATTAATTTTTTAAAAATATTAA
Found at i:17817335 original size:28 final size:28
Alignment explanation
Indices: 17817289--17817344 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
17817279 ACACATCATC
17817289 AATTAATTAATTTTTTAAA-AATATTAA
1 AATTAATTAATTTTTTAAATAATATTAA
*
17817316 AATTAATATAATTTTTTAAATAATTTTAA
1 AATTAAT-TAATTTTTTAAATAATATTAA
17817345 TGACTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 12 0.46
29 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AATTAATTAATTTTTTAAATAATATTAA
Found at i:17817418 original size:10 final size:9
Alignment explanation
Indices: 17817366--17817411 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
17817356 TTAAAAATAG
*
17817366 TTTTTAAAA
1 TTTTAAAAA
* *
17817375 TTTTTAAAT
1 TTTTAAAAA
17817384 TTTTAAAAA
1 TTTTAAAAA
17817393 TTTTAAAAA
1 TTTTAAAAA
17817402 TTTTAAAAA
1 TTTTAAAAA
17817411 T
1 T
17817412 AATTAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:17818683 original size:3 final size:3
Alignment explanation
Indices: 17818675--17818735 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
17818665 ACAGTACACG
* *
17818675 AGA AGA AGA AGA AGA AGA AGG AGA AGA AGA AAA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
17818723 AGA AGA AGA AGA A
1 AGA AGA AGA AGA A
17818736 ACAAGGGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:17822461 original size:43 final size:43
Alignment explanation
Indices: 17822400--17822483 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
17822390 CTAATTCTAT
17822400 CTAGTGCCATCCCACTCTAACAAAATAAAATTGCCTCCTTTAC
1 CTAGTGCCATCCCACTCTAACAAAATAAAATTGCCTCCTTTAC
17822443 CTAGTGCCATCCCACTCTAACAAAATAAAATTGCCTCCTTT
1 CTAGTGCCATCCCACTCTAACAAAATAAAATTGCCTCCTTT
17822484 CTTTCGAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (43 bp):
CTAGTGCCATCCCACTCTAACAAAATAAAATTGCCTCCTTTAC
Found at i:17837643 original size:24 final size:25
Alignment explanation
Indices: 17837595--17837695 Score: 75
Period size: 24 Copynumber: 4.1 Consensus size: 25
17837585 TTCCAAGCCA
* *
17837595 AATAACAGAAAGCTCATGTGAGCTT
1 AATAACAGGAAGCTCATCTGAGCTT
* * *
17837620 -GTAACAGGAAGCTTATCTGGGCTT
1 AATAACAGGAAGCTCATCTGAGCTT
* **
17837644 AATAATAGGAAGCTCATAAGAGCTT
1 AATAACAGGAAGCTCATCTGAGCTT
*
17837669 AAGT--CAGAAAGCTCATGC-GAGCTT
1 AA-TAACAGGAAGCTCAT-CTGAGCTT
17837693 AAT
1 AAT
17837696 GGGTAACTCC
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 1 0.02
24 37 0.63
25 20 0.34
26 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (25 bp):
AATAACAGGAAGCTCATCTGAGCTT
Found at i:17837910 original size:24 final size:23
Alignment explanation
Indices: 17837883--17837934 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
17837873 GTATCAGAAA
* *
17837883 GCTCAAGAGAGCTTATATCGGGAT
1 GCTCAAGAGAGC-TATAACGGGAC
* *
17837907 GCTCATGTGAGCTATAACGGGAC
1 GCTCAAGAGAGCTATAACGGGAC
17837930 GCTCA
1 GCTCA
17837935 TACGAGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (23 bp):
GCTCAAGAGAGCTATAACGGGAC
Found at i:17837927 original size:23 final size:23
Alignment explanation
Indices: 17837891--17837944 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
17837881 AAGCTCAAGA
* * **
17837891 GAGCTTATATCGGGATGCTCATGT
1 GAGC-TATAACGGGACGCTCATAC
17837915 GAGCTATAACGGGACGCTCATAC
1 GAGCTATAACGGGACGCTCATAC
17837938 GAGCTAT
1 GAGCTAT
17837945 GGTGTGTTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (23 bp):
GAGCTATAACGGGACGCTCATAC
Found at i:17854991 original size:26 final size:26
Alignment explanation
Indices: 17854944--17854993 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
17854934 ATTAAAGTTA
*
17854944 AAATGAATAAGTAATTATAATAAAAC
1 AAATGAATAAGTAATGATAATAAAAC
17854970 AAATGAATAAGTAAATGA-AATAAA
1 AAATGAATAAGT-AATGATAATAAA
17854994 GAAAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (26 bp):
AAATGAATAAGTAATGATAATAAAAC
Found at i:17855002 original size:6 final size:6
Alignment explanation
Indices: 17854991--17855066 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
17854981 TAAATGAAAT
* ** * *
17854991 AAAGAA AAAGAA AGAGGG AAAGTAA AACGAA ACAGAA AGAA-AA GAAAGAA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA A-AAGAA -AAAGAA
*
17855041 AAAGAA AAAGAG AAAGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA -AAAGAA A
17855067 CAGATGCAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
6 40 0.75
7 13 0.25
ACGTcount: A:0.72, C:0.03, G:0.24, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:17855042 original size:25 final size:25
Alignment explanation
Indices: 17854991--17855066 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
17854981 TAAATGAAAT
* **
17854991 AAAGAAAAAGA-AAGAGGGAAAGTAA
1 AAAGAAAAAGAGAAAAAAGAAAG-AA
* *
17855016 AACGAAACAGA-AAGAAAAGAAAGAA
1 AAAGAAAAAGAGAA-AAAAGAAAGAA
*
17855041 AAAGAAAAAGAGAAAGAAGAAAGAA
1 AAAGAAAAAGAGAAAAAAGAAAGAA
17855066 A
1 A
17855067 CAGATGCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 33 0.80
26 8 0.20
ACGTcount: A:0.72, C:0.03, G:0.24, T:0.01
Consensus pattern (25 bp):
AAAGAAAAAGAGAAAAAAGAAAGAA
Found at i:17863573 original size:17 final size:17
Alignment explanation
Indices: 17863553--17863588 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
17863543 TGTTTTGATG
17863553 ATAGAAATGTGGTACCA
1 ATAGAAATGTGGTACCA
17863570 ATAGAAATGTGGTACCA
1 ATAGAAATGTGGTACCA
17863587 AT
1 AT
17863589 GATGTAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (17 bp):
ATAGAAATGTGGTACCA
Found at i:17864918 original size:33 final size:33
Alignment explanation
Indices: 17864881--17864987 Score: 135
Period size: 33 Copynumber: 3.3 Consensus size: 33
17864871 GTGTACATTC
*
17864881 CCTTTTCAAATGGTATACACAAAGCATACCTAT
1 CCTTTTCAAATGGTATACACAAAGTATACCTAT
* *
17864914 CCTTTTCATATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTAT
* * * * *
17864947 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAT
17864979 CCTTTTCAA
1 CCTTTTCAA
17864988 GTTGTACCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
32 25 0.39
33 39 0.61
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAATGGTATACACAAAGTATACCTAT
Found at i:17864983 original size:32 final size:32
Alignment explanation
Indices: 17864847--17864994 Score: 111
Period size: 33 Copynumber: 4.5 Consensus size: 32
17864837 GATGAACCTT
* * * *
17864847 TCCTTTTCTAGTTGTACACTCAAGGTGTACAT-
1 TCCTTTTCAAG-TGTACACACAAAGTATACATA
* * * *
17864879 TCCCTTTTCAAATGGTATACACAAAGCATACCTA
1 T-CCTTTTCAAGT-GTACACACAAAGTATACATA
* * *
17864913 TCCTTTTCATA-TGGTATACACAAAGTATACCTT
1 TCCTTTTCA-AGT-GTACACACAAAGTATACATA
*
17864946 TCCTTTTCAAGTGTACACACAAAGTGTACATA
1 TCCTTTTCAAGTGTACACACAAAGTATACATA
*
17864978 ACCTTTTCAAGTTGTAC
1 TCCTTTTCAAG-TGTAC
17864995 CATTTGGGCA
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
32 29 0.31
33 64 0.67
34 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (32 bp):
TCCTTTTCAAGTGTACACACAAAGTATACATA
Found at i:17871274 original size:13 final size:13
Alignment explanation
Indices: 17871256--17871281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17871246 AATATTGCAT
17871256 GAAAAATTTTATC
1 GAAAAATTTTATC
17871269 GAAAAATTTTATC
1 GAAAAATTTTATC
17871282 AATTATGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAAATTTTATC
Found at i:17871763 original size:20 final size:22
Alignment explanation
Indices: 17871733--17871780 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
17871723 GAATATGCTG
*
17871733 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
17871755 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
17871776 TAAAT
1 TAAAT
17871781 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:17872497 original size:33 final size:33
Alignment explanation
Indices: 17872460--17872707 Score: 196
Period size: 33 Copynumber: 7.6 Consensus size: 33
17872450 TACCCAAATG
**
17872460 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* *
17872493 GTAC-ACTTGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * * *
17872525 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGAAATGTACACTTTGTGT
** * * * * * *
17872558 ACACCACTTGAAAAGGCAAGGTACACTATATAT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
** * *
17872591 GTAC-ACTTGAAAAGGTTATGTGCACTTTGAGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * ** *
17872623 ATACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * * *
17872656 GTACCACTTGAAAAGGAAATGTGCACCTTGAGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
*
17872689 GTACAACTAGAAAAGGAAA
1 GTACAACTTGAAAAGGAAA
17872708 GGTCCATCGG
Statistics
Matches: 173, Mismatches: 38, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
32 51 0.29
33 121 0.70
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (33 bp):
GTACAACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:17872618 original size:98 final size:98
Alignment explanation
Indices: 17872465--17872671 Score: 218
Period size: 98 Copynumber: 2.1 Consensus size: 98
17872455 AAATGGTACA
** * * * * * *
17872465 ACTTGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTATACTTTGTGTATAC-
1 ACTTGAAAAGGCAAGGTACACTATATATGTACACTTGAAAAGGAAAGGTACACTTTGAGTATACA
* * *
17872529 CATATGAAAAGGAAAGGTATACTTTGTGTACACC
66 AAT-TGAAAAGGAAAGGTACACTTCGTGTACACC
** * *
17872563 ACTTGAAAAGGCAAGGTACACTATATATGTACACTTGAAAAGGTTATGTGCACTTTGAGTATACA
1 ACTTGAAAAGGCAAGGTACACTATATATGTACACTTGAAAAGGAAAGGTACACTTTGAGTATACA
** * **
17872628 AATTGAAAAGGGTATGTACACTTCGTGTGTACC
66 AATTGAAAAGGAAAGGTACACTTCGTGTACACC
17872661 ACTTGAAAAGG
1 ACTTGAAAAGG
17872672 AAATGTGCAC
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
98 86 0.98
99 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (98 bp):
ACTTGAAAAGGCAAGGTACACTATATATGTACACTTGAAAAGGAAAGGTACACTTTGAGTATACA
AATTGAAAAGGAAAGGTACACTTCGTGTACACC
Found at i:17874263 original size:19 final size:19
Alignment explanation
Indices: 17874239--17874277 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17874229 GGATAGTATG
17874239 TATGAGTTTGATTGGTTTC
1 TATGAGTTTGATTGGTTTC
17874258 TATGAGTTTGATTGGTTTC
1 TATGAGTTTGATTGGTTTC
17874277 T
1 T
17874278 GACATGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.26, T:0.54
Consensus pattern (19 bp):
TATGAGTTTGATTGGTTTC
Found at i:17883704 original size:2 final size:2
Alignment explanation
Indices: 17883656--17883690 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
17883646 CCTATTTGTG
17883656 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17883691 AGTTACACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17884371 original size:2 final size:2
Alignment explanation
Indices: 17884364--17884395 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17884354 GGATATTCTT
17884364 TA TA TA TA TA TA TA 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
17884396 AAACCACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17885912 original size:33 final size:33
Alignment explanation
Indices: 17885845--17885988 Score: 135
Period size: 33 Copynumber: 4.4 Consensus size: 33
17885835 GAGTGTCATG
** * **
17885845 CTGCGGTGGATACAACCCAGGAGGAGTGGAGTA
1 CTGCGGTGGATACAGGCCAGGAGAAGTGCTGTA
* * * *
17885878 CTGTGGTGGATACAGGCCGGGGGTAGTGCTGTA
1 CTGCGGTGGATACAGGCCAGGAGAAGTGCTGTA
* *
17885911 CTGCGGTGGATACAGGCCAAGAGAAGTGCTATA
1 CTGCGGTGGATACAGGCCAGGAGAAGTGCTGTA
** * * * *
17885944 CTGTAGTTGATACGGGCCTGAAGAAGTGCTGTA
1 CTGCGGTGGATACAGGCCAGGAGAAGTGCTGTA
17885977 CTGCGGTGGATA
1 CTGCGGTGGATA
17885989 TGACCCAAAG
Statistics
Matches: 86, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.22
Consensus pattern (33 bp):
CTGCGGTGGATACAGGCCAGGAGAAGTGCTGTA
Found at i:17885956 original size:66 final size:66
Alignment explanation
Indices: 17885845--17885988 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
17885835 GAGTGTCATG
* * * ** *
17885845 CTGCGGTGGATACAACCCAGGAGGAGTGGAGTACTGTGGTGGATACAGGCCGGGGGTAGTGCTGT
1 CTGCGGTGGATACAACCCAAGAGAAGTGGAGTACTGTAGTGGATACAGGCCGGAAGAAGTGCTGT
17885910 A
66 A
** * * * *
17885911 CTGCGGTGGATACAGGCCAAGAGAAGTGCTA-TACTGTAGTTGATACGGGCCTGAAGAAGTGCTG
1 CTGCGGTGGATACAACCCAAGAGAAGTG-GAGTACTGTAGTGGATACAGGCCGGAAGAAGTGCTG
17885975 TA
65 TA
17885977 CTGCGGTGGATA
1 CTGCGGTGGATA
17885989 TGACCCAAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.22
Consensus pattern (66 bp):
CTGCGGTGGATACAACCCAAGAGAAGTGGAGTACTGTAGTGGATACAGGCCGGAAGAAGTGCTGT
A
Found at i:17886962 original size:180 final size:180
Alignment explanation
Indices: 17886691--17887047 Score: 538
Period size: 180 Copynumber: 2.0 Consensus size: 180
17886681 GAGCTACGGA
* ** *
17886691 ACTCCAAATTAAGATCTGTTAATTTTTCCAGAAACTAGACTCATATATATTCTTACCATAAAATT
1 ACTCCAAATTAAGAACTACTAATTTTTCCAGAAACTAGACTCACATATATTCTTACCATAAAATT
* * *
17886756 TTCAGAATTTTTGGTTTAGTCAATTAGTACAGTTTATTCATTAAAGT-TACCCTTATTTCATTGT
66 TTCAGAATTTTTGGTTTAGTCAATTAGTACAGTTTATTCATTAAA-TATACCCCTATTTCACTAT
* * *
17886820 CCAACAGTTTCTACCTCTCTTCACTAAAAATTATTTATCTCATGGTACGAG
130 CCAACAGTTCCGACCTCTCTTCACTAAAAATTATATATCTCATGGTACGAG
17886871 ACTCCAAATTAAGAACTACTAATTTTTCCAGAAACTAGACTCACATATATTCTTACCATAAAATT
1 ACTCCAAATTAAGAACTACTAATTTTTCCAGAAACTAGACTCACATATATTCTTACCATAAAATT
*
17886936 TTCAGAATTTTTGGTTTA-TCCAATTAGTACGGTTTATTCATTAAATATACCCCTATTTCACTAT
66 TTCAGAATTTTTGGTTTAGT-CAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTAT
** * * *
17887000 CTGATAGTTCCGATCTTTCTTCACTAAAAATTATATATCTCATGGTAC
130 CCAACAGTTCCGACCTCTCTTCACTAAAAATTATATATCTCATGGTAC
17887048 AGATCTCGGA
Statistics
Matches: 159, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
179 2 0.01
180 157 0.99
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (180 bp):
ACTCCAAATTAAGAACTACTAATTTTTCCAGAAACTAGACTCACATATATTCTTACCATAAAATT
TTCAGAATTTTTGGTTTAGTCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTATC
CAACAGTTCCGACCTCTCTTCACTAAAAATTATATATCTCATGGTACGAG
Found at i:17887790 original size:50 final size:50
Alignment explanation
Indices: 17887619--17887792 Score: 276
Period size: 50 Copynumber: 3.5 Consensus size: 50
17887609 GTACGCATAA
*** * *
17887619 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACATGACCTATCCATCTGATACACGTAG
* *
17887669 TAGCCTGCACTTAGTACTACAGACATGACTTATCCATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACATGACCTATCCATCTGATACACGTAG
*
17887719 TAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACATGACCTATCCATCTGATACACGTAG
17887769 TAGCCTGCACTTAGTACTACACAC
1 TAGCCTGCACTTAGTACTACACAC
17887793 GTGATCGAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 114 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACATGACCTATCCATCTGATACACGTAG
Found at i:17888444 original size:9 final size:9
Alignment explanation
Indices: 17888414--17888454 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
17888404 ATAAGTATAA
*
17888414 AATTAACTG
1 AATTAACCG
* *
17888423 AATTACCCA
1 AATTAACCG
17888432 AATTAACCG
1 AATTAACCG
17888441 AATTAACCG
1 AATTAACCG
17888450 AATTA
1 AATTA
17888455 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:17888534 original size:5 final size:6
Alignment explanation
Indices: 17888475--17888539 Score: 94
Period size: 6 Copynumber: 10.5 Consensus size: 6
17888465 ACTATATGTT
**
17888475 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTAGA TTTAGA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA
17888525 TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTT
17888540 ATTAAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
6 49 0.92
8 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:17890021 original size:2 final size:2
Alignment explanation
Indices: 17890014--17890040 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17890004 TGACATTCTC
17890014 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
17890041 ATCCCATAGA
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:17891398 original size:43 final size:42
Alignment explanation
Indices: 17891315--17891400 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
17891305 ATATCGTACA
* ** *
17891315 ATGCCACGTCCTAGACGTGGTCTTACATGTAGCCATATATCG
1 ATGCCACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
*
17891357 ATGCCACTGTCCCAGACAG-GGTCTTACTTGTAAACACATATCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACATGTAAACACATATCG
17891400 A
1 A
17891401 AATCACAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 7 0.19
43 29 0.78
44 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:17894317 original size:12 final size:12
Alignment explanation
Indices: 17894296--17894353 Score: 61
Period size: 11 Copynumber: 5.1 Consensus size: 12
17894286 AAATCTTAAG
*
17894296 AAAATTAAATAA
1 AAAATAAAATAA
17894308 AAAATAAAAT-A
1 AAAATAAAATAA
17894319 AAAATAAAA-ATA
1 AAAATAAAATA-A
17894331 AAAAT-AAA-AA
1 AAAATAAAATAA
*
17894341 TAAATAAAATAA
1 AAAATAAAATAA
17894353 A
1 A
17894354 TGGACTCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 5 0.13
11 17 0.44
12 17 0.44
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:17894322 original size:6 final size:6
Alignment explanation
Indices: 17894302--17894344 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
17894292 TAAGAAAATT
17894302 AAATAA AAA-ATA AAATAA AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA A
17894345 TAAAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.03
6 33 0.94
7 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:17897561 original size:21 final size:21
Alignment explanation
Indices: 17897536--17897639 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 21
17897526 TAGCCTTCGG
*
17897536 GCTTCCTTTTAGCACTTGTGT
1 GCTTCCATTTAGCACTTGTGT
* **
17897557 GCTT-CAGTTAGC-CTTCAG-
1 GCTTCCATTTAGCACTTGTGT
* *
17897575 GCTTCCGTTTAACACTTGTGT
1 GCTTCCATTTAGCACTTGTGT
* * **
17897596 GCTT-TAATTAGC-CTTCAG-
1 GCTTCCATTTAGCACTTGTGT
*
17897614 GCTTCCATTTAGCACTTATGT
1 GCTTCCATTTAGCACTTGTGT
17897635 GCTTC
1 GCTTC
17897640 AGCTAGACTT
Statistics
Matches: 58, Mismatches: 19, Indels: 12
0.65 0.21 0.13
Matches are distributed among these distances:
18 8 0.14
19 19 0.33
20 18 0.31
21 13 0.22
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
GCTTCCATTTAGCACTTGTGT
Found at i:17897564 original size:39 final size:39
Alignment explanation
Indices: 17897518--17897657 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
17897508 GCTTTGATGA
* *
17897518 GCTTCAGTTAGCCTTCGGGCTTCCTTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCAGGCTTCCATTTAGCACTTGTGT
* *
17897557 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCAGGCTTCCATTTAGCACTTGTGT
* * *
17897596 GCTTTAATTAGCCTTCAGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCATTTAGCACTTGTGT
* * *
17897635 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCAGGCTTC
17897658 AAATCAGAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCATTTAGCACTTGTGT
Found at i:17898361 original size:15 final size:17
Alignment explanation
Indices: 17898341--17898396 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 17
17898331 GAGTTTTTTT
17898341 AAAAATAATA-ATA-AA
1 AAAAATAATATATACAA
17898356 AAAAATAA-ATATACAA
1 AAAAATAATATATACAA
17898372 AAAAATAATTATATTACGAA
1 AAAAATAA-TATA-TAC-AA
17898392 AAAAA
1 AAAAA
17898397 ATAAAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 10 0.29
18 3 0.09
19 3 0.09
20 7 0.20
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAATAATATATACAA
Found at i:17898395 original size:19 final size:16
Alignment explanation
Indices: 17898341--17898384 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
17898331 GAGTTTTTTT
17898341 AAAAAT-AATAATA-AA
1 AAAAATAAAT-ATACAA
17898356 AAAAATAAATATACAA
1 AAAAATAAATATACAA
*
17898372 AAAAATAATTATA
1 AAAAATAAATATA
17898385 TTACGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAAATATACAA
Found at i:17900075 original size:51 final size:51
Alignment explanation
Indices: 17899999--17900100 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
17899989 ACGTACATAC
* *
17899999 GCTATTTGAGCTAGAGAAGAAGCCACAGCTCTAGACGTTATTGCTGGTACT
1 GCTATCTGAGCTAGAGAAGAAGCCACAGCTCCAGACGTTATTGCTGGTACT
* *
17900050 GCTATCTGAGCTAGAGAAGAAGCCACGGCTCCAGACGTTATTGCTTGTACT
1 GCTATCTGAGCTAGAGAAGAAGCCACAGCTCCAGACGTTATTGCTGGTACT
17900101 TTCTATCTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (51 bp):
GCTATCTGAGCTAGAGAAGAAGCCACAGCTCCAGACGTTATTGCTGGTACT
Found at i:17904881 original size:18 final size:18
Alignment explanation
Indices: 17904858--17904914 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
17904848 CAGCTCTGAT
17904858 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
17904876 GAGCTTCCGTTTAGCACTTGT
1 GAGCTTCAG-TTAGC-CTT-C
*
17904897 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
17904915 CGGCTTCCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 8 0.26
21 7 0.23
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (18 bp):
GAGCTTCAGTTAGCCTTC
Found at i:17904906 original size:39 final size:39
Alignment explanation
Indices: 17904860--17904998 Score: 215
Period size: 39 Copynumber: 3.6 Consensus size: 39
17904850 GCTCTGATGA
*
17904860 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
17904899 GCTTCAGTTAGCCTTCCGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
17904938 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
17904977 GCTTCAGCTAGACTTCGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
17904999 TAAATCACGA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:17910739 original size:31 final size:31
Alignment explanation
Indices: 17910701--17910764 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
17910691 CCTTTTCATA
17910701 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
17910732 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17910763 TT
1 TT
17910765 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17910989 original size:25 final size:23
Alignment explanation
Indices: 17910957--17911051 Score: 100
Period size: 25 Copynumber: 3.9 Consensus size: 23
17910947 GCTTTATCAT
**
17910957 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
17910982 ATAACTGGGGCAAAGCCCTTTTA
1 ATAACTGGGGCAAAGCCCTTTTA
* *
17911005 ATAACTAGGGCATAAGCCCTTTATC
1 ATAACTGGGGCA-AAGCCCTTT-TA
*
17911030 ATAACTAGGGCATAAGCCCTTT
1 ATAACTGGGGCA-AAGCCCTTT
17911052 ACACTTCCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
23 17 0.27
24 16 0.25
25 31 0.48
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:17911021 original size:24 final size:24
Alignment explanation
Indices: 17910971--17911051 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 24
17910961 CTGGAGGCCT
*
17910971 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTAGGGCATA
17910995 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
17911019 AGCCCTTTATCATAACTAGGGCATA
1 AGCCCTTT-TAATAACTAGGGCATA
17911044 AGCCCTTT
1 AGCCCTTT
17911052 ACACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 17 0.32
24 13 0.25
25 23 0.43
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:17911126 original size:20 final size:20
Alignment explanation
Indices: 17911101--17911167 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17911091 TTATGAATAC
17911101 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17911121 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17911141 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17911161 ACCATGT
1 ATCATGT
17911168 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17911132 original size:11 final size:11
Alignment explanation
Indices: 17911101--17911156 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17911091 TTATGAATAC
17911101 ATCATGTGCAT
1 ATCATGTGCAT
*
17911112 ATCA--TACAT
1 ATCATGTGCAT
17911121 ATCATGTGCAT
1 ATCATGTGCAT
*
17911132 ATCA--TACAT
1 ATCATGTGCAT
*
17911141 GTCATGTGCAT
1 ATCATGTGCAT
17911152 ATCAT
1 ATCAT
17911157 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17915812 original size:17 final size:16
Alignment explanation
Indices: 17915786--17915827 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
17915776 TCCCAAAAAA
17915786 TTATTTTTTTCGTATT
1 TTATTTTTTTCGTATT
17915802 TTATTTCTTTTCGTATT
1 TTATTT-TTTTCGTATT
17915819 TTATTTTTT
1 TTATTTTTT
17915828 CATTAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (16 bp):
TTATTTTTTTCGTATT
Found at i:17915857 original size:16 final size:16
Alignment explanation
Indices: 17915786--17915858 Score: 67
Period size: 16 Copynumber: 4.6 Consensus size: 16
17915776 TCCCAAAAAA
*
17915786 TTATTTTTTTCGTATT
1 TTATTTTTTTAGTATT
*
17915802 TTATTTCTTTTCGTATT
1 TTATTT-TTTTAGTATT
* * **
17915819 TTATTTTTTCATTAAG
1 TTATTTTTTTAGTATT
*
17915835 ATA-TTTTTTAGTATT
1 TTATTTTTTTAGTATT
17915850 TTATTTTTT
1 TTATTTTTT
17915859 ATACCATTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
15 10 0.23
16 18 0.41
17 16 0.36
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (16 bp):
TTATTTTTTTAGTATT
Found at i:17916055 original size:19 final size:20
Alignment explanation
Indices: 17916014--17916061 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
17916004 TCACATCATT
*
17916014 TTTTGTTTTTTTTGTTACAGC
1 TTTTG-TTTTTTTGTAACAGC
*
17916035 TTTTGTTTTTTT-TAACTGC
1 TTTTGTTTTTTTGTAACAGC
17916054 TTTT-TTTT
1 TTTTGTTTT
17916062 AACAGTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 7 0.28
21 5 0.20
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.73
Consensus pattern (20 bp):
TTTTGTTTTTTTGTAACAGC
Found at i:17916061 original size:18 final size:17
Alignment explanation
Indices: 17916019--17916061 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
17916009 TCATTTTTTG
17916019 TTTTTTTTGTTACAGCT
1 TTTTTTTTGTTACAGCT
* *
17916036 TTTGTTTTTTTTAACTGCT
1 TTT-TTTTTGTT-ACAGCT
17916055 TTTTTTT
1 TTTTTTT
17916062 AACAGTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
19 8 0.36
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.72
Consensus pattern (17 bp):
TTTTTTTTGTTACAGCT
Found at i:17917575 original size:8 final size:8
Alignment explanation
Indices: 17917562--17917593 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
17917552 TTATCAGCTC
17917562 TTATTATT
1 TTATTATT
17917570 TTATTATT
1 TTATTATT
17917578 TTATTATT
1 TTATTATT
17917586 TTATTATT
1 TTATTATT
17917594 CTGAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:17919207 original size:30 final size:29
Alignment explanation
Indices: 17919173--17919237 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
17919163 ATGGCTAGGG
17919173 TTTCTTGGTTTTTTTGGGGGGGGTTAGGTT
1 TTTCTTGGTTTTTTT-GGGGGGGTTAGGTT
***
17919203 TTTCTT--TTTTTTTTTTGGGGTTAGGTT
1 TTTCTTGGTTTTTTTGGGGGGGTTAGGTT
*
17919230 TTTTTTGG
1 TTTCTTGG
17919238 GAGGGGGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
27 16 0.55
28 7 0.24
30 6 0.21
ACGTcount: A:0.03, C:0.03, G:0.31, T:0.63
Consensus pattern (29 bp):
TTTCTTGGTTTTTTTGGGGGGGTTAGGTT
Found at i:17920098 original size:30 final size:30
Alignment explanation
Indices: 17920062--17920123 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
17920052 TTTTGAAAAA
17920062 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
17920092 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
17920122 CA
1 CA
17920124 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:17920187 original size:57 final size:55
Alignment explanation
Indices: 17920092--17920213 Score: 165
Period size: 57 Copynumber: 2.2 Consensus size: 55
17920082 TCAACTCTCG
* *
17920092 CAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA-AA
1 CAGAAATTAAAAAGCTCAACTCACCTCTCACAACATGAGTTG-A--TTTTTGAAACAA
* *
17920149 CAGAAATTAAAAGGCTTAACTCACCTCTCACAACATGAGTTGATTTTTGAAACAA
1 CAGAAATTAAAAAGCTCAACTCACCTCTCACAACATGAGTTGATTTTTGAAACAA
*
17920204 CAAAAATTAA
1 CAGAAATTAA
17920214 GAATACCTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
54 9 0.15
55 11 0.19
56 1 0.02
57 38 0.64
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (55 bp):
CAGAAATTAAAAAGCTCAACTCACCTCTCACAACATGAGTTGATTTTTGAAACAA
Found at i:17920545 original size:73 final size:72
Alignment explanation
Indices: 17920453--17920642 Score: 247
Period size: 72 Copynumber: 2.6 Consensus size: 72
17920443 ATTAAAAGGT
* * * * * *
17920453 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
17920518 CCTGAGGC
65 CCCGAGGC
** *
17920526 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAATAAAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
17920590 CCCGAGGC
65 CCCGAGGC
* *
17920598 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAAT
17920643 AAAAAGGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 66 0.66
73 31 0.31
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:17920657 original size:53 final size:53
Alignment explanation
Indices: 17920594--17920790 Score: 169
Period size: 53 Copynumber: 3.5 Consensus size: 53
17920584 GCGTGCCCCG
17920594 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAATAAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAATAAAA
* * ** * *** ****
17920647 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCG
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTT-----TGAAAA-A-C-CAAAAT-AAAA
* *
17920709 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAATAAAA
* *
17920762 AGGCTTAACTCACCTCTCGCAATATGAGT
1 AGGCTCAACTCACCTCTAGCAATATGAGT
17920791 CAATTTAAAA
Statistics
Matches: 108, Mismatches: 27, Indels: 18
0.71 0.18 0.12
Matches are distributed among these distances:
53 58 0.54
54 2 0.02
55 1 0.01
56 1 0.01
57 5 0.05
58 5 0.05
59 1 0.01
60 1 0.01
61 3 0.03
62 31 0.29
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (53 bp):
AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAATAAAA
Found at i:17920724 original size:62 final size:63
Alignment explanation
Indices: 17920647--17920923 Score: 240
Period size: 62 Copynumber: 4.5 Consensus size: 63
17920637 CAAAATAAAA
*
17920647 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-AAAACTAAAAATACCTCAGCGTGCCCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAAACTAAAAATACCTCAGCGTGCCCG
* * * **
17920709 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC-AAAAAT---T-A-------AA
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCAATTT-AAAAACTAAAAATACCTCAGCGTGCCCG
*
17920762 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-AAAACTAAAAATACCTCAGCGTGCCCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAAACTAAAAATACCTCAGCGTGCCCG
* * * *
17920824 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCAATTT--AAA-AAC---TAAAAATACCTCAGCGT
**
17920889 GTCTTG
59 G-CCCG
*
17920895 AGGCTCAACTCATCTCTCGCAATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
17920924 TGAGTTTCCT
Statistics
Matches: 170, Mismatches: 21, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
50 5 0.03
51 6 0.04
52 5 0.03
53 26 0.15
54 1 0.01
55 1 0.01
60 1 0.01
61 1 0.01
62 52 0.31
63 10 0.06
64 6 0.04
65 5 0.03
66 2 0.01
67 3 0.02
70 18 0.11
71 28 0.16
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (63 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAAACTAAAAATACCTCAGCGTGCCCG
Found at i:17920776 original size:115 final size:115
Alignment explanation
Indices: 17920573--17920876 Score: 547
Period size: 115 Copynumber: 2.6 Consensus size: 115
17920563 AAAAAAATTG
*
17920573 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACC
1 AAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
*
17920638 AAAATAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
65 AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
17920689 AAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
1 AAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
17920754 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
66 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
* *
17920804 AAAATACCTCAGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAA
1 AAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
*
17920868 CAATTAAAA
66 AAATTAAAA
17920877 ATACCTCAAC
Statistics
Matches: 183, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
114 15 0.08
115 152 0.83
116 16 0.09
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (115 bp):
AAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
Found at i:17928447 original size:75 final size:75
Alignment explanation
Indices: 17928328--17928498 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
17928318 CATGGCAAAG
** **
17928328 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATT-TC
*
17928387 CCATACTGAGC
65 CCATACCGAGC
17928398 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCC
*
17928463 CATACCGAGT
66 CATACCGAGC
**
17928473 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
17928499 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCC
CATACCGAGC
Found at i:17928466 original size:35 final size:36
Alignment explanation
Indices: 17928331--17928494 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 36
17928321 GGCAAAGTGT
* **
17928331 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
* **
17928366 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
17928401 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATC----CCATACTGAGTTAA
** *
17928441 GAAATGTAGGTATGACATT-TCCCATACCGAGTTGAA
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTT-AA
17928477 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
17928495 TCAATGAGGA
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
35 81 0.72
36 2 0.02
39 2 0.02
40 28 0.25
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (36 bp):
GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
Found at i:17931868 original size:12 final size:12
Alignment explanation
Indices: 17931846--17931881 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
17931836 TGGGATATGC
*
17931846 AATGAATGAATG
1 AATGCATGAATG
*
17931858 GATGCATGAATG
1 AATGCATGAATG
17931870 AATGCATGAATG
1 AATGCATGAATG
17931882 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:17931868 original size:16 final size:17
Alignment explanation
Indices: 17931842--17931873 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17931832 AGTATGGGAT
17931842 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
17931859 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
17931874 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:17933890 original size:2 final size:2
Alignment explanation
Indices: 17933831--17933871 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
17933821 GTATTTAAAA
*
17933831 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17933872 ATAGTATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17937076 original size:18 final size:18
Alignment explanation
Indices: 17936977--17937086 Score: 112
Period size: 18 Copynumber: 6.1 Consensus size: 18
17936967 AGTCACTCTT
17936977 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* * * *
17936995 TACCAATAAATTATTCAG
1 TAACAGTCAGTTATTCAG
*
17937013 TAACAGTCAATTATTCAG
1 TAACAGTCAGTTATTCAG
* * * *
17937031 TAGCAATAAGTTATTGAG
1 TAACAGTCAGTTATTCAG
*
17937049 TAACATTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
17937067 TAGCAGTCAGTTACTCAG
1 TAACAGTCAGTTATTCAG
17937085 TA
1 TA
17937087 CCTTTATTTA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:17937079 original size:36 final size:36
Alignment explanation
Indices: 17936977--17937086 Score: 148
Period size: 36 Copynumber: 3.1 Consensus size: 36
17936967 AGTCACTCTT
* *
17936977 TAACAGTCAGTTATTCAGTACCAATAAATTATTCAG
1 TAACAGTCAGTTATTCAGTAGCAATAAGTTATTCAG
* *
17937013 TAACAGTCAATTATTCAGTAGCAATAAGTTATTGAG
1 TAACAGTCAGTTATTCAGTAGCAATAAGTTATTCAG
* * * *
17937049 TAACATTCAGTTATTCAGTAGCAGTCAGTTACTCAG
1 TAACAGTCAGTTATTCAGTAGCAATAAGTTATTCAG
17937085 TA
1 TA
17937087 CCTTTATTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (36 bp):
TAACAGTCAGTTATTCAGTAGCAATAAGTTATTCAG
Found at i:17939231 original size:57 final size:59
Alignment explanation
Indices: 17939164--17939294 Score: 140
Period size: 57 Copynumber: 2.2 Consensus size: 59
17939154 AAGTGTCGCC
* ** *
17939164 TTACTGTTACTGTTCCAGATTCGTTCCAAAGAGGTACTC-CGTA-CGTTACTGTTACTG
1 TTACTGTTACTGTTCCAGATTCATTCCAAAGAGGTACTCGCGTACCACTACTGTTACTA
* * * * * * *
17939221 TTACTGTTACTATTCTAGTTTTATTCCGATGAGGTACTCTGTGTACCACTACTGTTACTA
1 TTACTGTTACTGTTCCAGATTCATTCCAAAGAGGTACTC-GCGTACCACTACTGTTACTA
17939281 TTACTGTTACTGTT
1 TTACTGTTACTGTT
17939295 ACCATTACGG
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
57 32 0.54
59 3 0.05
60 24 0.41
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (59 bp):
TTACTGTTACTGTTCCAGATTCATTCCAAAGAGGTACTCGCGTACCACTACTGTTACTA
Found at i:17939439 original size:18 final size:18
Alignment explanation
Indices: 17939418--17939516 Score: 108
Period size: 18 Copynumber: 5.5 Consensus size: 18
17939408 GGTACTAAAC
*
17939418 AACTTACTGCTACTGAAT
1 AACTGACTGCTACTGAAT
* * *
17939436 AACTGACTGTTACCGGAT
1 AACTGACTGCTACTGAAT
17939454 AACTGACTGCTACTGAAT
1 AACTGACTGCTACTGAAT
* *
17939472 AATTGACTGTTACTGAAT
1 AACTGACTGCTACTGAAT
* * * *
17939490 AATTTATTGGTACTGAAT
1 AACTGACTGCTACTGAAT
17939508 AACTGACTG
1 AACTGACTG
17939517 TTAAAGAGTG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
AACTGACTGCTACTGAAT
Found at i:17939470 original size:36 final size:36
Alignment explanation
Indices: 17939418--17939519 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
17939408 GGTACTAAAC
*
17939418 AACTTACTGCTACTGAATAACTGACTGTTACCGGAT
1 AACTTACTGCTACTGAATAACTGACTGTTACCGAAT
* * *
17939454 AACTGACTGCTACTGAATAATTGACTGTTACTGAAT
1 AACTTACTGCTACTGAATAACTGACTGTTACCGAAT
* * *
17939490 AATTTATTGGTACTGAATAACTGACTGTTA
1 AACTTACTGCTACTGAATAACTGACTGTTA
17939520 AAGAGTGACT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (36 bp):
AACTTACTGCTACTGAATAACTGACTGTTACCGAAT
Found at i:17939572 original size:18 final size:18
Alignment explanation
Indices: 17939526--17939573 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
17939516 GTTAAAGAGT
*
17939526 GACTGAATATTATTGAAC
1 GACTGAATGTTATTGAAC
*
17939544 GACT-AATTGTTATTGAAT
1 GACTGAA-TGTTATTGAAC
*
17939562 GATTGAATGTTA
1 GACTGAATGTTA
17939574 CAGAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (18 bp):
GACTGAATGTTATTGAAC
Found at i:17943795 original size:16 final size:16
Alignment explanation
Indices: 17943776--17943809 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
17943766 GATAGCATAT
17943776 TATAGTAATAGGTAAA
1 TATAGTAATAGGTAAA
17943792 TATAGTAATAGGTAAA
1 TATAGTAATAGGTAAA
17943808 TA
1 TA
17943810 GAAGTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (16 bp):
TATAGTAATAGGTAAA
Done.