Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 151 of 187
Found at i:44994200 original size:24 final size:23
Alignment explanation
Indices: 44994165--44994211 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
44994155 TAATTATATA
44994165 TTTTAGAATTTTATAAAAAATTAT
1 TTTTAGAATTTT-TAAAAAATTAT
44994189 TTTTA-AACTTTTTAAAAAATTAT
1 TTTTAGAA-TTTTTAAAAAATTAT
44994212 ATATCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTAGAATTTTTAAAAAATTAT
Found at i:45003195 original size:27 final size:27
Alignment explanation
Indices: 45003156--45003227 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
45003146 ATATATTATT
45003156 ATAAAA-AATTAAATATATATAAATAC
1 ATAAAATAATTAAATATATATAAATAC
* * * **
45003182 ATAAAATAACTAAAAATTTATAAATTT
1 ATAAAATAATTAAATATATATAAATAC
*
45003209 ATAAAATATTTAAATATAT
1 ATAAAATAATTAAATATAT
45003228 GAAATCACTA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAAAATAATTAAATATATATAAATAC
Found at i:45006708 original size:12 final size:12
Alignment explanation
Indices: 45006691--45006737 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
45006681 ATGTATGTAA
45006691 ATTATGTAAGTT
1 ATTATGTAAGTT
45006703 ATTATGTAAG--
1 ATTATGTAAGTT
45006713 -TTATGTAAGTT
1 ATTATGTAAGTT
* *
45006724 ACTATGTAGGTT
1 ATTATGTAAGTT
45006736 AT
1 AT
45006738 GTTCGTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 9 0.31
12 20 0.69
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (12 bp):
ATTATGTAAGTT
Found at i:45006721 original size:9 final size:9
Alignment explanation
Indices: 45006684--45006753 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 9
45006674 AATATTTATG
*
45006684 TATGTAAAT
1 TATGTAAGT
45006693 TATGTAAGTTAT
1 TATGTAAG---T
45006705 TATGTAAGT
1 TATGTAAGT
45006714 TATGTAAGTT
1 TATGTAAG-T
*
45006724 ACTATGTAGGT
1 --TATGTAAGT
**
45006735 TATGTTCGT
1 TATGTAAGT
45006744 TATGTAAGT
1 TATGTAAGT
45006753 T
1 T
45006754 GTGATATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 31 0.63
10 1 0.02
11 1 0.02
12 16 0.33
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:45006745 original size:21 final size:21
Alignment explanation
Indices: 45006684--45006739 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
45006674 AATATTTATG
* *
45006684 TATGTAAATTATGTAAGTTAT
1 TATGTAAGTTATGTAAGTTAC
45006705 TATGTAAGTTATGTAAGTTAC
1 TATGTAAGTTATGTAAGTTAC
*
45006726 TATGTAGGTTATGT
1 TATGTAAGTTATGT
45006740 TCGTTATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGTAAGTTATGTAAGTTAC
Found at i:45006838 original size:91 final size:88
Alignment explanation
Indices: 45006644--45006840 Score: 218
Period size: 91 Copynumber: 2.2 Consensus size: 88
45006634 ATAATTAAGC
*
45006644 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATTATG
1 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATAATG
* *
45006709 TAAGTTATGTAAGTTACTATGTAGGT
66 TAAGCTATATAAG-T-CTATGTA-GT
** ** * *
45006735 TATGTTCGTTATGTAAGTTGTGATATGATTAATATTTATGTATGTAAATTATGATATGATTGATA
1 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATG-TAAG-TT-AT-
*
45006800 AATTTAAGCTATATAAG-CTATGTA-T
62 AATGTAAGCTATATAAGTCTATGTAGT
45006825 TATGTAAGTTTATGTA
1 TATGTAAG-TTATGTA
45006841 TGTAGGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
90 7 0.08
91 55 0.62
92 10 0.11
93 2 0.02
94 2 0.02
95 13 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (88 bp):
TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATAATG
TAAGCTATATAAGTCTATGTAGT
Found at i:45006871 original size:9 final size:9
Alignment explanation
Indices: 45006857--45006902 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
45006847 AATAAGTATA
*
45006857 ATGTAAGCT
1 ATGTAAGTT
45006866 ATGTAAGTT
1 ATGTAAGTT
45006875 ATGTAAGTT
1 ATGTAAGTT
45006884 ATGTAAGTT
1 ATGTAAGTT
45006893 ATGTAAGTT
1 ATGTAAGTT
45006902 A
1 A
45006903 AGATATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:45006948 original size:39 final size:40
Alignment explanation
Indices: 45006894--45006969 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
45006884 ATGTAAGTTA
* *
45006894 TGTAAGTTAAGATATAATATATATCCCTGTAAGTTATAAG
1 TGTAAGTTAAGATATAATATACATCCCGGTAAGTTATAAG
45006934 TGTAA-TTAAGATATAATATACATCCCGGTAAGTTAT
1 TGTAAGTTAAGATATAATATACATCCCGGTAAGTTAT
45006970 GTATTATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.37
Consensus pattern (40 bp):
TGTAAGTTAAGATATAATATACATCCCGGTAAGTTATAAG
Found at i:45006981 original size:9 final size:9
Alignment explanation
Indices: 45006967--45007064 Score: 53
Period size: 9 Copynumber: 10.7 Consensus size: 9
45006957 CCCGGTAAGT
45006967 TATGTATTA
1 TATGTATTA
45006976 TATGTATTA
1 TATGTATTA
*
45006985 TATGTAAGT-
1 TATGT-ATTA
45006994 TATGTAGGTTA
1 TATGTA--TTA
* *
45007005 T-T-AATAA
1 TATGTATTA
45007012 GTTATGTATTA
1 --TATGTATTA
45007023 TATGTATTA
1 TATGTATTA
*
45007032 TATGTAAGT-
1 TATGT-ATTA
*
45007041 TATGTAGGT-
1 TATGTA-TTA
45007050 TATGTATTA
1 TATGTATTA
45007059 TATGTA
1 TATGTA
45007065 GGTTATGTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.03
8 3 0.04
9 54 0.77
10 7 0.10
11 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (9 bp):
TATGTATTA
Found at i:45006991 original size:27 final size:27
Alignment explanation
Indices: 45006961--45007073 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
45006951 ATACATCCCG
45006961 GTAAGTTATGTATTATATGTATTATAT
1 GTAAGTTATGTATTATATGTATTATAT
**
45006988 GTAAGTTATG---TAGGT-TATTA-A-
1 GTAAGTTATGTATTATATGTATTATAT
45007009 -TAAGTTATGTATTATATGTATTATAT
1 GTAAGTTATGTATTATATGTATTATAT
*
45007035 GTAAGTTATGTAGGT-TATGTATTATAT
1 GTAAGTTATGTA-TTATATGTATTATAT
*
45007062 GTAGGTTATGTA
1 GTAAGTTATGTA
45007074 GGTTATTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
20 9 0.12
22 1 0.01
23 8 0.11
24 8 0.11
25 1 0.01
27 44 0.61
28 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (27 bp):
GTAAGTTATGTATTATATGTATTATAT
Found at i:45007016 original size:47 final size:47
Alignment explanation
Indices: 45006962--45007052 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
45006952 TACATCCCGG
45006962 TAAGTTATGTATTATATGTATTATATGTAAGTTATGTAGGTTATTAA
1 TAAGTTATGTATTATATGTATTATATGTAAGTTATGTAGGTTATTAA
45007009 TAAGTTATGTATTATATGTATTATATGTAAGTTATGTAGGTTAT
1 TAAGTTATGTATTATATGTATTATATGTAAGTTATGTAGGTTAT
45007053 GTATTATATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (47 bp):
TAAGTTATGTATTATATGTATTATATGTAAGTTATGTAGGTTATTAA
Found at i:45007065 original size:18 final size:18
Alignment explanation
Indices: 45006976--45007073 Score: 85
Period size: 18 Copynumber: 5.3 Consensus size: 18
45006966 TTATGTATTA
45006976 TATGTATTATATGTAAGT
1 TATGTATTATATGTAAGT
*
45006994 TATGTAGGTTAT-TAATAAGT
1 TATGTA--TTATAT-GTAAGT
*
45007014 TATGTATTATATGT-ATT
1 TATGTATTATATGTAAGT
* *
45007031 ATATGTAAGT-TATGTAGGT
1 -TATGT-ATTATATGTAAGT
*
45007050 TATGTATTATATGTAGGT
1 TATGTATTATATGTAAGT
45007068 TATGTA
1 TATGTA
45007074 GGTTATTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
17 4 0.06
18 41 0.63
19 5 0.08
20 15 0.23
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (18 bp):
TATGTATTATATGTAAGT
Found at i:45007071 original size:9 final size:9
Alignment explanation
Indices: 45007032--45007079 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
45007022 ATATGTATTA
*
45007032 TATGTAAGT
1 TATGTAGGT
45007041 TATGTAGGT
1 TATGTAGGT
*
45007050 TATGTA-TT
1 TATGTAGGT
45007058 ATATGTAGGT
1 -TATGTAGGT
45007068 TATGTAGGT
1 TATGTAGGT
45007077 TAT
1 TAT
45007080 TATATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (9 bp):
TATGTAGGT
Found at i:45007879 original size:18 final size:18
Alignment explanation
Indices: 45007836--45007870 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45007826 CAATCAACTT
45007836 AATA-TAAATTAAATCAA
1 AATATTAAATTAAATCAA
45007853 AATATTAAATTAAA-CAA
1 AATATTAAATTAAATCAA
45007870 A
1 A
45007871 TATGGTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATTAAATTAAATCAA
Found at i:45010091 original size:7 final size:7
Alignment explanation
Indices: 45010081--45010167 Score: 54
Period size: 7 Copynumber: 12.4 Consensus size: 7
45010071 AACTATTAAC
45010081 CCCTAAA
1 CCCTAAA
*
45010088 CCCTTAA
1 CCCTAAA
*
45010095 CCC-CAA
1 CCCTAAA
*
45010101 CCCTTAA
1 CCCTAAA
*
45010108 CCCTTAA
1 CCCTAAA
*
45010115 CCCTTAA
1 CCCTAAA
45010122 CCCTTAAA
1 CCC-TAAA
45010130 CCCTAAA
1 CCCTAAA
45010137 CACC--AA
1 C-CCTAAA
45010143 CCCTTAAA
1 CCC-TAAA
* *
45010151 CCATAAT
1 CCCTAAA
*
45010158 CCATAAA
1 CCCTAAA
45010165 CCC
1 CCC
45010168 CTAACCCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.03
6 8 0.12
7 44 0.67
8 12 0.18
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:45010102 original size:21 final size:21
Alignment explanation
Indices: 45010078--45010152 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 21
45010068 ATTAACTATT
45010078 AACCCCTAAACCCTTAACCCC
1 AACCCCTAAACCCTTAACCCC
* *
45010099 AA-CCCTTAACCCTTAACCCTT
1 AACCCCTAAACCCTTAACCC-C
* * *
45010120 AACCCTTAAACCCTAAACACC
1 AACCCCTAAACCCTTAACCCC
*
45010141 AACCCTTAAACC
1 AACCCCTAAACC
45010153 ATAATCCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 16 0.36
21 16 0.36
22 13 0.29
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCCTTAACCCC
Found at i:45010118 original size:14 final size:14
Alignment explanation
Indices: 45010076--45010192 Score: 78
Period size: 14 Copynumber: 8.3 Consensus size: 14
45010066 ACATTAACTA
*
45010076 TTAACCCCTAAACCC
1 TTAA-CCCTTAACCC
*
45010091 TTAACCC-CAACCC
1 TTAACCCTTAACCC
45010104 TTAACCCTTAACCC
1 TTAACCCTTAACCC
45010118 TTAACCCTTAAACCC
1 TTAACCCTT-AACCC
*
45010133 TAAACACC--AACCC
1 TTAAC-CCTTAACCC
* * *
45010146 TTAAACCATAATCCA
1 TTAACCCTTAA-CCC
* *
45010161 TAAACCCCTAACCC
1 TTAACCCTTAACCC
* * *
45010175 ATATCCCTTAAACC
1 TTAACCCTTAACCC
45010189 TTAA
1 TTAA
45010193 ATCATAGAAC
Statistics
Matches: 79, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
12 2 0.03
13 20 0.25
14 32 0.41
15 23 0.29
16 2 0.03
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
TTAACCCTTAACCC
Found at i:45010174 original size:42 final size:42
Alignment explanation
Indices: 45010078--45010171 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
45010068 ATTAACTATT
* * * * * *
45010078 AACCCCTAAACCCTTAACCCCAACCCTTAACCCTTAACCCTT
1 AACCCCTAAACCCTAAACACCAACCCTTAAACCATAACCATA
*
45010120 AACCCTTAAACCCTAAACACCAACCCTTAAACCATAATCCATA
1 AACCCCTAAACCCTAAACACCAACCCTTAAACCATAA-CCATA
45010163 AACCCCTAA
1 AACCCCTAA
45010172 CCCATATCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (42 bp):
AACCCCTAAACCCTAAACACCAACCCTTAAACCATAACCATA
Found at i:45010354 original size:13 final size:13
Alignment explanation
Indices: 45010332--45010366 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45010322 TAAACCCCTA
* *
45010332 AACCCCTAACCTC
1 AACCCTTAACCCC
45010345 AACCCTTAACCCC
1 AACCCTTAACCCC
45010358 AACCCTTAA
1 AACCCTTAA
45010367 ACCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:45010383 original size:22 final size:22
Alignment explanation
Indices: 45010358--45010407 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
45010348 CCTTAACCCC
45010358 AACCCTTAAACCATAAT-CCATA
1 AACCCTTAAACCAT-ATCCCATA
* *
45010380 AACCCTTAACCCATATCCCTTA
1 AACCCTTAAACCATATCCCATA
45010402 AACCCT
1 AACCCT
45010408 AAATTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (22 bp):
AACCCTTAAACCATATCCCATA
Found at i:45012560 original size:24 final size:24
Alignment explanation
Indices: 45012515--45012561 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
45012505 TTATAATATA
* * *
45012515 AAATATATATGATTATAAAAAATT
1 AAATATATATAAATACAAAAAATT
*
45012539 AAATATATATAAATACATAAAAT
1 AAATATATATAAATACAAAAAAT
45012562 AACTAACAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATATATATAAATACAAAAAATT
Found at i:45013238 original size:21 final size:21
Alignment explanation
Indices: 45013212--45013254 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45013202 TTTTTGCATC
*
45013212 TCACAAATAAAGAAAAAA-ATT
1 TCACAAAGAAA-AAAAAACATT
45013233 TCACAAAGAAAAAAAAACATT
1 TCACAAAGAAAAAAAAACATT
45013254 T
1 T
45013255 TATTGAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.65, C:0.12, G:0.05, T:0.19
Consensus pattern (21 bp):
TCACAAAGAAAAAAAAACATT
Found at i:45013768 original size:9 final size:9
Alignment explanation
Indices: 45013732--45013770 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
45013722 TAAATTTCAC
45013732 AATTCAAAT
1 AATTCAAAT
*
45013741 AACTCAAAT
1 AATTCAAAT
**
45013750 AATTTGAAT
1 AATTCAAAT
45013759 AATTCAAAT
1 AATTCAAAT
45013768 AAT
1 AAT
45013771 AGATTGATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (9 bp):
AATTCAAAT
Found at i:45013879 original size:20 final size:19
Alignment explanation
Indices: 45013856--45013922 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
45013846 TACAAAATAA
45013856 TTCAAAATAATTTTCAAAAT
1 TTCAAAATAATTTT-AAAAT
45013876 TTCAAAATAAATTTT-AAAT
1 TTCAAAAT-AATTTTAAAAT
*
45013895 TTTAAAAT-ATTTATAAAAAT
1 TTCAAAATAATTT-T-AAAAT
45013915 TTCAAAAT
1 TTCAAAAT
45013923 TTATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.10
18 1 0.02
19 11 0.27
20 19 0.46
21 6 0.15
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
TTCAAAATAATTTTAAAAT
Found at i:45014437 original size:6 final size:6
Alignment explanation
Indices: 45014418--45014456 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
45014408 ATTGGCCCGC
*
45014418 AAAGAA AAAAAA AAAGAAA AAAGAAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAG-AA AAAG-AA AAAGAA AAAGAA A
45014457 GCATTATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:45014437 original size:7 final size:7
Alignment explanation
Indices: 45014418--45014456 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
45014408 ATTGGCCCGC
45014418 AAAG-AA
1 AAAGAAA
45014424 AAA-AAA
1 AAAGAAA
45014430 AAAGAAA
1 AAAGAAA
45014437 AAAGAAA
1 AAAGAAA
45014444 AAAG-AA
1 AAAGAAA
45014450 AAAGAAA
1 AAAGAAA
45014457 GCATTATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 14 0.47
7 16 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:45014442 original size:19 final size:20
Alignment explanation
Indices: 45014418--45014456 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
45014408 ATTGGCCCGC
45014418 AAAGAAAAAA-AAAAAGAAA
1 AAAGAAAAAAGAAAAAGAAA
45014437 AAAGAAAAAAGAAAAAGAAA
1 AAAGAAAAAAGAAAAAGAAA
45014457 GCATTATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAGAAAAAGAAA
Found at i:45014745 original size:23 final size:23
Alignment explanation
Indices: 45014691--45014746 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
45014681 AGGGAGAAGC
*
45014691 AAAAGA-TAATAGAAAATAAAAA
1 AAAAGATTAAAAGAAAATAAAAA
* *
45014713 AAAAGTTTAAAAGAACATAAAAGA
1 AAAAGATTAAAAGAAAATAAAA-A
45014737 AAAA-ATTAAA
1 AAAAGATTAAA
45014747 TTGCTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 18 0.64
24 5 0.18
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (23 bp):
AAAAGATTAAAAGAAAATAAAAA
Found at i:45015183 original size:20 final size:20
Alignment explanation
Indices: 45015154--45015201 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45015144 TTTATTTTTA
* *
45015154 ATTTTAATCCACATTTTTATG
1 ATTTT-ATCCACAATTTCATG
*
45015175 GTTTTATCCACAATTTCATG
1 ATTTTATCCACAATTTCATG
45015195 ATTTTAT
1 ATTTTAT
45015202 TTTGTCCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (20 bp):
ATTTTATCCACAATTTCATG
Found at i:45017479 original size:18 final size:19
Alignment explanation
Indices: 45017442--45017488 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
45017432 AATAATTATA
45017442 AAAATATTATTTATTTTTT
1 AAAATATTATTTATTTTTT
*
45017461 AGAATATTATTTA-TTTTT
1 AAAATATTATTTATTTTTT
45017479 AAAATATTAT
1 AAAATATTAT
45017489 CATATTAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAAATATTATTTATTTTTT
Found at i:45025368 original size:21 final size:22
Alignment explanation
Indices: 45025305--45025368 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 22
45025295 TTCTAATAAC
*
45025305 TTTTATAAAATTAATAAAACATA
1 TTTTATAAAATTAATATAA-ATA
45025328 TTTTATAAAA--ACATATTAAA-A
1 TTTTATAAAATTA-ATA-TAAATA
*
45025349 TTTTATAAAATTGATATAAA
1 TTTTATAAAATTAATATAAA
45025369 CTTATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 16 0.46
22 7 0.20
23 12 0.34
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTATAAAATTAATATAAATA
Found at i:45025947 original size:10 final size:9
Alignment explanation
Indices: 45025934--45026022 Score: 56
Period size: 10 Copynumber: 9.4 Consensus size: 9
45025924 TTTATCAGAA
45025934 TTTATTAATT
1 TTTA-TAATT
*
45025944 TTTAT-AGT
1 TTTATAATT
45025952 TTTATAATGT
1 TTTATAAT-T
45025962 TTT-TAAGTT
1 TTTATAA-TT
45025971 TTTATAATT
1 TTTATAATT
*
45025980 TTAATAAGTT
1 TTTATAA-TT
* *
45025990 TATATCAAAT
1 TTTAT-AATT
*
45026000 TTAATATATT
1 TTTATA-ATT
*
45026010 TTTATATTT
1 TTTATAATT
45026019 TTTA
1 TTTA
45026023 ATATTTAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
8 7 0.11
9 24 0.39
10 28 0.46
11 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:45025955 original size:18 final size:19
Alignment explanation
Indices: 45025891--45025990 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 19
45025881 CCAATTTTAA
45025891 ATAAGTTTTATTAA-TTTT
1 ATAAGTTTTATTAATTTTT
* * *
45025909 AT-ACTTTT-TTTATAATTT
1 ATAAGTTTTATTAAT-TTTT
* *
45025927 ATCAGAATTTATTAATTTTT
1 ATAAG-TTTTATTAATTTTT
45025947 AT-AGTTTTA-TAATGTTTT
1 ATAAGTTTTATTAAT-TTTT
*
45025965 -TAAGTTTT-TATAATTTTA
1 ATAAGTTTTAT-TAATTTTT
45025983 ATAAGTTT
1 ATAAGTTT
45025991 ATATCAAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.05
17 10 0.16
18 24 0.38
19 14 0.22
20 8 0.13
21 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
ATAAGTTTTATTAATTTTT
Found at i:45025966 original size:19 final size:19
Alignment explanation
Indices: 45025942--45025978 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
45025932 AATTTATTAA
45025942 TTTTTATAG-TTTTATAATG
1 TTTTTA-AGTTTTTATAATG
45025961 TTTTTAAGTTTTTATAAT
1 TTTTTAAGTTTTTATAAT
45025979 TTTAATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TTTTTAAGTTTTTATAATG
Found at i:45025990 original size:27 final size:26
Alignment explanation
Indices: 45025915--45025992 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
45025905 TTTTATACTT
*
45025915 TTTTTATAA-TTTATCAGAATTTATTAA
1 TTTTTATAATTTTAT-A-AGTTTATTAA
*
45025942 TTTTTATAGTTTTATAATGTTT-TTAA
1 TTTTTATAATTTTATAA-GTTTATTAA
45025968 GTTTTTATAATTTTAATAAGTTTAT
1 -TTTTTATAATTTT-ATAAGTTTAT
45025993 ATCAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
26 5 0.12
27 28 0.65
28 10 0.23
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTTTATAATTTTATAAGTTTATTAA
Found at i:45026004 original size:20 final size:19
Alignment explanation
Indices: 45025965--45026005 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45025955 ATAATGTTTT
* *
45025965 TAAGTTTTTATAATTTTAA
1 TAAGTTTATATAAATTTAA
45025984 TAAGTTTATATCAAATTTAA
1 TAAGTTTATAT-AAATTTAA
45026004 TA
1 TA
45026006 TATTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAGTTTATATAAATTTAA
Found at i:45034659 original size:18 final size:18
Alignment explanation
Indices: 45034636--45034684 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
45034626 ATATAATATG
45034636 TTATTCGAATTATTAGAA
1 TTATTCGAATTATTAGAA
* *
45034654 TTATTC-AAGTTATTTGAG
1 TTATTCGAA-TTATTAGAA
*
45034672 TTATTTGAATTAT
1 TTATTCGAATTAT
45034685 AAAATTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (18 bp):
TTATTCGAATTATTAGAA
Found at i:45040612 original size:7 final size:7
Alignment explanation
Indices: 45040600--45040644 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
45040590 TTGCAGATTA
45040600 AAAATTC
1 AAAATTC
45040607 AAAATTC
1 AAAATTC
45040614 AAAATTC
1 AAAATTC
45040621 AAAATTC
1 AAAATTC
45040628 AAAATTC
1 AAAATTC
45040635 AAAATTC
1 AAAATTC
45040642 AAA
1 AAA
45040645 TTTGAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:45040656 original size:7 final size:7
Alignment explanation
Indices: 45040646--45040689 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
45040636 AAATTCAAAT
45040646 TTGAAGA
1 TTGAAGA
45040653 TTGAAGA
1 TTGAAGA
*
45040660 TTGAAAA
1 TTGAAGA
*
45040667 TTGAAAA
1 TTGAAGA
**
45040674 TTGGGGA
1 TTGAAGA
45040681 TTGAAGA
1 TTGAAGA
45040688 TT
1 TT
45040690 TAGGAAGGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (7 bp):
TTGAAGA
Found at i:45040671 original size:21 final size:21
Alignment explanation
Indices: 45040588--45040685 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 21
45040578 AATAAAATAT
* * *
45040588 AATTGCAGATTAAAAATTCAA
1 AATTGAAGATTGAAAATTGAA
* * * *
45040609 AATTCAAAATTCAAAATTCAA
1 AATTGAAGATTGAAAATTGAA
* * * *
45040630 AATTCAAAATTCAAATTTGAA
1 AATTGAAGATTGAAAATTGAA
*
45040651 GATTGAAGATTGAAAATTGAA
1 AATTGAAGATTGAAAATTGAA
**
45040672 AATTGGGGATTGAA
1 AATTGAAGATTGAA
45040686 GATTTAGGAA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (21 bp):
AATTGAAGATTGAAAATTGAA
Found at i:45045701 original size:10 final size:10
Alignment explanation
Indices: 45045686--45045710 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45045676 CAAATCTAAC
45045686 ATTATGTAAA
1 ATTATGTAAA
45045696 ATTATGTAAA
1 ATTATGTAAA
45045706 ATTAT
1 ATTAT
45045711 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:45045755 original size:55 final size:55
Alignment explanation
Indices: 45045694--45045874 Score: 344
Period size: 55 Copynumber: 3.3 Consensus size: 55
45045684 ACATTATGTA
45045694 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* *
45045749 AAATTATGCAAAATTATTAAGTCCAAAAATTGTGTTAATGGCTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
45045804 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
45045859 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
45045875 GGTTAGGGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 122 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:45045922 original size:30 final size:29
Alignment explanation
Indices: 45045869--45046031 Score: 276
Period size: 29 Copynumber: 5.6 Consensus size: 29
45045859 AAATTATGTA
45045869 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
45045898 AAATTAGGTTAGTGCAG-T-GGGTTTTTAATT
1 AAATTAGGTTAG-G--GTTAGGGTTTTTAATT
45045928 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
45045958 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
45045987 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
45046016 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
45046032 TTTAATTAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 12
0.91 0.00 0.09
Matches are distributed among these distances:
27 1 0.01
29 74 0.58
30 51 0.40
31 1 0.01
32 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:45045942 original size:59 final size:58
Alignment explanation
Indices: 45045869--45046031 Score: 276
Period size: 59 Copynumber: 2.8 Consensus size: 58
45045859 AAATTATGTA
45045869 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGCAG-T-GGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG-G--GTTAGGGTTTTTAATT
45045928 AAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
45045987 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
45046032 TTTAATTAAA
Statistics
Matches: 101, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
57 1 0.01
58 32 0.32
59 41 0.41
60 27 0.27
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.44
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:45046038 original size:18 final size:18
Alignment explanation
Indices: 45046001--45046053 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
45045991 TAGGTTAGGG
45046001 TTAGGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAATT-AA--A
45046022 GGTTAGGGTTTTTAATTAAA
1 --TTAGGGTTTTTAATTAAA
45046042 TTAGGGTTTTTA
1 TTAGGGTTTTTA
45046054 TTACATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.40
20 1 0.03
22 2 0.07
23 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:45046160 original size:71 final size:71
Alignment explanation
Indices: 45046052--45046236 Score: 307
Period size: 71 Copynumber: 2.6 Consensus size: 71
45046042 TTAGGGTTTT
45046052 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
45046117 CTATGCC
65 CTATGCC
** * *
45046124 TATTTTATCAAATAAACTTCTATTTTATTATTTCAAATAATATCAAAATAACTTGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
45046189 TATGCG
66 TATGCC
*
45046195 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTATATCAAATAATA
45046237 AATTTAAATA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 92 0.88
72 12 0.12
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:45046665 original size:18 final size:18
Alignment explanation
Indices: 45046638--45046672 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45046628 CGAAAAAGGA
* *
45046638 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
45046656 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
45046673 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:45047334 original size:7 final size:7
Alignment explanation
Indices: 45047324--45047348 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45047314 TTATATACAT
45047324 AATACTA
1 AATACTA
45047331 AATACTA
1 AATACTA
45047338 AATACTA
1 AATACTA
45047345 AATA
1 AATA
45047349 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:45048448 original size:10 final size:10
Alignment explanation
Indices: 45048429--45048481 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
45048419 GCCATTGATG
45048429 AAAATATAAA
1 AAAATATAAA
*
45048439 AAAATTTAAA
1 AAAATATAAA
* * *
45048449 ATTATTTTAAA
1 A-AAATATAAA
45048460 AAAATATAAAA
1 AAAATAT-AAA
45048471 AAAATATAAA
1 AAAATATAAA
45048481 A
1 A
45048482 TTATTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATATAAA
Found at i:45048464 original size:31 final size:32
Alignment explanation
Indices: 45048429--45048494 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
45048419 GCCATTGATG
*
45048429 AAAATAT-AAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATATAAAATTATTTTAAA
45048460 AAAATATAAAAAAAATATAAAATTATTTTAAA
1 AAAATATAAAAAAAATATAAAATTATTTTAAA
45048492 AAA
1 AAA
45048495 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 7 0.21
32 26 0.79
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAATATAAAAAAAATATAAAATTATTTTAAA
Found at i:45048555 original size:51 final size:51
Alignment explanation
Indices: 45048496--45048610 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
45048486 TTTAAAAAAT
* *
45048496 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAAATTTGGAAG
*
45048547 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAAATTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAAATTTGGAAG
45048598 GAAATTGAGAGGA
1 GAAATTGAGAGGA
45048611 TTAGAGAGGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAAATTTGGAAG
Found at i:45049188 original size:18 final size:17
Alignment explanation
Indices: 45049155--45049199 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
45049145 TTCTAATTTT
45049155 TTTAAAAATTATTAAAA
1 TTTAAAAATTATTAAAA
45049172 TTTAAATAATTGA-TAAAA
1 TTTAAA-AATT-ATTAAAA
*
45049190 TTCAAAAATT
1 TTTAAAAATT
45049200 TTATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 14 0.56
19 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAAAATTATTAAAA
Found at i:45049205 original size:18 final size:18
Alignment explanation
Indices: 45049158--45049207 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
45049148 TAATTTTTTT
* *
45049158 AAAAATTAT-TAAAATTT
1 AAAAATTTTATAAAATTC
*
45049175 AAATAA-TTGATAAAATTC
1 AAA-AATTTTATAAAATTC
45049193 AAAAATTTTATAAAA
1 AAAAATTTTATAAAA
45049208 ATAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAATTTTATAAAATTC
Found at i:45053271 original size:5 final size:5
Alignment explanation
Indices: 45053261--45053285 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45053251 CATAAACAAG
45053261 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
45053286 TAACGAATGT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:45055988 original size:2 final size:2
Alignment explanation
Indices: 45055981--45056015 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
45055971 AAACTAAAAC
45055981 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45056016 GCTCCACTGA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45056674 original size:14 final size:14
Alignment explanation
Indices: 45056655--45056681 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45056645 GAGTTGACAA
45056655 AAAAAAGAAAAAGG
1 AAAAAAGAAAAAGG
45056669 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
45056682 TGGAAACAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:45074988 original size:13 final size:14
Alignment explanation
Indices: 45074970--45074998 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45074960 ATAATATAAC
45074970 TATATTTAAT-ATT
1 TATATTTAATAATT
45074983 TATATTTAATAATT
1 TATATTTAATAATT
45074997 TA
1 TA
45074999 GTAAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTAATAATT
Found at i:45077778 original size:17 final size:17
Alignment explanation
Indices: 45077758--45077802 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
45077748 AGATAAGTGG
*
45077758 CATTGTAAGAACGTTTA
1 CATTGCAAGAACGTTTA
45077775 CATTGCAAGAACGTTTA
1 CATTGCAAGAACGTTTA
45077792 CATTGCAAGAA
1 CATTGCAAGAA
45077803 AGATAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (17 bp):
CATTGCAAGAACGTTTA
Found at i:45078897 original size:24 final size:25
Alignment explanation
Indices: 45078847--45078897 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
45078837 ATTTTTAGAA
*
45078847 AAATTAATTTTGATCAAGTAAAATT
1 AAATTAATTTAGATCAAGTAAAATT
* *
45078872 AAATTAA-TTAGATTAATTAAAATT
1 AAATTAATTTAGATCAAGTAAAATT
45078896 AA
1 AA
45078898 TATGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (25 bp):
AAATTAATTTAGATCAAGTAAAATT
Found at i:45079362 original size:20 final size:19
Alignment explanation
Indices: 45079337--45079386 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
45079327 TAATAGTATT
45079337 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
45079356 CTTATT-ATGTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
45079376 -T-TTAATTTAAT
1 TTATTAATTTAAT
45079387 GTTTATATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:45079465 original size:62 final size:62
Alignment explanation
Indices: 45079365--45079484 Score: 140
Period size: 62 Copynumber: 1.9 Consensus size: 62
45079355 ACTTATTATG
* *
45079365 TTAATATTAAATTTAATTTAATGTTTATATTGTAGAT-AATCATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATGTTTATATTGTAGATAAAT-ATTATATTAATTTAATAAGAT
* *
45079427 TTAATATTAAATTTAATCTT-CTAGTATT-TATT-TTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAAT-TTAAT-GT-TTATATTGTAGATAAATATTATATTAATTTAATA
45079485 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
62 37 0.74
63 11 0.22
64 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (62 bp):
TTAATATTAAATTTAATTTAATGTTTATATTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:45086688 original size:24 final size:24
Alignment explanation
Indices: 45086656--45086705 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
45086646 TTGAATAAAC
45086656 TTAAATGAAAAGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
* *
45086680 TTAAGTGAAAGGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
45086704 TT
1 TT
45086706 TTTTTAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (24 bp):
TTAAATGAAAAGTCAAGAGTTATG
Found at i:45090967 original size:24 final size:24
Alignment explanation
Indices: 45090935--45090984 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
45090925 TTGAATAAAC
45090935 TTAAATGAAAAGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
*
45090959 TTAAATGAAAGGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
45090983 TT
1 TT
45090985 TTTTTTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (24 bp):
TTAAATGAAAAGTCAAGAGTTATG
Found at i:45098884 original size:20 final size:20
Alignment explanation
Indices: 45098859--45098900 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
45098849 TTCATAAAAC
45098859 CTGAACCTATGTTGTGTTAT
1 CTGAACCTATGTTGTGTTAT
45098879 CTGAACCTATGTTGTGTTAT
1 CTGAACCTATGTTGTGTTAT
45098899 CT
1 CT
45098901 ATGGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (20 bp):
CTGAACCTATGTTGTGTTAT
Found at i:45100923 original size:30 final size:30
Alignment explanation
Indices: 45100889--45100951 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
45100879 GCAAGTGAAC
*
45100889 CATTTGTTTATTTACATGTATTAGTGTATA
1 CATTTGTTTATTTACATGCATTAGTGTATA
45100919 CATTTGTTTATTTACATGCATTAGTGTATA
1 CATTTGTTTATTTACATGCATTAGTGTATA
45100949 CAT
1 CAT
45100952 GTCTATAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (30 bp):
CATTTGTTTATTTACATGCATTAGTGTATA
Found at i:45104846 original size:22 final size:22
Alignment explanation
Indices: 45104820--45104863 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45104810 TATCGAGTCT
45104820 TCCTCTTAGTCCCACTAAAAAG
1 TCCTCTTAGTCCCACTAAAAAG
*
45104842 TCCTCTTAGTCCTACTAAAAAG
1 TCCTCTTAGTCCCACTAAAAAG
45104864 AACGTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (22 bp):
TCCTCTTAGTCCCACTAAAAAG
Found at i:45105295 original size:15 final size:15
Alignment explanation
Indices: 45105275--45105305 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45105265 TGGAAGAAGG
45105275 TACAGATCACCCACA
1 TACAGATCACCCACA
45105290 TACAGATCACCCACA
1 TACAGATCACCCACA
45105305 T
1 T
45105306 GTTGGTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.16
Consensus pattern (15 bp):
TACAGATCACCCACA
Found at i:45105769 original size:16 final size:16
Alignment explanation
Indices: 45105748--45105778 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45105738 TTTTGGTAAT
45105748 AGAAATAAAAGAATTG
1 AGAAATAAAAGAATTG
45105764 AGAAATAAAAGAATT
1 AGAAATAAAAGAATT
45105779 CCACTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (16 bp):
AGAAATAAAAGAATTG
Found at i:45106774 original size:12 final size:12
Alignment explanation
Indices: 45106759--45106801 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
45106749 GTAATTAAAA
45106759 ACTTGATTAATG
1 ACTTGATTAATG
*
45106771 ACTTGATTCATG
1 ACTTGATTAATG
45106783 ACTTGATTCAA-G
1 ACTTGATT-AATG
45106795 ACTTGAT
1 ACTTGAT
45106802 GATAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 27 0.96
13 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (12 bp):
ACTTGATTAATG
Found at i:45108163 original size:22 final size:21
Alignment explanation
Indices: 45108127--45108167 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
45108117 ATGAAAATAA
*
45108127 AATAAAATAGTAAAATTAAAT
1 AATAAAATAGGAAAATTAAAT
45108148 AATAATAATAGGAAAATTAA
1 AATAA-AATAGGAAAATTAA
45108168 TTTTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAAAATAGGAAAATTAAAT
Found at i:45115353 original size:25 final size:23
Alignment explanation
Indices: 45115310--45115356 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45115300 ATTTTCCTAT
45115310 TATTATTATTTATTTATTTTTAC
1 TATTATTATTTATTTATTTTTAC
45115333 TATT-TTATTTTATTTTCATTTTTA
1 TATTATTA-TTTA-TTT-ATTTTTA
45115357 TTTTTGCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 8 0.38
24 3 0.14
25 7 0.33
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTATTATTTATTTATTTTTAC
Found at i:45115361 original size:23 final size:20
Alignment explanation
Indices: 45115309--45115361 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 20
45115299 AATTTTCCTA
*
45115309 TTATTATTATTTATTTATTT
1 TTATTTTTATTTATTTATTT
45115329 TTACTATTTTATTTTATTTTCATTT
1 TTA-T-TTTTA-TTTA-TTT-ATTT
45115354 TTATTTTT
1 TTATTTTT
45115362 GCAGGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 4 0.15
23 8 0.30
24 4 0.15
25 7 0.26
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATTTTTATTTATTTATTT
Found at i:45116477 original size:29 final size:31
Alignment explanation
Indices: 45116435--45116508 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
45116425 ATGTAATTTG
* *
45116435 GGGCTAAATAGAAGAAA-AAGGAAACAATTA
1 GGGCTAAATAGAAGAAAGAAGCAAACAATGA
* *
45116465 GGGC-AAATTGAAGAAAGAAGCAAAGAATGA
1 GGGCTAAATAGAAGAAAGAAGCAAACAATGA
*
45116495 GGGCCAAAGTAGAA
1 GGGCTAAA-TAGAA
45116509 TTTTTCCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 11 0.31
30 18 0.50
31 3 0.08
32 4 0.11
ACGTcount: A:0.53, C:0.08, G:0.28, T:0.11
Consensus pattern (31 bp):
GGGCTAAATAGAAGAAAGAAGCAAACAATGA
Found at i:45119900 original size:3 final size:3
Alignment explanation
Indices: 45119894--45119936 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45119884 TATTCAACTA
45119894 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
45119937 GTTGTTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:45119948 original size:3 final size:3
Alignment explanation
Indices: 45119937--45119987 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
45119927 ATTATTATTA
45119937 GTT GTTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT G-TT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
45119983 GTT GT
1 GTT GT
45119988 ATTTATTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:45120027 original size:2 final size:2
Alignment explanation
Indices: 45120020--45120047 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45120010 TTATTTTTGT
45120020 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
45120048 CTTACCTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45121449 original size:41 final size:41
Alignment explanation
Indices: 45121417--45121522 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
45121407 ACCAGCTTTT
* *
45121417 AGCCTGCTAAACTTATAGTCTGAAATGTTTCACCTGCATCA
1 AGCCTACTAAACTTATAGTCTGAAATGTTTCACCAGCATCA
* * *
45121458 AGCCTACTAGACTTATAGTTTGAAATGTTTCACCGGCATCA
1 AGCCTACTAAACTTATAGTCTGAAATGTTTCACCAGCATCA
* * * *
45121499 AGCCTGCTAGACATAAAGTCTGAA
1 AGCCTACTAAACTTATAGTCTGAA
45121523 TCATCTCACT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (41 bp):
AGCCTACTAAACTTATAGTCTGAAATGTTTCACCAGCATCA
Found at i:45129933 original size:2 final size:2
Alignment explanation
Indices: 45129928--45129955 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45129918 GAAGTTGCTT
45129928 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
45129956 ATGTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45136971 original size:22 final size:20
Alignment explanation
Indices: 45136937--45136978 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
45136927 ATTACTTTCC
*
45136937 TGTATTCAATTTTCTTTTAA
1 TGTATTCAATTTTCCTTTAA
45136957 TGTATATCATATTTTCCTTTAA
1 TGTAT-TCA-ATTTTCCTTTAA
45136979 AACTTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (20 bp):
TGTATTCAATTTTCCTTTAA
Found at i:45142243 original size:16 final size:17
Alignment explanation
Indices: 45142222--45142256 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
45142212 AATTAATTTA
*
45142222 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
45142238 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
45142255 AA
1 AA
45142257 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:45150949 original size:18 final size:18
Alignment explanation
Indices: 45150915--45150955 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
45150905 GGTTTTCGTA
45150915 TTTTTTTTCGTTCAAATT
1 TTTTTTTTCGTTCAAATT
*
45150933 TATTTTTTTGGTT-AAATT
1 T-TTTTTTTCGTTCAAATT
45150951 TTTTT
1 TTTTT
45150956 ATAAAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 10 0.48
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTTTTTTCGTTCAAATT
Found at i:45151715 original size:12 final size:12
Alignment explanation
Indices: 45151700--45151754 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
45151690 AACAAATCCT
45151700 CTCTCAAATTTC
1 CTCTCAAATTTC
*
45151712 CTCTC-AATTTT
1 CTCTCAAATTTC
45151723 CTCTC-AATTTC
1 CTCTCAAATTTC
45151734 CT-TCCAAATTT-
1 CTCT-CAAATTTC
*
45151745 ATCTCAAATT
1 CTCTCAAATT
45151755 CATATTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 1 0.03
11 25 0.68
12 11 0.30
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:45151725 original size:23 final size:23
Alignment explanation
Indices: 45151699--45151754 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
45151689 AAACAAATCC
*
45151699 TCTCTCAAATTTCC-TCTCAATTT
1 TCTCTCAAATTTCCTTC-CAAATT
45151722 TCTCTC-AATTTCCTTCCAAATT
1 TCTCTCAAATTTCCTTCCAAATT
*
45151744 TATCTCAAATT
1 TCTCTCAAATT
45151755 CATATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:45154433 original size:26 final size:26
Alignment explanation
Indices: 45154401--45154483 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
45154391 AGCTTTTCGG
45154401 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* * *
45154427 TACACAT-GTGGCCATCATTTA-T-C
1 TACACATAGTAGCCTTCACTTAGTAC
* **
45154450 GATACACGTAGTAGCCTTCACACAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
45154478 TACACA
1 TACACA
45154484 CATGACCAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 17 0.40
26 21 0.50
27 1 0.02
28 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:45154494 original size:102 final size:102
Alignment explanation
Indices: 45154295--45154636 Score: 449
Period size: 102 Copynumber: 3.4 Consensus size: 102
45154285 ACTTTAATCG
* * *** *
45154295 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CTG-TTCACGTA
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATC-GATACACGTA
* *
45154358 GTAGCCTTCACATAGTACTACACACGTGATCAAAGCTT
65 GTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * *
45154396 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGGCCATCATTTATCGATACACGTAG
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACACGTAG
*
45154461 TAGCCTTCACACAGTACTACACACATGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * * *
45154498 CTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAG
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACACGTAG
*
45154563 TAGCCTTCACACAGTACTACACACGTGACCATTA--TT
66 TAGCCTTCACACAGTACTACACACGTGACCA-AAGCTT
* * *
45154599 TACCGATACACGTAGTAGCCTTCACACAGTACTACACA
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACA
45154637 CGTGTTCATC
Statistics
Matches: 214, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
101 47 0.22
102 166 0.78
103 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (102 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:45154579 original size:153 final size:151
Alignment explanation
Indices: 45154296--45154637 Score: 445
Period size: 153 Copynumber: 2.2 Consensus size: 151
45154286 CTTTAATCGT
* * * * * * * *
45154296 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
* * **
45154361 GCCTTCACATAGTACTACACACGTGATCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTAGCCTTCACACAGTA
* *
45154426 CTACACATGTGGCCATCATTTA
130 CTACACACGTGACCATCATTTA
45154448 TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCT-CGGTACACATAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACC-AAG-TTCTACGGTACACATAG
* * * *
45154512 TAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACGTAGTAGCCTTCACACA
64 TAGCCTTCACATAGTACTACACACGTGACCA-AACTTT-TCGATACACATAGTAGCCTTCACACA
*
45154576 GTACTACACACGTGACCATTATTTA
127 GTACTACACACGTGACCATCATTTA
*
45154601 CCGATACACGTAGTAGCCTTCACACAGTACTACACAC
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACAC
45154638 GTGTTCATCG
Statistics
Matches: 166, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
152 42 0.25
153 120 0.72
154 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (151 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAACTTTTCGATACACATAGTAGCCTTCACACAGTAC
TACACACGTGACCATCATTTA
Found at i:45154637 original size:51 final size:51
Alignment explanation
Indices: 45154297--45154640 Score: 367
Period size: 51 Copynumber: 6.8 Consensus size: 51
45154287 TTTAATCGTT
* * *
45154297 CGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTAC
* * * * *
45154348 TG-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AAGCTTT-T
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA--TTTAC
* * * * * * *
45154398 CGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGGCCATCATTTAT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTAC
* * * *
45154449 CGATACACGTAGTAGCCTTCACACAGTACTACACACATGACCA-AAGCTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTAC
* * * * *
45154499 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTAT
1 -CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTAC
*
45154551 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCATTATTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTAC
*
45154602 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
45154641 TTCATCGATA
Statistics
Matches: 243, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.00
50 40 0.16
51 200 0.82
52 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTAC
Found at i:45157306 original size:18 final size:18
Alignment explanation
Indices: 45157279--45157318 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45157269 CAGGTGCGTT
* *
45157279 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
45157297 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
45157315 TCCT
1 TCCT
45157319 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:45157586 original size:21 final size:21
Alignment explanation
Indices: 45157560--45157606 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45157550 CAACTCCGAC
* *
45157560 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCCACCGCAAG
45157581 AACCAGAATCCCCACCGCAAG
1 AACCAGAATCCCCACCGCAAG
45157602 AACCA
1 AACCA
45157607 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.38, C:0.38, G:0.17, T:0.06
Consensus pattern (21 bp):
AACCAGAATCCCCACCGCAAG
Found at i:45157614 original size:21 final size:21
Alignment explanation
Indices: 45157573--45157614 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45157563 CAGATGCCCT
* * *
45157573 ACCGGAAGAACCAGAATCCCC
1 ACCGCAAGAACCACAACCCCC
45157594 ACCGCAAGAACCACAACCCCC
1 ACCGCAAGAACCACAACCCCC
45157615 GCCGAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.45, G:0.14, T:0.02
Consensus pattern (21 bp):
ACCGCAAGAACCACAACCCCC
Found at i:45157930 original size:21 final size:22
Alignment explanation
Indices: 45157901--45158215 Score: 291
Period size: 22 Copynumber: 14.0 Consensus size: 22
45157891 CCCTAATCTT
*
45157901 AACCCTTAACTTAAAAACCCT-
1 AACCCTTAACCTAAAAACCCTA
* **
45157922 AACCATTAAATTAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
* *
45157944 AACCCTAAACCTAAAAACCATA
1 AACCCTTAACCTAAAAACCCTA
*
45157966 AACCCTTAAGCTAAAAATCGCAACCCTA
1 AACCCTTAACCT--AAA----AACCCTA
**
45157994 AACCCCAAACCTAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
* * * *
45158016 CACAC-TAAACTTAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
45158037 AACCCTTAACCTAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
* * *
45158059 AACCATAAACCTAAAAATCCT-
1 AACCCTTAACCTAAAAACCCTA
*
45158080 AACCCTCAACCTAAAAATTGTACCCTA
1 AACCCTTAACCT-AAAA----ACCCTA
*
45158107 AA-CCTCAAACCTAAAAACCCT-
1 AACCCT-TAACCTAAAAACCCTA
45158128 AACCCTTAACCTAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
*
45158150 AACCCCTAACCTAAAAACCCT-
1 AACCCTTAACCTAAAAACCCTA
*
45158171 AACCCTCAACCTAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
*
45158193 AACCCTTAACATAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTA
45158215 A
1 A
45158216 CCTAAAGGCT
Statistics
Matches: 241, Mismatches: 35, Indels: 35
0.77 0.11 0.11
Matches are distributed among these distances:
21 80 0.33
22 122 0.51
24 3 0.01
26 14 0.06
27 7 0.03
28 15 0.06
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (22 bp):
AACCCTTAACCTAAAAACCCTA
Found at i:45157949 original size:43 final size:44
Alignment explanation
Indices: 45157901--45158215 Score: 277
Period size: 43 Copynumber: 7.0 Consensus size: 44
45157891 CCCTAATCTT
* *
45157901 AACCCTTAACTTAAAAACCCT-AACCATTAAATTAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
* * * *
45157944 AACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAAATCGCAACCCTA
1 AACCCTTAACCTAAAAACCCTAAACCATTAAACT--AAA----AACCCTA
** * * *
45157994 AACCCCAAACCTAAAAACCCTACA-CACTAAACTTAAAACCCTA
1 AACCCTTAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
*
45158037 AACCCTTAACCTAAAAACCCTAAACCA-TAAACCTAAAAATCCT-
1 AACCCTTAACCTAAAAACCCTAAACCATTAAA-CTAAAAACCCTA
* *
45158080 AACCCTCAACCTAAAAATTGTACCCTAAACC-TCAAACCTAAAAACCCT-
1 AACCCTTAACCT-AAAA----ACCCTAAACCATTAAA-CTAAAAACCCTA
** *
45158128 AACCCTTAACCTAAAAACCCTAAACCCCTAACCTAAAAACCCT-
1 AACCCTTAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
* *
45158171 AACCCTCAACCTAAAAACCCTAAACCCTT-AACATAAAAACCCTA
1 AACCCTTAACCTAAAAACCCTAAACCATTAAAC-TAAAAACCCTA
45158215 A
1 A
45158216 CCTAAAGGCT
Statistics
Matches: 226, Mismatches: 28, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.01
43 119 0.53
44 27 0.12
46 3 0.01
47 6 0.03
48 35 0.15
49 6 0.03
50 28 0.12
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (44 bp):
AACCCTTAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
Found at i:45158031 original size:50 final size:50
Alignment explanation
Indices: 45157937--45158031 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
45157927 TTAAATTAAA
* * *
45157937 AACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAAATCGC
1 AACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCGC
* * *
45157987 AACCCTAAACCCCAAACCTAAAAACCCTACACAC-TAAACTTAAAA
1 AACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAA
45158032 CCCTAAACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 9 0.23
50 30 0.77
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (50 bp):
AACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCGC
Found at i:45158035 original size:93 final size:93
Alignment explanation
Indices: 45157912--45158181 Score: 250
Period size: 93 Copynumber: 2.9 Consensus size: 93
45157902 ACCCTTAACT
* * * *
45157912 TAAAAACCCTAACCATTAAATTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAAGC
1 TAAAAACCCTAACCACTAAATTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCATAAACC
45157977 TAAAAATCGC-AACCCTAAACCCCAAACC
66 TAAAAATC-CTAACCCTAAACCCCAAACC
* *
45158005 TAAAAACCCT-ACACACTAAACTT-AAAACCCTAAACCCTTAACCTAAAAACCCTAAACCATAAA
1 TAAAAACCCTAAC-CACTAAA-TTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCATAAA
* * **
45158068 CCTAAAAATCCTAACCCTCAA-CCTAAAAA
64 CCTAAAAATCCTAACCCTAAACCCCAAACC
*** * * * * *
45158097 T-TGTACCCTAAAC-CTCAAACCTAAAAACCCT-AACCCTTAACCTAAAAACCCTAAACCCCT-A
1 TAAAAACCCTAACCACT-AAA-TTAAAAACCCTAAACCCTAAACCTAAAAACCATAAA-CCATAA
* *
45158158 ACCTAAAAACCCTAACCCTCAACC
63 ACCTAAAAATCCTAACCCTAAACC
45158182 TAAAAACCCT
Statistics
Matches: 152, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
90 2 0.01
91 57 0.38
92 22 0.14
93 69 0.45
94 2 0.01
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (93 bp):
TAAAAACCCTAACCACTAAATTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCATAAACC
TAAAAATCCTAACCCTAAACCCCAAACC
Found at i:45158041 original size:50 final size:51
Alignment explanation
Indices: 45157936--45158047 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 51
45157926 ATTAAATTAA
* * * *
45157936 AAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAAATCGC
1 AAACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCCC
* * *
45157987 -AACCCTAAACCCCAAACCTAAAAACCCTACACAC-TAAACTTAAAA-CCC
1 AAACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCCC
*
45158035 TAAACCCTTAACC
1 -AAACCCTAAACC
45158048 TAAAAACCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.04
49 9 0.18
50 40 0.78
ACGTcount: A:0.47, C:0.36, G:0.02, T:0.15
Consensus pattern (51 bp):
AAACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCCC
Found at i:45161467 original size:125 final size:124
Alignment explanation
Indices: 45161224--45161596 Score: 548
Period size: 125 Copynumber: 3.0 Consensus size: 124
45161214 CAAACATGCT
*
45161224 ACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
*
45161289 GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTTCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTT-TTTCAGGACCA
* * * * ** *
45161349 ACTGTAGCAGAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCAGATCGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
* * * ** *
45161414 GAAGCGTTTTTTAAACTATTTACTCAGAAATGTCAACTCGAAATAATTTTTTCAGGACCT
66 GAAGCG-ATTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTTTTTCAGGACCA
* * **
45161474 ACTGTAGCAAAACCGCCTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAATA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
*
45161539 GAAGCAATTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTTTTTCAGGACC
66 GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTTTTTCAGGACC
45161597 CGAAAAATCC
Statistics
Matches: 215, Mismatches: 32, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
124 47 0.22
125 132 0.61
126 36 0.17
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTTTTTCAGGACCA
Found at i:45163104 original size:32 final size:32
Alignment explanation
Indices: 45163068--45163134 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
45163058 GGTTCTTTAA
45163068 AAATATTTCATAAAAGTCGTTCTCAATTAAAC
1 AAATATTTCATAAAAGTCGTTCTCAATTAAAC
*
45163100 AAATATTTCATAAAAGTCGTTGTCAATTAAAC
1 AAATATTTCATAAAAGTCGTTCTCAATTAAAC
45163132 AAA
1 AAA
45163135 CATGCATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (32 bp):
AAATATTTCATAAAAGTCGTTCTCAATTAAAC
Found at i:45163627 original size:18 final size:18
Alignment explanation
Indices: 45163589--45163624 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45163579 TTATTATTTT
*
45163589 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
45163607 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
45163625 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:45167326 original size:96 final size:96
Alignment explanation
Indices: 45167162--45167353 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
45167152 ACCAAGATTT
45167162 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
1 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
*
45167227 TCCATCGACAAATAAGCTCCTAGAATTAGCA
66 TCCATAGACAAATAAGCTCCTAGAATTAGCA
45167258 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
1 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
45167323 TCCATAGACAAATAAGCTCCTAGAATTAGCA
66 TCCATAGACAAATAAGCTCCTAGAATTAGCA
45167354 GTCTTTTCAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (96 bp):
CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
TCCATAGACAAATAAGCTCCTAGAATTAGCA
Found at i:45168944 original size:2 final size:2
Alignment explanation
Indices: 45168937--45168968 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45168927 ATATACATGC
45168937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45168969 TTACCGGGTA
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):
AT
Found at i:45169733 original size:9 final size:10
Alignment explanation
Indices: 45169708--45169741 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
45169698 ATAAATAATT
45169708 TAAAAAT-TA
1 TAAAAATATA
45169717 TAAAAATAT-
1 TAAAAATATA
45169726 TAAAAATATA
1 TAAAAATATA
45169736 TAAAAA
1 TAAAAA
45169742 GTTCATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAAATATA
Found at i:45169737 original size:19 final size:17
Alignment explanation
Indices: 45169698--45169741 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 17
45169688 TACTATATCA
45169698 ATAAATAATTTAAAAATT
1 ATAAA-AATTTAAAAATT
45169716 ATAAAAATATTAAAAATAT
1 ATAAAAAT-TTAAAAAT-T
45169735 ATAAAAA
1 ATAAAAA
45169742 GTTCATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAATTTAAAAATT
Found at i:45171196 original size:16 final size:16
Alignment explanation
Indices: 45171165--45171204 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
45171155 CGATTTGCTT
45171165 CTTTTTTTTCTTTTTG
1 CTTTTTTTTCTTTTTG
45171181 CCTTTTTTTTC-TTTTG
1 -CTTTTTTTTCTTTTTG
45171197 -TTTTTTTT
1 CTTTTTTTT
45171205 ATTTATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
16 5 0.22
17 10 0.43
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTG
Found at i:45172308 original size:42 final size:42
Alignment explanation
Indices: 45172083--45172287 Score: 347
Period size: 43 Copynumber: 4.8 Consensus size: 42
45172073 GTTTACAAAC
45172083 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
45172125 AAAAACGCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AA
* *
45172168 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-GAA
45172211 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
45172253 AAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
45172288 TTTATTATTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 74 0.48
43 78 0.51
44 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:45181515 original size:43 final size:42
Alignment explanation
Indices: 45181414--45181618 Score: 315
Period size: 42 Copynumber: 4.8 Consensus size: 42
45181404 TAATAATAAA
* *
45181414 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
45181456 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT-TTCTAAG
*
45181499 CGCCGCTAAAGAACATGGTCTTT-GAAGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAG-CGGCG-TTTTTTTCTAAG
*
45181542 CGCCTG-TAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCC-GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
45181584 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
45181619 GTTTGTAAAC
Statistics
Matches: 149, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 79 0.53
43 62 0.42
44 7 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:45181533 original size:85 final size:85
Alignment explanation
Indices: 45181414--45181630 Score: 314
Period size: 85 Copynumber: 2.5 Consensus size: 85
45181404 TAATAATAAA
* *
45181414 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTCTAAACGCC-GCTAAAGAACATGGTCT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAACGCCTG-TAAAGAACATGGTCT
45181477 TTAGCGGCGTTTTTCTCCTAAG
65 TTAGCGGCGTTTTT-TCCTAAG
* *
45181499 CGCCGCTAAAGAACATGGTCTTT-GAAGGCGTTTTTTTTCTAAGCGCCTGTAAAGAACATTGTCT
1 CGCCGCTAAAGAACATGGTCTTTAG-AGGCGTTTTTTTTCTAAACGCCTGTAAAGAACATGGTCT
*
45181563 TTAGCGGCGTTTTTTTCTAAG
65 TTAGCGGCGTTTTTTCCTAAG
* *
45181584 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTGTTTGTAAACGC
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTT-TTTCTAAACGC
45181631 TGCAGACGTT
Statistics
Matches: 119, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
84 1 0.01
85 64 0.54
86 53 0.45
87 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (85 bp):
CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAACGCCTGTAAAGAACATGGTCTT
TAGCGGCGTTTTTTCCTAAG
Found at i:45184332 original size:9 final size:9
Alignment explanation
Indices: 45184318--45184351 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
45184308 ATTTGAATTT
45184318 TATATTTGA
1 TATATTTGA
45184327 TATATTTGA
1 TATATTTGA
45184336 TATATTATGA
1 TATATT-TGA
*
45184346 AATATT
1 TATATT
45184352 GAATTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (9 bp):
TATATTTGA
Found at i:45184398 original size:21 final size:21
Alignment explanation
Indices: 45184358--45184412 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
45184348 TATTGAATTG
45184358 TTTTGAA--TTTA-ATAAAAT
1 TTTTGAATTTTTATATAAAAT
*
45184376 TTTAT-AATTTTTATATATAAT
1 TTT-TGAATTTTTATATAAAAT
45184397 TTTTGAATTTTTATAT
1 TTTTGAATTTTTATAT
45184413 TTTTAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.16
19 1 0.03
20 5 0.16
21 20 0.65
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTGAATTTTTATATAAAAT
Found at i:45189722 original size:14 final size:14
Alignment explanation
Indices: 45189703--45189733 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45189693 TCAAGTTGAG
*
45189703 TTGAATTTTAAAAT
1 TTGAATATTAAAAT
45189717 TTGAATATTAAAAT
1 TTGAATATTAAAAT
45189731 TTG
1 TTG
45189734 GATAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
TTGAATATTAAAAT
Found at i:45190840 original size:16 final size:18
Alignment explanation
Indices: 45190814--45190848 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45190804 TAAAATTGGG
45190814 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
45190831 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
45190848 T
1 T
45190849 AAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:45191508 original size:31 final size:29
Alignment explanation
Indices: 45191440--45191508 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
45191430 AGTATACTTG
* * * *
45191440 TTATTTTAAATAATATTATTTTGAATTAC
1 TTATTTAAAATAAAATTATTTTCAATAAC
*
45191469 TTACTTAAAATAAAATTATATTATCAATAAC
1 TTATTTAAAATAAAATTAT-TT-TCAATAAC
45191500 TTATTTAAA
1 TTATTTAAA
45191509 CATAGTAGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 16 0.50
30 2 0.06
31 14 0.44
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (29 bp):
TTATTTAAAATAAAATTATTTTCAATAAC
Found at i:45192037 original size:10 final size:9
Alignment explanation
Indices: 45192008--45192046 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
45191998 TCAAAGTCTT
45192008 TAATTTTTA
1 TAATTTTTA
45192017 T-ATTTTTA
1 TAATTTTTA
45192025 TAATTTTTAA
1 TAATTTTT-A
45192035 TAATTTTTA
1 TAATTTTTA
45192044 TAA
1 TAA
45192047 GTTTATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TAATTTTTA
Found at i:45199293 original size:2 final size:2
Alignment explanation
Indices: 45199286--45199341 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
45199276 ACCTTCCACT
45199286 TA TA TA TA TA 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 TA TA TA TA TA
45199328 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
45199342 CTGTTTTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45199354 original size:4 final size:4
Alignment explanation
Indices: 45199347--45199375 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
45199337 ATATACTGTT
45199347 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
45199376 GACATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:45210836 original size:23 final size:22
Alignment explanation
Indices: 45210796--45210838 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45210786 TTCAGGTATT
**
45210796 TTTTTATTCTTCTTTTTTTCCC
1 TTTTTATTCTTCCATTTTTCCC
45210818 TTTTTATATCTTCCATTTTTC
1 TTTTTAT-TCTTCCATTTTTC
45210839 TTCTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTCTTCCATTTTTCCC
Found at i:45212034 original size:30 final size:30
Alignment explanation
Indices: 45212000--45212574 Score: 713
Period size: 30 Copynumber: 19.2 Consensus size: 30
45211990 GCATATGTTT
* ** *
45212000 TATACATTACCGAATTGATTCATATTTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
** * *
45212030 TATACATTGTTGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
45212060 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
** * *
45212090 TATACATTGTTGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
45212120 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45212150 TATACATTGCCGAATTGATTCGTATTTGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
45212180 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45212210 TATACATTGCCGAATTGATTCGTATTTGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
45212240 TATACATTGCTGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
45212270 TATACATTGCCGAATTTATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
45212300 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45212330 TATACATTGCCGAATTTATTTGTATTTAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45212360 TATACATTGTCAAATTGATTCGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45212390 TGTACATTGCCGAACTAATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45212420 AATACATTACCGAATTGATTCGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* ** *
45212450 TATACATTACTAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
45212480 TATACATTGTCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
45212510 TATACATTGCCGAATTTATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
45212540 TATACATTGCCAAATTGATTTGTATAT-G-
1 TATACATTGCCGAATTGATTTGTATATGGA
45212568 TATACAT
1 TATACAT
45212575 ATATATTGCC
Statistics
Matches: 472, Mismatches: 73, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
28 7 0.01
29 1 0.00
30 464 0.98
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:45219692 original size:17 final size:16
Alignment explanation
Indices: 45219670--45219711 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
45219660 TTATTACTTC
45219670 ATATTTTAATAATAATT
1 ATATTTTAATAA-AATT
*
45219687 ATATTTT-ATTAAATT
1 ATATTTTAATAAAATT
*
45219702 ATATATTAAT
1 ATATTTTAAT
45219712 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTTAATAAAATT
Found at i:45221329 original size:68 final size:68
Alignment explanation
Indices: 45221220--45221356 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
45221210 TTATGTATGC
*
45221220 TTTTGTAGCTACCTAATTATGATTTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
1 TTTTGTAGCTACCTAATTATGATCTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
45221285 TGA
66 TGA
* *
45221288 TTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
1 TTTTGTAGCTACCTAATTATGATCTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
45221353 TGA
66 TGA
45221356 T
1 T
45221357 ACATCATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (68 bp):
TTTTGTAGCTACCTAATTATGATCTCGAGAATTTCCCTTTAGAACTAGCAATATTAGAGATGAAA
TGA
Found at i:45223228 original size:44 final size:46
Alignment explanation
Indices: 45223161--45223253 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
45223151 TTACAACTCT
*
45223161 ATTCCATTCAACCAAACACAAGAA-TAC-CATCACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
* *
45223205 ATTCCATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
45223251 ATT
1 ATT
45223254 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
Found at i:45223256 original size:16 final size:16
Alignment explanation
Indices: 45223235--45223287 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
45223225 AGAATTACTT
45223235 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
45223251 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
45223267 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
45223283 ATTAC
1 ATTAC
45223288 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Done.