Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 43 of 325
Found at i:12896913 original size:33 final size:33
Alignment explanation
Indices: 12896868--12896941 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
12896858 GGCTTTTAGC
12896868 GGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
1 GGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
* * *
12896901 GGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAA
1 GGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
*
12896934 GGCTTTTA
1 GGCGTTTA
12896942 GCGGCGTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.22
Consensus pattern (33 bp):
GGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
Found at i:12896960 original size:76 final size:79
Alignment explanation
Indices: 12896824--12897033 Score: 264
Period size: 76 Copynumber: 2.6 Consensus size: 79
12896814 AGGCTTTTAG
* * *
12896824 CGGCGTTTGTGGAAAAAGCGCCGCTATAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCC
1 CGGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCC
12896889 GCTAAACGTC-A-A
66 GCTAAACGTCAATA
* *
12896901 -GGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCC
1 CGGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCC
* *
12896965 GCTATAGGTCAAGGCTTTTA
66 GCTAAACGTCAA------TA
*
12896985 GCGGCGTTTGTGGGAAAAGCGGCGCTAAACGTCAAGGCTTTTAGCGGCG
1 -CGGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCG
12897034 CTTTTTTTAC
Statistics
Matches: 115, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
76 67 0.58
77 1 0.01
84 1 0.01
86 46 0.40
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (79 bp):
CGGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCC
GCTAAACGTCAATA
Found at i:12896993 original size:119 final size:119
Alignment explanation
Indices: 12896782--12897022 Score: 437
Period size: 119 Copynumber: 2.0 Consensus size: 119
12896772 GGCTTTTAGC
12896782 GGCGTGTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCG
1 GGCGTGTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCG
12896847 CTATAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
66 CTATAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
* * *
12896901 GGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCG
1 GGCGTGTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* *
12896966 CTATAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGGCGCTAAACGTCAA
66 CTATAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
12897020 GGC
1 GGC
12897023 TTTTAGCGGC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (119 bp):
GGCGTGTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCG
CTATAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAACGTCAA
Found at i:12897056 original size:162 final size:162
Alignment explanation
Indices: 12896740--12897033 Score: 516
Period size: 162 Copynumber: 1.8 Consensus size: 162
12896730 GCTTTTAGCA
12896740 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTGTGTGGGAAAAGCGCCGC
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTGTGTGGGAAAAGCGCCGC
* *
12896805 TAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTATAGGTCAAGGCTTTTAGCGG
66 TAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGG
12896870 CGTTTATGGGAAAAGCGCCGCTAAACGTCAAG
131 CGTTTATGGGAAAAGCGCCGCTAAACGTCAAG
* * *
12896902 GCGTTTGTGGGAAAAGCGGCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTGTGTGGGAAAAGCGCCGC
* * *
12896967 TATAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGGCGCTAAACGTCAAGGCTTTTAGCGG
66 TAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGG
12897032 CG
131 CG
12897034 CTTTTTTTAC
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 124 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (162 bp):
GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTGTGTGGGAAAAGCGCCGC
TAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGG
CGTTTATGGGAAAAGCGCCGCTAAACGTCAAG
Found at i:12897143 original size:31 final size:31
Alignment explanation
Indices: 12897108--12897188 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
12897098 CTTCCTGCAT
* *
12897108 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
12897139 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
12897170 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
12897189 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:12903123 original size:9 final size:9
Alignment explanation
Indices: 12903109--12903322 Score: 113
Period size: 9 Copynumber: 23.9 Consensus size: 9
12903099 TATTTAAGTA
12903109 TTATGTAAG
1 TTATGTAAG
*
12903118 TTATGTAAT
1 TTATGTAAG
*
12903127 TTATGATATG
1 TTATG-TAAG
* * *
12903137 ATATAT-AT
1 TTATGTAAG
*
12903145 TTATGTAAA
1 TTATGTAAG
* *
12903154 TTATAT-AT
1 TTATGTAAG
*
12903162 TTATCTAAG
1 TTATGTAAG
*
12903171 TTATATAAG
1 TTATGTAAG
12903180 TTATGTAAG
1 TTATGTAAG
*
12903189 TTATGTAAA
1 TTATGTAAG
*
12903198 TTATGATATAAAA
1 TTATG---T-AAG
12903211 TATAT-TAAG
1 T-TATGTAAG
12903220 TATTATGTAAG
1 --TTATGTAAG
12903231 TTATGTAAG
1 TTATGTAAG
* *
12903240 TTATAT-AT
1 TTATGTAAG
*
12903248 TTATCTAAG
1 TTATGTAAG
*
12903257 TTATATAAG
1 TTATGTAAG
*
12903266 TTATATAAG
1 TTATGTAAG
12903275 TTATGT-A-
1 TTATGTAAG
12903282 -TA--TAAG
1 TTATGTAAG
12903288 TTATGTAAG
1 TTATGTAAG
* *
12903297 TTATATATG
1 TTATGTAAG
*
12903306 TTATATAAG
1 TTATGTAAG
12903315 TTATGTAA
1 TTATGTAA
12903323 ATATGATATT
Statistics
Matches: 160, Mismatches: 28, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
4 1 0.01
5 1 0.01
6 2 0.01
7 2 0.01
8 17 0.11
9 115 0.72
10 9 0.06
11 5 0.03
12 1 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:12903188 original size:18 final size:18
Alignment explanation
Indices: 12903109--12903318 Score: 132
Period size: 18 Copynumber: 11.7 Consensus size: 18
12903099 TATTTAAGTA
* *
12903109 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
12903127 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
12903145 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
12903162 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
12903180 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
12903198 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
*
12903211 TATAT-TAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
12903231 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
12903248 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
12903266 TTATATAAGTTATGTATATAAG
1 TTATGTAAG---T-TATATAAG
*
12903288 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
*
12903306 TTATATAAGTTAT
1 TTATGTAAGTTAT
12903319 GTAAATATGA
Statistics
Matches: 153, Mismatches: 23, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
13 4 0.03
14 6 0.04
15 1 0.01
16 1 0.01
17 37 0.24
18 66 0.43
19 14 0.09
20 7 0.05
21 1 0.01
22 16 0.10
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:12903284 original size:22 final size:22
Alignment explanation
Indices: 12903258--12903321 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
12903248 TTATCTAAGT
12903258 TATATAAGTTATATAAGTTATG
1 TATATAAGTTATATAAGTTATG
*
12903280 TATATAAGTTATGTAAGTTA--
1 TATATAAGTTATATAAGTTATG
12903300 TATAT--GTTATATAAGTTATG
1 TATATAAGTTATATAAGTTATG
12903320 TA
1 TA
12903322 AATATGATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 12 0.32
20 7 0.18
22 19 0.50
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (22 bp):
TATATAAGTTATATAAGTTATG
Found at i:12903285 original size:13 final size:13
Alignment explanation
Indices: 12903267--12903321 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
12903257 TTATATAAGT
12903267 TATATAAGTTATG
1 TATATAAGTTATG
12903280 TATATAAGTTATG
1 TATATAAGTTATG
*
12903293 TA-AGTTA-TATATG
1 TATA-TAAGT-TATG
12903306 TTATATAAGTTATG
1 -TATATAAGTTATG
12903320 TA
1 TA
12903322 AATATGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
12 2 0.06
13 23 0.66
14 8 0.23
15 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (13 bp):
TATATAAGTTATG
Found at i:12903297 original size:77 final size:75
Alignment explanation
Indices: 12903171--12903318 Score: 174
Period size: 77 Copynumber: 1.9 Consensus size: 75
12903161 TTTATCTAAG
* * * *
12903171 TTATATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATTAAGTATTATGTAAGTTATG
1 TTATATAAGTTATATAAGTTATATAAATTATGATATAAAATATATTAAG--TTATATAAGTTATA
12903236 TAAGTTATATAT
64 TAAGTTATATAT
* * * *
12903248 TTATCTAAGTTATATAAGTTATATAAGTTATG-TATATAAGT-TATGTAAGTTATATATGTTATA
1 TTATATAAGTTATATAAGTTATATAAATTATGATATA-AAATATAT-TAAGTTATATAAGTTATA
12903311 TAAGTTAT
64 TAAGTTAT
12903319 GTAAATATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
75 19 0.31
76 7 0.11
77 35 0.57
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.47
Consensus pattern (75 bp):
TTATATAAGTTATATAAGTTATATAAATTATGATATAAAATATATTAAGTTATATAAGTTATATA
AGTTATATAT
Found at i:12903298 original size:40 final size:39
Alignment explanation
Indices: 12903167--12903321 Score: 142
Period size: 40 Copynumber: 3.9 Consensus size: 39
12903157 TATATTTATC
* * *
12903167 TAAGTTATATAAGTTATGTAAGTTATGTAAATTATG-ATA
1 TAAGTTAT-TAAGTTATATAAGTTATATAAGTTATGTATA
* * *
12903206 TAAAATATATTAAGTATTATGTAAGTTATGTAAGTTA--TATA
1 T-AAGT-TATTAAG--TTATATAAGTTATATAAGTTATGTATA
12903247 T---TTATCTAAGTTATATAAGTTATATAAGTTATGTATA
1 TAAGTTAT-TAAGTTATATAAGTTATATAAGTTATGTATA
*
12903284 TAAGTTATGTAAGTTATATATGTTATATAAGTTATGTA
1 TAAGTTAT-TAAGTTATATAAGTTATATAAGTTATGTA
12903322 AATATGATAT
Statistics
Matches: 99, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
35 19 0.19
36 3 0.03
37 10 0.10
39 1 0.01
40 39 0.39
41 7 0.07
42 20 0.20
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.46
Consensus pattern (39 bp):
TAAGTTATTAAGTTATATAAGTTATATAAGTTATGTATA
Found at i:12903331 original size:27 final size:26
Alignment explanation
Indices: 12903276--12903331 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
12903266 TTATATAAGT
*
12903276 TATGTATATAAGTTATGTAAGTTATA
1 TATGTATATAAGTTATGTAAGATATA
12903302 TATGTTATATAAGTTATGTAA-ATATGA
1 TATG-TATATAAGTTATGTAAGATAT-A
12903329 TAT
1 TAT
12903332 TCAAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (26 bp):
TATGTATATAAGTTATGTAAGATATA
Found at i:12903452 original size:15 final size:14
Alignment explanation
Indices: 12903432--12903483 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
12903422 AAGTAGCGGG
12903432 ATTAAATAATATTTA
1 ATTAAATAAT-TTTA
12903447 ATTAAATAATTTATA
1 ATTAAATAATTT-TA
*
12903462 A--AAATTATTTTA
1 ATTAAATAATTTTA
12903474 ATTAAATAAT
1 ATTAAATAAT
12903484 ATACATGTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 3 0.09
13 8 0.25
14 8 0.25
15 13 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTAAATAATTTTA
Found at i:12903978 original size:13 final size:13
Alignment explanation
Indices: 12903960--12903984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12903950 ACGAAGAGAG
12903960 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
12903973 AAAAAAAAAAAA
1 AAAAAAAAAAAA
12903985 AGTTACAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:12904015 original size:12 final size:11
Alignment explanation
Indices: 12903994--12904057 Score: 65
Period size: 12 Copynumber: 5.4 Consensus size: 11
12903984 AAGTTACAAG
*
12903994 TAAAAGAAAAGA
1 TAAAA-AAAAAA
12904006 TAAAAAAAAAA
1 TAAAAAAAAAA
12904017 TAAAAACCAAAAAA
1 T-AAAA--AAAAAA
*
12904031 CAAAAAAAAAA
1 TAAAAAAAAAA
12904042 TAAAAGAAAAAA
1 TAAAA-AAAAAA
12904054 TAAA
1 TAAA
12904058 CCTTAGTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
11 16 0.36
12 19 0.42
13 4 0.09
14 6 0.13
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.08
Consensus pattern (11 bp):
TAAAAAAAAAA
Found at i:12904046 original size:48 final size:48
Alignment explanation
Indices: 12903960--12904057 Score: 121
Period size: 48 Copynumber: 2.0 Consensus size: 48
12903950 ACGAAGAGAG
*
12903960 AAAAAAAAAAAACAAAAAAAAAAAAAGTTACAAGTAAAAGAAAAGATAAA
1 AAAAAAAAAAAACAAAAAAAAAAAAA--TACAAGTAAAAGAAAAAATAAA
12904010 AAAAAAATAAAAACCAAAAAACAAAAAAA-A-AA-TAAAAGAAAAAATAAA
1 AAAAAAA-AAAAA-CAAAAAA-AAAAAAATACAAGTAAAAGAAAAAATAAA
12904058 CCTTAGTATC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
48 15 0.34
49 2 0.05
50 8 0.18
51 5 0.11
52 7 0.16
53 7 0.16
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (48 bp):
AAAAAAAAAAAACAAAAAAAAAAAAATACAAGTAAAAGAAAAAATAAA
Found at i:12904053 original size:18 final size:17
Alignment explanation
Indices: 12903960--12904053 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 17
12903950 ACGAAGAGAG
*
12903960 AAAAAAAAAAAA-CAAA
1 AAAAAAAAAAAATAAAA
** *
12903976 AAAAAAAAAAGTTACAAG
1 AAAAAAAAAAAATA-AAA
* * *
12903994 TAAAAGAAAAGATAAAA
1 AAAAAAAAAAAATAAAA
**
12904011 AAAAAATAAAAACCAAAA
1 AAAAAA-AAAAAATAAAA
12904029 AACAAAAAAAAAATAAAA
1 AA-AAAAAAAAAATAAAA
*
12904047 GAAAAAA
1 AAAAAAA
12904054 TAAACCTTAG
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
16 10 0.17
17 11 0.19
18 33 0.57
19 4 0.07
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAATAAAA
Found at i:12911771 original size:19 final size:20
Alignment explanation
Indices: 12911736--12911773 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
12911726 ATAAGGTGGT
12911736 AAGATGATGAATGATGTTTG
1 AAGATGATGAATGATGTTTG
12911756 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
12911774 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTG
Found at i:12914987 original size:101 final size:99
Alignment explanation
Indices: 12914768--12914968 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
12914758 TATGTAGCCA
* * * * * *
12914768 AACTATCTGGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTATACA
1 AACTATCTGATACACGTAGTAACCTGCACTTAGTACTACACACGCGACCAACTATCCGGTACACA
*
12914833 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * * *
12914867 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAACCTATCGGGTACG
1 AACTATCTGATACACGTAGTAACCTGCACTTAGTACTACACACGCGA-CCAA-CTATCCGGTACA
*
12914932 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
12914968 A
1 A
12914969 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 41 0.47
100 3 0.03
101 43 0.49
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAACCTGCACTTAGTACTACACACGCGACCAACTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:12916553 original size:46 final size:46
Alignment explanation
Indices: 12916500--12916668 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
12916490 TGAGCATCCA
* *
12916500 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * * * * * *
12916546 AAATCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCG
* *
12916593 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
*
12916639 AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 AACTCATTGAGTTGAGTCCGAGTTCACTTA
12916669 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 56 0.56
47 27 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (46 bp):
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:12916652 original size:93 final size:93
Alignment explanation
Indices: 12916493--12916663 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
12916483 GGATGGTTGA
* * * * *
12916493 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAATCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAAATCATTGAGT
12916558 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* **
12916586 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAAATCATTGAGT
12916651 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
12916664 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAAATCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:12928005 original size:38 final size:38
Alignment explanation
Indices: 12927941--12928020 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
12927931 GATGTGTATT
* * *
12927941 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
* *
12927979 CGGGATAAATCCCGTAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
12928017 CGGG
1 CGGG
12928021 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:12928061 original size:43 final size:43
Alignment explanation
Indices: 12928013--12928219 Score: 315
Period size: 43 Copynumber: 4.8 Consensus size: 43
12928003 GCTGGTATTA
*
12928013 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTTATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
12928056 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGTCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
12928099 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
12928142 CATTCGGGCCTTCGTGCCTAGCGGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
12928185 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCG
12928220 ATGAAATGAT
Statistics
Matches: 147, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 147 1.00
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:12930122 original size:39 final size:40
Alignment explanation
Indices: 12930021--12930243 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
12930011 TCGAATGATG
* * *
12930021 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
12930060 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
12930101 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
12930140 TCCGGGCTAAG-CTCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
12930179 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
12930217 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
12930244 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 106 0.65
40 47 0.29
41 9 0.05
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:12930572 original size:43 final size:43
Alignment explanation
Indices: 12930506--12930712 Score: 306
Period size: 43 Copynumber: 4.8 Consensus size: 43
12930496 TTTATTGGAA
* * *
12930506 AAAAACGCAGCTAAATGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
12930549 AAAAGTGCCACTAAAGGTCAAGGCTTTTAGTGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
12930592 AAAAGCGTCGCTATAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
** *
12930635 AAAAGCGCCGCTAAACATCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
12930678 AAAAGCGCCGCTATAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
12930713 CTTTTTTTAC
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:12931158 original size:21 final size:22
Alignment explanation
Indices: 12931108--12931158 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
12931098 CCATCGCTCG
*
12931108 TGCCTCTGCCTCTCTCGCTGCA
1 TGCCTCTGCCTCCCTCGCTGCA
* *
12931130 T-CCGCTGCCTCCCTCTCTGC-
1 TGCCTCTGCCTCCCTCGCTGCA
12931150 TGCCTCTGC
1 TGCCTCTGC
12931159 TCTAAGTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.02, C:0.49, G:0.18, T:0.31
Consensus pattern (22 bp):
TGCCTCTGCCTCCCTCGCTGCA
Found at i:12936807 original size:9 final size:9
Alignment explanation
Indices: 12936793--12937018 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
12936783 TATTTAAGTA
12936793 TTATGTAAG
1 TTATGTAAG
*
12936802 TTATGTAAT
1 TTATGTAAG
*
12936811 TTATGATATG
1 TTATG-TAAG
* * *
12936821 ATATAT-AT
1 TTATGTAAG
*
12936829 TTATGTAAA
1 TTATGTAAG
* *
12936838 TTATAT-AT
1 TTATGTAAG
*
12936846 TTATCTAAG
1 TTATGTAAG
*
12936855 TTATATAAG
1 TTATGTAAG
12936864 TTATGTAAG
1 TTATGTAAG
*
12936873 TTATGTAAA
1 TTATGTAAG
*
12936882 TTATGATATAAAA
1 TTATG---T-AAG
*
12936895 TATATTTAAG
1 T-TATGTAAG
12936905 TATTATGTAAG
1 --TTATGTAAG
12936916 TTATGTAAG
1 TTATGTAAG
* *
12936925 TTATAT-AT
1 TTATGTAAG
*
12936933 TTATCTAAG
1 TTATGTAAG
*
12936942 TTATATAAG
1 TTATGTAAG
*
12936951 TTATATAAG
1 TTATGTAAG
*
12936960 TTATGTAGG
1 TTATGTAAG
*
12936969 TTATATAAG
1 TTATGTAAG
12936978 TTATGTAAG
1 TTATGTAAG
* *
12936987 TTATATATG
1 TTATGTAAG
*
12936996 TTATATAAG
1 TTATGTAAG
*
12937005 TTATGTAAA
1 TTATGTAAG
12937014 TTATG
1 TTATG
12937019 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:12936872 original size:18 final size:18
Alignment explanation
Indices: 12936793--12937018 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
12936783 TATTTAAGTA
* *
12936793 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
12936811 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
12936829 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
12936846 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
12936864 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
12936882 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
12936905 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
12936925 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
12936942 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
12936960 TTATGTAGGTTATATAAG
1 TTATGTAAGTTATATAAG
*
12936978 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
12936996 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
12937014 TTATG
1 TTATG
12937019 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:12936885 original size:27 final size:27
Alignment explanation
Indices: 12936846--12937018 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
12936836 AATTATATAT
*
12936846 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
12936873 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
12936905 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
12936933 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
12936960 TTATGTAGGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
12936987 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
12937014 TTATG
1 TTATG
12937019 ATATCAAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 58 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:12936903 original size:114 final size:114
Alignment explanation
Indices: 12936769--12936990 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
12936759 ACTAGTTATG
* * * *
12936769 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
12936833 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
12936883 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
12936948 AAGTTATATAAGTTATGTAGGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
12936991 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:12937354 original size:24 final size:24
Alignment explanation
Indices: 12937326--12937393 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
12937316 ACTTAAATGG
12937326 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
12937350 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
12937374 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
12937394 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:12939946 original size:134 final size:134
Alignment explanation
Indices: 12939679--12939953 Score: 462
Period size: 134 Copynumber: 2.1 Consensus size: 134
12939669 GAATTCAACA
12939679 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* **
12939744 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
66 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAACAACAT
12939809 TATT
131 TATT
12939813 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* * * *
12939878 TAAGTTGGATAGGAACATG-AAAACAGACCAAAATAACATCTAAATAACCAAAATGGAATCACCA
66 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAA-CAACA
12939942 TTATT
130 TTATT
*
12939947 ATGTAAA
1 ATATAAA
12939954 CATGAAAATG
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 36 0.27
134 96 0.73
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.21
Consensus pattern (134 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAACAACAT
TATT
Found at i:12942690 original size:10 final size:10
Alignment explanation
Indices: 12942675--12942718 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
12942665 CCACTTTCCA
12942675 TATATATATT
1 TATATATATT
12942685 TATATATATT
1 TATATATATT
* *
12942695 TAAAAAATATT
1 T-ATATATATT
12942706 TATATATATT
1 TATATATATT
12942716 TAT
1 TAT
12942719 CTTATATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TATATATATT
Found at i:12942723 original size:15 final size:15
Alignment explanation
Indices: 12942705--12942736 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12942695 TAAAAAATAT
*
12942705 TTATATATATTTATC
1 TTATATACATTTATC
12942720 TTATATACATTTATC
1 TTATATACATTTATC
12942735 TT
1 TT
12942737 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:12942725 original size:21 final size:21
Alignment explanation
Indices: 12942678--12942717 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12942668 CTTTCCATAT
12942678 ATATATTTATATATATTTAAA
1 ATATATTTATATATATTTAAA
*
12942699 AAATATTTATATATATTTA
1 ATATATTTATATATATTTA
12942718 TCTTATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATATTTATATATATTTAAA
Found at i:12943615 original size:14 final size:14
Alignment explanation
Indices: 12943596--12943629 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
12943586 ATTGAACCTG
12943596 CTTAAACCATATAT-
1 CTTAAACCATA-ATC
12943610 CTTAAACCATAATC
1 CTTAAACCATAATC
12943624 CTTAAA
1 CTTAAA
12943630 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:12943849 original size:41 final size:41
Alignment explanation
Indices: 12943792--12943971 Score: 267
Period size: 41 Copynumber: 4.4 Consensus size: 41
12943782 GGGTTATGGG
12943792 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA
1 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA
* *
12943833 GTTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCTG
1 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA
12943874 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA
1 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA
* * *
12943915 -TTTTTAGCGGCGTTTTA-GTAAAAAACGCCGCGAATGCTCT-
1 GTTTTTAGCGGCGTTTTACCT--AAAGCGCCGCTAATGCTCTA
*
12943955 GTTTTTACCGGCGTTTT
1 GTTTTTAGCGGCGTTTT
12943972 TTTTGGAATG
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 17 0.13
41 110 0.86
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (41 bp):
GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA
Found at i:12943969 original size:81 final size:82
Alignment explanation
Indices: 12943791--12943971 Score: 294
Period size: 82 Copynumber: 2.2 Consensus size: 82
12943781 GGGGTTATGG
*
12943791 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACATAA
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACAAAA
* *
12943856 AGCGCCGCTAATGCTCT
66 AACGCCGCGAATGCTCT
*
12943873 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTA-TTTTTAGCGGCGTTTTAGTAAA
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTA-CAAA
12943937 AAACGCCGCGAATGCTCT
65 AAACGCCGCGAATGCTCT
*
12943955 -GTTTTTACCGGCGTTTT
1 GGTTTTTAGCGGCGTTTT
12943972 TTTTGGAATG
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
81 33 0.35
82 60 0.65
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (82 bp):
GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACAAAA
AACGCCGCGAATGCTCT
Found at i:12951503 original size:41 final size:40
Alignment explanation
Indices: 12951398--12951508 Score: 102
Period size: 40 Copynumber: 2.7 Consensus size: 40
12951388 CGGGTTTTGA
* * *
12951398 ACCTAGCAGGCTTCGTGCTGGTGTAACG-ATTTAGGCCTTG
1 ACCTAGCAGGCTTCGTGCTGGTGT-ATGAAATAAGGCCTTG
* *
12951438 ACCTAGCAGATCTTGCGT-C-GGTGTATGAAATAAGTCCTTG
1 ACCTAGCAG-GCTT-CGTGCTGGTGTATGAAATAAGGCCTTG
*
12951478 AGCCTAGCAGGCTTCGTGCTAGTGTAGTGAA
1 A-CCTAGCAGGCTTCGTGCTGGTGTA-TGAA
12951509 TTAGATAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
39 5 0.09
40 28 0.49
41 17 0.30
42 7 0.12
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
ACCTAGCAGGCTTCGTGCTGGTGTATGAAATAAGGCCTTG
Found at i:12955624 original size:18 final size:19
Alignment explanation
Indices: 12955588--12955626 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
12955578 CTTATTAGTT
*
12955588 AAACAAAACTCAACCCAAA
1 AAACAAAACTCAACACAAA
12955607 AAACAAAAC-CAACACAAA
1 AAACAAAACTCAACACAAA
12955625 AA
1 AA
12955627 TCTCATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (19 bp):
AAACAAAACTCAACACAAA
Found at i:12955656 original size:18 final size:18
Alignment explanation
Indices: 12955614--12955656 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
12955604 AAAAAACAAA
12955614 ACCAACACAAAAATCTCAT
1 ACCAACACAAAAATCT-AT
*
12955633 AACAACACAAAATATCT-T
1 ACCAACACAAAA-ATCTAT
12955651 ACCAAC
1 ACCAAC
12955657 TCTCCAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.16
Consensus pattern (18 bp):
ACCAACACAAAAATCTAT
Found at i:12957828 original size:23 final size:23
Alignment explanation
Indices: 12957802--12957847 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12957792 ATTGTGAACC
12957802 TTTGTTAAATTTTCACCTACAGA
1 TTTGTTAAATTTTCACCTACAGA
12957825 TTTGTTAAATTTTCACCTACAGA
1 TTTGTTAAATTTTCACCTACAGA
12957848 CACCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (23 bp):
TTTGTTAAATTTTCACCTACAGA
Found at i:12967643 original size:55 final size:53
Alignment explanation
Indices: 12967535--12967742 Score: 199
Period size: 55 Copynumber: 3.8 Consensus size: 53
12967525 ATTAGGGTTT
* * * *
12967535 AAGGATATCATGTAAGACCATG-CTAAGGCTTGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * *
12967590 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * * *
12967645 AAAGG-TCCCATGTAAGACCATGCCAATG-CATGACATTGGTGAGTTCATAAGGT
1 -AAGGATACCATGTAAGACCATGTCAA-GACATGGCATTGGTAAGTTCATAAGGC
*
12967698 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
12967743 TCAAAAGGAT
Statistics
Matches: 127, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
52 7 0.06
53 41 0.32
54 8 0.06
55 65 0.51
56 6 0.05
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:12967710 original size:108 final size:110
Alignment explanation
Indices: 12967543--12967742 Score: 280
Period size: 108 Copynumber: 1.8 Consensus size: 110
12967533 TTAAGGATAT
* * *
12967543 CATGTAAGACCATGCTAAGGCTTGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
12967608 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
* * * * *
12967653 CATGTAAGACCATGCCAATGCAT-GACATTGGTGA-G-TTCATAAGGTAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGA
*
12967715 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
12967743 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 9 0.11
110 20 0.25
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:12977515 original size:23 final size:21
Alignment explanation
Indices: 12977489--12977544 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
12977479 CTTACTTTTA
12977489 TATTATATATTGTAAGATTATTT
1 TATTATATATT-TAAGATTA-TT
*
12977512 TATTATATATATTAATATTATT
1 TATTATATAT-TTAAGATTATT
*
12977534 TATTATCTATT
1 TATTATATATT
12977545 ATTTTTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 17 0.57
24 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATATATTTAAGATTATT
Found at i:12977539 original size:25 final size:25
Alignment explanation
Indices: 12977485--12977547 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 25
12977475 TAACCTTACT
12977485 TTTA-TATTATATATTGTAAGATTA
1 TTTATTATTATATATTGTAAGATTA
*
12977509 -TT-TTATTATATATAT-TAATATTA
1 TTTATTATTATATAT-TGTAAGATTA
12977532 TTTATTATCTAT-TATT
1 TTTATTAT-TATATATT
12977548 TTTCACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
23 19 0.58
24 4 0.12
25 7 0.21
26 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTATTATATATTGTAAGATTA
Found at i:12978302 original size:33 final size:33
Alignment explanation
Indices: 12978257--12978331 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
12978247 TTGATATTGT
12978257 ATTACT-CTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
* *
12978289 ATTATTACTTTTTTGTATCTCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
12978322 ATTACTACTT
1 ATTACTACTT
12978332 CGTATGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 5 0.13
33 34 0.87
ACGTcount: A:0.25, C:0.13, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTACTACTTTTTTGTATATCATGCATTATTTA
Found at i:12985584 original size:26 final size:26
Alignment explanation
Indices: 12985555--12985636 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
12985545 TGATACAAAT
12985555 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12985581 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12985607 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12985633 TGAT
1 TGAT
12985637 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12990681 original size:57 final size:58
Alignment explanation
Indices: 12990617--12990730 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
12990607 TTTTCAAGTC
* * *
12990617 ATTTTCATTTTAGAGAAAACCATATTTATTTCCAAATGATTC-CATTTTTCCATTTTA
1 ATTTTCATTTTAGAGAAAACCATAATCATTTCCAAATGATTCTCATTTATCCATTTTA
* * *
12990674 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAGTGTTTCTCATTTATCCATTTT
1 ATTTTCATTTTAGAGAAAACCATAATCATTTCCAAATGATTCTCATTTATCCATTTT
12990731 CAACATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 37 0.74
58 13 0.26
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (58 bp):
ATTTTCATTTTAGAGAAAACCATAATCATTTCCAAATGATTCTCATTTATCCATTTTA
Found at i:12993422 original size:13 final size:13
Alignment explanation
Indices: 12993404--12993447 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 13
12993394 GAAAATAGAT
12993404 TTTTAATTAAAAA
1 TTTTAATTAAAAA
12993417 TTTTAATTTATTAAAA
1 TTTTAA-TTA--AAAA
12993433 TTTTTAATTAAAAA
1 -TTTTAATTAAAAA
12993447 T
1 T
12993448 CTATTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.26
14 7 0.26
16 7 0.26
17 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTAATTAAAAA
Found at i:12993429 original size:17 final size:17
Alignment explanation
Indices: 12993409--12993441 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12993399 TAGATTTTTA
12993409 ATTAAAAATTTTAATTT
1 ATTAAAAATTTTAATTT
*
12993426 ATTAAAATTTTTAATT
1 ATTAAAAATTTTAATT
12993442 AAAAATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAAAAATTTTAATTT
Found at i:12994221 original size:14 final size:15
Alignment explanation
Indices: 12994192--12994224 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
12994182 TTTAGGTTTG
12994192 AAATTTTTAATTAATT
1 AAATTTTT-ATTAATT
12994208 AAATTTTT-TTAATT
1 AAATTTTTATTAATT
12994222 AAA
1 AAA
12994225 AATCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTTATTAATT
Found at i:12994234 original size:18 final size:18
Alignment explanation
Indices: 12994194--12994234 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12994184 TAGGTTTGAA
12994194 ATTTTTAATTAATTAAATT
1 ATTTTTAATTAA-TAAATT
12994213 -TTTTTAATTAA-AAATCT
1 ATTTTTAATTAATAAAT-T
12994230 ATTTT
1 ATTTT
12994235 CATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.20
17 1 0.05
18 15 0.75
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTAATTAATAAATT
Found at i:13000204 original size:18 final size:18
Alignment explanation
Indices: 13000181--13000217 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13000171 AAAACCTTAG
13000181 CTGAATCTTCCTAAGGTC
1 CTGAATCTTCCTAAGGTC
13000199 CTGAATCTTCCTAAGGTC
1 CTGAATCTTCCTAAGGTC
13000217 C
1 C
13000218 CTAGCAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (18 bp):
CTGAATCTTCCTAAGGTC
Found at i:13007329 original size:24 final size:23
Alignment explanation
Indices: 13007284--13007330 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
13007274 ATTATTTTTT
*
13007284 TATTTTACAAAATTAAATATATA
1 TATTTTACAAAATTAAAAATATA
13007307 TATTATTA-AAAATATAAAAATATA
1 TATT-TTACAAAAT-TAAAAATATA
13007331 AAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TATTTTACAAAATTAAAAATATA
Found at i:13008958 original size:19 final size:18
Alignment explanation
Indices: 13008932--13008983 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
13008922 ATTTATTAAG
13008932 ATAAATTTTTTAAATAAT
1 ATAAATTTTTTAAATAAT
** *
13008950 ATAAAATTTTAAAAATATT
1 AT-AAATTTTTTAAATAAT
*
13008969 ATAATTTTTTTAAAT
1 ATAAATTTTTTAAAT
13008984 GTTATATGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATTTTTTAAATAAT
Found at i:13008983 original size:18 final size:18
Alignment explanation
Indices: 13008932--13008989 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
13008922 ATTTATTAAG
*
13008932 ATAAATTTTTTAAATAAT
1 ATAAATTTTTTAAATATT
**
13008950 ATAAAATTTTAAAAATATT
1 AT-AAATTTTTTAAATATT
* *
13008969 ATAATTTTTTTAAATGTT
1 ATAAATTTTTTAAATATT
13008987 ATA
1 ATA
13008990 TGTGTATCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATAAATTTTTTAAATATT
Found at i:13010153 original size:13 final size:14
Alignment explanation
Indices: 13010142--13010186 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
13010132 AATTTTATTC
13010142 TTTTTAACTATTTA
1 TTTTTAACTATTTA
*
13010156 TTTTTAAC--TCTA
1 TTTTTAACTATTTA
*
13010168 TTTTT-ACTTTTTA
1 TTTTTAACTATTTA
13010181 TTTTTA
1 TTTTTA
13010187 TTATTATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.08
12 8 0.31
13 8 0.31
14 8 0.31
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTAACTATTTA
Found at i:13010194 original size:25 final size:26
Alignment explanation
Indices: 13010136--13010194 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
13010126 AGTTAAAATT
*
13010136 TTATTCTTTTTAACTATTTATTTTTA
1 TTATTATTTTTAACTATTTATTTTTA
*
13010162 --ACTCTATTTTT-ACTTTTTATTTTTA
1 TTA-T-TATTTTTAACTATTTATTTTTA
13010187 TTATTATT
1 TTATTATT
13010195 CTACTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
24 1 0.04
25 18 0.67
26 7 0.26
27 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (26 bp):
TTATTATTTTTAACTATTTATTTTTA
Found at i:13017125 original size:30 final size:30
Alignment explanation
Indices: 13017089--13017145 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13017079 GTGGGCATTA
* * *
13017089 CACACGGGCTGGTCACATGCCCGTGTGAGC
1 CACACGGGCTGGCCACACGCCCATGTGAGC
13017119 CACACGGGCTGGCCACACGCCCATGTG
1 CACACGGGCTGGCCACACGCCCATGTG
13017146 CCAGCCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCCATGTGAGC
Found at i:13022197 original size:3 final size:3
Alignment explanation
Indices: 13022189--13022236 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
13022179 TGTTGCTTGT
13022189 TTA TTA TTA TTA TTA TTA TTA GTTA TT- TTA TGT- TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA T-TA TTA
13022235 TT
1 TT
13022237 CTCTAGTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 3 0.08
3 30 0.75
4 7 0.17
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13030869 original size:14 final size:13
Alignment explanation
Indices: 13030837--13030893 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
13030827 TTATATCATT
*
13030837 TACATTTCA-TTA
1 TACATTTTATTTA
*
13030849 TATATTTTGATTTA
1 TACATTTT-ATTTA
13030863 TACATTTTATTATA
1 TACATTTTATT-TA
13030877 TATCATTTTATTATA
1 TA-CATTTTATT-TA
13030892 TA
1 TA
13030894 TTATTGTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 6 0.16
13 4 0.11
14 14 0.37
15 14 0.37
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (13 bp):
TACATTTTATTTA
Found at i:13030885 original size:15 final size:15
Alignment explanation
Indices: 13030839--13030904 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
13030829 ATATCATTTA
*
13030839 CATTTCATTATATAT
1 CATTTTATTATATAT
*
13030854 --TTTGATT-TATA-
1 CATTTTATTATATAT
13030865 CATTTTATTATATAT
1 CATTTTATTATATAT
13030880 CATTTTATTATATAT
1 CATTTTATTATATAT
*
13030895 TATTGTTATT
1 CATT-TTATT
13030905 TTATTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.09
13 12 0.28
14 4 0.09
15 18 0.42
16 5 0.12
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (15 bp):
CATTTTATTATATAT
Found at i:13030890 original size:3 final size:3
Alignment explanation
Indices: 13030869--13030941 Score: 60
Period size: 3 Copynumber: 23.3 Consensus size: 3
13030859 TTTATACATT
* *
13030869 TTA TTA TATA TCA TT- TTA TTA TATA TTA TTG TTA TT- TTA TTA TATA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA
*
13030915 TTA TAA TTA TTCA TTA TTTA TTA TTA T
1 TTA TTA TTA TT-A TTA -TTA TTA TTA T
13030942 ATAATTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.07
3 38 0.67
4 15 0.26
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13030924 original size:21 final size:21
Alignment explanation
Indices: 13030870--13030938 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
13030860 TTATACATTT
*
13030870 TATTATATATCATTTTATTATA
1 TATTATA-ATTATTTTATTATA
**
13030892 TATTATTGTTATTTTATTATA
1 TATTATAATTATTTTATTATA
* *
13030913 TATTATAATTA-TTCATTATT
1 TATTATAATTATTTTATTATA
13030933 TATTAT
1 TATTAT
13030939 TATATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.32
21 21 0.52
22 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTATAATTATTTTATTATA
Found at i:13032402 original size:17 final size:17
Alignment explanation
Indices: 13032371--13032427 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
13032361 TGATAGATTT
*
13032371 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
13032389 AAAATATATTTATAA-G
1 AAAATATATTTATAATA
*
13032405 AAAA-ATACTTAT-ATA
1 AAAATATATTTATAATA
13032420 AAAATATA
1 AAAATATA
13032428 AAATATATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.03
15 11 0.33
16 7 0.21
17 7 0.21
18 7 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:13032423 original size:15 final size:16
Alignment explanation
Indices: 13032371--13032427 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
13032361 TGATAGATTT
*
13032371 AAAATATAATATATAATA
1 AAAATATACT-TAT-ATA
13032389 AAAATATA-TT-TATA
1 AAAATATACTTATATA
*
13032403 AGAAAAATACTTATATA
1 A-AAATATACTTATATA
13032420 AAAATATA
1 AAAATATA
13032428 AAATATATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.12
15 7 0.21
16 9 0.26
17 6 0.18
18 8 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAATATACTTATATA
Found at i:13032799 original size:22 final size:22
Alignment explanation
Indices: 13032736--13032799 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 22
13032726 TAATATAAAA
13032736 TAAT-TATAATATAT-AAT-AT
1 TAATGTATAATATATAAATAAT
* * *
13032755 GAAAGTAT-ATATGTAAA-AA-
1 TAATGTATAATATATAAATAAT
13032774 TAATGTATAATATATAAATAAT
1 TAATGTATAATATATAAATAAT
13032796 TAAT
1 TAAT
13032800 AAAGATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
19 13 0.39
20 14 0.42
21 2 0.06
22 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
TAATGTATAATATATAAATAAT
Found at i:13032809 original size:19 final size:18
Alignment explanation
Indices: 13032785--13032833 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
13032775 AATGTATAAT
13032785 ATATAAATAATTAATAAAG
1 ATATAAATAATTAA-AAAG
* * *
13032804 ATATAATACAAGTAAAAAT
1 ATATAA-ATAATTAAAAAG
13032823 ATATAAATAAT
1 ATATAAATAAT
13032834 AATGTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATTAAAAAG
Found at i:13032817 original size:56 final size:58
Alignment explanation
Indices: 13032725--13032867 Score: 149
Period size: 56 Copynumber: 2.5 Consensus size: 58
13032715 AAAAAATGAC
* *
13032725 ATAATATA-AAATAATTAT-AATATATAATATGAAAGT-ATATATGTAAA-AATAATGT
1 ATAATATATAAATAATTATAAATATATAATA-GAAAGTAAAATATATAAATAATAATGT
* *
13032780 ATAATATATAAATAATTAATAAAGATATAATA-CAAGTAAAAATATATAAATAATAATGT
1 ATAATATATAAATAATT-ATAAATATATAATAGAAAGT-AAAATATATAAATAATAATGT
*
13032839 AAAATA-AT-AATAATT-TAAAATATATAATA
1 ATAATATATAAATAATTAT-AAATATATAATA
13032868 AATAATAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
55 9 0.12
56 23 0.31
57 9 0.12
58 21 0.28
59 13 0.17
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (58 bp):
ATAATATATAAATAATTATAAATATATAATAGAAAGTAAAATATATAAATAATAATGT
Found at i:13032888 original size:16 final size:16
Alignment explanation
Indices: 13032705--13032890 Score: 66
Period size: 16 Copynumber: 11.2 Consensus size: 16
13032695 TAAAAAACAT
*
13032705 ATAATAGTATAAAA-A
1 ATAATAATATAAAATA
13032720 ATGACATAATATAAAATA
1 AT-A-ATAATATAAAATA
*
13032738 ATTATAATATATAATATGA
1 ATAATAATATA-AA-AT-A
*
13032757 A-AGTATATATGTAAAAATA
1 ATA--ATA-ATAT-AAAATA
*
13032776 ATGTATAATATATAAATA
1 AT-AATAATATA-AAATA
* *
13032794 ATTAATAAAGATATAATACA
1 A-TAAT--A-ATATAAAATA
* *
13032814 AGTAAAAATAT-ATA-A
1 A-TAATAATATAAAATA
*
13032829 ATAATAATGTAAAATA
1 ATAATAATATAAAATA
*
13032845 ATAATAATTTAAAAT-
1 ATAATAATATAAAATA
13032860 AT-AT-A-AT-AAATA
1 ATAATAATATAAAATA
*
13032872 ATAATAATATGAAATA
1 ATAATAATATAAAATA
13032888 ATA
1 ATA
13032891 TATGGTTAAT
Statistics
Matches: 131, Mismatches: 16, Indels: 47
0.68 0.08 0.24
Matches are distributed among these distances:
11 4 0.03
12 3 0.02
13 3 0.02
14 10 0.08
15 10 0.08
16 35 0.27
17 17 0.13
18 17 0.13
19 8 0.06
20 13 0.10
21 10 0.08
22 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAATAATATAAAATA
Found at i:13032889 original size:37 final size:37
Alignment explanation
Indices: 13032782--13032875 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 37
13032772 AATAATGTAT
**
13032782 AATATATAAATAATTAA-TAAAGAT-ATAATACAAGTAAA
1 AATATATAAATAA-TAAGTAAA-ATAATAATA-ATTTAAA
13032820 AATATATAAATAATAATGTAAAATAATAATAATTTAAA
1 AATATATAAATAATAA-GTAAAATAATAATAATTTAAA
13032858 ATATATAATAAATAATAA
1 A-ATAT-ATAAATAATAA
13032876 TAATATGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
37 3 0.06
38 21 0.43
39 14 0.29
40 11 0.22
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (37 bp):
AATATATAAATAATAAGTAAAATAATAATAATTTAAA
Found at i:13033016 original size:10 final size:10
Alignment explanation
Indices: 13033003--13033041 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
13032993 GATATTAAGT
13033003 AATATAATAA
1 AATATAATAA
*
13033013 AATATAATTA
1 AATATAATAA
13033023 AATA-ATATAA
1 AATATA-ATAA
13033033 AATATAATA
1 AATATAATA
13033042 CATATATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AATATAATAA
Found at i:13035071 original size:80 final size:80
Alignment explanation
Indices: 13034938--13035104 Score: 316
Period size: 80 Copynumber: 2.1 Consensus size: 80
13034928 TGTTTATATT
* *
13034938 CTTTTGAAGTGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTTAAAAGAGATCTTATTT
1 CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
13035003 CTAAATTCTTTTAAG
66 CTAAATTCTTTTAAG
13035018 CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
1 CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
13035083 CTAAATTCTTTTAAG
66 CTAAATTCTTTTAAG
13035098 CTTTTGA
1 CTTTTGA
13035105 CATTAAGACA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (80 bp):
CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
CTAAATTCTTTTAAG
Found at i:13049442 original size:44 final size:44
Alignment explanation
Indices: 13049386--13049879 Score: 729
Period size: 44 Copynumber: 11.2 Consensus size: 44
13049376 ATAGATCACC
*
13049386 GATAGTAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
13049430 GATAACAGATTTGGCTTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
13049474 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
13049518 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
13049562 GATAACAGATTTGGCGTCTTTGTATTGATAGAGAGCAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
13049606 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
13049650 GATAGCCA-ATTTGGCGTCTCTGTATTGACAGAGAGCAAATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
13049694 GATAGCCGATTTGGCATCTTTTTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
13049738 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
13049782 GATAGCAGATTTAGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
13049826 GATAGCAGATTTGGCGTCTTTGTATTGACAAAGAGTAGATTGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
13049870 GATAGCAGAT
1 GATAGCAGAT
13049880 CTAACATTTG
Statistics
Matches: 409, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 1 0.00
44 406 0.99
45 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:13051546 original size:14 final size:13
Alignment explanation
Indices: 13051514--13051570 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
13051504 TTAAATCATT
*
13051514 TACATTTCA-TTA
1 TACATTTTATTTA
*
13051526 TATATTTTGATTTA
1 TACATTTT-ATTTA
13051540 TACATTTTATTATA
1 TACATTTTATT-TA
13051554 TATCATTTTATTATA
1 TA-CATTTTATT-TA
13051569 TA
1 TA
13051571 TTATTGTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 6 0.16
13 4 0.11
14 14 0.37
15 14 0.37
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (13 bp):
TACATTTTATTTA
Found at i:13051562 original size:15 final size:15
Alignment explanation
Indices: 13051516--13051581 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
13051506 AAATCATTTA
*
13051516 CATTTCATTATATAT
1 CATTTTATTATATAT
*
13051531 --TTTGATT-TATA-
1 CATTTTATTATATAT
13051542 CATTTTATTATATAT
1 CATTTTATTATATAT
13051557 CATTTTATTATATAT
1 CATTTTATTATATAT
*
13051572 TATTGTTATT
1 CATT-TTATT
13051582 TTATTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.09
13 12 0.28
14 4 0.09
15 18 0.42
16 5 0.12
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (15 bp):
CATTTTATTATATAT
Found at i:13051567 original size:3 final size:3
Alignment explanation
Indices: 13051546--13051618 Score: 60
Period size: 3 Copynumber: 23.3 Consensus size: 3
13051536 TTTATACATT
* *
13051546 TTA TTA TATA TCA TT- TTA TTA TATA TTA TTG TTA TT- TTA TTA TATA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA
*
13051592 TTA TAA TTA TTCA TTA TTTA TTA TTA T
1 TTA TTA TTA TT-A TTA -TTA TTA TTA T
13051619 ATAATTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.07
3 38 0.67
4 15 0.26
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13051601 original size:21 final size:21
Alignment explanation
Indices: 13051547--13051615 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
13051537 TTATACATTT
*
13051547 TATTATATATCATTTTATTATA
1 TATTATA-ATTATTTTATTATA
**
13051569 TATTATTGTTATTTTATTATA
1 TATTATAATTATTTTATTATA
* *
13051590 TATTATAATTA-TTCATTATT
1 TATTATAATTATTTTATTATA
13051610 TATTAT
1 TATTAT
13051616 TATATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.32
21 21 0.52
22 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTATAATTATTTTATTATA
Found at i:13051633 original size:23 final size:27
Alignment explanation
Indices: 13051562--13051633 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
13051552 TATATCATTT
** *
13051562 TATTATATATTATTGTTATTTTATTATA
1 TATTATA-ATTATTCATAATTTATTATA
*
13051590 TATTATAATTATTCATTATTTATTAT-
1 TATTATAATTATTCATAATTTATTATA
13051616 TA-TATAATT-TTCA-AATTT
1 TATTATAATTATTCATAATTT
13051634 GTAAATTACT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 4 0.10
25 7 0.18
26 2 0.05
27 15 0.38
28 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (27 bp):
TATTATAATTATTCATAATTTATTATA
Found at i:13052667 original size:80 final size:80
Alignment explanation
Indices: 13052534--13052700 Score: 316
Period size: 80 Copynumber: 2.1 Consensus size: 80
13052524 TGTTTATATT
* *
13052534 CTTTTGAAGTGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTTAAAAGAGATCTTATTT
1 CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
13052599 CTAAATTCTTTTAAG
66 CTAAATTCTTTTAAG
13052614 CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
1 CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
13052679 CTAAATTCTTTTAAG
66 CTAAATTCTTTTAAG
13052694 CTTTTGA
1 CTTTTGA
13052701 CATTAAGACA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (80 bp):
CTTTTGAAGCGAAGGATTCTTGATTTTTAACTCAAATTATTACGGTTTGAAAAGAGATCTTATTT
CTAAATTCTTTTAAG
Found at i:13060592 original size:44 final size:41
Alignment explanation
Indices: 13060543--13060648 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 41
13060533 TTGTTTACAT
*
13060543 TTATTTTATAATATTATAATATATATTTTAAATTTTTTATAATA
1 TTATTTT-TAATATTATAATATATATTTTAAA-ATTTTA-AATA
*
13060587 TTATTTCTTAA-ACTT-TAAATATATTTTTTAAAATTTTAAATA
1 TTATTT-TTAATA-TTAT-AATATATATTTTAAAATTTTAAATA
13060629 TGTACTTTTTAATATTATAA
1 T-TA-TTTTTAATATTATAA
13060649 AAAATTTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
42 5 0.09
43 17 0.32
44 30 0.57
45 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.57
Consensus pattern (41 bp):
TTATTTTTAATATTATAATATATATTTTAAAATTTTAAATA
Found at i:13060607 original size:21 final size:22
Alignment explanation
Indices: 13060578--13060629 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
13060568 TTTTAAATTT
13060578 TTTATAATATTATTTCTT-AAAC
1 TTTA-AATATTATTTCTTAAAAC
* *
13060600 TTTAAATA-TATTTTTTAAAAT
1 TTTAAATATTATTTCTTAAAAC
13060621 TTTAAATAT
1 TTTAAATAT
13060630 GTACTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAAATATTATTTCTTAAAAC
Found at i:13061756 original size:20 final size:19
Alignment explanation
Indices: 13061708--13061759 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
13061698 AAAATCAAAA
13061708 AAATTT-AT-AAAATATTT
1 AAATTTAATAAAAATATTT
*
13061725 AATTTTAATAAAAATATTT
1 AAATTTAATAAAAATATTT
*
13061744 AGAATTTATTAAAAAT
1 A-AATTTAATAAAAAT
13061760 TAGGATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 10 0.34
20 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTTAATAAAAATATTT
Found at i:13062429 original size:90 final size:91
Alignment explanation
Indices: 13062254--13062430 Score: 225
Period size: 88 Copynumber: 2.0 Consensus size: 91
13062244 AGTGAAAAAA
* * * *
13062254 GGACTTAATTATTTTTTTAAAAAAGTTTGAAGGTTTTTTATGTATTTTAAAAATTTAAGTACCTA
1 GGACTTAATTATTTTTTTAAAAAAGTTTGAAGATTTTTTATATATTTTAAAAATTTAAATACCAA
** *
13062319 ATTGAATGTAAAATAAAAAAAAGTAG
66 ATACAATGTAAAAGAAAAAAAAGTAG
* * *
13062345 GGACTTATTTATTTTTTT-AAAAAGTTT-AA-ATTTTTTATATATTTTAAAAGTTTAAATATTCA
1 GGACTTAATTATTTTTTTAAAAAAGTTTGAAGATTTTTTATATATTTTAAAAATTTAAATA-CCA
13062407 AATACAAGTGTAAAAGAAAAAAAA
65 AATACAA-TGTAAAAGAAAAAAAA
13062431 AACAAAGCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
88 25 0.34
89 8 0.11
90 24 0.32
91 17 0.23
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (91 bp):
GGACTTAATTATTTTTTTAAAAAAGTTTGAAGATTTTTTATATATTTTAAAAATTTAAATACCAA
ATACAATGTAAAAGAAAAAAAAGTAG
Found at i:13075070 original size:31 final size:31
Alignment explanation
Indices: 13075035--13075108 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
13075025 AGGTAGGGCA
*
13075035 TGTGGGCCACACAGTCTGGCCTGTTGGGCCG
1 TGTGGGCCACACAATCTGGCCTGTTGGGCCG
*
13075066 TGTGGGCCACACAATCTGGCTTGTTGGGCCG
1 TGTGGGCCACACAATCTGGCCTGTTGGGCCG
*
13075097 TATGGGCCACAC
1 TGTGGGCCACAC
13075109 GGACATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.23
Consensus pattern (31 bp):
TGTGGGCCACACAATCTGGCCTGTTGGGCCG
Found at i:13078876 original size:4 final size:4
Alignment explanation
Indices: 13078869--13078904 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
13078859 CCCTCCCTCC
* *
13078869 CTCA CTCA CTCA GTCA CTCA CTTA CTCA CTCA CTCA
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA
13078905 TTCTCTCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.44, G:0.03, T:0.28
Consensus pattern (4 bp):
CTCA
Found at i:13080342 original size:27 final size:27
Alignment explanation
Indices: 13080312--13080365 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13080302 ATACAACTAT
13080312 TCACAAACACAATTAAATATAATCCAC
1 TCACAAACACAATTAAATATAATCCAC
13080339 TCACAAACACAATTAAATATAATCCAC
1 TCACAAACACAATTAAATATAATCCAC
13080366 ATTCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (27 bp):
TCACAAACACAATTAAATATAATCCAC
Found at i:13091678 original size:6 final size:6
Alignment explanation
Indices: 13091627--13091676 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
13091617 ATTGAGTCCA
*
13091627 TTTA-T TTTATT TTTAGT TTTAGT TTTAGT TTTAGT TTTATGT TTATAGT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTA-GT TT-TAGT
13091676 T
1 T
13091677 ATTTTCTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 4 0.10
6 28 0.68
7 7 0.17
8 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTAGT
Found at i:13095490 original size:9 final size:9
Alignment explanation
Indices: 13095473--13095614 Score: 78
Period size: 9 Copynumber: 15.3 Consensus size: 9
13095463 ATTATAAACA
*
13095473 ATAATATAC
1 ATAACATAC
13095482 ATAACATAC
1 ATAACATAC
*
13095491 ATAATATAC
1 ATAACATAC
13095500 AT-ACATAAAC
1 ATAACAT--AC
* *
13095510 AATAATAAAC
1 -ATAACATAC
13095520 ATAACATAC
1 ATAACATAC
*
13095529 ATAAAATAC
1 ATAACATAC
13095538 ATAAACAGTA-
1 AT-AACA-TAC
13095548 ATATAC-TAC
1 ATA-ACATAC
13095557 ATAACATA-
1 ATAACATAC
* *
13095565 GTAATATAC
1 ATAACATAC
*
13095574 A-GACATAAAC
1 ATAACAT--AC
*
13095584 AATAATATAC
1 -ATAACATAC
13095594 ATAACATAC
1 ATAACATAC
*
13095603 ATAATATAC
1 ATAACATAC
13095612 ATA
1 ATA
13095615 TATAACAGAT
Statistics
Matches: 101, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
8 16 0.16
9 60 0.59
10 15 0.15
11 5 0.05
12 5 0.05
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (9 bp):
ATAACATAC
Found at i:13095508 original size:38 final size:38
Alignment explanation
Indices: 13095436--13095619 Score: 202
Period size: 38 Copynumber: 4.9 Consensus size: 38
13095426 ATATAAATTG
* * *
13095436 TAATATACAT-ACAT-GATAAACATACATATTATAAACAA
1 TAATATACATAACATACAT-AATATACATA-CATAAACAA
13095474 TAATATACATAACATACATAATATACATACATAAACAA
1 TAATATACATAACATACATAATATACATACATAAACAA
* *
13095512 TAATAAACATAACATACAT-A-A-A-ATACATAAACAG
1 TAATATACATAACATACATAATATACATACATAAACAA
* *
13095546 TAATATACTACATAACATA-GTAATATACAGACATAAACAA
1 T-A-ATA-TACATAACATACATAATATACATACATAAACAA
*
13095586 TAATATACATAACATACATAATATACATATATAA
1 TAATATACATAACATACATAATATACATACATAA
13095620 CAGATATACT
Statistics
Matches: 124, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
34 12 0.10
35 2 0.02
36 5 0.04
37 23 0.19
38 54 0.44
39 15 0.12
40 13 0.10
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (38 bp):
TAATATACATAACATACATAATATACATACATAAACAA
Found at i:13102918 original size:16 final size:16
Alignment explanation
Indices: 13102894--13102926 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13102884 TTCAAATTCC
*
13102894 TTAGTCATAGCTTTCT
1 TTAGCCATAGCTTTCT
13102910 TTAGCCATAGCTTTCT
1 TTAGCCATAGCTTTCT
13102926 T
1 T
13102927 AAAGTCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.48
Consensus pattern (16 bp):
TTAGCCATAGCTTTCT
Found at i:13113896 original size:23 final size:22
Alignment explanation
Indices: 13113867--13113928 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
13113857 ATCAGAATCT
13113867 AAAATTAAGAAAAGAAAAAGGA
1 AAAATTAAGAAAAGAAAAAGGA
* *
13113889 AAATATTAA-ATAAGGAAAATGGA
1 AAA-ATTAAGA-AAAGAAAAAGGA
*
13113912 AAAA-GAAGAAAAGAAAA
1 AAAATTAAGAAAAGAAAA
13113929 GGGGTACCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 9 0.27
22 6 0.18
23 18 0.55
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (22 bp):
AAAATTAAGAAAAGAAAAAGGA
Found at i:13117232 original size:19 final size:19
Alignment explanation
Indices: 13117208--13117305 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
13117198 AATTTTTAAG
13117208 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13117227 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13117246 GATA--CAATCTTAGATTT
1 GATATGCAATCTTAGATAT
13117263 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13117282 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
13117303 GAT
1 GAT
13117306 CTTGTACTCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13117255 original size:36 final size:37
Alignment explanation
Indices: 13117208--13117305 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
13117198 AATTTTTAAG
13117208 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
*
13117246 GATA-CAATCTTAGATTTGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
13117282 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
13117306 CTTGTACTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 35 0.65
38 11 0.20
40 8 0.15
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:13122892 original size:14 final size:15
Alignment explanation
Indices: 13122869--13122897 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13122859 CTATTTCAAA
13122869 AAAAAGAGAAAAATG
1 AAAAAGAGAAAAATG
13122884 AAAAA-AGAAAAATG
1 AAAAAGAGAAAAATG
13122898 GAGAGGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AAAAAGAGAAAAATG
Found at i:13123948 original size:44 final size:43
Alignment explanation
Indices: 13123753--13124196 Score: 305
Period size: 44 Copynumber: 10.1 Consensus size: 43
13123743 GAAACAAGAT
* *
13123753 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
* * * * * ** *
13123796 TCTGACA-CTCTTGTGCTTACAGCGAAGTAGATCGAAGAT-TTCAGCA
1 T-TGGCATC-CCTGTGTTTATAGGGAACAAG-TCGAAGATAGT-AG-A
* **
13123842 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTTAGCA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAG-A
*
13123885 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
* * * *
13123927 TTTGGCATCCTTGTGTTTATAGGGAACAAATTGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
* * * * * *
13123971 TCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGAT-TTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGT-AG-A
* *
13124017 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
* *
13124059 TTTGGTATCCCTGTGTTTATAGGGAACAAATCGAAGATAGTAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
*** * * * * *
13124103 TCTAATATTCCTGTGCTTACAGCGAAGC-AGATCGAAGAT-TTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGT-AG-A
* *
13124149 -TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
13124191 TCTGGC
1 T-TGGC
13124197 CTTCATATGT
Statistics
Matches: 311, Mismatches: 63, Indels: 53
0.73 0.15 0.12
Matches are distributed among these distances:
42 3 0.01
43 75 0.24
44 198 0.64
45 32 0.10
46 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGTAGA
Found at i:13124037 original size:88 final size:88
Alignment explanation
Indices: 13123754--13124059 Score: 372
Period size: 88 Copynumber: 3.5 Consensus size: 88
13123744 AAACAAGATT
* * *
13123754 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCTTGTGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
*
13123819 GAAGTAGATCGAAGATTTCAGCA
66 GAAGCAGATCGAAGATTTCAGCA
* *** * * * *
13123842 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTTAG--CATGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATC-TGACATTCCTGTGCTTACAG
* * *
13123905 GGAA-CA-AGTTGAAGATAGT-AG-A
65 CGAAGCAGA-TCGAAGAT-TTCAGCA
*
13123927 TTTGGCATCCTTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACA
1 --TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACA
13123992 GCGAAGCAGATCGAAGATTTCAGCA
64 GCGAAGCAGATCGAAGATTTCAGCA
*
13124017 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGAT
13124060 TTGGTATCCC
Statistics
Matches: 178, Mismatches: 29, Indels: 22
0.78 0.13 0.10
Matches are distributed among these distances:
85 2 0.01
86 11 0.06
87 54 0.30
88 97 0.54
89 12 0.07
90 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (88 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
GAAGCAGATCGAAGATTTCAGCA
Found at i:13124040 original size:175 final size:175
Alignment explanation
Indices: 13123749--13124103 Score: 586
Period size: 175 Copynumber: 2.0 Consensus size: 175
13123739 CAAAGAAACA
*
13123749 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
13123814 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
** * *
13123879 TTAGCA-TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGT
131 GCAG-ATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
* * *
13123924 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
13123989 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
13124054 GCAGATTTGGTATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
131 GCAGA-TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
13124100 AGAT
1 AGAT
13124104 CTAATATTCC
Statistics
Matches: 167, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
174 1 0.01
175 126 0.75
176 40 0.24
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (175 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
Found at i:13124042 original size:132 final size:132
Alignment explanation
Indices: 13123872--13124196 Score: 551
Period size: 132 Copynumber: 2.5 Consensus size: 132
13123862 GGAACAAGTT
* *
13123872 GAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* * *
13123937 TTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGA
66 CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGCTTACAGCGAAGCAGA
13124002 TC
131 TC
*
13124004 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGTATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* *
13124069 CTGTGTTTATAGGGAACAAATCGAAGATAGTAGATCTAATATTCCTGTGCTTACAGCGAAGCAGA
66 CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGCTTACAGCGAAGCAGA
13124134 TC
131 TC
* * *
13124136 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
13124197 CTTCATATGT
Statistics
Matches: 181, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 181 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (132 bp):
GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGCTTACAGCGAAGCAGA
TC
Found at i:13124072 original size:88 final size:87
Alignment explanation
Indices: 13123754--13124096 Score: 365
Period size: 88 Copynumber: 3.9 Consensus size: 87
13123744 AAACAAGATT
* *
13123754 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCTTGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATC-CCTGTGCTTACAG
*
13123818 CGAAGTAGATCGAAGATTTCAGCA
65 CGAA-CAGATCGAAGATTTCAGCA
* *** * * *
13123842 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTTAG--CATGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATC-TGACATCCCTGTGCTTACAG
* * *
13123905 GGAACA-AGTTGAAGATAGT-AG-A
65 CGAACAGA-TCGAAGAT-TTCAGCA
* *
13123927 TTTGGCATCCTTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACA
1 --TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATCCCTGTGCTTACA
13123992 GCGAAGCAGATCGAAGATTTCAGCA
64 GCGAA-CAGATCGAAGATTTCAGCA
* * ** * * *
13124017 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGTATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATCCCTGTGCTTACAGC
*
13124082 GAACAAATCGAAGAT
66 GAACAGATCGAAGAT
13124097 AGTAGATCTA
Statistics
Matches: 208, Mismatches: 35, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
85 2 0.01
86 11 0.05
87 65 0.31
88 116 0.56
89 12 0.06
90 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (87 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATCCCTGTGCTTACAGC
GAACAGATCGAAGATTTCAGCA
Found at i:13124537 original size:206 final size:206
Alignment explanation
Indices: 13124183--13124972 Score: 1301
Period size: 206 Copynumber: 3.8 Consensus size: 206
13124173 CAAATCGAAG
** * *
13124183 ATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCCGATCCAAGGTGATTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
*
13124248 TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAACAAATCTA
66 TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
** * * *
13124313 AGATGATTTGATATCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCATCTCCATATTCGATGG
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGG
*
13124378 AGAGTAGACAC
196 AGAGCAGACAC
** * *
13124389 ATAGCAGATCTGGCCTTTATATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
* *
13124454 TTACAAGGAACAAATCGAAGACATGGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
66 TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
*
13124519 AGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGG
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGG
13124584 AGAGCAGACAC
196 AGAGCAGACAC
13124595 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
13124660 TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
66 TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
*
13124725 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTGTCCATATTCGACGG
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGG
*
13124790 AGGGCAGACAC
196 AGAGCAGACAC
* * * * *
13124801 ATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
* * **
13124866 TTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTTGCGTGCTTACGATGAAGCAAATCTA
66 TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
* *
13124931 AGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
13124973 ATAACAGATT
Statistics
Matches: 552, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 552 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGGTGATTTGGCATCCTTGTGC
TTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGG
AGAGCAGACAC
Found at i:13125384 original size:19 final size:19
Alignment explanation
Indices: 13125360--13125456 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
13125350 AATCTTTAAG
13125360 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13125379 GATATGCAAT-TTAGATAT
1 GATATGCAATCTTAGATAT
*
13125397 GATA--CAATCTTAGATTT
1 GATATGCAATCTTAGATAT
13125414 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13125433 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
13125454 GAT
1 GAT
13125457 CCTGTAATCT
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
16 4 0.06
17 11 0.15
18 12 0.17
19 35 0.49
21 9 0.13
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13125406 original size:35 final size:37
Alignment explanation
Indices: 13125360--13125456 Score: 135
Period size: 35 Copynumber: 2.6 Consensus size: 37
13125350 AATCTTTAAG
13125360 GATATGCAATCTTAGATATGATATGCAAT-TTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
*
13125397 GATA-CAATCTTAGATTTGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
13125433 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
13125457 CCTGTAATCT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
35 22 0.42
36 12 0.23
37 4 0.08
38 7 0.13
40 8 0.15
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:13127978 original size:21 final size:21
Alignment explanation
Indices: 13127952--13127994 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13127942 CATTAATTAA
13127952 TATAATAATACATGATTATAT
1 TATAATAATACATGATTATAT
13127973 TATAATAATACATGATTATAT
1 TATAATAATACATGATTATAT
13127994 T
1 T
13127995 TTTTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
TATAATAATACATGATTATAT
Found at i:13128426 original size:26 final size:27
Alignment explanation
Indices: 13128397--13128450 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
13128387 GTTTAGAATT
*
13128397 AAAAT-TTAATATATATATTGAAGGCA
1 AAAATATTAATATATATATAGAAGGCA
*
13128423 AAAATACTTTATATATATATAGAAGGCA
1 AAAATA-TTAATATATATATAGAAGGCA
13128451 TTTTTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
28 19 0.79
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (27 bp):
AAAATATTAATATATATATAGAAGGCA
Found at i:13130688 original size:3 final size:3
Alignment explanation
Indices: 13130680--13130722 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
13130670 ATATTATGTC
* * *
13130680 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAG CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13130723 GTAAATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:13131052 original size:13 final size:11
Alignment explanation
Indices: 13130942--13131052 Score: 53
Period size: 12 Copynumber: 9.3 Consensus size: 11
13130932 TAGTACTAAC
13130942 AATAATATAAAT
1 AATAATA-AAAT
*
13130954 AATAATGAAAAC
1 AATAAT-AAAAT
* *
13130966 AACAAGAGAAAT
1 AATAATA-AAAT
*
13130978 AATAACAATAA-
1 AATAATAA-AAT
* *
13130989 CAGAATAAAAAT
1 AATAAT-AAAAT
*
13131001 AATGATAATAAT
1 AATAATAA-AAT
*
13131013 AATAATAGCAAT
1 AATAATA-AAAT
13131025 AATAATAAAATT
1 AATAATAAAA-T
13131037 AATAAATAAATAT
1 AAT-AATAAA-AT
13131050 AAT
1 AAT
13131053 TAATCAATTT
Statistics
Matches: 74, Mismatches: 15, Indels: 19
0.69 0.14 0.18
Matches are distributed among these distances:
11 11 0.15
12 51 0.69
13 11 0.15
14 1 0.01
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:13132798 original size:29 final size:30
Alignment explanation
Indices: 13132756--13132812 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
13132746 ATATAAATTA
*
13132756 TGTAATTGTGTATATG-AACTTTGATTTTG
1 TGTAATTGTATATATGAAACTTTGATTTTG
* *
13132785 TGTAATTTTATATATGAAATTTTGATTT
1 TGTAATTGTATATATGAAACTTTGATTT
13132813 CATATCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (30 bp):
TGTAATTGTATATATGAAACTTTGATTTTG
Found at i:13133839 original size:18 final size:18
Alignment explanation
Indices: 13133813--13133864 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
13133803 ATTTATTTTA
*
13133813 TTATTATTTTTATCATAT
1 TTATAATTTTTATCATAT
* *
13133831 TTATAATTTTAATCTTAT
1 TTATAATTTTTATCATAT
13133849 TACTATAATATTTTAT
1 T--TATAAT-TTTTAT
13133865 ATTATTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 16 0.59
20 6 0.22
21 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATAATTTTTATCATAT
Found at i:13134396 original size:13 final size:13
Alignment explanation
Indices: 13134348--13134393 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
13134338 ATTTTTTTAT
13134348 AATTAAATT-TTA
1 AATTAAATTATTA
*
13134360 AATTAAAGCTATTA
1 AATTAAA-TTATTA
13134374 AATTAAATTATTA
1 AATTAAATTATTA
13134387 AACTTAA
1 AA-TTAA
13134394 TTAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 8 0.28
14 14 0.48
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (13 bp):
AATTAAATTATTA
Found at i:13137940 original size:18 final size:18
Alignment explanation
Indices: 13137904--13137942 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13137894 TTGAAAATTG
*
13137904 AAAACATTAAAGAATATA
1 AAAACATTAAAGAAAATA
* *
13137922 AAAACATTGAGGAAAATA
1 AAAACATTAAAGAAAATA
13137940 AAA
1 AAA
13137943 GTACTCACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAACATTAAAGAAAATA
Found at i:13143573 original size:41 final size:41
Alignment explanation
Indices: 13143484--13143579 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
13143474 TCGTGTAAGA
* * *
13143484 CACACGGCCTAGCACACAGGCAGGTGGTAGACCGTGTGACC
1 CACACGGCCTCGCACACAGGCAGGTGGTAAACCATGTGACC
* * *
13143525 CACACGGCCTCGCACACGGGCATGTGGTAAACCATGTGACT
1 CACACGGCCTCGCACACAGGCAGGTGGTAAACCATGTGACC
* *
13143566 TATACGGCCTCGCA
1 CACACGGCCTCGCA
13143580 TATAAGCGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (41 bp):
CACACGGCCTCGCACACAGGCAGGTGGTAAACCATGTGACC
Found at i:13143878 original size:19 final size:20
Alignment explanation
Indices: 13143854--13143918 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
13143844 TATTTTCTGG
13143854 ATTTATATAT-TTTTATTTT
1 ATTTATATATCTTTTATTTT
*
13143873 ATTTATTTATCTTTTATTTTCT
1 ATTTATATATCTTTTA-TTT-T
*
13143895 GAATT-TATATCTTTTATTTT
1 -ATTTATATATCTTTTATTTT
13143915 ATTT
1 ATTT
13143919 TATTATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 12 0.32
20 6 0.16
21 6 0.16
22 11 0.29
23 3 0.08
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTATATATCTTTTATTTT
Found at i:13143908 original size:22 final size:22
Alignment explanation
Indices: 13143842--13143914 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
13143832 TATTTATTTA
* *
13143842 TTTATTTTCTGGATTTATATATT
1 TTTATTTTCTGAATTTATAT-CT
* **
13143865 TTTATTTTATTTA-TT-TATCT
1 TTTATTTTCTGAATTTATATCT
13143885 TTTATTTTCTGAATTTATATCT
1 TTTATTTTCTGAATTTATATCT
13143907 TTTATTTT
1 TTTATTTT
13143915 ATTTTATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 11 0.27
21 5 0.12
22 15 0.37
23 10 0.24
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTATTTTCTGAATTTATATCT
Found at i:13143921 original size:43 final size:45
Alignment explanation
Indices: 13143829--13143922 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 45
13143819 CAATCCCTAT
* * *
13143829 TTTTATTTATTTATTTATTTTCTGGATTTATATATTTTTATTTTA
1 TTTTATTTATCTATTTATTTTCTGAATTTATATACTTTTATTTTA
13143874 -TTTATTTATCT-TTTATTTTCTGAATTTATAT-CTTTTATTTTA
1 TTTTATTTATCTATTTATTTTCTGAATTTATATACTTTTATTTTA
13143916 TTTTATT
1 TTTTATT
13143923 ATGTTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 10 0.22
43 25 0.56
44 10 0.22
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (45 bp):
TTTTATTTATCTATTTATTTTCTGAATTTATATACTTTTATTTTA
Found at i:13146977 original size:27 final size:27
Alignment explanation
Indices: 13146939--13146993 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13146929 AATTTCTACG
13146939 GATCAAGATACTAAGTGAAGAAATTGT
1 GATCAAGATACTAAGTGAAGAAATTGT
13146966 GATCAAGATACTAAGTGAAGAAATTGT
1 GATCAAGATACTAAGTGAAGAAATTGT
13146993 G
1 G
13146994 TAATTTAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (27 bp):
GATCAAGATACTAAGTGAAGAAATTGT
Found at i:13147659 original size:16 final size:16
Alignment explanation
Indices: 13147638--13147671 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13147628 GTGTATTATG
13147638 AAATAAAGATA-AAAGA
1 AAATAAAGA-ACAAAGA
13147654 AAATAAAGAACAAAGA
1 AAATAAAGAACAAAGA
13147670 AA
1 AA
13147672 TAGAGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (16 bp):
AAATAAAGAACAAAGA
Found at i:13154910 original size:50 final size:50
Alignment explanation
Indices: 13154829--13154938 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
13154819 ATAAGAGTAC
* *
13154829 CGGTAGAAGTGTAGAGGATGTTAAACCTTGGCTACTAACTTGACTTATTT
1 CGGTAGAAGTATAGAGGATGCTAAACCTTGGCTACTAACTTGACTTATTT
* * *
13154879 CGGTAGAAGTATAG-GAGATGCTGAACTTTGGCTACTAACTTGACTTGTTT
1 CGGTAGAAGTATAGAG-GATGCTAAACCTTGGCTACTAACTTGACTTATTT
13154929 CAGG-AGAAGT
1 C-GGTAGAAGT
13154939 CCTTAAAGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.94
51 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (50 bp):
CGGTAGAAGTATAGAGGATGCTAAACCTTGGCTACTAACTTGACTTATTT
Found at i:13164015 original size:32 final size:32
Alignment explanation
Indices: 13163942--13164015 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
13163932 TGAGCCACAC
* *
13163942 GACCGTGTGTATCGATCGTGTGGAATCACTCA
1 GACCGTGTGTATAGATCATGTGGAATCACTCA
* * *
13163974 GACTGTGTGTATAGGTCATGTGGAATCACTTA
1 GACCGTGTGTATAGATCATGTGGAATCACTCA
*
13164006 GACCATGTGT
1 GACCGTGTGT
13164016 GATAAAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (32 bp):
GACCGTGTGTATAGATCATGTGGAATCACTCA
Done.