Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 145 of 352
Found at i:47484917 original size:15 final size:16
Alignment explanation
Indices: 47484897--47484926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47484887 ACAAATAGTA
47484897 AAATA-TTAAAAAAAT
1 AAATATTTAAAAAAAT
47484912 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
47484927 CACATGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:47487322 original size:31 final size:31
Alignment explanation
Indices: 47487287--47487351 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
47487277 AACCATTTAA
* *
47487287 TGACCAAAATAGAAACGATTTAAAACATGAG
1 TGACCAAAATAAAAACGATCTAAAACATGAG
* * *
47487318 TGACCAAAATAAAAATGATCTAAAATATTAG
1 TGACCAAAATAAAAACGATCTAAAACATGAG
47487349 TGA
1 TGA
47487352 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (31 bp):
TGACCAAAATAAAAACGATCTAAAACATGAG
Found at i:47488101 original size:12 final size:12
Alignment explanation
Indices: 47488084--47488116 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
47488074 CGGTCCACCC
47488084 ATATTAATTTTT
1 ATATTAATTTTT
47488096 ATATT-ATTTTT
1 ATATTAATTTTT
47488107 ATA-TAATTTT
1 ATATTAATTTT
47488117 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:47488141 original size:18 final size:18
Alignment explanation
Indices: 47488118--47488157 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
47488108 TATAATTTTA
*
47488118 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
47488136 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
47488154 AAAA
1 AAAA
47488158 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:47488275 original size:30 final size:30
Alignment explanation
Indices: 47488239--47488301 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
47488229 ACTTAAATAG
47488239 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
47488269 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
47488299 CAA
1 CAA
47488302 TAAAATAAGT
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:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:47492906 original size:27 final size:27
Alignment explanation
Indices: 47492854--47492922 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
47492844 ATGCCTTATT
**
47492854 GGTGTGTTTGGGAGGATATATTATATC
1 GGTGTGTTTGGGAGGATATACAATATC
*
47492881 GGTGTGTTAT-GGAGGATTTACAATATTCC
1 GGTGTGTT-TGGGAGGATATACAATA-T-C
47492910 GGGTGTGTTTGGG
1 -GGTGTGTTTGGG
47492923 TTGGATATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 20 0.59
28 2 0.06
29 2 0.06
30 10 0.29
ACGTcount: A:0.19, C:0.06, G:0.36, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATACAATATC
Found at i:47492955 original size:21 final size:23
Alignment explanation
Indices: 47492911--47492955 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47492901 CAATATTCCG
*
47492911 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATAATCT
47492934 GGTGTGTTTGGG-TGGA-AATCT
1 GGTGTGTTTGGGTTGGATAATCT
47492955 G
1 G
47492956 CGTATCTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.11, C:0.04, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATAATCT
Found at i:47498510 original size:21 final size:23
Alignment explanation
Indices: 47498466--47498510 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47498456 CAATATTCCG
*
47498466 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATAATCT
47498489 GGTGTGTTTGGG-TGGA-AATCT
1 GGTGTGTTTGGGTTGGATAATCT
47498510 G
1 G
47498511 CGTATCTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.11, C:0.04, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATAATCT
Found at i:47501890 original size:33 final size:32
Alignment explanation
Indices: 47501804--47501931 Score: 87
Period size: 33 Copynumber: 3.9 Consensus size: 32
47501794 CGTTTTATTG
* *
47501804 ATGCCATAGTCCAA-CTATGGTCTTACACATATA
1 ATGCCATA-ACCAAGCTATGGTCTTACAC-TAGA
* ** ** * *
47501837 TTGCCATGGCCCTGCCATGGTCTTACACTCGTA
1 ATGCCATAACCAAGCTATGGTCTTACACTAG-A
* * *
47501870 ATGCCATAACCAAGTTATGGTCTTATCATTAGG
1 ATGCCATAACCAAGCTATGGTCTTA-CACTAGA
* *
47501903 ATGCCATAGCCCAGCTATGGTCTTACACT
1 ATGCCATAACCAAGCTATGGTCTTACACT
47501932 TATACATATA
Statistics
Matches: 70, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
32 6 0.09
33 60 0.86
34 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (32 bp):
ATGCCATAACCAAGCTATGGTCTTACACTAGA
Found at i:47501979 original size:105 final size:101
Alignment explanation
Indices: 47501870--47502063 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 101
47501860 TACACTCGTA
* ** *
47501870 ATGCCAT-AACCAAGTTATGGTCTTATCATTAGGATGCCATAGCCCAGCTATGGTCTTACACTTA
1 ATGCCATAAACC-AGTTATGGTCTTATCACTAAAATGCCATAGCCCAGCTATAGTCTTACA-TT-
47501934 TACATATACTGCCATGATCCAACCATGGTCTTACGTTCACG
63 TA-A-ATACTGCCATGATCCAACCATGGTCTTACGTTCACG
* *
47501975 ATGCCATAAACCAGTTATGGTCTTTTCACTAAAATGCCATAGCCTAGCTATAGTCTTACATTTAA
1 ATGCCATAAACCAGTTATGGTCTTATCACTAAAATGCCATAGCCCAGCTATAGTCTTACATTTAA
* * *
47502040 ATATTTCCATGGTCCAACCATGGT
66 ATACTGCCATGATCCAACCATGGT
47502064 ATTATCCGTC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 21 0.27
102 1 0.01
103 2 0.03
104 2 0.03
105 49 0.62
106 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
ATGCCATAAACCAGTTATGGTCTTATCACTAAAATGCCATAGCCCAGCTATAGTCTTACATTTAA
ATACTGCCATGATCCAACCATGGTCTTACGTTCACG
Found at i:47506986 original size:41 final size:41
Alignment explanation
Indices: 47506929--47507012 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
47506919 GATCTCAAAT
47506929 CACTGTTTCCGACACCACTGAAAATTGGGCTGTTACAATTC
1 CACTGTTTCCGACACCACTGAAAATTGGGCTGTTACAATTC
* * *
47506970 CACTGTTTTCGACACCACTGAAAATTGGGTTGTTATAATTC
1 CACTGTTTCCGACACCACTGAAAATTGGGCTGTTACAATTC
47507011 CA
1 CA
47507013 TCTCTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (41 bp):
CACTGTTTCCGACACCACTGAAAATTGGGCTGTTACAATTC
Found at i:47510515 original size:57 final size:57
Alignment explanation
Indices: 47510437--47510548 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
47510427 TTGTTATGTT
* *
47510437 TGTTAGGACGTTAGTTGCAAGTATGATTT-TCGACTCTATGAGTATTTGAAAATCTTC
1 TGTTAGGACGTTAGTTCCAAGTATGCTTTCT-GACTCTATGAGTATTTGAAAATCTTC
* *
47510494 TGTTGGGACGTTAGTTCCAAGTATGCTTTCTGACTCTGTGAGTATTTGAAAATCT
1 TGTTAGGACGTTAGTTCCAAGTATGCTTTCTGACTCTATGAGTATTTGAAAATCT
47510549 GTTGTGCTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 49 0.98
58 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (57 bp):
TGTTAGGACGTTAGTTCCAAGTATGCTTTCTGACTCTATGAGTATTTGAAAATCTTC
Found at i:47513032 original size:22 final size:22
Alignment explanation
Indices: 47513007--47513068 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
47512997 GTCACACGAC
47513007 CGTGTGCCTCTCTTCACACAGG
1 CGTGTGCCTCTCTTCACACAGG
* *
47513029 CGTGTGCCTCAGC--CACACGGG
1 CGTGTGCCTC-TCTTCACACAGG
* *
47513050 CATGTGCCCCTCTTCACAC
1 CGTGTGCCTCTCTTCACAC
47513069 GGGTGTCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.03
21 15 0.47
22 15 0.47
23 1 0.03
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (22 bp):
CGTGTGCCTCTCTTCACACAGG
Found at i:47517379 original size:27 final size:27
Alignment explanation
Indices: 47517348--47517840 Score: 342
Period size: 27 Copynumber: 18.4 Consensus size: 27
47517338 AGACCCTGGT
*
47517348 TTGTAAAATTACCAAAATACCCTTGGA
1 TTGTAAAATTACCAAAATACCCTTAGA
* **
47517375 TTGTAAAATTATCAAAATACCC-CCGA
1 TTGTAAAATTACCAAAATACCCTTAGA
*
47517401 TTTGTAAAA-T--CGAAATACCCTCT-GA
1 -TTGTAAAATTACCAAAATACCCT-TAGA
**
47517426 TTGTAAAATTACCAAAATACCCTCGGA
1 TTGTAAAATTACCAAAATACCCTTAGA
*** *
47517453 TTGTAAAATTATTGAAATACCCATA-A
1 TTGTAAAATTACCAAAATACCCTTAGA
* * *
47517479 TTTGTAAAATTATCGAAATACCCCTAG-
1 -TTGTAAAATTACCAAAATACCCTTAGA
* * *
47517506 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTTAGA
** * * *
47517533 TTGTAAAATTATTAGAATACCCTCAAA
1 TTGTAAAATTACCAAAATACCCTTAGA
*** **
47517560 TTGTAAAATTATTGAAATACCCCCA-A
1 TTGTAAAATTACCAAAATACCCTTAGA
* * * *
47517586 TTTATAAAATTACAAAAATACCCTCAGT
1 -TTGTAAAATTACCAAAATACCCTTAGA
*
47517614 TTGTAAAATTACCAAAATA-CCTTCTGA
1 TTGTAAAATTACCAAAATACCCTT-AGA
** *
47517641 TTGTAAAATTATTAAAATACCCTTTGA
1 TTGTAAAATTACCAAAATACCCTTAGA
* ** *
47517668 TTGTAAAATTACCGAAATACCCCCAGT
1 TTGTAAAATTACCAAAATACCCTTAGA
* * * *
47517695 TTATAAAATTACCAAAAGACTCC-CAGT
1 TTGTAAAATTACCAAAATAC-CCTTAGA
* * * *
47517722 TTGTTAAATTATCGAAATA-CCTTCGGA
1 TTGTAAAATTACCAAAATACCCTT-AGA
* ** *
47517749 TTGTAAAATTACTAAAATACCCCCAGT
1 TTGTAAAATTACCAAAATACCCTTAGA
* * *
47517776 TTGTAAAATTACCGAAATAGCCTCAGA
1 TTGTAAAATTACCAAAATACCCTTAGA
* *
47517803 TTGTAAAATTACCGAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCTTAGA
47517830 TTGTAAAATTA
1 TTGTAAAATTA
47517841 TTATTTTGCC
Statistics
Matches: 372, Mismatches: 76, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
24 17 0.05
25 5 0.01
26 29 0.08
27 313 0.84
28 8 0.02
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTTAGA
Found at i:47517834 original size:81 final size:80
Alignment explanation
Indices: 47517348--47517840 Score: 462
Period size: 81 Copynumber: 6.1 Consensus size: 80
47517338 AGACCCTGGT
** * * * *
47517348 TTGTAAAATTACCAAAATACCCTTGGATTGTAAAATTATCAAAATACCCCCGATTTGT-AAA--A
1 TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCTCAGA-TTGTAAAATTA
47517410 TCGAAATACCCTCT-GA
65 TCGAAATACCCT-TAGA
* * *** *
47517426 TTGTAAAATTACCAAAATACCCTCGGATTGTAAAATTATTGAAATACC-CATAATTTGTAAAATT
1 TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCTCA-GA-TTGTAAAATT
*
47517490 ATCGAAATACCCCTAG-
64 ATCGAAATACCCTTAGA
* ** ** * *
47517506 TTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTATTAGAATACCCTCAAATTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA-CCTCAGATTGTAAAATTA
* **
47517571 TTGAAATACCCCCA-A
65 TCGAAATACCCTTAGA
* * *
47517586 TTTATAAAATTACAAAAATACCCTCAGTTTGTAAAATTACCAAAATACCTTCTGATTGTAAAATT
1 -TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACC-TCAGATTGTAAAATT
** *
47517651 ATTAAAATACCCTTTGA
64 ATCGAAATACCCTTAGA
* * * * * * *
47517668 TTGTAAAATTACCGAAATACCCCCAGTTTATAAAATTACCAAAAGACTCCCAGTTTGTTAAATTA
1 TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATAC-CTCAGATTGTAAAATTA
*
47517733 TCGAAATA-CCTTCGGA
65 TCGAAATACCCTT-AGA
* * *
47517749 TTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTACCGAAATAGCCTCAGATTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA-CCTCAGATTGTAAAATTA
* *
47517814 CCGAAATACCCTTAGT
65 TCGAAATACCCTTAGA
47517830 TTGTAAAATTA
1 TTGTAAAATTA
47517841 TTATTTTGCC
Statistics
Matches: 350, Mismatches: 50, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.00
78 51 0.15
79 3 0.01
80 71 0.20
81 215 0.61
82 9 0.03
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCTCAGATTGTAAAATTAT
CGAAATACCCTTAGA
Found at i:47532359 original size:30 final size:30
Alignment explanation
Indices: 47532323--47532384 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
47532313 CAAGTAGCCG
* *
47532323 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACCTACTGCCA
47532353 AAGCTAGTTTAAATCGCACACCTACTGCCA
1 AAGCTAGTTTAAATCGCACACCTACTGCCA
47532383 AA
1 AA
47532385 ACTTTCGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACCTACTGCCA
Found at i:47533892 original size:20 final size:20
Alignment explanation
Indices: 47533869--47533917 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
47533859 TAATTTAGCC
* *
47533869 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTTTCAATTTAAT
*
47533889 ATTTTTGTTTTCAATTTAAT
1 ATTTTTATTTTCAATTTAAT
47533909 -TTTTATATT
1 ATTTT-TATT
47533918 GTAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTTCAATTTAAT
Found at i:47540110 original size:42 final size:42
Alignment explanation
Indices: 47539986--47540146 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 42
47539976 TAAGATGCCA
* * ** *
47539986 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
1 ATGCCATATCCCAGATAGGGTCTTACACGAAATCGCATATCG
* * * * * ** *
47540028 ATGCTGATAGCTCAGCTATGGTCTTACACGATGTCTCATATCG
1 ATGC-CATATCCCAGATAGGGTCTTACACGAAATCGCATATCG
* * *
47540071 ATGCCATGTCCCAGACT-GGGTCTTACATGAAATCGCATATTG
1 ATGCCATATCCCAGA-TAGGGTCTTACACGAAATCGCATATCG
* *
47540113 ATGTCATATCCCAGATATGGTCTTACACGAAATC
1 ATGCCATATCCCAGATAGGGTCTTACACGAAATC
47540147 ACTTATAACC
Statistics
Matches: 92, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 1 0.01
42 57 0.62
43 34 0.37
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATAGGGTCTTACACGAAATCGCATATCG
Found at i:47540110 original size:85 final size:84
Alignment explanation
Indices: 47539986--47540142 Score: 199
Period size: 85 Copynumber: 1.9 Consensus size: 84
47539976 TAAGATGCCA
* ** * * *
47539986 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCTGATAGCTCAGCTATGGTC
1 ATGCCATATCCCAGATAGGGTCTTACATGAAATCACATATCGATG-TCATAGCCCAGATATGGTC
47540051 TTACACGATGTCTCATATCG
65 TTACACGATGTCTCATATCG
* * * *
47540071 ATGCCATGTCCCAGACT-GGGTCTTACATGAAATCGCATATTGATGTCATATCCCAGATATGGTC
1 ATGCCATATCCCAGA-TAGGGTCTTACATGAAATCACATATCGATGTCATAGCCCAGATATGGTC
47540135 TTACACGA
65 TTACACGA
47540143 AATCACTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 23 0.38
85 37 0.61
86 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (84 bp):
ATGCCATATCCCAGATAGGGTCTTACATGAAATCACATATCGATGTCATAGCCCAGATATGGTCT
TACACGATGTCTCATATCG
Found at i:47542556 original size:89 final size:89
Alignment explanation
Indices: 47542405--47542584 Score: 272
Period size: 89 Copynumber: 2.0 Consensus size: 89
47542395 ACGAACTTAC
* * *
47542405 CTCGATAACTAGAGTTGTAGTGGTAGATTCAAACTAAAACAAAACTTTAGCCTTTCCTTGATTTA
1 CTCGATAACTAGAGTCGTAGTAGTAGAGTCAAACTAAAACAAAACTTTAGCCTTTCCTTGATTTA
*
47542470 AGT-TCGATTGTGGTTTATCTTGAT
66 AGTCT-GATTGTGGTTTATCTTAAT
** * *
47542494 CTCGATAACTAGAGTCGTAGTAGTAGAGTCAAACTAATCCAAAGCTTTAGCTTTTCCTTGATTTA
1 CTCGATAACTAGAGTCGTAGTAGTAGAGTCAAACTAAAACAAAACTTTAGCCTTTCCTTGATTTA
47542559 AGTCTGATTGTGGTTTATCTTAAT
66 AGTCTGATTGTGGTTTATCTTAAT
47542583 CT
1 CT
47542585 AAATAAATAA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 81 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (89 bp):
CTCGATAACTAGAGTCGTAGTAGTAGAGTCAAACTAAAACAAAACTTTAGCCTTTCCTTGATTTA
AGTCTGATTGTGGTTTATCTTAAT
Found at i:47546101 original size:46 final size:44
Alignment explanation
Indices: 47546007--47546116 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 44
47545997 GTGTAAATGC
* *
47546007 CATGT-CCAGGCATGGTCTTACACTGACACATCTCGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATG
*
47546051 CATGTCCCAGACATGTCTTACACTGGATTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GA-CACATCTCGTA-GCCGATG
*
47546097 CATGTCCCACACATGTCTTA
1 CATGTCCCAGACATGTCTTA
47546117 TTCAGGAACA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
44 15 0.26
45 10 0.17
46 33 0.57
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:47552258 original size:33 final size:33
Alignment explanation
Indices: 47552216--47552286 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
47552206 TTATTATTTT
47552216 AATTTTTATATCATGATAATACGATTGTGTGAA
1 AATTTTTATATCATGATAATACGATTGTGTGAA
47552249 AATTTTTATATCATGATAATACGATTGTGTGAA
1 AATTTTTATATCATGATAATACGATTGTGTGAA
47552282 AATTT
1 AATTT
47552287 CGTTAAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.44
Consensus pattern (33 bp):
AATTTTTATATCATGATAATACGATTGTGTGAA
Found at i:47553351 original size:23 final size:23
Alignment explanation
Indices: 47553323--47553371 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
47553313 AATGGTGAAT
47553323 TTTGCTTATTATTTTCATATGAG
1 TTTGCTTATTATTTTCATATGAG
47553346 TTTGCTTATTATTTTCATATGAG
1 TTTGCTTATTATTTTCATATGAG
47553369 TTT
1 TTT
47553372 ACTAAGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.59
Consensus pattern (23 bp):
TTTGCTTATTATTTTCATATGAG
Found at i:47555936 original size:28 final size:28
Alignment explanation
Indices: 47555847--47555923 Score: 145
Period size: 28 Copynumber: 2.8 Consensus size: 28
47555837 ATGCACTATT
47555847 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
*
47555875 ATACCCTTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
47555903 ATACCCCTATGTATGCAAAAT
1 ATACCCCTATGTATGCAAAAT
47555924 GACCTTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATA
Found at i:47556076 original size:28 final size:27
Alignment explanation
Indices: 47556045--47556136 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 27
47556035 AGGAAGCGTC
47556045 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAATTATCTGTT
*
47556073 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGG-CATGCCACAAATTATCTGTT
*
47556101 CTGGTGGCACTGCCACAAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATTATCTGT-T
47556131 CTGGTG
1 CTGGTG
47556137 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
27 1 0.02
28 38 0.67
29 11 0.19
30 7 0.12
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCATGCCACAAATTATCTGTT
Found at i:47556155 original size:56 final size:56
Alignment explanation
Indices: 47556045--47556161 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 56
47556035 AGGAAGCGTC
* *
47556045 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTAT
* * *
47556101 CTGGTGGC-ACTGCCACAAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCAC-AAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGTAT
47556158 CTGG
1 CTGG
47556162 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
55 1 0.02
56 22 0.42
57 15 0.29
58 14 0.27
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
Found at i:47571421 original size:46 final size:46
Alignment explanation
Indices: 47571354--47571521 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 46
47571344 GCCCATAAGC
47571354 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
* *
47571400 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTCTC-A--
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCATC-CACAAGT
* * * * *
47571448 -AACTTGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
*
47571493 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
47571522 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 55 0.55
47 25 0.25
49 1 0.01
50 5 0.05
51 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
Found at i:47571475 original size:93 final size:93
Alignment explanation
Indices: 47571355--47571525 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
47571345 CCCATAAGCG
* *
47571355 AACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
47571420 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
47571448 AACTTGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
*
47571513 GAGTTCGGATGCC
66 GAGCTCGGATGCC
47571526 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:47573932 original size:30 final size:30
Alignment explanation
Indices: 47573888--47573976 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
47573878 CAAAGATAAC
47573888 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
47573917 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
47573947 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
47573977 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:47573936 original size:15 final size:15
Alignment explanation
Indices: 47573888--47573967 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
47573878 CAAAGATAAC
*
47573888 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47573902 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47573917 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
47573932 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47573947 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47573962 AAGAAA
1 AAGAAA
47573968 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47573976 original size:15 final size:15
Alignment explanation
Indices: 47573899--47573976 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
47573889 AGAAAACCGA
47573899 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
47573914 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
47573928 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47573943 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47573959 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47573974 ATA
1 ATA
47573977 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47583565 original size:17 final size:17
Alignment explanation
Indices: 47583531--47583565 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
47583521 AAACTTTGAG
47583531 ATTTTTCCAAAAATATA
1 ATTTTTCCAAAAATATA
47583548 ATTTATTCCAAAAA-ATA
1 ATTT-TTCCAAAAATATA
47583565 A
1 A
47583566 ACTACCACTA
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:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTTTCCAAAAATATA
Found at i:47592855 original size:13 final size:13
Alignment explanation
Indices: 47592837--47592861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47592827 ACAAACAATA
47592837 AAATTTTCACACG
1 AAATTTTCACACG
47592850 AAATTTTCACAC
1 AAATTTTCACAC
47592862 ATATCAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:47597972 original size:61 final size:61
Alignment explanation
Indices: 47597907--47598040 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
47597897 TAATTTGATA
* * * *
47597907 AACTAATACAAAGTAATATCTAAATATTAATTT-GATAAAAATAAAGTTTAATAATTGCAAT
1 AACTAATACAAAATAATATCTAAATATTAATTTGGA-AAAAATAAACTTAAATAATTACAAT
* * *
47597968 AACTAAGTA-AAAATAGTATTTAAATATTAATTTGGAAAGAATAAACTTAAATAATTACAAT
1 AACTAA-TACAAAATAATATCTAAATATTAATTTGGAAAAAATAAACTTAAATAATTACAAT
* *
47598029 ATCTAATTCAAA
1 AACTAATACAAA
47598041 TTGAGTATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
60 1 0.02
61 56 0.92
62 4 0.07
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (61 bp):
AACTAATACAAAATAATATCTAAATATTAATTTGGAAAAAATAAACTTAAATAATTACAAT
Found at i:47598436 original size:15 final size:15
Alignment explanation
Indices: 47598416--47598450 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
47598406 ATTAAAATAA
47598416 AAAATTAAACAAATT
1 AAAATTAAACAAATT
*
47598431 AAAATTAATCAAATT
1 AAAATTAAACAAATT
47598446 AAAAT
1 AAAAT
47598451 ACGCAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTAAACAAATT
Found at i:47598459 original size:14 final size:15
Alignment explanation
Indices: 47598416--47598460 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
47598406 ATTAAAATAA
*
47598416 AAAATTAAACAAATT
1 AAAATTAAGCAAATT
*
47598431 AAAATTAATCAAATT
1 AAAATTAAGCAAATT
*
47598446 AAAA-TACGCAAATT
1 AAAATTAAGCAAATT
47598460 A
1 A
47598461 CAGTTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (15 bp):
AAAATTAAGCAAATT
Found at i:47606614 original size:43 final size:43
Alignment explanation
Indices: 47606590--47606736 Score: 208
Period size: 43 Copynumber: 3.4 Consensus size: 43
47606580 CGATATCAGT
*
47606590 TCACCGGCATTATAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTA-AGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
47606634 TGACCGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
47606677 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
47606719 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
47606737 GGGATTTATC
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 15 0.16
42 2 0.02
43 67 0.72
44 9 0.10
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:47606773 original size:38 final size:38
Alignment explanation
Indices: 47606708--47606791 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
47606698 GGCACGAAGG
* * * * *
47606708 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGAGGAATTTAA
* *
47606746 CCCGGATATAATACCAGCGCGAAGCCTGAGGAATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGAGGAATTTAA
47606784 CCCGAATA
1 CCCGAATA
47606792 CACATCAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGAGGAATTTAA
Found at i:47609456 original size:16 final size:16
Alignment explanation
Indices: 47609435--47609465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47609425 GTCTTCCCCC
*
47609435 TTTTCTTTCCTCAATA
1 TTTTCTTTCCCCAATA
47609451 TTTTCTTTCCCCAAT
1 TTTTCTTTCCCCAAT
47609466 TTCGGCAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTCTTTCCCCAATA
Found at i:47610417 original size:50 final size:50
Alignment explanation
Indices: 47610342--47610442 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
47610332 GATAGCATGC
47610342 TTAATTTACCTACTAGGGCTTAATTGCAAAAAGTTGATAAATATGAGTTT
1 TTAATTTACCTACTAGGGCTTAATTGCAAAAAGTTGATAAATATGAGTTT
47610392 TTAATTTACCTACTAGGGCTTAATTGCAAAAAGTTGATAAATATGAGTTT
1 TTAATTTACCTACTAGGGCTTAATTGCAAAAAGTTGATAAATATGAGTTT
47610442 T
1 T
47610443 AGATACTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (50 bp):
TTAATTTACCTACTAGGGCTTAATTGCAAAAAGTTGATAAATATGAGTTT
Found at i:47611625 original size:53 final size:53
Alignment explanation
Indices: 47611451--47611654 Score: 129
Period size: 53 Copynumber: 3.8 Consensus size: 53
47611441 AGGGTTTAAG
* * * * * * * *
47611451 GATACCAAGTAACACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATACCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * ** * * * * * *
47611505 GAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAAGGTAAA
1 GATACCACGTAAGACCATACCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * * * * * *
47611560 GATCCCATGTAAGACTATGCCAAGGCATTGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATACCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
*
47611613 GATACCACGTAAGACCATATCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATACCAAGACATGGCAATGGTAAGTT
47611655 TAAAAAGGAA
Statistics
Matches: 111, Mismatches: 37, Indels: 5
0.73 0.24 0.03
Matches are distributed among these distances:
53 42 0.38
54 33 0.30
55 36 0.32
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATACCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:47618283 original size:40 final size:40
Alignment explanation
Indices: 47618236--47618419 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
47618226 CTCACACAAG
* *
47618236 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
47618276 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
47618316 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
47618356 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
47618396 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
47618420 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:47626297 original size:40 final size:40
Alignment explanation
Indices: 47626205--47626423 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
47626195 ACCCAAGTAT
* ** * *
47626205 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
47626243 CTTC-GGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
47626282 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
47626322 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
47626362 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAT-C
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCA-CAAATGC
47626402 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
47626424 CATTCGAATA
Statistics
Matches: 153, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
37 6 0.04
38 19 0.12
39 11 0.07
40 109 0.71
41 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:47629228 original size:53 final size:53
Alignment explanation
Indices: 47629046--47629252 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
47629036 ATTAGGGTTT
* * * * * *
47629046 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
47629100 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
47629155 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
47629208 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
47629253 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 39 0.32
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:47630604 original size:25 final size:23
Alignment explanation
Indices: 47630552--47630606 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
47630542 TATAAATAGT
47630552 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
47630575 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
47630600 AATAGTG
1 AATAGTG
47630607 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:47630707 original size:25 final size:26
Alignment explanation
Indices: 47630679--47630731 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
47630669 AGAAAATATG
*
47630679 TACATAATATAGTGTAAAA-A-ATACA
1 TACATAATATAAT-TAAAATATATACA
47630704 TACATAATATAATTAAAATATATACA
1 TACATAATATAATTAAAATATATACA
47630730 TA
1 TA
47630732 AGATAACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 13 0.52
26 7 0.28
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (26 bp):
TACATAATATAATTAAAATATATACA
Found at i:47630728 original size:22 final size:24
Alignment explanation
Indices: 47630671--47630737 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 24
47630661 GATATAAAAG
* *
47630671 AAAATATGTACATAATATAGTGTAA
1 AAAATATATACATAATATAATGT-A
*
47630696 AAAATACATACATAATATAAT-T-
1 AAAATATATACATAATATAATGTA
*
47630718 AAAATATATACATAAGATAA
1 AAAATATATACATAATATAA
47630738 CATGTAGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.49
24 1 0.03
25 18 0.49
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAATATATACATAATATAATGTA
Found at i:47630783 original size:25 final size:24
Alignment explanation
Indices: 47630753--47630880 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 24
47630743 AGAAAAAAAA
*
47630753 AATATAAATAATATAGTATTAAAG
1 AATATACATAATATAGTATTAAAG
*
47630777 ATATATACATAAAATAGTA-TAATA-
1 A-ATATACATAATATAGTATTAA-AG
* * * *
47630801 TATATACGTAATATAGAATT-TAG
1 AATATACATAATATAGTATTAAAG
* *
47630824 AATATACCTAATATA-T-TAAAAG
1 AATATACATAATATAGTATTAAAG
* *
47630846 AATATATATAATATAATATTAAA-
1 AATATACATAATATAGTATTAAAG
47630869 AATATA-ATAATA
1 AATATACATAATA
47630881 ACAAAAAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
21 1 0.01
22 22 0.27
23 34 0.41
24 9 0.11
25 16 0.20
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (24 bp):
AATATACATAATATAGTATTAAAG
Found at i:47631190 original size:16 final size:16
Alignment explanation
Indices: 47631152--47631190 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47631142 CTCCAAAAAA
*
47631152 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
47631168 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
47631184 AATAACT
1 AAAAACT
47631191 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:47631385 original size:30 final size:30
Alignment explanation
Indices: 47631349--47631476 Score: 211
Period size: 30 Copynumber: 4.3 Consensus size: 30
47631339 AGGTACAAGT
*
47631349 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
47631379 GGTGGTGAAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
47631409 GGTGGTAGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
47631439 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
47631469 GGTGGTGG
1 GGTGGTGG
47631477 CAAAGGCTAG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.20, C:0.06, G:0.49, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:47632270 original size:87 final size:88
Alignment explanation
Indices: 47632109--47632270 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 88
47632099 GTGATCCTGA
* *
47632109 GCTTAACTTATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAA
1 GCTTAACTCACTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAA
*
47632174 AATAGCTCAGCACGTGAGCCAAG
66 AATACCTCAGCACGTGAGCCAAG
* * * **
47632197 GCTTAACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTG
1 GCTTAACTCACTTCTCGCAATATGAATTGACTCTTTAAAACTAAACA-TT-AAAAACAGAAATTG
47632259 AAAATACCTCAG
64 AAAATACCTCAG
47632271 TATGTCACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
85 1 0.02
86 5 0.08
87 31 0.48
88 27 0.42
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (88 bp):
GCTTAACTCACTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAA
AATACCTCAGCACGTGAGCCAAG
Found at i:47632520 original size:13 final size:14
Alignment explanation
Indices: 47632488--47632520 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47632478 TGATTTTTTG
47632488 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
47632502 GAAAAACAGAATTT
1 GAAAAACAAAATTT
47632516 GAAAA
1 GAAAA
47632521 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:47632563 original size:91 final size:88
Alignment explanation
Indices: 47632275--47632685 Score: 407
Period size: 91 Copynumber: 4.6 Consensus size: 88
47632265 CCTCAGTATG
* * * * *
47632275 TCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTGAAAAAAAAATCAATTGAAAA
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAACAGA--AATTGAAAA
* *
47632338 TACCTCGGCGTGTGATCTGAGGCTTAAC
64 TACCTCAGCGTGT-A--TGAGGCTCAAC
* * *
47632366 TCACCTTTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAACAAAAAGAAATTGAAA
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTG--AA-AAACAGAAATTGAAA
* * *
47632431 ATATCTCAGCGTGTCCTGAGGCTGAAC
63 ATACCTCAGCGTGT-ATGAGGCTCAAC
* *
47632458 TCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACA-AAATTTGAAAAACAGAATTTGAAAAT
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAA-TTGAAAAACAGAAATTGAAAAT
*
47632522 ACCTCAGCGTGTGAGTCAAGGCTCAAC
65 ACCTCAGCGTGT-A-T-GAGGCTCAAC
* * * * * * *
47632549 TCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACA
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAACAGAAATTGAAAATA
* * *
47632614 CCTCAGCATCT-TGAGGTTCAAC
66 CCTCAGCGTGTATGAGGCTCAAC
* * *
47632636 TCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAA
1 TCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACATAAATTGAAAA
47632686 TACCTCAACG
Statistics
Matches: 274, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
87 30 0.11
88 25 0.09
89 26 0.09
90 3 0.01
91 94 0.34
92 51 0.19
93 17 0.06
94 20 0.07
95 2 0.01
96 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAACAGAAATTGAAAATA
CCTCAGCGTGTATGAGGCTCAAC
Found at i:47632594 original size:183 final size:177
Alignment explanation
Indices: 47632275--47632685 Score: 456
Period size: 183 Copynumber: 2.3 Consensus size: 177
47632265 CCTCAGTATG
* * *
47632275 TCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGAAAAAAAAATCAATTGAAAAT
1 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAAAAAAAT--ATTGAAAAT
* * * ** *
47632339 ACCTCGGCGTGTGATCTGAGGCTTAACTCACCTTTCGCAATATGAGTTGATTTTTTTGACAAACA
64 ACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGACAAACA
* * * * * *
47632404 TAAATTGAA-AACAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAAC
129 GAAATTGAAGAAC----AGAAATGGAAAACACCTCAGC--ATCCTGAGGCTCAAC
*
47632458 TCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACA-AAATTTGAAAAACAGAAT-TTGAAAA
1 TCACCTCTCGCAATATGAGTTGATTTTTT-GAAAAACATAAA-TTGAAAAA-AAAATATTGAAAA
47632521 TACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGA-AAC
63 TACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGACAA-
* *
47632584 ACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCATCTTGAGGTTCAAC
126 ACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCATCCTGAGGCTCAAC
* * *
47632636 TCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAA
1 TCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACATAAATTGAAAA
47632686 TACCTCAACG
Statistics
Matches: 198, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
178 33 0.17
179 14 0.07
180 27 0.14
182 2 0.01
183 91 0.46
184 13 0.07
185 14 0.07
186 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (177 bp):
TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAAAAAAATATTGAAAATAC
CTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGACAAACAGA
AATTGAAGAACAGAAATGGAAAACACCTCAGCATCCTGAGGCTCAAC
Found at i:47632812 original size:73 final size:75
Alignment explanation
Indices: 47632597--47633200 Score: 723
Period size: 73 Copynumber: 8.2 Consensus size: 75
47632587 GAAATTGAAG
* * * * *
47632597 AACAGAAATGGAAAACACCTC-A-GCATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
47632660 TTTTTTTGA-A
65 TTTTTTTGACA
* *
47632670 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
47632735 --TTTTTGACA
65 TTTTTTTGACA
* * * *
47632744 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
47632807 TTTTTTGAAA
66 TTTTTTGACA
* * *
47632817 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
47632882 TTTTTT-A-A
66 TTTTTTGACA
* *
47632890 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
47632955 --TTTTTGACA
65 TTTTTTTGACA
* * * * * * * *
47632964 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGGTCAACTCACCTATCACAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
47633029 TTCTTTGAAA
66 TTTTTTGACA
* *
47633039 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
47633103 -GTTTTGACA
66 TTTTTTGACA
* * * * * * *
47633112 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCACAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
47633177 TTTTTT-AGA
66 TTTTTTGACA
* *
47633186 AACATAAATTAAAAA
1 AACAGAAATTGAAAA
47633201 AACGAAAATT
Statistics
Matches: 461, Mismatches: 55, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
71 36 0.08
72 6 0.01
73 174 0.38
74 98 0.21
75 112 0.24
76 35 0.08
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGACA
Found at i:47633022 original size:222 final size:220
Alignment explanation
Indices: 47632591--47633180 Score: 918
Period size: 222 Copynumber: 2.7 Consensus size: 220
47632581 AACACAGAAA
* * * **
47632591 TTGAAGAACAGAAATGGAAAACACCTC-A-GCATCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
47632654 GCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 GCTGA-TTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
47632719 TCACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACT
129 TCACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGGTCAACT
* *
47632784 CACCTATCGCAATATGAGTTGATTTTT
194 CACCTATCACAATATGAGTTGATTTCT
47632811 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
47632876 GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTC
66 GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
47632941 GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGGTCAACT
131 ACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGGTCAACT
47633006 CACCTATCACAATATGAGTTGATTTCT
194 CACCTATCACAATATGAGTTGATTTCT
* *
47633033 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * * *
47633098 GTTGA-GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GCTGATTTTTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
47633161 CACAATATGAGTTGATTTTT
130 CACAATATGAGTTGATTTTT
47633181 TTAGAAACAT
Statistics
Matches: 342, Mismatches: 23, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
220 122 0.36
221 74 0.22
222 146 0.43
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (220 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
ACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGGTCAACTCA
CCTATCACAATATGAGTTGATTTCT
Found at i:47633099 original size:148 final size:147
Alignment explanation
Indices: 47632591--47633267 Score: 799
Period size: 147 Copynumber: 4.5 Consensus size: 147
47632581 AACACAGAAA
* * * ** *
47632591 TTGAAGAACAGAAATGGAAAACACCTC-A-GCATCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
47632654 GCTGATTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
66 GTTGA---TTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCT
47632718 CTCACAATATGAGTTGA-TTT
127 CTCACAATATGAGTTGATTTT
* * * * * *
47632738 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
47632801 GTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
66 GTTGA--TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
* *
47632866 CGCAATATGAGCTGATTTT
129 CACAATATGAGTTGATTTT
* * *
47632885 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
47632950 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGGTCAACTCACCTATCA
66 GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCA
47633015 CAATATGAGTTGATTTCT
131 CAATATGAGTTGATTT-T
*
47633033 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
47633098 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCA
66 GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCA
47633163 CAATATGAGTTGATTTTT
131 CAATATGAGTTGA-TTTT
* *
47633181 TTAGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCAC
1 TT-G-----------AAAAACA-G-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
47633246 CTCTCGCAATATGAGTTGATTT
52 CTCTCGCAATATGAGTTGATTT
47633268 GAAAAGCAGA
Statistics
Matches: 468, Mismatches: 42, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
146 69 0.15
147 153 0.33
148 140 0.30
149 40 0.09
160 6 0.01
161 1 0.00
162 59 0.13
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCA
CAATATGAGTTGATTTT
Found at i:47633406 original size:14 final size:14
Alignment explanation
Indices: 47633370--47633414 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
47633360 TTGATTTTTG
47633370 AAAAATAGAAATT-
1 AAAAATAGAAATTA
**
47633383 AAAAGCAGAAATTA
1 AAAAATAGAAATTA
47633397 AAAAATAGAAATTA
1 AAAAATAGAAATTA
47633411 AAAA
1 AAAA
47633415 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (14 bp):
AAAAATAGAAATTA
Found at i:47633415 original size:13 final size:13
Alignment explanation
Indices: 47633370--47633416 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
47633360 TTGATTTTTG
47633370 AAAAATAGAAATT
1 AAAAATAGAAATT
**
47633383 AAAAGCAGAAATT
1 AAAAATAGAAATT
47633396 AAAAAATAGAAATT
1 -AAAAATAGAAATT
47633410 AAAAATA
1 AAAAATA
47633417 CCTCGGCGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAAATAGAAATT
Found at i:47633443 original size:100 final size:99
Alignment explanation
Indices: 47633191--47633488 Score: 368
Period size: 100 Copynumber: 3.0 Consensus size: 99
47633181 TTAGAAACAT
* * * *
47633191 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAA-G-AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAAT
** * * *
47633256 ATGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCAA
64 ATGAGTTGATTTTTGAAAAATAGAAATT-AAAAGCAA
*
47633291 AAATTGAAAAACAGAAATTGAAAAAT-CCTCAGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAAT
1 AAATT-AAAAAAAGAAATT-AAAAATACCTCAGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAAT
*
47633355 ATGAGTTGATTTTTGAAAAATAGAAATTAAAAGCAG
64 ATGAGTTGATTTTTGAAAAATAGAAATTAAAAGCAA
* *
47633391 AAATTAAAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTAAAAAA-AGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATA
* *
47633456 TGAGTTGATTTTTTTGAAAGATAGAAATAAAAA
65 TGAGTTGA--TTTTTGAAAAATAGAAATTAAAA
47633489 CATCAAAATA
Statistics
Matches: 174, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
99 60 0.34
100 73 0.42
101 20 0.11
102 21 0.12
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (99 bp):
AAATTAAAAAAAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAATAGAAATTAAAAGCAA
Found at i:47634359 original size:12 final size:12
Alignment explanation
Indices: 47634342--47634374 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47634332 ATCCCTCTCT
47634342 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
47634354 TTTTCTTTTCTC
1 TTTTCTTTTTTC
47634366 TTTT-TTTTT
1 TTTTCTTTTT
47634375 AAGATGCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:47634364 original size:17 final size:17
Alignment explanation
Indices: 47634342--47634374 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47634332 ATCCCTCTCT
47634342 TTTTCT-TTTTTCTTTTC
1 TTTTCTCTTTTT-TTTTC
47634359 TTTTCTCTTTTTTTTT
1 TTTTCTCTTTTTTTTT
47634375 AAGATGCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTCTTTTTTTTTC
Found at i:47636992 original size:40 final size:40
Alignment explanation
Indices: 47636922--47637097 Score: 248
Period size: 40 Copynumber: 4.4 Consensus size: 40
47636912 AAACCAAGTA
* * * *
47636922 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
47636961 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
47637001 CCTTTAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47637041 CCTTCGGGACTTAGCCTGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47637081 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
47637098 AGTTATCATT
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
39 12 0.10
40 110 0.90
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47643056 original size:25 final size:23
Alignment explanation
Indices: 47643004--47643058 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
47642994 TATAAATAGT
47643004 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
47643027 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
47643052 AATAGTG
1 AATAGTG
47643059 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:47643139 original size:22 final size:22
Alignment explanation
Indices: 47643114--47643188 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
47643104 TATGAAATAG
47643114 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATGTACATA
* *
47643136 ATATAGTGTAAAAAATACGTACATA
1 ATATA---AAAAAAATATGTACATA
** *
47643161 ATATAACTAAAATATATACATA
1 ATATAAAAAAAATATGTACATA
*
47643183 AGATAA
1 ATATAA
47643189 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 22 0.52
25 20 0.48
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (22 bp):
ATATAAAAAAAATATGTACATA
Found at i:47643231 original size:25 final size:25
Alignment explanation
Indices: 47643203--47643334 Score: 98
Period size: 25 Copynumber: 5.5 Consensus size: 25
47643193 TAGAAAAAAA
*
47643203 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATTAAAGAT
* *
47643228 ATATACATAAAATAGTA-TAATATAT
1 ATATACATAATATAGTATTAA-AGAT
* * *
47643253 ATATACGTAATATAGAATT-TAGA-
1 ATATACATAATATAGTATTAAAGAT
* *
47643276 ATATACCTAATATA-T-TAAAAGAAT
1 ATATACATAATATAGTATTAAAG-AT
* * *
47643300 ATATATATAATATAATATTAAA-AA
1 ATATACATAATATAGTATTAAAGAT
47643324 ATATA-ATAATA
1 ATATACATAATA
47643335 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.24
24 23 0.27
25 33 0.39
26 5 0.06
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATACATAATATAGTATTAAAGAT
Found at i:47643613 original size:16 final size:16
Alignment explanation
Indices: 47643575--47643613 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47643565 TCTCCAAAAA
*
47643575 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
47643591 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
47643607 AATAACT
1 AAAAACT
47643614 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:47643806 original size:30 final size:30
Alignment explanation
Indices: 47643770--47643835 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
47643760 TAGGTACAAG
*
47643770 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGCAGCAAGTGTGGCTAGTGGAGT
47643800 TGGTGGTGCAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGCAGCAAGTGTGGCTAGTGGAGT
47643830 TGGTGG
1 TGGTGG
47643836 CGGCAAAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.15, C:0.08, G:0.50, T:0.27
Consensus pattern (30 bp):
TGGTGGTGCAGCAAGTGTGGCTAGTGGAGT
Found at i:47647367 original size:44 final size:44
Alignment explanation
Indices: 47647304--47647475 Score: 206
Period size: 44 Copynumber: 3.8 Consensus size: 44
47647294 TGTAACCCGC
*
47647304 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTGCAT
* *
47647348 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--G-C--GTTGCAT
* *
47647398 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTT-GCAT
*
47647440 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
47647476 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 35 0.32
45 29 0.27
46 1 0.01
47 27 0.25
48 3 0.03
49 1 0.01
50 6 0.06
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (44 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTGCAT
Found at i:47647421 original size:91 final size:92
Alignment explanation
Indices: 47647311--47647479 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
47647301 CGCCCATAAG
*
47647311 CGAACTCGGACTCAACTCAACGAGCTCGGCGTT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47647375 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
47647402 CGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47647467 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47647480 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 31 0.41
92 44 0.59
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47650380 original size:23 final size:23
Alignment explanation
Indices: 47650354--47650400 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47650344 GCAATGCATG
47650354 GGTTTTAATAAGAGGCGAAGTAA
1 GGTTTTAATAAGAGGCGAAGTAA
47650377 GGTTTTAATAAGAGGCGAAGTAA
1 GGTTTTAATAAGAGGCGAAGTAA
47650400 G
1 G
47650401 AAGAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (23 bp):
GGTTTTAATAAGAGGCGAAGTAA
Found at i:47650503 original size:29 final size:31
Alignment explanation
Indices: 47650449--47650513 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
47650439 TATAGTTTAT
* *
47650449 ATTTTTATAATTTTTAAAGGATTAAATTA-A
1 ATTTTTATAATTTTTAAAGGACTAAAGTATA
* *
47650479 ATTTTTATAA-TTTTAGAGGGCTAAAGTATA
1 ATTTTTATAATTTTTAAAGGACTAAAGTATA
47650509 ATTTT
1 ATTTT
47650514 AACTTTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAGGACTAAAGTATA
Found at i:47650514 original size:29 final size:30
Alignment explanation
Indices: 47650446--47650514 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
47650436 TTTTATAGTT
* * *
47650446 TATATTTTTATAATTTTTAAAGGATTAAAT
1 TATAATTTTATAATTTTTAAAGGACTAAAG
* *
47650476 TA-AATTTTTATAA-TTTTAGAGGGCTAAAG
1 TATAA-TTTTATAATTTTTAAAGGACTAAAG
47650505 TATAATTTTA
1 TATAATTTTA
47650515 ACTTTACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGGACTAAAG
Found at i:47658967 original size:49 final size:49
Alignment explanation
Indices: 47658901--47659138 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 49
47658891 TAGCCAAAGC
* * * *
47658901 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
47658950 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* ** *
47658999 TATCCGGTACACATAGTAGCCTGCAGGTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * *
47659049 CATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
47659100 T-TTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACA
47659139 TGCGACCTCA
Statistics
Matches: 158, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.52
50 42 0.27
51 33 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:47659146 original size:101 final size:99
Alignment explanation
Indices: 47658901--47659146 Score: 316
Period size: 99 Copynumber: 2.5 Consensus size: 99
47658891 TAGCCAAAGC
* ** *
47658901 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCTGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGATACACGTA
47658965 GTAGCCTACACTTAGTACTACACACGTGACTAAT
66 GTAGCCTACACTTAGTACTACACACGTGACTAAT
* ** * * *
47658999 TATCCGGTACACATAGTAGCCTGCAGGTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGATACACGTA
*
47659064 GTAGCCTGCACTTAGTACTACACACGTGA-TCACAGT
66 GTAGCCTACACTTAGTACTACACACGTGACT-A-A-T
* ** *
47659100 TTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCT
47659147 CACAATAGAT
Statistics
Matches: 125, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 41 0.33
99 43 0.34
100 1 0.01
101 40 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGATACACGTA
GTAGCCTACACTTAGTACTACACACGTGACTAAT
Found at i:47670541 original size:45 final size:44
Alignment explanation
Indices: 47670477--47670585 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
47670467 TCTGAACTTA
* * *
47670477 TTGAGTTGGCCTGGGTTCATGATATATATG-AGGCATCCGAGCTCG
1 TTGAGTTGGTCTGAGTTCAT--TATAGATGCAGGCATCCGAGCTCG
* *
47670522 TTGAGTTGGTCTGAGTTCATTATGGATGCGGGCATCCGAGCTCG
1 TTGAGTTGGTCTGAGTTCATTATAGATGCAGGCATCCGAGCTCG
* *
47670566 TTGTGTTGGTCCGAGTTCAT
1 TTGAGTTGGTCTGAGTTCAT
47670586 AATGGATGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
43 6 0.11
44 32 0.57
45 18 0.32
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (44 bp):
TTGAGTTGGTCTGAGTTCATTATAGATGCAGGCATCCGAGCTCG
Found at i:47670566 original size:44 final size:44
Alignment explanation
Indices: 47670508--47670593 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
47670498 ATATATATGA
* *
47670508 GGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGCG
1 GGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCG
*
47670552 GGCATCCGAGCTCGTTGTGTTGGTCCGAGTTCATAATGGATG
1 GGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATG
47670594 TGATACATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (44 bp):
GGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCG
Found at i:47672410 original size:79 final size:81
Alignment explanation
Indices: 47672299--47672483 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
47672289 GCTACTCGTT
* *
47672299 CAAATGCCTTCGGGGCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTC-GGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
47672362 GGACT-TAGTAAC-TCGCA
64 GGA-TATAGTAACTTAGCA
* **
47672379 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
47672443 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
47672459 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
47672484 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 4 0.04
79 57 0.62
80 31 0.34
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:47672483 original size:40 final size:40
Alignment explanation
Indices: 47672299--47672483 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
47672289 GCTACTCGTT
* * *
47672299 CAAATGCCTTCGGGGCATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
47672339 CAAATGCCTTCGGGACTTAACCCGGACT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
*
47672379 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
47672418 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
47672459 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47672484 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:47687584 original size:75 final size:75
Alignment explanation
Indices: 47687461--47687612 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 75
47687451 CTACATGAGC
47687461 CATGTTCAAGCAATAACAAAGGACCTATCTATGAAGAACGAAGGCTACAAATCGAGGAACTAGAT
1 CATGTTCAAGCAATAACAAAGGACCTATCTATGAAGAACGAAGGCTACAAATCGAGGAACTAGAT
47687526 GAATGGCAGA
66 GAATGGCAGA
*
47687536 CATGTTCAAGCAATAACAAAGGACCTATCTATGAAGAACGAAGGCTACAAATTGAGGAACTAGAT
1 CATGTTCAAGCAATAACAAAGGACCTATCTATGAAGAACGAAGGCTACAAATCGAGGAACTAGAT
47687601 GAATGGCAGA
66 GAATGGCAGA
47687611 CA
1 CA
47687613 CATAAACTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (75 bp):
CATGTTCAAGCAATAACAAAGGACCTATCTATGAAGAACGAAGGCTACAAATCGAGGAACTAGAT
GAATGGCAGA
Found at i:47706821 original size:18 final size:20
Alignment explanation
Indices: 47706776--47706822 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
47706766 ATCACGTTTC
47706776 ATGCTTTTATATCTCTTACA
1 ATGCTTTTATATCTCTTACA
* *
47706796 TTGTTTTTA-ATC-CTTACA
1 ATGCTTTTATATCTCTTACA
47706814 ATGCTTTTA
1 ATGCTTTTA
47706823 GTCTCACATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 13 0.57
19 3 0.13
20 7 0.30
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.53
Consensus pattern (20 bp):
ATGCTTTTATATCTCTTACA
Found at i:47707945 original size:21 final size:21
Alignment explanation
Indices: 47707921--47707961 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47707911 CTTCAATCTG
*
47707921 TCCTCTTCCTTCCCCTCCTCT
1 TCCTCTTCCTCCCCCTCCTCT
47707942 TCCTCTTCCTCCCCCTCCTC
1 TCCTCTTCCTCCCCCTCCTC
47707962 CTTCTCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (21 bp):
TCCTCTTCCTCCCCCTCCTCT
Found at i:47712437 original size:19 final size:19
Alignment explanation
Indices: 47712410--47712468 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
47712400 TTTTTGGCTT
* *
47712410 TATACAAAGTCAAAAATTC
1 TATATAAAGCCAAAAATTC
47712429 TATATAAAGCCAAAAATTC
1 TATATAAAGCCAAAAATTC
47712448 TATATAAAGCCAAAAATTC
1 TATATAAAGCCAAAAATTC
47712467 TA
1 TA
47712469 ATGAGTCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (19 bp):
TATATAAAGCCAAAAATTC
Found at i:47734042 original size:82 final size:81
Alignment explanation
Indices: 47733926--47734081 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
47733916 AAATTGTACA
* * * *
47733926 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
47733990 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47734007 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
47734072 TGCGAGTTGA
65 TGCGAATTGA
47734082 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47734049 original size:55 final size:52
Alignment explanation
Indices: 47733925--47734078 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
47733915 TAAATTGTAC
* *
47733925 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
47733978 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
47734033 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
47734079 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:47734083 original size:27 final size:27
Alignment explanation
Indices: 47733926--47734081 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
47733916 AAATTGTACA
*
47733926 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
47733953 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
47733980 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
47734007 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
47734035 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
47734062 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
47734082 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:47734092 original size:27 final size:27
Alignment explanation
Indices: 47733918--47734102 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
47733908 GCGGGATTAA
*
47733918 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
47733945 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
47733972 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
47733999 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
47734027 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
47734054 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
47734081 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
47734103 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:47734093 original size:82 final size:81
Alignment explanation
Indices: 47733918--47734102 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
47733908 GCGGGATTAA
* * * *
47733918 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
47733983 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
47733999 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
47734063 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
47734081 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
47734103 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:47744337 original size:48 final size:48
Alignment explanation
Indices: 47744187--47744485 Score: 333
Period size: 48 Copynumber: 6.3 Consensus size: 48
47744177 TATGTGAGTG
* * *
47744187 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCACCATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCT
* *** *
47744235 AGTGTAAGACCAGGT-T-GGACATGGCATCGGCGTTGACTAT--GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCT
*
47744280 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCT
* * * *
47744328 AGTGTAAGACCATGTCTGAGACATGGCATCGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCT
* *
47744376 AGTGAAAGACCATGTCTGGGACATGGCATCGGCCA-TATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCT
** * * *
47744424 AGTGTAAGACCATGTCTGGGACATGGCATTAG-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCT
47744472 AGTGTAAGACCATG
1 AGTGTAAGACCATG
47744486 GCTTCTGACA
Statistics
Matches: 214, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
45 18 0.08
46 19 0.09
47 26 0.12
48 148 0.69
49 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCT
Found at i:47744408 original size:96 final size:95
Alignment explanation
Indices: 47744174--47744485 Score: 400
Period size: 96 Copynumber: 3.3 Consensus size: 95
47744164 GACATTTGGG
* * *
47744174 TGATATGTGAG-TGAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCACCATATGAGAGCTAGT
1 TGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCTAGT
* *
47744238 GTAAGACCAGGT-TGGACATGGCATCGGCGT
65 GTAAGACCATGTCTGGACATGGCATCGGCAT
* * *
47744268 TGACTAT--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGT
1 TGA-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCTAGT
47744331 GTAAGACCATGTCTGAGACATGGCATCGGCAT
65 GTAAGACCATGTCTG-GACATGGCATCGGCAT
* * * *
47744363 TGATATGTGCGCTAGTGAAAGACCATGTCTGGGACATGGCATCGGCCA-TATTATGAGAGCTAGT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCA-TATGAGAGCTAGT
**
47744427 GTAAGACCATGTCTGGGACATGGCATTAGCAT
65 GTAAGACCATGTCT-GGACATGGCATCGGCAT
* *
47744459 TGAGACGAGAGCTAGTGTAAGACCATG
1 TGATATGAGAGCTAGTGTAAGACCATG
47744486 GCTTCTGACA
Statistics
Matches: 191, Mismatches: 19, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
93 61 0.32
94 8 0.04
95 22 0.12
96 99 0.52
97 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (95 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATATGAGAGCTAGTG
TAAGACCATGTCTGGACATGGCATCGGCAT
Found at i:47746401 original size:40 final size:40
Alignment explanation
Indices: 47746346--47746563 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
47746336 TGGACGATAA
* * *
47746346 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
47746386 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
47746426 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
47746466 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
47746506 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
47746546 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47746564 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47751664 original size:27 final size:27
Alignment explanation
Indices: 47751624--47751849 Score: 274
Period size: 27 Copynumber: 8.4 Consensus size: 27
47751614 CCCAAAATTA
* *
47751624 GTAAAATAATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
47751651 GTAAAATAACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
47751678 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * * *
47751705 ATAAAATGACCGTAATATCCCTCTAAG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
47751732 GTAAAATGACCATAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
47751759 GTAAAATGACCATAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
47751786 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
47751813 GTAAAATGA-CTTGGATACCCCTGTATG
1 GTAAAATGACCGT-AATACCCCTGTAGG
*
47751840 GCAAAATGAC
1 GTAAAATGAC
47751850 GAGCAGCCCT
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 170 0.99
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:47752043 original size:27 final size:27
Alignment explanation
Indices: 47752021--47752086 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
47752011 TCACTGTTAT
*
47752021 TGGTGGCTATGCCACAATTACTGATAC
1 TGGTAGCTATGCCACAATTACTGATAC
* * *
47752048 TGGTAGCTTTGCCACACTTACT-ATTTC
1 TGGTAGCTATGCCACAATTACTGA-TAC
*
47752075 TGGCAGCTATGC
1 TGGTAGCTATGC
47752087 TTCATTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
TGGTAGCTATGCCACAATTACTGATAC
Found at i:47756092 original size:19 final size:19
Alignment explanation
Indices: 47756055--47756093 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47756045 ATCGGACATA
*
47756055 AAAATCTTGACATGGTATG
1 AAAATCTTGACATGATATG
**
47756074 AAAATCTTGATGTGATATG
1 AAAATCTTGACATGATATG
47756093 A
1 A
47756094 TAATAACTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (19 bp):
AAAATCTTGACATGATATG
Found at i:47757316 original size:44 final size:40
Alignment explanation
Indices: 47757268--47757378 Score: 100
Period size: 42 Copynumber: 2.6 Consensus size: 40
47757258 GCGACGTTGT
* *
47757268 CATCGATTTGACATTTATGTGTAAGACCAAGTCTGGGA-CATCGG
1 CATCGATTTG--ATTTA-ATGTAAGA-CAAGTCTGGGATAAT-GG
*
47757312 CATCGTATTTGGTTTAATGTAAGACAAGTCTGGGATAATGG
1 CATCG-ATTTGATTTAATGTAAGACAAGTCTGGGATAATGG
47757353 CATCGATATTTGA-TTACATGTAAGAC
1 CATCG--ATTTGATTTA-ATGTAAGAC
47757379 CACGCCTGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
41 21 0.36
42 24 0.41
43 4 0.07
44 5 0.08
45 5 0.08
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (40 bp):
CATCGATTTGATTTAATGTAAGACAAGTCTGGGATAATGG
Found at i:47757343 original size:41 final size:42
Alignment explanation
Indices: 47757287--47757378 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
47757277 GACATTTATG
* *
47757287 TGTAAGACCAAGTCTGGGA-CATCGGCATCG-TATTTGGTTTA-A
1 TGTAAGA-CAAGTCTGGGATAAT-GGCATCGATATTT-GATTACA
47757329 TGTAAGACAAGTCTGGGATAATGGCATCGATATTTGATTACA
1 TGTAAGACAAGTCTGGGATAATGGCATCGATATTTGATTACA
47757371 TGTAAGAC
1 TGTAAGAC
47757379 CACGCCTGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
41 22 0.49
42 23 0.51
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACAAGTCTGGGATAATGGCATCGATATTTGATTACA
Found at i:47757590 original size:19 final size:21
Alignment explanation
Indices: 47757565--47757609 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
47757555 ATTATATGTG
47757565 ATGAATATG-G-AAATCAAAT
1 ATGAATATGTGCAAATCAAAT
*
47757584 GTGAATATGTGCAAATCAAAT
1 ATGAATATGTGCAAATCAAAT
47757605 ATGAA
1 ATGAA
47757610 CAAATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 13 0.59
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (21 bp):
ATGAATATGTGCAAATCAAAT
Found at i:47767340 original size:28 final size:26
Alignment explanation
Indices: 47767247--47767358 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
47767237 AGGAAGCGTC
* *
47767247 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
47767274 CTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
47767301 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
47767329 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
47767355 CTGG
1 CTGG
47767359 CAGCCATGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:47767353 original size:54 final size:54
Alignment explanation
Indices: 47767247--47767358 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
47767237 AGGAAGCGTC
* *
47767247 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
47767301 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
47767355 CTGG
1 CTGG
47767359 CAGCCATGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:47768592 original size:28 final size:28
Alignment explanation
Indices: 47768560--47768643 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
47768550 AACTTCGATC
47768560 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
47768588 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
47768610 ACGTGTGTATTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
47768638 ACGTGT
1 ACGTGT
47768644 ACCAAATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 1 0.02
22 8 0.20
23 2 0.05
24 3 0.07
25 6 0.15
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:47768633 original size:50 final size:49
Alignment explanation
Indices: 47768512--47768700 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
47768502 TGAGGTCGCA
* * * * * *
47768512 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAA-TT-GGTCACG
**
47768563 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACG
* * * * *
47768613 TGTGTATTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACG
* *
47768662 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATA
47768701 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 39 0.33
50 45 0.38
51 33 0.28
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACG
Found at i:47768699 original size:99 final size:101
Alignment explanation
Indices: 47768512--47768699 Score: 265
Period size: 99 Copynumber: 1.9 Consensus size: 101
47768502 TGAGGTCGCA
* * *
47768512 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAAATTCGATCACATGTGTAGTACTAAG
*
47768577 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
* * * *
47768613 TGTGTATTACTAAGTGCAGGCTACTACGTGTA-CC-AAATAATT-GGTCGCATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAA-AATTCGATCACATGTGTAGTACTAA
*
47768675 GTGCAGGCTACTATGCGTATCAGAT
65 GTGCAGGCTACTACGCGTATCAGAT
47768700 AGCTTTGGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
99 43 0.56
100 5 0.06
101 29 0.38
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAAATTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
Found at i:47777363 original size:20 final size:20
Alignment explanation
Indices: 47777312--47777369 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
47777302 ATAATAATGT
*
47777312 AAATAATAATATA-CAT-GA
1 AAATAATAATATATAATAGA
47777330 AAATATATATATATATAATAGA
1 AAATA-ATA-ATATATAATAGA
* *
47777352 TAATAATAATATGTAATA
1 AAATAATAATATATAATA
47777370 ATGTATTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 14 0.42
21 5 0.15
22 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATAATAATATATAATAGA
Found at i:47777476 original size:81 final size:81
Alignment explanation
Indices: 47777342--47777526 Score: 185
Period size: 81 Copynumber: 2.3 Consensus size: 81
47777332 ATATATATAT
* * * *
47777342 ATATAATAGATAAT-AATAATATGTAATAATGTATTGTTAAAATGTAAAATAATATAAAAATATA
1 ATATAAT--ATAATAAATAATAAGTAATAATATATTGTTAAAATATAAAATAATATAAAAATAGA
* * * *
47777406 TAAATATTATGTGATAAAA
64 AAAATATGAAGTAAT-AAA
* * * * *
47777425 ATATAATATAATAAATAATAAGTAATGATATA-TGTTAAAATATATATTAATATGATAATAGAAA
1 ATATAATATAATAAATAATAAGTAATAATATATTGTTAAAATATAAAATAATATAAAAATAGAAA
*
47777489 AATATGAAGTAATATA
66 AATATGAAGTAATAAA
*
47777505 ATAAAATATAAGTAAATAATAA
1 ATATAATATAA-TAAATAATAA
47777527 TATAAAATAT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 12 0.14
81 50 0.59
82 16 0.19
83 7 0.08
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (81 bp):
ATATAATATAATAAATAATAAGTAATAATATATTGTTAAAATATAAAATAATATAAAAATAGAAA
AATATGAAGTAATAAA
Found at i:47777512 original size:20 final size:18
Alignment explanation
Indices: 47777487--47777526 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
47777477 TGATAATAGA
47777487 AAAATATGAAGTAATATAAT
1 AAAATAT-AAGTAA-ATAAT
47777507 AAAATATAAGTAAATAAT
1 AAAATATAAGTAAATAAT
47777525 AA
1 AA
47777527 TATAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
AAAATATAAGTAAATAAT
Found at i:47777541 original size:20 final size:21
Alignment explanation
Indices: 47777487--47777589 Score: 77
Period size: 23 Copynumber: 4.7 Consensus size: 21
47777477 TGATAATAGA
* *
47777487 AAAATATGAAGTAATATA-AT
1 AAAATATAAAATAATATATAT
47777507 AAAATATAAGTAAATAATA-ATAT
1 AAAATAT-A--AAATAATATATAT
47777530 AAAATATAAAATACATATATTTAT
1 AAAATATAAAATA-ATATA--TAT
47777554 ATTAAA-ATAAAATAATATATAT
1 A--AAATATAAAATAATATATAT
* *
47777576 ACAATTTAAAATAA
1 AAAATATAAAATAA
47777590 ATAAGTTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
20 14 0.21
21 11 0.16
22 7 0.10
23 16 0.24
24 9 0.13
25 8 0.12
26 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATATAAAATAATATATAT
Found at i:47777575 original size:26 final size:26
Alignment explanation
Indices: 47777526--47777573 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
47777516 GTAAATAATA
47777526 ATATAAAATATAAAATACATATATTT
1 ATATAAAATATAAAATACATATATTT
*
47777552 ATATTAAA-ATAAAATA-ATATAT
1 ATATAAAATATAAAATACATATAT
47777574 ATACAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 8 0.38
26 7 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAAATATAAAATACATATATTT
Found at i:47777610 original size:26 final size:26
Alignment explanation
Indices: 47777555--47777612 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
47777545 TATATTTATA
*
47777555 TTAAAATAAAATAATATATATACAAT
1 TTAAAATAAAATAATATATAAACAAT
*
47777581 TTAAAAT-AAATAAGT-TATAAATAAT
1 TTAAAATAAAATAA-TATATAAACAAT
47777606 CTTAAAA
1 -TTAAAA
47777613 GGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (26 bp):
TTAAAATAAAATAATATATAAACAAT
Found at i:47787700 original size:48 final size:48
Alignment explanation
Indices: 47787631--47787800 Score: 180
Period size: 48 Copynumber: 3.5 Consensus size: 48
47787621 ATAACGGTGT
** * *
47787631 GATGCCATGCCCCAGACATGGTCTTATACGGGACCTCATATCGATGGC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGCC
* * * * *
47787679 AATGCCATATCCCAGATATGGTCTTACATGAGATCTCATA-CTGATGCC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATC-GATGCC
* * ** * *
47787727 GATGCCATGTCCCAGACGTCATCTTATACGGGATCTCTTATCGATGTC
1 GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGCC
*
47787775 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGACATGGTCTTA
47787801 CATGGGATAT
Statistics
Matches: 95, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
47 1 0.01
48 93 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGCC
Found at i:47787732 original size:96 final size:96
Alignment explanation
Indices: 47787631--47787804 Score: 276
Period size: 96 Copynumber: 1.8 Consensus size: 96
47787621 ATAACGGTGT
**
47787631 GATGCCATGCCCCAGACATGGTCTTATACGGGACCTCATATCGATGGCAATGCCATATCCCAGAT
1 GATGCCATGCCCCAGACATCATCTTATACGGGACCTCATATCGATGGCAATGCCATATCCCAGAT
47787696 ATGGTCTTACATGAGATCTCATACTGATGCC
66 ATGGTCTTACATGAGATCTCATACTGATGCC
* * * * * *
47787727 GATGCCATGTCCCAGACGTCATCTTATACGGGATCTCTTATCGATGTCGATGCCATATCCCAGAT
1 GATGCCATGCCCCAGACATCATCTTATACGGGACCTCATATCGATGGCAATGCCATATCCCAGAT
47787792 ATGGTCTTACATG
66 ATGGTCTTACATG
47787805 GGATATCAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (96 bp):
GATGCCATGCCCCAGACATCATCTTATACGGGACCTCATATCGATGGCAATGCCATATCCCAGAT
ATGGTCTTACATGAGATCTCATACTGATGCC
Found at i:47787808 original size:48 final size:48
Alignment explanation
Indices: 47787601--47787808 Score: 179
Period size: 48 Copynumber: 4.4 Consensus size: 48
47787591 CAACTTAGTT
* * * * **
47787601 ATGGTCTTACAC-GAAGTCTCATAACGGTG-TGATGCCATGCCCCAGAC
1 ATGGTCTTACACGGGA-TCTCATATCGATGCCGATGCCATATCCCAGAC
* * * * *
47787648 ATGGTCTTATACGGGACCTCATATCGATGGCAATGCCATATCCCAGAT
1 ATGGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGAC
* * *
47787696 ATGGTCTTACATGAGATCTCATA-CTGATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGGGATCTCATATC-GATGCCGATGCCATATCCCAGAC
* ** * * * *
47787744 GTCATCTTATACGGGATCTCTTATCGATGTCGATGCCATATCCCAGAT
1 ATGGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGAC
*
47787792 ATGGTCTTACATGGGAT
1 ATGGTCTTACACGGGAT
47787809 ATCAATACTC
Statistics
Matches: 124, Mismatches: 33, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
47 22 0.18
48 101 0.81
49 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGAC
Found at i:47788921 original size:11 final size:11
Alignment explanation
Indices: 47788893--47788934 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
47788883 GCCCAAACGT
47788893 CAAAATTTTCAAA
1 CAAAATTTTC--A
*
47788906 CAAAATTTTGA
1 CAAAATTTTCA
47788917 CAAAATTTTCA
1 CAAAATTTTCA
47788928 CAAAATT
1 CAAAATT
47788935 ATTTTGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (11 bp):
CAAAATTTTCA
Found at i:47799944 original size:27 final size:25
Alignment explanation
Indices: 47799871--47799948 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 25
47799861 AAATTGTCGT
47799871 CATTTTCTATTCGTTTATTTTTCTTTC
1 CATTTTCTATTC--TTATTTTTCTTTC
* * *
47799898 TATTGTTCTTTTCTTGTTTTTCTTTGC
1 CATT-TTCTATTCTTATTTTTCTTT-C
*
47799925 CATTTTCAATTCTTAATTTTTCTT
1 CATTTTCTATTCTT-ATTTTTCTT
47799949 CGTTTTAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 19 0.46
27 15 0.37
28 7 0.17
ACGTcount: A:0.12, C:0.17, G:0.05, T:0.67
Consensus pattern (25 bp):
CATTTTCTATTCTTATTTTTCTTTC
Found at i:47800745 original size:63 final size:63
Alignment explanation
Indices: 47800669--47800799 Score: 165
Period size: 63 Copynumber: 2.1 Consensus size: 63
47800659 ATGGGTTAGG
* * * * * *
47800669 GACACTGGCGTGTGTCCAGGTCTTGTGACTTACTGTTTACAATATAGGACCACACGGGCTAGA-
1 GACACTAGCGTGTGTCCACGCCGTGTGACTCACTGTTTAAAATATAGGACCACACGGGC-AGAC
* * *
47800732 GACACTAGTGTGTGTCCACGCCGTGTGACTCACTTTTTAAAATTTAGGACCACACGGGCAGAC
1 GACACTAGCGTGTGTCCACGCCGTGTGACTCACTGTTTAAAATATAGGACCACACGGGCAGAC
47800795 GACAC
1 GACAC
47800800 CGGCATGTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 3 0.05
63 55 0.95
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (63 bp):
GACACTAGCGTGTGTCCACGCCGTGTGACTCACTGTTTAAAATATAGGACCACACGGGCAGAC
Found at i:47810566 original size:15 final size:15
Alignment explanation
Indices: 47810546--47810587 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
47810536 TGTTGTAATG
47810546 GGATTTCCTTATCA-T
1 GGATTTCCTTAT-ATT
*
47810561 GGATTTCTTTATATT
1 GGATTTCCTTATATT
47810576 GGATTTCCTTAT
1 GGATTTCCTTAT
47810588 TTTTTACTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATATT
Found at i:47810800 original size:36 final size:36
Alignment explanation
Indices: 47810753--47810824 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
47810743 TAATGTGGTG
47810753 AAATTTCAAGTCCTAATGTGTATGGTGGATTTCCTT
1 AAATTTCAAGTCCTAATGTGTATGGTGGATTTCCTT
47810789 AAATTTCAAGTCCTAATGTGTATGGTGGATTTCCTT
1 AAATTTCAAGTCCTAATGTGTATGGTGGATTTCCTT
47810825 TCTCAAGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (36 bp):
AAATTTCAAGTCCTAATGTGTATGGTGGATTTCCTT
Found at i:47812144 original size:6 final size:6
Alignment explanation
Indices: 47812133--47812162 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
47812123 AAAAATTTTG
47812133 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
47812163 TAACTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GAAAAT
Found at i:47818995 original size:27 final size:27
Alignment explanation
Indices: 47818958--47819011 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
47818948 TTTTAGTTGA
47818958 GAGTACTTCCAGTGAGGTTACTGTACT
1 GAGTACTTCCAGTGAGGTTACTGTACT
47818985 GAGTACTTCCAGTGAGGTTACTGTACT
1 GAGTACTTCCAGTGAGGTTACTGTACT
47819012 AAGTCTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (27 bp):
GAGTACTTCCAGTGAGGTTACTGTACT
Found at i:47819352 original size:18 final size:18
Alignment explanation
Indices: 47819329--47819363 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47819319 TAGAGACTCT
47819329 ACTGTAAAGGATATTCAC
1 ACTGTAAAGGATATTCAC
* *
47819347 ACTGTAAGGGATTTTCA
1 ACTGTAAAGGATATTCA
47819364 GGATGTTTTT
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:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (18 bp):
ACTGTAAAGGATATTCAC
Found at i:47825589 original size:40 final size:40
Alignment explanation
Indices: 47825505--47825688 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
47825495 TTGAATGCTG
* * * *
47825505 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
47825544 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
47825585 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
47825625 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
47825665 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47825689 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Done.