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 154 of 352
Found at i:50471213 original size:42 final size:42
Alignment explanation
Indices: 50471154--50471239 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
50471144 GAAAATGATA
50471154 TTTCATTTTTTATCATCTTTTAATTAATTAAATATTTTCACT
1 TTTCATTTTTTATCATCTTTTAATTAATTAAATATTTTCACT
50471196 TTTCATTTTTTATCATCTTTTAATTAATTAAATATTTTCACT
1 TTTCATTTTTTATCATCTTTTAATTAATTAAATATTTTCACT
50471238 TT
1 TT
50471240 CCAATTTAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (42 bp):
TTTCATTTTTTATCATCTTTTAATTAATTAAATATTTTCACT
Found at i:50478413 original size:27 final size:27
Alignment explanation
Indices: 50478372--50478425 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50478362 TGTCATGTGA
* *
50478372 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
50478399 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
50478426 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:50478747 original size:49 final size:49
Alignment explanation
Indices: 50478658--50478896 Score: 241
Period size: 49 Copynumber: 4.8 Consensus size: 49
50478648 GTGAGGTCAC
* * *
50478658 GTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCGGATAATTGGTTGCA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTT-CA
* * * * * *
50478708 -TGTGTAGTACGAAGTGCAGGCTACTATGCGCACCCGATAACTTCGATCA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTGGTTCA
* * * **
50478757 CGTGTGTAGTACTAAGTCCAGGCTACTACGTGTATCAGATGGTTAGG-TCAA
1 -GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTTC-A
* * *
50478808 GCGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTTGCA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTT-CA
*
50478858 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
50478897 GCCTTGTCTG
Statistics
Matches: 152, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
49 73 0.48
50 45 0.30
51 34 0.22
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTCA
Found at i:50480417 original size:12 final size:13
Alignment explanation
Indices: 50480400--50480428 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50480390 TTAAATGAAA
50480400 TTTTATGGCCC-G
1 TTTTATGGCCCGG
50480412 TTTTATGGCCCGG
1 TTTTATGGCCCGG
50480425 TTTT
1 TTTT
50480429 CATCTATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.21, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTTATGGCCCGG
Found at i:50480463 original size:20 final size:20
Alignment explanation
Indices: 50480438--50480504 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
50480428 TCATCTATAC
50480438 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50480458 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
50480478 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50480498 ACCATGT
1 ATCATGT
50480505 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50485232 original size:27 final size:27
Alignment explanation
Indices: 50485190--50485244 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
50485180 GTGTCATGTG
* *
50485190 AAATTGAATGGCAAATTATTGTTACAT
1 AAATTGAATGGCAAATTACTATTACAT
**
50485217 AAATTGAATGTTAAATTACTATTACAT
1 AAATTGAATGGCAAATTACTATTACAT
50485244 A
1 A
50485245 GTTTGTATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (27 bp):
AAATTGAATGGCAAATTACTATTACAT
Found at i:50491337 original size:39 final size:39
Alignment explanation
Indices: 50491294--50491456 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
50491284 GGACTTTAGC
* * * * * *
50491294 CCGGACATATTTCTAGCACGTAGCCTACGGACCATAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
50491333 CCGGATATAATTCCAGCACACAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
50491372 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
50491411 CCAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
50491450 CCGGATA
1 CCGGATA
50491457 CACATCAAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:50491349 original size:78 final size:79
Alignment explanation
Indices: 50491276--50491454 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 79
50491266 ACCAGCTCGA
* * * * *
50491276 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCTAGCACGTAGCCTACGGACCATAAGTCCGGATA
1 AGCCTGCGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTACGGACCATAAGTCCGGATA
50491340 TAATTCCAGCACAC
66 TAATTCCAGCACAC
* * ** * *
50491354 AGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCAGATA
1 AGCCTGCGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTACGGACCATAAGTCCGGATA
*
50491418 TAATTCCAGCACAT
66 TAATTCCAGCACAC
*
50491432 AGCCTGC-GGACCCTAAGTCCGGA
1 AGCCTGCGGGACCCTAAGCCCGGA
50491455 TACACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 3 0.03
78 85 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (79 bp):
AGCCTGCGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTACGGACCATAAGTCCGGATA
TAATTCCAGCACAC
Found at i:50498222 original size:39 final size:39
Alignment explanation
Indices: 50498179--50498263 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
50498169 CCTGACATAT
* * * *
50498179 TTCCAGCACGTAGCCTACGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTACAGACCCTAAGTCCGCATATAA
* *
50498218 TTCCAGCACATTGCCTGCAGACCCTAAGTCCGCATATAA
1 TTCCAGCACATAGCCTACAGACCCTAAGTCCGCATATAA
50498257 TTCCAGC
1 TTCCAGC
50498264 TCGGAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTACAGACCCTAAGTCCGCATATAA
Found at i:50500799 original size:48 final size:48
Alignment explanation
Indices: 50500740--50500961 Score: 243
Period size: 48 Copynumber: 4.6 Consensus size: 48
50500730 ATATTGGTGT
* * * * *
50500740 CGATGCAATGTCCCAGACATGGACTTACAGTTGCACACATATCATCGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCGG
* * * * *
50500788 CAATGCCATGTCCTAGACATGGTCTTACACTCGCATGCATATCAAC-G
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCGG
* *
50500835 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATAACAAT-GC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATC-ATCGG
*
50500884 CGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAAC-G
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCGG
* * * *
50500931 CTGATGTCTTGTCCTAGACATGGTTTTACAC
1 C-GATGCCATGTCCCAGACATGGTCTTACAC
50500962 AGGATCTAAC
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
47 4 0.03
48 140 0.96
49 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCGG
Found at i:50500863 original size:96 final size:96
Alignment explanation
Indices: 50500741--50500961 Score: 291
Period size: 96 Copynumber: 2.3 Consensus size: 96
50500731 TATTGGTGTC
* * * * * * *
50500741 GATGCAATGTCCCAGACATGGACTTACAGTTGCACACATATC-ATCGGCAATGCCATGTCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATAACAAT-GCCAATGCCATGTCCCAGA
*
50500805 CATGGTCTTACACTCGCATGCATATCAACGCT
65 CATGGTCTTACACTCGCATACATATCAACGCT
* *
50500837 GATGCCATGTCCCAGACATGGTCTTACACTGGCATACATAACAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATAACAATGCCAATGCCATGTCCCAGAC
*
50500902 ATGGTCTTACACTGGCATACATATCAACGCT
66 ATGGTCTTACACTCGCATACATATCAACGCT
* * * *
50500933 GATGTCTTGTCCTAGACATGGTTTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
50500962 AGGATCTAAC
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
96 107 0.98
97 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATAACAATGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTCGCATACATATCAACGCT
Found at i:50507659 original size:48 final size:48
Alignment explanation
Indices: 50507607--50507793 Score: 196
Period size: 48 Copynumber: 3.9 Consensus size: 48
50507597 TATACGGGGT
** * * *
50507607 CACATATTGGTGCTAATGCCATGTCCCAGACATGGTCTTACATTTGCA
1 CACATATTAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCA
* *
50507655 CACATA-TCATCGCTGATGCCATGTTCCAGACATGGTCTTACACTGGCA
1 CACATATTAAT-GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCA
* * * * *
50507703 TACATATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCA
1 CACATATTAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCA
* * * * * *
50507751 TACATATCAACGCCGATGCCATTTCCCAAACATGGTCTTACAC
1 CACATATTAATGCTGATGCCATGTCCCAGACATGGTCTTACAC
50507794 GGGATCTAAC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.02
48 118 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
CACATATTAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCA
Found at i:50509872 original size:24 final size:24
Alignment explanation
Indices: 50509840--50509902 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
50509830 CACTTAGTTT
*
50509840 TTGCACACATAGTGCCGCATAACC
1 TTGCACACATAGTGCCACATAACC
50509864 TTGCACACATAGTGCCACATAACC
1 TTGCACACATAGTGCCACATAACC
50509888 TTGCACACATAGTGC
1 TTGCACACATAGTGC
50509903 TGAAATTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (24 bp):
TTGCACACATAGTGCCACATAACC
Found at i:50510293 original size:20 final size:21
Alignment explanation
Indices: 50510251--50510299 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
50510241 ACTTATTTTT
* *
50510251 TTATTTCTTCTTTTATTACTA
1 TTATTTATTTTTTTATTACTA
50510272 TT-TTTATTTTTTTATT-CATA
1 TTATTTATTTTTTTATTAC-TA
50510292 TTATTTAT
1 TTATTTAT
50510300 GATATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTATTTTTTTATTACTA
Found at i:50516694 original size:25 final size:24
Alignment explanation
Indices: 50516660--50516819 Score: 110
Period size: 24 Copynumber: 6.6 Consensus size: 24
50516650 TTTGTAAGTC
50516660 CGCACACATAGTGCTCTTAC-TTAT-T
1 CGCACACATAGTGC-C--ACGTTATCT
*
50516685 CGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCCACGTTATCT
* *
50516709 CGCACACATAGTGCCATGTAATCT
1 CGCACACATAGTGCCACGTTATCT
* *
50516733 CCCACACATAGTGCCAC-TTAGTTTT
1 CGCACACATAGTGCCACGTTA--TCT
* * * * * *
50516758 TGCACACATAATGCCGCATAACCT
1 CGCACACATAGTGCCACGTTATCT
* * * *
50516782 TGCACACATAGTGCCACATAACCT
1 CGCACACATAGTGCCACGTTATCT
*
50516806 TGCACACATAGTGC
1 CGCACACATAGTGC
50516820 TGAAATTTCT
Statistics
Matches: 113, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
22 2 0.02
23 5 0.04
24 75 0.66
25 29 0.26
26 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (24 bp):
CGCACACATAGTGCCACGTTATCT
Found at i:50516716 original size:24 final size:24
Alignment explanation
Indices: 50516684--50516819 Score: 119
Period size: 24 Copynumber: 5.6 Consensus size: 24
50516674 TCTTACTTAT
**
50516684 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTAATC
*
50516708 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* * * *
50516732 TCCCACACATAGTGCCACTTAGTTT
1 TCGCACACATAGTGCCACGTA-ATC
* * * * *
50516757 TTGCACACATAATGCCGCATAACC
1 TCGCACACATAGTGCCACGTAATC
* * *
50516781 TTGCACACATAGTGCCACATAACC
1 TCGCACACATAGTGCCACGTAATC
*
50516805 TTGCACACATAGTGC
1 TCGCACACATAGTGC
50516820 TGAAATTTCT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
24 76 0.82
25 17 0.18
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.26
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:50517186 original size:12 final size:12
Alignment explanation
Indices: 50517169--50517207 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
50517159 TGAGCACTTA
50517169 TTTTTTTATTTC
1 TTTTTTTATTTC
*
50517181 TTTTTTTATTCC
1 TTTTTTTATTTC
*
50517193 TATTTTTATTT-
1 TTTTTTTATTTC
50517204 TTTT
1 TTTT
50517208 ATTCATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 3 0.13
12 20 0.87
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTATTTC
Found at i:50532655 original size:42 final size:42
Alignment explanation
Indices: 50532596--50532711 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 42
50532586 ATGCCAATAG
* * * * *
50532596 CCCAGCTATGGTCTTACATGAAATCTCATATTGATGCTATAT
1 CCCAGATATGGTCTTACACGAAATCTCATAATGATGCCACAT
*
50532638 CCCAGATATGGTCTTACACGAAGTCTCATAATGATGCCACAT
1 CCCAGATATGGTCTTACACGAAATCTCATAATGATGCCACAT
50532680 CCCAGATATGGTCTTACAC-ATAATCTCGATAA
1 CCCAGATATGGTCTTACACGA-AATCTC-ATAA
50532712 CCCTAATTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 60 0.92
43 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAATCTCATAATGATGCCACAT
Found at i:50539250 original size:101 final size:101
Alignment explanation
Indices: 50539113--50539339 Score: 312
Period size: 101 Copynumber: 2.2 Consensus size: 101
50539103 GCACACACAT
* *
50539113 ATATCGAAATCACATTTCGATGCCAACGTATAAAACGTGG-ACTTACTCGCACACATATATCGGA
1 ATATCGAAATCACATATCGATGCCAACGTATAAAACGTGGTA-TTACTCGCACACATATATAGGA
* *
50539177 ATCACATATCGATGACATGGCCTTACTCGCACATCAC
65 ATCACACATCGATGACAAGGCCTTACTCGCACATCAC
* * **
50539214 ATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTATTACTCGTGCACATATATAGGAA
1 ATATCGAAATCACATATCGATGCCAACGTATAAAACGTGGTATTACTCGCACACATATATAGGAA
* *
50539279 TCACACATCGATGCCAAGGTCTTACTCGCACATCAC
66 TCACACATCGATGACAAGGCCTTACTCGCACATCAC
* * *
50539315 TTATCAAAATTCACATGTCGATGCC
1 ATATCGAAA-TCACATATCGATGCC
50539340 TCATATACAT
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
101 95 0.86
102 15 0.14
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (101 bp):
ATATCGAAATCACATATCGATGCCAACGTATAAAACGTGGTATTACTCGCACACATATATAGGAA
TCACACATCGATGACAAGGCCTTACTCGCACATCAC
Found at i:50544276 original size:37 final size:37
Alignment explanation
Indices: 50544183--50544276 Score: 86
Period size: 37 Copynumber: 2.6 Consensus size: 37
50544173 TAAGCATTTG
* * *
50544183 TCAGTA-AATAGTAAAATTTACTCAATTAAACGTTAT
1 TCAGTATAACAGTAATATTTGCTCAATTAAACGTTAT
* * * *
50544219 TCAATATAACTGT-ATGATTTGCTCGATTAAGC-TTCAT
1 TCAGTATAACAGTAAT-ATTTGCTCAATTAAACGTT-AT
50544256 TCAGTATAACAGTAATATTTG
1 TCAGTATAACAGTAATATTTG
50544277 ACTGGGTAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
36 8 0.18
37 35 0.78
38 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (37 bp):
TCAGTATAACAGTAATATTTGCTCAATTAAACGTTAT
Found at i:50549077 original size:15 final size:17
Alignment explanation
Indices: 50549057--50549093 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
50549047 GAATTAGTAA
50549057 GGAAG-AAAGAAAAAG-
1 GGAAGAAAAGAAAAAGT
*
50549072 GGAAGAAAAGAATAAGT
1 GGAAGAAAAGAAAAAGT
50549089 GGAAG
1 GGAAG
50549094 TGGAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.05
Consensus pattern (17 bp):
GGAAGAAAAGAAAAAGT
Found at i:50555259 original size:3 final size:3
Alignment explanation
Indices: 50555251--50555279 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50555241 AGTCCAAGTA
50555251 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
50555280 GATTATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:50568303 original size:40 final size:40
Alignment explanation
Indices: 50568248--50568447 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
50568238 TGGATGATAA
* * *
50568248 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
50568288 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50568328 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50568368 CCGGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50568408 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
50568448 TCGATTAAAT
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.02
40 144 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50572045 original size:17 final size:19
Alignment explanation
Indices: 50572018--50572061 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
50572008 AAAAAATGTT
50572018 TTTTATAATTAA-TATAA-A
1 TTTT-TAATTAATTATAATA
*
50572036 TTTTTAATTAATTTTAATA
1 TTTTTAATTAATTATAATA
50572055 TTTTTAA
1 TTTTTAA
50572062 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAATTAATTATAATA
Found at i:50572065 original size:17 final size:18
Alignment explanation
Indices: 50572035--50572069 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
50572025 ATTAATATAA
50572035 ATTTTTAATTAATTTTAAT
1 ATTTTTAA-TAATTTTAAT
50572054 ATTTTTAA-AATTTTAA
1 ATTTTTAATAATTTTAA
50572070 AAAATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTAATAATTTTAAT
Found at i:50575007 original size:60 final size:60
Alignment explanation
Indices: 50574880--50575007 Score: 134
Period size: 60 Copynumber: 2.1 Consensus size: 60
50574870 AAAAAATTAA
* * * * *
50574880 ATTTTTTAGAGTTAAAACTAAATTGACAGATATTTTAAATATTTAGGACCAAGTTTATTG
1 ATTTTTTAGAATTAAAACTAAAATGAAAAATATTTTAAATATTTAGGACCAAATTTATTG
** * * *
50574940 AAATTTTAGAATTAGAACTAAAATGAAAAAT-TTTGTAAATATTTAAGG-CTAAATTTGTTG
1 ATTTTTTAGAATTAAAACTAAAATGAAAAATATTT-TAAATATTT-AGGACCAAATTTATTG
50575000 ATTTTTTA
1 ATTTTTTA
50575008 TATATTTAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
59 3 0.06
60 48 0.89
61 3 0.06
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (60 bp):
ATTTTTTAGAATTAAAACTAAAATGAAAAATATTTTAAATATTTAGGACCAAATTTATTG
Found at i:50580992 original size:13 final size:13
Alignment explanation
Indices: 50580974--50580998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50580964 TTAATACTTT
50580974 ATTAATTTAAAAA
1 ATTAATTTAAAAA
50580987 ATTAATTTAAAA
1 ATTAATTTAAAA
50580999 TCAAATTGTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAATTTAAAAA
Found at i:50581156 original size:16 final size:17
Alignment explanation
Indices: 50581133--50581177 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
50581123 CTAAATTTTT
50581133 TAAAAATA-AAAAA-TA
1 TAAAAATACAAAAATTA
50581148 TACAAAATACAAAAATTA
1 TA-AAAATACAAAAATTA
50581166 TAAAAATTACAA
1 TAAAAA-TACAA
50581178 GAAAACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.08
16 6 0.23
17 9 0.35
18 9 0.35
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAATACAAAAATTA
Found at i:50581161 original size:18 final size:18
Alignment explanation
Indices: 50581140--50581191 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
50581130 TTTTAAAAAT
50581140 AAAAAATATACAAAA-TAC
1 AAAAAATATA-AAAATTAC
*
50581158 AAAAATTATAAAAATTAC
1 AAAAAATATAAAAATTAC
*
50581176 AAGAAAA-CTAAAAATT
1 AA-AAAATATAAAAATT
50581192 GTTTAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.14
18 22 0.76
19 3 0.10
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAATATAAAAATTAC
Found at i:50583868 original size:47 final size:47
Alignment explanation
Indices: 50583805--50584096 Score: 449
Period size: 47 Copynumber: 6.2 Consensus size: 47
50583795 CCCTTCGGGA
* *
50583805 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
50583852 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
50583899 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
50583946 CTTATCACATATATACACTTTCACATTCATCACATTGACCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
50583993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
50584040 CTTATCACATATACACACGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
50584087 CTTATCACAT
1 CTTATCACAT
50584097 TGGCCATTCG
Statistics
Matches: 221, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:50583977 original size:25 final size:25
Alignment explanation
Indices: 50583949--50584027 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
50583939 ACTCGGCCTT
50583949 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * * *
50583974 ATCACAT-T-GAC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
50583996 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
50584021 ATCACAT
1 ATCACAT
50584028 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:50584096 original size:69 final size:69
Alignment explanation
Indices: 50584021--50584165 Score: 254
Period size: 69 Copynumber: 2.1 Consensus size: 69
50584011 TTTCACATTC
50584021 ATCACATCGGCCATTAGGCCTTATCACATATACACACGTTCACATTCATCACATTGGCCATTCGG
1 ATCACATCGGCCATTAGGCCTTATCACATATACACACGTTCACATTCATCACATTGGCCATTCGG
50584086 CCTT
66 CCTT
* * * *
50584090 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG
1 ATCACATCGGCCATTAGGCCTTATCACATATACACACGTTCACATTCATCACATTGGCCATTCGG
50584155 CCTT
66 CCTT
50584159 ATCACAT
1 ATCACAT
50584166 ATATACACTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (69 bp):
ATCACATCGGCCATTAGGCCTTATCACATATACACACGTTCACATTCATCACATTGGCCATTCGG
CCTT
Found at i:50584114 original size:116 final size:116
Alignment explanation
Indices: 50583974--50584208 Score: 407
Period size: 116 Copynumber: 2.0 Consensus size: 116
50583964 TTTCACATTC
50583974 ATCACATTGACCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 ATCACATTGACCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
* *
50584039 CCTTATCACATATACACACGTTCACATTCATCACATTGGCCATTCGGCCTT
66 CCTTATCACATATACACACGTTCACATTCATCACATCGGCCATTAGGCCTT
* * *
50584090 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG
1 ATCACATTGACCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
* *
50584155 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 CCTTATCACATATACACACGTTCACATTCATCACATCGGCCATTAGGCCTT
50584206 ATC
1 ATC
50584209 TGTGACAGCC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (116 bp):
ATCACATTGACCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATACACACGTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:50584141 original size:47 final size:47
Alignment explanation
Indices: 50584090--50584208 Score: 220
Period size: 47 Copynumber: 2.5 Consensus size: 47
50584080 ATTCGGCCTT
50584090 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
50584137 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
* *
50584184 ATCACATCGGCCATTAGGCCTTATC
1 ATCACATTGGCCATTCGGCCTTATC
50584209 TGTGACAGCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
Found at i:50585901 original size:40 final size:40
Alignment explanation
Indices: 50585811--50586036 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
50585801 TTGAATGCTG
* * *
50585811 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* * *
50585851 TTCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
50585891 TCCGGGCTAAGTCCCGGAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
50585931 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
50585971 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AA
* *
50586012 -CCGGGATATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50586037 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 153 0.92
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:50586054 original size:80 final size:80
Alignment explanation
Indices: 50585885--50586069 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
50585875 TGTGCGAGAT
* * *
50585885 ACTAAATCCGGGCTAAGTCCCGGAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGATAAGTCCCGAAG
** *
50585950 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTG
* *
50585965 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGATATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AATCCGGGATAAGTCCCGAA
50586029 GGCATTTGAACGAG-G
65 GGCATTTGAACGAGTG
* * *
50586044 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
50586070 TACGTGATTT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 15 0.16
80 75 0.82
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGATAAGTCCCGAAG
GCATTTGAACGAGTG
Found at i:50587461 original size:47 final size:47
Alignment explanation
Indices: 50587392--50587599 Score: 353
Period size: 47 Copynumber: 4.4 Consensus size: 47
50587382 GGGTGTTACA
*
50587392 TTATCACATATACACACTTTCACATTCATCACATCGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
*
50587439 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
* *
50587486 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
* * *
50587533 TTATCTCACATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
50587580 TTATCACATATATACACTTT
1 TTATCACATATATACACTTT
50587600 GTACACCAAT
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
Found at i:50590349 original size:18 final size:18
Alignment explanation
Indices: 50590309--50590367 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
50590299 CTATACATGT
* * *
50590309 GAGCATATTAATTTATGT
1 GAGCCTATTCATTTATGC
50590327 GAGCCTATTCATTTATGC
1 GAGCCTATTCATTTATGC
* * *
50590345 GAGCCTATGCATGTAAGC
1 GAGCCTATTCATTTATGC
50590363 GAGCC
1 GAGCC
50590368 CTATATTGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (18 bp):
GAGCCTATTCATTTATGC
Found at i:50590708 original size:22 final size:21
Alignment explanation
Indices: 50590683--50590732 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
50590673 GGGTTCACAT
*
50590683 GCCCGTGTGGTCCAAGGGACAC
1 GCCCGTGT-GACCAAGGGACAC
**
50590705 GCCCGTGTGACCTTGGGACAC
1 GCCCGTGTGACCAAGGGACAC
50590726 GCCCGTG
1 GCCCGTG
50590733 CTAGAGGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.14, C:0.34, G:0.36, T:0.16
Consensus pattern (21 bp):
GCCCGTGTGACCAAGGGACAC
Found at i:50592628 original size:48 final size:47
Alignment explanation
Indices: 50592572--50592858 Score: 279
Period size: 48 Copynumber: 6.0 Consensus size: 47
50592562 GAGTGTGAAT
* *
50592572 TGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCACATATCGA
1 TGCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * *
50592620 GGCCGATGCCATGTCCCAAACATTGTCTTACACTAGCTCTCGTTTCAA
1 TGCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
50592668 TGCAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-G
1 TGCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCAA
* * * *
50592715 TCGCCGATGTCATGTCCTAGACATGGTTTTACACTAGGTCACATATCAA
1 T-GCCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAA
* * * * * * *
50592764 TACCGATGCCATGTCTCAAATATGGTCTTACACTGGCTCTCACAACAT
1 TGCCGATGCCATGTC-CAAACATGGTCTTACACTAGCTCACATATCAA
*
50592812 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCACACATATCA
1 TGCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCA
50592859 CCCAAATGTC
Statistics
Matches: 191, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 183 0.96
49 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATCAA
Found at i:50592747 original size:96 final size:94
Alignment explanation
Indices: 50592576--50592858 Score: 314
Period size: 96 Copynumber: 2.9 Consensus size: 94
50592566 GTGAATTGCC
* * * * **
50592576 GATGCCATGTTCCTAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAAC
1 GATGCCATG-TCCCAACATGGTCTTACACTGGCTCTCATAACGTCGCCGATGCCATGT-CCAAAC
* * * * *
50592641 ATTGTCTTACACTAGCTCTCGTTTCAATGCA
64 ATGGTCTTACACTAGCTCACATATCAATACA
* *
50592672 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTCGCCGATGTCATGTCCTAGAC
1 GATGCCATGTCCCA-ACATGGTCTTACACTGGCTCTCATAACGTCGCCGATGCCATGTCC-AAAC
* * *
50592737 ATGGTTTTACACTAGGTCACATATCAATACC
64 ATGGTCTTACACTAGCTCACATATCAATACA
* * * * *
50592768 GATGCCATGTCTCAAATATGGTCTTACACTGGCTCTCACAACATTGCCGATGCCATGTTCCAAAC
1 GATGCCATGTC-CCAACATGGTCTTACACTGGCTCTCATAACGTCGCCGATGCCATG-TCCAAAC
*
50592833 ATGGTCTTACACTAGCACACATATCA
64 ATGGTCTTACACTAGCTCACATATCA
50592859 CCCAAATGTC
Statistics
Matches: 157, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
95 6 0.04
96 146 0.93
97 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAACATGGTCTTACACTGGCTCTCATAACGTCGCCGATGCCATGTCCAAACAT
GGTCTTACACTAGCTCACATATCAATACA
Found at i:50592835 original size:144 final size:144
Alignment explanation
Indices: 50592573--50592845 Score: 368
Period size: 144 Copynumber: 1.9 Consensus size: 144
50592563 AGTGTGAATT
* *
50592573 GCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCA
1 GCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCACATATCAAGACCGATGCCATGTCCCA
* **** *
50592638 AACATTGTCTTACACTAGCTCTCGTTTCAATGCAGATGCCATGTCCCAGACATGGTCTTACACTG
66 AACATGGTCTTACACTAGCTCTCACAACAATGCAGATGCCATGTCCCAAACATGGTCTTACACTG
50592703 GCTCTCATAACGTC
131 GCTCTCATAACGTC
* * * * *
50592717 GCCGATGTCATG-TCCTAGACATGGTTTTACACTAGGTCACATATCAATACCGATGCCATGTCTC
1 GCCGATGCCATGTTCCTA-ACATGGTCTTACACTAGCTCACATATCAAGACCGATGCCATGTCCC
* * * * *
50592781 AAATATGGTCTTACACTGGCTCTCACAACATTGCCGATGCCATGTTCCAAACATGGTCTTACACT
65 AAACATGGTCTTACACTAGCTCTCACAACAATGCAGATGCCATGTCCCAAACATGGTCTTACACT
50592846 AGCACACATA
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
143 5 0.05
144 105 0.95
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (144 bp):
GCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCACATATCAAGACCGATGCCATGTCCCA
AACATGGTCTTACACTAGCTCTCACAACAATGCAGATGCCATGTCCCAAACATGGTCTTACACTG
GCTCTCATAACGTC
Found at i:50607864 original size:5 final size:5
Alignment explanation
Indices: 50607856--50607887 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
50607846 AGAAAGAAAG
*
50607856 AAATA AAATA AAATA AAATA AAATA AAGTA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
50607888 TGAGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:50608958 original size:14 final size:14
Alignment explanation
Indices: 50608941--50609006 Score: 98
Period size: 14 Copynumber: 4.8 Consensus size: 14
50608931 TCAAAACAAG
50608941 AATTAAGAACACAT
1 AATTAAGAACACAT
* *
50608955 AATTAAAAACA-AG
1 AATTAAGAACACAT
50608968 AATTAAGAACACAT
1 AATTAAGAACACAT
50608982 AATTAAGAACACAT
1 AATTAAGAACACAT
*
50608996 AATTAATAACA
1 AATTAAGAACA
50609007 AGATCTGTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.24
14 35 0.76
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:50608966 original size:27 final size:27
Alignment explanation
Indices: 50608933--50609006 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
50608923 CTGGAATATC
50608933 AAAACAAGAATTAAGAACACATAATTA
1 AAAACAAGAATTAAGAACACATAATTA
50608960 AAAACAAGAATTAAGAACACATAATTA
1 AAAACAAGAATTAAGAACACATAATTA
* * *
50608987 AGAACACATAATTAATAACA
1 AAAACA-AGAATTAAGAACA
50609007 AGATCTGTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
27 32 0.74
28 11 0.26
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.19
Consensus pattern (27 bp):
AAAACAAGAATTAAGAACACATAATTA
Found at i:50619622 original size:27 final size:27
Alignment explanation
Indices: 50619592--50619645 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50619582 TGTCTTGTGA
* *
50619592 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
50619619 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
50619646 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:50621738 original size:14 final size:14
Alignment explanation
Indices: 50621719--50621754 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
50621709 ACGTGTGCGA
50621719 CCACACGGCCCAAC
1 CCACACGGCCCAAC
50621733 CCACACGGCCCAAC
1 CCACACGGCCCAAC
50621747 CCACACGG
1 CCACACGG
50621755 GCGTGTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.56, G:0.17, T:0.00
Consensus pattern (14 bp):
CCACACGGCCCAAC
Found at i:50629815 original size:12 final size:12
Alignment explanation
Indices: 50629798--50629823 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50629788 TCAATGGGGA
50629798 CTCTTAAAGCCC
1 CTCTTAAAGCCC
50629810 CTCTTAAAGCCC
1 CTCTTAAAGCCC
50629822 CT
1 CT
50629824 AGACCTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.42, G:0.08, T:0.27
Consensus pattern (12 bp):
CTCTTAAAGCCC
Found at i:50647827 original size:37 final size:37
Alignment explanation
Indices: 50647777--50647850 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
50647767 ATCCGAGGAG
50647777 TAGGTTTGTAAATATTATATTTAACATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAACATTTATGAGTTA
*
50647814 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAACATTTATGAGTTA
50647851 ATTGTGAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (37 bp):
TAGGTTTGTAAATATTATATTTAACATTTATGAGTTA
Found at i:50650193 original size:39 final size:39
Alignment explanation
Indices: 50650148--50650416 Score: 439
Period size: 39 Copynumber: 6.9 Consensus size: 39
50650138 ATGCAAGACA
50650148 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
50650187 CTGGAAATATATCCGGGCCAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
50650226 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
50650265 CTGGAAATATATCTGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
50650304 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
50650343 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
50650382 CGGGAAATGTATCCGGGTTAAAGTCCCGTAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
50650417 TGTACTGGTA
Statistics
Matches: 211, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 211 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:50653244 original size:43 final size:44
Alignment explanation
Indices: 50653177--50653311 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 44
50653167 TATCGAAATG
* *
50653177 TGATATTCGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
* * *
50653221 TGATATT-GGGCTTTGAGCTTAGTAGGCTATGATGCAGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
* **
50653264 T-ATTATTCGAGCCTTTGAGCCTACCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
50653309 TGA
1 TGA
50653312 AATGTTATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 8 0.11
45 30 0.39
46 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
Found at i:50653293 original size:45 final size:43
Alignment explanation
Indices: 50653201--50653311 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 43
50653191 CGGGCCTAGT
* * **
50653201 AGGCTATAATGCCGGTGAAATGATATTGGGCTTTGAGCTTAGT
1 AGGCTATAATGCCGGTGAAATGATATTGGCCTTTGAGCCTACC
* *
50653244 AGGCTATGATGCAGGTGAAAT-ATTATTCGAGCCTTTGAGCCTACC
1 AGGCTATAATGCCGGTGAAATGA-TATT-G-GCCTTTGAGCCTACC
50653289 AGGCTATAATGCCGGTGAAATGA
1 AGGCTATAATGCCGGTGAAATGA
50653312 AATGTTATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 23 0.41
44 1 0.02
45 30 0.54
46 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (43 bp):
AGGCTATAATGCCGGTGAAATGATATTGGCCTTTGAGCCTACC
Found at i:50653624 original size:38 final size:38
Alignment explanation
Indices: 50653581--50653854 Score: 345
Period size: 38 Copynumber: 7.2 Consensus size: 38
50653571 ATGATATTTG
* ** *
50653581 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
50653619 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
50653657 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
50653695 TATCCGGGTTAATTCCTGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
50653733 TATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
50653771 TATCCGGGTTAATTCCCGTAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
50653809 TATCCGGGTTAAATCCCGTAGGCCTAGTGCTTGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
50653847 TATTCGGG
1 TATCCGGG
50653855 CCTTTGAGCC
Statistics
Matches: 211, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
37 1 0.00
38 208 0.99
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:50653781 original size:114 final size:114
Alignment explanation
Indices: 50653608--50653854 Score: 386
Period size: 114 Copynumber: 2.2 Consensus size: 114
50653598 GCAGGCTATA
* *
50653608 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCC
* * * * *
50653673 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAATTCCTGTAGGCTTCG
66 CGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCGTAGGCCTAG
*
50653722 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAATTCC
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCC
* *
50653787 CGTAGGCTTCGTGCTAGTATTATATCCGGGTTAAATCCCGTAGGCCTAG
66 CGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCGTAGGCCTAG
* *
50653836 TGCTTGTATTATATTCGGG
1 TGCTGGTATTATATCCGGG
50653855 CCTTTGAGCC
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 121 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (114 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCC
CGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCGTAGGCCTAG
Found at i:50653911 original size:45 final size:45
Alignment explanation
Indices: 50653847--50653976 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
50653837 GCTTGTATTA
*
50653847 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGATGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
* * *
50653892 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
* *
50653937 TATTTGGG-CTTTCGAGCCTAGCAGGCTATAATACCGATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGATGA
50653977 AATGATAATC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
44 4 0.05
45 72 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
Found at i:50665687 original size:43 final size:41
Alignment explanation
Indices: 50665604--50665773 Score: 128
Period size: 43 Copynumber: 4.0 Consensus size: 41
50665594 AGCTCGTACA
* * * * * *
50665604 ATGCCAATGTCCCAAACATGGACTTACATGTAATCCAATATCG
1 ATGCC-ATGTCCCAGACAAGGTCTTACACGAAATCAAATAT-G
*
50665647 ATGCCACTATCCCAGACAAGGTCTTACACGAAATCAAATATG
1 ATGCCA-TGTCCCAGACAAGGTCTTACACGAAATCAAATATG
* * * *
50665689 ATACTGATGTCCCAGACATA-GTATTATACGTAAATTTCAAAT-TG
1 ATGC-CATGTCCCAGACA-AGGTCTTACACG-AAA--TCAAATATG
**
50665733 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATAT
1 ATGCC-ATGTCCCAGACAAGGTCTTACACGAAATCAAATAT
50665774 CAAAATCCTA
Statistics
Matches: 100, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
41 6 0.06
42 24 0.24
43 40 0.40
44 24 0.24
45 6 0.06
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (41 bp):
ATGCCATGTCCCAGACAAGGTCTTACACGAAATCAAATATG
Found at i:50673303 original size:42 final size:43
Alignment explanation
Indices: 50673203--50673372 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
50673193 AGCTCGTACA
* * *
50673203 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCCAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
50673246 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
50673288 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATC-
1 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* * * *
50673331 ATTGCCAATGTTCCAGACCTAGTCTT-C-CGAAATCAAATATCG
1 A-TGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
50673373 GAATCCTATG
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
40 2 0.02
41 8 0.08
42 32 0.30
43 42 0.40
44 22 0.21
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:50673384 original size:86 final size:84
Alignment explanation
Indices: 50673211--50673369 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 84
50673201 CAATGCCAAC
* *
50673211 GTCCCAGACATGGTCTTACATGTAATCCAATATCGATGCCACTGTCCCAGATAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACACGTAATCCAATATCGATGCCAATGTCCCAGATA-GGTCTTACACG
50673276 AAATCAAATACGATGCCGAT
65 AAATCAAATACGATGCCGAT
*
50673296 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATC-ATTGCCAATGTTCCAGACCTA-GTCTT-
1 GTCCCAGACATGGTCTTACACGT-AATC-CAATATCGA-TGCCAATGTCCCAGA--TAGGTCTTA
50673357 C-CGAAATCAAATA
61 CACGAAATCAAATA
50673370 TCGGAATCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
84 12 0.18
85 24 0.36
86 25 0.38
87 3 0.05
88 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACACGTAATCCAATATCGATGCCAATGTCCCAGATAGGTCTTACACGA
AATCAAATACGATGCCGAT
Found at i:50677958 original size:19 final size:20
Alignment explanation
Indices: 50677920--50677959 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
50677910 ATTTAGTGGA
**
50677920 TATTTCTATTTTTATTATTT
1 TATTTCTATTTTTAAAATTT
50677940 TATTTCT-TTTTTAAAATTT
1 TATTTCTATTTTTAAAATTT
50677959 T
1 T
50677960 TCTCTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTCTATTTTTAAAATTT
Found at i:50680331 original size:20 final size:20
Alignment explanation
Indices: 50680270--50680319 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
50680260 TTTATTTCTA
* *
50680270 TTAATTTAACCATGTTTTATTT
1 TTAATTTAA-TAT-TTTTGTTT
*
50680292 TTATTTTAATATTTTTGTTT
1 TTAATTTAATATTTTTGTTT
50680312 TTAATTTA
1 TTAATTTA
50680320 TTTTTTTCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 2 0.08
22 8 0.33
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (20 bp):
TTAATTTAATATTTTTGTTT
Found at i:50691000 original size:24 final size:26
Alignment explanation
Indices: 50690968--50691016 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
50690958 AGTTCATGCA
50690968 ATATTAAAGA-ATTTAA-ATACAACT
1 ATATTAAAGATATTTAACATACAACT
50690992 ATATTAAAGATTATTTAACATACAA
1 ATATTAAAGA-TATTTAACATACAA
50691017 ACCTACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATTAAAGATATTTAACATACAACT
Found at i:50693605 original size:17 final size:18
Alignment explanation
Indices: 50693580--50693613 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50693570 AAATAAAAAA
50693580 CCCTATTTT-TTTATTTT
1 CCCTATTTTATTTATTTT
*
50693597 CCCTTTTTTATTTATTT
1 CCCTATTTTATTTATTT
50693614 ATGTTCCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (18 bp):
CCCTATTTTATTTATTTT
Found at i:50696772 original size:12 final size:12
Alignment explanation
Indices: 50696741--50696779 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
50696731 ATTTCTTTTG
50696741 AAAAAAAA-AAT
1 AAAAAAAAGAAT
50696752 AAAAAAAAGAAT
1 AAAAAAAAGAAT
* *
50696764 TAAAAAAAGAAG
1 AAAAAAAAGAAT
50696776 AAAA
1 AAAA
50696780 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAAAGAAT
Found at i:50699379 original size:42 final size:42
Alignment explanation
Indices: 50699320--50699404 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
50699310 GCTCAAAAGG
*
50699320 AAGGAATTGACTACAATAAAGTATTTTCCTCTGTTGTGAACC
1 AAGGAATTGACTACAATAAAGTATTTTCCTCTATTGTGAACC
50699362 AAGGAATTGACTACAATAAAGTATTTTCCTCTATTGTGAACC
1 AAGGAATTGACTACAATAAAGTATTTTCCTCTATTGTGAACC
50699404 A
1 A
50699405 TTCCTCCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (42 bp):
AAGGAATTGACTACAATAAAGTATTTTCCTCTATTGTGAACC
Found at i:50701793 original size:16 final size:19
Alignment explanation
Indices: 50701769--50701804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50701759 ATACTTTAAC
50701769 AATTCACATA-T-AACACA
1 AATTCACATACTCAACACA
50701786 AATT-ACATACTCAACACA
1 AATTCACATACTCAACACA
50701804 A
1 A
50701805 TGATATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (19 bp):
AATTCACATACTCAACACA
Found at i:50702669 original size:32 final size:30
Alignment explanation
Indices: 50702633--50702707 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
50702623 CACCCACCTA
*
50702633 TATATATGTATATATATACAACCCCACTCTTT
1 TATATATGTATATATA-ACAACCCCA-TCATT
* *
50702665 TATATATGTATAT-TACCAACTCCATCATT
1 TATATATGTATATATAACAACCCCATCATT
50702694 TATATAT-TATATAT
1 TATATATGTATATAT
50702708 GTAACACCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.13
29 12 0.31
30 7 0.18
31 2 0.05
32 13 0.33
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (30 bp):
TATATATGTATATATAACAACCCCATCATT
Found at i:50702726 original size:26 final size:25
Alignment explanation
Indices: 50702690--50702739 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
50702680 CCAACTCCAT
*
50702690 CATTTATATATTATATATGTA-ACACC
1 CATTAATATATT-TAT-TGTATACACC
50702716 CATTAATATATTTATTGTATACAC
1 CATTAATATATTTATTGTATACAC
50702740 AATAAAGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (25 bp):
CATTAATATATTTATTGTATACACC
Found at i:50705423 original size:20 final size:21
Alignment explanation
Indices: 50705400--50705439 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
50705390 ATACATCTCT
*
50705400 TTTTTTTTCTTT-TTTTTTTG
1 TTTTTCTTCTTTCTTTTTTTG
50705420 TTTTTCTTCTTTCTTTTTTT
1 TTTTTCTTCTTTCTTTTTTT
50705440 ATATTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (21 bp):
TTTTTCTTCTTTCTTTTTTTG
Found at i:50705446 original size:23 final size:24
Alignment explanation
Indices: 50705405--50705450 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
50705395 TCTCTTTTTT
* *
50705405 TTTCTTTTTTTTTTGTTTTTCTTC
1 TTTCTTTTTTTTATATTTTTCTTC
50705429 TTTC-TTTTTTTATATTTTTCTT
1 TTTCTTTTTTTTATATTTTTCTT
50705451 AAGAACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (24 bp):
TTTCTTTTTTTTATATTTTTCTTC
Found at i:50705449 original size:20 final size:19
Alignment explanation
Indices: 50705403--50705450 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
50705393 CATCTCTTTT
* *
50705403 TTTTTCTTTTTTTTTTGTT
1 TTTTTCTTTTTTTTTTATA
50705422 TTTCTTCTTTCTTTTTTTATA
1 TTT-TTCTTT-TTTTTTTATA
50705443 TTTTTCTT
1 TTTTTCTT
50705451 AAGAACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 11 0.44
21 11 0.44
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTATA
Found at i:50706621 original size:8 final size:8
Alignment explanation
Indices: 50706606--50706675 Score: 79
Period size: 8 Copynumber: 8.6 Consensus size: 8
50706596 CCAAAAAAAT
50706606 AATAATAA
1 AATAATAA
*
50706614 AGTAAT-A
1 AATAATAA
*
50706621 ATTAATAA
1 AATAATAA
50706629 AATAAAATAA
1 AAT--AATAA
*
50706639 AGTAATAA
1 AATAATAA
50706647 AATAATAA
1 AATAATAA
50706655 AATAATAA
1 AATAATAA
*
50706663 AACAATAA
1 AATAATAA
50706671 AATAA
1 AATAA
50706676 AAATTGGGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
7 6 0.12
8 39 0.75
10 7 0.13
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:50706634 original size:5 final size:5
Alignment explanation
Indices: 50706601--50706677 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
50706591 ACTATCCAAA
* * *
50706601 AAAAT AATAAT AAAGT AATAAT -TAAT AAAAT AAAAT AAAGT AATAA-
1 AAAAT AA-AAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AA-AAT
50706647 AATAAT AAAAT AATAA- AACAAT AAAAT AAAA
1 AA-AAT AAAAT AA-AAT AA-AAT AAAAT AAAA
50706678 ATTGGGTTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 3 0.05
5 41 0.71
6 14 0.24
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:50706677 original size:13 final size:12
Alignment explanation
Indices: 50706599--50706678 Score: 58
Period size: 13 Copynumber: 6.4 Consensus size: 12
50706589 TTACTATCCA
50706599 AAAAAATAATAAT
1 AAAAAATAA-AAT
* *
50706612 AAAGTAAT-AATT
1 AAA-AAATAAAAT
50706624 AATAAAATAAAAT
1 AA-AAAATAAAAT
*
50706637 AAAGTAATAAAAT
1 AAA-AAATAAAAT
50706650 AATAAAAT--AAT
1 AA-AAAATAAAAT
50706661 AAAACAATAAAAT
1 AAAA-AATAAAAT
50706674 AAAAA
1 AAAAA
50706679 TTGGGTTGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
10 2 0.04
11 8 0.15
12 9 0.17
13 30 0.57
14 4 0.08
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:50708102 original size:33 final size:33
Alignment explanation
Indices: 50708060--50708137 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
50708050 TTGTTTCCTT
* * *
50708060 TTGGAAATCAAGAGTTTGCTA-TAGTATTTACTG
1 TTGGAAATCAAGAGTTTACCATTA-TATCTACTG
* *
50708093 TTGGAAATCAACAGTTTACCATTATATCTGCTG
1 TTGGAAATCAAGAGTTTACCATTATATCTACTG
50708126 TTGGAAATCAAG
1 TTGGAAATCAAG
50708138 CACATTAGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 36 0.95
34 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGGAAATCAAGAGTTTACCATTATATCTACTG
Found at i:50729516 original size:15 final size:14
Alignment explanation
Indices: 50729481--50729518 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
50729471 TCTACTTTGC
50729481 TTTGTTCTGCTCTA
1 TTTGTTCTGCTCTA
50729495 TTATGTTCTGCTCTA
1 TT-TGTTCTGCTCTA
50729510 TCTTGTTCT
1 T-TTGTTCT
50729519 AGTTGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 19 0.86
16 1 0.05
ACGTcount: A:0.08, C:0.21, G:0.13, T:0.58
Consensus pattern (14 bp):
TTTGTTCTGCTCTA
Found at i:50736900 original size:20 final size:21
Alignment explanation
Indices: 50736875--50736914 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50736865 CACTTGAAAT
*
50736875 AAGGC-ACATGCCCGTGTGGA
1 AAGGCAACACGCCCGTGTGGA
50736895 AAGGCAACACGCCCGTGTGG
1 AAGGCAACACGCCCGTGTGG
50736915 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AAGGCAACACGCCCGTGTGGA
Found at i:50737086 original size:14 final size:14
Alignment explanation
Indices: 50737046--50737087 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
50737036 CATGGCCTGA
50737046 CACACGCCCGTGTC
1 CACACGCCCGTGTC
** *
50737060 CA-TGGCCCATGTC
1 CACACGCCCGTGTC
50737073 CACACGCCCGTGTC
1 CACACGCCCGTGTC
50737087 C
1 C
50737088 TAGCCTGTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.14, C:0.48, G:0.21, T:0.17
Consensus pattern (14 bp):
CACACGCCCGTGTC
Found at i:50738209 original size:49 final size:49
Alignment explanation
Indices: 50738092--50738298 Score: 174
Period size: 49 Copynumber: 4.3 Consensus size: 49
50738082 AAATGGCGAC
* ** * ** *
50738092 GCCATGTCCCAGATATGGTCTTACACTGGCTAGCACAT-TAAAGTC-GAT
1 GCCATGTCCCAGATA-GGTCTTACACTGACTTTCATATATCGAGGCTGAT
* * * * *
50738140 GTCGTGTCCTAGACAGGTCTTACACTGACTTTCATATATTGAGGCTGAT
1 GCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCTGAT
* * * *
50738189 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGATG-TCGAT
1 GCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT-GAT
**
50738238 GCCATGTCCCAGATAGGTCTTACACT-AGCTTGT-ATATCCCGAGGCTGAT
1 GCCATGTCCCAGATAGGTCTTACACTGA-CTT-TCATATATCGAGGCTGAT
50738287 G-CATGTCCCAGA
1 GCCATGTCCCAGA
50738299 CATGCCTTAC
Statistics
Matches: 127, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
47 18 0.14
48 27 0.21
49 80 0.63
50 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCTGAT
Found at i:50738260 original size:98 final size:97
Alignment explanation
Indices: 50738092--50738358 Score: 285
Period size: 98 Copynumber: 2.8 Consensus size: 97
50738082 AAATGGCGAC
** * * * *
50738092 GCCATGTCCCAGATATGGTCTTACACTGGCTAGCA-CATTAAAGTCGATGTCGTGTCCTAGACAG
1 GCCATGTCCCAGATA-GGTCTTACACTGGCTCTCATCATCAATGTCGATG-CATGTCCCAGACAG
**
50738156 GTCTTACACTGA-CTT-TCATATATTGAGGCTGAT
64 GTCTTACACTGAGCTTGT-ATATACCGAGGCTGAT
* *
50738189 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGATGTCGATGCCATGTCCCAGATAG
1 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATC-ATCAATGTCGATG-CATGTCCCAGACAG
*
50738254 GTCTTACACT-AGCTTGTATATCCCGAGGCTGAT
64 GTCTTACACTGAGCTTGTATATACCGAGGCTGAT
* * * * * * *
50738287 G-CATGTCCCAGACATGCCTTACACTAGCTCTCGTC-TCAATGCCGATGCATGTCCCAGACATGT
1 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCATCAATGTCGATGCATGTCCCAGACAGGT
50738350 CTTACACTG
66 CTTACACTG
50738359 GCTCACATAC
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
94 22 0.15
95 10 0.07
96 17 0.12
97 46 0.32
98 48 0.33
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (97 bp):
GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCATCAATGTCGATGCATGTCCCAGACAGGT
CTTACACTGAGCTTGTATATACCGAGGCTGAT
Found at i:50746613 original size:19 final size:20
Alignment explanation
Indices: 50746589--50746626 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50746579 GGTACCACCA
50746589 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50746608 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50746627 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50746988 original size:92 final size:91
Alignment explanation
Indices: 50746832--50747000 Score: 311
Period size: 92 Copynumber: 1.8 Consensus size: 91
50746822 CCCCCTAAGT
*
50746832 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
50746897 GAGTTCGGATGCCTAGTTACATTCAC
66 GAGTTCGGATGCCTAGTTACATTCAC
*
50746923 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50746988 CGAGTTCGGATGC
65 CGAGTTCGGATGC
50747001 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 27 0.36
92 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTCAC
Found at i:50746997 original size:46 final size:45
Alignment explanation
Indices: 50746827--50746996 Score: 220
Period size: 46 Copynumber: 3.7 Consensus size: 45
50746817 GTAACCCCCC
* *
50746827 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
* *
50746872 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* *
50746918 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
50746964 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
50746997 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 34 0.32
46 62 0.58
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:50747016 original size:46 final size:46
Alignment explanation
Indices: 50746829--50747016 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
50746819 AACCCCCCTA
* * * *
50746829 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
50746873 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
50746921 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
50746966 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
50747012 AGTGA
1 AGTGA
50747017 CATGTCACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 32 0.28
46 65 0.56
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:50747451 original size:30 final size:30
Alignment explanation
Indices: 50747417--50747476 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50747407 ATTTAATACG
50747417 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50747447 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50747477 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50754148 original size:19 final size:20
Alignment explanation
Indices: 50754124--50754161 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50754114 GGTACCACCA
50754124 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50754143 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50754162 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50754552 original size:46 final size:45
Alignment explanation
Indices: 50754383--50754551 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 45
50754373 TAACCCGCCC
* *
50754383 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
* *
50754428 TAAGTGAACTC-GACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* *
50754473 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
50754519 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
50754552 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 10, Indels: 17
0.80 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 20 0.19
45 22 0.21
46 54 0.51
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:50754571 original size:46 final size:46
Alignment explanation
Indices: 50754385--50754571 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
50754375 ACCCGCCCTA
* * * *
50754385 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
50754429 AAGTGAACTC-GACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
50754476 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
50754521 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
50754567 AGTGA
1 AGTGA
50754572 CATGTCACTT
Statistics
Matches: 114, Mismatches: 12, Indels: 31
0.73 0.08 0.20
Matches are distributed among these distances:
44 30 0.26
45 17 0.15
46 58 0.51
48 4 0.04
49 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:50755005 original size:30 final size:30
Alignment explanation
Indices: 50754971--50755030 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50754961 ATTTAATACG
50754971 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50755001 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50755031 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50771484 original size:45 final size:46
Alignment explanation
Indices: 50771432--50771537 Score: 178
Period size: 45 Copynumber: 2.3 Consensus size: 46
50771422 GATTAACACA
* *
50771432 AGTAAGACCATAGCTGGAAGACGCTATGGCAACATG-ATTAAAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCAACATGAATTAAAATG
*
50771477 AGTAAGACCATAGTTGAAAGACACTATGGCAACATGAATTAAAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCAACATGAATTAAAATG
50771523 AGTAAGACCATAGCT
1 AGTAAGACCATAGCT
50771538 AAAATATGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 33 0.59
46 23 0.41
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTAAGACCATAGCTGAAAGACACTATGGCAACATGAATTAAAATG
Found at i:50772176 original size:5 final size:5
Alignment explanation
Indices: 50772168--50772195 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50772158 CAAAATTAAA
50772168 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
50772196 GGTTGGCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:50779971 original size:46 final size:47
Alignment explanation
Indices: 50779823--50780085 Score: 188
Period size: 47 Copynumber: 5.6 Consensus size: 47
50779813 GTAAGGTGCT
* * * * * *
50779823 GATGTCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGCC
* * *
50779870 AATGCCATGTCCTAGACATGGTCTTACACTGAC-TATCATCAT-GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TCG-AGCC
* *
50779918 GACG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG-CC
* * * * * *
50779964 GATG-CATGCCCCAAACAT-GTCTTATACTAGCTCT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGA-GCC
* * *
50780010 GATGCCATGTCCCAGACATGGCCTTACACTGGCTCT-CATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCG-AGCC
50780058 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
50780086 AGCCAACAAT
Statistics
Matches: 176, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 68 0.39
47 76 0.43
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGCC
Found at i:50805192 original size:19 final size:19
Alignment explanation
Indices: 50805168--50805204 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
50805158 TTCCGCACAC
50805168 TTAGTGCCATCTCAACTAG
1 TTAGTGCCATCTCAACTAG
50805187 TTAGTGCCATCTCAACTA
1 TTAGTGCCATCTCAACTA
50805205 TCCGAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (19 bp):
TTAGTGCCATCTCAACTAG
Found at i:50805269 original size:40 final size:40
Alignment explanation
Indices: 50805222--50805315 Score: 188
Period size: 40 Copynumber: 2.4 Consensus size: 40
50805212 CTAAGTCGAT
50805222 ATCGCACACTTAGTGCCTTTAATAGCCGAAGCTAGCTTAG
1 ATCGCACACTTAGTGCCTTTAATAGCCGAAGCTAGCTTAG
50805262 ATCGCACACTTAGTGCCTTTAATAGCCGAAGCTAGCTTAG
1 ATCGCACACTTAGTGCCTTTAATAGCCGAAGCTAGCTTAG
50805302 ATCGCACACTTAGT
1 ATCGCACACTTAGT
50805316 TCCAATGCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTTTAATAGCCGAAGCTAGCTTAG
Found at i:50812311 original size:27 final size:27
Alignment explanation
Indices: 50812273--50812599 Score: 422
Period size: 27 Copynumber: 12.1 Consensus size: 27
50812263 ATACTTTAGT
50812273 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * *
50812300 TTACTAAAATA-CCATCGGTTTATAAAA
1 TTACCAAAATACCCCT-GGTTTGTAAAA
* *
50812327 TCACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* **
50812354 TTACCAAAATACCCTTGGTTTACAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
*
50812381 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * * *
50812408 TTACTAAAATACCCTTTGTTTATAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
*
50812435 TTACCAAAATACCTCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
50812462 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* ** * *
50812489 TTACTAAAATACCTTTTGTTTATAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
50812516 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* *
50812543 TTATCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* **
50812570 TTACCAAAATATCCCTAATTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
50812597 TTA
1 TTA
50812600 TTGAAATACC
Statistics
Matches: 256, Mismatches: 42, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.01
27 250 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTTTGTAAAA
Found at i:50812606 original size:27 final size:27
Alignment explanation
Indices: 50812291--50812665 Score: 176
Period size: 27 Copynumber: 13.9 Consensus size: 27
50812281 ATACCCCTGG
* **
50812291 TTTGTAAAATTA-CTAAAATACCATCGG
1 TTTGTAAAATTATC-AAAATACCCTCAA
* * * *
50812318 TTTATAAAATCACCAAAATACCC-CTAG
1 TTTGTAAAATTATCAAAATACCCTC-AA
* ***
50812345 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTATCAAAATACCCTCAA
** * *
50812372 TTTACAAAATTACCAAAATACCC-CTAG
1 TTTGTAAAATTATCAAAATACCCTC-AA
***
50812399 TTTGTAAAATTA-CTAAAATACCCTTTG
1 TTTGTAAAATTATC-AAAATACCCTCAA
* * **
50812426 TTTATAAAATTACCAAAATA-CCTCTGG
1 TTTGTAAAATTATCAAAATACCCTC-AA
* **
50812453 TTTGTAAAATTACCAAAATACCC-CTGG
1 TTTGTAAAATTATCAAAATACCCTC-AA
* ***
50812480 TTTGTAAAATTA-CTAAAATACCTTTTG
1 TTTGTAAAATTATC-AAAATACCCTCAA
* * **
50812507 TTTATAAAATTACCAAAATACCC-CTGG
1 TTTGTAAAATTATCAAAATACCCTC-AA
*
50812534 TTTGTAAAATTATCAAAATACCC-CTAG
1 TTTGTAAAATTATCAAAATACCCTC-AA
*
50812561 TTTGTAAAATTACCAAAATATCCCT-AA
1 TTTGTAAAATTATCAAAATA-CCCTCAA
** *
50812588 TTTGTAAAATTATTGAAATACCCTCGA
1 TTTGTAAAATTATCAAAATACCCTCAA
** ** *
50812615 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTGTAAAATTATCAAAATACCCTCAA
* * *
50812642 CTTGTAAAATTACCAAAGTACCCT
1 TTTGTAAAATTATCAAAATACCCT
50812666 TGATTTACAG
Statistics
Matches: 289, Mismatches: 43, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.03
27 271 0.94
28 8 0.03
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTATCAAAATACCCTCAA
Found at i:50812621 original size:81 final size:81
Alignment explanation
Indices: 50812273--50812665 Score: 422
Period size: 81 Copynumber: 4.9 Consensus size: 81
50812263 ATACTTTAGT
* * * * *
50812273 TTACCAAAATACCC-CTGGTTTGTAAAATTACTAAAATA-CCATCGGTTTATAAAATCACCAAAA
1 TTACCAAAATACCCTCTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAA
*
50812336 TACCCCTAGTTTGTAAAA
65 TA-CCCTAGTTTATAAAA
** *
50812354 TTACCAAAATACCCT-TGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAAT
1 TTACCAAAATACCCTCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAAT
*
50812418 ACCCTTTGTTTATAAAA
66 ACCC-TAGTTTATAAAA
* *
50812435 TTACCAAAATA-CCTCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAAT
1 TTACCAAAATACCCTCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAAT
* *
50812499 ACCTTTTGTTTATAAAA
66 ACC-CTAGTTTATAAAA
*
50812516 TTACCAAAATACCC-CTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAAT
1 TTACCAAAATACCCTCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAAT
* *
50812580 ATCCCTAATTTGTAAAA
66 A-CCCTAGTTTATAAAA
*** *** *** * * *
50812597 TTATTGAAATACCCTC-GACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAG
1 TTACCAAAATACCCTCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAA
50812660 TACCCT
65 TACCCT
50812666 TGATTTACAG
Statistics
Matches: 271, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
80 15 0.06
81 248 0.92
82 8 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
TTACCAAAATACCCTCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAAT
ACCCTAGTTTATAAAA
Found at i:50812717 original size:27 final size:27
Alignment explanation
Indices: 50812593--50812719 Score: 94
Period size: 27 Copynumber: 4.7 Consensus size: 27
50812583 CCTAATTTGT
* * **
50812593 AAAATTATTGAAATACCCTCGACCTGT
1 AAAATTATCGAAATACCCTCGACTTAC
* **
50812620 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCGAAATACCCTCGACTTAC
* * *
50812647 AAAATTA-CCAAAGTACCCTTGATTTAC
1 AAAATTATCGAAA-TACCCTCGACTTAC
* * *** *
50812674 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTATCGAAATACCCTCGACTTAC
50812701 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
50812720 TGTAGGGTAG
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.95
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGACTTAC
Found at i:50812868 original size:26 final size:27
Alignment explanation
Indices: 50812703--50812870 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
50812693 CGATTTACAA
* *
50812703 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50812730 AAAT-CTCGAAATACCCCTGTAGGGTAG
1 AATTAC-CGAAATACCCCTGTAGGGTAG
* *
50812757 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50812784 AATTACC-AGAATACCCCTTTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
50812811 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
50812838 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
50812864 AATTACC
1 AATTACC
50812871 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
26 17 0.14
27 103 0.84
28 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:50813349 original size:22 final size:22
Alignment explanation
Indices: 50813298--50813361 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
50813288 TAAAGCCTTT
* *
50813298 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
* *
50813320 T-ACATATGACTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
50813342 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
50813362 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:50813550 original size:27 final size:27
Alignment explanation
Indices: 50813520--50813621 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
50813510 ATTCTGTTAA
* *
50813520 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
50813547 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
50813574 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
50813601 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
50813622 ATAACTAAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:50813796 original size:6 final size:6
Alignment explanation
Indices: 50813781--50813877 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
50813771 ATTCTGTTAC
* * *
50813781 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
50813830 CTGATT CTG-TCAC CTAATT CTGATT CTGATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
50813878 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:50813809 original size:31 final size:31
Alignment explanation
Indices: 50813758--50813868 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
50813748 TTGCATTTAC
*
50813758 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
50813790 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
50813821 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
50813852 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
50813869 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 66 0.90
32 7 0.10
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:50813853 original size:37 final size:31
Alignment explanation
Indices: 50813771--50813893 Score: 151
Period size: 31 Copynumber: 4.0 Consensus size: 31
50813761 CTGATTTTTT
*
50813771 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
50813802 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * * *
50813833 ATTCTGTCACCTAATTCTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
50813864 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
50813894 TAATGGGTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
30 15 0.19
31 62 0.78
32 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:50821398 original size:19 final size:18
Alignment explanation
Indices: 50821362--50821406 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
50821352 TTTTAATGTA
50821362 TTAAATATAAATCATTAC
1 TTAAATATAAATCATTAC
*
50821380 TGTAAAGTATAATTC-TTAC
1 T-TAAA-TATAAATCATTAC
50821399 TTAAATAT
1 TTAAATAT
50821407 CAACTCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.12
18 5 0.21
19 9 0.38
20 7 0.29
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (18 bp):
TTAAATATAAATCATTAC
Found at i:50822027 original size:13 final size:13
Alignment explanation
Indices: 50822009--50822042 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50821999 ATTAAAATTT
50822009 ATATATATTACAA
1 ATATATATTACAA
*
50822022 ATATATATTATAA
1 ATATATATTACAA
*
50822035 AAATATAT
1 ATATATAT
50822043 GTTAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATATATTACAA
Found at i:50822028 original size:15 final size:15
Alignment explanation
Indices: 50821995--50822058 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
50821985 ACGTAAAAAG
* *
50821995 TATTATTAAAATTTA
1 TATTATAAAAATATA
*
50822010 TATATATTACAAATATA
1 TAT-TA-TAAAAATATA
50822027 TATTATAAAAATATA
1 TATTATAAAAATATA
* * *
50822042 TGTTAGAAAAATTTA
1 TATTATAAAAATATA
50822057 TA
1 TA
50822059 AAAATAACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 25 0.64
16 4 0.10
17 10 0.26
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (15 bp):
TATTATAAAAATATA
Found at i:50823847 original size:18 final size:19
Alignment explanation
Indices: 50823817--50823861 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
50823807 TCGGTTCGAC
50823817 TAAATAAATTA-TTAAAAA
1 TAAATAAATTATTTAAAAA
*
50823835 TAAA-AAATATATTTTAAAA
1 TAAATAAAT-TATTTAAAAA
50823854 TAAATAAA
1 TAAATAAA
50823862 AATTGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 6 0.26
19 10 0.43
20 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAATAAATTATTTAAAAA
Found at i:50826127 original size:19 final size:19
Alignment explanation
Indices: 50826095--50826136 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
50826085 ATTTTATTAA
* *
50826095 TTTTTTATATATTTTTAGAT
1 TTTTTTATAAATTTATA-AT
50826115 TTTTTTA-AAATTTATAAT
1 TTTTTTATAAATTTATAAT
50826133 TTTT
1 TTTT
50826137 AAAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 7 0.35
20 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTATAAATTTATAAT
Found at i:50826137 original size:16 final size:16
Alignment explanation
Indices: 50826116--50826158 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
50826106 TTTTTAGATT
50826116 TTTTTAAAATTTATAA
1 TTTTTAAAATTTATAA
*
50826132 TTTTTAAAA-ATATAA
1 TTTTTAAAATTTATAA
* *
50826147 ATTTTAGAATTT
1 TTTTTAAAATTT
50826159 CTATAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTTAAAATTTATAA
Found at i:50826152 original size:24 final size:24
Alignment explanation
Indices: 50826120--50826168 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50826110 TAGATTTTTT
* *
50826120 TAAAATTTATAATTTTTAAAAATA
1 TAAAATTTAGAATTTCTAAAAATA
* *
50826144 TAAATTTTAGAATTTCTATAAATA
1 TAAAATTTAGAATTTCTAAAAATA
50826168 T
1 T
50826169 TTTTAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAATTTAGAATTTCTAAAAATA
Found at i:50826188 original size:19 final size:19
Alignment explanation
Indices: 50826166--50826216 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
50826156 TTTCTATAAA
50826166 TATTTTTAATTTTAAAAAT
1 TATTTTTAATTTTAAAAAT
*
50826185 TATTTTCAAATTTTAAAAAT
1 TATTTT-TAATTTTAAAAAT
50826205 TA-TTTTAATTTT
1 TATTTTTAATTTT
50826217 TTTGTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 9 0.31
20 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAATTTTAAAAAT
Found at i:50826217 original size:19 final size:19
Alignment explanation
Indices: 50826124--50826217 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 19
50826114 TTTTTTTAAA
50826124 ATTTATAATTTTTAAAAATAT
1 ATTT-TAATTTTTAAAAAT-T
* *
50826145 AAATTTTAGAATTTCTATAAA-T
1 --ATTTT--AATTTTTAAAAATT
50826167 ATTTTTAA-TTTTAAAAATT
1 A-TTTTAATTTTTAAAAATT
*
50826186 ATTTTCAAATTTTAAAAATT
1 ATTTT-AATTTTTAAAAATT
50826206 ATTTTAATTTTT
1 ATTTTAATTTTT
50826218 TTGTAATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
18 11 0.18
19 12 0.20
20 17 0.28
21 4 0.07
22 2 0.03
23 4 0.07
24 10 0.17
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (19 bp):
ATTTTAATTTTTAAAAATT
Found at i:50833181 original size:42 final size:42
Alignment explanation
Indices: 50833091--50833181 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 42
50833081 TTTTTTAAGT
* * * *
50833091 TACTTCCTTTTTTGTCTGAACTTGGATGTTATTTTCCCAACT
1 TACTTCCATTTTTGTCTGAACATGGACGTTATTTTCCCAACA
* * **
50833133 TTCTTCCATTTTTGTCT-AGACATGGACGTTGTTTTCCCATGA
1 TACTTCCATTTTTGTCTGA-ACATGGACGTTATTTTCCCAACA
50833175 TACTTCC
1 TACTTCC
50833182 TTGATATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.47
Consensus pattern (42 bp):
TACTTCCATTTTTGTCTGAACATGGACGTTATTTTCCCAACA
Found at i:50850687 original size:3 final size:3
Alignment explanation
Indices: 50850673--50850814 Score: 119
Period size: 3 Copynumber: 48.3 Consensus size: 3
50850663 TTAATTAATT
* * * *
50850673 TTA TTT TTA TTA TTA ATA TTA TTA ATA TTA CTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** * * *
50850720 CTA TTA CTA TTA TTT TTA TTA CCA TTA TTA TTA CTA TTT TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
50850768 TTA TTA TTA CTA TT- GTA TTA -CA TTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50850814 T
1 T
50850815 ATTTTTTGTA
Statistics
Matches: 105, Mismatches: 31, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
2 4 0.04
3 101 0.96
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:50850692 original size:9 final size:9
Alignment explanation
Indices: 50850654--50850817 Score: 57
Period size: 9 Copynumber: 18.2 Consensus size: 9
50850644 TGCTATTTTG
*
50850654 TTATTAAAA
1 TTATTAATA
*
50850663 TTAATTAATT
1 TT-ATTAATA
**
50850673 TTATTTTTA
1 TTATTAATA
50850682 TTATTAATA
1 TTATTAATA
50850691 TTATTAATA
1 TTATTAATA
* *
50850700 TTACT-ATT
1 TTATTAATA
*
50850708 TTATTATTA
1 TTATTAATA
* *
50850717 TTACTATTA
1 TTATTAATA
* * *
50850726 CTATTATTT
1 TTATTAATA
**
50850735 TTATTACCA
1 TTATTAATA
*
50850744 TTATTATTA
1 TTATTAATA
* ** *
50850753 CTATTTTTG
1 TTATTAATA
*
50850762 TTATTATTA
1 TTATTAATA
*
50850771 TTATTACTA
1 TTATTAATA
*
50850780 TTGTATT-ACA
1 -T-TATTAATA
*
50850790 TTATTATTA
1 TTATTAATA
50850799 TTATT-ATCA
1 TTATTAAT-A
50850808 TTATT-ATA
1 TTATTAATA
50850816 TT
1 TT
50850818 TTTTGTATTT
Statistics
Matches: 115, Mismatches: 34, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
8 14 0.12
9 88 0.77
10 9 0.08
11 4 0.03
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (9 bp):
TTATTAATA
Found at i:50850713 original size:17 final size:17
Alignment explanation
Indices: 50850691--50850724 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50850681 ATTATTAATA
50850691 TTATTAATATTACTATT
1 TTATTAATATTACTATT
*
50850708 TTATTATTATTACTATT
1 TTATTAATATTACTATT
50850725 ACTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTAATATTACTATT
Found at i:50852641 original size:26 final size:26
Alignment explanation
Indices: 50852593--50852642 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
50852583 GATGTAAATT
* * * *
50852593 AAAATTTTCAACTATTTTTTATATAC
1 AAAATATTCAACCATTATATATATAC
50852619 AAAATATTCAACCATTATATATAT
1 AAAATATTCAACCATTATATATAT
50852643 TGAATATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (26 bp):
AAAATATTCAACCATTATATATATAC
Found at i:50853382 original size:12 final size:13
Alignment explanation
Indices: 50853362--50853390 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50853352 TTCTTTTAAC
50853362 TTTCTTTTTTTGT
1 TTTCTTTTTTTGT
50853375 TTTC-TTTTTTGT
1 TTTCTTTTTTTGT
50853387 TTTC
1 TTTC
50853391 ATTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTTTGT
Found at i:50861106 original size:25 final size:24
Alignment explanation
Indices: 50861078--50861135 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
50861068 TATTATCAAG
* *
50861078 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
50861103 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
50861129 AATTATA
1 AATTATA
50861136 CAAATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:50861127 original size:88 final size:91
Alignment explanation
Indices: 50860956--50861160 Score: 317
Period size: 88 Copynumber: 2.3 Consensus size: 91
50860946 TTGATTTTAG
* *
50860956 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
50861021 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
50861048 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAA-T-TATAT-ATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
50861110 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
50861136 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
50861161 GTTATAATTA
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
88 60 0.57
89 5 0.05
90 1 0.01
91 24 0.23
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Done.