Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 137 of 295
Found at i:46727047 original size:46 final size:46
Alignment explanation
Indices: 46726882--46727054 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
46726872 AACCCGCCCC
* * *
46726882 TAAGTGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
46726928 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
46726976 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
46727021 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46727055 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 57 0.53
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:46727073 original size:46 final size:45
Alignment explanation
Indices: 46726932--46727073 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
46726922 CATCCATAAA
46726932 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
46726979 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
46727025 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
46727071 TGA
1 TGA
46727074 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:46740367 original size:26 final size:26
Alignment explanation
Indices: 46740319--46740368 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
46740309 TATCCTTAAA
* *
46740319 TGCTTACACGAGCTGTGATTTGGGTT
1 TGCTCACACGAGCTGTGAGTTGGGTT
46740345 TGCTCACACGAGCTGTTG-GTTGGG
1 TGCTCACACGAGCTG-TGAGTTGGG
46740369 ATGTTATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.14, C:0.18, G:0.34, T:0.34
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAGTTGGGTT
Found at i:46742997 original size:44 final size:43
Alignment explanation
Indices: 46742947--46743036 Score: 162
Period size: 44 Copynumber: 2.1 Consensus size: 43
46742937 TTAATCAAAT
*
46742947 CTAACCTTATTTTCTTCACAATTTTCTTCTTTTTTTTCTTTCAA
1 CTAACCTTATTTTCTTCACAATTTTCTTC-TTTTTTTCATTCAA
46742991 CTAACCTTATTTTCTTCACAATTTTCTTCTTTTTTTCATTCAA
1 CTAACCTTATTTTCTTCACAATTTTCTTCTTTTTTTCATTCAA
46743034 CTA
1 CTA
46743037 CCACTTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 16 0.36
44 29 0.64
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (43 bp):
CTAACCTTATTTTCTTCACAATTTTCTTCTTTTTTTCATTCAA
Found at i:46743489 original size:21 final size:20
Alignment explanation
Indices: 46743455--46743500 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
46743445 TTTTTATGTT
46743455 TAAT-TAATATAATATATTA
1 TAATATAATATAATATATTA
*
46743474 TAATATAATAATAATATTTTA
1 TAATATAAT-ATAATATATTA
46743495 T-ATATA
1 TAATATA
46743501 CTTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATATAATATAATATATTA
Found at i:46746405 original size:47 final size:44
Alignment explanation
Indices: 46746292--46746458 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 44
46746282 ATGCGTGCTA
46746292 ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCAG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCAG
* * * * * *
46746336 ATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTGTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T--A-GCAG
* * * * * *
46746383 ATGCATGTCCCAGACATTTCTTACTCTAGCACTCATAAT-ATGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCA--CA-ACTCTTAGCAG
* *
46746429 AAGCACGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
46746459 CCTTGTCTAG
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.05
44 28 0.30
46 30 0.32
47 28 0.30
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCAG
Found at i:46753239 original size:47 final size:47
Alignment explanation
Indices: 46753181--46753671 Score: 811
Period size: 47 Copynumber: 10.4 Consensus size: 47
46753171 CAGCCAAGAC
46753181 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
46753228 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46753275 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46753322 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46753371 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46753418 AGTGTATATATGTGATAAGGCCTAATAACCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
46753465 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
46753512 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
46753559 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
46753606 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
46753653 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
46753672 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 375 0.89
49 47 0.11
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:46753846 original size:37 final size:37
Alignment explanation
Indices: 46753790--46753868 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46753780 CCGAGCTCTA
* *
46753790 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
46753827 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46753864 AAGAC
1 AAGAC
46753869 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46757548 original size:47 final size:47
Alignment explanation
Indices: 46757491--46757707 Score: 189
Period size: 47 Copynumber: 4.6 Consensus size: 47
46757481 ACTCTTAGCT
* *
46757491 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-T-GTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCATAGT-GAGGCC
* * *
46757538 GATGCATGTCCCAGACATGTCTTACTCTGGCA-CTCATAAT-ATGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCTCATAGTGA-GGCC
* * * * *
46757584 GAAGCATGTCCCAGACATGTCTTACGCTAGCCCTCGTC-T-G-GATGCC
1 GATGCATGTCCCAGACATGTCTTACACT-GGCATC-TCATAGTGAGGCC
** *
46757630 GATGCCATGTCCCAGACATGGTCTTTTACTGGC-TCTCATAGTGAGGGC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTCATAGTGAGGCC
*
46757678 GAAGCATGTCCCAGACATGTCTTACACTGG
1 GATGCATGTCCCAGACATGTCTTACACTGG
46757708 TGCACAAATC
Statistics
Matches: 136, Mismatches: 22, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
45 6 0.04
46 49 0.36
47 63 0.46
48 16 0.12
49 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCTCATAGTGAGGCC
Found at i:46757601 original size:46 final size:46
Alignment explanation
Indices: 46757541--46757707 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
46757531 CGAGGCCGAT
46757541 GCATGTCCCAGACATGTCTTACTCTGGCACTCATAAT-ATGGCTGAA
1 GCATGTCCCAGACATGTCTTACTCTGGCACTCATAATGATGGC-GAA
* * * * * * *
46757587 GCATGTCCCAGACATGTCTTACGCTAGCCCTCGT-CTGGATGCCGAT
1 GCATGTCCCAGACATGTCTTACTCTGGCACTCATAAT-GATGGCGAA
* * * *
46757633 GCCATGTCCCAGACATGGTCTT-TTACTGGCTCTCATAGTGAGGGCGAA
1 G-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCATAATGATGGCGAA
*
46757681 GCATGTCCCAGACATGTCTTACACTGG
1 GCATGTCCCAGACATGTCTTACTCTGG
46757708 TGCACAAATC
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 42 0.44
47 32 0.33
48 20 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACTCTGGCACTCATAATGATGGCGAA
Found at i:46758810 original size:18 final size:18
Alignment explanation
Indices: 46758787--46758821 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46758777 TAATTAAACG
46758787 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
*
46758805 AATCGAGTTCTTCGAGT
1 AATCGAGTTATTCGAGT
46758822 CAACTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:46758899 original size:9 final size:9
Alignment explanation
Indices: 46758872--46758908 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
46758862 TGAGTTTTCG
46758872 AATTCGAAT
1 AATTCGAAT
* *
46758881 AACTCAAAT
1 AATTCGAAT
46758890 AATTCGAAT
1 AATTCGAAT
46758899 AATTCGAAT
1 AATTCGAAT
46758908 A
1 A
46758909 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:46759525 original size:15 final size:17
Alignment explanation
Indices: 46759492--46759535 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
46759482 GGTATCAATT
*
46759492 TCACATTTTATCTTTAAAA
1 TCACATTTTA--TTAAAAA
46759511 TCAC-TTTTATTAAAAA
1 TCACATTTTATTAAAAA
46759527 TCACATTTT
1 TCACATTTT
46759536 TTACATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 10 0.43
17 4 0.17
18 5 0.22
19 4 0.17
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (17 bp):
TCACATTTTATTAAAAA
Found at i:46760561 original size:15 final size:18
Alignment explanation
Indices: 46760526--46760566 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
46760516 AATGTGTTAT
46760526 AAATTACATCATATATAA
1 AAATTACATCATATATAA
46760544 AAATTACAT-A-ATATAA
1 AAATTACATCATATATAA
46760560 AATATTA
1 AA-ATTA
46760567 TAAACTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTACATCATATATAA
Found at i:46760955 original size:15 final size:17
Alignment explanation
Indices: 46760934--46760974 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
46760924 AGACCTTTTA
46760934 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
46760950 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
46760966 AAAATTATA
1 AAAATTATA
46760975 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:46767374 original size:16 final size:16
Alignment explanation
Indices: 46767353--46767385 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46767343 TATCAACTGA
46767353 ACAATTGGGTATAGTT
1 ACAATTGGGTATAGTT
46767369 ACAATTGGGTATAGTT
1 ACAATTGGGTATAGTT
46767385 A
1 A
46767386 GTCTCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (16 bp):
ACAATTGGGTATAGTT
Found at i:46771027 original size:93 final size:93
Alignment explanation
Indices: 46770868--46771038 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
46770858 GGATGGTTGA
* * * * * * ***
46770868 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTACGGATGCGAATGTTTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGCTCACTTACAGATGCGAACGCCCGAACTCGTTGAGT
46770933 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* *
46770961 GCATCCGAACTCATTGAGTTGAGTCCAAGCTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGCTCACTTACAGATGCGAACGCCCGAACTCGTTGAGT
46771026 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46771039 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCAAGCTCACTTACAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:46779051 original size:34 final size:34
Alignment explanation
Indices: 46779013--46779119 Score: 87
Period size: 34 Copynumber: 3.1 Consensus size: 34
46779003 AATGGCACTA
46779013 AATCATATCATAATTGAACATCTCTTTTAGCCAT
1 AATCATATCATAATTGAACATCTCTTTTAGCCAT
* * * *** *
46779047 AATCA-AGGC-TAATTCAAACCATTTCCAATA--CTT
1 AATCATA-TCATAATT-GAA-CATCTCTTTTAGCCAT
46779080 AAATCATATCATAATTGAACATCTCTTTTAGCCAT
1 -AATCATATCATAATTGAACATCTCTTTTAGCCAT
46779115 AATCA
1 AATCA
46779120 AGGCTAATTC
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
33 15 0.29
34 21 0.41
35 15 0.29
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (34 bp):
AATCATATCATAATTGAACATCTCTTTTAGCCAT
Found at i:46779060 original size:33 final size:33
Alignment explanation
Indices: 46779023--46779128 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 33
46779013 AATCATATCA
46779023 TAATTGAACATCTCTTTTAGCCATAATCAAGGC
1 TAATTGAACATCTCTTTTAGCCATAATCAAGGC
* * *** * *
46779056 TAATTCAAACCATTTCCAATA--CTTAAATCATA-TC
1 TAATT-GAA-CATCTCTTTTAGCCAT-AATCA-AGGC
46779090 ATAATTGAACATCTCTTTTAGCCATAATCAAGGC
1 -TAATTGAACATCTCTTTTAGCCATAATCAAGGC
46779124 TAATT
1 TAATT
46779129 CAAACCATTT
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
33 20 0.39
34 16 0.31
35 15 0.29
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (33 bp):
TAATTGAACATCTCTTTTAGCCATAATCAAGGC
Found at i:46779120 original size:68 final size:68
Alignment explanation
Indices: 46779011--46779146 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
46779001 AAAATGGCAC
46779011 TAAATCATATCATAATTGAACATCTCTTTTAGCCATAATCAAGGCTAATTCAAACCATTTCCAAT
1 TAAATCATATCATAATTGAACATCTCTTTTAGCCATAATCAAGGCTAATTCAAACCATTTCCAAT
46779076 ACT
66 ACT
46779079 TAAATCATATCATAATTGAACATCTCTTTTAGCCATAATCAAGGCTAATTCAAACCATTTCCAAT
1 TAAATCATATCATAATTGAACATCTCTTTTAGCCATAATCAAGGCTAATTCAAACCATTTCCAAT
46779144 ACT
66 ACT
46779147 AACATACCAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (68 bp):
TAAATCATATCATAATTGAACATCTCTTTTAGCCATAATCAAGGCTAATTCAAACCATTTCCAAT
ACT
Found at i:46780687 original size:21 final size:20
Alignment explanation
Indices: 46780662--46780700 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
46780652 ACTTGTTAAC
46780662 TATCAACAAGCATTCAAAATA
1 TATCAACAAGCA-TCAAAATA
* *
46780683 TATCATCAATCATCAAAA
1 TATCAACAAGCATCAAAA
46780701 CTCATACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (20 bp):
TATCAACAAGCATCAAAATA
Found at i:46783847 original size:48 final size:48
Alignment explanation
Indices: 46783700--46783927 Score: 207
Period size: 48 Copynumber: 4.9 Consensus size: 48
46783690 GGTTATGTGT
* * * **
46783700 GATCCCATGTAAGACTATGTATGGGACATGGCTTTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAC
* ** * * * **
46783748 AATTTCGTGTAAGACCATAG-CTGGG-C-T---ATCGACATCGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATAC
*
46783791 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAC
* * * **
46783839 GATCCCATGTGAGACCATGTCTAGGACATGGCATTGGCATTGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAC
* * *
46783887 GATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
46783928 CTACCATGTG
Statistics
Matches: 143, Mismatches: 30, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 105 0.73
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATAC
Found at i:46783854 original size:91 final size:94
Alignment explanation
Indices: 46783697--46783927 Score: 245
Period size: 91 Copynumber: 2.5 Consensus size: 94
46783687 TAGGGTTATG
* * * ** ** *
46783697 TGTGATCCCATGTAAGACTATGTATGGGACATGGCTTTGGCATCGATATGTAATTTCGTGTAAGA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATACAATCCCATGTAAGA
*
46783762 CCATAG-CT-GGGC-T-ATCGACATCGATA
66 CCAT-GTCTAGGACATGATCGACATCGATA
* * *
46783788 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATCTACGATCCCATGTGAGA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATACAATCCCATGTAAGA
* * *
46783853 CCATGTCTAGGACATGGCATTGGCATTGATA
66 CCATGTCTAGGACAT-G-ATCGACATCGATA
* * *
46783884 TGTGATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
46783928 CTACCATGTG
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
90 1 0.01
91 60 0.52
92 3 0.03
93 1 0.01
96 51 0.44
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (94 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATACAATCCCATGTAAGA
CCATGTCTAGGACATGATCGACATCGATA
Found at i:46797476 original size:43 final size:43
Alignment explanation
Indices: 46797425--46797531 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
46797415 ATTGATGCAC
* *
46797425 TGTCCCAGACAGGGTCTTACACGA-AA-T-CATATAACAATGCTAA
1 TGTCCCAGACATGGTCTTACAC-ATAATTACA-AT-ACAATACTAA
46797468 TGTCCCAGACATGGTCTTACACATAATTACAATACAATACTAA
1 TGTCCCAGACATGGTCTTACACATAATTACAATACAATACTAA
*
46797511 TGTCCTAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
46797532 TGTAATCACA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
42 1 0.02
43 52 0.90
44 3 0.05
45 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACATAATTACAATACAATACTAA
Found at i:46801596 original size:29 final size:29
Alignment explanation
Indices: 46801511--46801599 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
46801501 CACGTACCAG
*
46801511 TATATGGCCCA-CTTGG-CCAAATCACATT
1 TATATGGCCCATC-AGGCCCAAATCACATT
* * * *
46801539 TGTATAGCCCAT-AAGCCCAAATCATATT
1 TATATGGCCCATCAGGCCCAAATCACATT
*
46801567 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATCAGGCCCAAATCACATT
46801596 TATA
1 TATA
46801600 GTCATGCTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.02
28 30 0.62
29 17 0.35
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATCAGGCCCAAATCACATT
Found at i:46804008 original size:29 final size:29
Alignment explanation
Indices: 46803946--46804035 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
46803936 CAAATACCTG
*
46803946 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
46803974 TGTATGGCCCATTAGGCCCAAATCATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
46804003 TATATGGCCCGTCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
46804032 TATA
1 TATA
46804036 GTCATGCTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 17 0.32
29 36 0.68
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:46812796 original size:32 final size:32
Alignment explanation
Indices: 46812755--46812818 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
46812745 TTATCAAAAC
46812755 TATGTTGGCACTTCTCAGACCAGACAAATCTA
1 TATGTTGGCACTTCTCAGACCAGACAAATCTA
*
46812787 TATGTTGGCACTTCTCAGACTAGACAAATCTA
1 TATGTTGGCACTTCTCAGACCAGACAAATCTA
46812819 ACATCTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (32 bp):
TATGTTGGCACTTCTCAGACCAGACAAATCTA
Found at i:46815498 original size:26 final size:26
Alignment explanation
Indices: 46815448--46815498 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
46815438 CCCACAACTC
*
46815448 GTGTGAGCAAGCCCATTTCACAGCTT
1 GTGTGAGCAAGCCCATTTAACAGCTT
*
46815474 GTGTGAGCAAGCCCATTTAATAGCT
1 GTGTGAGCAAGCCCATTTAACAGCT
46815499 CATGTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
GTGTGAGCAAGCCCATTTAACAGCTT
Found at i:46815504 original size:26 final size:26
Alignment explanation
Indices: 46815449--46815506 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
46815439 CCACAACTCG
* **
46815449 TGTGAGCAAGCCCATTTCACAGCTTG
1 TGTGAGCAAGCCCATTTAACAGCTCA
*
46815475 TGTGAGCAAGCCCATTTAATAGCTCA
1 TGTGAGCAAGCCCATTTAACAGCTCA
46815501 TGTGAG
1 TGTGAG
46815507 AAATGATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
TGTGAGCAAGCCCATTTAACAGCTCA
Found at i:46817061 original size:66 final size:66
Alignment explanation
Indices: 46816943--46817071 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
46816933 TTATTGCATT
* * *
46816943 AATGTCGCTGCATGAGTTAATTCCAGATTGCATCCAGAATTATTGCTGCACCTGACAAATGTCCG
1 AATGTCACTGCATGAGTTAATTCCAGATTGCATCAAGAATTATTGCTACACCTGACAAATGTCCG
46817008 C
66 C
* ** * *
46817009 AATGTCACTGCATGGGTTAATTTTAGATTGCGTCAAGAATT-TT-CGTCACACCTGACAACTGTC
1 AATGTCACTGCATGAGTTAATTCCAGATTGCATCAAGAATTATTGC-T-ACACCTGACAAATGTC
46817072 TGGATAAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 1 0.02
65 3 0.06
66 49 0.92
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (66 bp):
AATGTCACTGCATGAGTTAATTCCAGATTGCATCAAGAATTATTGCTACACCTGACAAATGTCCG
C
Found at i:46830121 original size:68 final size:65
Alignment explanation
Indices: 46830007--46830256 Score: 222
Period size: 68 Copynumber: 3.8 Consensus size: 65
46829997 TAGATGATAT
* * * *
46830007 GTAGCTAGGTCACATGTGTAATACGA-GATGTATACCATGTGTACAAGAGAGCTACGAGACATTA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAG--A-TA
*
46830071 TGAG
63 -GAA
* * *
46830075 GTAGCTAGGTCGCATGGGTGATACTATG-TGTATACCATGTAG-ACAAGAGAACTACGAGATAGA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGT-GTACAAGAGAGCTACGAGATAGA
*
46830138 T
65 A
** * * * * * * **
46830139 GTAGCTAGGTTGCATGTGTGGTTCCACGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATA-
1 GTAGCTAGGTCACATGGGTGATACTA--TGATGTACACCATGTGTACAAGAGAGCTACGAGATAG
46830203 AA
64 AA
*
46830205 GTGGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTGTACAAGAGAGC
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGC
46830257 GAAAATTATG
Statistics
Matches: 148, Mismatches: 28, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
63 20 0.14
64 25 0.17
65 2 0.01
66 23 0.16
67 27 0.18
68 49 0.33
69 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (65 bp):
GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAGATAGAA
Found at i:46834695 original size:64 final size:63
Alignment explanation
Indices: 46834616--46834796 Score: 195
Period size: 67 Copynumber: 2.8 Consensus size: 63
46834606 ACATTATGAG
* *
46834616 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATAAGATAGAT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATA-AA
* * * * * * * *
46834680 GTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTACAAGATAA
1 GTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACAAGATAA
46834745 A
63 A
* *
46834746 GTGGCTAGGTCACATGGGTGATA-TATGTGTACACCATGT-GTACAAGAGAGC
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
46834797 CAAAATTATG
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
62 20 0.22
63 2 0.02
64 18 0.19
65 6 0.06
66 18 0.19
67 29 0.31
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (63 bp):
GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAAA
Found at i:46840392 original size:25 final size:25
Alignment explanation
Indices: 46840364--46840414 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
46840354 CAAGCCCAAG
46840364 TATCAAATCGAAAAATTAAAAACAT
1 TATCAAATCGAAAAATTAAAAACAT
46840389 TATCAAATCGAAAAATTAAAAACAT
1 TATCAAATCGAAAAATTAAAAACAT
46840414 T
1 T
46840415 CTCGAGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.04, T:0.25
Consensus pattern (25 bp):
TATCAAATCGAAAAATTAAAAACAT
Found at i:46843422 original size:42 final size:42
Alignment explanation
Indices: 46843315--46843422 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
46843305 GACTTATGAT
* ** * *
46843315 TTACTTGTAAGACAATGTCTTGGACATTGGCATCATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCATATTTGA
* * *
46843357 TTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCAATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATC-ATATTTGA
46843400 TTACATGT-AGACCAC-GTCTGGGA
1 TTACATGTAAGACC-CTGTCTGGGA
46843423 TGTCAGCATT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 39 0.72
43 15 0.28
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
TTACATGTAAGACCCTGTCTGGGACAGTGGCATCATATTTGA
Found at i:46850775 original size:36 final size:36
Alignment explanation
Indices: 46850715--46850784 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
46850705 GAGGTTTAAG
* * *
46850715 GAAGCTATTTCGGGTCTCATTGATCAAGTTTGGGGA
1 GAAGCTATTTCGGGACTCAATGATCAAGCTTGGGGA
*
46850751 GAAGCTATTGT-GGGACTCAATGATCGAGCTTGGG
1 GAAGCTATT-TCGGGACTCAATGATCAAGCTTGGG
46850785 CATGCACTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (36 bp):
GAAGCTATTTCGGGACTCAATGATCAAGCTTGGGGA
Found at i:46858444 original size:57 final size:57
Alignment explanation
Indices: 46858351--46858461 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
46858341 TTGGAAGCCT
*
46858351 TGATAATCGAAGCATCAGTTCTGGTTCAGTTTGAATCGAGTAAGGAATTTATTACCC
1 TGATAATCGAAGCATCAGTTCTGGTTCAGTCTGAATCGAGTAAGGAATTTATTACCC
* *
46858408 TGATGATCGAAGCATCAGTTCTGGTTCAGTCTGAATCGGGTAAGGAATTTATTA
1 TGATAATCGAAGCATCAGTTCTGGTTCAGTCTGAATCGAGTAAGGAATTTATTA
46858462 TCACAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (57 bp):
TGATAATCGAAGCATCAGTTCTGGTTCAGTCTGAATCGAGTAAGGAATTTATTACCC
Found at i:46866785 original size:17 final size:18
Alignment explanation
Indices: 46866763--46866802 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
46866753 ATACTATTAC
*
46866763 ATTTTA-TTAATATCATT
1 ATTTTATTTAATATCAAT
*
46866780 ATTTTATTTATTATCAAT
1 ATTTTATTTAATATCAAT
46866798 ATTTT
1 ATTTT
46866803 GTTATTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATTTAATATCAAT
Found at i:46867099 original size:47 final size:45
Alignment explanation
Indices: 46866960--46867108 Score: 145
Period size: 47 Copynumber: 3.1 Consensus size: 45
46866950 TATGTAAGTA
* * *
46866960 TTTTAAGTACCATTAATTATATATATTTATGTATTTTATGTATATAT
1 TTTTAA-TACCATT-ATTATATATTTTTATCTATTTCATGTATATAT
* * * *
46867007 TTTTAAATATCCTACTATTCATATATTTTTATGTTATCTCATGTATGTAT
1 TTTT-AATA-CC-ATTATT-ATATATTTTTAT-CTATTTCATGTATATAT
*
46867057 TTTTAATACCATTAGTTATATGTTTTTATACTATTTCATGTATATAT
1 TTTTAATACCATTA-TTATATATTTTTAT-CTATTTCATGTATATAT
46867104 TTTTA
1 TTTTA
46867109 TATTATCCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
47 39 0.46
48 11 0.13
49 17 0.20
50 17 0.20
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (45 bp):
TTTTAATACCATTATTATATATTTTTATCTATTTCATGTATATAT
Found at i:46867389 original size:14 final size:14
Alignment explanation
Indices: 46867345--46867393 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
46867335 TTCTGAATAC
46867345 TATAT-TATATTTT
1 TATATATATATTTT
*
46867358 T-TATAAATATTATCT
1 TATATATATATT-T-T
46867373 TATATATATATTTT
1 TATATATATATTTT
46867387 TATATAT
1 TATATAT
46867394 GTTATGTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 3 0.10
13 6 0.20
14 9 0.30
15 3 0.10
16 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATATATATTTT
Found at i:46867583 original size:26 final size:24
Alignment explanation
Indices: 46867541--46867604 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
46867531 CTATTTATAT
* *
46867541 ATATATTATGTACATATTTTTAAC
1 ATATATTATGTATATATCTTTAAC
*
46867565 ATCATTATTATGTATATATCTTTAAT
1 AT-A-TATTATGTATATATCTTTAAC
46867591 ATATA-TATGTATAT
1 ATATATTATGTATAT
46867605 TTATGTAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 9 0.26
24 4 0.11
25 2 0.06
26 20 0.57
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (24 bp):
ATATATTATGTATATATCTTTAAC
Found at i:46869820 original size:49 final size:49
Alignment explanation
Indices: 46869766--46869943 Score: 216
Period size: 49 Copynumber: 3.6 Consensus size: 49
46869756 CTAGTACGCA
*
46869766 TAGTAGCCTGCACATAGTACTACACATGCAACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
* *
46869815 TAGTAGCCTGCACTTAGTACTACACATGTAACCAATTAT-TCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCT-GGTACACG
* * * * * *
46869864 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAAC-CAATTATCTGGTACACG
*
46869915 TAGTAGTCTGCACTTAGTACTACACATGC
1 TAGTAGCCTGCACTTAGTACTACACATGC
46869944 GACCTCACAA
Statistics
Matches: 112, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
48 1 0.01
49 72 0.64
50 2 0.02
51 37 0.33
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
Found at i:46876797 original size:29 final size:29
Alignment explanation
Indices: 46876758--46876836 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
46876748 CTTAATAATC
*
46876758 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46876788 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46876817 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46876837 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46885176 original size:29 final size:29
Alignment explanation
Indices: 46885137--46885215 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
46885127 CTTAATAATC
*
46885137 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46885167 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46885196 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46885216 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46891579 original size:79 final size:82
Alignment explanation
Indices: 46891468--46891652 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
46891458 GCTACTCGTT
* *
46891468 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46891531 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
46891548 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46891611 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46891628 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46891653 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46891652 original size:40 final size:40
Alignment explanation
Indices: 46891449--46891652 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
46891439 CGGAATTTAA
** *
46891449 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46891489 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46891529 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46891568 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46891608 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46891648 CCGGA
1 CCGGA
46891653 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46897535 original size:15 final size:15
Alignment explanation
Indices: 46897515--46897544 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46897505 CGCTGAGGTA
*
46897515 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
46897530 TTTTCAATTTATATT
1 TTTTCAATTTATATT
46897545 CTTCAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:46897588 original size:88 final size:86
Alignment explanation
Indices: 46897461--46897944 Score: 460
Period size: 88 Copynumber: 5.5 Consensus size: 86
46897451 CTTTCAAAAA
*
46897461 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
46897526 TATTTTTTCAATTTATATTCTTC
66 T-TTTTTTCAATTTATATT-TTC
* * * *
46897549 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGGCACGCTGAAGTATTTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
46897613 TTGCTTTTCAATTTCTGCTTTTC
66 TT-TTTTTCAATTTAT-ATTTTC
* *
46897636 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGTTGAGGTATTTTCA
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
*
46897701 A-TTCTGTTTTTTCAATTTATATTTTTAA
61 ATTTCT-TTTTTTCAATTTATA-TTTT-C
* * * *
46897729 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGGC-GCGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA-CGCTGAGGTATTTTCAAT
* * * *
46897793 ATCTTCTTTTCAAATTA-AGTTTC
63 TTCTTTTTTTCAATTTATATTTTC
* * * *
46897816 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAAT
* * * * *
46897880 TTCTATTTTT-AATGTCTGTTTTT
63 TTCTTTTTTTCAATTTATATTTTC
* * **
46897903 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGA
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
46897945 TCACATGCCG
Statistics
Matches: 323, Mismatches: 52, Indels: 43
0.77 0.12 0.10
Matches are distributed among these distances:
85 2 0.01
86 8 0.02
87 77 0.24
88 131 0.41
89 1 0.00
90 26 0.08
91 6 0.02
92 71 0.22
93 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TTTTTTTCAATTTATATTTTC
Found at i:46897622 original size:14 final size:14
Alignment explanation
Indices: 46897603--46897637 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
46897593 CGCTGAAGTA
*
46897603 TTTTCAATTTTTGC
1 TTTTCAATTTCTGC
46897617 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
46897631 TTTTCAA
1 TTTTCAA
46897638 AAAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:46897739 original size:180 final size:180
Alignment explanation
Indices: 46897437--46897762 Score: 557
Period size: 180 Copynumber: 1.8 Consensus size: 180
46897427 CGTTGAGGTA
* *
46897437 TTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGC
*
46897502 ACACGCTGAGGTATTTTCAATTTCTATTTTTTCAATTTATATTCTTCAAAAATCAACTCATATTG
66 ACACGCTGAGGTATTTTCAATTTCTATTTTTTCAATTTATATTCTTAAAAAATCAACTCATATTG
46897567 CAAGAGGTGAGTTGAGTCTCAGGGCACGCTGAAGTATTTTCAATTTTTGC
131 CAAGAGGTGAGTTGAGTCTCAGGGCACGCTGAAGTATTTTCAATTTTTGC
46897617 TTTTCAATTTCTG-CTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTCAATTTCTGTC-TTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * *
46897681 CACACGTTGAGGTATTTTCAA-TTCTGTTTTTTCAATTTATATTTTTAAAAAAATCAACTCATAT
65 CACACGCTGAGGTATTTTCAATTTCTATTTTTTCAATTTATATTCTT-AAAAAATCAACTCATAT
*
46897745 TGCGAGAGGTGAGTTGAG
129 TGCAAGAGGTGAGTTGAG
46897763 CCTCGGGTCA
Statistics
Matches: 137, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
179 24 0.18
180 113 0.82
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (180 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGC
ACACGCTGAGGTATTTTCAATTTCTATTTTTTCAATTTATATTCTTAAAAAATCAACTCATATTG
CAAGAGGTGAGTTGAGTCTCAGGGCACGCTGAAGTATTTTCAATTTTTGC
Found at i:46897818 original size:180 final size:179
Alignment explanation
Indices: 46897451--46897889 Score: 538
Period size: 180 Copynumber: 2.5 Consensus size: 179
46897441 CAATTTCTGT
* *
46897451 CTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
1 CTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTAT
*
46897516 TTTCAATTTCTATTTTTTCAATTTATATTCTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTG
66 TTTCAATTTCTATTTTTTCAATTTATATTCTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTG
* * * * **
46897581 AGTCTCAGGGCACGCTGAAGTATTTTCAATTTTTGCTTTTCAATTTCTG
131 AGCCTCAGGGCACGCTGAAGTATTTTCAAATCTTGCTTTTCAAATTAAG
*
46897630 CTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGTTGAGGTA
1 C-TTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTA
* * *
46897695 TTTTCAA-TTCTGTTTTTTCAATTTATATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 TTTTCAATTTCTATTTTTTCAATTTATATTCTT-AAAAAATCAACTCATATTGCAAGAGGTGAGT
**
46897759 TGAGCCTC-GGGTCACATGGC-GCGGTATTTTCAAAATCTT-CTTTTCAAATTAAG
129 TGAGCCTCAGGG-CAC---GCTGAAGTATTTTC-AAATCTTGCTTTTCAAATTAAG
* ** ** *
46897812 -TTTC-----AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCACGTGCTGAGCT
1 CTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACGCTGAGGT
46897871 ATTTTCAATTTCTATTTTT
64 ATTTTCAATTTCTATTTTT
46897890 AATGTCTGTT
Statistics
Matches: 227, Mismatches: 23, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
175 37 0.16
177 17 0.07
178 9 0.04
179 27 0.12
180 110 0.48
182 20 0.09
183 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (179 bp):
CTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTAT
TTTCAATTTCTATTTTTTCAATTTATATTCTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTG
AGCCTCAGGGCACGCTGAAGTATTTTCAAATCTTGCTTTTCAAATTAAG
Found at i:46899587 original size:17 final size:18
Alignment explanation
Indices: 46899565--46899604 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
46899555 ATACTATTAC
*
46899565 ATTTTA-TTAATATCATT
1 ATTTTATTTAATATCAAT
*
46899582 ATTTTATTTATTATCAAT
1 ATTTTATTTAATATCAAT
46899600 ATTTT
1 ATTTT
46899605 GTTATTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATTTAATATCAAT
Found at i:46899893 original size:47 final size:45
Alignment explanation
Indices: 46899752--46899902 Score: 149
Period size: 47 Copynumber: 3.2 Consensus size: 45
46899742 ATTATGTAAG
* * * *
46899752 TATTTTTAGTACCATTAATTATATATATTTATGTATTTTATGTATA
1 TATTTTTAATACCATT-ATTATATATTTTTATCTATTTCATGTATA
* * * *
46899798 TATTTTTAAATATCCTACTATTCATATATTTTTATGTTATCTCATGTATG
1 TATTTTT-AATA-CC-ATTATT-ATATATTTTTAT-CTATTTCATGTATA
*
46899848 TATTTTTAATACCATTAGTTATATGTTTTTATACTATTTCATGTATA
1 TATTTTTAATACCATTA-TTATATATTTTTAT-CTATTTCATGTATA
46899895 TATTTTTA
1 TATTTTTA
46899903 TATTATCCTT
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
46 7 0.08
47 36 0.42
48 9 0.10
49 17 0.20
50 17 0.20
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (45 bp):
TATTTTTAATACCATTATTATATATTTTTATCTATTTCATGTATA
Found at i:46900170 original size:14 final size:12
Alignment explanation
Indices: 46900145--46900293 Score: 72
Period size: 14 Copynumber: 11.8 Consensus size: 12
46900135 AATACTATAT
46900145 TATAT-TTTTTA
1 TATATATTTTTA
46900156 TATATATTATCTTA
1 TATATATT-T-TTA
46900170 TATATATTTTTA
1 TATATATTTTTA
* *
46900182 TATATGTTATGTA
1 TATATATT-TTTA
* *
46900195 CATAAATTTTTTAA
1 TATATA-TTTTT-A
46900209 TATTATATTTTT-
1 TA-TATATTTTTA
*
46900221 TA-ATATTATTATG
1 TATATATT-TT-TA
* *
46900234 TACATATTTTAA
1 TATATATTTTTA
* *
46900246 TGATACTAGTTATA
1 T-ATA-TATTTTTA
46900260 TATATATTTTT-
1 TATATATTTTTA
*
46900271 TATACTATTTTATG
1 TATA-TATTTT-TA
46900285 TATATATTT
1 TATATATTT
46900294 CAAACACTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 30
0.70 0.11 0.20
Matches are distributed among these distances:
10 5 0.05
11 11 0.10
12 27 0.25
13 25 0.24
14 35 0.33
15 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (12 bp):
TATATATTTTTA
Found at i:46900205 original size:26 final size:25
Alignment explanation
Indices: 46900148--46900217 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
46900138 ACTATATTAT
* *
46900148 ATTTTTTATATATATTATCTTATAT
1 ATTTTTTATATATATTATCTCATAA
* *
46900173 ATATTTTTATATATGTTATGTACATAA
1 AT-TTTTTATATATATTATCT-CATAA
46900200 ATTTTTTAATATTATATT
1 ATTTTTT-ATA-TATATT
46900218 TTTTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.06
26 21 0.58
27 8 0.22
28 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (25 bp):
ATTTTTTATATATATTATCTCATAA
Found at i:46900230 original size:13 final size:15
Alignment explanation
Indices: 46900200--46900229 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46900190 ATGTACATAA
46900200 ATTTTTTAATATTAT
1 ATTTTTTAATATTAT
46900215 ATTTTTTAATATTAT
1 ATTTTTTAATATTAT
46900230 TATGTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTAATATTAT
Found at i:46905146 original size:26 final size:27
Alignment explanation
Indices: 46905100--46905151 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
46905090 GGACTACCGA
*
46905100 TTTGCCCCTAGATGGTAAAATGACTAT
1 TTTGCCCCTACATGGTAAAATGACTAT
46905127 TTTGCCCCT-CATGCGT-AAATGACTA
1 TTTGCCCCTACATG-GTAAAATGACTA
46905152 ACTTGTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
TTTGCCCCTACATGGTAAAATGACTAT
Found at i:46905797 original size:26 final size:27
Alignment explanation
Indices: 46905768--46905827 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
46905758 CCACATATAT
* *
46905768 ATATCTG-TTCTGGTGGCCTAGCCACA
1 ATATCTGCATCTGGTGACCTAGCCACA
* * *
46905794 ATATCTGCATCTGGTGACTTCGTCACA
1 ATATCTGCATCTGGTGACCTAGCCACA
46905821 ATATCTG
1 ATATCTG
46905828 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
ATATCTGCATCTGGTGACCTAGCCACA
Found at i:46909399 original size:16 final size:16
Alignment explanation
Indices: 46909378--46909409 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46909368 ATCTATAAGT
46909378 AATCAAAATTAACTTA
1 AATCAAAATTAACTTA
46909394 AATCAAAATTAACTTA
1 AATCAAAATTAACTTA
46909410 TCTAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
AATCAAAATTAACTTA
Found at i:46919247 original size:16 final size:17
Alignment explanation
Indices: 46919215--46919247 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46919205 GTTATACGAA
46919215 CTTACTAAGCATTTTATG
1 CTTACTAAG-ATTTTATG
46919233 CTTACTAAG-TTTTAT
1 CTTACTAAGATTTTAT
46919248 TTCCCTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.48
Consensus pattern (17 bp):
CTTACTAAGATTTTATG
Found at i:46921103 original size:28 final size:28
Alignment explanation
Indices: 46921063--46921170 Score: 139
Period size: 28 Copynumber: 3.9 Consensus size: 28
46921053 ATATACCTGT
* *
46921063 ATATAGCCCATTAGGCCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCACTTTC
46921091 ATATGGCCCATTAGGCCCAATCACATTT-
1 ATATGGCCCATTAGGCCCAATCAC-TTTC
* *
46921119 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACTTTC
*
46921148 ATATGG-CCATTAGGTCCAATCAC
1 ATATGGCCCATTAGGCCCAATCAC
46921171 ATCTACAGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
27 6 0.08
28 51 0.72
29 14 0.20
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACTTTC
Found at i:46925283 original size:27 final size:27
Alignment explanation
Indices: 46925253--46925384 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
46925243 AGAATTACTA
*
46925253 AAATACCCCTGTAGGGTAGAATTAACG
1 AAATACCCCTGTAGGGTAGAATTATCG
* * *
46925280 AAATACCCCTGTAGGATAGAATTTTTG
1 AAATACCCCTGTAGGGTAGAATTATCG
* *
46925307 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTATCG
*
46925334 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTATCG
* *
46925361 AGATA-CCCTCGTAGGGTAAAATTA
1 AAATACCCCT-GTAGGGTAGAATTA
46925385 CCATTTTTCC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.04
27 85 0.96
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTATCG
Found at i:46929535 original size:53 final size:53
Alignment explanation
Indices: 46929472--46929577 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
46929462 ATATTTGAGT
46929472 TGTGTCTTATTATACTATGAATGGACAATTGGTACTATGGATAGTGAGATCTA
1 TGTGTCTTATTATACTATGAATGGACAATTGGTACTATGGATAGTGAGATCTA
46929525 TGTGTCTTATTATACTATGAATGGACAATTGGTACTATGGATAGTGAGATCTA
1 TGTGTCTTATTATACTATGAATGGACAATTGGTACTATGGATAGTGAGATCTA
46929578 CACTTCGAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (53 bp):
TGTGTCTTATTATACTATGAATGGACAATTGGTACTATGGATAGTGAGATCTA
Found at i:46929962 original size:49 final size:48
Alignment explanation
Indices: 46929796--46930020 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 48
46929786 TGAGGTCGCA
* * * * *
46929796 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACTCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGATAA-T-TGGTCACG
* * **
46929847 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAATT-GGTCACG
46929897 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GATAATTGGTCACG
* * *
46929946 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCG-ATAATTGGTCACG
*
46929995 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
46930021 TGCATACTAG
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 77 0.51
50 43 0.28
51 30 0.20
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCACG
Found at i:46929972 original size:99 final size:100
Alignment explanation
Indices: 46929789--46930020 Score: 283
Period size: 99 Copynumber: 2.3 Consensus size: 100
46929779 TCTATTGTGA
* * *
46929789 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACTCGAAAACTATGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTATGATCACGTGTGTAG
* * **
46929854 TACTAAGTGTAGGCTACTACGTGTATCAG-ATGGTT
66 TACAAAGTGCAGGCTACTACGTGTA-CAGAATAATT
* * * *
46929889 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-T-TGGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTC-GAAAACTATGATCACGTGTGT
*
46929951 AGTACAAAGTGCAGGCTACTACGTGTACCGAATAATT
64 AGTACAAAGTGCAGGCTACTACGTGTACAGAATAATT
* *
46929988 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
46930021 TGCATACTAG
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 32 0.28
99 41 0.36
100 2 0.02
101 39 0.34
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTATGATCACGTGTGTAG
TACAAAGTGCAGGCTACTACGTGTACAGAATAATT
Found at i:46932781 original size:39 final size:39
Alignment explanation
Indices: 46932727--46932804 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46932717 TGTTAAATGA
46932727 AAGCATTGGTAGCCTGACTGGTTTATAATTTATATTGCT
1 AAGCATTGGTAGCCTGACTGGTTTATAATTTATATTGCT
46932766 AAGCATTGGTAGCCTGACTGGTTTATAATTTATATTGCT
1 AAGCATTGGTAGCCTGACTGGTTTATAATTTATATTGCT
46932805 CTATTCCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (39 bp):
AAGCATTGGTAGCCTGACTGGTTTATAATTTATATTGCT
Found at i:46933092 original size:15 final size:15
Alignment explanation
Indices: 46933072--46933128 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
46933062 GTATCTTAGG
46933072 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
46933087 TTTCTTT-TTCTGGG
1 TTTCTTTATTCTGGA
46933101 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
46933116 TTTCTTTATTCTG
1 TTTCTTTATTCTG
46933129 TAATTTGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 2 0.06
14 12 0.34
15 17 0.49
16 4 0.11
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46934680 original size:22 final size:22
Alignment explanation
Indices: 46934652--46934699 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
46934642 CTACTATGTG
46934652 TAACTTGAGATATGATTTTTTT
1 TAACTTGAGATATGATTTTTTT
46934674 TAACTTGAGATATGATTTTTTT
1 TAACTTGAGATATGATTTTTTT
46934696 TAAC
1 TAAC
46934700 ACCGGGACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (22 bp):
TAACTTGAGATATGATTTTTTT
Found at i:46935991 original size:21 final size:22
Alignment explanation
Indices: 46935965--46936007 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46935955 AAATTCCAAT
46935965 TTAAGTTTTATTC-ACTC-TATA
1 TTAAG-TTTATTCAACTCATATA
46935986 TTAAGTTTATTCAACTCATATA
1 TTAAGTTTATTCAACTCATATA
46936008 AATACGACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (22 bp):
TTAAGTTTATTCAACTCATATA
Found at i:46952336 original size:21 final size:21
Alignment explanation
Indices: 46952308--46952350 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
46952298 CATTAAGTTG
46952308 AAAATAAAACTAA-TTAAACT
1 AAAATAAAACTAATTTAAACT
*
46952328 AAAATTAAACCTAATTTAAACT
1 AAAA-TAAAACTAATTTAAACT
46952350 A
1 A
46952351 TCGAAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAAAACTAATTTAAACT
Found at i:46954388 original size:33 final size:32
Alignment explanation
Indices: 46954341--46954500 Score: 140
Period size: 33 Copynumber: 4.9 Consensus size: 32
46954331 ATGGACTCTC
* *
46954341 CTGTGTTTAGTGTCCCAGCAGACTTACCATGTT
1 CTGTGTTTACTGTCCTAGCAGACTTACC-TGTT
* *
46954374 CTGTGTTTACTGTCCTGGCAGACTTACCCTATT
1 CTGTGTTTACTGTCCTAGCAGACTTA-CCTGTT
* * *
46954407 TTGTGTTTATTATCCTAGCAGACTTACTCTGTT
1 CTGTGTTTACTGTCCTAGCAGACTTAC-CTGTT
* * * *
46954440 TTGTGTTTACTGTCTTAGCGGACTTACTTTGTT
1 CTGTGTTTACTGTCCTAGCAGACTTAC-CTGTT
* * * * *
46954473 CTTTGTTTGCTATCCCAGAAGACTTACC
1 CTGTGTTTACTGTCCTAGCAGACTTACC
46954501 CTATTATATG
Statistics
Matches: 102, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
32 1 0.01
33 99 0.97
34 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (32 bp):
CTGTGTTTACTGTCCTAGCAGACTTACCTGTT
Found at i:46954464 original size:66 final size:66
Alignment explanation
Indices: 46954342--46954500 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 66
46954332 TGGACTCTCC
* *
46954342 TGTGTTTAGTGTCCCAGCAGACTTACCATGTTCTGTGTTTACTGTCCTGGCAGACTTACCCTATT
1 TGTGTTTAGTATCCCAGCAGACTTACCATGTTCTGTGTTTACTGTCCTAGCAGACTTACCCTATT
46954407 T
66 T
* * * * * ** *
46954408 TGTGTTTATTATCCTAGCAGACTTACTC-TGTTTTGTGTTTACTGTCTTAGCGGACTTACTTTGT
1 TGTGTTTAGTATCCCAGCAGACTTAC-CATGTTCTGTGTTTACTGTCCTAGCAGACTTACCCTAT
46954472 TCT
65 T-T
*
46954475 T-TGTTT-GCTATCCCAGAAGACTTACC
1 TGTGTTTAG-TATCCCAGCAGACTTACC
46954501 CTATTATATG
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
65 1 0.01
66 73 0.95
67 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (66 bp):
TGTGTTTAGTATCCCAGCAGACTTACCATGTTCTGTGTTTACTGTCCTAGCAGACTTACCCTATT
T
Found at i:46962270 original size:43 final size:43
Alignment explanation
Indices: 46962204--46962370 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
46962194 AGCTTGTACA
* * * *
46962204 ATGCC-ATGTCCTAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
46962246 ATGCCAATG-CTCCAGACAGGGTCTTAAACGAAATCGA-TTAACG
1 ATGCCAATGTC-CCAGACATGGTCTTACACGTAATC-ACATATCG
* *
46962289 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
46962332 ATGTCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
46962371 CTCTCGATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 8 0.08
43 89 0.90
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:46966412 original size:29 final size:31
Alignment explanation
Indices: 46966364--46966427 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
46966354 TTTATAATTA
*
46966364 TTTAATTAGATAATTATTATTTATTTAATAT
1 TTTAATAAGATAATTATTATTTATTTAATAT
* *
46966395 TTTAATAAGAT-ATT-TTATTTTTTTATTAT
1 TTTAATAAGATAATTATTATTTATTTAATAT
46966424 TTTA
1 TTTA
46966428 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 17 0.57
30 3 0.10
31 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTTATTTAATAT
Found at i:46967686 original size:27 final size:26
Alignment explanation
Indices: 46967646--46967723 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
46967636 CTTTATGGCT
* *
46967646 AATATTGTGACAGAGTCACCAGATACA
1 AATATTGTGGCAGAGCCACCAGA-ACA
46967673 AATATTGTGGCAGAGCCACCAGAACA
1 AATATTGTGGCAGAGCCACCAGAACA
* *
46967699 GATATTTGTGGCATAGCCACCAGAA
1 AATA-TTGTGGCAGAGCCACCAGAA
46967724 TGCTTCCTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
AATATTGTGGCAGAGCCACCAGAACA
Found at i:46967978 original size:27 final size:27
Alignment explanation
Indices: 46967923--46968110 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 27
46967913 GGGGCAAAAT
* * ** *
46967923 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46967950 GGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46967977 GGTATTTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46968004 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46968031 AGTAATTCTACCCT-CTAAGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* *
46968058 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46968085 GGTAATTCTACCGTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
46968111 TAGTAATTTC
Statistics
Matches: 137, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:46968157 original size:27 final size:27
Alignment explanation
Indices: 46968127--46968558 Score: 516
Period size: 27 Copynumber: 16.0 Consensus size: 27
46968117 TTTCACAATT
* *
46968127 GAGGGTAAAACAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
46968154 GAGGGTAAAACGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
46968181 GAGGGTAAACCAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* **
46968208 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
46968235 GAGGGTAAAACAGTAATTCTGTAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
46968262 GAGGGTAAAATGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
46968289 GAGGGT-AAATGGTAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
46968314 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
*** *
46968342 GAGGGTAAAATAATAATT-T-TACTAATT
1 GAGGGTAAAACGGTAATTCTGTA--AATC
46968369 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
**
46968396 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
46968422 TAAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * *
46968450 AAGGGTAAAATGGTAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
46968476 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
*
46968504 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
46968531 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
46968558 G
1 G
46968559 GGAGTACTTT
Statistics
Matches: 347, Mismatches: 47, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
25 3 0.01
26 25 0.07
27 313 0.90
28 4 0.01
29 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:46983131 original size:42 final size:39
Alignment explanation
Indices: 46983053--46983133 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 39
46983043 AAGATGTTTA
*
46983053 AAAACATTTATTTATTATTTTATGTTTTAAATTTTTATT
1 AAAACATTTATTTATTATTTTATGTTTTAAAATTTTATT
*
46983092 AAAACTATTTTTTTATT-TTTTATTAGATTTTAAAATTTTATT
1 AAAAC-ATTTATTTATTATTTTA-T-G-TTTTAAAATTTTATT
46983134 TTATAGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
39 10 0.28
40 11 0.31
41 1 0.03
42 14 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (39 bp):
AAAACATTTATTTATTATTTTATGTTTTAAAATTTTATT
Found at i:46995727 original size:27 final size:27
Alignment explanation
Indices: 46995696--46995979 Score: 226
Period size: 27 Copynumber: 10.5 Consensus size: 27
46995686 TAATAAAGAG
*
46995696 AAATTACCGAAATAACCCCAATTTGTA
1 AAATTACCGAAATAACCCCGATTTGTA
* *
46995723 AAATTACC-AAAGTACCCCCGAATTGTA
1 AAATTACCGAAA-TAACCCCGATTTGTA
* *
46995750 AAATTACTGAAATACCCCCGATTTGTA
1 AAATTACCGAAATAACCCCGATTTGTA
46995777 AAATTACC-AAA-ACACCCTCGATTTGTA
1 AAATTACCGAAATA-ACCC-CGATTTGTA
* ** *
46995804 AATTTACC-AAA-ACACCCTTTATTTGAA
1 AAATTACCGAAATA-ACCC-CGATTTGTA
* *
46995831 AAATTACCGAAA-CACCTTCGATTTGTA
1 AAATTACCGAAATAACC-CCGATTTGTA
*
46995858 AAATTACCGAAAT-ACTCTCGATTTGTA
1 AAATTACCGAAATAAC-CCCGATTTGTA
* *
46995885 AAATTATCGAAAT-ACCCTTGATTTGTA
1 AAATTACCGAAATAACCC-CGATTTGTA
* * *
46995912 AAATTATCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATAACCCCGATTTGTA
* * *
46995939 AAATTACTGAAA-CACCCCGGATTTATA
1 AAATTACCGAAATAACCCC-GATTTGTA
* *
46995966 ACATTATCGAAATA
1 AAATTACCGAAATA
46995980 CCCTTGTAGT
Statistics
Matches: 213, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.00
26 14 0.07
27 188 0.88
28 10 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATAACCCCGATTTGTA
Found at i:46995778 original size:54 final size:53
Alignment explanation
Indices: 46995696--46995982 Score: 288
Period size: 54 Copynumber: 5.3 Consensus size: 53
46995686 TAATAAAGAG
* * * * *
46995696 AAATTACCGAAATAACCCCAATTTGTAAAATTACCAAAGTACCCCCGAATTGTA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACCAAA-CACCCTCGATTTGTA
*
46995750 AAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACC-AAACACCCTCGATTTGTA
* * * *** * *
46995804 AATTTACCAAAACACCCTTTATTTGAAAAATTACCGAAACACCTTCGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACC-AAACACCCTCGATTTGTA
* * * * *
46995858 AAATTACCGAAATACTCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTA-CCAAACACCCTCGATTTGTA
* * * *
46995912 AAATTATCGAAACACCCCCGATTTGTAAAATTACTGAAACACCC-CGGATTTATA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTAC-CAAACACCCTC-GATTTGTA
* *
46995966 ACATTATCGAAATACCC
1 AAATTACCGAAATACCC
46995983 TTGTAGTATA
Statistics
Matches: 193, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 188 0.97
55 4 0.02
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCCCGATTTGTAAAATTACCAAACACCCTCGATTTGTA
Found at i:46995834 original size:81 final size:81
Alignment explanation
Indices: 46995696--46996037 Score: 291
Period size: 81 Copynumber: 4.2 Consensus size: 81
46995686 TAATAAAGAG
* * ** ** * *
46995696 AAATTACCGAAATAACCC-CAATTTGTAAAATTACCAAAGTACCCCCGAATTGTAAAATTACTGA
1 AAATTACCGAAA-CACCCTCGATTTGTAAAATTACCAAAACACCCTTGATTTGAAAAATTACTGA
*
46995760 AATACCCCCGATTTGTA
65 AACACCCCCGATTTGTA
* * * *
46995777 AAATTACCAAAACACCCTCGATTTGTAAATTTACCAAAACACCCTTTATTTGAAAAATTACCGAA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTACCAAAACACCCTTGATTTGAAAAATTACTGAA
**
46995842 ACACCTTCGATTTGTA
66 ACACCCCCGATTTGTA
* * * * * *
46995858 AAATTACCGAAATACTCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTAAAATTA-TCGA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTACCAAAACACCCTTGATTTGAAAAATTACT-GA
46995922 AACACCCCCGATTTGTA
65 AACACCCCCGATTTGTA
* * * * * * *
46995939 AAATTACTGAAACACCC-CGGATTTATAACATTATCGAAATACCCTTG--TAGTATAAAATTACT
1 AAATTACCGAAACACCCTC-GATTTGTAAAATTACCAAAACACCCTTGATTTG-A-AAAATTACT
* ** *
46996001 GAAATACCCTTGCA-ATGTA
63 GAAACACCCCCG-ATTTGTA
*
46996020 AAATTACCGAAATACCCT
1 AAATTACCGAAACACCCT
46996038 TGTAGTGTAA
Statistics
Matches: 213, Mismatches: 40, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
79 2 0.01
80 5 0.02
81 204 0.96
82 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
AAATTACCGAAACACCCTCGATTTGTAAAATTACCAAAACACCCTTGATTTGAAAAATTACTGAA
ACACCCCCGATTTGTA
Found at i:46995992 original size:27 final size:26
Alignment explanation
Indices: 46995962--46996050 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 26
46995952 ACCCCGGATT
*
46995962 TATAACATTATCGAAATACCCTTGTAG
1 TATAAAATTA-CGAAATACCCTTGTAG
* *
46995989 TATAAAATTACTGAAATACCCTTGCAA
1 TATAAAATTAC-GAAATACCCTTGTAG
*
46996016 TGTAAAATTACCGAAATACCCTTGTAG
1 TATAAAATTA-CGAAATACCCTTGTAG
*
46996043 TGTAAAAT
1 TATAAAAT
46996051 GACCGACATA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (26 bp):
TATAAAATTACGAAATACCCTTGTAG
Found at i:46995995 original size:54 final size:54
Alignment explanation
Indices: 46995937--46996050 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
46995927 CCCCGATTTG
* * *
46995937 TAAAATTACTGAAACACCC-CG-GATTTATAACATTATCGAAATACCCTTGTAGTA
1 TAAAATTACTGAAACACCCTCGCAATGTA-AA-ATTACCGAAATACCCTTGTAGTA
* * *
46995991 TAAAATTACTGAAATACCCTTGCAATGTAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACTGAAACACCCTCGCAATGTAAAATTACCGAAATACCCTTGTAGTA
46996045 TAAAAT
1 TAAAAT
46996051 GACCGACATA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 45 0.87
55 3 0.06
56 4 0.08
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (54 bp):
TAAAATTACTGAAACACCCTCGCAATGTAAAATTACCGAAATACCCTTGTAGTA
Found at i:46996055 original size:27 final size:27
Alignment explanation
Indices: 46995973--46996080 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
46995963 ATAACATTAT
* *
46995973 CGAAATACCCTTGTAGTATAAAATTAC
1 CGAAATACCCTTGTAGTGTAAAATGAC
* * * *
46996000 TGAAATACCCTTGCAATGTAAAATTAC
1 CGAAATACCCTTGTAGTGTAAAATGAC
46996027 CGAAATACCCTTGTAGTGTAAAATGAC
1 CGAAATACCCTTGTAGTGTAAAATGAC
* *
46996054 CGACATA-CCTCTGTAGGGTAAAATGAC
1 CGAAATACCCT-TGTAGTGTAAAATGAC
46996081 TGTTTGCCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 3 0.04
27 67 0.96
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
CGAAATACCCTTGTAGTGTAAAATGAC
Found at i:47001424 original size:27 final size:26
Alignment explanation
Indices: 47001350--47001465 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 26
47001340 ATGGAGGAAG
* *
47001350 TGTTCTGGTGGCTATGCCAGAAATATC
1 TGTTCTGGTGGCTCTGCCA-CAATATC
*
47001377 TGTTTCTGGTGGCTAC-CCCACAAATATC
1 TG-TTCTGGTGGCT-CTGCCAC-AATATC
47001405 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTCTGCCACAATATC
* *
47001431 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
47001458 TGTTCTGG
1 TGTTCTGG
47001466 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.19
27 41 0.53
28 22 0.28
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:47005557 original size:43 final size:44
Alignment explanation
Indices: 47005509--47005616 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 44
47005499 CCCTAGATAT
* *
47005509 GGTCTTACATGTTATCACATAT-CGATGCCACTGTCCCACACAG
1 GGTCTTACATGTTATCACATATACAATGCCAATGTCCCACACAG
* ** * * *
47005552 GGTCTTACAAGAAATCACA-ATACAATGCCAATGTCCTAGACAT
1 GGTCTTACATGTTATCACATATACAATGCCAATGTCCCACACAG
47005595 GGTCTTACAT-TTAATCACATAT
1 GGTCTTACATGTT-ATCACATAT
47005617 TGAGTCGATG
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
42 2 0.04
43 47 0.92
44 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (44 bp):
GGTCTTACATGTTATCACATATACAATGCCAATGTCCCACACAG
Found at i:47005645 original size:47 final size:49
Alignment explanation
Indices: 47005576--47005797 Score: 163
Period size: 50 Copynumber: 4.6 Consensus size: 49
47005566 TCACAATACA
* * * * *
47005576 ATGCCAATGTCCTAGACATGGTCTTACATTTAATCAC-ATATTGA-GTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACTGAATCACTATATCGAGGCCG
* * *
47005624 ATGCCATGTCCCAGACATGGTCCTACACTGACTCTCTTATATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAATCAC-TATATCGAGGCCG
* * * * * * *
47005674 ATGTCATATCCCAGACATGGTCTTACACT-AGCTCTCCTCTTTCCG-TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-ATC-ACTATAT-CGAGGCCG
* *
47005724 ATGCCATGTTCCAGACATGGTCTTACACTG-A-CAC-ATATC-AAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAATCACTATATCGAGGCCG
* * *
47005769 ATGTCATGTCTCAGACATGGTATTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
47005798 AGCTCACATG
Statistics
Matches: 139, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
45 30 0.22
46 2 0.01
47 26 0.19
48 6 0.04
49 7 0.05
50 65 0.47
51 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAATCACTATATCGAGGCCG
Found at i:47005686 original size:50 final size:50
Alignment explanation
Indices: 47005622--47005755 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 50
47005612 CATATTGAGT
* *
47005622 CGATGCCATGTCCCAGACATGGTCCTACACTGACTCTCTTATAT-CGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTATATCCG-GGC
* * * * *
47005672 CGATGTCATATCCCAGACATGGTCTTACACT-AGCTCTCCTCTTTCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCCTATATCCGGGC
*
47005722 CGATGCCATGTTCCAGACATGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
47005756 ACATATCAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 67 0.94
51 3 0.04
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTATATCCGGGC
Found at i:47005778 original size:100 final size:95
Alignment explanation
Indices: 47005622--47005802 Score: 204
Period size: 100 Copynumber: 1.9 Consensus size: 95
47005612 CATATTGAGT
* * * *
47005622 CGATGCCATGTCCCAGACATGGTCCTACACTGACTCTCTTATATCGAGGCCGATGTCATATCCCA
1 CGATGCCATGTCCCAGACATGGTCCTACACTGACACTATCATACCGAGGCCGATGTC---T--CA
*
47005687 GACATGGTCTTACACTAGCTCTCCTCTTTCCGTGC
61 GACATGGTATTACACTAGCTCTCCTCTTTCCGTGC
* * * *
47005722 CGATGCCATGTTCCAGACATGGTCTTACACTGACACATATCA-AGCCGATGTC-ATGTCTCAGAC
1 CGATGCCATGTCCCAGACATGGTCCTACACTGACAC-TATCATA-CCGAGGCCGATGTCTCAGAC
47005785 ATGGTATTACACTAGCTC
64 ATGGTATTACACTAGCTC
47005803 ACATGTATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
95 22 0.31
97 1 0.01
100 39 0.56
101 8 0.11
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCCTACACTGACACTATCATACCGAGGCCGATGTCTCAGACAT
GGTATTACACTAGCTCTCCTCTTTCCGTGC
Found at i:47011932 original size:43 final size:42
Alignment explanation
Indices: 47011820--47011936 Score: 103
Period size: 43 Copynumber: 2.8 Consensus size: 42
47011810 ATATAGCTCG
* * **
47011820 TACAATGCC-ATA-CCATAGATATGGTCTTACATGTTATCACA
1 TACAATGCCAATATCC-TAGACATGGTCTTACACGAAATCACA
* * * * * *
47011861 TATCGATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAA
1 TA-CAATGCCAATATCCTAGACATGGTCTTACACGAAATCAC-A
47011905 TACAATGCCAATATCCTAGACATGGTCTTACA
1 TACAATGCCAATATCCTAGACATGGTCTTACA
47011937 TGTAACCACA
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
41 2 0.04
42 6 0.11
43 43 0.77
44 5 0.09
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
TACAATGCCAATATCCTAGACATGGTCTTACACGAAATCACA
Found at i:47011973 original size:47 final size:47
Alignment explanation
Indices: 47011909--47012030 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
47011899 TCACAATACA
* * *
47011909 ATGCCAATATCCTAGACATGGTCTTACATGTAACCACATATTTAGTTG
1 ATGCC-ATGTCCTAGACATGGTCTTACATGTAACCACATATTGAGTCG
47011957 ATGCCATGTCCTAGACATGGTCTTACATGTAACCACATATTGAGTCG
1 ATGCCATGTCCTAGACATGGTCTTACATGTAACCACATATTGAGTCG
* *
47012004 ATGCCATGTCCCATACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
47012031 CTGACTCTCT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 64 0.93
48 5 0.07
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (47 bp):
ATGCCATGTCCTAGACATGGTCTTACATGTAACCACATATTGAGTCG
Found at i:47012108 original size:50 final size:50
Alignment explanation
Indices: 47012002--47012177 Score: 159
Period size: 50 Copynumber: 3.6 Consensus size: 50
47011992 CATATTGAGT
* *
47012002 CGATGCCATGTCCCATACATGGTCTTACACTGACTCTCTTATATTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTTATATTCAGGC
* * * *
47012052 CAATGCCATATCCCAAACATGGTCTTACACTGGCTCTCCTT-T-TTCCGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCT-CTTATATTCAG-GC
* * * ** *
47012102 TGATGCCATGTCCTAGACATGGTCTTACACTGA----CAAATA-TCAAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTTATATTCAGGC
**
47012147 CGATGCCATGTCCCAGGCATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
47012178 AGCTCACATG
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 31 0.30
46 3 0.03
49 3 0.03
50 63 0.61
51 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTTATATTCAGGC
Found at i:47014278 original size:15 final size:14
Alignment explanation
Indices: 47014258--47014287 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
47014248 AATCATTAAT
47014258 AATTATATCCATATA
1 AATTATATCCA-ATA
47014273 AATTATATCCAATA
1 AATTATATCCAATA
47014287 A
1 A
47014288 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTATATCCAATA
Found at i:47014782 original size:28 final size:28
Alignment explanation
Indices: 47014750--47014831 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
47014740 TGTTGTATCT
*
47014750 TCGATGTCTCGCACACTATGTACCATAC
1 TCGATGTCTCGCACACTAAGTACCATAC
** * * * *
47014778 TCGATACCTCGCACGCTAAGTGCTATTC
1 TCGATGTCTCGCACACTAAGTACCATAC
* * *
47014806 TGGATGTTTCGCACACTAAGTGCCAT
1 TCGATGTCTCGCACACTAAGTACCAT
47014832 TAGTGCTATT
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (28 bp):
TCGATGTCTCGCACACTAAGTACCATAC
Found at i:47014847 original size:37 final size:37
Alignment explanation
Indices: 47014796--47014869 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
47014786 TCGCACGCTA
47014796 AGTGCTATTCTGGATGTTTCGCACACTAAGTGCCATT
1 AGTGCTATTCTGGATGTTTCGCACACTAAGTGCCATT
*
47014833 AGTGCTATTTTGGATGTTTCGCACACTAAGTGCCATT
1 AGTGCTATTCTGGATGTTTCGCACACTAAGTGCCATT
47014870 CTCAATATTT
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:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (37 bp):
AGTGCTATTCTGGATGTTTCGCACACTAAGTGCCATT
Found at i:47016975 original size:24 final size:25
Alignment explanation
Indices: 47016948--47016999 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
47016938 GCCTAGCCTC
*
47016948 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCACT
**
47016972 TTTTGGTAAACTGGGGCAAAGCACT
1 TTTTAATAAACTGGGGCAAAGCACT
47016997 TTT
1 TTT
47017000 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCACT
Found at i:47017074 original size:21 final size:21
Alignment explanation
Indices: 47017047--47017107 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
47017037 TATAATGAGT
47017047 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* * *
47017068 ATCTCATAACATATCATATGC
1 ATATCATAGCATATCATGTGC
47017089 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
47017108 ATAACAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:47017085 original size:5 final size:5
Alignment explanation
Indices: 47017047--47017105 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
47017037 TATAATGAGT
* * * * *
47017047 ATATC ATAGC ATATC ATGTGC ATCTC ATAAC ATATC ATATGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
47017099 ATATC AT
1 ATATC AT
47017106 GTATAACAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 34 0.79
6 9 0.21
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:47024966 original size:21 final size:21
Alignment explanation
Indices: 47024939--47024999 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
47024929 TATAATGAGT
47024939 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
47024960 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
47024981 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
47025000 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:47024998 original size:10 final size:10
Alignment explanation
Indices: 47024939--47024999 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
47024929 TATAATGAGT
47024939 ATATCATAG-C
1 ATATCAT-GTC
47024949 ATATCATGTGC
1 ATATCATGT-C
* **
47024960 ATCTCATAAC
1 ATATCATGTC
47024970 ATATCATGTGC
1 ATATCATGT-C
47024981 ATATCATGTC
1 ATATCATGTC
47024991 ATATCATGT
1 ATATCATGT
47025000 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:47030913 original size:21 final size:24
Alignment explanation
Indices: 47030887--47030932 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
47030877 AATATGGAAA
47030887 AGAAAAGAA-ATA-ACAAAA-AAT
1 AGAAAAGAAGATAGACAAAACAAT
*
47030908 AGAAAATAAGATAGACAAAACAAT
1 AGAAAAGAAGATAGACAAAACAAT
47030932 A
1 A
47030933 AATTGTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 6 0.29
24 4 0.19
ACGTcount: A:0.72, C:0.07, G:0.11, T:0.11
Consensus pattern (24 bp):
AGAAAAGAAGATAGACAAAACAAT
Found at i:47037938 original size:27 final size:28
Alignment explanation
Indices: 47037880--47037956 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 28
47037870 AAAATATATC
* * *
47037880 ATAATTA-TAAAATAATTAATTGTACTT
1 ATAATTATTAAAATATTTAATTTTACTA
47037907 A-AATTATTAAAATATTTAATTTTA-TA
1 ATAATTATTAAAATATTTAATTTTACTA
*
47037933 ATAATTTTTCATAAAT-TTTAATTT
1 ATAATTATT-A-AAATATTTAATTT
47037957 ATTTTCGACA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 7 0.17
27 22 0.52
28 9 0.21
29 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (28 bp):
ATAATTATTAAAATATTTAATTTTACTA
Found at i:47045620 original size:16 final size:15
Alignment explanation
Indices: 47045593--47045626 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
47045583 ATAATTAATA
47045593 TATAATTATATTTAT
1 TATAATTATATTTAT
47045608 TATAATGTATATTTAT
1 TATAAT-TATATTTAT
47045624 TAT
1 TAT
47045627 TATCAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATAATTATATTTAT
Found at i:47046124 original size:17 final size:17
Alignment explanation
Indices: 47046102--47046136 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47046092 TGCCCCTACA
47046102 CGCACCATACCAGCTCG
1 CGCACCATACCAGCTCG
* *
47046119 CGCACCATCCCTGCTCG
1 CGCACCATACCAGCTCG
47046136 C
1 C
47046137 ACCTTGCTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.51, G:0.17, T:0.14
Consensus pattern (17 bp):
CGCACCATACCAGCTCG
Found at i:47047777 original size:16 final size:16
Alignment explanation
Indices: 47047756--47047788 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47047746 TTTTCTTTCC
47047756 TAGGTTATGTTAGGAT
1 TAGGTTATGTTAGGAT
*
47047772 TAGGTTCTGTTAGGAT
1 TAGGTTATGTTAGGAT
47047788 T
1 T
47047789 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.45
Consensus pattern (16 bp):
TAGGTTATGTTAGGAT
Found at i:47054106 original size:29 final size:27
Alignment explanation
Indices: 47054088--47054157 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47054078 ATATTAAGTC
47054088 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
47054115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
47054143 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47054158 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:47054151 original size:28 final size:28
Alignment explanation
Indices: 47054088--47054185 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
47054078 ATATTAAGTC
*
47054088 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47054115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47054143 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47054172 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47054186 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47062192 original size:29 final size:27
Alignment explanation
Indices: 47062174--47062243 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47062164 ATATTAAGTC
47062174 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
47062201 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
47062229 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47062244 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:47062237 original size:28 final size:28
Alignment explanation
Indices: 47062174--47062271 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
47062164 ATATTAAGTC
*
47062174 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47062201 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47062229 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47062258 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47062272 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47064191 original size:27 final size:27
Alignment explanation
Indices: 47064161--47064231 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
47064151 CCCTCAAATT
47064161 GATAAAATGATTATTTTGCCCTTATGA
1 GATAAAATGATTATTTTGCCCTTATGA
* * *
47064188 GATAAAATGA-CAGTTTTGCCTTTCTGA
1 GATAAAATGATTA-TTTTGCCCTTATGA
* *
47064215 GGTAAAATGATTGTTTT
1 GATAAAATGATTATTTT
47064232 TGCATTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
GATAAAATGATTATTTTGCCCTTATGA
Found at i:47064470 original size:21 final size:21
Alignment explanation
Indices: 47064400--47064470 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
47064390 AAGTGTACTG
47064400 TACTGGTAGCTCTGCTGCAAA
1 TACTGGTAGCTCTGCTGCAAA
* * *
47064421 TCACTGATGGCTCTAAGC--CTATTA
1 T-ACTGGTAGCTCT--GCTGC-A-AA
47064445 TACTGGTAGCTCTGCTGCAAA
1 TACTGGTAGCTCTGCTGCAAA
47064466 TACTG
1 TACTG
47064471 TTTAGTGCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
21 9 0.24
22 12 0.32
23 12 0.32
24 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (21 bp):
TACTGGTAGCTCTGCTGCAAA
Found at i:47064619 original size:18 final size:18
Alignment explanation
Indices: 47064592--47064638 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
47064582 GGACTTGCAT
*
47064592 ACTGTTTACTGATATTGC
1 ACTGTTTACTGATACTGC
*
47064610 ACTGTATACTGATACTGC
1 ACTGTTTACTGATACTGC
47064628 ACTGTTTACTG
1 ACTGTTTACTG
47064639 TTCTACACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (18 bp):
ACTGTTTACTGATACTGC
Found at i:47068349 original size:13 final size:13
Alignment explanation
Indices: 47068333--47068362 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47068323 TTTTTATCTT
*
47068333 TTAATTTTCTTAG
1 TTAATTTACTTAG
47068346 TTAATTTACTTAG
1 TTAATTTACTTAG
47068359 TTAA
1 TTAA
47068363 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:47068646 original size:23 final size:23
Alignment explanation
Indices: 47068620--47068685 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
47068610 TTCTTTTATG
*
47068620 TGAATAGTAAATATTCTCTAGCA
1 TGAACAGTAAATATTCTCTAGCA
*
47068643 TGAACATTAAATATTCTCT-GCCA
1 TGAACAGTAAATATTCTCTAG-CA
*
47068666 TGAACAGTGAATATTCTCTA
1 TGAACAGTAAATATTCTCTA
47068686 AAAAAAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (23 bp):
TGAACAGTAAATATTCTCTAGCA
Found at i:47068776 original size:28 final size:28
Alignment explanation
Indices: 47068744--47068810 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
47068734 ATAAGTAACT
*
47068744 ATTATGTAATGTTCTATGAAAAATAGCA
1 ATTATGTAATGTTATATGAAAAATAGCA
* *
47068772 ATTATGTAATGTTATCTGAAAAGTAGCA
1 ATTATGTAATGTTATATGAAAAATAGCA
47068800 ATTTATGTAAT
1 A-TTATGTAAT
47068811 TTTAGGACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 26 0.74
29 9 0.26
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (28 bp):
ATTATGTAATGTTATATGAAAAATAGCA
Found at i:47072749 original size:28 final size:28
Alignment explanation
Indices: 47072709--47072820 Score: 145
Period size: 28 Copynumber: 4.0 Consensus size: 28
47072699 ATGCAGTTGA
* *
47072709 ATACTCAATATCTCGCACACTAAGTGCC
1 ATACTCGATATCTCACACACTAAGTGCC
*
47072737 ATACTCGATATCTCTCACACTAAGTGCC
1 ATACTCGATATCTCACACACTAAGTGCC
** * *
47072765 ATTTTC-ACTATCTCATACACTAAGTGTC
1 ATACTCGA-TATCTCACACACTAAGTGCC
47072793 ATACTCGATATCTCACACACTAAGTGCC
1 ATACTCGATATCTCACACACTAAGTGCC
47072821 GTACATAGTC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
27 1 0.01
28 69 0.97
29 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.29
Consensus pattern (28 bp):
ATACTCGATATCTCACACACTAAGTGCC
Found at i:47072852 original size:40 final size:40
Alignment explanation
Indices: 47072808--47072899 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
47072798 CGATATCTCA
* *
47072808 CACACTAAGTGCCGTACATAGTCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* * * *
47072848 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGATTCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
*
47072888 CACACTTAGTGC
1 CACACTAAGTGC
47072900 TACCAATAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
Found at i:47080388 original size:39 final size:40
Alignment explanation
Indices: 47080316--47080391 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 40
47080306 AGTACTGTGC
47080316 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
* * *
47080356 ATAGTCGAAGCTATGTC-ATTCGCACACTAAGTGCCA
1 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCA
47080392 CCAGTAGTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
Found at i:47085326 original size:15 final size:15
Alignment explanation
Indices: 47085303--47085333 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47085293 TCAAAAATTC
47085303 CAATACAAAACATAT
1 CAATACAAAACATAT
*
47085318 CAATCCAAAACATAT
1 CAATACAAAACATAT
47085333 C
1 C
47085334 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:47085632 original size:23 final size:21
Alignment explanation
Indices: 47085605--47085659 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
47085595 TTTTTAATGT
47085605 TTTATTATAACATATATTAACA
1 TTTATTATAACATAT-TTAACA
* *
47085627 TATTATTTAATTACATATTTAACC
1 T-TTA-TT-ATAACATATTTAACA
47085651 TTTATTATA
1 TTTATTATA
47085660 TAATATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 6 0.22
24 8 0.30
25 8 0.30
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATTATAACATATTTAACA
Found at i:47094083 original size:4 final size:4
Alignment explanation
Indices: 47094074--47094101 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47094064 TATGAATGTG
47094074 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
47094102 CAACAGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Done.