Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 170 of 332
Found at i:56122349 original size:47 final size:47
Alignment explanation
Indices: 56122286--56122851 Score: 979
Period size: 47 Copynumber: 12.0 Consensus size: 47
56122276 ATGATAGTAT
* *
56122286 GGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56122333 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56122380 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
56122427 GGCCTAGTGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56122474 GGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56122521 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56122568 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56122615 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56122662 GGCCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCC-TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56122710 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
56122757 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATCTGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * *
56122804 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56122851 G
1 G
56122852 TCACGAAGGG
Statistics
Matches: 498, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
47 451 0.91
48 47 0.09
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:56122587 original size:22 final size:22
Alignment explanation
Indices: 56122559--56122634 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
56122549 AAGTGTATAT
56122559 ATGTGATAAGGCGTAATGGCCG
1 ATGTGATAAGGCGTAATGGCCG
* * * ****
56122581 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAT-AAGGCGTAA-TG-GCCG
56122606 ATGTGATAAGGCGTAATGGCCG
1 ATGTGATAAGGCGTAATGGCCG
56122628 ATGTGAT
1 ATGTGAT
56122635 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.30, C:0.08, G:0.33, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCGTAATGGCCG
Found at i:56123026 original size:37 final size:37
Alignment explanation
Indices: 56122970--56123048 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56122960 CCGAGCTCTA
* * *
56122970 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56123007 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56123044 AAGAC
1 AAGAC
56123049 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56124581 original size:17 final size:18
Alignment explanation
Indices: 56124553--56124592 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
56124543 TTTCTTTCGG
56124553 ATTGATTTACATTAGTGA
1 ATTGATTTACATTAGTGA
56124571 ATTGA-TTACATTAGTGA
1 ATTGATTTACATTAGTGA
56124588 ATTGA
1 ATTGA
56124593 ATAATACGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (18 bp):
ATTGATTTACATTAGTGA
Found at i:56128029 original size:96 final size:96
Alignment explanation
Indices: 56127909--56128130 Score: 236
Period size: 96 Copynumber: 2.3 Consensus size: 96
56127899 TATGAGAGCC
* * * * * *
56127909 AGTGTAAGACCATGTTTGGAACATGGCATTGGAAATGTTG-TGAGAGCCAGTGTAAGACGATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGAAATG-AGATGAGAGCCAGTGTAAGACCATGTA
* *
56127973 TAGGACATGGCATCAG-CATTGATATGT-A-TACT
65 TAGGACATGGCATC-GTCATCGACATGTGAGT--T
* * **
56128005 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGAGTTAGTGTAAGACCATGTAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGAAATGAGATGAGAGCCAGTGTAAGACCATGTAT
* *
56128070 GGGACATGGCATCGTCCTCGACATGTGAGTT
66 AGGACATGGCATCGTCATCGACATGTGAGTT
* *
56128101 AGTGTAAGACCATGTCTTGGACGTGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
56128131 AGCAAATTAG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
95 2 0.02
96 102 0.96
97 1 0.01
98 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGAAATGAGATGAGAGCCAGTGTAAGACCATGTAT
AGGACATGGCATCGTCATCGACATGTGAGTT
Found at i:56128100 original size:48 final size:48
Alignment explanation
Indices: 56127865--56128130 Score: 182
Period size: 48 Copynumber: 5.5 Consensus size: 48
56127855 TGCGCTAATT
* * * * **
56127865 TAAGAACATGTCTGGGACATGGCGTCGG--CCAGATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGTATC-GA-CATGAGAGTTAGTG
* * * * *** **
56127913 TAAGACCATGTTTGGAACATGGCATTGGAAAT-GTTGTGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGG-TATCGACATGAGAGTTAGTG
* * * * * * * *
56127961 TAAGACGATGTCTAGGACATGGCATCAGCATTGATATGTATA-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGTATCGACATG-AGAGTTAGTG
* *
56128009 TAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGTATCGACATGAGAGTTAGTG
* * *
56128057 TAAGACCATGTATGGGACATGGCATC-GTCCTCGACATGTGAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGT-ATCGACATGAGAGTTAGTG
* *
56128105 TAAGACCATGTCTTGGACGTGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
56128131 AGCAAATTAG
Statistics
Matches: 177, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
47 6 0.03
48 168 0.95
49 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGTATCGACATGAGAGTTAGTG
Found at i:56137129 original size:15 final size:15
Alignment explanation
Indices: 56137105--56137134 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56137095 CTAATGTATT
56137105 TTTTGAGGTTTCGAC
1 TTTTGAGGTTTCGAC
*
56137120 TTTTGTGGTTTCGAC
1 TTTTGAGGTTTCGAC
56137135 ACAAGTGTTG
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:0.10, C:0.13, G:0.27, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGAC
Found at i:56142100 original size:28 final size:28
Alignment explanation
Indices: 56142060--56142123 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
56142050 ACCATGGCAT
56142060 CTAAGTGAAATAAGTCCATGGCAATGTG
1 CTAAGTGAAATAAGTCCATGGCAATGTG
*
56142088 CTAAGTGAAATAAGTCCATGGCATTGTG
1 CTAAGTGAAATAAGTCCATGGCAATGTG
56142116 CTAAGTGA
1 CTAAGTGA
56142124 GAAATTTCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (28 bp):
CTAAGTGAAATAAGTCCATGGCAATGTG
Found at i:56142202 original size:51 final size:51
Alignment explanation
Indices: 56142147--56142397 Score: 423
Period size: 51 Copynumber: 4.9 Consensus size: 51
56142137 TGAACCTTAG
56142147 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
56142198 GAATATAACAGCTTTGGACACAAGTGTGGTACTATGTGAAGCCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
56142249 GAATATAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
56142300 GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
56142351 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
56142398 ATGTATGTGT
Statistics
Matches: 188, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 187 0.99
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:56143119 original size:15 final size:17
Alignment explanation
Indices: 56143085--56143121 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
56143075 ATACATATAC
56143085 ACATTCATAATCAGAAT
1 ACATTCATAATCAGAAT
56143102 ACATTCAT-ATCA-AAT
1 ACATTCATAATCAGAAT
56143117 ACATT
1 ACATT
56143122 GTCCCTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (17 bp):
ACATTCATAATCAGAAT
Found at i:56155726 original size:8 final size:8
Alignment explanation
Indices: 56155713--56155751 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
56155703 CGCTGCAAAG
56155713 GCTGAAAA
1 GCTGAAAA
56155721 GCTGAAAA
1 GCTGAAAA
*
56155729 GCTAAAAA
1 GCTGAAAA
*
56155737 ACTGAAAA
1 GCTGAAAA
*
56155745 GCCGAAA
1 GCTGAAA
56155752 GTGGGTTGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (8 bp):
GCTGAAAA
Found at i:56162390 original size:28 final size:28
Alignment explanation
Indices: 56162324--56162451 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
56162314 CATGAGATTG
* * **
56162324 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
56162353 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56162381 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
56162410 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56162438 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
56162452 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56162413 original size:57 final size:57
Alignment explanation
Indices: 56162324--56162451 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
56162314 CATGAGATTG
*
56162324 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
56162381 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
56162438 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
56162452 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:56166793 original size:16 final size:16
Alignment explanation
Indices: 56166772--56166810 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
56166762 CATTACAAAG
**
56166772 GCTAAAAAGGTGAAAA
1 GCTAAAAAACTGAAAA
56166788 GCTAAAAAACTGAAAA
1 GCTAAAAAACTGAAAA
*
56166804 GCCAAAA
1 GCTAAAA
56166811 GTGTGTTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (16 bp):
GCTAAAAAACTGAAAA
Found at i:56175437 original size:13 final size:13
Alignment explanation
Indices: 56175419--56175443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56175409 ACAAATGATA
56175419 AAATTTTCACACG
1 AAATTTTCACACG
56175432 AAATTTTCACAC
1 AAATTTTCACAC
56175444 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:56180245 original size:42 final size:43
Alignment explanation
Indices: 56180146--56180256 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
56180136 AACAAGTACA
* * *
56180146 ATGCCGACGTCCTAGACATGGTCTTACATATAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACAGATAATTCAATATCG
** *
56180189 ATGCCTCTGTCCCAGACAGGGTCTTACACGA-AA-TCAGATAT-G
1 ATGCCGATGTCCCAGACATGGTCTTACA-GATAATTCA-ATATCG
56180231 ATGCCGATGTCCCAGACATGGTCTTA
1 ATGCCGATGTCCCAGACATGGTCTTA
56180257 TACAAAAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 27 0.47
43 29 0.51
44 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACAGATAATTCAATATCG
Found at i:56180289 original size:85 final size:85
Alignment explanation
Indices: 56180146--56180304 Score: 207
Period size: 85 Copynumber: 1.9 Consensus size: 85
56180136 AACAAGTACA
* * * **
56180146 ATGCCGACGTCCTAGACATGGTCTTACATATAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACATAAAATTCAATATCGAGGCCTCTGTCCCAGACACAGT
56180211 CTTACACGAAATCAGATATG
66 CTTACACGAAATCAGATATG
* *
56180231 ATGCCGATGTCCCAGACATGGTCTTATACA-AAAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 ATGCCGACGTCCCAGACATGGTC-T-TACATAAAAT-TCAATATCGAGGCCTCTGTCCCAGACAC
56180293 AGTCTTACACGA
63 AGTCTTACACGA
56180305 TGTCTCAGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
85 52 0.81
86 6 0.09
87 6 0.09
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACATAAAATTCAATATCGAGGCCTCTGTCCCAGACACAGT
CTTACACGAAATCAGATATG
Found at i:56186866 original size:39 final size:39
Alignment explanation
Indices: 56186754--56187093 Score: 434
Period size: 39 Copynumber: 8.6 Consensus size: 39
56186744 TACTCGTTCA
* * *
56186754 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACC
* *
56186794 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
*
56186834 AATGCCTTCGGGCTTAGCCCGGAATTATTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
*
56186873 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
* *
56186912 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
56186952 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
**
56186991 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCAAA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
** * * *
56187030 AATGCCTTCGGATATTAGTCCGG-ATATAGTCACTTTGCA-C
1 AATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCACC
*
56187070 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
56187094 CATCATTCGA
Statistics
Matches: 268, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
39 148 0.55
40 114 0.43
41 6 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
Found at i:56186866 original size:79 final size:79
Alignment explanation
Indices: 56186754--56187093 Score: 447
Period size: 79 Copynumber: 4.3 Consensus size: 79
56186744 TACTCGTTCA
* * *
56186754 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
*
56186818 TTTAGTAACTCGCACC
64 ATTAGTAACTCGCACC
* *
56186834 AATGCCTTCGGG-CTTAGCCCGGAATTATTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
*
56186898 TAGTAACTCGCACA
66 TAGTAACTCGCACC
* * *
56186912 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
56186977 TAGTAACTCGCACC
66 TAGTAACTCGCACC
* ** *
56186991 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATATTAGTCCGG-A
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAA
* *
56187054 TATAGTCACTTTGCA-C
65 T-TAGTAAC-TCGCACC
*
56187070 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56187094 CATCATTCGA
Statistics
Matches: 233, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
78 72 0.31
79 133 0.57
80 28 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
TAGTAACTCGCACC
Found at i:56186928 original size:118 final size:118
Alignment explanation
Indices: 56186754--56187093 Score: 515
Period size: 118 Copynumber: 2.9 Consensus size: 118
56186744 TACTCGTTCA
* *
56186754 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
56186818 TTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTATTAACTCGCACC
64 TTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
56186873 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
56186938 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
66 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
* * **
56186991 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTC-GGATATTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT
* * * *
56187055 ATAGTCACTTTGCA-CAAAGCCTTCGGGACTTAGCCCGGA
65 TTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGA
56187094 CATCATTCGA
Statistics
Matches: 206, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
117 3 0.01
118 175 0.85
119 28 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (118 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
Found at i:56195137 original size:118 final size:120
Alignment explanation
Indices: 56194956--56195177 Score: 310
Period size: 118 Copynumber: 1.9 Consensus size: 120
56194946 TACTCGTTCA
*
56194956 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
56195021 TTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* **
56195075 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
56195137 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
56195178 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
117 4 0.04
118 60 0.66
119 27 0.30
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:56195177 original size:40 final size:40
Alignment explanation
Indices: 56194935--56195177 Score: 293
Period size: 40 Copynumber: 6.1 Consensus size: 40
56194925 CAGAATTTAA
** *
56194935 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56194975 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56195015 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56195054 CCGGA-ATTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56195093 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56195133 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56195173 CCGGA
1 CCGGA
56195178 CATCATTCGA
Statistics
Matches: 181, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.40
40 95 0.52
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56200583 original size:16 final size:16
Alignment explanation
Indices: 56200562--56200594 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56200552 ACGTAAAAGC
56200562 ATCAGATCAGTAGAAA
1 ATCAGATCAGTAGAAA
56200578 ATCAGATCAGTAGAAA
1 ATCAGATCAGTAGAAA
56200594 A
1 A
56200595 ACAAACATCT
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:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (16 bp):
ATCAGATCAGTAGAAA
Found at i:56202377 original size:24 final size:24
Alignment explanation
Indices: 56202325--56202378 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
56202315 AATCGAATTT
*
56202325 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
*
56202349 CCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
56202373 GCACAC
1 GCACAC
56202379 TCAGTGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 17 0.68
25 6 0.24
26 2 0.08
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:56210274 original size:24 final size:24
Alignment explanation
Indices: 56210222--56210275 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
56210212 AATCGAATTT
*
56210222 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
*
56210246 CCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
56210270 GCACAC
1 GCACAC
56210276 TCAGTGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 17 0.68
25 6 0.24
26 2 0.08
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:56216711 original size:39 final size:39
Alignment explanation
Indices: 56216620--56216747 Score: 157
Period size: 39 Copynumber: 3.3 Consensus size: 39
56216610 GACTATTAGC
* * ** * **
56216620 CCGGATATAATTCCAGCACATAGCCGGCGAACCCGAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
* * *
56216659 TCGAATATGATTCCCGCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
*
56216698 CCGGATATAATTCCCTCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
56216737 CCGGATATAAT
1 CCGGATATAAT
56216748 CACCATATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
Found at i:56220122 original size:4 final size:4
Alignment explanation
Indices: 56220113--56220149 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
56220103 TTAATACCAA
*
56220113 TATG TATG TATG TATG TATG TATG TATG TAAG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
56220150 TTTTTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:56221164 original size:20 final size:20
Alignment explanation
Indices: 56221131--56221182 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
56221121 ATAAGTCTTC
*
56221131 AAAAATAAATAAAAGAAAGAT
1 AAAAATAAA-AAAAGAAAAAT
* *
56221152 AAAATTAAAAAAATAAAAAT
1 AAAAATAAAAAAAGAAAAAT
56221172 AAAAATAAAAA
1 AAAAATAAAAA
56221183 TAAATGGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAAAAGAAAAAT
Found at i:56221169 original size:6 final size:6
Alignment explanation
Indices: 56221160--56221186 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56221150 ATAAAATTAA
56221160 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
56221187 TGGACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:56221170 original size:26 final size:26
Alignment explanation
Indices: 56221132--56221186 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
56221122 TAAGTCTTCA
* *
56221132 AAAATAAATAAAAGAAAGATAAAATT
1 AAAATAAATAAAAGAAAAATAAAAAT
*
56221158 AAAA-AAATAAAAATAAAAATAAAAAT
1 AAAATAAAT-AAAAGAAAAATAAAAAT
56221184 AAA
1 AAA
56221187 TGGACTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (26 bp):
AAAATAAATAAAAGAAAAATAAAAAT
Found at i:56231773 original size:40 final size:40
Alignment explanation
Indices: 56231696--56231873 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
56231686 AAACCAAGTA
* * *
56231696 CCTTCGGAATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56231735 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56231775 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56231815 CCTTCGGGACTTAGCCCGGAAATAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56231855 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56231874 TTATCATCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.10
40 117 0.90
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56245631 original size:50 final size:50
Alignment explanation
Indices: 56245510--56245796 Score: 364
Period size: 50 Copynumber: 5.8 Consensus size: 50
56245500 TGAGGTCGCA
* * * * * *
56245510 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA-GGTCACG
* **
56245561 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
* **
56245611 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
*
56245661 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
* * * *
56245710 TGTGTAGTACTAAGTGCAAGCTACTACGTGAACC-GATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
* * *
56245758 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
56245797 GCTTTGGCTA
Statistics
Matches: 213, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
48 41 0.19
49 43 0.20
50 94 0.44
51 35 0.16
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
Found at i:56258068 original size:46 final size:46
Alignment explanation
Indices: 56258001--56258121 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 46
56257991 TATGTGTGCT
* *
56258001 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-T-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACATTGAG-ACGAGAGCC
*
56258047 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCC
*
56258093 AGTAG-AAGACAAGTCTGGGACATGCATCG
1 AGT-GTAAGACATGTCTGGGACATGCATCG
56258122 GCCTCGCGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
45 3 0.04
46 62 0.91
47 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCC
Found at i:56265099 original size:46 final size:44
Alignment explanation
Indices: 56265032--56265205 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
56265022 TGATATGTGT
* *
56265032 GCTAGTGTAAGACCTGTCTAGGACATGCATCAGCCATATCATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATC-GGCATAT-ATGAGA
*
56265078 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATATTTA-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCA-T---ATA-TGAGA
* * * * *
56265126 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGAGGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCA-T-ATATGAGA
*
56265172 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGC
56265206 CTCACGATCT
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
45 4 0.04
46 67 0.60
48 36 0.32
49 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATATATGAGA
Found at i:56265150 original size:48 final size:46
Alignment explanation
Indices: 56265081--56265205 Score: 171
Period size: 48 Copynumber: 2.7 Consensus size: 46
56265071 CATGAGAGCT
* *
56265081 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGA-TATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGGA---AAGCC
* * *
56265129 AGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGAGGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGGAAAGCC
56265175 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
56265206 CTCACGATCT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
46 33 0.47
48 36 0.51
49 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGGAAAGCC
Found at i:56265227 original size:94 final size:94
Alignment explanation
Indices: 56265074--56265246 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
56265064 GCCATATCAT
* * **
56265074 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATATTTAAGCCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCACTCAGATATACAAGCCAGTGTAAGAC
*
56265139 ATGTTTGGGACATGCATCGGCATTGAGAG
66 ATATTTGGGACATGCATCGGCATTGAGAG
* * *
56265168 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCACGATCTACAAGCTAGTGTAAGA
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCACTCA-GATATACAAGCCAGTGTAAGA
*
56265232 CCTATTTGGGACATG
65 CATATTTGGGACATG
56265247 GTGTCAGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 2 0.03
94 67 0.97
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCACTCAGATATACAAGCCAGTGTAAGAC
ATATTTGGGACATGCATCGGCATTGAGAG
Found at i:56269769 original size:41 final size:43
Alignment explanation
Indices: 56269666--56269800 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
56269656 ATGTGTTCTT
** *
56269666 GTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAC
* * *
56269709 GTGTAAGACCATGTTTGGGACATTGGCATTG-TATTTGATT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAC
* * * *
56269750 GTGTAAGACTC-TGTCTGGGATAGTGGCATCAATATGTGATTGC
1 GTGTAAGAC-CATGTCTGGGACATTGGCATCGATATGTGATTAC
*
56269793 ATGTAAGA
1 GTGTAAGA
56269801 AACGCCTAGG
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 25 0.33
42 17 0.22
43 34 0.45
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAC
Found at i:56271829 original size:19 final size:19
Alignment explanation
Indices: 56271793--56271831 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56271783 TTTTTACCAT
* *
56271793 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
56271812 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
56271831 A
1 A
56271832 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:56272506 original size:28 final size:28
Alignment explanation
Indices: 56272459--56272523 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
56272449 AAATTAACCC
*
56272459 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
56272487 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
56272515 TAGGGGTAT
1 TAGGGGTAT
56272524 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:56279656 original size:19 final size:19
Alignment explanation
Indices: 56279620--56279658 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56279610 TTTTCACCAT
* *
56279620 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
56279639 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
56279658 A
1 A
56279659 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:56280172 original size:28 final size:29
Alignment explanation
Indices: 56280097--56280184 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
56280087 AGCATGGCTG
* * * *
56280097 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
56280124 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
*
56280153 CCAGA-ATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
56280181 CCAG
1 CCAG
56280185 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 12 0.24
28 24 0.48
29 14 0.28
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:56280337 original size:28 final size:28
Alignment explanation
Indices: 56280290--56280354 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
56280280 AAATTAACCC
*
56280290 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
56280318 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
56280346 TAGGGGTAT
1 TAGGGGTAT
56280355 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:56283869 original size:19 final size:19
Alignment explanation
Indices: 56283845--56283882 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56283835 TTAGATATAT
56283845 GTATAT-TTGCTAAATGAAA
1 GTATATGTTG-TAAATGAAA
*
56283864 GTATATGTTGTATATGAAA
1 GTATATGTTGTAAATGAAA
56283883 TTGTAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (19 bp):
GTATATGTTGTAAATGAAA
Found at i:56287129 original size:34 final size:34
Alignment explanation
Indices: 56287070--56287135 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
56287060 TGATTGCATT
* * *
56287070 ACTGTTACTGTTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTGATACTATAATAGGCTAAGGCCCAC
* *
56287104 ACTGTTACTGATACTGTAATAGGCTATGGCCC
1 ACTGTTACTGATACTATAATAGGCTAAGGCCC
56287136 TAACTGATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (34 bp):
ACTGTTACTGATACTATAATAGGCTAAGGCCCAC
Found at i:56294777 original size:44 final size:44
Alignment explanation
Indices: 56294720--56294833 Score: 146
Period size: 44 Copynumber: 2.6 Consensus size: 44
56294710 TTTGATATGT
*
56294720 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
*
56294763 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTT--
1 GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
* *
56294806 TATTTTGTGTAAGACC-CTGTCTGGGACA
1 GATTTCGTGTAAGACCAC-GTCTGGGACA
56294834 GTATTTGATT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 20 0.32
43 9 0.14
44 30 0.48
45 4 0.06
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (44 bp):
GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
Found at i:56297365 original size:18 final size:17
Alignment explanation
Indices: 56297342--56297375 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56297332 AATTTTGAGG
*
56297342 TATGATTCATATATGCAA
1 TATGATTAATA-ATGCAA
56297360 TATGATTAATAATGCA
1 TATGATTAATAATGCA
56297376 TGTTTAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
TATGATTAATAATGCAA
Found at i:56307955 original size:43 final size:44
Alignment explanation
Indices: 56307843--56307955 Score: 155
Period size: 43 Copynumber: 2.6 Consensus size: 44
56307833 ACAATGCCAA
56307843 GTCCCAGACATGGTCATACATGT-AATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCATACATGTAAATCAAATATCGATGTCACT
*
56307886 GTCCC-GAACAGGGTCATACATG-AAATCAAATA-CGATGTCGA-T
1 GTCCCAG-ACATGGTCATACATGTAAATCAAATATCGATGTC-ACT
*
56307928 GTCCCAGACATGGTCTTACATGTAAATC
1 GTCCCAGACATGGTCATACATGTAAATC
56307956 TCAAATCAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (44 bp):
GTCCCAGACATGGTCATACATGTAAATCAAATATCGATGTCACT
Found at i:56309475 original size:40 final size:40
Alignment explanation
Indices: 56309401--56309739 Score: 558
Period size: 40 Copynumber: 8.5 Consensus size: 40
56309391 AACCCAAGTA
* * *
56309401 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
56309440 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56309480 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
56309520 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
56309560 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
56309600 CTTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56309640 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56309680 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
56309719 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
56309740 GTCATCCGAA
Statistics
Matches: 282, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
39 35 0.12
40 246 0.87
41 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:56312058 original size:39 final size:39
Alignment explanation
Indices: 56311963--56312120 Score: 246
Period size: 39 Copynumber: 4.1 Consensus size: 39
56311953 CCGGGTACCA
* *
56311963 TTCCAGCACGTAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
*
56312002 TT-CAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
*
56312040 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
* * *
56312079 TCCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
56312118 TTC
1 TTC
56312121 AAATACCATG
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 37 0.33
39 75 0.67
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATAT
Found at i:56313426 original size:21 final size:21
Alignment explanation
Indices: 56313402--56313442 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56313392 CGGAAATTTC
56313402 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
56313423 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
56313443 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:56319908 original size:39 final size:39
Alignment explanation
Indices: 56319854--56320012 Score: 219
Period size: 39 Copynumber: 4.1 Consensus size: 39
56319844 CCGGGTACCA
* *
56319854 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATAT
* *
56319893 TTCCAGCACATAGCCTACGGACTTCAAGTTCGGATATAT
1 TTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATAT
* * * *
56319932 TTCCAACACATAGCCTGCGGACCTCATGTCCAGATATAT
1 TTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATAT
* * *
56319971 TCCCAGCATATAGCCTACGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATAT
56320010 TTC
1 TTC
56320013 AAATACCATG
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATAT
Found at i:56321316 original size:21 final size:21
Alignment explanation
Indices: 56321291--56321331 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56321281 CGCCAATTTC
56321291 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
56321312 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
56321332 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:56327533 original size:39 final size:39
Alignment explanation
Indices: 56327489--56327647 Score: 210
Period size: 39 Copynumber: 4.1 Consensus size: 39
56327479 CCGGGTACCA
* *
56327489 TTCCAGCACGTAGCCTGCGGACTTTAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
*
56327528 TTCCAGCACATAGCCTGCAGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* *
56327567 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * * * **
56327606 TCCCAGCATATAGCCTGCGAACCTCATGTGTGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
56327645 TTC
1 TTC
56327648 AAATACCATG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:56328950 original size:21 final size:21
Alignment explanation
Indices: 56328925--56328965 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56328915 CGGCAATTTC
56328925 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
56328946 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
56328966 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:56334390 original size:406 final size:403
Alignment explanation
Indices: 56333645--56334852 Score: 2140
Period size: 406 Copynumber: 3.0 Consensus size: 403
56333635 TTTTAATGCA
*
56333645 ATTCAAATTGGAATTGTTGGCCAAAATCAAGGGGATTAGGATGAGGATTAAGTGTGGATATGATG
1 ATTCAAATTGGAATTGTTGGCTAAAATCAAGGGGATTAGGATGAGGATTAAGTGTGGATATGATG
* *
56333710 ATGAT-AAAATTGGAGAAATTGAAAGGAATTTAACTGGACGAGTTTAAGCCGATTGGGGAGTGTA
66 ATGATAAAAATTGGAGAAATTGAAGGGAATTTAACTGGACGAGTTTAAGTCGATTGGGGAGTGTA
56333774 GGTTTGTATTTTTA--T-TTATTTATTTATTTTTAGTATATATATGTGTGTCGTATGGGCAAGTA
131 GGTTTGTATTTTTATTTATTATTTATTTATTTTTAGTATATATATGTGTGTCGTATGGGCAAGTA
* *
56333836 AGGGCATTTGTTGTTTTTGTGTGCTTCAGTCGTATATCATCTCCTCTTTTCTTTAAGTCAAACTC
196 AGGGCATTTGTTGTTTTTGTGTGCTTCAGTCGCATATCATCTCCTCTTTTCTTTAAGCCAAACTC
*
56333901 TTGATCTTTTCTTCCCTATTTTAATCGAATCAACCTCTTCCCTCTTCAACTTAGCTAACTATTTC
261 TTGATCTTTTCTTCCCTATTTTAATCGAATCAACCTCTTCCCTCTTCAACTTAGCCAACTATTTC
*
56333966 TTTTTCATTTAAAAGACGAGTCATACACTTTGGGGGTTTGGTTTCTTGTTGGCAAGCGATCTCGC
326 TTTTTCATTTAAAAGACGAGTCATACACTTTGGGGGTTTGATTTCTTGTTGGCAAGCGATCTCGC
56334031 AATCGGTAAGTGC
391 AATCGGTAAGTGC
* *
56334044 ATTCAAATTCGAATTGTTGGCTAAAATC-AGGATGATTAGGATGAGGATTAAGTGTGGTTATGAT
1 ATTCAAATTGGAATTGTTGGCTAAAATCAAGG-GGATTAGGATGAGGATTAAGTGTGG--AT-AT
*
56334108 GATGATGATAAAAACTGGAGAAATTGAAGGGAATTTAACTGGACGAGTTTAAGTCGATTGGGGAG
62 GATGATGATAAAAATTGGAGAAATTGAAGGGAATTTAACTGGACGAGTTTAAGTCGATTGGGGAG
*
56334173 TGTAGGTTTGTATTTTTATTTATTGATTTATTTATTTTTAGTATATATATTTGTGTCGTATGGGC
127 TGTAGGTTTGTATTTTTATTTATT-ATTTATTTATTTTTAGTATATATATGTGTGTCGTATGGGC
*
56334238 AAGTAAGGGCATTTGTT-TTTTTGTGTGCTTCAGTCGCATATAATCTCCTCTTTTCTTTAAGCCA
191 AAGTAAGGGCATTTGTTGTTTTTGTGTGCTTCAGTCGCATATCATCTCCTCTTTTCTTTAAGCCA
* * *
56334302 AACTCTAGATCTTTTCTTCCCTATTTTAATTGAATCAACCTCTTCCCTCTTCAGCTTAGCCAACT
256 AACTCTTGATCTTTTCTTCCCTATTTTAATCGAATCAACCTCTTCCCTCTTCAACTTAGCCAACT
*
56334367 GTTTCTTTTTCATTTAAAAGACGAGTCATACACTTTGGGGGTTTGATTTCTTGTTGGCAAGCGAT
321 ATTTCTTTTTCATTTAAAAGACGAGTCATACACTTTGGGGGTTTGATTTCTTGTTGGCAAGCGAT
*
56334432 CTTGCAATCGGTAAGTGC
386 CTCGCAATCGGTAAGTGC
56334450 ATTCAAATTGGAATTGTTGGCTAAAATCAAGGGGATTAGGATGAGGATTAAGTGTGGATATGATG
1 ATTCAAATTGGAATTGTTGGCTAAAATCAAGGGGATTAGGATGAGGATTAAGTGTGGATATGATG
*
56334515 ATGATAAAAATTGGAGAAATTGAAGGGAATTTAACTGGATGAGTTTAAGTCGATTGGGGAGTGTA
66 ATGATAAAAATTGGAGAAATTGAAGGGAATTTAACTGGACGAGTTTAAGTCGATTGGGGAGTGTA
56334580 GGTTTGTATTTTTATTTATTTATTTATTTATTTTTAGTATATATATGTGTGTCGTATGGGCAAGT
131 GGTTTGTATTTTTATTTA-TTATTTATTTATTTTTAGTATATATATGTGTGTCGTATGGGCAAGT
56334645 AAGGGCATTTGTTGTTTTTGTGTGCTTCAGTCGCATATCATCTCCTCTTTTCTTTAAGCCAAACT
195 AAGGGCATTTGTTGTTTTTGTGTGCTTCAGTCGCATATCATCTCCTCTTTTCTTTAAGCCAAACT
*
56334710 CTTGATCTTTTCTTCCCTATTTTAATCGAATCAACCTCTTCCCTCTTCAACTTAGCCAACTTTTT
260 CTTGATCTTTTCTTCCCTATTTTAATCGAATCAACCTCTTCCCTCTTCAACTTAGCCAACTATTT
*
56334775 CTTTTTCATTTAAAAGATGAGTCATACACTTTGGGGGTTTGATTTCTTGTTGGCAAGCGATCTCG
325 CTTTTTCATTTAAAAGACGAGTCATACACTTTGGGGGTTTGATTTCTTGTTGGCAAGCGATCTCG
56334840 CAATCGGTAAGTG
390 CAATCGGTAAGTG
56334853 AATTAGATCT
Statistics
Matches: 768, Mismatches: 29, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
398 3 0.00
399 50 0.07
401 2 0.00
402 11 0.01
403 213 0.28
404 191 0.25
405 1 0.00
406 238 0.31
407 59 0.08
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (403 bp):
ATTCAAATTGGAATTGTTGGCTAAAATCAAGGGGATTAGGATGAGGATTAAGTGTGGATATGATG
ATGATAAAAATTGGAGAAATTGAAGGGAATTTAACTGGACGAGTTTAAGTCGATTGGGGAGTGTA
GGTTTGTATTTTTATTTATTATTTATTTATTTTTAGTATATATATGTGTGTCGTATGGGCAAGTA
AGGGCATTTGTTGTTTTTGTGTGCTTCAGTCGCATATCATCTCCTCTTTTCTTTAAGCCAAACTC
TTGATCTTTTCTTCCCTATTTTAATCGAATCAACCTCTTCCCTCTTCAACTTAGCCAACTATTTC
TTTTTCATTTAAAAGACGAGTCATACACTTTGGGGGTTTGATTTCTTGTTGGCAAGCGATCTCGC
AATCGGTAAGTGC
Found at i:56335420 original size:24 final size:24
Alignment explanation
Indices: 56335388--56335434 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
56335378 GTAGATCGGT
56335388 AAATCCCAAAAAGCTGAAATGCCG
1 AAATCCCAAAAAGCTGAAATGCCG
*
56335412 AAATGCCAAAAAGCTGAAATGCC
1 AAATCCCAAAAAGCTGAAATGCC
56335435 AAAAGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (24 bp):
AAATCCCAAAAAGCTGAAATGCCG
Found at i:56335446 original size:15 final size:16
Alignment explanation
Indices: 56335412--56335446 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
56335402 TGAAATGCCG
*
56335412 AAATGCCAAAAAGCTG
1 AAATGCCAAAAAGCTA
56335428 AAATGCC-AAAAGCTA
1 AAATGCCAAAAAGCTA
56335443 AAAT
1 AAAT
56335447 TTTGGCTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.17, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATGCCAAAAAGCTA
Found at i:56335698 original size:28 final size:28
Alignment explanation
Indices: 56335666--56335744 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
56335656 ACTATAAAAG
56335666 TGATTGGGCCTAGTGGGCCATAT-AGATC
1 TGATTGGGCCTAGTGGGCCATATGA-ATC
* * *
56335694 TGATTTGGGCCTAATGGGCGATATGAATG
1 TGA-TTGGGCCTAGTGGGCCATATGAATC
*
56335723 AGATTGGGCCTAGTGGGCCATA
1 TGATTGGGCCTAGTGGGCCATA
56335745 AGCATGTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.47
29 22 0.51
30 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
TGATTGGGCCTAGTGGGCCATATGAATC
Found at i:56335706 original size:29 final size:28
Alignment explanation
Indices: 56335667--56335744 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
56335657 CTATAAAAGT
*
56335667 GATTGGGCCTAGTGGGCCATATAGATCTGA
1 GATTGGGCCTAGTGGGCCATAT-GA-ATGA
* * *
56335697 -TTTGGGCCTAATGGGCGATATGAATGA
1 GATTGGGCCTAGTGGGCCATATGAATGA
56335724 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGCCATA
56335745 AGCATGTATG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.08
28 19 0.47
29 18 0.45
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATGAATGA
Found at i:56336436 original size:11 final size:11
Alignment explanation
Indices: 56336420--56336445 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56336410 GTTGTACGTA
56336420 TGATATTATTG
1 TGATATTATTG
56336431 TGATATTATTG
1 TGATATTATTG
56336442 TGAT
1 TGAT
56336446 GTAGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:56338084 original size:18 final size:20
Alignment explanation
Indices: 56338048--56338094 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
56338038 TTGTAAGTAT
56338048 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
56338068 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
56338087 ATGATATA
1 AT-ATATA
56338095 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:56338567 original size:50 final size:49
Alignment explanation
Indices: 56338502--56338890 Score: 323
Period size: 50 Copynumber: 7.8 Consensus size: 49
56338492 TTAGGTCATG
* ** *
56338502 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTTCTAGTTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG-TCACA
* ** * * * *
56338552 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTC-GATAGTTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-ATAG-TCACA
* * * * *
56338603 TGTGCAGTACTAAGTGCAGGCTACTACGTGTAACATATGGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT-AGTCACA
* * * * * *
56338653 TGTGTAGTACTAAGTGCGGGCTATTACATGTACCGGATTGATAGGTCTCT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA-GTCACA
* * * *
56338703 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TTAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG-TCACA
* ** *
56338754 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAAGGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT-AGTCACA
* * * * **
56338804 TGTGTAGTAATAAGTGTAGGATACTACGTGTACCAGCTTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA-GTCACA
* *
56338854 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
56338891 GAGCTTCGGT
Statistics
Matches: 265, Mismatches: 63, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
49 5 0.02
50 183 0.69
51 76 0.29
52 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGTCACA
Found at i:56338758 original size:101 final size:101
Alignment explanation
Indices: 56338648--56338879 Score: 252
Period size: 101 Copynumber: 2.3 Consensus size: 101
56338638 TATGGATAAG
* * * * ** * * * *
56338648 TCACGTGTGTAGTACTAAGTGCGGGCTATTACATGTACCGGATTGATAGGTCTCTTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAAGGATAAGTCACGTGTGTAGTAA
* *
56338713 TAAGTGCAGGCTACTATGTGTACCCGTTAACTTCGA
66 TAAGTGCAGGATACTACGTGTACCCGTTAACTTCGA
* *
56338749 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAAGGATAAGTCACGTGTGTAGTAA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAAGGATAAGTCACGTGTGTAGTAA
* * * * *
56338814 TAAGTGTAGGATACTACGTGTACCAGCTTGA--TAGG
66 TAAGTGCAGGATACTACGTGTACCCG-TTAACTTCGA
**
56338849 TTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
56338880 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
100 31 0.28
101 75 0.69
102 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAAGGATAAGTCACGTGTGTAGTAA
TAAGTGCAGGATACTACGTGTACCCGTTAACTTCGA
Found at i:56338898 original size:151 final size:150
Alignment explanation
Indices: 56338448--56338898 Score: 555
Period size: 151 Copynumber: 3.0 Consensus size: 150
56338438 TGCGAGAACT
* * * * ** * *
56338448 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCATGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-AG-GATAAGTCACGTGTGTAGTACT
**
56338513 AAGTGTAGGCTACTACGTGTACCAGATTTCTA-GTTCGCATGTGTAGTACTAAGTGCAGGCTACT
64 AAGTGTAGGCTACTACGTGTACCAGATTGATAGGTT-GCATGTGTAGTACTAAGTGCAGGCTACT
* *
56338577 ATGCATACTCGATAGTTTCGATCA
128 ATGCGTAC-CGATAGCTTCGATCA
* * * * *
56338601 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTAACATATGGATAAGTCACGTGTGTAGTACTAA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAAGGATAAGTCACGTGTGTAGTACTAA
** * * * *
56338666 GTGCGGGCTATTACATGTACCGGATTGATAGGTCT-CTTGTGTAGTACTAAGTGCAGGCTACTAT
66 GTGTAGGCTACTACGTGTACCAGATTGATAGGT-TGCATGTGTAGTACTAAGTGCAGGCTACTAT
* * *
56338730 GTGTACCCGTTAACTTCGATCA
130 GCGTA-CCGATAGCTTCGATCA
*
56338752 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAAGGATAAGTCACGTGTGTAGTAATAA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAAGGATAAGTCACGTGTGTAGTACTAA
* *
56338817 GTGTAGGATACTACGTGTACCAGCTTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATG
*
56338882 CGTACCAGAGAGCTTCG
131 CGTACC-GATAGCTTCG
56338899 GTTACAAGGG
Statistics
Matches: 249, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
150 3 0.01
151 210 0.84
152 4 0.02
153 32 0.13
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (150 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAAGGATAAGTCACGTGTGTAGTACTAA
GTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATG
CGTACCGATAGCTTCGATCA
Found at i:56339746 original size:179 final size:181
Alignment explanation
Indices: 56339436--56339761 Score: 467
Period size: 181 Copynumber: 1.8 Consensus size: 181
56339426 TCAATAGCTG
* * * * *
56339436 TACCATGAGATAAATAGTTTTTGGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAACAGGGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAGGGGTAT
* * * *
56339501 ATTTAATGAATAAACTGTGCTAATTTACTAAACTAAAAAATTCTAAAAATTTTATTGTAAGAATA
66 ATTTAATGAATAAAATGTACTAATTGACTAAACTAAAAAATTCTAAAAATTTTATAGTAAGAATA
* *
56339566 TATGTGAATCTAGTTTCTTGGAAAATTATTGGTTCTCAATTTGGAGTCTCA
131 TATATGAATATAGTTTCTTGGAAAATTATTGGTTCTCAATTTGGAGTCTCA
* * * * *
56339617 TACCATGAAATAAATAATTTTTAGTGAAGAGATGTTAGAACTATCGGATAGTGAAATA-GGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAGGGGTAT
* * *
56339681 GTTTAATGAATAAAATGTACTAATTGGCTTAACT-AAAAATTCTAAAAATTTTATAGTAAGAATA
66 ATTTAATGAATAAAATGTACTAATTGACTAAACTAAAAAATTCTAAAAATTTTATAGTAAGAATA
56339745 TATATGAATATAGTTTC
131 TATATGAATATAGTTTC
56339762 AGATAAAATT
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
179 44 0.35
180 34 0.27
181 48 0.38
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (181 bp):
TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAGGGGTAT
ATTTAATGAATAAAATGTACTAATTGACTAAACTAAAAAATTCTAAAAATTTTATAGTAAGAATA
TATATGAATATAGTTTCTTGGAAAATTATTGGTTCTCAATTTGGAGTCTCA
Found at i:56339810 original size:179 final size:181
Alignment explanation
Indices: 56339436--56339791 Score: 439
Period size: 179 Copynumber: 2.0 Consensus size: 181
56339426 TCAATAGCTG
* * * * *
56339436 TACCATGAGATAAATAGTTTTTGGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAACAGGGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAGGGGTAT
* * * *
56339501 ATTTAATGAATAAACTGTGCTAATTTACTAAACTAAAAAATTCTAAAAATTTTATTGTAAGAATA
66 ATTTAATGAATAAAATGTACTAATTGACTAAACTAAAAAATTCTAAAAATTTTATAGTAAGAATA
* * * *** *
56339566 TATGTGAATCTAGTTTCTTGGAAAATTATTGGTTCTCAATTTGGAGTCTCA
131 TATATGAATATAGTTTCTAGGAAAATTAACAGATCTCAATTTGGAGTCTCA
* * * * *
56339617 TACCATGAAATAAATAATTTTTAGTGAAGAGATGTTAGAACTATCGGATAGTGAAATA-GGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAGGGGTAT
* * *
56339681 GTTTAATGAATAAAATGTACTAATTGGCTTAACT-AAAAATTCTAAAAATTTTATAGTAAGAATA
66 ATTTAATGAATAAAATGTACTAATTGACTAAACTAAAAAATTCTAAAAATTTTATAGTAAGAATA
* * *
56339745 TATATGAATATAGTTTC-AGATAAAATTAACAGATCTTAATTTTGAGT
131 TATATGAATATAGTTTCTAG-GAAAATTAACAGATCTCAATTTGGAGT
56339792 TTTTTATATT
Statistics
Matches: 147, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
178 1 0.01
179 64 0.44
180 34 0.23
181 48 0.33
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (181 bp):
TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAGGGGTAT
ATTTAATGAATAAAATGTACTAATTGACTAAACTAAAAAATTCTAAAAATTTTATAGTAAGAATA
TATATGAATATAGTTTCTAGGAAAATTAACAGATCTCAATTTGGAGTCTCA
Found at i:56342515 original size:40 final size:40
Alignment explanation
Indices: 56342438--56342655 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
56342428 AAACCAAGTA
* *
56342438 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56342477 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56342517 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56342557 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56342597 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56342637 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56342656 TTATCATCTG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 149 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56349566 original size:29 final size:29
Alignment explanation
Indices: 56349533--56349606 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
56349523 GTTGTGAGAT
* *
56349533 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
56349562 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
56349591 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56349607 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:56351908 original size:17 final size:18
Alignment explanation
Indices: 56351876--56351909 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56351866 TAGATACAAA
56351876 ATTTTTCAAAACTTAAAC
1 ATTTTTCAAAACTTAAAC
*
56351894 ATTTTTCTAAA-TTAAA
1 ATTTTTCAAAACTTAAA
56351910 AAGGTCACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTTCAAAACTTAAAC
Found at i:56353418 original size:27 final size:27
Alignment explanation
Indices: 56353369--56353597 Score: 298
Period size: 27 Copynumber: 8.5 Consensus size: 27
56353359 TATAAACATA
*
56353369 TATCACATAGGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* * *
56353396 TACCATATAAGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* * *
56353423 TACCACATGAGGGAAAAAT-GATCATTT
1 TATCACATAAGGGCAAAATAG-TCATTT
56353450 TATCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
56353477 TATTACATAAGGGTAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
56353504 TATTACATAAGGGAAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
56353531 TATCACATAAAGGCAAAATAATCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* * *
56353558 TATTACATAAGGGAAAAATATTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
56353585 TATCACATAAGGG
1 TATCACATAAGGG
56353598 GGTCTGTTGT
Statistics
Matches: 177, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 175 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
TATCACATAAGGGCAAAATAGTCATTT
Found at i:56358694 original size:27 final size:27
Alignment explanation
Indices: 56358664--56358755 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
56358654 ATTACCAAAG
* *
56358664 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
56358691 TACCCTTGATTTACAGAAATACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
56358718 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
56358745 TACCCTCGATT
1 TACCCTCGATT
56358756 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:56358880 original size:27 final size:26
Alignment explanation
Indices: 56358787--56358880 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
56358777 TATAGGGTAG
56358787 AATTACCAAAATA--CTAGTTTGTAA
1 AATTACCAAAATACCCTAGTTTGTAA
* *
56358811 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* *
56358838 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
56358865 AATTACCAAAATACCC
1 AATTACCAAAATACCC
56358881 CTAATTTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.22
26 2 0.03
27 44 0.75
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:56358903 original size:54 final size:54
Alignment explanation
Indices: 56358804--56358908 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
56358794 AAAATACTAG
** *** * *
56358804 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAACTACAGAAATACCCTCAA
*
56358858 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAACTACAGAAATACCCT
56358909 TGACTTTCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTACAAAACTACAGAAATACCCTCAA
Found at i:56358958 original size:27 final size:27
Alignment explanation
Indices: 56358919--56358970 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56358909 TGACTTTCTA
56358919 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
56358946 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
56358971 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:56360208 original size:31 final size:30
Alignment explanation
Indices: 56360155--56360236 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
56360145 CGCTTACAGT
56360155 AAAGGCTTCGG-CCAGTGATATGATTTATG
1 AAAGGCTTCGGCCCAGTGATATGATTTATG
*
56360184 AAAAGGCTTCGGCCCATTGATATGATTTATG
1 -AAAGGCTTCGGCCCAGTGATATGATTTATG
*
56360215 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
56360237 TCGACTGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 5 0.10
30 26 0.54
31 17 0.35
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:56361098 original size:13 final size:13
Alignment explanation
Indices: 56361058--56361090 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
56361048 TAGCAGAAAA
56361058 TTATTGTTATT-TT
1 TTATT-TTATTATT
56361071 TTATTTTATTATT
1 TTATTTTATTATT
56361084 TTATTTT
1 TTATTTT
56361091 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:56362359 original size:142 final size:142
Alignment explanation
Indices: 56362103--56362387 Score: 554
Period size: 142 Copynumber: 2.0 Consensus size: 142
56362093 GAGTGGATGC
56362103 GAAGCTGGCTTTAATAGAGAGAACCATGAGGAGAGTAAACGGTACCTTTCTTGGCTGATCCCTTT
1 GAAGCTGGCTTTAATAGAGAGAACCATGAGGAGAGTAAACGGTACCTTTCTTGGCTGATCCCTTT
56362168 CGCTTTAAGGCGTGCTCGTTTGGGTTGGGCGTCGGCTAAGAGTGCTCGGAGCGCGGATTAACTCC
66 CGCTTTAAGGCGTGCTCGTTTGGGTTGGGCGTCGGCTAAGAGTGCTCGGAGCGCGGATTAACTCC
56362233 AGTCTCCTATCA
131 AGTCTCCTATCA
56362245 GAAGCTGGCTTTAAATAGAGAGAACCATGAGGAGAGTAAA-GGTACCTTTCTTGGCTGATCCCTT
1 GAAGCTGGCTTT-AATAGAGAGAACCATGAGGAGAGTAAACGGTACCTTTCTTGGCTGATCCCTT
56362309 TCGCTTTAAGGCGTGCTCGTTTGGGTTGGGCGTCGGCTAAGAGTGCTCGGAGCGCGGATTAACTC
65 TCGCTTTAAGGCGTGCTCGTTTGGGTTGGGCGTCGGCTAAGAGTGCTCGGAGCGCGGATTAACTC
56362374 CAGTCTCCTATCA
130 CAGTCTCCTATCA
56362387 G
1 G
56362388 GTGTGTATTT
Statistics
Matches: 142, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
142 115 0.81
143 27 0.19
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (142 bp):
GAAGCTGGCTTTAATAGAGAGAACCATGAGGAGAGTAAACGGTACCTTTCTTGGCTGATCCCTTT
CGCTTTAAGGCGTGCTCGTTTGGGTTGGGCGTCGGCTAAGAGTGCTCGGAGCGCGGATTAACTCC
AGTCTCCTATCA
Found at i:56365119 original size:30 final size:30
Alignment explanation
Indices: 56365085--56365145 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56365075 TCCTTAACTC
56365085 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56365115 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56365145 A
1 A
56365146 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56366276 original size:27 final size:27
Alignment explanation
Indices: 56366246--56366337 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
56366236 ATTACCAAAG
* *
56366246 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
56366273 TACCCTTGATTTACAGAAATACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
56366300 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
56366327 TACCCTCGATT
1 TACCCTCGATT
56366338 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:56366462 original size:27 final size:26
Alignment explanation
Indices: 56366369--56366462 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
56366359 TATAGGGTAG
56366369 AATTACCAAAATA--CTAGTTTGTAA
1 AATTACCAAAATACCCTAGTTTGTAA
* *
56366393 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* *
56366420 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
56366447 AATTACCAAAATACCC
1 AATTACCAAAATACCC
56366463 CTAATTTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.22
26 2 0.03
27 44 0.75
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:56366485 original size:54 final size:54
Alignment explanation
Indices: 56366386--56366490 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
56366376 AAAATACTAG
** *** * *
56366386 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAACTACAGAAATACCCTCAA
*
56366440 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAACTACAGAAATACCCT
56366491 TGACTTTCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTACAAAACTACAGAAATACCCTCAA
Found at i:56366540 original size:27 final size:27
Alignment explanation
Indices: 56366501--56366552 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56366491 TGACTTTCTA
56366501 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
56366528 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
56366553 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:56367785 original size:31 final size:31
Alignment explanation
Indices: 56367732--56367814 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
56367722 CGCTTACAGT
56367732 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
56367762 AAAGGCTTCGGCCCATTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
56367793 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
56367815 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 16 0.33
31 33 0.67
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:56368702 original size:13 final size:13
Alignment explanation
Indices: 56368662--56368694 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
56368652 TAGCAGAAAA
56368662 TTATTGTTATT-TT
1 TTATT-TTATTATT
56368675 TTATTTTATTATT
1 TTATTTTATTATT
56368688 TTATTTT
1 TTATTTT
56368695 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:56370233 original size:27 final size:27
Alignment explanation
Indices: 56370163--56370252 Score: 130
Period size: 26 Copynumber: 3.4 Consensus size: 27
56370153 ATTACCAAAG
* *
56370163 TACCCTCGATTTATAGAATTACT-TTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
56370189 TACCCTTGATTTAC-AAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
56370215 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
56370242 TACCCTCGATT
1 TACCCTCGATT
56370253 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
25 7 0.12
26 28 0.49
27 22 0.39
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:56370271 original size:26 final size:25
Alignment explanation
Indices: 56370242--56370377 Score: 105
Period size: 27 Copynumber: 5.2 Consensus size: 25
56370232 ATTACCGTTT
**
56370242 TACCCTCGATTGTGAAATTACTGAAA
1 TACCCT-GATTGTGAAATTACCAAAA
*
56370268 TACCCT-ATAG-GTAGAATTACCAAAA
1 TACCCTGATTGTG-A-AATTACCAAAA
* *
56370293 TACCCCTAGTTTGTAAAATTACCAAAA
1 TA-CCCT-GATTGTGAAATTACCAAAA
* *
56370320 TACCACTGTTTGTGAAATTACCGAAA
1 TACC-CTGATTGTGAAATTACCAAAA
* *
56370346 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCT-GA-TTGTGAAATTACCAAAA
56370373 TACCC
1 TACCC
56370378 CTATTTACAA
Statistics
Matches: 89, Mismatches: 12, Indels: 17
0.75 0.10 0.14
Matches are distributed among these distances:
23 1 0.01
24 4 0.04
25 13 0.15
26 33 0.37
27 35 0.39
28 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (25 bp):
TACCCTGATTGTGAAATTACCAAAA
Found at i:56370272 original size:53 final size:52
Alignment explanation
Indices: 56370138--56370273 Score: 141
Period size: 53 Copynumber: 2.6 Consensus size: 52
56370128 TACAGAAATG
* * * *
56370138 CCCTCGACTTGTAAAATTAC-CAAAGTACCCTCGATTTATAGAATTACTTTTTA
1 CCCTCGA-TTGTAAAATTACTGAAA-TACCCTCGATTTACAAAATTACGTTTTA
* ***
56370191 CCCTTGATT-TACAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTGTA-AAATTACTGAAATACCCTCGATTTACAAAATTA-CGTTTTA
*
56370244 CCCTCGATTGTGAAATTACTGAAATACCCT
1 CCCTCGATTGTAAAATTACTGAAATACCCT
56370274 ATAGGTAGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
51 2 0.03
52 28 0.42
53 35 0.53
54 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (52 bp):
CCCTCGATTGTAAAATTACTGAAATACCCTCGATTTACAAAATTACGTTTTA
Found at i:56370349 original size:53 final size:54
Alignment explanation
Indices: 56370282--56370459 Score: 164
Period size: 53 Copynumber: 3.3 Consensus size: 54
56370272 CTATAGGTAG
* * * ***
56370282 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCACTGTTTGTGA
1 AATTACCGAAATACCCCTCAATTTGTAAAATTACCAAAATACCACTATTTACAA
*
56370335 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTATTTACAA
1 AATTACCGAAATACCCCTCAATTTGTAAAATTACCAAAATACCACTATTTACAA
* * * * * * * *
56370388 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCCTCAATTTGT-AAAATTACCA-AAATACCACT-ATTTACAA
*
56370444 AATTACTGAAATACCC
1 AATTACCGAAATACCC
56370460 TTGGTTTGTA
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
52 4 0.04
53 53 0.51
54 9 0.09
55 15 0.15
56 22 0.21
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCCCTCAATTTGTAAAATTACCAAAATACCACTATTTACAA
Found at i:56370390 original size:26 final size:26
Alignment explanation
Indices: 56370251--56370403 Score: 148
Period size: 26 Copynumber: 5.8 Consensus size: 26
56370241 TTACCCTCGA
* **
56370251 TTGTGAAATTACTGAAATA-CCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
** *
56370276 AGGTAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTA-T
* *
56370303 TTGTAAAATTACCAAAATACCACTGT
1 TTGTAAAATTACCAAAATACCCCTAT
* * *
56370329 TTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCC-CTAT
56370356 TTGTAAAATTACCAAAATACCCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
**
56370382 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
56370404 TTGACTTTCT
Statistics
Matches: 103, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
25 15 0.15
26 45 0.44
27 43 0.42
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTAT
Found at i:56370454 original size:27 final size:27
Alignment explanation
Indices: 56370381--56370466 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
56370371 AATACCCCTA
* *
56370381 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
56370409 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
56370437 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
56370464 TTT
1 TTT
56370467 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:56370549 original size:26 final size:27
Alignment explanation
Indices: 56370507--56370579 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
56370497 AAATGACTAA
*
56370507 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
* **
56370534 AA-AGCCCTGTAGGGTAAAGTGACCGT
1 AATACCCCTGTAGGGTAAAAAGACCGT
*
56370560 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
56370580 TGACGAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.05
26 19 0.51
27 16 0.43
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:56370576 original size:27 final size:26
Alignment explanation
Indices: 56370520--56370583 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
56370510 ACCCCTAATA
* *
56370520 GGTAAAAAGACCGTAAAGCCCTGTAG
1 GGTAAAATGACCGTAAACCCCTGTAG
* *
56370546 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-ACCCCTGTAG
56370573 GGTAAAATGAC
1 GGTAAAATGAC
56370584 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGTAAACCCCTGTAG
Found at i:56371468 original size:24 final size:25
Alignment explanation
Indices: 56371392--56371461 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
56371382 AGGAAGTGCT
* * *
56371392 AAAAGGGCTATGCCCCAGTTTA-CGG
1 AAAAGGGCTTTGCTCCAGTTTATC-A
56371417 AAAAGGGCTTTGCTCCAGTTTATCA
1 AAAAGGGCTTTGCTCCAGTTTATCA
56371442 AAAAGGGCTTTGCTCCAGTT
1 AAAAGGGCTTTGCTCCAGTT
56371462 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 40 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCTCCAGTTTATCA
Found at i:56371474 original size:24 final size:24
Alignment explanation
Indices: 56371417--56371488 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
56371407 CAGTTTACGG
56371417 AAAAG-GGCTTTGCTCCAGTTTATC
1 AAAAGAGGCTTTGCTCCAG-TTATC
*
56371441 AAAA-AGGGCTTTGCTCCAGTTATT
1 AAAAGA-GGCTTTGCTCCAGTTATC
**
56371465 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTG-CTCCAGTTAT
56371489 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 17 0.41
25 24 0.59
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGAGGCTTTGCTCCAGTTATC
Found at i:56371730 original size:31 final size:31
Alignment explanation
Indices: 56371681--56371756 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
56371671 CACTTACAGT
*
56371681 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
56371711 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
56371742 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
56371757 ATATATGTCG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 9 0.21
31 33 0.79
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:56375690 original size:27 final size:26
Alignment explanation
Indices: 56375659--56375877 Score: 233
Period size: 27 Copynumber: 8.1 Consensus size: 26
56375649 TATCACATAG
*
56375659 GGGCAAAATAGTCGTTTTACAACATGA
1 GGGCAAAATAGTCATTTTAC-ACATGA
*
56375686 GGGCAAAACAGTCATTTTACCACATGA
1 GGGCAAAATAGTCATTTTA-CACATGA
* *
56375713 GGACAAAACAGTCATTTTACCACATGA
1 GGGCAAAATAGTCATTTTA-CACATGA
* * *
56375740 GGGAAAAATAGTCATTTTATCATATAA
1 GGGCAAAATAGTCATTTTA-CACATGA
* *
56375767 GGGCAAAATAGTCATTTTATTACATAA
1 GGGCAAAATAGTCATTTTA-CACATGA
*
56375794 GGGCAAAATTGTCATTTTATCACA-GAA
1 GGGCAAAATAGTCATTTTA-CACATG-A
*
56375821 GGGCAAAATAGTCATTTTATCACATAA
1 GGGCAAAATAGTCATTTTA-CACATGA
* *
56375848 GGGCAAAATATTCATTTTATCACATAA
1 GGGCAAAATAGTCATTTTA-CACATGA
56375875 GGG
1 GGG
56375878 TGTCTAGTGT
Statistics
Matches: 171, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 170 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (26 bp):
GGGCAAAATAGTCATTTTACACATGA
Found at i:56375738 original size:54 final size:54
Alignment explanation
Indices: 56375649--56375877 Score: 273
Period size: 54 Copynumber: 4.2 Consensus size: 54
56375639 TATAAATATA
* * * *
56375649 TATCACAT-AGGGGCAAAATAGTCGTTTTACAACATGAGGGCAAAACAGTCATTT
1 TATCACATGA-GGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
* * * * *
56375703 TACCACATGAGGACAAAACAGTCATTTTACCACATGAGGGAAAAATAGTCATTT
1 TATCACATGAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
* * ** *
56375757 TATCATATAAGGGCAAAATAGTCATTTTATTACATAAGGGCAAAATTGTCATTT
1 TATCACATGAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
* *
56375811 TATCACA-GAAGGGCAAAATAGTCATTTTATCACATAAGGGCAAAATATTCATTT
1 TATCACATG-AGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
*
56375865 TATCACATAAGGG
1 TATCACATGAGGG
56375878 TGTCTAGTGT
Statistics
Matches: 149, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
54 148 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (54 bp):
TATCACATGAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
Found at i:56375801 original size:81 final size:81
Alignment explanation
Indices: 56375663--56375877 Score: 281
Period size: 81 Copynumber: 2.7 Consensus size: 81
56375653 ACATAGGGGC
* * * * * *
56375663 AAAATAGTCGTTTTA-CAACATGAGGGCAAAACAGTCATTTTACCACATGAGGACAAAACAGTCA
1 AAAATAGTCATTTTATC-ACATAAGGGCAAAATAGTCATTTTATCACATAAGGGCAAAACAGTCA
56375727 TTTTACCACATG-AGGGA
65 TTTTACCACA-GAAGGGA
* * **
56375744 AAAATAGTCATTTTATCATATAAGGGCAAAATAGTCATTTTATTACATAAGGGCAAAATTGTCAT
1 AAAATAGTCATTTTATCACATAAGGGCAAAATAGTCATTTTATCACATAAGGGCAAAACAGTCAT
* *
56375809 TTTATCACAGAAGGGC
66 TTTACCACAGAAGGGA
*
56375825 AAAATAGTCATTTTATCACATAAGGGCAAAATATTCATTTTATCACATAAGGG
1 AAAATAGTCATTTTATCACATAAGGGCAAAATAGTCATTTTATCACATAAGGG
56375878 TGTCTAGTGT
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 115 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (81 bp):
AAAATAGTCATTTTATCACATAAGGGCAAAATAGTCATTTTATCACATAAGGGCAAAACAGTCAT
TTTACCACAGAAGGGA
Found at i:56377918 original size:37 final size:37
Alignment explanation
Indices: 56377868--56377942 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
56377858 TGTTAATGCC
*
56377868 TTGTAATCCTAATCCGACGACGGATACGGGTTAGGGG
1 TTGTAATCCTAATCCAACGACGGATACGGGTTAGGGG
56377905 TTGTAATCCTAATCCAACGACGGATACGGGTTAGGGG
1 TTGTAATCCTAATCCAACGACGGATACGGGTTAGGGG
56377942 T
1 T
56377943 CTTACATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TTGTAATCCTAATCCAACGACGGATACGGGTTAGGGG
Found at i:56378734 original size:16 final size:17
Alignment explanation
Indices: 56378713--56378751 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
56378703 AGTGTAACGC
56378713 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
*
56378729 CCCAAAAATCTCGAAAT
1 CCCAAAAATCCCGAAAT
56378746 CCCAAA
1 CCCAAA
56378752 CTTTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:56382573 original size:29 final size:29
Alignment explanation
Indices: 56382458--56382573 Score: 151
Period size: 29 Copynumber: 4.0 Consensus size: 29
56382448 TGAATGTAAG
* * * *
56382458 GTGATTTGGGCCTAACAGGCCATATAAAG
1 GTGAATTGGGCCTAATAGGCCATATGAAT
* *
56382487 GTGATTTGGGCCTAATAGGCCATACGAAT
1 GTGAATTGGGCCTAATAGGCCATATGAAT
* * *
56382516 ATGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATAGGCCATATGAAT
56382545 GTGAATTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATAGGCCATATGAAT
56382574 AAGATGGGCC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
GTGAATTGGGCCTAATAGGCCATATGAAT
Found at i:56382592 original size:27 final size:29
Alignment explanation
Indices: 56382492--56382597 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
56382482 TAAAGGTGAT
* * *
56382492 TTGGGCCTAATAGGCCATACGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* **
56382521 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
*
56382550 TTGGGCCTAATAGGCCATATGAATAAG-A
1 TTGGGCCTAATGGGCCATATGAATAAGAA
56382578 -TGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
56382598 CATGTATGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.03
27 16 0.24
28 1 0.01
29 48 0.72
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:56382610 original size:56 final size:58
Alignment explanation
Indices: 56382475--56382602 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 58
56382465 GGGCCTAACA
* * * * *
56382475 GGCCATATAAAGGTGATTTGGGCCTAATAGGCCATACGAATATGAATTGGGCCTGATG
1 GGCCATATGAATGTGAATTGGGCCTAATAGGCCATACGAATAAGAATTGGGCCAGATG
*
56382533 GGCCATATGAATGTGAATTGGGCCTAATAGGCCATATGAATAAG-A-TGGGCCA-AGTG
1 GGCCATATGAATGTGAATTGGGCCTAATAGGCCATACGAATAAGAATTGGGCCAGA-TG
*
56382589 GGCCATATGCATGT
1 GGCCATATGAATGT
56382603 ATGTTGGGGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
55 1 0.02
56 21 0.34
57 1 0.02
58 39 0.63
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (58 bp):
GGCCATATGAATGTGAATTGGGCCTAATAGGCCATACGAATAAGAATTGGGCCAGATG
Found at i:56382898 original size:27 final size:26
Alignment explanation
Indices: 56382857--56382909 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
56382847 AACCGTAATT
* *
56382857 AAGGGAAAATTACCAAAATGCCCCTA
1 AAGGGAAAATAACCAAAATACCCCTA
56382883 AAGGCGAAAATAACCAAAATACCCCTA
1 AAGG-GAAAATAACCAAAATACCCCTA
56382910 GGTGTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.49, C:0.25, G:0.13, T:0.13
Consensus pattern (26 bp):
AAGGGAAAATAACCAAAATACCCCTA
Found at i:56385659 original size:46 final size:46
Alignment explanation
Indices: 56385592--56385818 Score: 201
Period size: 47 Copynumber: 4.9 Consensus size: 46
56385582 TGTAACCCGC
* * *
56385592 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCT-ACAT
* *
56385638 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTACTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTACAT
* *** **
56385684 ACATCTCTCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGCCTACAT
* * * * * *
56385731 ACAT-CGCTCGAACTCGAACTCAACTCAACGAGTTCGGA--CATTCGCAT
1 CCATAAG-T-GAACTCGGACTCAACTCAACGAGCTCGGATGC-CT-ACAT
* *
56385778 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
56385819 CAAATATCCT
Statistics
Matches: 149, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.48
47 74 0.50
48 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTACAT
Found at i:56387782 original size:15 final size:15
Alignment explanation
Indices: 56387743--56387815 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
56387733 CAAGAAAACC
*
56387743 GAATAAAGAAATCCAA
1 GAATAAAGAAA-CCTA
*
56387759 G-ATAGAGAAACCTA
1 GAATAAAGAAACCTA
*
56387773 GAATAAAGAAATCTA
1 GAATAAAGAAACCTA
*
56387788 GAATAAAGAGATCC-A
1 GAATAAAGA-AACCTA
*
56387803 GGATAAAGAAACC
1 GAATAAAGAAACC
56387816 CAAGATACGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 7 0.15
15 37 0.79
16 3 0.06
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.14
Consensus pattern (15 bp):
GAATAAAGAAACCTA
Found at i:56390818 original size:46 final size:46
Alignment explanation
Indices: 56390647--56390814 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
56390637 ATTTTACCCG
* * *
56390647 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCC
* * *
56390693 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC-C
* *
56390744 -T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCC
56390786 ATAAGTGAACTCGGACTCAACTCAACGAG
1 ATAAGTGAACTCGGACTCAACTCAACGAG
56390815 TTCGAATGCC
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 56 0.55
47 27 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCC
Found at i:56390824 original size:93 final size:93
Alignment explanation
Indices: 56390653--56390824 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
56390643 CCCGATAAGT
* *
56390653 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
56390718 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
* *
56390746 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56390811 CGAGTTCGAATGCC
66 CGAGCTCGAATGCC
56390825 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:56392515 original size:16 final size:16
Alignment explanation
Indices: 56392489--56392529 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
56392479 GAGTTGTAAC
*
56392489 ACCCTAAAAATCCTGAA
1 ACCC-AAAAATCCCGAA
56392506 ACCCAAAAATCCCGAA
1 ACCCAAAAATCCCGAA
56392522 ATCCCAAA
1 A-CCCAAA
56392530 CTTTCTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.49, C:0.34, G:0.05, T:0.12
Consensus pattern (16 bp):
ACCCAAAAATCCCGAA
Found at i:56393734 original size:16 final size:16
Alignment explanation
Indices: 56393713--56393743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56393703 ATCGGCAAAA
*
56393713 GCTAAAAAGTTGAAAT
1 GCTAAAAAGCTGAAAT
56393729 GCTAAAAAGCTGAAA
1 GCTAAAAAGCTGAAA
56393744 GTTTGGCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (16 bp):
GCTAAAAAGCTGAAAT
Found at i:56394011 original size:29 final size:28
Alignment explanation
Indices: 56393955--56394012 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
56393945 GTGAGCATGA
*
56393955 ATATAAGGTGATTTGGGCCTAACGGGCC
1 ATATAAGGTGATTTGGGCCTAACAGGCC
*
56393983 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATAT-AAGGTGATTTGGGCCTAACAGGCC
56394012 A
1 A
56394013 AAAGAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAACAGGCC
Found at i:56394048 original size:29 final size:29
Alignment explanation
Indices: 56393967--56394048 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
56393957 ATAAGGTGAT
* * ** *
56393967 TTGGGCCTAACGGGCCATATAAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
56393996 TTGGGCCTAATAGGCCAAAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
*
56394025 TTGGGCCTGATGGGCCATATGAAT
1 TTGGGCCTAATGGGCCATATGAAT
56394049 GAGATGGGCC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:56400559 original size:26 final size:26
Alignment explanation
Indices: 56400523--56400576 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
56400513 TGGATGAATA
56400523 ATATTTGTCATAGTGTTTTGTGGGGC
1 ATATTTGTCATAGTGTTTTGTGGGGC
56400549 ATATTTGTCATAGTGTTTTGTGGGGC
1 ATATTTGTCATAGTGTTTTGTGGGGC
56400575 AT
1 AT
56400577 TGAAGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.46
Consensus pattern (26 bp):
ATATTTGTCATAGTGTTTTGTGGGGC
Found at i:56401807 original size:43 final size:44
Alignment explanation
Indices: 56401706--56401821 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 44
56401696 TTCTAGACGT
* * * *
56401706 GGTCTTACATGT-TATCAAATATCGGTGCCACTATCCTAGACAG
1 GGTCTTACATGTAAATCAAATATCGATGCCACTATCCCAGACAA
* *
56401749 GGTCTTACACG-AAATCAAATAT-GATGCCGA-TGTCCCAGACAA
1 GGTCTTACATGTAAATCAAATATCGATGCC-ACTATCCCAGACAA
*
56401791 GGTCTTACATGTAAATCTCAA-ATCGATGCCA
1 GGTCTTACATGTAAATC-AAATATCGATGCCA
56401822 ACGCCCTAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
42 24 0.40
43 28 0.47
44 8 0.13
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (44 bp):
GGTCTTACATGTAAATCAAATATCGATGCCACTATCCCAGACAA
Found at i:56433455 original size:10 final size:10
Alignment explanation
Indices: 56433408--56433455 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
56433398 TAATGATTAG
*
56433408 TTAATTATAGT
1 TTAATTA-AGA
56433419 TTAATTAA-A
1 TTAATTAAGA
*
56433428 TTAATTAGGA
1 TTAATTAAGA
*
56433438 TTAATTAAGT
1 TTAATTAAGA
56433448 TTAATTAA
1 TTAATTAA
56433456 AGTATATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 7 0.22
10 18 0.56
11 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:56434497 original size:13 final size:14
Alignment explanation
Indices: 56434481--56434510 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
56434471 ATGCTTGATG
56434481 TTAATTGAA-GTAA
1 TTAATTGAATGTAA
56434494 TTAATTGAATGTAA
1 TTAATTGAATGTAA
56434508 TTA
1 TTA
56434511 TTTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTAATTGAATGTAA
Found at i:56436968 original size:15 final size:16
Alignment explanation
Indices: 56436945--56436977 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
56436935 TATTACTTTA
56436945 ATTTATGTTCT-ATTT
1 ATTTATGTTCTAATTT
*
56436960 ATTTGTGTTCTAATTT
1 ATTTATGTTCTAATTT
56436976 AT
1 AT
56436978 ATATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (16 bp):
ATTTATGTTCTAATTT
Found at i:56439919 original size:27 final size:28
Alignment explanation
Indices: 56439889--56439958 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
56439879 CTAGCCGATT
* *
56439889 CCCAATATCAGTAA-CAGTTGGGCCT-AG
1 CCCAATAACAG-AATCAGGTGGGCCTAAG
* *
56439916 CCCATTAACAGAATTAGGTGGGCCTAAG
1 CCCAATAACAGAATCAGGTGGGCCTAAG
56439944 CCCAAT-ACAGAATCA
1 CCCAATAACAGAATCA
56439959 ATATCAGATG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.06
27 26 0.74
28 7 0.20
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (28 bp):
CCCAATAACAGAATCAGGTGGGCCTAAG
Found at i:56440406 original size:27 final size:27
Alignment explanation
Indices: 56440376--56440435 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
56440366 GAGCATAATC
* *
56440376 GTCATTCTACCATACAGGGGTATTATG
1 GTCATTCTACCATACAGGGGCATTACG
* * *
56440403 GTCATTTTTCCCTACAGGGGCATTACG
1 GTCATTCTACCATACAGGGGCATTACG
56440430 GTCATT
1 GTCATT
56440436 TTCCAAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTCTACCATACAGGGGCATTACG
Found at i:56444655 original size:26 final size:26
Alignment explanation
Indices: 56444590--56444673 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
56444580 CTGGAGGCCT
56444590 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
56444614 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* * *
56444640 AACCCTTTTCAATAAACCGGGACAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
56444665 AGCCCTTTT
1 AGCCCTTTT
56444674 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 18 0.37
26 21 0.43
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Done.