Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 170 of 255
Found at i:55797554 original size:48 final size:48
Alignment explanation
Indices: 55797494--55797764 Score: 249
Period size: 48 Copynumber: 5.6 Consensus size: 48
55797484 TATGTGTGCT
* * *
55797494 AGTGTAACACCATGTCTAGGACATGGCGTCGACCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCC
* * * * * * * *
55797542 AATGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCC
* * *** * * * *
55797590 AGTGTAAGACCATGTTTGGGACATGGCATCGGCGTTGACATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCC
* * *
55797638 AGTGTAAGACCATGTTTGGGACATGTCATC-AGCCAC-ATCAGGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACGAT-ATGAGAGCC
* * * *
55797686 AATGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCC
* *
55797734 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
55797765 GCAATTCTCC
Statistics
Matches: 178, Mismatches: 41, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
47 1 0.01
48 175 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCC
Found at i:55797662 original size:96 final size:94
Alignment explanation
Indices: 55797496--55797769 Score: 341
Period size: 96 Copynumber: 2.9 Consensus size: 94
55797486 TGTGTGCTAG
* * * * * * *
55797496 TGTAACACCATGTCTAGGACATGGCGTCGACCACGATATGAGAGCCAATGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
** *
55797561 AACATGGCATCGGCAATGTTGTGAGAGCCAG
66 AACATGGCATCGGCAAT-CAG-GAGAGCCAA
* * * * * *
55797592 TGTAAGACCATGTTTGGGACATGGCATCGGCGTTGACATGTGCGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
* * *
55797657 GACATGTCATCAGCCACATCAGGAGAGCCAA
66 AACATGGCATC-GGCA-ATCAGGAGAGCCAA
55797688 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
55797753 AACATGGCATCGGCAAT
66 AACATGGCATCGGCAAT
55797770 TCTCCCTCTT
Statistics
Matches: 148, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
94 2 0.01
95 3 0.02
96 137 0.93
97 4 0.03
98 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
AACATGGCATCGGCAATCAGGAGAGCCAA
Found at i:55797745 original size:144 final size:144
Alignment explanation
Indices: 55797485--55797766 Score: 372
Period size: 144 Copynumber: 2.0 Consensus size: 144
55797475 TTTGGGTGAT
* * *
55797485 ATGTGTGCTAGTGTAACACCATGTCTAGGACATGGCGTCGACCACGATATGAGAGCCAATGTAAG
1 ATGTGCGCTAGTGTAACACCATGTCTAGGACATGGCATCGACCACGATAGGAGAGCCAATGTAAG
* * *** *
55797550 ACCATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCCAGTGTAAGACCATGTTTGGGACATG
66 ACCATGTCTGGAACATGGCATCGACAATGACATGAGAGCCAGTGTAAGACCATGTTTGGAACATG
55797615 GCATCGGCGTTGAC
131 GCATCGGCGTTGAC
* * * *
55797629 ATGTGCGCTAGTGTAAGACCATGTTTGGGACATGTCATC-AGCCAC-ATCAGGAGAGCCAATGTA
1 ATGTGCGCTAGTGTAACACCATGTCTAGGACATGGCATCGA-CCACGAT-AGGAGAGCCAATGTA
* * *
55797692 AGACCATGTCTGGGACATGGCATCGAC-CTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAAC
64 AGACCATGTCTGGAACATGGCATCGACAAT-GACATGAGAGCCAGTGTAAGACCATGTTTGGAAC
55797756 ATGGCATCGGC
128 ATGGCATCGGC
55797767 AATTCTCCCT
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
143 4 0.03
144 115 0.97
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (144 bp):
ATGTGCGCTAGTGTAACACCATGTCTAGGACATGGCATCGACCACGATAGGAGAGCCAATGTAAG
ACCATGTCTGGAACATGGCATCGACAATGACATGAGAGCCAGTGTAAGACCATGTTTGGAACATG
GCATCGGCGTTGAC
Found at i:55799573 original size:37 final size:37
Alignment explanation
Indices: 55799523--55799601 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
55799513 TTATTATGAA
* *
55799523 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
55799560 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
55799597 GTCTT
1 GTCTT
55799602 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:55799798 original size:47 final size:47
Alignment explanation
Indices: 55799720--55800118 Score: 609
Period size: 47 Copynumber: 8.4 Consensus size: 47
55799710 CCCTTCGGGA
* * * * * * * *
55799720 CTTATCACATTTATGCACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55799767 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55799814 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55799861 CTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55799908 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55799957 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55800006 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55800053 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55800100 CTTATCACATATATACACT
1 CTTATCACATATATACACT
55800119 GTCTTGGCTA
Statistics
Matches: 325, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 231 0.71
49 94 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55800063 original size:192 final size:190
Alignment explanation
Indices: 55799720--55800114 Score: 650
Period size: 192 Copynumber: 2.1 Consensus size: 190
55799710 CCCTTCGGGA
* * * * * *
55799720 CTTATCACAT-T-TATGCACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
55799783 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
55799848 TCGGCTATTAGGCCTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
* * *
55799908 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATAT
*
55799973 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
55800038 CATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
129 CATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
55800100 CTTATCACATATATA
1 CTTATCACATATATA
55800115 CACTGTCTTG
Statistics
Matches: 191, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 10 0.05
189 1 0.01
190 35 0.18
192 145 0.76
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
Found at i:55811199 original size:32 final size:32
Alignment explanation
Indices: 55811158--55811222 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
55811148 TTTTCGGAGT
55811158 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
1 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
55811190 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
1 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
55811222 T
1 T
55811223 TTTCCAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.26
Consensus pattern (32 bp):
TCAAAAATATTTAAAAATTCAATAGAAAGAGG
Found at i:55813023 original size:26 final size:26
Alignment explanation
Indices: 55812994--55813101 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
55812984 TGGTACAAAT
55812994 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
55813020 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
55813046 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
55813072 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
55813098 TGAT
1 TGAT
55813102 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:55819577 original size:51 final size:51
Alignment explanation
Indices: 55819518--55819635 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
55819508 GCCTATGGGA
** * * * *
55819518 TTGGCACTTAGTGCTTAGGTGTGTTACT-GAAGAGATTTTTAGTCTACAGGC
1 TTGGCACTTAGTGCCCAAGTATGTTACTAG-AGAGATGTTTAGCCTACAGGC
55819569 TTGGCACTTAGTGCCCAAGTATGTTACTAGAGAGATGTTTAGCCTACAGGC
1 TTGGCACTTAGTGCCCAAGTATGTTACTAGAGAGATGTTTAGCCTACAGGC
55819620 TTGGCACTTAGTGCCC
1 TTGGCACTTAGTGCCC
55819636 TGGGGTGTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (51 bp):
TTGGCACTTAGTGCCCAAGTATGTTACTAGAGAGATGTTTAGCCTACAGGC
Found at i:55827978 original size:46 final size:46
Alignment explanation
Indices: 55827922--55828091 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
55827912 TGGTTGAGCA
55827922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
55827968 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* *
55828013 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
*
55828061 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAC
55828092 TTAGGGGCAG
Statistics
Matches: 105, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 5 0.05
46 53 0.50
47 28 0.27
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:55828078 original size:93 final size:93
Alignment explanation
Indices: 55827919--55828089 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55827909 GGATGGTTGA
* *
55827919 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCGTTGAGT
55827984 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55828012 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAA-CTCGTTGAG
55828076 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
55828090 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55831387 original size:19 final size:19
Alignment explanation
Indices: 55831327--55831403 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
55831317 AGTTTAATTA
*
55831327 TTAAATAATCTTAATTAAT
1 TTAATTAATCTTAATTAAT
* *
55831346 TTAATTAGA-CTTTATT-TT
1 TTAATTA-ATCTTAATTAAT
55831364 TTAATTAATCTTAATTAAT
1 TTAATTAATCTTAATTAAT
*
55831383 TTAATTAAACTTTAATTAAT
1 TTAATTAATC-TTAATTAAT
55831403 T
1 T
55831404 AACCATAAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.29
19 22 0.46
20 11 0.23
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (19 bp):
TTAATTAATCTTAATTAAT
Found at i:55831405 original size:19 final size:19
Alignment explanation
Indices: 55831319--55831405 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
55831309 TTATACTTAG
* *
55831319 TTTAATT-ATTAAATAATC
1 TTTAATTAATTAATTAAAC
*
55831337 -TTAATTAATTTAATTAGAC
1 TTTAATTAA-TTAATTAAAC
** *
55831356 TTT-ATTTTTTAATTAATC
1 TTTAATTAATTAATTAAAC
55831374 -TTAATTAATTTAATTAAAC
1 TTTAATTAA-TTAATTAAAC
55831393 TTTAATTAATTAA
1 TTTAATTAATTAA
55831406 CCATAAGCAC
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
17 8 0.15
18 12 0.23
19 23 0.43
20 10 0.19
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTAATTAATTAATTAAAC
Found at i:55840900 original size:18 final size:18
Alignment explanation
Indices: 55840877--55840911 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55840867 GAGTTAAACG
55840877 AATCGAATTATTCGAGTT
1 AATCGAATTATTCGAGTT
*
55840895 AATCGAGTTATTCGAGT
1 AATCGAATTATTCGAGT
55840912 CAACTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCGAATTATTCGAGTT
Found at i:55840985 original size:9 final size:9
Alignment explanation
Indices: 55840961--55840997 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
55840951 TGAGTTTTCG
*
55840961 AATTCAAAT
1 AATTCGAAT
*
55840970 AACTCGAAT
1 AATTCGAAT
55840979 AATTCGAAT
1 AATTCGAAT
55840988 AATTCGAAT
1 AATTCGAAT
55840997 A
1 A
55840998 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55850028 original size:25 final size:25
Alignment explanation
Indices: 55849986--55850043 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
55849976 TCATGTACAA
* *
55849986 GTATGCTGATATGGGCTGT-GAAACG
1 GTATGCTCATATGAGCTGTAG-AACG
* *
55850011 GTATGCTCATTTGAGCTGTAGATCG
1 GTATGCTCATATGAGCTGTAGAACG
55850036 GTATGCTC
1 GTATGCTC
55850044 TCACGAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.33
Consensus pattern (25 bp):
GTATGCTCATATGAGCTGTAGAACG
Found at i:55853303 original size:42 final size:42
Alignment explanation
Indices: 55853242--55853351 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
55853232 GTTAGGATTA
**
55853242 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
* * * *
55853284 TGTGTAAGACCATAGCTGGGCTATTGGCATCGGTATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCC
* *
55853327 CATGTAAGACCATATCTGAGATATG
1 CGTGTAAGACCATATCTGGGATATG
55853352 ACATTGGTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 22 0.39
43 34 0.61
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
Found at i:55860820 original size:42 final size:42
Alignment explanation
Indices: 55860761--55860876 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 42
55860751 GGGTTAGTTA
*
55860761 AGATTACGTGTAAGACCATATTTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATATTTAGGATATGGCATCGATATG
* * * *
55860803 AGATTTCGTGTAAGACCATATCTAGGCTATTGGCATTGATATG
1 AGATTACGTGTAAGACCATATTTAGGATA-TGGCATCGATATG
** * *
55860846 AGATCCCATGTAAGACCATATTTTGGATATG
1 AGATTACGTGTAAGACCATATTTAGGATATG
55860877 TCATTGGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATTTAGGATATGGCATCGATATG
Found at i:55882063 original size:13 final size:13
Alignment explanation
Indices: 55882045--55882069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55882035 ACAGACGATA
55882045 AAATTTTCACACG
1 AAATTTTCACACG
55882058 AAATTTTCACAC
1 AAATTTTCACAC
55882070 ATATCTTATC
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:55890637 original size:14 final size:13
Alignment explanation
Indices: 55890618--55890655 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
55890608 ATTTAATGTT
55890618 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
55890632 TAATTATTAAGGA
1 TAATTATTTAGGA
55890645 TAATTATTTAG
1 TAATTATTTAG
55890656 ATTTAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:55890684 original size:10 final size:10
Alignment explanation
Indices: 55890669--55890720 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
55890659 TAGATTTAGG
55890669 ATTTATTTTT
1 ATTTATTTTT
*
55890679 ATTTATCTTT
1 ATTTATTTTT
*
55890689 AATTATCTTTT
1 ATTTAT-TTTT
*
55890700 -TTTATTTGT
1 ATTTATTTTT
55890709 ATTTATCTTTT
1 ATTTAT-TTTT
55890720 A
1 A
55890721 GAATTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 3 0.09
10 23 0.70
11 7 0.21
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:55890703 original size:20 final size:21
Alignment explanation
Indices: 55890671--55890720 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
55890661 GATTTAGGAT
55890671 TTAT-TTTTATTTATCTT-TAA
1 TTATCTTTTATTTAT-TTGTAA
*
55890691 TTATCTTTT-TTTATTTGTAT
1 TTATCTTTTATTTATTTGTAA
55890711 TTATCTTTTA
1 TTATCTTTTA
55890721 GAATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATCTTTTATTTATTTGTAA
Found at i:55891461 original size:14 final size:14
Alignment explanation
Indices: 55891444--55891478 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
55891434 AATTTTTAAT
55891444 TTTAATTTTTGCAA
1 TTTAATTTTTGCAA
55891458 TTT-ATTTTTGCAA
1 TTTAATTTTTGCAA
55891471 TTTCAATT
1 TTT-AATT
55891479 CCAACTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.68
14 3 0.16
15 3 0.16
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTAATTTTTGCAA
Found at i:55892586 original size:21 final size:20
Alignment explanation
Indices: 55892558--55892596 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
55892548 TCCTTAAAAT
*
55892558 AGGGAACACGCCTGTGTGGA
1 AGGGAACACGCCCGTGTGGA
55892578 AGGGCAACACGCCCGTGTG
1 AGGG-AACACGCCCGTGTG
55892597 ACCAACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.26, G:0.38, T:0.13
Consensus pattern (20 bp):
AGGGAACACGCCCGTGTGGA
Found at i:55893893 original size:46 final size:48
Alignment explanation
Indices: 55893700--55893971 Score: 233
Period size: 46 Copynumber: 5.8 Consensus size: 48
55893690 AGGGTAAGCT
* * * **
55893700 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGC-TATCATTATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-GTCTCAAG
* * * * *
55893749 GCTGATGCCATATCCCAGACATGGTCTTACACTAGCTCT-CGTATC-CG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACGTCTCAAG
* * * * *
55893796 TACCGATGCCATATCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTC-AAG
55893843 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAAG
* * * * *
55893889 GCCGAT-ACATGTCCCAGACAT-GCCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACGTCTCAAG
55893935 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
55893972 CACACCAATG
Statistics
Matches: 183, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 61 0.33
47 16 0.09
48 46 0.25
49 33 0.18
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAAG
Found at i:55899775 original size:14 final size:14
Alignment explanation
Indices: 55899753--55899798 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
55899743 ACTTAAATCG
*
55899753 ACCAATTCATTCAT
1 ACCATTTCATTCAT
55899767 ACCATTTCATTCAT
1 ACCATTTCATTCAT
55899781 ACCATTT-AGTTCAT
1 ACCATTTCA-TTCAT
55899795 ACCA
1 ACCA
55899799 CTCTTACCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 1 0.03
14 29 0.97
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (14 bp):
ACCATTTCATTCAT
Found at i:55906519 original size:46 final size:46
Alignment explanation
Indices: 55906469--55906639 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
55906459 ACATCTCATA
55906469 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TATGTCACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTA-GTCACGAG
** * * * * *
55906515 GCCGATGCATGTCTTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTAGTCACGAG
* * *
55906561 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-AGTCACGAG
* *
55906609 CCCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
55906640 AGCGCACAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 54 0.53
47 26 0.25
48 22 0.22
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTAGTCACGAG
Found at i:55906614 original size:94 final size:95
Alignment explanation
Indices: 55906274--55906642 Score: 295
Period size: 94 Copynumber: 3.9 Consensus size: 95
55906264 CATAGGGTAT
55906274 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--CGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGCCGATGCCATG
* * *
55906336 TCCCAAACATGGTCTTACA-TTGACTATCGAAAT-TG
63 TCCCAAACATGGTCTTACACTAG-CTCTCG---TCTC
* * * * * * *
55906371 AA-GTCGACGCCACGTCTCAAACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGCCGATGCCATG
* * * * *
55906435 TCCTAAACATGGTTTTACACT-G-ACACATCTC
63 TCCCAAACATGGTCTTACACTAGCTCTCGTCTC
* * *
55906466 -ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATGTCACGAGGCCGATG-CAT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--TAATG-TGCCGATGCCAT
** *
55906525 GTCTTAGACAT-GTCTTACACTAGCTCTCGTCTC
62 GTCCCAAACATGGTCTTACACTAGCTCTCGTCTC
55906558 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCCGATG-CATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG-CCGATGCCATGTC
55906622 CCAAACAT-GTCTTACACTAGC
65 CCAAACATGGTCTTACACTAGC
55906643 GCACAAATGA
Statistics
Matches: 215, Mismatches: 36, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
90 9 0.04
91 14 0.07
92 21 0.10
93 20 0.09
94 65 0.30
95 14 0.07
96 38 0.18
97 5 0.02
99 28 0.13
100 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCGTCTC
Found at i:55906623 original size:140 final size:144
Alignment explanation
Indices: 55906274--55906639 Score: 385
Period size: 140 Copynumber: 2.6 Consensus size: 144
55906264 CATAGGGTAT
55906274 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--CGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CAT-AATGTGCCGATG-CATG
* * *
55906336 TCCCAAACATGGTCTTACATTGACTATCGAAATTGAAGTCGACGCCACGTCTCAAACATGGTCTT
63 TCCCAAACAT-GTCTTACACTGACTATCGAAATCGAAGCCGACGCCACGTCTCAAACATGGTCTT
55906401 ACACTAGCTCTCACATATC
127 ACACTAGCTCT-ACATATC
** * * * * * * *
55906420 CGTGCCGATGCCATGTCCTAAACATGGTTTTACACTGACACATC-TCAT-AGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAATGTGCCGATGCATGTCC
* * ** * * * * *
55906483 CAGACATGTCTTACACTGGCTTAT-GTCA-CGAGGCCGATG-CATGTCTTAGACAT-GTCTTACA
66 CAAACATGTCTTACACTGAC-TATCGAAATCGAAGCCGACGCCACGTCTCAAACATGGTCTTACA
* *
55906544 CTAGCTCT-CGTCTC
130 CTAGCTCTACATATC
55906558 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGCCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAATGTG-CCGATGCATGTC
55906622 CCAAACATGTCTTACACT
65 CCAAACATGTCTTACACT
55906640 AGCGCACAAA
Statistics
Matches: 180, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
137 2 0.01
138 41 0.23
139 1 0.01
140 45 0.25
141 11 0.06
142 7 0.04
143 14 0.08
144 17 0.09
145 6 0.03
146 36 0.20
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (144 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAATGTGCCGATGCATGTCC
CAAACATGTCTTACACTGACTATCGAAATCGAAGCCGACGCCACGTCTCAAACATGGTCTTACAC
TAGCTCTACATATC
Found at i:55915523 original size:48 final size:47
Alignment explanation
Indices: 55915435--55915688 Score: 195
Period size: 48 Copynumber: 5.3 Consensus size: 47
55915425 AAATAAAGTA
** * *
55915435 CCAATGCCATGTCCCCGACATGGTCTTACAT-GAATCCACATATCATTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGCA--CACATATCATCG
** ** * * *
55915483 TTAATGCCATGTATCAGACATGGTCTTACACTGGCACACATATTATCA
1 CCAATGCCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATCG
* * * *
55915531 CCGAGGCCATGTCCCAAACATGGTCTTACACAGGCACAAATATCATCG
1 CCAATGCCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATCG
* *
55915579 CCGATGCCATGTCCCAAACATGGTCTTACATAGGCACATATATCATCG
1 CCAATGCCATGTCCCAAACATGGTCTTACAT-GGCACACATATCATCG
* * * * * * * * *
55915627 ACGACGCAATATCCCAAACTTGATCTTACACAGGCACATATATCATCG
1 CCAATGCCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATCG
* *
55915675 TCGATGCCATGTCC
1 CCAATGCCATGTCC
55915689 AAGCAATGCT
Statistics
Matches: 168, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
48 165 0.98
49 1 0.01
50 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
CCAATGCCATGTCCCAAACATGGTCTTACATGGCACACATATCATCG
Found at i:55915604 original size:96 final size:96
Alignment explanation
Indices: 55915486--55915712 Score: 271
Period size: 96 Copynumber: 2.4 Consensus size: 96
55915476 ATCATTGTTA
** * * * * *
55915486 ATGCCATGTATCAGACATGGTCTTACACT-GGCACACATATTATC-ACCGAGGCCATGTCCCAAA
1 ATGCCATGTCCCAAACATGGTCTTACA-TAGGCACACATATCATCGA-CGACGCAATATCCCAAA
*
55915549 CATGGTCTTACACAGGCACAAATATCATCGCCG
64 CATGATCTTACACAGGCACAAATATCATCGCCG
* *
55915582 ATGCCATGTCCCAAACATGGTCTTACATAGGCACATATATCATCGACGACGCAATATCCCAAACT
1 ATGCCATGTCCCAAACATGGTCTTACATAGGCACACATATCATCGACGACGCAATATCCCAAACA
* *
55915647 TGATCTTACACAGGCACATATATCATCGTCG
66 TGATCTTACACAGGCACAAATATCATCGCCG
* * *
55915678 ATGCCATGT-CCAAGCAATGCTCGTACATAGGCACA
1 ATGCCATGTCCCAAAC-ATGGTCTTACATAGGCACA
55915713 TTTATCACGG
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
95 6 0.05
96 106 0.94
97 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACATAGGCACACATATCATCGACGACGCAATATCCCAAACA
TGATCTTACACAGGCACAAATATCATCGCCG
Found at i:55915710 original size:48 final size:48
Alignment explanation
Indices: 55915486--55915719 Score: 229
Period size: 48 Copynumber: 4.9 Consensus size: 48
55915476 ATCATTGTTA
** * * * * *
55915486 ATGCCATGTATCAGACATGGTCTTACACTGGCACACATATTATC-ACCG
1 ATGCCATGTCCCAAACATGATCTTACACAGGCACATATATCATCGA-CG
* * * *
55915534 AGGCCATGTCCCAAACATGGTCTTACACAGGCACAAATATCATCGCCG
1 ATGCCATGTCCCAAACATGATCTTACACAGGCACATATATCATCGACG
* *
55915582 ATGCCATGTCCCAAACATGGTCTTACATAGGCACATATATCATCGACG
1 ATGCCATGTCCCAAACATGATCTTACACAGGCACATATATCATCGACG
* * * * *
55915630 ACGCAATATCCCAAACTTGATCTTACACAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAAACATGATCTTACACAGGCACATATATCATCGACG
* * * * *
55915678 ATGCCATGT-CCAAGCAATGCTCGTACATAGGCACATTTATCA
1 ATGCCATGTCCCAAAC-ATGATCTTACACAGGCACATATATCA
55915720 CGGTGTCACG
Statistics
Matches: 156, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 5 0.03
48 151 0.97
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGATCTTACACAGGCACATATATCATCGACG
Found at i:55920336 original size:54 final size:53
Alignment explanation
Indices: 55920263--55920455 Score: 187
Period size: 54 Copynumber: 3.6 Consensus size: 53
55920253 TGGTAATATA
* * *
55920263 AGGATATCATGTAAGACCATGTCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTCTATAAGGC
* *
55920316 ATGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTAAAAGGC
1 A-GGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTT-CTATAAGGC
* * * *
55920371 A--AAAGTCCCATGTAAGACCATGCCAAGGCAT-AGCATTGGTGAGTTC-ATAGGGC
1 AGGAAA-T--CATGTAAGACCATGTCAAGACATGA-CATTGATGAGTTCTATAAGGC
* * *
55920424 AAGGATACCACGTAAGACCATGTCAAGACATG
1 -AGGAAATCATGTAAGACCATGTCAAGACATG
55920456 GCAATGGTAA
Statistics
Matches: 114, Mismatches: 16, Indels: 19
0.77 0.11 0.13
Matches are distributed among these distances:
52 3 0.03
53 27 0.24
54 41 0.36
55 41 0.36
56 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTCTATAAGGC
Found at i:55920407 original size:55 final size:51
Alignment explanation
Indices: 55920268--55920416 Score: 165
Period size: 55 Copynumber: 2.8 Consensus size: 51
55920258 ATATAAGGAT
* *
55920268 ATCATGTAAGACCATGTCAAGGCATGACATTGATAAGTTCTATAAGGCATGGAA
1 ATCATGTAAGACCATGTCAAGGCATG-CATTGATGAGTTCTAAAAGGCA--GAA
*
55920322 ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTAAAAGGCA-AA
1 ATCATGTAAGACCATGTCAAGGCAT-GCATTGATGAGTT-CTAAAAGGCAGAA
* *
55920374 AGTCCCATGTAAGACCATGCCAAGGCATAGCATTGGTGAGTTC
1 A-T--CATGTAAGACCATGTCAAGGCAT-GCATTGATGAGTTC
55920417 ATAGGGCAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
52 3 0.04
53 1 0.01
54 36 0.43
55 43 0.52
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (51 bp):
ATCATGTAAGACCATGTCAAGGCATGCATTGATGAGTTCTAAAAGGCAGAA
Found at i:55928087 original size:40 final size:40
Alignment explanation
Indices: 55928026--55928232 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
55928016 CGGAATTTAG
* * * *
55928026 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
55928066 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
*
55928106 CCGGAT-ATATCAACTCA-CACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACT-AGCACAAATGCCTTCGGGTCTTAAC
*
55928146 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
55928186 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
55928226 CCGGATA
1 CCGGATA
55928233 TCATTCAAAT
Statistics
Matches: 146, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 139 0.95
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:55930494 original size:95 final size:92
Alignment explanation
Indices: 55930272--55930502 Score: 227
Period size: 95 Copynumber: 2.5 Consensus size: 92
55930262 CACTGATGGC
* * *
55930272 TAAGGATA-CGATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAAAC
1 TAAGGATATC-ATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAAAC
*
55930336 CATGTCAGGACATGGCATCGGCATTGAT
65 CATGTCAGGACATGGCATCGGCATAGAT
** **
55930364 TAAGGACT-TCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTAA
1 TAAGGA-TATCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGACAAGGATACCATGTAA
* ** * *
55930428 GACCATGTTTGGAACATGGCATTTGGTA-AGA-
62 AACCATGTCAGG-ACATGGCA-TCGGCATAGAT
* * *
55930459 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
55930503 TTCTATAAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 16
0.76 0.14 0.11
Matches are distributed among these distances:
92 36 0.32
93 2 0.02
94 1 0.01
95 58 0.52
96 10 0.09
97 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (92 bp):
TAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAAACC
ATGTCAGGACATGGCATCGGCATAGAT
Found at i:55930524 original size:54 final size:53
Alignment explanation
Indices: 55930460--55930668 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 53
55930450 TTGGTAAGAT
* *
55930460 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAAGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGC
* * *
55930514 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT--CATAAGGC
* * * * * *
55930569 AAACG-TCCTACA--TAAGACCATGCCAAGGCATAGCATTGGTGAGTTCATAAGGC
1 -AAGGAT-AT-CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
* * * *
55930622 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCA
55930669 AAAAGGAAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
51 2 0.02
52 3 0.02
53 39 0.31
54 41 0.32
55 35 0.28
56 5 0.04
57 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:55946794 original size:48 final size:46
Alignment explanation
Indices: 55946723--55946950 Score: 208
Period size: 48 Copynumber: 4.8 Consensus size: 46
55946713 TAAAGTACCA
* *
55946723 ATGCCCTGTCCTCA-ACATGGTCTTACATGAATCCACATATCATCACTG
1 ATGCCATGTCC-CAGACATGGTCTTACA--AAGCCACATATCATCACTG
*
55946771 ATGCCATGTCCCAGACATGGTCTTACATAGGCACACATATCATCA-TCG
1 ATGCCATGTCCCAGACATGGTCTTACA-AAGC-CACATATCATCACT-G
* * * *
55946819 ATGCCATGTCCCAGACATGGTCTTACACAGGTACATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACA-AAG-CCACATATCATCACTG
* * * * *
55946867 ACGCCATGTCCCAGACATGGTCTTACACAGGCACATATTTCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAAAGCCACATA--TCATCACTG
* * * *
55946915 ATTCCATGTCCCAAACATGGTCTTACACAGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACAAAGCCACAT
55946951 TTAGCACGGT
Statistics
Matches: 156, Mismatches: 17, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
46 5 0.03
47 6 0.04
48 144 0.92
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACAAAGCCACATATCATCACTG
Found at i:55946887 original size:96 final size:96
Alignment explanation
Indices: 55946759--55946950 Score: 294
Period size: 96 Copynumber: 2.0 Consensus size: 96
55946749 ATGAATCCAC
* * *
55946759 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACATAGGCACACATATCATCATCGATGCC
1 ATATCATCACTGACGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGCC
* *
55946824 ATGTCCCAGACATGGTCTTACACAGGTACAT
66 ATGTCCCAAACATGGTCTTACACAGGCACAT
* * * * *
55946855 ATATCATCGCTGACGCCATGTCCCAGACATGGTCTTACACAGGCACATATTTCATCGCCGATTCC
1 ATATCATCACTGACGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGCC
55946920 ATGTCCCAAACATGGTCTTACACAGGCACAT
66 ATGTCCCAAACATGGTCTTACACAGGCACAT
55946951 TTAGCACGGT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (96 bp):
ATATCATCACTGACGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGCC
ATGTCCCAAACATGGTCTTACACAGGCACAT
Found at i:55954759 original size:20 final size:20
Alignment explanation
Indices: 55954734--55954775 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
55954724 CCTATGTACC
55954734 AGGCTCTAGGCACTTGCTTT
1 AGGCTCTAGGCACTTGCTTT
55954754 AGGCTCTAGGCACTTGCTTT
1 AGGCTCTAGGCACTTGCTTT
55954774 AG
1 AG
55954776 CCCATACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (20 bp):
AGGCTCTAGGCACTTGCTTT
Found at i:55958976 original size:21 final size:21
Alignment explanation
Indices: 55958952--55958996 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
55958942 ATAGTTTTAC
55958952 TTTA-TTTCAACTTGATTTTTT
1 TTTACTTTC-ACTTGATTTTTT
*
55958973 TTTACTTTCATTTGATTTTTT
1 TTTACTTTCACTTGATTTTTT
55958994 TTT
1 TTT
55958997 GTTTAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTACTTTCACTTGATTTTTT
Found at i:55959195 original size:32 final size:31
Alignment explanation
Indices: 55959159--55959219 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
55959149 TTTAAGCCTA
* * *
55959159 TATTTTCTTTTAAATTTATTCATATATATACG
1 TATTTCCTTTCAAACTTATT-ATATATATACG
*
55959191 TATTTCCTTTCAAACTTATTATGTATATA
1 TATTTCCTTTCAAACTTATTATATATATA
55959220 GTTTATTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (31 bp):
TATTTCCTTTCAAACTTATTATATATATACG
Found at i:55962971 original size:27 final size:27
Alignment explanation
Indices: 55962831--55963008 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
55962821 TAAATTGTAC
55962831 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
55962858 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
55962884 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * * *
55962912 GGCACTAAGTGTGAGGGTTTGACTATGT
1 AGCACTAAGTGTG-CGATTTGATTATGT
*
55962940 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
55962967 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
55962994 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55963009 GGCTCAATAT
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.81
28 21 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:55962971 original size:55 final size:54
Alignment explanation
Indices: 55962886--55963008 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 54
55962876 TGAATATGAT
* * * *
55962886 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGAGGGTTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAG-TTGACTATATA
* ** * * *
55962941 GCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAGTTGACTATATA
*
55962995 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55963009 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 22 0.39
55 35 0.61
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAGTTGACTATATA
Found at i:55978258 original size:27 final size:27
Alignment explanation
Indices: 55978118--55978295 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
55978108 TAAATTGTAC
55978118 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
55978145 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
55978171 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * * *
55978199 GGCACTAAGTGTGAGGGTTTGACTATGT
1 AGCACTAAGTGTG-CGATTTGATTATGT
*
55978227 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
55978254 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
55978281 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55978296 GGCTCAATAT
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.81
28 21 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:55978258 original size:55 final size:54
Alignment explanation
Indices: 55978173--55978295 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 54
55978163 TGAATATGAT
* * * *
55978173 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGAGGGTTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAG-TTGACTATATA
* ** * * *
55978228 GCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAGTTGACTATATA
*
55978282 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55978296 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 22 0.39
55 35 0.61
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGAGAGTTGACTATATA
Found at i:55983942 original size:18 final size:18
Alignment explanation
Indices: 55983906--55983943 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55983896 CCTATGGCCA
* *
55983906 GCTCAATTCAACTTTCTG
1 GCTCAATTCAACCTCCTG
55983924 GCTCAATTCAACCTCCTG
1 GCTCAATTCAACCTCCTG
55983942 GC
1 GC
55983944 CTTCAGTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (18 bp):
GCTCAATTCAACCTCCTG
Found at i:55987862 original size:3 final size:3
Alignment explanation
Indices: 55987856--55988037 Score: 51
Period size: 3 Copynumber: 62.3 Consensus size: 3
55987846 TTTTGTTGTT
* * * * * *
55987856 TTA TTA TCTA TTTA ATA T-A TTA TTA TTA TTA TCA TCA TCA TCA -TC
1 TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
55987901 TTA TT- TTT TTA CTA TTA TTA TTT TTA TAA TTA CTA TTA TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
55987947 -TA TTA -TA TATA TT- TTA CTA TTA TTA TT- TAA CATA TTA TTG TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * *
55987990 CTA TT- TTCG TTG TTA TTA TTA TTA CTA TTA -TA TTA TTA CTA CTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55988034 TTA T
1 TTA T
55988038 ATTTTCATCG
Statistics
Matches: 133, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
2 17 0.13
3 105 0.79
4 10 0.08
5 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:55987921 original size:17 final size:17
Alignment explanation
Indices: 55987901--55987974 Score: 80
Period size: 18 Copynumber: 4.4 Consensus size: 17
55987891 CATCATCATC
55987901 TTATTTTTTTACTATTA
1 TTATTTTTTTACTATTA
* * *
55987918 TTATTTTTATAATTACTA
1 TTATTTTT-TTACTATTA
55987936 TTATTTTTTTA-TATTA
1 TTATTTTTTTACTATTA
*
55987952 -TATATATTTTACTATTA
1 TTAT-TTTTTTACTATTA
55987969 TTATTT
1 TTATTT
55987975 AACATATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
15 3 0.07
16 10 0.22
17 16 0.35
18 17 0.37
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTTTACTATTA
Found at i:55987933 original size:21 final size:20
Alignment explanation
Indices: 55987909--55987961 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
55987899 TCTTATTTTT
55987909 TTACTATTATTATTTTTATAA
1 TTACTATTATT-TTTTTATAA
55987930 TTACTATTATTTTTTTAT-A
1 TTACTATTATTTTTTTATAA
55987949 TTA-TATATATTTT
1 TTACTAT-TATTTT
55987962 ACTATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 7 0.23
21 11 0.35
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (20 bp):
TTACTATTATTTTTTTATAA
Found at i:55988025 original size:17 final size:17
Alignment explanation
Indices: 55988003--55988040 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
55987993 TTTTCGTTGT
*
55988003 TATTATTATTACTATTA
1 TATTATTACTACTATTA
55988020 TATTATTACTACTATTA
1 TATTATTACTACTATTA
55988037 TATT
1 TATT
55988041 TTCATCGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTACTACTATTA
Found at i:55988040 original size:14 final size:15
Alignment explanation
Indices: 55988003--55988037 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
55987993 TTTTCGTTGT
*
55988003 TATTATTATTACTAT
1 TATTATTATTACTAC
55988018 TA-TATTATTACTAC
1 TATTATTATTACTAC
55988032 TATTAT
1 TATTAT
55988038 ATTTTCATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAC
Found at i:55988087 original size:19 final size:18
Alignment explanation
Indices: 55988063--55988135 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 18
55988053 TATTTTCTTA
*
55988063 TTATTTATCTAATTTTTAT
1 TTATTTATCT-ATTTATAT
55988082 TTATTTATCTATTTATAT
1 TTATTTATCTATTTATAT
*
55988100 TT-CTTATCTATTTATAT
1 TTATTTATCTATTTATAT
*
55988117 TTCAGTTAT-TA-TTATAT
1 TT-ATTTATCTATTTATAT
55988134 TT
1 TT
55988136 TATATATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
17 24 0.49
18 11 0.22
19 14 0.29
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTTATCTATTTATAT
Found at i:55988107 original size:36 final size:34
Alignment explanation
Indices: 55988067--55988135 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
55988057 TTCTTATTAT
* *
55988067 TTATCTAATTTTTATTT-ATTTATCTATTTATATTTC
1 TTATCT-ATTTATATTTCAGTTAT-TA-TTATATTTC
55988103 TTATCTATTTATATTTCAGTTATTATTATATTT
1 TTATCTATTTATATTTCAGTTATTATTATATTT
55988136 TATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 11 0.37
36 11 0.37
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.65
Consensus pattern (34 bp):
TTATCTATTTATATTTCAGTTATTATTATATTTC
Found at i:55988111 original size:25 final size:24
Alignment explanation
Indices: 55988049--55988114 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 24
55988039 TTTTCATCGA
55988049 TATTTAT-TTTCTTATTATTTATC
1 TATTTATATTTCTTATTATTTATC
55988072 ----TA-ATTT-TTATTTATTTATC
1 TATTTATATTTCTTA-TTATTTATC
55988091 TATTTATATTTCTTATCTATTTAT
1 TATTTATATTTCTTAT-TATTTAT
55988115 ATTTCAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
18 3 0.09
19 14 0.41
23 2 0.06
24 5 0.15
25 10 0.29
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTATATTTCTTATTATTTATC
Found at i:55988210 original size:3 final size:3
Alignment explanation
Indices: 55988202--55988283 Score: 85
Period size: 3 Copynumber: 27.3 Consensus size: 3
55988192 ATATTTTTTA
* * * * * * *
55988202 TAT TAT TAT TAT CAT TAC TAT TA- TAT TTT TAT TAC TAC TAG GAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55988249 TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
55988284 TATTTGCTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:55988218 original size:12 final size:11
Alignment explanation
Indices: 55988191--55988287 Score: 74
Period size: 12 Copynumber: 8.5 Consensus size: 11
55988181 TTACTATTGC
55988191 TATATT-TT-T
1 TATATTATTAT
55988200 TATATTATTAT
1 TATATTATTAT
*
55988211 TATCATTACTAT
1 TAT-ATTATTAT
*
55988223 TATATTTTTAT
1 TATATTATTAT
* **
55988234 TACTACTAGGAT
1 TA-TATTATTAT
55988246 TATTATTATTAT
1 TA-TATTATTAT
55988258 TATTATTATTAT
1 TA-TATTATTAT
55988270 TATTATTACTTAT
1 TA-TATTA-TTAT
55988283 T-TATT
1 TATATT
55988288 TGCTTATTTC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
11 16 0.22
12 43 0.60
13 5 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (11 bp):
TATATTATTAT
Found at i:55999201 original size:14 final size:14
Alignment explanation
Indices: 55999174--55999214 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
55999164 TATTTGATAA
55999174 ACTAAAAAATTAAAT
1 ACTAAAAAA-TAAAT
*
55999189 ATTAAAAAATAAAT
1 ACTAAAAAATAAAT
*
55999203 ACTGAAAAATAA
1 ACTAAAAAATAA
55999215 TTGTTGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (14 bp):
ACTAAAAAATAAAT
Found at i:55999315 original size:19 final size:19
Alignment explanation
Indices: 55999293--55999333 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
55999283 TAAGTATATC
55999293 ATTAAAAATTAAATATTGA
1 ATTAAAAATTAAATATTGA
55999312 ATTAAAAATTAAATATTGA
1 ATTAAAAATTAAATATTGA
55999331 ATT
1 ATT
55999334 TAATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTAAAAATTAAATATTGA
Found at i:56011098 original size:26 final size:28
Alignment explanation
Indices: 56011038--56011113 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 28
56011028 AATATTTAAA
56011038 TTTT-AAATCAAACTTTTTAAAAATATC
1 TTTTAAAATCAAACTTTTTAAAAATATC
* * *
56011065 TTTCAAAATCACA-TTTTT-AAAATATT
1 TTTTAAAATCAAACTTTTTAAAAATATC
*
56011091 TTTTAAAA--ATAC-TTTTAAAAATA
1 TTTTAAAATCAAACTTTTTAAAAATA
56011114 ATACTAAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 6 0.15
25 6 0.15
26 14 0.34
27 8 0.20
28 7 0.17
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTAAAATCAAACTTTTTAAAAATATC
Found at i:56011099 original size:13 final size:12
Alignment explanation
Indices: 56011051--56011113 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
56011041 TAAATCAAAC
56011051 TTTTTAAAAATA
1 TTTTTAAAAATA
* *
56011063 TCTTTCAAAATCACA
1 T-TTTTAAAA--ATA
56011078 TTTTT-AAAATA
1 TTTTTAAAAATA
56011089 TTTTTTAAAAATA
1 -TTTTTAAAAATA
*
56011102 CTTTTAAAAATA
1 TTTTTAAAAATA
56011114 ATACTAAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.05
12 17 0.41
13 16 0.39
14 3 0.07
15 3 0.07
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:56014047 original size:40 final size:40
Alignment explanation
Indices: 56013982--56014112 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
56013972 AGATAAATCG
* *
56013982 AACACACCAGATAGAAG-ATCGTAAGAGCTAATCCAATTGA
1 AACACACCAGAAAGAAGCA-CATAAGAGCTAATCCAATTGA
* * * *
56014022 AACACACCGGAAAGACGCTCATAAGAGCTAATCCACTTGA
1 AACACACCAGAAAGAAGCACATAAGAGCTAATCCAATTGA
* * *
56014062 AACACGCCAGACAGAAGCACATAAGAGCTAATCCAACTGA
1 AACACACCAGAAAGAAGCACATAAGAGCTAATCCAATTGA
*
56014102 AACACGCCAGA
1 AACACACCAGA
56014113 CAAAGAGTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.13
Consensus pattern (40 bp):
AACACACCAGAAAGAAGCACATAAGAGCTAATCCAATTGA
Found at i:56017524 original size:96 final size:96
Alignment explanation
Indices: 56017355--56017552 Score: 360
Period size: 96 Copynumber: 2.1 Consensus size: 96
56017345 AGTTCCTATG
56017355 TGATGATGAGCTTAAGAGATCTATATAACTGTGATAAAATTAGGAACTTTTTAGGGGATATTAGG
1 TGAT-ATGAGCTTAAGAGATCTATATAACTGTGATAAAATTAGGAACTTTTTAGGGGATATTAGG
*
56017420 AATAATAATTACTCATAAAGGAAAACCGAAAT
65 AATAATAATTACTCATAAAGGAAAACCAAAAT
*
56017452 TGATATGAGCTTAAGAGCTCTATATAACTGTGATAAAATTAGGAACTTTTTAGGGGATATTAGGA
1 TGATATGAGCTTAAGAGATCTATATAACTGTGATAAAATTAGGAACTTTTTAGGGGATATTAGGA
*
56017517 ATAATAATTACTCATAAAGGAAAATCAAAAT
66 ATAATAATTACTCATAAAGGAAAACCAAAAT
56017548 TGATA
1 TGATA
56017553 ATTAAAAATA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 94 0.96
97 4 0.04
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (96 bp):
TGATATGAGCTTAAGAGATCTATATAACTGTGATAAAATTAGGAACTTTTTAGGGGATATTAGGA
ATAATAATTACTCATAAAGGAAAACCAAAAT
Found at i:56022667 original size:61 final size:61
Alignment explanation
Indices: 56022584--56022702 Score: 229
Period size: 61 Copynumber: 2.0 Consensus size: 61
56022574 CCAAGAGAAG
56022584 GAAAAACTAAGTTAATAAATAATAAAAAAATTAAATTAAATTGCAAGAAAAATAAATGGCA
1 GAAAAACTAAGTTAATAAATAATAAAAAAATTAAATTAAATTGCAAGAAAAATAAATGGCA
*
56022645 GAAAAACTAAGTTAATAAATAATAATAAAATTAAATTAAATTGCAAGAAAAATAAATG
1 GAAAAACTAAGTTAATAAATAATAAAAAAATTAAATTAAATTGCAAGAAAAATAAATG
56022703 CCTAAAGTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.24
Consensus pattern (61 bp):
GAAAAACTAAGTTAATAAATAATAAAAAAATTAAATTAAATTGCAAGAAAAATAAATGGCA
Found at i:56036386 original size:43 final size:43
Alignment explanation
Indices: 56036320--56036405 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
56036310 AAATGGTACA
*
56036320 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
56036363 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
56036406 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:56044438 original size:43 final size:43
Alignment explanation
Indices: 56044372--56044457 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
56044362 AAATGGTACA
* *
56044372 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTGACATGTAAACACATATCG
*
56044415 ATGCC-ACTGTCCCAGACAG-GGTCTGACTTGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTGACATGTAAACACATATCG
56044458 GAATCACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTGACATGTAAACACATATCG
Found at i:56054732 original size:13 final size:14
Alignment explanation
Indices: 56054703--56054730 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56054693 ATGCCATGTG
56054703 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
56054717 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
56054731 TATATTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
ATAAAAAAATAAAA
Found at i:56056748 original size:11 final size:12
Alignment explanation
Indices: 56056722--56056756 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
56056712 AAAAATTGTG
56056722 GAAATTGAATTA
1 GAAATTGAATTA
56056734 GAAATTGAA-TA
1 GAAATTGAATTA
*
56056745 GAAATTGTATTA
1 GAAATTGAATTA
56056757 ATTAGATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (12 bp):
GAAATTGAATTA
Found at i:56057770 original size:32 final size:32
Alignment explanation
Indices: 56057674--56057786 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 32
56057664 TACCTAAAAG
* *
56057674 GTACAACTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTTGAAAAGGAAATGTACCCT-TGTGT
* * *
56057707 GTACAACTTAAAAAGGAAACGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
56057740 GTAC-ACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
56057772 GTACAA-TGTGAAAAG
1 GTACAACT-TGAAAAG
56057787 TGGTAGCTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 29 0.43
33 38 0.56
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (32 bp):
GTACAACTTGAAAAGGAAATGTACCCTTGTGT
Found at i:56060666 original size:31 final size:30
Alignment explanation
Indices: 56060616--56060731 Score: 160
Period size: 31 Copynumber: 3.8 Consensus size: 30
56060606 GGCTGTCACA
*
56060616 TGATTAGTGAAAGTGGTAGCTTCGGCTACC
1 TGATTAGTGAAAGTGGTAGCTTCAGCTACC
* * *
56060646 TGATCAGTGGAAAGTAGTAGCTTCAGCTAAC
1 TGATTAGT-GAAAGTGGTAGCTTCAGCTACC
*
56060677 TGATTAGTGAAAAGTGGTAGCTCCAGCTACC
1 TGATTAGTG-AAAGTGGTAGCTTCAGCTACC
56060708 TGATTAGTGAATAGTGGTAGCTTC
1 TGATTAGTGAA-AGTGGTAGCTTC
56060732 GACTACAAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
30 10 0.14
31 64 0.86
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TGATTAGTGAAAGTGGTAGCTTCAGCTACC
Found at i:56060888 original size:27 final size:27
Alignment explanation
Indices: 56060831--56060891 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
56060821 TGAACTATGG
* * **
56060831 CAAAGTAATAAAGTGTGACAATCATGG
1 CAAAGTGATAAAGTGTGACAAACATAA
* *
56060858 CAAAGTGATATAGTGTGCCAAACATAA
1 CAAAGTGATAAAGTGTGACAAACATAA
56060885 CAAAGTG
1 CAAAGTG
56060892 TTTAGTGATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (27 bp):
CAAAGTGATAAAGTGTGACAAACATAA
Found at i:56060964 original size:34 final size:34
Alignment explanation
Indices: 56060933--56061007 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
56060923 ACCATGGTTG
*
56060933 ATCCATGGCAAAG-TGTGAAACGTAGGTATGGTAT
1 ATCCATAGC-AAGCTGTGAAACGTAGGTATGGTAT
* * * *
56060967 TTCCATATCGAGCTGTGAAACGTAGGTATGGTGT
1 ATCCATAGCAAGCTGTGAAACGTAGGTATGGTAT
*
56061001 TTCCATA
1 ATCCATA
56061008 CTGAGTTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.06
34 33 0.94
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (34 bp):
ATCCATAGCAAGCTGTGAAACGTAGGTATGGTAT
Found at i:56062097 original size:21 final size:19
Alignment explanation
Indices: 56062068--56062119 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
56062058 TATGTGAAGC
56062068 GAAATTTTTGTTAAATGATCT
1 GAAA-TTTTGTT-AATGATCT
* *
56062089 GTAAATTTTGGTAATGCTCT
1 G-AAATTTTGTTAATGATCT
*
56062109 GAAACTTTGTT
1 GAAATTTTGTT
56062120 TCGATGATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 8 0.31
20 8 0.31
21 7 0.27
22 3 0.12
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (19 bp):
GAAATTTTGTTAATGATCT
Found at i:56063169 original size:37 final size:37
Alignment explanation
Indices: 56063107--56063252 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
56063097 AGCTCAGACG
* * * *
56063107 AAATCACCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56063144 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56063181 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56063218 TAATCTCCACGCGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56063253 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56063525 original size:48 final size:48
Alignment explanation
Indices: 56063399--56063583 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
56063389 GCACATCGCC
* *
56063399 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC--A
* * *
56063449 TATATATTTCACATT-GACCGTTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATACATATCTCA
* *
56063497 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
*
56063545 TACATTTTTCACATTAGCCATTCAGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
56063584 TACATGTTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
48 79 0.65
49 2 0.02
50 40 0.33
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
Found at i:56063646 original size:47 final size:47
Alignment explanation
Indices: 56063505--56063746 Score: 272
Period size: 47 Copynumber: 5.1 Consensus size: 47
56063495 CATACATATT
* * * * **
56063505 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * * * *
56063553 TCACATTAGCCATTCAGCTTTACCACATATATACATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
56063600 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
56063647 TCACTTTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
56063694 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56063741 TCACAT
1 TCACAT
56063747 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
47 134 0.79
48 30 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:56063747 original size:25 final size:25
Alignment explanation
Indices: 56063668--56063747 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
56063658 ATTCGGCCTT
**
56063668 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
56063693 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
56063715 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
56063740 ATCACATA
1 ATCACATA
56063748 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:56067816 original size:40 final size:40
Alignment explanation
Indices: 56067784--56068135 Score: 461
Period size: 40 Copynumber: 8.8 Consensus size: 40
56067774 CCAGCATGAT
* * *
56067784 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
56067824 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
56067864 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * **
56067904 TACTCTTCGAGACTTAGCCTGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * **
56067944 TGCTCTTCGGGACTTAGCCCAGATATAACACCCGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
56067984 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
56068024 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* **
56068064 TGCTCTTCGAGACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
56068104 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
56068136 CTCAATTCTC
Statistics
Matches: 265, Mismatches: 47, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 265 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:56068048 original size:160 final size:160
Alignment explanation
Indices: 56067784--56068130 Score: 649
Period size: 160 Copynumber: 2.2 Consensus size: 160
56067774 CCAGCATGAT
*
56067784 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
56067849 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATACTCTTCGA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATACTCTTCGA
*
56067914 GACTTAGCCTGGATACGTCACTAGCACGAA
131 GACTTAGCCCGGATACGTCACTAGCACGAA
* *
56067944 TGCTCTTCGGGACTTAGCCCAGATATAACACCCGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
*
56068009 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATACTCTTCGA
56068074 GACTTAGCCCGGATACGTCACTAGCACGAA
131 GACTTAGCCCGGATACGTCACTAGCACGAA
56068104 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
56068131 TCACTCTCAA
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 181 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (160 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATACTCTTCGA
GACTTAGCCCGGATACGTCACTAGCACGAA
Found at i:56069463 original size:37 final size:37
Alignment explanation
Indices: 56069404--56069549 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
56069394 AGCTCAGACG
* * *
56069404 AAATCACCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56069441 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56069478 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56069515 TAATCTCCACGCGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56069550 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56069822 original size:48 final size:48
Alignment explanation
Indices: 56069696--56069879 Score: 271
Period size: 48 Copynumber: 3.8 Consensus size: 48
56069686 GCACATCACC
*
56069696 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
56069746 TATATATTTCACATT-GACCGTTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56069794 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
56069842 TACATTTTTCACATTAGCCATTCGGCTTTACCACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATAT
56069880 GTACATGTTC
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 79 0.65
49 2 0.02
50 40 0.33
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:56069943 original size:47 final size:47
Alignment explanation
Indices: 56069802--56070043 Score: 267
Period size: 47 Copynumber: 5.1 Consensus size: 47
56069792 CATACATATT
* * * * **
56069802 TCACATTAGCCATTCGGCTTTA-C-CACATATACATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGT-TC--ACATTCA
* * *
56069850 TCACATTAGCCATTCGGCTTTA-C-CACATATGTACATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATG--CATGTTCACATTCA
* *
56069897 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
56069944 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * **
56069991 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
56070038 TCACAT
1 TCACAT
56070044 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
47 129 0.74
48 31 0.18
49 10 0.06
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:56069970 original size:22 final size:22
Alignment explanation
Indices: 56069943--56070014 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
56069933 GCTCACATTC
56069943 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
56069965 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
56069989 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56070012 ATC
1 ATC
56070015 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56070044 original size:25 final size:25
Alignment explanation
Indices: 56069965--56070044 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
56069955 ATTCGGCCTT
**
56069965 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
56069990 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
56070012 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
56070037 ATCACATA
1 ATCACATA
56070045 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:56073530 original size:15 final size:15
Alignment explanation
Indices: 56073510--56073539 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56073500 AATTATAGGA
*
56073510 TTGCCATCCAGGATT
1 TTGCCATCCAAGATT
56073525 TTGCCATCCAAGATT
1 TTGCCATCCAAGATT
56073540 GCTGGGACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (15 bp):
TTGCCATCCAAGATT
Found at i:56082544 original size:25 final size:25
Alignment explanation
Indices: 56082516--56082594 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
56082506 ATACGTGCCG
56082516 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
56082541 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
56082563 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
56082588 ATGTGAT
1 ATGTGAT
56082595 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:56082581 original size:47 final size:47
Alignment explanation
Indices: 56082512--56082783 Score: 458
Period size: 47 Copynumber: 5.8 Consensus size: 47
56082502 GTGTATACGT
56082512 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
56082559 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
56082605 GCCGATGTGATGAATGTGAAA-TGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
56082651 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* * * *
56082698 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* * * *
56082745 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56082784 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 24 0.11
46 42 0.20
47 147 0.69
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
Found at i:56082669 original size:92 final size:93
Alignment explanation
Indices: 56082511--56082783 Score: 458
Period size: 92 Copynumber: 2.9 Consensus size: 93
56082501 TGTGTATACG
56082511 TGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 TGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
56082576 GAAAGTGTATATATGTGATAAGGCCTAA
66 GAAAGTGTATATATGTGATAAGGCCTAA
56082604 TGCCGATGTGATGAATGTGAAA-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 TGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
56082668 GAAAGTGTATATATGTGATAAGGCCTAA
66 GAAAGTGTATATATGTGATAAGGCCTAA
* * * * * * *
56082696 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATG
1 T-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
56082761 TGAAAGTGTATAAATGTGATAAG
65 TGAAAGTGTATATATGTGATAAG
56082784 TCCCGAAGGG
Statistics
Matches: 170, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
92 71 0.42
93 43 0.25
94 56 0.33
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (93 bp):
TGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCCTAA
Found at i:56082958 original size:37 final size:37
Alignment explanation
Indices: 56082902--56082979 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
56082892 CCGAGCTCTA
* * *
56082902 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56082939 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56082976 AAGA
1 AAGA
56082980 ATTCGTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56085783 original size:30 final size:29
Alignment explanation
Indices: 56085740--56085803 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
56085730 CAAGTAGCTG
56085740 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
56085769 AAGCTAGTTTAAATCGTACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
56085799 AAGCT
1 AAGCT
56085804 TTCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:56091139 original size:27 final size:27
Alignment explanation
Indices: 56091108--56091285 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
56091098 TAAATTGTAC
56091108 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56091135 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56091161 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
56091189 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56091217 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56091244 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56091271 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56091286 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.81
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56091275 original size:82 final size:81
Alignment explanation
Indices: 56091105--56091285 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
56091095 GATTAAATTG
* *
56091105 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56091170 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** *
56091186 TGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56091250 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56091268 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56091286 GACTCAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 19 0.22
82 67 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56099070 original size:34 final size:34
Alignment explanation
Indices: 56099021--56099103 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
56099011 TTGTACTAAA
* * *
56099021 ATGGGCTAAGGCCCACACTGATACTGTTACTG-T
1 ATGGGTTAAGGCCCACACAGATACTGTGACTGAT
*
56099054 ATTGGGTTAAGGCCCACAGAGATACTGTGACTGAT
1 A-TGGGTTAAGGCCCACACAGATACTGTGACTGAT
56099089 ATGGGCTT-AGGCCCA
1 ATGGG-TTAAGGCCCA
56099104 GACTATTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 1 0.02
34 38 0.88
35 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (34 bp):
ATGGGTTAAGGCCCACACAGATACTGTGACTGAT
Found at i:56108364 original size:40 final size:39
Alignment explanation
Indices: 56108309--56108532 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 39
56108299 CGGATGATAA
* * * *
56108309 CCGGGCTAAGTCCCG-AGAGAATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTAATT
56108349 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
56108389 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
56108429 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
56108468 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
56108508 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56108533 AGCTAGTGGC
Statistics
Matches: 172, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
39 38 0.22
40 131 0.76
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:56108546 original size:40 final size:39
Alignment explanation
Indices: 56108305--56108555 Score: 234
Period size: 40 Copynumber: 6.3 Consensus size: 39
56108295 TGTTCGGATG
* * *
56108305 ATAACCGGGCTAAGTCCCG-AGAGAATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGC-AGTAGCT
*
56108345 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGCT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
56108382 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGCT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
*
56108422 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
56108462 ATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
1 A-TA-ACCGGGCTAAGTCCCGAAGGCATTTGTGC-AG-TAGCT
* *
56108504 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAGCT
*
56108544 ATATCC-GGCTAA
1 ATAACCGGGCTAA
56108556 ACTCCGAAGG
Statistics
Matches: 187, Mismatches: 12, Indels: 25
0.83 0.05 0.11
Matches are distributed among these distances:
37 4 0.02
38 1 0.01
39 37 0.20
40 136 0.73
41 6 0.03
42 2 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
Found at i:56108565 original size:79 final size:79
Alignment explanation
Indices: 56108309--56108555 Score: 281
Period size: 79 Copynumber: 3.1 Consensus size: 79
56108299 CGGATGATAA
* * * * *
56108309 CCGGGCTAAGTCCCG-AGAGAATTTGAGCTAG-TGGCTAATTCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTAATACCGGGCTAAGTCCCGAAGGCATT
56108372 TGTGCGAGCTACTA-ATT
64 TGTGCGAG-TACTATA-T
* *
56108389 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTG
*
56108454 TGCGAGTTATTATA-
66 TGCGAG-TACTATAT
*
56108468 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
* * *
56108532 GAGCTAGTGGCTATAT
65 GTGCGAGT-ACTATAT
56108548 CC-GGCTAA
1 CCGGGCTAA
56108556 ACTCCGAAGG
Statistics
Matches: 148, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.02
79 73 0.49
80 68 0.46
81 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTATAT
Found at i:56110014 original size:40 final size:40
Alignment explanation
Indices: 56109970--56110154 Score: 173
Period size: 41 Copynumber: 4.6 Consensus size: 40
56109960 GCTACTCGTT
*
56109970 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
56110010 CAAATGCCTTCGAAAACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCG-GGACTTAGCCC-GGTTATAGTAACTCGCA
* * *
56110051 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
56110090 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
56110131 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
56110155 ACATCATTCG
Statistics
Matches: 116, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
38 3 0.03
39 28 0.24
40 40 0.34
41 42 0.36
42 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:56110050 original size:41 final size:39
Alignment explanation
Indices: 56109998--56110101 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 39
56109988 AGCCCGGTTA
*
56109998 TAGTAACTCGCACAAATGCCTTCGAAAACTTAACCCAGATT
1 TAGTAACTCGCACAAATGCCTTCG--AACTTAACCCAGAAT
* ** * *
56110039 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGAACTTAACCCAGAAT
*
56110078 TAGTATCTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCG
56110102 GATCTTAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.58
41 23 0.42
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGAACTTAACCCAGAAT
Found at i:56110149 original size:80 final size:82
Alignment explanation
Indices: 56109970--56110155 Score: 202
Period size: 80 Copynumber: 2.3 Consensus size: 82
56109960 GCTACTCGTT
* *
56109970 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAAAACTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAAAACTTAACCC
* *
56110034 AGATTTAGTAACTCGCAC
65 AGATATAGTAACTAGCAC
* * * * ** *
56110052 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCG-GATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAAAACTTAACCCA
* *
56110114 GATATGGTCACTTAGCA-
66 GATATAGTAAC-TAGCAC
56110131 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
56110156 CATCATTCGA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
79 27 0.31
80 47 0.54
81 10 0.11
82 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (82 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAAAACTTAACCCA
GATATAGTAACTAGCAC
Found at i:56111448 original size:85 final size:85
Alignment explanation
Indices: 56111319--56111497 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
56111309 TATTTTATTG
*
56111319 CCCATGCTATTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
56111384 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56111404 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
56111469 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56111489 CCCATGCTC
1 CCCATGCTC
56111498 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:56118159 original size:40 final size:40
Alignment explanation
Indices: 56117956--56118159 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
56117946 TGGAATTTAA
** *
56117956 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56117996 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56118036 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56118075 CCGGA-ATTAGTATCTGGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56118115 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56118155 CCGGA
1 CCGGA
56118160 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 30 0.22
40 92 0.68
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56119453 original size:85 final size:85
Alignment explanation
Indices: 56119324--56119502 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
56119314 TATTTTATTG
56119324 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
56119389 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56119409 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
56119474 TAGCCATAATATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56119494 CCCATGCTC
1 CCCATGCTC
56119503 ATGGCTGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:56122942 original size:22 final size:23
Alignment explanation
Indices: 56122908--56122954 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
56122898 AAGGTTTTGA
*
56122908 GATTTGGCAAAAAAGGGCAAGTT
1 GATTTAGCAAAAAAGGGCAAGTT
56122931 GATTTAGC-AAAAAGGGCAAGTT
1 GATTTAGCAAAAAAGGGCAAGTT
56122953 GA
1 GA
56122955 GTCCTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (23 bp):
GATTTAGCAAAAAAGGGCAAGTT
Found at i:56130439 original size:25 final size:25
Alignment explanation
Indices: 56130405--56130467 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
56130395 CCTCCTTAGC
56130405 AAAAATAAAAATAAATTTATTTTTT
1 AAAAATAAAAATAAATTTATTTTTT
56130430 AAAAATAAAAATAAATTTATTTTTT
1 AAAAATAAAAATAAATTTATTTTTT
56130455 AAAAATAAAAATA
1 AAAAATAAAAATA
56130468 TTAATAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAATAAAAATAAATTTATTTTTT
Found at i:56131381 original size:37 final size:37
Alignment explanation
Indices: 56131340--56131416 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
56131330 TATCATTTTT
* ***
56131340 TAAAATTAAATTGATATTGTATTATGTTTAAACTTTG
1 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
56131377 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
1 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
56131414 TAA
1 TAA
56131417 TCATAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (37 bp):
TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
Found at i:56134487 original size:26 final size:26
Alignment explanation
Indices: 56134442--56134493 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
56134432 ACTAAATTTG
56134442 ATTTTTATAATTTAATTTAATTTAAA
1 ATTTTTATAATTTAATTTAATTTAAA
56134468 ATTTTT-T-ATTTATATGTTAATTTAAA
1 ATTTTTATAATTTA-AT-TTAATTTAAA
56134494 CGTGTCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 3 0.12
26 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTTATAATTTAATTTAATTTAAA
Found at i:56139489 original size:20 final size:20
Alignment explanation
Indices: 56139464--56139504 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56139454 ATAAAATCAA
56139464 TGAGCAAGAAAGATATATGC
1 TGAGCAAGAAAGATATATGC
56139484 TGAGCAAGAAAGATATATGC
1 TGAGCAAGAAAGATATATGC
56139504 T
1 T
56139505 CTAAAAGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
TGAGCAAGAAAGATATATGC
Found at i:56141878 original size:8 final size:8
Alignment explanation
Indices: 56141865--56141913 Score: 62
Period size: 8 Copynumber: 5.8 Consensus size: 8
56141855 AAGCAATAAT
56141865 AAACAATA
1 AAACAATA
56141873 AAACAATA
1 AAACAATA
*
56141881 AAACACTA
1 AAACAATA
56141889 AAACAAAATA
1 AAAC--AATA
56141899 AAACAATA
1 AAACAATA
56141907 AGAACAA
1 A-AACAA
56141914 AATAGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 24 0.67
9 5 0.14
10 7 0.19
ACGTcount: A:0.73, C:0.14, G:0.02, T:0.10
Consensus pattern (8 bp):
AAACAATA
Found at i:56141879 original size:18 final size:17
Alignment explanation
Indices: 56141862--56141917 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
56141852 ACTAAGCAAT
56141862 AATAAACAATAAAACAA
1 AATAAACAATAAAACAA
* *
56141879 TA-AAACACTAAAACAA
1 AATAAACAATAAAACAA
56141895 AATAAAACAATAAGAACAA
1 AAT-AAACAATAA-AACAA
56141914 AATA
1 AATA
56141918 GTAAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 14 0.44
17 1 0.03
18 9 0.28
19 8 0.25
ACGTcount: A:0.73, C:0.12, G:0.02, T:0.12
Consensus pattern (17 bp):
AATAAACAATAAAACAA
Found at i:56141926 original size:19 final size:19
Alignment explanation
Indices: 56141865--56141917 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
56141855 AAGCAATAAT
56141865 AAACAATAA-AAC--AATA
1 AAACAATAAGAACAAAATA
*
56141881 AAACACTAA-AACAAAATA
1 AAACAATAAGAACAAAATA
56141899 AAACAATAAGAACAAAATA
1 AAACAATAAGAACAAAATA
56141918 GTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 11 0.34
18 12 0.38
19 9 0.28
ACGTcount: A:0.74, C:0.13, G:0.02, T:0.11
Consensus pattern (19 bp):
AAACAATAAGAACAAAATA
Found at i:56141938 original size:16 final size:17
Alignment explanation
Indices: 56141913--56141987 Score: 58
Period size: 17 Copynumber: 4.7 Consensus size: 17
56141903 AATAAGAACA
56141913 AAAT-AGTAAAAT-AAT
1 AAATAAGTAAAATGAAT
56141928 AAATAAGTAAATATGAAT
1 AAATAAGTAAA-ATGAAT
56141946 -AATAAG--AAAT-AAT
1 AAATAAGTAAAATGAAT
*
56141959 -ACTAA-TAAGAATGAAAT
1 AAATAAGTAA-AATG-AAT
56141976 AAATAAGTAAAA
1 AAATAAGTAAAA
56141988 ATGGAGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
13 7 0.15
14 3 0.06
15 9 0.19
16 6 0.12
17 11 0.23
18 9 0.19
19 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.24
Consensus pattern (17 bp):
AAATAAGTAAAATGAAT
Found at i:56151505 original size:40 final size:40
Alignment explanation
Indices: 56151451--56151608 Score: 226
Period size: 40 Copynumber: 4.0 Consensus size: 40
56151441 CGGATGTAAC
* * * *
56151451 AACCAGCACAAATGCCTTCAGGACTTAACCTGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
56151491 AACCCACACGAATGCCTTCGGGACTTAACCCCGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
56151531 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
56151571 AACCCGCACGAATGCCTTCGGGACTTAACTCAGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
56151609 TTTTTTTCCA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:56159498 original size:80 final size:79
Alignment explanation
Indices: 56159395--56159541 Score: 258
Period size: 79 Copynumber: 1.8 Consensus size: 79
56159385 AACCAGCACA
56159395 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTTAACCCGGTT
1 AATGCCTTCGGGACTTAACCCGGTTATAATAA-CCACACGAATGCCTTCGGGACTTAACCCGGTT
56159460 ATAATAACCCACACG
65 ATAATAACCCACACG
* **
56159475 AATGCCTTCGGGACTTAACCCGGTTATAGTAACCGGACGAATGCCTTCGGGACTTAACCCGGTTA
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCACACGAATGCCTTCGGGACTTAACCCGGTTA
56159540 TA
66 TA
56159542 TTTTTTTCTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
79 33 0.52
80 31 0.48
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCACACGAATGCCTTCGGGACTTAACCCGGTTA
TAATAACCCACACG
Found at i:56159526 original size:39 final size:40
Alignment explanation
Indices: 56159395--56159541 Score: 260
Period size: 40 Copynumber: 3.7 Consensus size: 40
56159385 AACCAGCACA
56159395 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
56159435 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
* **
56159475 AATGCCTTCGGGACTTAACCCGGTTATAGTAA-CCGGACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
56159514 AATGCCTTCGGGACTTAACCCGGTTATA
1 AATGCCTTCGGGACTTAACCCGGTTATA
56159542 TTTTTTTCTA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 33 0.32
40 71 0.68
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
Found at i:56161058 original size:15 final size:15
Alignment explanation
Indices: 56161038--56161068 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56161028 GGCCCATTTC
56161038 TTGCTCTTTTTACTA
1 TTGCTCTTTTTACTA
56161053 TTGCTCTTTTTACTA
1 TTGCTCTTTTTACTA
56161068 T
1 T
56161069 CCTAAGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.06, T:0.61
Consensus pattern (15 bp):
TTGCTCTTTTTACTA
Found at i:56163360 original size:47 final size:45
Alignment explanation
Indices: 56163253--56163374 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 45
56163243 GGTGTGAGCT
* *
56163253 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGG-ACATTACGAGTGCA
56163299 AGTGTAAGACCATGTCTGGGACATGGCATC-GG-CATTGAGACGAGTGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGGACATT---ACGAGTGCA
* *
56163347 AGTGTAACACATGTCTGGGACACGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
56163375 AGCCACGAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 4 0.06
46 14 0.21
47 29 0.43
48 20 0.30
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGGACATTACGAGTGCA
Found at i:56163423 original size:92 final size:93
Alignment explanation
Indices: 56163253--56163424 Score: 222
Period size: 92 Copynumber: 1.8 Consensus size: 93
56163243 GGTGTGAGCT
* * * * * * * *
56163253 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGAGTGCCAGTGTAAGACCATGTCTGG
1 AGTGTAACACATGTCTGGGACACGCATCAGCCACATGAT-AGTGCCAGCGTAAGACCATGTCAGA
*
56163318 GACATGGCATCGGCATTGAGACGAGTGCA
65 GACATAGCATCGGCATTGAGACGAGTGCA
*
56163347 AGTGTAACACATGTCTGGGACACGCATCAGCCACGA-GAT-GTGTCAGCGTAAGACCATGTCAGA
1 AGTGTAACACATGTCTGGGACACGCATCAGCCAC-ATGATAGTGCCAGCGTAAGACCATGTCAGA
56163410 GACATAGCATCGGCA
65 GACATAGCATCGGCA
56163425 CGGACATACA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 34 0.51
94 32 0.48
95 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (93 bp):
AGTGTAACACATGTCTGGGACACGCATCAGCCACATGATAGTGCCAGCGTAAGACCATGTCAGAG
ACATAGCATCGGCATTGAGACGAGTGCA
Found at i:56165161 original size:30 final size:30
Alignment explanation
Indices: 56165125--56165195 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
56165115 GCCTGTAACT
*
56165125 ATGGTCATTTTGTCAAAGTTTAGGGATAAA
1 ATGGTCATTTTGTCAAAGTTTAGGGACAAA
*
56165155 ATGGTCATTTTGTCAAAGTTTAGGGGCAAA
1 ATGGTCATTTTGTCAAAGTTTAGGGACAAA
56165185 ATGGTCATTTT
1 ATGGTCATTTT
56165196 ACCGAAGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (30 bp):
ATGGTCATTTTGTCAAAGTTTAGGGACAAA
Found at i:56174280 original size:19 final size:19
Alignment explanation
Indices: 56174243--56174281 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56174233 GTTAATTCTG
*
56174243 TATATTTGCATCTGTTATC
1 TATATTTGCATCTGATATC
56174262 TATATTTGTCATCT-ATATC
1 TATATTTG-CATCTGATATC
56174281 T
1 T
56174282 GTATATGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (19 bp):
TATATTTGCATCTGATATC
Found at i:56177639 original size:23 final size:23
Alignment explanation
Indices: 56177583--56177631 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
56177573 ACTTAATAGT
*
56177583 GATCATATAACTAGAACGACACA
1 GATCACATAACTAGAACGACACA
*
56177606 GATCACATAACTAGAATGACACA
1 GATCACATAACTAGAACGACACA
56177629 GAT
1 GAT
56177632 TGTTTAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (23 bp):
GATCACATAACTAGAACGACACA
Done.