Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 386 of 427
Found at i:112217876 original size:31 final size:31
Alignment explanation
Indices: 112217839--112217918 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
112217829 CTTGTCACTT
*
112217839 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * * *
112217870 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
112217901 GTAGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACT
112217919 TTTTACTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAG
Found at i:112217994 original size:50 final size:50
Alignment explanation
Indices: 112217901--112218127 Score: 391
Period size: 50 Copynumber: 4.5 Consensus size: 50
112217891 CATTGATCAG
* * *
112217901 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
112217952 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
112218002 GTAGTCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
112218052 GTTGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
112218102 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
112218128 GTTGCCATGG
Statistics
Matches: 167, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 145 0.87
51 22 0.13
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:112222996 original size:31 final size:31
Alignment explanation
Indices: 112222959--112223038 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
112222949 CTTGTCACTT
*
112222959 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * * *
112222990 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
112223021 GTAGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACT
112223039 TTTTACTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAG
Found at i:112223118 original size:50 final size:50
Alignment explanation
Indices: 112223021--112223347 Score: 564
Period size: 50 Copynumber: 6.5 Consensus size: 50
112223011 CATTGATCAG
* * * *
112223021 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
112223072 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
112223122 GTAGTCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
112223172 GTTGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
112223222 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
112223272 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
112223322 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
112223348 GTTGCCATGG
Statistics
Matches: 262, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
50 240 0.92
51 22 0.08
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:112230984 original size:46 final size:46
Alignment explanation
Indices: 112230934--112231109 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
112230924 TGGTTGAGCA
112230934 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
112230980 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
112231025 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
112231073 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112231110 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:112231090 original size:93 final size:93
Alignment explanation
Indices: 112230931--112231102 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
112230921 GGATGGTTGA
* *
112230931 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
112230996 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
112231024 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
112231089 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
112231103 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:112244681 original size:16 final size:15
Alignment explanation
Indices: 112244633--112244682 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
112244623 GACTACATAA
112244633 AAATATAAT--ATAT
1 AAATATAATAAATAT
* *
112244646 AAATTTATTAAATAT
1 AAATATAATAAATAT
*
112244661 TAATATAATATAATAT
1 AAATATAATA-AATAT
112244677 AAATAT
1 AAATAT
112244683 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 7 0.25
15 11 0.39
16 10 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATAATAAATAT
Found at i:112250164 original size:131 final size:131
Alignment explanation
Indices: 112249913--112250148 Score: 314
Period size: 131 Copynumber: 1.8 Consensus size: 131
112249903 AGTATTCACT
* * * * * *
112249913 TAAAAATTCTTTAAAACGAAGACGATATTTGATATTTGGCAATCGTGGAATCGTGCCCTAACGTG
1 TAAAAATTATTTAAAACGAAGACAATATTCGATATTTGACAATCGTGGAATCATGCCCTAACATG
* * *
112249978 CTGGGTTGTAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCACGCATGTTTT
66 CTGGGTTGTAACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCCAAAATTTCACGCATGTTTT
112250043 C
131 C
* * *
112250044 TAAAAATTATTTAAAACGAAGGCAATATTCGGTGA-TTGACAATTCG-GGAATCATGCCCTATCA
1 TAAAAATTATTTAAAACGAAGACAATATTCGAT-ATTTGACAA-TCGTGGAATCATGCCCTAACA
* *
112250107 TGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCGAATAT
64 TGCTGGGTTGTAACTTCTCGTTTGCTCAAAACAATCAAATAT
112250149 TCCTTTAGGT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
131 85 0.96
132 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (131 bp):
TAAAAATTATTTAAAACGAAGACAATATTCGATATTTGACAATCGTGGAATCATGCCCTAACATG
CTGGGTTGTAACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCCAAAATTTCACGCATGTTTT
C
Found at i:112250171 original size:131 final size:131
Alignment explanation
Indices: 112249912--112250180 Score: 292
Period size: 131 Copynumber: 2.1 Consensus size: 131
112249902 AAGTATTCAC
* * * * * *
112249912 TTAAAAATTCTTTAAAACGAAGACGATATTTGATATTTGGCAATCGTGGAATCGTGCCCTAACGT
1 TTAAAAATTATTTAAAACGAAGACAATATTCGATATTTGACAATCGTGGAATCATGCCCTAACAT
* * * *
112249977 GCTGGGTTGTAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCACGCATGTTT
66 GCTGGGTTGTAACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCCAAAATTTCACGAATGTTT
112250042 -
131 A
* * *
112250042 TCTAAAAATTATTTAAAACGAAGGCAATATTCGGTGA-TTGACAATTCG-GGAATCATGCCCTAT
1 T-TAAAAATTATTTAAAACGAAGACAATATTCGAT-ATTTGACAA-TCGTGGAATCATGCCCTAA
* * * ** *** *
112250105 CATGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTAATG
63 CATGCTGGGTTGTAACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCCAAAATTTCACGAATG
112250170 TTTA
128 TTTA
112250174 TTAAAAA
1 TTAAAAA
112250181 CCTTTCAAAA
Statistics
Matches: 113, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
130 1 0.01
131 107 0.95
132 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (131 bp):
TTAAAAATTATTTAAAACGAAGACAATATTCGATATTTGACAATCGTGGAATCATGCCCTAACAT
GCTGGGTTGTAACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCCAAAATTTCACGAATGTTT
A
Found at i:112250292 original size:129 final size:132
Alignment explanation
Indices: 112250091--112250386 Score: 293
Period size: 129 Copynumber: 2.3 Consensus size: 132
112250081 GACAATTCGG
* * * * * * * *
112250091 GAATCATGCCCTATCATGCTGGGTTGTGAC-TTCTCGTTTGCTCAAAACAATCGAATATTCCTTT
1 GAATCGTGCCCTATCATGCTGGGTTGCG-CTTTTTCATTCGCCCAAAACAATCGAAGATCCCTTT
* * *
112250155 AGGTTTTCACTAATGTTTAT-TAAAAA-CCTTTCAAAA-CAAAGGA-TGTTCAATGTTTGGC-GA
65 AAGTTTTCACTAACGTTT-TCTAAAAACCCTTT-AAAATCAAAGAAGTGTTCAATGTTTGGCAG-
112250215 TTT-GA
127 TTTGGA
* *
112250220 GAATCGTGCCCTATCATACTGGGTTGCGCTTTTTCATTCGCCCTAAACAATCGAAGATCCCTTTG
1 GAATCGTGCCCTATCATGCTGGGTTGCGCTTTTTCATTCGCCCAAAACAATCGAAGATCCCTTT-
* * * *
112250285 AAG-TTTCATTCACGTTTTCTAAAAACCCTTTAAAATGAAAGAAGTGTTCGATGTTTGGCAGTTT
65 AAGTTTTCACTAACGTTTTCTAAAAACCCTTTAAAATCAAAGAAGTGTTCAATGTTTGGCAGTTT
*
112250349 GGG
130 GGA
* * * *
112250352 GAATAGTGCCCTATCGTGCTGGGTTTCGATTTTTC
1 GAATCGTGCCCTATCATGCTGGGTTGCGCTTTTTC
112250387 GTTGGACTAA
Statistics
Matches: 136, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
128 2 0.01
129 73 0.54
130 12 0.09
131 17 0.12
132 32 0.24
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (132 bp):
GAATCGTGCCCTATCATGCTGGGTTGCGCTTTTTCATTCGCCCAAAACAATCGAAGATCCCTTTA
AGTTTTCACTAACGTTTTCTAAAAACCCTTTAAAATCAAAGAAGTGTTCAATGTTTGGCAGTTTG
GA
Found at i:112261854 original size:44 final size:44
Alignment explanation
Indices: 112261804--112262073 Score: 396
Period size: 44 Copynumber: 6.1 Consensus size: 44
112261794 GTAAATCCTA
* * *
112261804 CAGATTTGGTGTCTTTGTATTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* *
112261848 CAGATTTGGCGTCTCTGTTTTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* *
112261892 CAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * *
112261936 CAGATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * *
112261980 CAGATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * *
112262024 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
112262068 CAGATT
1 CAGATT
112262074 GGTGTTCCCG
Statistics
Matches: 210, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 210 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
Found at i:112264942 original size:129 final size:132
Alignment explanation
Indices: 112264595--112265052 Score: 339
Period size: 131 Copynumber: 3.5 Consensus size: 132
112264585 CTTAAAAATT
* * * * *
112264595 CTTTAAAACGAAGACAAGAT-TT-GATATTTGGCA-ATCGTGGAATCGTGCCCTAACGTGCTGGG
1 CTTTAAAACGAA-AGAAG-TGTTCGATGTTTGGCAGTTCGAGGAATCGTGCCCTATCGTGCTGGG
* * * * ** * * * * * * * *
112264657 TTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCACGCATGTCTT-CTAA
64 TTGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAGTTTCACTCACGT-TTACTAA
*
112264721 AAATC
128 AAACC
* * * * * * * * *
112264726 ATTTAAAACGAAGGCAA-TATTCGGTGATTGACAATTCG-GGAATCATGCCCTATTGTGCTGGGT
1 CTTTAAAACGAAAG-AAGTGTTCGATGTTTGGCAGTTCGAGGAATCGTGCCCTATCGTGCTGGGT
* * * * * * * * * *
112264789 TGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTT-TAGGTTTTCACTCATGTTTATTAAA
65 TGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAG-TTTCACTCACGTTTACTAAA
112264853 AA-C
129 AACC
* *
112264856 CTTTCAAAAC-AAAGGA-TGTTCGATGTTTGGC-GATTTGA-GAATCGTGCCCTATCGTGCTGGG
1 CTTT-AAAACGAAAGAAGTGTTCGATGTTTGGCAG-TTCGAGGAATCGTGCCCTATCGTGCTGGG
* * * *
112264917 TTGCG-CTTTTTCATTCGCCCTAAACAATCGAAGATCCCTTCGAAGTTTCATTCACGTTTCCTAA
64 TTGCGAC-TTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAGTTTCACTCACGTTTACTAA
112264981 AAACC
128 AAACC
*
112264986 CTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCGAGGAATAGTGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCGAGGAATCGTGCCCTATCGTGCTGGGTT
112265051 GC
66 GC
112265053 AATCTCCCGT
Statistics
Matches: 259, Mismatches: 52, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
128 1 0.00
129 90 0.35
130 24 0.09
131 114 0.44
132 30 0.12
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (132 bp):
CTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCGAGGAATCGTGCCCTATCGTGCTGGGTT
GCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAGTTTCACTCACGTTTACTAAAAA
CC
Found at i:112266637 original size:3 final size:3
Alignment explanation
Indices: 112266629--112266680 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
112266619 ATTATAAGTA
*
112266629 AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
112266671 AAT -AT AAT AA
1 AAT AAT AAT AA
112266681 AGAAATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
2 10 0.24
3 29 0.71
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:112266664 original size:8 final size:8
Alignment explanation
Indices: 112266633--112266680 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
112266623 TAAGTAAATA
112266633 ATAATAATT
1 ATAATAA-T
112266642 ACTAA-AAT
1 A-TAATAAT
112266650 ATAATAAT
1 ATAATAAT
112266658 A-ATATAAT
1 ATA-ATAAT
112266666 ATAATAAT
1 ATAATAAT
112266674 ATAATAA
1 ATAATAA
112266681 AGAAATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.11
8 24 0.69
9 4 0.11
10 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:112266668 original size:16 final size:16
Alignment explanation
Indices: 112266628--112266674 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
112266618 TATTATAAGT
*
112266628 AAATAATAATAATTACTA
1 AAAT-ATAATAA-TAATA
112266646 AAATATAATAATAATA
1 AAATATAATAATAATA
*
112266662 TAATATAATAATA
1 AAATATAATAATA
112266675 TAATAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 16 0.59
17 7 0.26
18 4 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATAATAATAATA
Found at i:112266671 original size:13 final size:13
Alignment explanation
Indices: 112266653--112266679 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112266643 CTAAAATATA
112266653 ATAATAATATAAT
1 ATAATAATATAAT
112266666 ATAATAATATAAT
1 ATAATAATATAAT
112266679 A
1 A
112266680 AAGAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:112267624 original size:12 final size:12
Alignment explanation
Indices: 112267607--112267631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112267597 CCTGACTATG
112267607 ATTGTTACTGTT
1 ATTGTTACTGTT
112267619 ATTGTTACTGTT
1 ATTGTTACTGTT
112267631 A
1 A
112267632 CCCTACGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
ATTGTTACTGTT
Found at i:112267827 original size:2 final size:2
Alignment explanation
Indices: 112267820--112267855 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
112267810 GTGATAAGAA
112267820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112267856 GAATTGCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112273153 original size:22 final size:21
Alignment explanation
Indices: 112273106--112273154 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
112273096 CTTATAACAT
*
112273106 ATTAAAAATATCTAATATATA
1 ATTAAAAATATCTAAAATATA
*
112273127 CTTAAAAATTAT-TAAAATATTA
1 ATTAAAAA-TATCTAAAATA-TA
112273149 ATTAAA
1 ATTAAA
112273155 TACTTAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAAAAATATCTAAAATATA
Found at i:112273254 original size:23 final size:22
Alignment explanation
Indices: 112273223--112273271 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
112273213 AGAAAAGTTA
* *
112273223 AAAACTTTTAATTCAAAATAATT
1 AAAACTTTTAA-TAAAAATAAAT
* *
112273246 AAAAGTTTTCATAAAAATAAAT
1 AAAACTTTTAATAAAAATAAAT
112273268 AAAA
1 AAAA
112273272 AAGTAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAACTTTTAATAAAAATAAAT
Found at i:112273984 original size:6 final size:6
Alignment explanation
Indices: 112273969--112274002 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
112273959 TTTGGATACC
*
112273969 AAAAAA AAAAAG AAAAA- AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
112274003 CATATCGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:112273986 original size:11 final size:11
Alignment explanation
Indices: 112273970--112274002 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
112273960 TTGGATACCA
112273970 AAAAAAAAAAG
1 AAAAAAAAAAG
112273981 AAAAAAAAAAG
1 AAAAAAAAAAG
112273992 AAAAAGAAAAA
1 AAAAA-AAAAA
112274003 CATATCGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:112273995 original size:17 final size:16
Alignment explanation
Indices: 112273969--112274002 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
112273959 TTTGGATACC
112273969 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
112273985 AAAAAAGAAAAAGAAAA
1 AAAAAA-AAAAAGAAAA
112274002 A
1 A
112274003 CATATCGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:112275690 original size:42 final size:42
Alignment explanation
Indices: 112275631--112275713 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
112275621 ACTGTAACGT
*
112275631 AGTAGACGGTACGGAGCTTTCGAACCCATTTTCAGCTGTTGC
1 AGTAGACGGTACGGAGCTTTCGAACCCACTTTCAGCTGTTGC
112275673 AGTAGACGGTACGGAGCTTTCGAACCCACTTTCAGCTGTTG
1 AGTAGACGGTACGGAGCTTTCGAACCCACTTTCAGCTGTTG
112275714 AGGAGTTGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (42 bp):
AGTAGACGGTACGGAGCTTTCGAACCCACTTTCAGCTGTTGC
Found at i:112279111 original size:15 final size:15
Alignment explanation
Indices: 112279069--112279111 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
112279059 TTATGTTACA
112279069 TTTTAGTTATTTATG
1 TTTTAGTTATTTATG
* **
112279084 TTTAAAATA-TTATG
1 TTTTAGTTATTTATG
112279098 TTTTAGTTATTTAT
1 TTTTAGTTATTTAT
112279112 TTTATTATGT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (15 bp):
TTTTAGTTATTTATG
Found at i:112284332 original size:5 final size:5
Alignment explanation
Indices: 112284322--112284354 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
112284312 GTCCACTGAA
112284322 GTGAG GTGAG GTGAG GTGAG GTGAG GTGAG GTG
1 GTGAG GTGAG GTGAG GTGAG GTGAG GTGAG GTG
112284355 GTGTGCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.61, T:0.21
Consensus pattern (5 bp):
GTGAG
Found at i:112288949 original size:23 final size:23
Alignment explanation
Indices: 112288919--112288965 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
112288909 CCGTTAGTGT
*
112288919 CTTAACGGGACCATTGATGTGGC
1 CTTAACGGGACCACTGATGTGGC
112288942 CTTAACGGGACCACTGATGTGGC
1 CTTAACGGGACCACTGATGTGGC
112288965 C
1 C
112288966 AGTTAACTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (23 bp):
CTTAACGGGACCACTGATGTGGC
Found at i:112289729 original size:18 final size:17
Alignment explanation
Indices: 112289708--112289741 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
112289698 TCTCTTCTCC
112289708 TTCTTCTTATTTTTCTTT
1 TTCTTCTT-TTTTTCTTT
112289726 TTCTTCTTTTTTTCTT
1 TTCTTCTTTTTTTCTT
112289742 CTTAAACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTCTTTTTTTCTTT
Found at i:112293979 original size:30 final size:30
Alignment explanation
Indices: 112293905--112293981 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
112293895 GTCTTTTGAA
* *
112293905 TCCCAAGATCCTAAACGAGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
* *
112293935 TCCCAAGCTTCTGAACGAGATATCGGGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
*
112293965 TCTCAA-CTCCCTGAACG
1 TCCCAAGCT-CCTGAACG
112293982 TTCTTGTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 2 0.05
30 38 0.95
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (30 bp):
TCCCAAGCTCCTGAACGAGATATCGAGTCT
Found at i:112302059 original size:38 final size:39
Alignment explanation
Indices: 112302006--112302262 Score: 183
Period size: 46 Copynumber: 5.9 Consensus size: 39
112301996 CTGATATGAA
* *
112302006 ATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTG
1 ATGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTG
112302045 -TGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGAACATGGTTGAAAGATACCATGGCAACC-----TG
*
112302088 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 --ATGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTG
* *
112302129 ATATGAAATGTGTAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAA---G--AA-CATGGTTGAAAGATACCATGGCAACC-----T--G
* *
112302181 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTG
* *
112302220 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGAACATGGTTGAAAGATACCATGGCAAC
112302263 ATGACAAAAA
Statistics
Matches: 179, Mismatches: 11, Indels: 49
0.75 0.05 0.21
Matches are distributed among these distances:
38 34 0.19
39 7 0.04
41 6 0.03
42 1 0.01
43 2 0.01
44 2 0.01
45 26 0.15
46 91 0.51
47 1 0.01
49 1 0.01
50 1 0.01
52 7 0.04
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (39 bp):
ATGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTG
Found at i:112302112 original size:46 final size:46
Alignment explanation
Indices: 112302045--112302305 Score: 382
Period size: 46 Copynumber: 5.7 Consensus size: 46
112302035 CGGCAACCTG
*
112302045 TGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
112302091 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
112302137 TGTGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
112302182 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * * *
112302228 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-AAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * * *
112302273 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
112302306 TCACGTCAAA
Statistics
Matches: 199, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
45 75 0.38
46 124 0.62
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:112302210 original size:91 final size:92
Alignment explanation
Indices: 112302045--112302305 Score: 382
Period size: 91 Copynumber: 2.9 Consensus size: 92
112302035 CGGCAACCTG
*
112302045 TGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
*
112302110 AAGATACCATGGCAACCTGATATGAAA
66 AAGATACCATGGCAACCTGACATGAAA
*
112302137 TGTGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
*
112302201 AAGATACCATGGCAACGTGACATGAAA
66 AAGATACCATGGCAACCTGACATGAAA
* ** * * * * *
112302228 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-AAAATGAGTAAGACCATAGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
* *
112302292 AAGACACTATGGCA
66 AAGATACCATGGCA
112302306 TCACGTCAAA
Statistics
Matches: 153, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
91 115 0.75
92 38 0.25
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
AAGATACCATGGCAACCTGACATGAAA
Found at i:112302236 original size:137 final size:130
Alignment explanation
Indices: 112301996--112302305 Score: 408
Period size: 137 Copynumber: 2.3 Consensus size: 130
112301986 AGTGTGCTCT
*
112301996 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGTGTGTAAGAACATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGAACATGGT
* * **
112302061 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
112302126 CTGATATGAAATGTGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
* *
112302190 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 AACATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
112302255 ATGGCAAC
123 ATGGCAAC
* * * * * * *
112302263 ATGACA-AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
112302306 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
129 27 0.17
130 18 0.11
134 1 0.01
136 10 0.06
137 101 0.64
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGAACATGGT
TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:112302326 original size:45 final size:45
Alignment explanation
Indices: 112302186--112302328 Score: 135
Period size: 45 Copynumber: 3.2 Consensus size: 45
112302176 ATGAGATGTG
* * ** *
112302186 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATAGTTGAAAGACACCATGGCAACACGACA--AAAATAAA
* * * * *
112302232 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAATGAG
1 TAAGACCATAGTTGAAAGACACCATGGCAACACGACAAAAATAAA
* * * *
112302277 TAAGACCATAGTTGAAAGACACTATGGCATCACGTCAAAGATAAA
1 TAAGACCATAGTTGAAAGACACCATGGCAACACGACAAAAATAAA
112302322 TAAGACC
1 TAAGACC
112302329 GTGGATGGGA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
44 4 0.05
45 45 0.53
46 36 0.42
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACCATGGCAACACGACAAAAATAAA
Found at i:112302611 original size:23 final size:25
Alignment explanation
Indices: 112302566--112302612 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
112302556 AATAAATATA
*
112302566 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
112302591 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
112302613 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:112303584 original size:25 final size:25
Alignment explanation
Indices: 112303556--112303605 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
112303546 GACCTCAGCA
*
112303556 TGCTCTCTGATTACTAGCACGTTAG
1 TGCTCTCTGATTACTAGCACATTAG
*
112303581 TGCTCTCTGATTATTAGCACATTAG
1 TGCTCTCTGATTACTAGCACATTAG
112303606 CACATTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACATTAG
Found at i:112307490 original size:45 final size:46
Alignment explanation
Indices: 112307409--112307589 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
112307399 AGTGTGCTCT
*
112307409 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
112307455 CTGATATGAAATGTGTAA-ACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
112307500 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
112307546 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
112307590 TCATGTCAAA
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 42 0.34
46 80 0.66
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:112307611 original size:91 final size:90
Alignment explanation
Indices: 112307424--112307612 Score: 222
Period size: 91 Copynumber: 2.1 Consensus size: 90
112307414 ATGAAATGTG
* * * * *
112307424 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAACCATAGTTGAAAGAC
* *
112307489 ACCATGGCAACGTGATATGAAATGAA
66 ACCATGGCAACATGATA-GAAATAAA
*
112307515 CAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAA-ACCATAGTTGAAAG
* *
112307579 ACACTATGGCATCATG-TCA-AAGATAAA
64 ACACCATGGCAACATGAT-AGAA-ATAAA
112307606 TAAGACC
1 TAAGACC
112307613 GTGGATGGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
90 3 0.04
91 54 0.65
92 26 0.31
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.21
Consensus pattern (90 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAACCATAGTTGAAAGAC
ACCATGGCAACATGATAGAAATAAA
Found at i:112310835 original size:38 final size:40
Alignment explanation
Indices: 112310785--112310954 Score: 175
Period size: 46 Copynumber: 4.0 Consensus size: 40
112310775 CTGATATGAA
112310785 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
112310824 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
*
112310867 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAA----CCATG
* **
112310913 AAAAGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
112310954 A
1 A
112310955 CAGAAAATGA
Statistics
Matches: 115, Mismatches: 4, Indels: 24
0.80 0.03 0.17
Matches are distributed among these distances:
38 36 0.31
39 1 0.01
41 4 0.03
43 2 0.02
46 71 0.62
50 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:112310891 original size:46 final size:46
Alignment explanation
Indices: 112310827--112310994 Score: 230
Period size: 46 Copynumber: 3.7 Consensus size: 46
112310817 CAACCTGTGT
* * *
112310827 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
** *
112310873 GTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
112310919 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
112310965 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
112310995 TCACGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 107 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:112311300 original size:23 final size:25
Alignment explanation
Indices: 112311255--112311301 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
112311245 AATAAATATA
*
112311255 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
112311280 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
112311302 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:112318593 original size:3 final size:3
Alignment explanation
Indices: 112318585--112318629 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
112318575 TACTAAGTAA
112318585 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
112318630 GTTAAGACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:112321008 original size:27 final size:27
Alignment explanation
Indices: 112320975--112321042 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
112320965 AAAAATTATA
112320975 ATTAATCAAAAGTTATGTCACTTAATT
1 ATTAATCAAAAGTTATGTCACTTAATT
112321002 ATTAATCAAAAGTTATGTCACTTAATT
1 ATTAATCAAAAGTTATGTCACTTAATT
112321029 ATTAATCAAAAGTT
1 ATTAATCAAAAGTT
112321043 GTCATTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTAATCAAAAGTTATGTCACTTAATT
Found at i:112326823 original size:41 final size:40
Alignment explanation
Indices: 112326778--112326929 Score: 171
Period size: 41 Copynumber: 3.8 Consensus size: 40
112326768 AGCTTTAGTG
*
112326778 GCATTAACGACGCTTTTAGAAGAAACGCCGCTATAGATCGA
1 GCATTAGCGACGCTTTTAGAA-AAACGCCGCTATAGATCGA
* * * *
112326819 GCATTAGCGGCGCTTTTATAAAAAATGCCACTATAGATCGA
1 GCATTAGCGACGCTTTTA-GAAAAACGCCGCTATAGATCGA
* * * *
112326860 GCATTAGCGATGCTTTTTA-AAAAATGCCGCTATAGGTTGA
1 GCATTAGCGACGC-TTTTAGAAAAACGCCGCTATAGATCGA
* *
112326900 GCATTAGCGGCGCTTTTTGAAAAACGCCGC
1 GCATTAGCGACGCTTTTAGAAAAACGCCGC
112326930 AAAAAATTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 39 0.41
41 44 0.47
42 7 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (40 bp):
GCATTAGCGACGCTTTTAGAAAAACGCCGCTATAGATCGA
Found at i:112326893 original size:40 final size:40
Alignment explanation
Indices: 112326778--112326929 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
112326768 AGCTTTAGTG
*
112326778 GCATTAACGACGC-TTTTAGAAGAAACGCCGCTATAGATCGA
1 GCATTAGCGACGCTTTTTA-AA-AAACGCCGCTATAGATCGA
* * *
112326819 GCATTAGCGGCGCTTTTATAAAAAATGCCACTATAGATCGA
1 GCATTAGCGACGCTTTT-TAAAAAACGCCGCTATAGATCGA
* * * *
112326860 GCATTAGCGATGCTTTTTAAAAAATGCCGCTATAGGTTGA
1 GCATTAGCGACGCTTTTTAAAAAACGCCGCTATAGATCGA
* *
112326900 GCATTAGCGGCGCTTTTTGAAAAACGCCGC
1 GCATTAGCGACGCTTTTTAAAAAACGCCGC
112326930 AAAAAATTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
40 46 0.48
41 43 0.45
42 5 0.05
43 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (40 bp):
GCATTAGCGACGCTTTTTAAAAAACGCCGCTATAGATCGA
Found at i:112329095 original size:20 final size:20
Alignment explanation
Indices: 112329057--112329095 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
112329047 ATGCAAAGTG
*
112329057 GACGTTGCATGGCATATTTT
1 GACGTTGCATGGCAAATTTT
112329077 GACGTTGACATGG-AAATTT
1 GACGTTG-CATGGCAAATTT
112329096 ATAAACATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
GACGTTGCATGGCAAATTTT
Found at i:112330307 original size:27 final size:31
Alignment explanation
Indices: 112330258--112330314 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
112330248 TATACGTGTA
112330258 AAACTAATATATAATAAATAATA-AAAATTTG
1 AAACTAATATATAAT-AATAATACAAAATTTG
112330289 AAACTAATA-ATAAT-A-AATACAAAATT
1 AAACTAATATATAATAATAATACAAAATT
112330315 AAGTTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
30 5 0.20
31 9 0.36
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (31 bp):
AAACTAATATATAATAATAATACAAAATTTG
Found at i:112330549 original size:2 final size:2
Alignment explanation
Indices: 112330498--112330530 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
112330488 ACAAATATGT
112330498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112330531 GAAAAGCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112331005 original size:7 final size:7
Alignment explanation
Indices: 112330993--112331021 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
112330983 GCGTGGATCT
112330993 GATGGTG
1 GATGGTG
112331000 GATGGTG
1 GATGGTG
112331007 GATGGTG
1 GATGGTG
112331014 GATGGTG
1 GATGGTG
112331021 G
1 G
112331022 TGAATCAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.59, T:0.28
Consensus pattern (7 bp):
GATGGTG
Found at i:112332506 original size:34 final size:34
Alignment explanation
Indices: 112332425--112332580 Score: 215
Period size: 34 Copynumber: 4.6 Consensus size: 34
112332415 TTTCCTCATG
* * * *
112332425 GAAAATACCATACCTACATTTCATAACTCAATAT
1 GAAAATACCATACCTACGTATCATAGCTCGATAT
*
112332459 GGAAAATATCATACCTACGTATCATAGCTCGATAT
1 -GAAAATACCATACCTACGTATCATAGCTCGATAT
112332494 GAAAATACCATACCTACGTATCATAGCTCGATAT
1 GAAAATACCATACCTACGTATCATAGCTCGATAT
*
112332528 GAAAATACCATACCTACATATCATAGCTC-AGTAT
1 GAAAATACCATACCTACGTATCATAGCTCGA-TAT
* *
112332562 GGAAATACCATACGTACGT
1 GAAAATACCATACCTACGT
112332581 TTCACATTTT
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
33 1 0.01
34 80 0.73
35 29 0.26
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (34 bp):
GAAAATACCATACCTACGTATCATAGCTCGATAT
Found at i:112333946 original size:30 final size:31
Alignment explanation
Indices: 112333909--112333974 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 31
112333899 TTTATATTAA
112333909 ACTTAACATAAATTAAATTCCATGTACCTAT
1 ACTTAACATAAATTAAATTCCATGTACCTAT
112333940 -CTTAACATAAATTAAATTCCATGTACCTAT
1 ACTTAACATAAATTAAATTCCATGTACCTAT
112333970 ACTTA
1 ACTTA
112333975 TTTCATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (31 bp):
ACTTAACATAAATTAAATTCCATGTACCTAT
Found at i:112334451 original size:46 final size:46
Alignment explanation
Indices: 112334183--112334441 Score: 383
Period size: 46 Copynumber: 5.6 Consensus size: 46
112334173 TTCGAAATGA
* * * * * *
112334183 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
* *
112334229 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCATCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
*
112334275 TGCCATGGTATCTTTCAGCCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
*
112334321 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
* * ** *
112334367 TGCCATGGTATCTTTCAACCACGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
112334413 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
112334442 CACATTTCAT
Statistics
Matches: 194, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 194 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
Found at i:112337173 original size:24 final size:24
Alignment explanation
Indices: 112337138--112337195 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
112337128 ATTTTTTAAT
112337138 TTTA-ATTATAGTTTTAATTCTACA
1 TTTACATT-TAGTTTTAATTCTACA
*
112337162 TTTACATTTAGTTTTAATTTTACA
1 TTTACATTTAGTTTTAATTCTACA
112337186 TTTACATTTA
1 TTTACATTTA
112337196 TATATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTACATTTAGTTTTAATTCTACA
Found at i:112340854 original size:25 final size:21
Alignment explanation
Indices: 112340823--112340881 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 21
112340813 TTAATAGATG
112340823 AAAAATATAAAAATATTAAATTAA
1 AAAAATATAAAAAT-TT--ATTAA
112340847 AAATAATATAAATAATTTATTAA
1 AAA-AATATAAA-AATTTATTAA
*
112340870 AAAAATTTAAAA
1 AAAAATATAAAA
112340882 TTATATGGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.03
22 7 0.22
23 8 0.25
24 3 0.09
25 10 0.31
26 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATAAAAATTTATTAA
Found at i:112340859 original size:23 final size:23
Alignment explanation
Indices: 112340823--112340884 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
112340813 TTAATAGATG
*
112340823 AAAAAT-ATAAAAATATTAAATT
1 AAAAATAATATAAATATTAAATT
*
112340845 AAAAATAATATAAATAATT-TATT
1 AAAAATAATATAAAT-ATTAAATT
*
112340868 AAAAA-AATTTAAA-ATTA
1 AAAAATAATATAAATATTA
112340885 TATGGATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
22 13 0.38
23 15 0.44
24 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAATAATATAAATATTAAATT
Found at i:112351411 original size:20 final size:20
Alignment explanation
Indices: 112351388--112351433 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
112351378 TTTCTTTTTA
112351388 TTTTCTTTCTCATCTTTCTCT
1 TTTTCTTT-TCATCTTTCTCT
* *
112351409 TTTTCTTTTCTTCTTTTTCT
1 TTTTCTTTTCATCTTTCTCT
112351429 TTTTC
1 TTTTC
112351434 CTACCCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCTTTTCATCTTTCTCT
Found at i:112351425 original size:14 final size:13
Alignment explanation
Indices: 112351402--112351431 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
112351392 CTTTCTCATC
112351402 TTTCTCTTTTTCT
1 TTTCTCTTTTTCT
112351415 TTTCTTCTTTTTCT
1 TTTC-TCTTTTTCT
112351429 TTT
1 TTT
112351432 TCCTACCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTCTTTTTCT
Found at i:112357292 original size:29 final size:29
Alignment explanation
Indices: 112357250--112357315 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
112357240 GTGTACCATA
*
112357250 TGAAAAGAGATAGCTTCAGCTATCGAATG
1 TGAAAAGGGATAGCTTCAGCTATCGAATG
*
112357279 TGAAAAGGGATAGCTTCAGCTATTGAATG
1 TGAAAAGGGATAGCTTCAGCTATCGAATG
112357308 TGAAAAGG
1 TGAAAAGG
112357316 TTAGGTATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (29 bp):
TGAAAAGGGATAGCTTCAGCTATCGAATG
Found at i:112357350 original size:33 final size:33
Alignment explanation
Indices: 112357320--112357535 Score: 238
Period size: 33 Copynumber: 6.6 Consensus size: 33
112357310 AAAAGGTTAG
**
112357320 GTATACTTTGTGTATACCACATGAAAAGGTTAT
1 GTATACTTTGTGTATACCACATGAAAAGGAAAT
** * * * **
112357353 GTGCACTTTGTGTGTA-CACTTGAAAATGTTAT
1 GTATACTTTGTGTATACCACATGAAAAGGAAAT
* * *
112357385 GTACACTTTGTGTGTA-CACTTGAAAAGGAAAT
1 GTATACTTTGTGTATACCACATGAAAAGGAAAT
* * *
112357417 GTATACTTTGTGTATACCATATAAAAAGGAAAG
1 GTATACTTTGTGTATACCACATGAAAAGGAAAT
*
112357450 GTATACTTTGTGTATACCATATGAAAAGGAAAT
1 GTATACTTTGTGTATACCACATGAAAAGGAAAT
* *
112357483 GTATACTTTGTGTATACCATATGAAAAGGAAAG
1 GTATACTTTGTGTATACCACATGAAAAGGAAAT
* *
112357516 GTATACTTTGTATGTACCAC
1 GTATACTTTGTGTATACCAC
112357536 TCAGAAAGAA
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
32 56 0.35
33 105 0.65
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (33 bp):
GTATACTTTGTGTATACCACATGAAAAGGAAAT
Found at i:112357384 original size:32 final size:32
Alignment explanation
Indices: 112357308--112357429 Score: 154
Period size: 32 Copynumber: 3.8 Consensus size: 32
112357298 CTATTGAATG
* * * *
112357308 TGAAAAGGTTAGGTATACTTTGTGTATACCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
*
112357341 TGAAAAGGTTATGTGCACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
*
112357373 TGAAAATGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
** *
112357405 TGAAAAGGAAATGTATACTTTGTGT
1 TGAAAAGGTTATGTACACTTTGTGT
112357430 ATACCATATA
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
32 54 0.69
33 24 0.31
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:112360834 original size:46 final size:46
Alignment explanation
Indices: 112360425--112360836 Score: 560
Period size: 46 Copynumber: 9.0 Consensus size: 46
112360415 TTATCTTTGA
* * * *
112360425 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
112360471 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TCCTTTCCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CATGT
* * *
112360517 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * ** **
112360563 CACGCTGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
112360609 CATGTTGCCATGGTATATTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
112360655 CACGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* *
112360701 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
112360747 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
112360793 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
112360837 TTCAGAGAGC
Statistics
Matches: 334, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
44 3 0.01
45 4 0.01
46 322 0.96
47 5 0.01
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:112364054 original size:6 final size:6
Alignment explanation
Indices: 112364043--112364069 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
112364033 ACTGTGTTAC
112364043 ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATG
112364070 AGAGTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:112364939 original size:15 final size:15
Alignment explanation
Indices: 112364910--112364954 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
112364900 AGTGCTGTAA
112364910 ATGGGATTTCCTTATC
1 ATGGG-TTTCCTTATC
*
112364926 ATGGGTTTCTTTATC
1 ATGGGTTTCCTTATC
* *
112364941 TTGGATTTCCTTAT
1 ATGGGTTTCCTTAT
112364955 TCTGGGCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.51
Consensus pattern (15 bp):
ATGGGTTTCCTTATC
Found at i:112367037 original size:29 final size:29
Alignment explanation
Indices: 112366995--112367063 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
112366985 TGTTTGAACC
112366995 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
*
112367024 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
112367053 ATGTGAAAAGG
1 ATGTGAAAAGG
112367064 TTAGGTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:112367140 original size:32 final size:32
Alignment explanation
Indices: 112367089--112367149 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
112367079 GTATACCATA
** *
112367089 TGAAAAGGTTATGTGTACTTTGTGTGTACACT
1 TGAAAAGGAAATGTATACTTTGTGTGTACACT
112367121 TGAAAAGGAAATGTATACTTTGTGTGTAC
1 TGAAAAGGAAATGTATACTTTGTGTGTAC
112367150 CACTCAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (32 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACT
Found at i:112369656 original size:25 final size:25
Alignment explanation
Indices: 112369625--112369717 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 25
112369615 GCGATAATAT
*
112369625 GTAAGCTCCTACAAGCTGAATATCG
1 GTAAGCTCATACAAGCTGAATATCG
** *
112369650 GTAAGCTCATATGAGCTGAGTATCG
1 GTAAGCTCATACAAGCTGAATATCG
*
112369675 GTAAGCTC-T-CATGAGCTGAAAATCG
1 GTAAGCTCATACA--AGCTGAATATCG
*
112369700 GTAAGCTCATACGAGCTG
1 GTAAGCTCATACAAGCTG
112369718 TGGTGAGTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 52 0.95
26 1 0.02
27 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATACAAGCTGAATATCG
Found at i:112371412 original size:23 final size:23
Alignment explanation
Indices: 112371388--112371432 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
112371378 ATAATAAATA
*
112371388 TATATTT-T-TTTTATTTTTAAT
1 TATATTTATATTTTAATTTTAAT
112371409 TATATTTATATTTTAATTTTAAT
1 TATATTTATATTTTAATTTTAAT
112371432 T
1 T
112371433 TTAATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 1 0.05
23 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TATATTTATATTTTAATTTTAAT
Found at i:112376013 original size:50 final size:50
Alignment explanation
Indices: 112375938--112376114 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
112375928 CCATGGCAAC
*
112375938 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
112375988 AAGTGATAAGTAATAGTTTTGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
112376038 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* **
112376088 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
112376115 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 91 0.80
51 23 0.20
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:112376128 original size:31 final size:31
Alignment explanation
Indices: 112376090--112376237 Score: 233
Period size: 31 Copynumber: 4.8 Consensus size: 31
112376080 ACAAATGACA
112376090 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
112376121 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
112376152 AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
112376183 AGTGAAAAATAGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
112376214 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGGTAGCTTCGGCTA
112376238 AAAGTGACAA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:112376417 original size:49 final size:48
Alignment explanation
Indices: 112376262--112376478 Score: 195
Period size: 47 Copynumber: 4.7 Consensus size: 48
112376252 TTTCCGTATT
* * * * * * *
112376262 AGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTATA
1 AGACCATAACTGGGCTATGGCATCGATATGTGATATGTGATTC-GTGTA
* * * *
112376309 AGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTGTA
1 AGACCATAACTGGGCTATGGCATCGATATGTGATATGTGATTCGTGTA
*
112376355 AGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTA
1 AGACCATAACTGGGCTATGGCATCGATATGTGATATGTGATT-CGTGTA
* *
112376404 AGACGATAACTGGGCTATGGCATCGATATATGA-A--T-A-T-GTGTA
1 AGACCATAACTGGGCTATGGCATCGATATGTGATATGTGATTCGTGTA
*
112376446 AGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 AGACCATAACTGGGCTATGGCATCGA-TATGTGA
112376479 AGATGTGTAA
Statistics
Matches: 150, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 33 0.22
44 1 0.01
45 1 0.01
46 27 0.18
47 37 0.25
48 14 0.09
49 36 0.24
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
AGACCATAACTGGGCTATGGCATCGATATGTGATATGTGATTCGTGTA
Found at i:112376496 original size:42 final size:41
Alignment explanation
Indices: 112376399--112376512 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 41
112376389 ATGTGATTAC
* * *
112376399 GTGTAAGACGATAACTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATATATGAAGAT
*
112376441 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCA-TATATGAAGAT
* **
112376483 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGCTGGGCTATGGCATCA
112376513 AGAAAAAGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATATATGAAGAT
Found at i:112380390 original size:12 final size:12
Alignment explanation
Indices: 112380373--112380397 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112380363 ATATTTAGAA
112380373 TTCTCTTCATTT
1 TTCTCTTCATTT
112380385 TTCTCTTCATTT
1 TTCTCTTCATTT
112380397 T
1 T
112380398 CATCAGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTCATTT
Found at i:112384367 original size:11 final size:11
Alignment explanation
Indices: 112384340--112384396 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
112384330 TTACCGGTAG
*
112384340 TATTAAGATAAA
1 TATT-AGATTAA
112384352 TATTAGATTAA
1 TATTAGATTAA
*
112384363 CATTAGAAATTAA
1 TATTAG--ATTAA
*
112384376 TGTTAGATTAA
1 TATTAGATTAA
112384387 TATTAGATTA
1 TATTAGATTA
112384397 GGATTTACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 25 0.66
12 4 0.11
13 9 0.24
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (11 bp):
TATTAGATTAA
Found at i:112385109 original size:9 final size:9
Alignment explanation
Indices: 112385058--112385114 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
112385048 GTTTGGGAAA
112385058 TTTTATAAT
1 TTTTATAAT
*
112385067 TTTTCTTAAT
1 TTTT-ATAAT
112385077 TAGTTTATAAT
1 T--TTTATAAT
*
112385088 TTTGTATAGT
1 TTT-TATAAT
112385098 TTTTATAAT
1 TTTTATAAT
112385107 TTTTATAA
1 TTTTATAA
112385115 GTAAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 19 0.47
10 13 0.32
11 5 0.12
12 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:112388404 original size:26 final size:25
Alignment explanation
Indices: 112388344--112388420 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
112388334 AATAAATAAT
*
112388344 AATAAT-ATAATAAAATATCTTATTAA
1 AATAATAATAA-AAAATAT-TTATCAA
*
112388370 AATATTAATAAAATAATATTTATCAA
1 AATAATAATAAAA-AATATTTATCAA
* *
112388396 ATTAATAATTATAAAATA-TTATCAA
1 AATAATAA-TAAAAAATATTTATCAA
112388421 CATCATCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 7 0.16
26 23 0.53
27 13 0.30
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAATAATAAAAAATATTTATCAA
Found at i:112392450 original size:40 final size:40
Alignment explanation
Indices: 112392357--112392495 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
112392347 TCTCGAGAAT
* * ** *
112392357 TTAAAGTGGATAGGATTCGTTCTTGATTCACTATAATACC
1 TTAAAGTGAATAGGATTTGTTCTTGATTCACTATGGTAAC
* * *
112392397 TCAAAAT-AGATAGGATTTGTTCTTGATTCACTATGGTAAT
1 TTAAAGTGA-ATAGGATTTGTTCTTGATTCACTATGGTAAC
* *
112392437 TTAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAAC
1 TTAAAGTGAATAGGATTTGTTCTTGATTCACTATGGTAAC
* * *
112392477 TTAAGGCGGATAGGATTTG
1 TTAAAGTGAATAGGATTTG
112392496 ACCTGAAAAG
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 79 0.99
41 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (40 bp):
TTAAAGTGAATAGGATTTGTTCTTGATTCACTATGGTAAC
Found at i:112392550 original size:78 final size:78
Alignment explanation
Indices: 112392460--112392611 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
112392450 GATTTATTCC
* **
112392460 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTTGCTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
112392525 GTTACATGATATA
66 GTTACATGATATA
* * *
112392538 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCTTGATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
112392603 GTTACATGA
66 GTTACATGA
112392612 GATGTGACTC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:112396438 original size:21 final size:21
Alignment explanation
Indices: 112396414--112396456 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
112396404 AGAACATCAG
112396414 AAATAAAAATGGTGCCTTCAA
1 AAATAAAAATGGTGCCTTCAA
112396435 AAATAAAAATGGTGCCTTCAA
1 AAATAAAAATGGTGCCTTCAA
112396456 A
1 A
112396457 CTCCAGGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (21 bp):
AAATAAAAATGGTGCCTTCAA
Found at i:112400185 original size:2 final size:2
Alignment explanation
Indices: 112400178--112400227 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
112400168 ATCCTATAAC
* *
112400178 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
112400220 CT CT CT CT
1 CT CT CT CT
112400228 ATATATATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
CT
Found at i:112401663 original size:18 final size:18
Alignment explanation
Indices: 112401618--112401665 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
112401608 AAGCTACATT
** *
112401618 AAAAGAAATGAAGAATGG
1 AAAAGAAAAAAAGAATGA
*
112401636 AAAAGCAAAAAAGAATGA
1 AAAAGAAAAAAAGAATGA
*
112401654 AAAATAAAAAAA
1 AAAAGAAAAAAA
112401666 AAAAAGAAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAAAAGAATGA
Found at i:112403423 original size:18 final size:18
Alignment explanation
Indices: 112403387--112403436 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
112403377 GGATGAATAC
*
112403387 AAAATTAAAAAAACTTTA
1 AAAATTATAAAAACTTTA
112403405 AAAATTATAAAAA-TATTA
1 AAAATTATAAAAACT-TTA
*
112403423 ATAATTATGAAAAA
1 AAAATTAT-AAAAA
112403437 ATTCTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 22 0.79
19 5 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAACTTTA
Found at i:112419980 original size:11 final size:11
Alignment explanation
Indices: 112419974--112420000 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
112419964 TGAAATTTTC
112419974 TCAAAATTCTA
1 TCAAAATTCTA
112419985 TCAAAATTCTA
1 TCAAAATTCTA
112419996 TCAAA
1 TCAAA
112420001 TTTGTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:112420002 original size:32 final size:32
Alignment explanation
Indices: 112419942--112420003 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
112419932 AATATTCCCT
* *
112419942 TCAAAAATCTATCAAATTTCATTGAAATTTTC
1 TCAAAAATCTATCAAAATTCATTCAAATTTTC
*
112419974 TCAAAATTCTATCAAAATTC-TATCAAATTT
1 TCAAAAATCTATCAAAATTCAT-TCAAATTT
112420004 GTTTGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (32 bp):
TCAAAAATCTATCAAAATTCATTCAAATTTTC
Found at i:112420202 original size:48 final size:46
Alignment explanation
Indices: 112420138--112420272 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 46
112420128 AGTGATAATT
*
112420138 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGC-AATTATAA
*
112420186 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATTATAA
* *
112420234 TTACAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTA-AATTTCAATACT-ATTGATATTTTTTTCATTTATG
112420273 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
47 7 0.09
48 63 0.82
49 7 0.09
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.53
Consensus pattern (46 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTATAA
Found at i:112421219 original size:7 final size:7
Alignment explanation
Indices: 112421207--112421253 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
112421197 TAGTCGTTTC
112421207 GTATTTA
1 GTATTTA
112421214 GTATTTA
1 GTATTTA
112421221 GTATTTA
1 GTATTTA
112421228 GTATTTA
1 GTATTTA
112421235 GTATTTA
1 GTATTTA
*
112421242 ATATTTA
1 GTATTTA
112421249 GTATT
1 GTATT
112421254 ATGAATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:112421261 original size:7 final size:7
Alignment explanation
Indices: 112421249--112421287 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
112421239 TTAATATTTA
112421249 GTATTAT
1 GTATTAT
*
112421256 GAATTAT
1 GTATTAT
112421263 GTATTAT
1 GTATTAT
112421270 GTATTAT
1 GTATTAT
112421277 GTATTAT
1 GTATTAT
112421284 GTAT
1 GTAT
112421288 ATAAGTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (7 bp):
GTATTAT
Found at i:112421267 original size:21 final size:22
Alignment explanation
Indices: 112421243--112421287 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
112421233 TAGTATTTAA
112421243 TATTTA-GTATTATGAATTATG
1 TATTTATGTATTATGAATTATG
*
112421264 TA-TTATGTATTATGTATTATG
1 TATTTATGTATTATGAATTATG
112421285 TAT
1 TAT
112421288 ATAAGTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTTATGTATTATGAATTATG
Found at i:112425614 original size:128 final size:126
Alignment explanation
Indices: 112425359--112425936 Score: 730
Period size: 126 Copynumber: 4.6 Consensus size: 126
112425349 TTATAGCCTC
* * * *
112425359 ATTTTTCTACGAACTACTATAGCAAAAGAGCATCCACATGGGAGCTTTTTTTCTAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGAAATTTTGCTG
* * * * * **
112425424 ACAGTGCATCCTGTTTGAAGCGTTTTTTGACACCATTTGTTTAGAAATGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGC-ATTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* *
112425486 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTTTTCGAAATTTTGC
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC--TTTTTTTCGAAATTTTGC
* *
112425551 TGATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTACTCAGAATT
64 TGACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * **
112425614 ATTTTTCTACGAACTACTGTAGCAAAATAGCATCCACGTAGGAGCTTTTTTTCGAAATTTTATTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGAAATTTTGCTG
* * *
112425679 ACAGTGCATCTTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * * * *
112425740 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGAGAGCTTTCTCTAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGAAATTTTGCTG
* ** * * *
112425805 ACAGTGCATCCTGATTGAAGTGTTTTCCACACTATTTGTTCAGAAATATCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * *
112425866 ATTTTTCT-CAGAACTACTGTAGCAAAAGAGCG-CTAACGTGAGAGC-TTTTTCCAAAAATTTTG
1 ATTTTTCTAC-GAACTACTGTAGCAAAAGAGCGTC-CACGTGGGAGCTTTTTTTC-GAAATTTTG
112425928 CTGACAGTG
63 CTGACAGTG
112425937 TATCTTATTT
Statistics
Matches: 395, Mismatches: 51, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
125 5 0.01
126 237 0.60
127 40 0.10
128 75 0.19
129 38 0.10
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTCGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
Found at i:112425926 original size:252 final size:253
Alignment explanation
Indices: 112425359--112426001 Score: 756
Period size: 252 Copynumber: 2.5 Consensus size: 253
112425349 TTATAGCCTC
* * * * * *
112425359 ATTTTTCTACGAACTACTATAGCAAAAGAGCATCCACATGGGAGCTTTTTTTCTAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCAACGTAGGAGCTTTTTTCCAAAATTTTGCTG
* * * * * *
112425424 ACAGTGCATCCTGTTTGAAGCGTTTTTTGACACCATTTGTTTAGAAATGTCTACTCAGAATTATT
66 ACAGTGCATCTTGCTTGAAGC-ATTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATTATT
* * * * * * *
112425489 TTTCTACGAACTATTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTTTTCGAAATTTTGCTGA
130 TTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGAGAGC-TTTTCTCTAGAAATTTTGCTGA
* * ** *
112425554 TAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTACTCAGAATT
194 CAGTGCATCCTGATTGAAGCATTTTCCACACTATTTGTTCAGAAACATCTACTCAAAATT
* * * * **
112425614 ATTTTTCTACGAACTACTGTAGCAAAATAGCATCCACGTAGGAGCTTTTTTTCGAAATTTTATTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCAACGTAGGAGCTTTTTTCCAAAATTTTGCTG
* *
112425679 ACAGTGCATCTTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTGCTCAGAATTATTT
66 ACAGTGCATCTTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATTATTT
*
112425744 TTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGAGAGC-TTTCTCTAGAAATTTTGTTGACA
131 TTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGAGAGCTTTTCTCTAGAAATTTTGCTGACA
** *
112425808 GTGCATCCTGATTGAAGTGTTTTCCACACTATTTGTTCAGAAATATCTACTCAAAATT
196 GTGCATCCTGATTGAAGCATTTTCCACACTATTTGTTCAGAAACATCTACTCAAAATT
*
112425866 ATTTTTCT-CAGAACTACTGTAGCAAAAGAGC-GCTAACGT-GAGAGC-TTTTTCCAAAAATTTT
1 ATTTTTCTAC-GAACTACTGTAGCAAAAGAGCATC-AACGTAG-GAGCTTTTTTCC-AAAATTTT
* * * *
112425927 GCTGACAGTGTATCTTATTTAAACTTTAAAGTATTTTCGACACTATTTGTTCAGAAATGTCTACT
62 GCTGACAGTGCATC----TT--GC-TTGAAGCATTTTCGACACTATTTGTTCAGAAATGTCTACT
*
112425992 TAGAATTATT
120 CAGAATTATT
112426002 CTTGCAGAAA
Statistics
Matches: 332, Mismatches: 45, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
251 9 0.03
252 123 0.37
254 75 0.23
255 77 0.23
256 2 0.01
258 1 0.00
259 45 0.14
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (253 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCAACGTAGGAGCTTTTTTCCAAAATTTTGCTG
ACAGTGCATCTTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATTATTT
TTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGAGAGCTTTTCTCTAGAAATTTTGCTGACA
GTGCATCCTGATTGAAGCATTTTCCACACTATTTGTTCAGAAACATCTACTCAAAATT
Found at i:112426112 original size:20 final size:19
Alignment explanation
Indices: 112426089--112426128 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
112426079 ACAAATTTAT
112426089 TTTAAAAAACTAAACCCTAA
1 TTTAAAAAA-TAAACCCTAA
* *
112426109 TTTAATAAATTAACCCTAA
1 TTTAAAAAATAAACCCTAA
112426128 T
1 T
112426129 ACCCTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTAAAAAATAAACCCTAA
Found at i:112426747 original size:21 final size:22
Alignment explanation
Indices: 112426721--112426766 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
112426711 AACCCTAAAA
112426721 AACCCT-AAT-TTAAAAAACATT
1 AACCCTAAATCTT-AAAAACATT
112426742 AACCCTAAATCTTAAAAACATT
1 AACCCTAAATCTTAAAAACATT
112426764 AAC
1 AAC
112426767 ATTAAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 15 0.65
23 2 0.09
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTAAATCTTAAAAACATT
Found at i:112426772 original size:22 final size:22
Alignment explanation
Indices: 112426733--112426774 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
112426723 CCCTAATTTA
*
112426733 AAAAACATTAACCCTAAATCTT
1 AAAAACATTAACACTAAATCTT
*
112426755 AAAAACATTAACATTAAATC
1 AAAAACATTAACACTAAATC
112426775 AATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAACATTAACACTAAATCTT
Found at i:112444449 original size:16 final size:17
Alignment explanation
Indices: 112444428--112444460 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
112444418 AGTCGAAAAG
112444428 GAAAAGAAA-AAAAGAA
1 GAAAAGAAATAAAAGAA
112444444 GAAAAGAAATAAAAGAA
1 GAAAAGAAATAAAAGAA
112444461 TCCAACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
GAAAAGAAATAAAAGAA
Found at i:112444800 original size:17 final size:18
Alignment explanation
Indices: 112444767--112444801 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
112444757 TCTGTTTCTT
112444767 TGCTTCCTTTTTGCTTGC
1 TGCTTCCTTTTTGCTTGC
*
112444785 TGCTTTCTTTTT-CTTGC
1 TGCTTCCTTTTTGCTTGC
112444802 CATATTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.00, C:0.26, G:0.14, T:0.60
Consensus pattern (18 bp):
TGCTTCCTTTTTGCTTGC
Found at i:112447750 original size:50 final size:51
Alignment explanation
Indices: 112447668--112447795 Score: 177
Period size: 50 Copynumber: 2.5 Consensus size: 51
112447658 GACCATAGCA
** * *
112447668 ACAAGTGATAAGTGATAGCTTCGGCTGCACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTAAACTTATCTGATCAAGGACAAATG
*
112447719 A-AAGTGATAAGTAATAGCTTCGGCTAAACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTAAACTTATCTGATCAAGGACAAATG
* * *
112447769 ACAAGTGAAAAGTGGTAGTTTCGGCTA
1 ACAAGTGATAAGTGATAGCTTCGGCTA
112447796 CCTGATCAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTAAACTTATCTGATCAAGGACAAATG
Found at i:112447810 original size:31 final size:31
Alignment explanation
Indices: 112447772--112447920 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
112447762 ACAAATGACA
*
112447772 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
112447803 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
112447834 AGTGAAAAATGGTAGC-TCTGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* * *
112447865 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
112447896 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
112447921 AAGTGACAAG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
30 2 0.02
31 99 0.97
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:112449420 original size:24 final size:24
Alignment explanation
Indices: 112449393--112449443 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
112449383 AGATATAGAA
** *
112449393 ATGAAATTTATGAAATGGTTATTG
1 ATGAAATGCATGAAATGGATATTG
112449417 ATGAAATGCATGAAATGGATATTG
1 ATGAAATGCATGAAATGGATATTG
112449441 ATG
1 ATG
112449444 TAGTAAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (24 bp):
ATGAAATGCATGAAATGGATATTG
Found at i:112450178 original size:17 final size:17
Alignment explanation
Indices: 112450156--112450210 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
112450146 TGAGAGAAAA
112450156 ATAAATCTTTAAACCTT
1 ATAAATCTTTAAACCTT
**
112450173 ATAAAT-TTTAGAA--AA
1 ATAAATCTTTA-AACCTT
112450188 ATAAATCTTTAAACCTT
1 ATAAATCTTTAAACCTT
112450205 ATAAAT
1 ATAAAT
112450211 TTCAACACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 8 0.27
16 8 0.27
17 14 0.47
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAAATCTTTAAACCTT
Found at i:112450191 original size:32 final size:32
Alignment explanation
Indices: 112450150--112450212 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
112450140 TCAAAGTGAG
112450150 AGAAAAATAAATCTTTAAACCTTATAAATTTT
1 AGAAAAATAAATCTTTAAACCTTATAAATTTT
112450182 AGAAAAATAAATCTTTAAACCTTATAAATTT
1 AGAAAAATAAATCTTTAAACCTTATAAATTT
112450213 CAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.37
Consensus pattern (32 bp):
AGAAAAATAAATCTTTAAACCTTATAAATTTT
Found at i:112452628 original size:11 final size:11
Alignment explanation
Indices: 112452614--112452657 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
112452604 AGATAAATAT
112452614 TATTTTATTAA
1 TATTTTATTAA
*
112452625 TATTTTAATAA
1 TATTTTATTAA
*
112452636 TATATTTATTAT
1 TAT-TTTATTAA
112452648 TATTTTATTA
1 TATTTTATTA
112452658 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:112452643 original size:23 final size:23
Alignment explanation
Indices: 112452609--112452663 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
112452599 TAATTAGATA
*
112452609 AATATTAT-TTTATTAATATTTT
1 AATAATATATTTATTAATATTTT
*
112452631 AATAATATATTTATTATTATTTT
1 AATAATATATTTATTAATATTTT
* *
112452654 ATTAGTATAT
1 AATAATATAT
112452664 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AATAATATATTTATTAATATTTT
Found at i:112454788 original size:46 final size:46
Alignment explanation
Indices: 112454735--112454915 Score: 265
Period size: 46 Copynumber: 3.9 Consensus size: 46
112454725 GTGTGCTCTC
**
112454735 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
112454781 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
112454827 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
112454873 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
112454916 TCATGTTAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:112455853 original size:28 final size:28
Alignment explanation
Indices: 112455780--112455929 Score: 225
Period size: 27 Copynumber: 5.5 Consensus size: 28
112455770 TTTTAAAGTG
* *
112455780 CGCCACAAATGCTT-CTTTTTCATAGAT
1 CGCCACAAAGGCTTCCTTTTTCATAAAT
*
112455807 CGCCATAAAGGCTT-CTTTTTCATAAAT
1 CGCCACAAAGGCTTCCTTTTTCATAAAT
112455834 CGCCACAAAGGCTTCCTTTTTCATAAAT
1 CGCCACAAAGGCTTCCTTTTTCATAAAT
112455862 CGCCACAAAGGCTTCCTTTTTCATAAAT
1 CGCCACAAAGGCTTCCTTTTTCATAAAT
* * *
112455890 CGCTACAAATGCTTCC-TTTTCATAGAT
1 CGCCACAAAGGCTTCCTTTTTCATAAAT
112455917 CGCCACAAAGGCT
1 CGCCACAAAGGCT
112455930 ACCTCACACG
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 58 0.51
28 55 0.49
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (28 bp):
CGCCACAAAGGCTTCCTTTTTCATAAAT
Found at i:112455872 original size:55 final size:56
Alignment explanation
Indices: 112455780--112455929 Score: 243
Period size: 55 Copynumber: 2.7 Consensus size: 56
112455770 TTTTAAAGTG
*
112455780 CGCCACAAATGCTT-CTTTTTCATAGATCGCCATAAAGGCTT-CTTTTTCATAAAT
1 CGCCACAAATGCTTCCTTTTTCATAGATCGCCACAAAGGCTTCCTTTTTCATAAAT
* *
112455834 CGCCACAAAGGCTTCCTTTTTCATAAATCGCCACAAAGGCTTCCTTTTTCATAAAT
1 CGCCACAAATGCTTCCTTTTTCATAGATCGCCACAAAGGCTTCCTTTTTCATAAAT
*
112455890 CGCTACAAATGCTTCC-TTTTCATAGATCGCCACAAAGGCT
1 CGCCACAAATGCTTCCTTTTTCATAGATCGCCACAAAGGCT
112455930 ACCTCACACG
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 13 0.15
55 48 0.55
56 27 0.31
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (56 bp):
CGCCACAAATGCTTCCTTTTTCATAGATCGCCACAAAGGCTTCCTTTTTCATAAAT
Found at i:112467122 original size:3 final size:3
Alignment explanation
Indices: 112467116--112467149 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
112467106 TACTAATATG
112467116 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
112467150 TTAAGAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:112478636 original size:43 final size:43
Alignment explanation
Indices: 112478548--112478712 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
112478538 CATGTGATAT
* * * * *
112478548 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
* * *
112478591 TCGGGCTTTGGGCCTAGTAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * *
112478634 TCGGGCTTCGGACCTAGCAGGCTATAATGCCAGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** *
112478677 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
112478713 TGAGTTCAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 11 0.11
43 69 0.68
44 15 0.15
45 6 0.06
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:112478793 original size:40 final size:41
Alignment explanation
Indices: 112478603--112478792 Score: 116
Period size: 43 Copynumber: 4.6 Consensus size: 41
112478593 GGGCTTTGGG
* * ***
112478603 CCTAGTAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTCGGA
1 CCTAGCAGGCTA-AATGCCAGTGA-ATGAAT-TCGGGCTTAAAA
* *
112478646 CCTAGCAGGCTATAATGCCAGTGAAATG-ATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCAGTG-AATGAAT-TCGGGCTTAAAA
* * * *** *
112478689 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAAACTTAAAG
1 CCTAGCAGGCTAAATGCCAGTGAATGAATTCGGGCTTAAAA
* *** ** *
112478730 TCTAGCAGGCTTCGTGCTGGTG-ATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCAGTGAATGAATTCGGGCTTAAAA
112478770 CCTAGCAGGCTAAATGCCAGTGA
1 CCTAGCAGGCTAAATGCCAGTGA
112478793 TTTGATAAAA
Statistics
Matches: 113, Mismatches: 30, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
40 28 0.25
41 28 0.25
42 10 0.09
43 46 0.41
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCAGTGAATGAATTCGGGCTTAAAA
Found at i:112481829 original size:112 final size:112
Alignment explanation
Indices: 112481632--112481857 Score: 452
Period size: 112 Copynumber: 2.0 Consensus size: 112
112481622 AAAATAAAAG
112481632 ATTGTTGATAGGTAAACAACTTTCGTAATGTGAATTTTGATGAATTTGTGGTTTATAGACTAAAT
1 ATTGTTGATAGGTAAACAACTTTCGTAATGTGAATTTTGATGAATTTGTGGTTTATAGACTAAAT
112481697 TGAAAAGACGTAAAATTCATGGAAAATTTTTGAATTTTATGAAATAC
66 TGAAAAGACGTAAAATTCATGGAAAATTTTTGAATTTTATGAAATAC
112481744 ATTGTTGATAGGTAAACAACTTTCGTAATGTGAATTTTGATGAATTTGTGGTTTATAGACTAAAT
1 ATTGTTGATAGGTAAACAACTTTCGTAATGTGAATTTTGATGAATTTGTGGTTTATAGACTAAAT
112481809 TGAAAAGACGTAAAATTCATGGAAAATTTTTGAATTTTATGAAATAC
66 TGAAAAGACGTAAAATTCATGGAAAATTTTTGAATTTTATGAAATAC
112481856 AT
1 AT
112481858 GGGCTGCTAT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (112 bp):
ATTGTTGATAGGTAAACAACTTTCGTAATGTGAATTTTGATGAATTTGTGGTTTATAGACTAAAT
TGAAAAGACGTAAAATTCATGGAAAATTTTTGAATTTTATGAAATAC
Found at i:112482505 original size:25 final size:25
Alignment explanation
Indices: 112482477--112482568 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
112482467 CTTATGAGTG
112482477 TCCCGATATATGGCTCTTCGGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
* *
112482502 TCCCGATAAAAT-GCTCTTTCATGAGCT
1 TCCCGAT-ATATGGCTC-TTC-GGAGCT
**
112482529 TCCCGAT-TAAAAGCTCTTCGGAGCT
1 TCCCGATAT-ATGGCTCTTCGGAGCT
* *
112482554 TTCCAATAT-TGGCTC
1 TCCCGATATATGGCTC
112482569 GCTTGAACCT
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
24 4 0.08
25 21 0.40
26 11 0.21
27 16 0.31
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTCGGAGCT
Found at i:112482592 original size:25 final size:24
Alignment explanation
Indices: 112482560--112482617 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
112482550 AGCTTTCCAA
112482560 TATTGGCTCGCT-TGAACCTTCCCAT
1 TATTGGCTCG-TATG-ACCTTCCCAT
*
112482585 TATTGGCTCGTATGAGCTTCCCAT
1 TATTGGCTCGTATGACCTTCCCAT
*
112482609 TAATGGCTC
1 TATTGGCTC
112482618 TCTAGAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (24 bp):
TATTGGCTCGTATGACCTTCCCAT
Found at i:112482650 original size:25 final size:24
Alignment explanation
Indices: 112482577--112482658 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
112482567 TCGCTTGAAC
* **
112482577 CTTCCCATTATTGGCTCGTATGAG
1 CTTCCCATTAATGGCTCACATGAG
*
112482601 CTTCCCATTAATGGCTCTC-TAGAG
1 CTTCCCATTAATGGCTCACAT-GAG
**
112482625 CTTCCTGTTACATGGCTCACATGAG
1 CTTCCCATTA-ATGGCTCACATGAG
112482650 CTTCCCATT
1 CTTCCCATT
112482659 TTATTACTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
23 1 0.02
24 27 0.57
25 18 0.38
26 1 0.02
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (24 bp):
CTTCCCATTAATGGCTCACATGAG
Found at i:112489392 original size:93 final size:93
Alignment explanation
Indices: 112489261--112489446 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 93
112489251 TTGCTTTCTC
* *
112489261 AATGTATTAGTAGTCTAAATATCATATCCATGTAATAATAATTAAACTTGTACATGTAAGCGTCA
1 AATGTATTAGTAGTCTAAACATCATATCCATCTAATAATAATTAAACTTGTACATGTAAGCGTCA
112489326 TAAGTACTTAAGCTATCTTGTATTTTTT
66 TAAGTACTTAAGCTATCTTGTATTTTTT
* * *
112489354 AATGTATTAGTAGTCTAAACATCATATCCATCTAATAATATTTAAACTTGTACTTGTAAGTGTCA
1 AATGTATTAGTAGTCTAAACATCATATCCATCTAATAATAATTAAACTTGTACATGTAAGCGTCA
112489419 TAAGTACTTAAGCTATCTTGTATTTTTT
66 TAAGTACTTAAGCTATCTTGTATTTTTT
112489447 GTTGACCCTT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (93 bp):
AATGTATTAGTAGTCTAAACATCATATCCATCTAATAATAATTAAACTTGTACATGTAAGCGTCA
TAAGTACTTAAGCTATCTTGTATTTTTT
Found at i:112492096 original size:37 final size:37
Alignment explanation
Indices: 112492054--112492129 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
112492044 AGTATTATAT
112492054 GAGGAATTGGGAGATTAAATATATGCATGTCTAATGG
1 GAGGAATTGGGAGATTAAATATATGCATGTCTAATGG
112492091 GAGGAATTGGGAGATTAAATATATGCATGTCTAATGG
1 GAGGAATTGGGAGATTAAATATATGCATGTCTAATGG
112492128 GA
1 GA
112492130 TGGCAACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.29
Consensus pattern (37 bp):
GAGGAATTGGGAGATTAAATATATGCATGTCTAATGG
Found at i:112497407 original size:38 final size:35
Alignment explanation
Indices: 112497348--112497448 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
112497338 TCAATCATGC
*
112497348 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
112497387 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
112497418 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
112497449 ACTAGGCCGA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:112497409 original size:31 final size:31
Alignment explanation
Indices: 112497371--112497465 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
112497361 CCTTTTCATA
*
112497371 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
112497402 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
112497433 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
112497464 TT
1 TT
112497466 ACTGTAAATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:112497708 original size:24 final size:24
Alignment explanation
Indices: 112497657--112497799 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
112497647 GCTTTATCAT
*
112497657 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
112497682 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
112497706 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
112497729 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
112497753 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
112497777 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
112497800 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:112497736 original size:47 final size:48
Alignment explanation
Indices: 112497657--112497798 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
112497647 GCTTTATCAT
* *
112497657 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
112497706 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
112497753 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
112497799 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:112497757 original size:71 final size:72
Alignment explanation
Indices: 112497656--112497799 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
112497646 TGCTTTATCA
*
112497656 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
112497721 GCCCTTT
66 GCCCTTT
* * **
112497728 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
112497791 AGCCCTTT
65 AGCCCTTT
112497799 T
1 T
112497800 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:112497875 original size:20 final size:20
Alignment explanation
Indices: 112497850--112497909 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
112497840 TATGATTACC
112497850 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
112497870 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
112497890 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
112497910 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:112497984 original size:25 final size:25
Alignment explanation
Indices: 112497952--112497999 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112497942 ATACATAAAC
* * *
112497952 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
112497977 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
112498000 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Done.