Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_043887
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 175222
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Found at i:38610 original size:12 final size:13
Alignment explanation
Indices: 38595--38627 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
38585 CCGAAAAGAG
38595 ATATATAA-ATAT
1 ATATATAAGATAT
38607 ATATATTAAGATAT
1 ATATA-TAAGATAT
38621 ATATATA
1 ATATATA
38628 TGCTGCGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 5 0.26
14 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
ATATATAAGATAT
Left flanking sequence: Indices 38095 -- 38594
ACTCCCACGGATCTCGGATTGAATGTGACCGACACGGTACGGTATGCGGGTTGCTCCCTGTTAGG
CCTTTGGATCTCTAGCTATGGAAAAGGGCGAACAGGCGAACAAAGCGGCGTTGAAAGTCCTCCAG
CTTCTCTATCAAGCTATAGGGGACGGCGCAGCACGAAATAGTTTTAATTCACTTGGTCCACCTGC
CCCGGTTCCCCCGGCGGAACTTGCCAAGGATGCTCGAACTCTGCAAGGCGATAAGTATAAACTCC
GAAACCGTTAAGAAAGCAGAGCAACCCGACAAATACGAGATCATTCTATGCCCTGTCTTGCGTGG
CTCCACCCAAAAGGCTGTTCAGCACTACAGAGGCTCCCCGCTCTCTGCGCATCGAGCGTGGAATG
GAATCATGCTTTTGATACAAAGAAAGCTATTCCGTTTATTCGAAGATACCACCTGGAGGCCCATG
AGGAAGACCTAGAGGGGATGATCGGTTCTCGAGAACCGAAAAGAG
Right flanking sequence: Indices 38628 -- 39127
TGCTGCGCCCGTAGTGAAAGAGGGACCGAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACT
ATTTTGCACGGTTCGGAGGGCACTTCAGTAAGCCCTACATGGGCTGAAGTCCTGACCCCTATTCC
TTCTGATGATGCCAGAAGTCGTTTTGATATACGATTTTATCTTGTTTCTATTTTATCTATTATAT
TCGATTTGGAAGTCACCTTTTTATTCCCTTGGGCAGTTTCTCCTAACAAGATTGGTTCGTTCGGA
TTTTGGTCCATGATGGTATTTTTATTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGG
CGCTTTAGATTGGGAGTAACTCTTCATTTGCTTTCGCGGATGGAGTGGGAGGAAAAAATATAGGC
CCGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCCCCCTCCGAACACTTTTTTGGTCCAAAGGAC
ACGAGACCCGCCGGGTATCGTGTACGTCGTCAAGCCATATCCGGC
Found at i:46020 original size:33 final size:33
Alignment explanation
Indices: 45974--46068 Score: 172
Period size: 33 Copynumber: 2.9 Consensus size: 33
45964 GATATCATCT
*
45974 GGAGCCGGCCTCTCCGCCACGCGCCTCTCTTCC
1 GGAGCCGGACTCTCCGCCACGCGCCTCTCTTCC
46007 GGAGCCGGACTCTCCGCCACGCGCCTCTCTTCC
1 GGAGCCGGACTCTCCGCCACGCGCCTCTCTTCC
*
46040 GGAGCCGGACTCTCCGCTACGCGCCTCTC
1 GGAGCCGGACTCTCCGCCACGCGCCTCTC
46069 CGCTACGTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.08, C:0.48, G:0.25, T:0.18
Consensus pattern (33 bp):
GGAGCCGGACTCTCCGCCACGCGCCTCTCTTCC
Left flanking sequence: Indices 45474 -- 45973
GTCGAGCACTACGTACCTATCGGGTCTTGTGCCGTCCAAACTCACAAAGTTCAGCGCGGGCCGGA
GGAAGTTATAGTTGGATGGGACACCGAAATAACGAAGTCGGAAGGTAAGGTCGCCCAACGTGAGA
AGGATTCTTACAATAGGGCCGGGAAGGGCTACACCGGGCTCGCAGGGTCCGTATAGATAAATGAT
CGAGGGAGAGCACCTTAGACAACGAGAGAATTCGTTATATCCCGACGTGCGGCGCAACTCCTAGC
GTACCTTCGATTTACGGAGAGTATGGCCTTTGCTTCTTCGGCAGTTAGTTGATTCTACACAATTC
TTGGAACGGCTTTATGGTTGGGAGATAGATTTTGTCACGAAACGGAAAGCTTTTATGCGTTTCGC
TTATCCCACCTAAATAAAATGGTTTAATTCAATTCTTGCTTAAATGCGTGCTAAACTGACGCCGG
TGCATCCCCATAAATCACGCCTGGTACCATGCCCAGATATCATCT
Right flanking sequence: Indices 46069 -- 46568
CGCTACGTGCCTCTCTTCCGGAGCTGGCCTCTCCGCTACGCTCTCCGGCCCTCCGGGCCTCTCTT
CCGGTTGGCTCCGCCCCTGCAAGGCATGTGGCGTTGAGTTCGTGGGCGGAAGGGTGCCTTCCAGC
GAGCACACGAAATCCACTCCAAGTTCTTCTGTTAGGAAGATTTTGCTCTCCTCGTATATGGTCGC
CGCCAATCGATCCGACGCAATCGGGATTTCTAATTTGCTTATGAATTCAACCATATCCACGCGGC
TATGGAATGCCTCAGCCCCCTCAACCACGGGCGGGTTATTCGTTAACAGTATCACTGGGATATTT
TTTGTTTTCTCTAGCAATTCCTTGTACTTTGAATCCAAGGAAATCTTTTGCCCATCCAATATCAT
TAATAAGGTACTTTCTGACAACCTCTTCCCGTGGAATTCGTCGATCACCCAGAGGTCGTCATAGT
TACTTGCTCCGGTGAAATCATCTTTTCTCGCTGGCATGAAAAACA
Found at i:46067 original size:15 final size:15
Alignment explanation
Indices: 46049--46083 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
46039 CGGAGCCGGA
46049 CTCTCCGCTACGCGC
1 CTCTCCGCTACGCGC
*
46064 CTCTCCGCTACGTGC
1 CTCTCCGCTACGCGC
46079 CTCTC
1 CTCTC
46084 TTCCGGAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.51, G:0.17, T:0.26
Consensus pattern (15 bp):
CTCTCCGCTACGCGC
Left flanking sequence: Indices 45549 -- 46048
GTTGGATGGGACACCGAAATAACGAAGTCGGAAGGTAAGGTCGCCCAACGTGAGAAGGATTCTTA
CAATAGGGCCGGGAAGGGCTACACCGGGCTCGCAGGGTCCGTATAGATAAATGATCGAGGGAGAG
CACCTTAGACAACGAGAGAATTCGTTATATCCCGACGTGCGGCGCAACTCCTAGCGTACCTTCGA
TTTACGGAGAGTATGGCCTTTGCTTCTTCGGCAGTTAGTTGATTCTACACAATTCTTGGAACGGC
TTTATGGTTGGGAGATAGATTTTGTCACGAAACGGAAAGCTTTTATGCGTTTCGCTTATCCCACC
TAAATAAAATGGTTTAATTCAATTCTTGCTTAAATGCGTGCTAAACTGACGCCGGTGCATCCCCA
TAAATCACGCCTGGTACCATGCCCAGATATCATCTGGAGCCGGCCTCTCCGCCACGCGCCTCTCT
TCCGGAGCCGGACTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGA
Right flanking sequence: Indices 46084 -- 46583
TTCCGGAGCTGGCCTCTCCGCTACGCTCTCCGGCCCTCCGGGCCTCTCTTCCGGTTGGCTCCGCC
CCTGCAAGGCATGTGGCGTTGAGTTCGTGGGCGGAAGGGTGCCTTCCAGCGAGCACACGAAATCC
ACTCCAAGTTCTTCTGTTAGGAAGATTTTGCTCTCCTCGTATATGGTCGCCGCCAATCGATCCGA
CGCAATCGGGATTTCTAATTTGCTTATGAATTCAACCATATCCACGCGGCTATGGAATGCCTCAG
CCCCCTCAACCACGGGCGGGTTATTCGTTAACAGTATCACTGGGATATTTTTTGTTTTCTCTAGC
AATTCCTTGTACTTTGAATCCAAGGAAATCTTTTGCCCATCCAATATCATTAATAAGGTACTTTC
TGACAACCTCTTCCCGTGGAATTCGTCGATCACCCAGAGGTCGTCATAGTTACTTGCTCCGGTGA
AATCATCTTTTCTCGCTGGCATGAAAAACACGTTCAGGAATTCGC
Found at i:46068 original size:48 final size:48
Alignment explanation
Indices: 46016--46109 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
46006 CGGAGCCGGA
46016 CTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGACTCTCCGCTACGCGC
1 CTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGACTCTCCGCTACGCGC
* * * *
46064 CTCTCCGCTACGTGCCTCTCTTCCGGAGCTGGCCTCTCCGCTACGC
1 CTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGACTCTCCGCTACGC
46110 TCTCCGGCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.07, C:0.48, G:0.22, T:0.22
Consensus pattern (48 bp):
CTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGACTCTCCGCTACGCGC
Left flanking sequence: Indices 45516 -- 46015
CACAAAGTTCAGCGCGGGCCGGAGGAAGTTATAGTTGGATGGGACACCGAAATAACGAAGTCGGA
AGGTAAGGTCGCCCAACGTGAGAAGGATTCTTACAATAGGGCCGGGAAGGGCTACACCGGGCTCG
CAGGGTCCGTATAGATAAATGATCGAGGGAGAGCACCTTAGACAACGAGAGAATTCGTTATATCC
CGACGTGCGGCGCAACTCCTAGCGTACCTTCGATTTACGGAGAGTATGGCCTTTGCTTCTTCGGC
AGTTAGTTGATTCTACACAATTCTTGGAACGGCTTTATGGTTGGGAGATAGATTTTGTCACGAAA
CGGAAAGCTTTTATGCGTTTCGCTTATCCCACCTAAATAAAATGGTTTAATTCAATTCTTGCTTA
AATGCGTGCTAAACTGACGCCGGTGCATCCCCATAAATCACGCCTGGTACCATGCCCAGATATCA
TCTGGAGCCGGCCTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGA
Right flanking sequence: Indices 46110 -- 46609
TCTCCGGCCCTCCGGGCCTCTCTTCCGGTTGGCTCCGCCCCTGCAAGGCATGTGGCGTTGAGTTC
GTGGGCGGAAGGGTGCCTTCCAGCGAGCACACGAAATCCACTCCAAGTTCTTCTGTTAGGAAGAT
TTTGCTCTCCTCGTATATGGTCGCCGCCAATCGATCCGACGCAATCGGGATTTCTAATTTGCTTA
TGAATTCAACCATATCCACGCGGCTATGGAATGCCTCAGCCCCCTCAACCACGGGCGGGTTATTC
GTTAACAGTATCACTGGGATATTTTTTGTTTTCTCTAGCAATTCCTTGTACTTTGAATCCAAGGA
AATCTTTTGCCCATCCAATATCATTAATAAGGTACTTTCTGACAACCTCTTCCCGTGGAATTCGT
CGATCACCCAGAGGTCGTCATAGTTACTTGCTCCGGTGAAATCATCTTTTCTCGCTGGCATGAAA
AACACGTTCAGGAATTCGCTGAGTTCTTGCACCAAATTCGTTTTG
Found at i:46129 original size:48 final size:47
Alignment explanation
Indices: 46016--46137 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 47
46006 CGGAGCCGGA
* *
46016 CTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGACTCTCCGCTACGCGC
1 CTCTCCGCTACGGGCCTCTCTTCCGGAGCCGGACTCTCCGCTAC-CGC
* * *
46064 CTCTCCGCTACGTGCCTCTCTTCCGGAGCTGGCCTCTCCGCTA-CG-
1 CTCTCCGCTACGGGCCTCTCTTCCGGAGCCGGACTCTCCGCTACCGC
*
46109 CTCTCCGGCCCTCCGGGCCTCTCTTCCGG
1 CTCTCC-G--CTACGGGCCTCTCTTCCGG
46138 TTGGCTCCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 6 0.09
46 3 0.05
48 56 0.86
ACGTcount: A:0.06, C:0.48, G:0.23, T:0.23
Consensus pattern (47 bp):
CTCTCCGCTACGGGCCTCTCTTCCGGAGCCGGACTCTCCGCTACCGC
Left flanking sequence: Indices 45516 -- 46015
CACAAAGTTCAGCGCGGGCCGGAGGAAGTTATAGTTGGATGGGACACCGAAATAACGAAGTCGGA
AGGTAAGGTCGCCCAACGTGAGAAGGATTCTTACAATAGGGCCGGGAAGGGCTACACCGGGCTCG
CAGGGTCCGTATAGATAAATGATCGAGGGAGAGCACCTTAGACAACGAGAGAATTCGTTATATCC
CGACGTGCGGCGCAACTCCTAGCGTACCTTCGATTTACGGAGAGTATGGCCTTTGCTTCTTCGGC
AGTTAGTTGATTCTACACAATTCTTGGAACGGCTTTATGGTTGGGAGATAGATTTTGTCACGAAA
CGGAAAGCTTTTATGCGTTTCGCTTATCCCACCTAAATAAAATGGTTTAATTCAATTCTTGCTTA
AATGCGTGCTAAACTGACGCCGGTGCATCCCCATAAATCACGCCTGGTACCATGCCCAGATATCA
TCTGGAGCCGGCCTCTCCGCCACGCGCCTCTCTTCCGGAGCCGGA
Right flanking sequence: Indices 46138 -- 46637
TTGGCTCCGCCCCTGCAAGGCATGTGGCGTTGAGTTCGTGGGCGGAAGGGTGCCTTCCAGCGAGC
ACACGAAATCCACTCCAAGTTCTTCTGTTAGGAAGATTTTGCTCTCCTCGTATATGGTCGCCGCC
AATCGATCCGACGCAATCGGGATTTCTAATTTGCTTATGAATTCAACCATATCCACGCGGCTATG
GAATGCCTCAGCCCCCTCAACCACGGGCGGGTTATTCGTTAACAGTATCACTGGGATATTTTTTG
TTTTCTCTAGCAATTCCTTGTACTTTGAATCCAAGGAAATCTTTTGCCCATCCAATATCATTAAT
AAGGTACTTTCTGACAACCTCTTCCCGTGGAATTCGTCGATCACCCAGAGGTCGTCATAGTTACT
TGCTCCGGTGAAATCATCTTTTCTCGCTGGCATGAAAAACACGTTCAGGAATTCGCTGAGTTCTT
GCACCAAATTCGTTTTGTGCGTGCTTGGTTTTCCGATTATCAGCA
Found at i:47745 original size:141 final size:141
Alignment explanation
Indices: 47398--47833 Score: 727
Period size: 141 Copynumber: 3.1 Consensus size: 141
47388 AAACACTGTT
*
47398 GTAGACAGTAAATCTACCAACCAACTTCTTAGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
1 GTAGACAGTAAATCTACCGACCAACTTCTTAGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
* * * * * *
47463 CACTCAATCCATAGGCTTATCAACCTATTCAGTTAATAGGTCGAGAGGTAGACAGATAGGTAGGC
66 CACTCAATCTATATGCTTATCAACCTATTCAGTAAATATGTCGATAGGTAGACAGATAGGTAGAC
47528 ATT-C---TAA
131 ATTGCTGATAA
* *
47535 GTAGACAGTAAATCTACCGACCAACTTATTGGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
1 GTAGACAGTAAATCTACCGACCAACTTCTTAGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
*
47600 CACTCAATCTATCTGCTTATCAACCTATTCAGTAAATATGTCGATAGGTAGACAGATAGGTAGAC
66 CACTCAATCTATATGCTTATCAACCTATTCAGTAAATATGTCGATAGGTAGACAGATAGGTAGAC
47665 ATTGCTGATAA
131 ATTGCTGATAA
47676 GTAGACAGTAAATCTACCGACCAACTTCTTAGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
1 GTAGACAGTAAATCTACCGACCAACTTCTTAGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
* *
47741 CACTCGATCTATTTGCTTATCAACCTATTCAGTAAATATGTCGATAGGTAGACAGATAGGTAGAC
66 CACTCAATCTATATGCTTATCAACCTATTCAGTAAATATGTCGATAGGTAGACAGATAGGTAGAC
47806 ATTGCTGATAA
131 ATTGCTGATAA
*
47817 GTAGACAGTGAATCTAC
1 GTAGACAGTAAATCTAC
47834 TTACCCACTT
Statistics
Matches: 280, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
137 123 0.44
138 1 0.00
141 156 0.56
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (141 bp):
GTAGACAGTAAATCTACCGACCAACTTCTTAGGTGAATGGGTTTATAAGCAGACGGATGAGTAGA
CACTCAATCTATATGCTTATCAACCTATTCAGTAAATATGTCGATAGGTAGACAGATAGGTAGAC
ATTGCTGATAA
Left flanking sequence: Indices 46898 -- 47397
TTAAGGGTCCTCATCAGTTCTGGACCACGTGATTTTGAAGAAGATGCCTGCCCTCGCTGCCTAAT
GTCTCCCAGGGGCTCCCCCCAACACAGTGGTTTTTTATCTTCTTTCAATAGATACTTACAAATCG
CGTTCCAACCCTTGTAGGCTTGAATGTTACATTGCATACCTTCGAACTCTGGGAATGTCTTTCGT
ATAGTTGTTATTCCCTTATTTCGGCTTATGCCCTCGCTCCACATTCCTATATGGAAATGGTAACC
ACCGTCTGAATGCTTTTCTCGAACCACGACCACACTGATGCACGCAAAAGCTGCACGGAGTCGCG
CGCAACACATCTCCGCCGTTATATTTCGTCGCTCTGCGTGTGACAGTGTTATTAGCACATATTTG
CGCGAATTACTACTCATGTTGTATTACTTCTTTTTCCTCTTCGGGCACTAAACCTACAAATCAAA
CCCCGTAATGAAATGGGTGGATCAGTAGGCACTGTAAACACTGTT
Right flanking sequence: Indices 47834 -- 48333
TTACCCACTTATTCGGTACTTATTTGGTAAATGGGTTGACACTCTGCTTCTCAACTTCTTTCTTA
TTGACCGAATAATGACATTTATTGAGATTGTGTAATCAAGCACAAATTCTATTTCTAATTATATT
GTGTACGATGCTTCATCGAATTCTAGTATGTAGATCTGTCTGAGGAGGCCTCCGGCGATATTGAA
GGGGCACCGTATACTTCCTCACGGTTGTATACATCACTTTTAACCACAATTCCTTTTATATAAAT
ACCTTCTTCTTTCCTTATCTTTTCGGACTTAAACCCCAGCGATCGTAAAGCGAAGACGAGCTCCT
TCGTGAATCTTTTATGACCCAAAGGGAGGATATCTCTTTTCTGGGTCCACGCCCTATAGGTTGGG
TAGAGAGCTTTTCTTCTCGAAAGTTCCAATTTCCCTCTCGAATCGTCCTCCATCCTGAATCCAAC
ATATGAACCGGGACCTTTCTCAAGGTCTTCCTTGACCCACGCAAG
Found at i:49552 original size:47 final size:47
Alignment explanation
Indices: 49483--49580 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
49473 AGCGGCGCCG
49483 GCGCCTACACCACATGCCATACAGATTTCTCAACATACTAACGCTAC
1 GCGCCTACACCACATGCCATACAGATTTCTCAACATACTAACGCTAC
49530 GCGCCTACACTC-CATGCCATACAGATTTCTCAACATACTAACGCTAC
1 GCGCCTACAC-CACATGCCATACAGATTTCTCAACATACTAACGCTAC
49577 GCGC
1 GCGC
49581 ACTCCATGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 49 0.98
48 1 0.02
ACGTcount: A:0.30, C:0.37, G:0.12, T:0.21
Consensus pattern (47 bp):
GCGCCTACACCACATGCCATACAGATTTCTCAACATACTAACGCTAC
Left flanking sequence: Indices 48983 -- 49482
TCGAAGGGGTAAGGTAAAAGCACGGTTGCAAATATACGAGGATCCCAGTCTTCGAAGACTCCGGT
GGACAGATTTAACATACCATTCGTAAATACAAGGTAATCTTTCTCAAATTCTGGGTTGCCTGTGA
ACGCATTGATGTGAAGCTTTATAAGTTTGGTGAGGTCTCCCAGGGCACGCATGGAAGGGATGCTC
AGGGAGCTCTGTTTGAAGATTTTGCTTAGAATAACCGCCAGTTCCGTCGAATTGAATTCCCTATA
TATACCCTCCTCCGGATTATAAATGAAGGTCCTATCCTCCCTAGGATAGGACCGAATATGCCGAA
GGATGGTCTTTTCTTGTAATATAGATCCAACTTCGGAGGGAGGTCGCATCTTCCGTTGTCCCTTC
GATTCATAGAAAAGATCTTCCTCGGTGATCTTCCTATAGACCAAATGATTTGTATTGAACATTGT
CATAATAATCTCCTTTTTTTTACCTTTCCCGATCCAGCGGCGCCG
Right flanking sequence: Indices 49581 -- 50080
ACTCCATGCAGTTCTACATCCGTGGGCCGGAGGCCTGCTCCCCTCCGGGCCTCCAGTATAGGAGT
TGATAGAATTCGAAGTCAGAGGGGGCAAGCCTCATTGGTTGCCTGAATTCACCCAAGTTTTTAGA
TTGACGAACATTCGGGATGCCATGGTCTTGAAAACCGTGCATGGGTTGGTCCTGTCCAGATCCAC
GGACCATTCCTCGTAGATTTTACTAACCAATTCATCGAATCGTAAGTCCTTGAATAGACGTTCGT
TCCGTTGAAGGATCTTGTATACATCCATGTAAAAGAAAGCAAGCCAAGAAAGCCAGATACAGGCT
AAAATGCAGTACAGGAGATAGAACATCCATGTCATAAATACATGAAATAGAAAAAGTGTCCCAGT
TCCAAAAACAAACAGGGCAAGATAGATCAGTCGAACAGGATGGATCCATTCTTTATCCATCCCTT
TAAGTGGGTTTAGGCTGTGTTGCATAATCCATCTCCCTATTTTCC
Found at i:53138 original size:112 final size:109
Alignment explanation
Indices: 52880--53196 Score: 476
Period size: 112 Copynumber: 3.0 Consensus size: 109
52870 GAGGGCTTGA
**
52880 ATTGGAGCTGGCACACCAAGCGAGAGCCCCG---G-GGCTTGGCAGCTCTCTGTGCATAGCACTC
1 ATTGGAGCTGGCACACCAAGCGAGAGCCCCGTACGCACCTTGGCAGCTCTCTGTGCATAGCACTC
****
52941 GA-C--TTCTGGTCGAGTGCTATGCACTCCGTCCTGCACT--CC
66 GACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCCCC
52980 A-TGG-GCTGGCACACCAAGCGAGAGCCCCGTACGCACCTTGGCAGCTCTCTGTGCATAGCACTC
1 ATTGGAGCTGGCACACCAAGCGAGAGCCCCGTACGCACCTTGGCAGCTCTCTGTGCATAGCACTC
53043 GACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCCCTTTC
66 GACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCCC---C
53090 ATTGGAGCTGGCACACCAAGCGAGAGCCCCGTACGCACCTTGGCAGCTCTCTGTGCATAGCACTC
1 ATTGGAGCTGGCACACCAAGCGAGAGCCCCGTACGCACCTTGGCAGCTCTCTGTGCATAGCACTC
53155 GACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCC
66 GACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCC
53197 ATGTGCAGGC
Statistics
Matches: 197, Mismatches: 6, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
98 25 0.13
99 3 0.02
100 1 0.01
101 1 0.01
102 29 0.15
103 1 0.01
105 30 0.15
107 1 0.01
110 2 0.01
111 3 0.02
112 101 0.51
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.20
Consensus pattern (109 bp):
ATTGGAGCTGGCACACCAAGCGAGAGCCCCGTACGCACCTTGGCAGCTCTCTGTGCATAGCACTC
GACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCCCC
Left flanking sequence: Indices 52380 -- 52879
CAGATCCTTGTCAGTGTCAGGCCGTTTATTCGTACTGAATAGAGATGAGAAAAACCACATCATAG
AGTGAGACTTTTTATTATTTATTCCAAAGATTTGGAAAGGCAAAAGGCCTTTTCCAACGAATAGG
AGATTTCTTCTCTCCATTTTAGAGATAAGGCCCTACATTTCCGAATGATGATTGAGATGGGTTTC
AGTTATACACTTATAACAATGAAATGCCGGTTATGACGGTTATTAGTCGCGATGATCTCTTGGCT
GGGAAGGTTCCGAACCGTGCAACCCATGGCTCTCCAAGCGATCCTTTTGACTTAGCCGGCCCGGA
GGGCCGGGCCTCCCAATCAACTACATAGGCTACGGTCCAACTTATGTGCAACTGCACGGATTGTA
GGTTCCATGGATCGATATGTTAGGAAACATAAATAGGTGGGCCTCCGGGCCAAGTGTGCATCTTG
TCTGTGCCGAACTATTCTATAGAATCTCAGGCCCGGAGGGCTTGA
Right flanking sequence: Indices 53197 -- 53696
ATGTGCAGGCCGGAGGCCTGCCTGTGGCAGCCAGAGGCAACAACTATAAGGGGAGGAGGTGCGTA
GCACTTTGTGGGGCCTCCGGGCCTCCGAAGGCTAATTAATGAACCGCAGCATTTGAAGCGTCGTC
ATGGACAAGCGGGGCGGTACTGCTTCCTACTCCTATATATAAGAGACCCGTGCATTCGGAACATT
GAATATAGGCCTGAGGGCGTCTAGCGGGATGTCCTTTCCCGTTCTTTCAATGCGCCTCCGGCGTC
TAGCGGGAGCTTCACGGCCCAATCCGAAAGGATAAATGGAAAATCGGAACCGCTACGCGCCTGAA
CACCTCTAAGGCTATACGGGCCAACCGTGGGGCGGGCAGGAATAGGATGGGACAAAAAGCTGGAA
AGAAAGATTTTTTTTCCCGGGCTTAAAAGAACATAGGCTATATAGAAAAACATGATGATTATGAT
GGTTCTTAAAAGAAGTTCTACACTTATAACAGAAAACATGATGAT
Found at i:53698 original size:51 final size:50
Alignment explanation
Indices: 53633--53789 Score: 199
Period size: 51 Copynumber: 3.1 Consensus size: 50
53623 GCTATATAGA
* *
53633 AAAACATGATGATTATGATGGTTCTTAAAAGAAGTTCTACACTTATAACAG
1 AAAACATGATGATTATGATGGTTCTTAACA-TAGTTCTACACTTATAACAG
* *** *
53684 AAAACATGATGATTATGATGGTTCTTGATCATAGTTCTACACAGGCT-ATAG
1 AAAACATGATGATTATGATGGTTCTT-AACATAGTTCTACAC-TTATAACAG
*
53735 AGAACATGATGATTATGATGGTTCTTAATCATAGTTCTACACTTATAACAG
1 AAAACATGATGATTATGATGGTTCTTAA-CATAGTTCTACACTTATAACAG
53786 AAAA
1 AAAA
53790 AAAAGAAAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.02
51 83 0.94
52 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (50 bp):
AAAACATGATGATTATGATGGTTCTTAACATAGTTCTACACTTATAACAG
Left flanking sequence: Indices 53133 -- 53632
CAGCTCTCTGTGCATAGCACTCGACCAGAAGAGGTCGAGTGCTATGCACTCCGTCCTGCACTCCA
TGTGCAGGCCGGAGGCCTGCCTGTGGCAGCCAGAGGCAACAACTATAAGGGGAGGAGGTGCGTAG
CACTTTGTGGGGCCTCCGGGCCTCCGAAGGCTAATTAATGAACCGCAGCATTTGAAGCGTCGTCA
TGGACAAGCGGGGCGGTACTGCTTCCTACTCCTATATATAAGAGACCCGTGCATTCGGAACATTG
AATATAGGCCTGAGGGCGTCTAGCGGGATGTCCTTTCCCGTTCTTTCAATGCGCCTCCGGCGTCT
AGCGGGAGCTTCACGGCCCAATCCGAAAGGATAAATGGAAAATCGGAACCGCTACGCGCCTGAAC
ACCTCTAAGGCTATACGGGCCAACCGTGGGGCGGGCAGGAATAGGATGGGACAAAAAGCTGGAAA
GAAAGATTTTTTTTCCCGGGCTTAAAAGAACATAGGCTATATAGA
Right flanking sequence: Indices 53790 -- 54289
AAAAGAAAATGAATATGAAAATTAAACCTTGGCACGAAATAGATGAAAAGGATCTCGAGGAGTGT
AAAGGTCCAAGAGGTGGATTTGACGAATTCGAACTCGCACGATTGTTGGAGAGAAAGTCCTGTCT
TAAGTACTCTAAAGCATTTCCTAAATTAAACCTCTATTACCTCTATGATCGGGAACAAGGCATAT
ATGTCGAGATGCATCCACCCGAGATGAAGTCCTTCCTTGCAAACATTGCCTACAATGTATCAAAG
AAGATTGCCAGAATGAGACTAGTTCTGTCTATTTTTAATGAGATATATTTCGGCCCACTAAGTGA
GCAAGGTGAACCTTGCTTTGATAGGGGAAAATTAAGTTTCCTGAACGGAACTCTTGATCTCCGCA
CCAGACAGTTTGGTCCATGGTCACCCGCAAATTTTATAGTTTACAAAGTGGACTACAATTACGAT
CCAGAGGCAACATGCCCAAATATTGAGAAATTCTTGAGTGACATT
Found at i:56984 original size:51 final size:51
Alignment explanation
Indices: 56829--56985 Score: 219
Period size: 51 Copynumber: 3.1 Consensus size: 51
56819 ATTTTCTTTT
56829 TTTTCTGTTATAAGTGTAGAACTATGATTAAGAACCATCATAATCATCATG
1 TTTTCTGTTATAAGTGTAGAACTATGATTAAGAACCATCATAATCATCATG
* * ***
56880 TTCTCT-ATAGCCTGTGTAGAACTATGATTAAGAACCATCATAATCATCATG
1 TTTTCTGTTA-TAAGTGTAGAACTATGATTAAGAACCATCATAATCATCATG
**
56931 TTTTCTGTTATAAGTGTAGAACT-TCTTTTAAGAACCATCATAATCATCATG
1 TTTTCTGTTATAAGTGTAGAACTAT-GATTAAGAACCATCATAATCATCATG
56982 TTTT
1 TTTT
56986 TCTATATAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 3 0.03
51 86 0.95
52 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (51 bp):
TTTTCTGTTATAAGTGTAGAACTATGATTAAGAACCATCATAATCATCATG
Left flanking sequence: Indices 56329 -- 56828
CGGACATTACCACGACGGAAACGTCTTAATTGTTCCAGAGGATAAATTAAAGGAATTTAAGAATC
TATTGGATACTGAAGTTTTCCAAGTAGGTAATAGTCTAGGACTTCTGTATCCACAAACAGTTGAG
TGTAAATATTATCCCCCTCTTTAATGTATGTATAGGGAGTTTTTTAAAAACTCCATAACCGTCAT
AACCGGCATTTCATTGTTATAAGTGTAGAACTTCTTTTAAGAACCATCATAATCATCATGTTTTC
TATATAGCCTATGTTCTTTTATGAATTGTTTGTATAGGTCCTTTTAAAAACAAATGATGAAGCAT
GGTCGACCCTCCGGGCCTGCGTTGGACATGTGATACTCACATGTCCCATGTTGATACAGTTCGAT
TAATTAATACCGCTACGCGCCTCGGCGCCCGCTGCTGGGGTGCCGGGTAGGTTCGAAGTCTATGC
AATCCAATTACGAGAGTCCCACCGAATTCATATTTATTTTCTTTT
Right flanking sequence: Indices 56986 -- 57485
TCTATATAGCCTATGTTCTTTTAAGCCCGGGATATGTTGAATTGTCCTTGCATCCACAGACGGAG
AAAGGGATAAAAGCTTCAACAGGAAGATGAGAGACTTGGATTGGCAGTTGCTAGACCGGAAATCA
ATTCAGGTACATGTCTCTAAGTTGCAAACCTTTCATTTTCAGGCTGAGTTGGGAACAGAAGTACA
AAGAGATGCACGCCCCAAATTTTTGGCCGGGGGTACCCAAGATAATCGAGTAAAAAGCACCGTGG
TCTGCCCGGCCTCACGGCTAAACAGCGAGGGGCGCGATCACTGGAAAAAGACTGCAAAAAAAAGA
TTTTTTTCCACCACTCCCAACATTGAGAGACCGAGCTAAACAAACGTGAGCCCTTATGGCCTTCG
AACCCCAATAGGGGCTAGATTTGGACCTAATAGTTACGGGTTCCGCCCAGGTCTGCGGCGACGCC
ATCGCAGCGATTTACACATCTATTAATAAGAAAGATAAATATGTA
Found at i:58107 original size:29 final size:29
Alignment explanation
Indices: 58065--58122 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
58055 TCAGGAAACT
58065 GGCTCGATCGGATGCAAGGAGCCGTAGGA
1 GGCTCGATCGGATGCAAGGAGCCGTAGGA
58094 GGCTCGATCGGATGCAAGGAGCCGTAGGA
1 GGCTCGATCGGATGCAAGGAGCCGTAGGA
58123 CGGGAAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.41, T:0.14
Consensus pattern (29 bp):
GGCTCGATCGGATGCAAGGAGCCGTAGGA
Left flanking sequence: Indices 57565 -- 58064
TGAGGAGGCAAATAACACTGTGGCTGGAAGCAGAAGTATCAAACCGGGGTGAATACCCAAAATAA
GGAACCGGCAGGATCTTTGCCAACGTGGCACTTCATGGATCAGAGTAGTCCCTTAAGATTTGGGT
AGAAAAAATTTCATGTAGGGACACCAAAGGGAAAGCCGTTGGGCGGACCCAGCTCTCTTCCGGTA
CCCTGACGATTTCGCGGGCCTCCATTCAGATCTGGGAATAGTTCAACAAGCCCGTGTGAGGATCG
AACGACTGCTCCAGCCGATGGGGCTGAAGCTTAAGCGAAGTAAAACTTACGTTTGCCACGGCCGA
AAAAAATATTTTTTACCGACGACTTCCGTATCCGTCAGTACCTTGTGGGAGCCTCACATTGTGGG
CGTACTTTGCAAGGGCTAGTAAGAAAGAGATAAAAAAAAAACTATTGGCCCGTAGGGCGGAGCAC
TGTTACGACCAAAATACGACGGAAAAGCGCACATCTCAGGAAACT
Right flanking sequence: Indices 58123 -- 58622
CGGGAAACTGTTACGTGCGGTTCTGAATTGGCGGCCAGGCGGGAGACCCCCCCCCGGTCGACCAT
AACATACTAGCAAATGTTGTCACCATCATAGGTACTCGAGATATTGTGTTTGGAGAGGTAGATAG
AACTACTAATTGCACAGGTAGGACCAAAAAAATCTATATTGTTTTCCAGAAACTTATCCCTATCA
TTCTCCGCCCTTTCTTCGTCCAACAGTGCCCCGCCCTACAGGCCTCTTGTTTCAAATATAGAAAT
ATATAGTAGATATATCTATATATTTCGCTTGATTGGGATTATCATCAATATGATGCGAATGAGGG
CGACAGGAATAAAGAAATAAATATATATGTATTTTAAAATCTTCGAACCCGCCCTACAAGACAAG
CCTCCATAACGCTTCCCTAAAAGAGAAAGAAAAATATATATTTTTTGCCTCCGCGCCGTTGCGGA
GGTTCGAAGAAGCCAGGTTAGTAAAATCTTTTTTTTCGACACTTG
Found at i:66296 original size:11 final size:12
Alignment explanation
Indices: 66269--66293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66259 TCTTATCGAA
66269 GGAGAAAAAGAT
1 GGAGAAAAAGAT
66281 GGAGAAAAAGAT
1 GGAGAAAAAGAT
66293 G
1 G
66294 AGACATTTGA
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:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (12 bp):
GGAGAAAAAGAT
Left flanking sequence: Indices 65769 -- 66268
ACCTACCCCAGCGGAGCCCAATGCATGGGGCTCCCAGCCCTGAAATCGATCCCCTCCTTCCTATT
TCGATTGAAGATCACCTTTTGCATCTTACTAGTAATTTTGCTAACCCCACAAATTCTCATTAGGG
ACTTCAAGGAGATCGTAAGAGCCGGCGTTCAACGCCTGAAATACCCGAAACTAGGAACCTTTGCT
CTCCATCTTTTCGATCGGTACCTTCCGCACTCAAAGTATACTAAGATCTTGATACTCGTATTGTT
ATATGTACAGCTTGGCGTAGTTTTATACGTATTATCCTGCCTTAATTGTTGCAAAAGGTTACTTA
TTCTTGATCCCTCATAGTGGGAGACCTTATTTAAAGATCTCCCGCTCCCTCTAAGCATCCGTTAC
CCGCCGACAAAAAATAAATACATTTTGCAGGCAGATCCTTCTGAGCTAATCTGAGCTAATCATCC
GTGAGCCATCGCAAATAAATATGTATATATATTTTTCTTATCGAA
Right flanking sequence: Indices 66294 -- 66793
AGACATTTGAAATGAAGAACTCTTTGCAAAAAGACAACTTGTTCTCTCCTAATGAACCGTCAATA
AATAGTAACCCCATTTTGCTAATTCGGTGTTACTATCGAAAAGGGATATTACCCTTTACTATAAG
TAGTAGTCGCTTACTATCGGCAAGCATCTCCCACCTTCGGACCCATCGGCACGTAGTGCGCGGGG
AGCGTGTTCGGGCTTGTAGATTGAAGCGCTTGTAGAAAAAAGGCGCGTGGTGCTTTCTACCTTTC
GTTTGTGCCGCGCTTACCGGTCATTCCGGCTCCAACTCAACTTCAGCCCGGATTGGCCGCGCAAA
TGGGTGGGCTTTAGCACTTTTCCATGGTTAGGAAACCGGCACAGCTGCTTATTTCGCTAGTTGCA
CGTTGCACAATATTCTTAATGACTTAATGACTGGGATAACGACGCTAAAAATATCTTTAAAATGT
TACCGAACTCTCAGGAAACGCCAGAAGACTTACAAAGGATTTGGA
Found at i:70617 original size:27 final size:27
Alignment explanation
Indices: 70587--70642 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
70577 ATAAACACTC
* *
70587 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
70614 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
70641 AT
1 AT
70643 TCAATCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTAAT
Left flanking sequence: Indices 70087 -- 70586
AAAATAAATCATGTCATATATTTTAGGAACCAATCTAAATCCCAATAAACAGGTGAAAATTGCCT
CAACTCGAATCTTTGGAATTGGGCCTAAAAAGGCAATTCAAGTTTGTGATCGATTAGGCCTCAGC
GATAACATTAAAGTTAATAAGTTAACTAAGTATCAATTTGACCAAATTCTAGAAATAATAAGTCA
AAATTATTTAGTCGATTCAGAATTGGAGAGAGTCATTCAGAGAGACATCAAACGATTAATTAGTA
TTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGGACTCATACT
AATGCTAAGACTTCTCGCAAATTGAGATACATTTCGATCAAAAGTTGAGAAAAGTTTTTTTCGTT
TTTTTCCAGTTCCTACAAAATATCTTTGTAATTAGTGGACGGATTAGATGGATCATAAAAAGACG
GAATCGAAGGTATCGAGCAACACCAAAAACATTCAATAAACACTC
Right flanking sequence: Indices 70643 -- 71142
TCAATCAACTTTTGGTAATACAATTACTACTTCAACGGATTGTGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTTAGTGGGGTTTAAGGGATCTCGTCGCTCGACCAATTATGCTGCTCAAGCAACT
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTTAAAACTAGGAGGTCTTATCATTACCAAAA
CTCGCGATGTAACCCCAACGCCGCATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTCGAATA
TCATCATAGAGTGCTATGTCATCATAAAATGGTAAATTGAGGTTCGAGAGTAAAAAAATTTTTTT
TAGGGGGAGACGGCTTCGCAGGGCTTAACCTTTCCTTCGTAAAGGCAAAGAAGGGAATCTACAAG
CCATGTTTGGCCCTCGGCCCTTTGGACCCACAAAGTGCGTAGCAC
Found at i:90005 original size:14 final size:14
Alignment explanation
Indices: 89986--90029 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
89976 TAACTTAAGA
89986 GGTTATGTATTCTC
1 GGTTATGTATTCTC
*
90000 GGTTATGTATTCCC
1 GGTTATGTATTCTC
90014 GGTTATGTATTCTC
1 GGTTATGTATTCTC
90028 GG
1 GG
90030 AAAGCCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (14 bp):
GGTTATGTATTCTC
Left flanking sequence: Indices 89486 -- 89985
AAAGCACGGAGCGGGGGATGGAAGAAATAAAACGGACCCGGGGCCCATGTTATGCAAGAAGCTCA
ACATCTTTTTTTCCATAGCGCACATATAACAAGGCCATTTGTCCGTTTTAATCTTAGCCATCACG
AAGATTCTTTCGCTCTAACTATTGTGCTAAAAGTTCCCAGAGAAGGCCTTGGAAGACCTCTAAGA
AACGCTTTTGGACATACGGATGTTTACAAGCCTTATGGCGATAATCTATATGTCTATAACTCCAA
TTCCTTATATCCTTTTTCGATAACAAAGAAAATGCCCGATGGTAAGCCGAAATGGACCGATGATC
GAAGCCAGCACCAATGGGAAGAACGGATCTGGTAATATTTTTTGCCGCTGGCAATTTTCCACCTC
TTCTACCATTCAGGCTCCTAAAGTACCTTATTTTTCCCCGTACAAAACTAAAATACTTTACAAAC
GCTACGCGCCTTTCGGTATCAAACGCTACGCGCCTTAACTTAAGA
Right flanking sequence: Indices 90030 -- 90529
AAAGCCCATTTTCGATACTTATTTGCTCACAATCGCTACGTAGGCGTGCGATTCTTGCAGAAGAT
GCCGAAAACGGCTGAATATGAGGTGCGTAGCGAACTGATCTTTCAGCTCCACATACGCAGCGCAA
TCGGGACGCTTGCCCTAGGCGCCGCTACGCAGCTTATAAAGCACTCTTATAAAGCGCGTAGCGGC
CGCCCCAACTTGTCGAGCCCTTCCGGTTCTGTAAATAAAATATTACATAGATATATGAATAAATA
AAATATCTATATATTTCTTTATTGCATAAAAGCATAATGAGCGTATATATGCGGCATGGTTTACA
AAATTCTTCAATATTAATACTGTTGTACCATCGTTTTCCAATCTATGCGTCCCATTGACTAATCT
CACTCGGTATTCCTAATCCGGGGGAGGAAAGGGACCGTTAACCCAGTAATAATAGATTGGCGAGT
GTGAAGTGCTTTATTAATCATCCATGGACCCATTGGAGCCTTCGC
Found at i:98612 original size:15 final size:15
Alignment explanation
Indices: 98592--98620 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
98582 TTGTTTCTAT
98592 GATAGCATATGCCAC
1 GATAGCATATGCCAC
98607 GATAGCATATGCCA
1 GATAGCATATGCCA
98621 TTACGTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (15 bp):
GATAGCATATGCCAC
Left flanking sequence: Indices 98092 -- 98591
GCTTTACGGGTCCTCCGGCCAACTTAACGATTTCCGCCCTGAAGGCCTGCCGGTCTTGGGCTTTC
GGCAGAGGGCCTTCGGCTTCGGCCTTGGGCCTGCTGCTTGTGGCCCTAGCCGGCCTAAGGCATGT
AGCCAGCCGGAGGCTGCCCCTGAATGAATGGGGGGAAGGGGGTTACAAGCCCTCCAGCATTTAAT
TTAAAGCGCGGGAGCTCGCCAAAAGTTGATATTTTCATTTGAAATAAAAGCCAAGGCTATATGAA
TTTGTACTTCCTCATTCGGTTACCTATTTCGGTTATATTGCCTGAGCCAATCCCCCGGCCCCCCC
TATTAGCCTGGTCACGGCAAGCATGGTTTTATATTTAATAGATCACTGGGTAAACACGGATTCCG
CTTTTTCGTCCTTTTGCAAAACTGGATTCTTTCAATACTATTTGTTGTATCGTTGCCCTCGGCTG
GAGGAATGGTTATGGGATAACCGGGAGATTTATACTTGTTTCTAT
Right flanking sequence: Indices 98621 -- 99120
TTACGTCTTTATTTGTTGAACCCGGGGAAGGAAATGGAGTTATTCATATATATAGCATCAGTTTA
CTATATAAGACTCAGGTATAAAATTCTGAATGATAATCAACTCCAATTTTGTAGAGCTTATAAGG
ATTCTTGGGGTGCAGGCGGTTTGAACGATGCCAACCGCACCCTTTAAAATCGTTCGGATTTAAGT
GGCAACCGGATACCCAAACGTAAGATGGGGAGCTGTGGGCTAGCAAACGCAGCGCTTAAACATGC
CCCGAAAGCATTGCCAACCGCCGCTACGGGTACGGGCGCCCTCACAGTTGTGGCTGGAGGGGCGG
TCGGCATTGCAACCACTAAGATGATCGCGAACTCGAGCGGGGAAATCCAAAAGTAAAAAATGGCG
CTGGAGTAGCGGAATTTGGCCAATATGGCGTGGCATTAGAGCTTAAAATGGAACCGTCCAAGCAC
ACAGAGACAAGTTATCACAATTGGCTTAAGGACGCACGGGCAGAG
Found at i:100413 original size:10 final size:10
Alignment explanation
Indices: 100400--100425 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
100390 AGATATATGG
100400 ATATATCTAT
1 ATATATCTAT
100410 ATATATCTAT
1 ATATATCTAT
100420 ATATAT
1 ATATAT
100426 ATAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATCTAT
Left flanking sequence: Indices 99900 -- 100399
TAAATGACTAAATTTCGCTAATATGACTAAATCCCGAGGATTTGTAGATAAATATATATAATCAA
TACTCCGAAATCCTCGTCGCTAATAGATAACACCTTCGCTAAATAACGCATATTTAGCTAATATG
ACTAAACCCGTTGGGGATCTGTAGTACAATATGGAGAGGAATACCCCTTAATTAATATGGAATTA
AAGGGTTGGGAGGGGGAATATGTAGTAGGAATCTATATGGAATATGGAAGAATTCTATAGAATTG
GGAAGAGTTAATCAATTGAATTGGAATAGATGGAATGGATTAGGAAATAAAAGAAATAAGAGAAA
TTCAAATATATATATATCTGTATATAACGGAGGAAATGCATAAATAAAATAGATTCTATTATTTA
TAGGAGAGACTACTATTAAATTCATGTTTATTCTTCGCTCATCTCCCAAAAGAAAATGAGCTACC
ATTTTTCTTCTTTGAGGGGGAGGATGAGCCGCAATAGATATATGG
Right flanking sequence: Indices 100426 -- 100925
ATAATTTATAGGTCGGGGGAGATAGCCTCGACCTCTAACCTTTGAAGATACTGAGGGCCTGGACC
TTCCCCTACTTAGGTTGGGTTACCATGTTCTTGGGATCTGTTATATAGGCCTCTAGTTTTCCCTT
GGGAACGCAACGCCCAAAGACTTCCATCGTAGAAGTAACGTAGGAACTTCGGGCGGGGATCATGG
CACTTCTCATAGAACCTTAGGGACGCTTCCGCCGGGAGCCCAAACCCATAGGACCGAAGATAGGA
AGCATAGATCGGGGGGAACGTATTTTCGGTTACGCGGTACGTACGGCCTTCCCCATCTCGTCCTT
ATGGAGTTTGTAAACGGTGTTCGCTATATTCCGAAGATCAAGAATTATATTTGGTTGTTGCAGGG
CGGGGGACTTGGTTTTGTCCGACAAAACTTTGGGCCCCTAGGGGACTTGGTTTCATCGGACACCA
CAAAACCGAAAAACTGTCCAACGAAACAAAGGGCACTTGCAACTT
Found at i:120708 original size:21 final size:22
Alignment explanation
Indices: 120683--120726 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
120673 GTTGAAGTGA
120683 GAAAAA-CCACTAC-AAAGAAAC
1 GAAAAATCC-CTACTAAAGAAAC
*
120704 GAAAAATCCCTACTACAGAAAC
1 GAAAAATCCCTACTAAAGAAAC
120726 G
1 G
120727 TATGAGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (22 bp):
GAAAAATCCCTACTAAAGAAAC
Left flanking sequence: Indices 120183 -- 120682
CTCCTATTCGTACTCCTTCTATAAATATCCTTTCAGCTCCCCCTGTCTCAGTAGCTGAAAACTTT
TTTTCCAATCCATGCCCGTATACCTCCCTCTCCTTTCGCTACGCGCCTTTGGGACGGTTCACCCG
AGTTTTCAAAGATAAGGATGTAATAGATAGATAAAATATGGCATTGTCATCAAATATACAAGTAG
AACTCGAAAAAGTGCCAAATACAGGAAGGGGGGGTAGGCGCCAGGGAGGGCCTGGCTCGGTCAAG
TCCCTAACTACAACTTTCGGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCG
GATCGGTGCTTAAGTTGCACAAATTGCTAAGACGTCTAAATGCTTTCCTTGATAGCTGGAAGTTC
TTCAAAAGTATGAAATGCCGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAA
CAGCCCAAGGACTTGGAGCGCACTCGTTCTCACTAGTTGAAGTGA
Right flanking sequence: Indices 120727 -- 121226
TATGAGCCAAAACTACTAAAGGCATTCCACCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGACCTAGGAAATGCATAGGAAAAAGAGTTAGATTCACACCGAAGGAAGTAA
TCCGAGAATGAATTTGACCTAAAGTCTCTGGGTATTGAGGACCAGTTATTTTACCTATCCAGTAA
TAGAATCCCGCAAATAAAGCAAAAACGGCTCCCATAGAAAGAACGTAATGGAAATGTGCAACCAC
ATAATAAGTATCATGTAGAGCAATATCTAGCCCAGAATTGGCCAATACTATCCCAGTAAGCCCCC
CTACCGTGAACAAAAATATGAACCCTACAGCGAATAACATGGGTGTTTTGTATTGTATTGACCCC
CCCCACATGGTTGCAATCCAACTAAAAATCTTTATTCCAGTAGGCACGGCTATAATCATGGTAGC
CGCGGTAAAGTAAGCACGTGTATCAACGTCTAACCCTACAGTAAA
Found at i:120709 original size:22 final size:22
Alignment explanation
Indices: 120684--120726 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
120674 TTGAAGTGAG
120684 AAAAACCACTAC-AAAGAAACGA
1 AAAAACC-CTACTAAAGAAACGA
* *
120706 AAAATCCCTACTACAGAAACG
1 AAAAACCCTACTAAAGAAACG
120727 TATGAGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.26, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAACCCTACTAAAGAAACGA
Left flanking sequence: Indices 120184 -- 120683
TCCTATTCGTACTCCTTCTATAAATATCCTTTCAGCTCCCCCTGTCTCAGTAGCTGAAAACTTTT
TTTCCAATCCATGCCCGTATACCTCCCTCTCCTTTCGCTACGCGCCTTTGGGACGGTTCACCCGA
GTTTTCAAAGATAAGGATGTAATAGATAGATAAAATATGGCATTGTCATCAAATATACAAGTAGA
ACTCGAAAAAGTGCCAAATACAGGAAGGGGGGGTAGGCGCCAGGGAGGGCCTGGCTCGGTCAAGT
CCCTAACTACAACTTTCGGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCGG
ATCGGTGCTTAAGTTGCACAAATTGCTAAGACGTCTAAATGCTTTCCTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCCGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGACTTGGAGCGCACTCGTTCTCACTAGTTGAAGTGAG
Right flanking sequence: Indices 120727 -- 121226
TATGAGCCAAAACTACTAAAGGCATTCCACCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGACCTAGGAAATGCATAGGAAAAAGAGTTAGATTCACACCGAAGGAAGTAA
TCCGAGAATGAATTTGACCTAAAGTCTCTGGGTATTGAGGACCAGTTATTTTACCTATCCAGTAA
TAGAATCCCGCAAATAAAGCAAAAACGGCTCCCATAGAAAGAACGTAATGGAAATGTGCAACCAC
ATAATAAGTATCATGTAGAGCAATATCTAGCCCAGAATTGGCCAATACTATCCCAGTAAGCCCCC
CTACCGTGAACAAAAATATGAACCCTACAGCGAATAACATGGGTGTTTTGTATTGTATTGACCCC
CCCCACATGGTTGCAATCCAACTAAAAATCTTTATTCCAGTAGGCACGGCTATAATCATGGTAGC
CGCGGTAAAGTAAGCACGTGTATCAACGTCTAACCCTACAGTAAA
Found at i:136793 original size:24 final size:24
Alignment explanation
Indices: 136766--136823 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
136756 TTATTTCTCT
*
136766 ATGATGATTCACCATTATTTATTA
1 ATGATAATTCACCATTATTTATTA
* *
136790 ATGATAATTCATCATTATTTATTT
1 ATGATAATTCACCATTATTTATTA
136814 ATGATAATTC
1 ATGATAATTC
136824 CTTACCAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (24 bp):
ATGATAATTCACCATTATTTATTA
Left flanking sequence: Indices 136266 -- 136765
TAACACACTTGATTTTCGGTGAGCAATTATTATATAATGATACATAAAAGGTGATATAGGAAATA
CATACGGAATACAAAAAATGGTATAAAACACGCATAACCGAAGGAATTGTGTTGAATACGTAAAG
TGATCTAGTTGAGGCCAAAGATGTAGGACGTTAGTTCTACATAACATTTCTTTTCTTTTCTCCCC
GCAAGAGAAATGGAAAGAATTGGAATGCAACTTCTATCTATAGAATTTTTGGGAATACGGGCTAA
AGCCTCAGGCGGGAGAGGGAATCAGAAAAGTTATATCTAGAACCGGACCTCGTGTTTTGTGGGTT
GTTCTTTTCTCGCATTTTTTCGTTTTCTCACCCGTTCCATCACCCTTTTTTGGCGGGAGTTGGAT
TCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCCGCGAACAGCC
AACGAAAAAAGAGATATATTTTTGTTTATCGCCTTTTATTTCTCT
Right flanking sequence: Indices 136824 -- 137323
CTTACCAATGAGGATTCATCATTATTTATCTACAATAATTCATTTAGATTTTCTATTAGAAATTG
TACTAGATTCGAACCAAATTTGTCTAGGTTCAAAAGGGGGGGCGCGCTGCAGCCCGCACTAGCCC
ACTGGGTTGAAGTGACGGATACGGTTTTAGTGTTTACCCAACCGAAGCGATTGGCTAGAGACAAA
ACCGCGGTTGCTTCCCCGCGCACAGGCCATGAATTGGGGGGGAGGCACGTCCTTAGGTCCCGCAA
TCGGTAACATAATGAAAAAGTACACAGGCACTACGTGCTTCTTTACCGGGACATAGTTTTTCTAG
TTTTTGGCCGGAGCGAAATGACGAATTTTCTGGAATACAGGAAGCAAGGAGGAAGCGGGAAAGTT
TATAGAAGGGATTGAGCGGTTTCAACCCCAAGGGGCTCCTTCGGAGTCTGTGACCCTTGAACCAG
CTTGCCAGGAAGACACACAAAGATACATTGAGTTGCTGTCCTCTA
Done.