Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 166 of 196
Found at i:48627245 original size:13 final size:13
Alignment explanation
Indices: 48627227--48627252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48627217 AATCCCCGAA
48627227 AGCTCAGAAAACG
1 AGCTCAGAAAACG
48627240 AGCTCAGAAAACG
1 AGCTCAGAAAACG
48627253 GCGTCGTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (13 bp):
AGCTCAGAAAACG
Found at i:48627440 original size:114 final size:113
Alignment explanation
Indices: 48627240--48627638 Score: 602
Period size: 114 Copynumber: 3.5 Consensus size: 113
48627230 TCAGAAAACG
* *
48627240 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCAGCTAAA
1 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
*
48627305 GCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAA
66 G-CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
* * * *
48627354 AGCTCAAAAAACGGCATCGTGGGGCTTAGGTTTTTTTGTGGCGCTTTCCCAAAAACGCCGCTAAA
1 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
** * *
48627419 GTCCTGAGTTTTAGTGGCGCTTTCTTATAAACGCCGCTAAATCCCCGAA
66 G-CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
*
48627468 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAA
1 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
*
48627533 GCCTTGAGCATTAGCGGCGCTTTCTTAGAAACGCCGCTAAATCCCCGAA
66 GCC-TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
* * * * *
48627582 AGCTTAGGAAATGACGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGC
1 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGC
48627639 AACTAATGCT
Statistics
Matches: 257, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
113 27 0.11
114 230 0.89
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (113 bp):
AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
GCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
Found at i:48634925 original size:58 final size:58
Alignment explanation
Indices: 48634856--48634971 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
48634846 AAGTGATAGA
*
48634856 TGAAAAATCTTATATGCTAGGTCTATTGCAGAAATAGCTTAAGAATATAAAGCAATTC
1 TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTAAGAATATAAAGCAATTC
*
48634914 TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTGAGAATATAAAGCAATTC
1 TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTAAGAATATAAAGCAATTC
48634972 AAGTGAGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (58 bp):
TGAAAAATCTTATATGCTAGGTCTATTACAGAAATAGCTTAAGAATATAAAGCAATTC
Found at i:48643165 original size:63 final size:63
Alignment explanation
Indices: 48643083--48643232 Score: 178
Period size: 63 Copynumber: 2.4 Consensus size: 63
48643073 TGTGCCAGGC
* * * *
48643083 CGTGTGT-CAGGTCGTGTAACTTA-TCATTTTAGAATTAGAGTCACACGGACTAGAGACATGGG
1 CGTGTGTCCAGGCCGTGTAACTTACT-ATTTTAGAATTAGAGTCACACGGACCAGAGACACGAG
* * * *
48643145 CGTGTGTCCAGGCCGTGTAACTTACTGTTTTGGAATTAGAGTCACACGGGCCAGAGGCACGAG
1 CGTGTGTCCAGGCCGTGTAACTTACTATTTTAGAATTAGAGTCACACGGACCAGAGACACGAG
* **
48643208 CTTGTGTCCAGGCTATGTAACTTAC
1 CGTGTGTCCAGGCCGTGTAACTTAC
48643233 AACATGTTTG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
62 7 0.09
63 67 0.89
64 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (63 bp):
CGTGTGTCCAGGCCGTGTAACTTACTATTTTAGAATTAGAGTCACACGGACCAGAGACACGAG
Found at i:48646232 original size:15 final size:15
Alignment explanation
Indices: 48646197--48646248 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48646187 TTAAGAATTT
*
48646197 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48646211 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48646225 TATTTAATAATAAT-
1 TATTTAATTATAATA
48646239 TATGTTAATT
1 TAT-TTAATT
48646249 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48646282 original size:120 final size:120
Alignment explanation
Indices: 48646135--48646364 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
48646125 TTTGAGTAAA
48646135 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
48646200 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
48646255 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
48646320 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
48646365 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:48646330 original size:61 final size:61
Alignment explanation
Indices: 48646145--48646332 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
48646135 TTATAGTATC
48646145 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
48646206 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
48646265 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
48646326 ATATATT
1 ATATATT
48646333 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:48646347 original size:16 final size:16
Alignment explanation
Indices: 48646326--48646367 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48646316 TTATTAAATT
*
48646326 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48646342 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48646357 AT-TATGTTTAA
1 ATATAT-TTTAA
48646368 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48646352 original size:15 final size:15
Alignment explanation
Indices: 48646317--48646358 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48646307 TTAAGAATTT
*
48646317 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48646331 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48646345 TATTTAATAATAAT
1 TATTTAATTATAAT
48646359 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48646593 original size:45 final size:43
Alignment explanation
Indices: 48646493--48646602 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
48646483 TTTTCCATTA
48646493 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
48646532 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
48646577 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
48646603 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:48646604 original size:16 final size:16
Alignment explanation
Indices: 48646583--48646650 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
48646573 GATTTGCTAT
*
48646583 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
48646599 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
48646615 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48646631 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48646647 TACA
1 TACA
48646651 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48648144 original size:23 final size:23
Alignment explanation
Indices: 48648114--48648189 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
48648104 AATGTTATTG
*
48648114 ATCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
48648137 ATCAGTGGTAGGTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
48648160 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
48648183 ATCAGTG
1 ATCAGTG
48648190 TGGTACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:48649411 original size:49 final size:49
Alignment explanation
Indices: 48649348--48649486 Score: 215
Period size: 49 Copynumber: 2.8 Consensus size: 49
48649338 CAATAAGTGA
* *
48649348 TATGTAATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
*
48649397 TATGTGATTACGTGTAAGACCATTGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
* * * *
48649446 TATGTGATTACATGCAAGACCATAGTTGGACTATGGCATCG
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
48649487 AGAAAATAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
Found at i:48653908 original size:15 final size:15
Alignment explanation
Indices: 48653875--48653908 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48653865 GTGCGGTGTT
* *
48653875 TGTGTTGTGTTGTGT
1 TGTGTTGTGTTGGGC
48653890 TGTGTTGTGTTGGGC
1 TGTGTTGTGTTGGGC
48653905 TGTG
1 TGTG
48653909 CTGCATAGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.44, T:0.53
Consensus pattern (15 bp):
TGTGTTGTGTTGGGC
Found at i:48653911 original size:5 final size:5
Alignment explanation
Indices: 48653874--48653901 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48653864 TGTGCGGTGT
48653874 TTGTG TTGTG TTGTG TTGTG TTGTG TTG
1 TTGTG TTGTG TTGTG TTGTG TTGTG TTG
48653902 GGCTGTGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.39, T:0.61
Consensus pattern (5 bp):
TTGTG
Found at i:48664438 original size:6 final size:6
Alignment explanation
Indices: 48664389--48664434 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
48664379 GGCATGTCAT
*
48664389 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGCA GAGG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGG
48664435 CAGAAAACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.46, C:0.02, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:48678739 original size:23 final size:23
Alignment explanation
Indices: 48678708--48678762 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
48678698 ACCTATTTTC
*
48678708 TTACTGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
* *
48678731 TTACAGTAGTAATTTTCGGGATG
1 TTACAGTAGTAATTTTCGAGATA
48678754 TTACAGTAG
1 TTACAGTAG
48678763 ATAGGACACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:48682120 original size:27 final size:27
Alignment explanation
Indices: 48682090--48682144 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
48682080 TCTCGGAGGA
48682090 GCCAATGGTGGAGCCTATCTGACAGGC
1 GCCAATGGTGGAGCCTATCTGACAGGC
*
48682117 GCCAATGGTGGAGCCTTTCTGACAGGC
1 GCCAATGGTGGAGCCTATCTGACAGGC
48682144 G
1 G
48682145 TCACTGCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (27 bp):
GCCAATGGTGGAGCCTATCTGACAGGC
Found at i:48687662 original size:16 final size:16
Alignment explanation
Indices: 48687641--48687676 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
48687631 TTTGGTTCGT
48687641 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48687657 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48687673 TGTA
1 TGTA
48687677 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48687929 original size:16 final size:16
Alignment explanation
Indices: 48687892--48687933 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48687882 TTAATCATAT
*
48687892 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
48687908 TT-AAATATATTATAA
1 TTAAAATATATTATAA
48687923 TTAAAATATAT
1 TTAAAATATAT
48687934 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:48687940 original size:14 final size:15
Alignment explanation
Indices: 48687901--48687942 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48687891 TTTAAACATA
*
48687901 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48687916 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48687930 A-TATAATTTAATA
1 ATTATAATTAAATA
48687943 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:48688177 original size:14 final size:15
Alignment explanation
Indices: 48688128--48688179 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48688118 GTAAAATATA
48688128 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
48688143 TATTAAATATATTAT
1 AATTAAATATATTAT
48688158 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
48688171 AATTTAATA
1 AATTAAATA
48688180 AAATTGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:48688315 original size:120 final size:120
Alignment explanation
Indices: 48687895--48688304 Score: 697
Period size: 120 Copynumber: 3.4 Consensus size: 120
48687885 ATCATATTTA
48687895 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
48687960 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
48688015 AACAT-A--ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
48688077 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
48688132 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTGTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
48688197 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * * *
48688252 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATGAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
48688305 TAAAATAATT
Statistics
Matches: 278, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
117 116 0.42
118 1 0.00
119 8 0.03
120 151 0.54
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:48688391 original size:24 final size:25
Alignment explanation
Indices: 48688345--48688392 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
48688335 TATGAATTTG
48688345 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
48688371 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
48688393 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:48688396 original size:92 final size:92
Alignment explanation
Indices: 48688300--48688509 Score: 232
Period size: 92 Copynumber: 2.3 Consensus size: 92
48688290 TGATTTAATG
* * *
48688300 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
48688362 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
48688392 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
48688457 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* *
48688482 ATAATTTCATAAAATTCTTAATAATAAA
1 A-AATTTCAAAAAATTCATAATAATAAA
48688510 ATGTTCTTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 2 0.02
91 30 0.29
92 62 0.61
93 8 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:48688517 original size:92 final size:92
Alignment explanation
Indices: 48688335--48688528 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
48688325 AATTATATTT
* * * *
48688335 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATTAATATTAAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
* *
48688400 TAAAATTCTTGATAATAAATTTTCTTA
66 TAAAATTCTTAATAATAAATGTTCTTA
*
48688427 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTG-ATA-TATAATTT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATGAATATTA-AATTT
48688489 CATAAAATTCTTAATAATAAAATGTTCTTA
64 CATAAAATTCTTAATAAT-AAATGTTCTTA
*
48688519 TATCAATTTA
1 TATGAATTTA
48688529 GTAAAATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.27
92 61 0.67
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
TAAAATTCTTAATAATAAATGTTCTTA
Found at i:48691565 original size:33 final size:33
Alignment explanation
Indices: 48691526--48691601 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
48691516 ATTATAAAGC
*
48691526 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
48691559 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
48691592 ATGTATAATT
1 ATGTATAATT
48691602 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:48691699 original size:37 final size:37
Alignment explanation
Indices: 48691644--48691725 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
48691634 GTATAAATAT
* * *
48691644 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
48691681 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
48691718 ATTGATTA
1 ATTGATTA
48691726 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:48692362 original size:13 final size:13
Alignment explanation
Indices: 48692344--48692370 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48692334 TGAAAGCCAA
48692344 TTTGAATGCTTTT
1 TTTGAATGCTTTT
48692357 TTTGAATGCTTTT
1 TTTGAATGCTTTT
48692370 T
1 T
48692371 GATGAAATTA
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:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TTTGAATGCTTTT
Found at i:48703923 original size:13 final size:13
Alignment explanation
Indices: 48703905--48703929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48703895 TCAAACGATC
48703905 AAATTTTTACACG
1 AAATTTTTACACG
48703918 AAATTTTTACAC
1 AAATTTTTACAC
48703930 ATATTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTTACACG
Found at i:48704155 original size:25 final size:25
Alignment explanation
Indices: 48704127--48704185 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
48704117 AAACAAATGT
* * *
48704127 AGAAACGAAACAGAGAAGGAAAGAA
1 AGAAAAGAAAAAGAGAAAGAAAGAA
48704152 AGAAAAGAAAAAGAGAAAGAAAGAA
1 AGAAAAGAAAAAGAGAAAGAAAGAA
48704177 GGAGAAAAG
1 --AGAAAAG
48704186 CTAGGTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.76
27 7 0.24
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (25 bp):
AGAAAAGAAAAAGAGAAAGAAAGAA
Found at i:48708844 original size:24 final size:24
Alignment explanation
Indices: 48708812--48708862 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
48708802 TATATATCGT
*
48708812 TTTTAAGAATAACTAGTTATAATG
1 TTTTAAGAATAACTAGCTATAATG
* *
48708836 TTTTCAGAATAATTAGCTATAATG
1 TTTTAAGAATAACTAGCTATAATG
48708860 TTT
1 TTT
48708863 CTAAAAAAAT
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:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (24 bp):
TTTTAAGAATAACTAGCTATAATG
Found at i:48714824 original size:12 final size:12
Alignment explanation
Indices: 48714803--48714836 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48714793 ACAATGCTGG
48714803 CCCAAATCACAC
1 CCCAAATCACAC
*
48714815 CCCAACTCACAC
1 CCCAAATCACAC
*
48714827 CCCATATCAC
1 CCCAAATCAC
48714837 TCTGTATATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.53, G:0.00, T:0.12
Consensus pattern (12 bp):
CCCAAATCACAC
Found at i:48715306 original size:21 final size:21
Alignment explanation
Indices: 48715280--48715322 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48715270 CGCGAAACTG
48715280 AGTAGACCACCGCAACAACCA
1 AGTAGACCACCGCAACAACCA
48715301 AGTAGACCACCGCAACAACCA
1 AGTAGACCACCGCAACAACCA
48715322 A
1 A
48715323 AGGTGGTTCA
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:0.44, C:0.37, G:0.14, T:0.05
Consensus pattern (21 bp):
AGTAGACCACCGCAACAACCA
Found at i:48729878 original size:3 final size:3
Alignment explanation
Indices: 48729863--48729894 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
48729853 GGAACCATGC
*
48729863 TGT TGT GGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
48729895 ATGGTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (3 bp):
TGT
Found at i:48731084 original size:25 final size:25
Alignment explanation
Indices: 48731056--48731106 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
48731046 AGAAAGTAAA
48731056 TTAA-AATTTATATTTATTTTA-ATAT
1 TTAATAATTT-TATTT-TTTTATATAT
48731081 TTAATAATTTTATTTTTTTATATAT
1 TTAATAATTTTATTTTTTTATATAT
48731106 T
1 T
48731107 ATAGTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 14 0.58
26 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTAATAATTTTATTTTTTTATATAT
Found at i:48731103 original size:23 final size:26
Alignment explanation
Indices: 48731055--48731116 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 26
48731045 TAGAAAGTAA
48731055 ATTAA-AATTTATATTTATTTTAATAT
1 ATTAATAATTT-TATTTATTTTAATAT
48731081 -TTAATAATTTTATTT-TTTT-ATAT
1 ATTAATAATTTTATTTATTTTAATAT
*
48731104 ATT-ATAGTTTTAT
1 ATTAATAATTTTAT
48731117 ATAAAGGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 13 0.39
24 6 0.18
25 9 0.27
26 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTAATAATTTTATTTATTTTAATAT
Found at i:48743290 original size:3 final size:3
Alignment explanation
Indices: 48743282--48743317 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
48743272 AATCTAGTCC
*
48743282 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48743318 CTTTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:48745592 original size:14 final size:14
Alignment explanation
Indices: 48745573--48745612 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48745563 TTGATTTGCA
48745573 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
48745587 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
48745601 GGAAAATGTTTT
1 GTAAAATGTTTT
48745613 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:48745625 original size:34 final size:35
Alignment explanation
Indices: 48745581--48745647 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
48745571 CAGTAAAATG
* *
48745581 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
48745615 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
48745648 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:48745634 original size:20 final size:20
Alignment explanation
Indices: 48745596--48745635 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48745586 CGTAAAATGA
**
48745596 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
48745616 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
48745636 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:48747020 original size:27 final size:27
Alignment explanation
Indices: 48746990--48747059 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
48746980 AATAATCAAT
*
48746990 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
48747017 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
48747045 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
48747060 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:48748964 original size:58 final size:57
Alignment explanation
Indices: 48748897--48749061 Score: 174
Period size: 58 Copynumber: 2.9 Consensus size: 57
48748887 TCAAGTGTGT
48748897 TTTCT-TTTTTTAT-TTCAATATAAACAAAAAAATTTGACAATGTTATAAA-TTTTTTTA
1 TTTCTATTTTTTATATT--ATATAAA-AAAAAAATTTGACAATGTTATAAATTTTTTTTA
* * ** *
48748954 TTTCTATTTTTTATAATTTTTTAAATTATAAATTTGACAATGTTATAAATTTTTTTTA
1 TTTCTATTTTTTAT-ATTATATAAAAAAAAAATTTGACAATGTTATAAATTTTTTTTA
* * ** *
48749012 TTTCTATTTTTTATAATTTTTTAAATTATAAATTTGACAATGTTATAAAT
1 TTTCTATTTTTTAT-ATTATATAAAAAAAAAATTTGACAATGTTATAAAT
48749062 AATGTTTAAC
Statistics
Matches: 99, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
57 26 0.26
58 71 0.72
60 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.56
Consensus pattern (57 bp):
TTTCTATTTTTTATATTATATAAAAAAAAAATTTGACAATGTTATAAATTTTTTTTA
Found at i:48749837 original size:14 final size:14
Alignment explanation
Indices: 48749818--48749845 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48749808 TCTTTAAAAA
48749818 GAATTAACTTATTT
1 GAATTAACTTATTT
48749832 GAATTAACTTATTT
1 GAATTAACTTATTT
48749846 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:48751955 original size:24 final size:25
Alignment explanation
Indices: 48751909--48751959 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
48751899 AACACGTCAA
*
48751909 TTTTTTCTTCAATATAGTTTACTTTT
1 TTTTTTCTTCAATATAG-CTACTTTT
*
48751935 TTTTTTCTTCAATTTA-CTACTTTT
1 TTTTTTCTTCAATATAGCTACTTTT
48751959 T
1 T
48751960 CTATCTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTCTTCAATATAGCTACTTTT
Found at i:48755193 original size:4 final size:4
Alignment explanation
Indices: 48755184--48755208 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
48755174 AAGTGTATGA
48755184 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
48755209 GCAATAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:48756364 original size:20 final size:19
Alignment explanation
Indices: 48756331--48756408 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
48756321 ATCAACATTT
48756331 AATTAATTTCTTAATATTTTAA
1 AATT-ATTT-TTAA-ATTTTAA
*
48756353 AATTATTTTTAAATAATTAA
1 AATTATTTTTAAAT-TTTAA
* *
48756373 AATGATTTTTAACTTTTAA
1 AATTATTTTTAAATTTTAA
* *
48756392 AAATAGTTTTATAATTT
1 AATTATTTTTA-AATTT
48756409 ATTGAATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.30
20 24 0.52
21 4 0.09
22 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTATTTTTAAATTTTAA
Found at i:48763067 original size:25 final size:24
Alignment explanation
Indices: 48763039--48763132 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 24
48763029 AAAACAAAAA
*
48763039 AAAAATCAAAATCAAAAAAGAGAAG
1 AAAAATAAAAAT-AAAAAAGAGAAG
*
48763064 AAAAATAAAAATAAAAAACA-AAGG
1 AAAAATAAAAATAAAAAAGAGAA-G
* *
48763088 TCAAAATGAAAATGAAAAAGAGAGAAG
1 -AAAAATAAAAAT-AAAAA-AGAGAAG
*
48763115 AAAAGAGAAAAAATAAAA
1 AAAA-A-TAAAAATAAAA
48763133 GAAAATGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.04
24 8 0.15
25 21 0.39
26 8 0.15
27 8 0.15
28 7 0.13
ACGTcount: A:0.73, C:0.04, G:0.14, T:0.09
Consensus pattern (24 bp):
AAAAATAAAAATAAAAAAGAGAAG
Found at i:48763117 original size:19 final size:20
Alignment explanation
Indices: 48763090--48763142 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
48763080 AACAAAGGTC
*
48763090 AAAATGAAAATGA-AAAAGAG
1 AAAA-GAAAATGAGAAAAAAG
* *
48763110 AGAAGAAAA-GAGAAAAAAT
1 AAAAGAAAATGAGAAAAAAG
48763129 AAAAGAAAATGAGA
1 AAAAGAAAATGAGA
48763143 GGCCAAGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 18 0.67
20 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (20 bp):
AAAAGAAAATGAGAAAAAAG
Found at i:48764887 original size:86 final size:86
Alignment explanation
Indices: 48764730--48765380 Score: 980
Period size: 86 Copynumber: 7.5 Consensus size: 86
48764720 CAGATCAGTG
* *
48764730 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAAATCGAAAACAAAACCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
48764795 TTGGTTGTAGTAGAGCTGGTTA
65 TCGGTTGTAGTGGAGCTGGTTA
* * *
48764817 AAGAAGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
48764882 CGGTTGCAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* *
48764903 AAGAAGCAGATCTTGCCTTCTTGCATTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
48764968 CGGTTGTAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * *
48764989 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGAAAACAAAGTCTTGCATCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
48765054 CGGTTGTAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * *
48765075 AAAAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAACAAAGCCTTGTCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
48765140 CGGTTGCAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* *
48765161 AAGAAGCAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
48765226 CGGTTGTAGTGGAGCTGGTTA
66 CGGTTGTAGTGGAGCTGGTTA
* * * *
48765247 AAGATAGCAGATCTTGCCTTCCTGTATTAACAGTGAAGTAGATCAAAAACAAAGCCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
48765312 TCGGTTGCAGTGGAGCTAGTTG
65 TCGGTTGTAGTGGAGCTGGTTA
* * ** *
48765334 AAGATAGCAGATCTTCCCCTT-CTGCGTCGACAGTGAAGCAGATCGAA
1 AAGA-AGCAGATCTT-GCCTTCCTGCATTAACAGCGAAGCAGATCGAA
48765381 GATTACAAGT
Statistics
Matches: 516, Mismatches: 46, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
86 400 0.78
87 112 0.22
88 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (86 bp):
AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
CGGTTGTAGTGGAGCTGGTTA
Found at i:48765566 original size:44 final size:44
Alignment explanation
Indices: 48765474--48765575 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
48765464 TCGCATCGGG
* *
48765474 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGAAAACAAG
1 TCTTATCTCCCTGAAGTCACAGTGGAGCAGACTGAGAAAACAAA
* * *
48765518 TCTTAT-TACCCTGAAGTCACAGTGGGGTAGACTGA-AGAAGCAAA
1 TCTTATCT-CCCTGAAGTCACAGTGGAGCAGACTGAGA-AAACAAA
48765562 TCTTATCTCCCTGA
1 TCTTATCTCCCTGA
48765576 GGTTGTAGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 2 0.04
44 47 0.94
45 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTCACAGTGGAGCAGACTGAGAAAACAAA
Found at i:48765665 original size:45 final size:44
Alignment explanation
Indices: 48765560--48765682 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
48765550 TGAAGAAGCA
* * *
48765560 AATCTTATCTCCCTGAGGTTGTAGTAGAGCAGATTAAATTCGAT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGTCAAT
* * * *
48765604 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGTCAAT
* * *
48765647 AAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 -A-ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGAT
48765683 CGCATCAAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.03
44 35 0.55
45 27 0.42
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGTCAAT
Found at i:48767974 original size:18 final size:19
Alignment explanation
Indices: 48767943--48767984 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
48767933 GTTGCCCTTA
*
48767943 TGTATTTTGCATTGTTTATT
1 TGTATTTT-CATTGATTATT
*
48767963 TGTATTTT-ATTGATTCTT
1 TGTATTTTCATTGATTATT
48767981 TGTA
1 TGTA
48767985 ACTCATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.17, C:0.05, G:0.14, T:0.64
Consensus pattern (19 bp):
TGTATTTTCATTGATTATT
Found at i:48771277 original size:20 final size:20
Alignment explanation
Indices: 48771252--48771295 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
48771242 AGTTTATTGT
48771252 AATTTATTAGATAAATTAGG
1 AATTTATTAGATAAATTAGG
48771272 AATTTATTAGATAAATTAGG
1 AATTTATTAGATAAATTAGG
48771292 AATT
1 AATT
48771296 AGTTTAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (20 bp):
AATTTATTAGATAAATTAGG
Found at i:48774320 original size:15 final size:15
Alignment explanation
Indices: 48774285--48774336 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48774275 TTAAGAATTT
*
48774285 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48774299 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48774313 TATTTAATAATAAT-
1 TATTTAATTATAATA
48774327 TATGTTAATT
1 TAT-TTAATT
48774337 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48774370 original size:120 final size:120
Alignment explanation
Indices: 48774223--48774452 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
48774213 TTTGAGTAAA
48774223 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
48774288 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
48774343 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
48774408 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
48774453 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:48774418 original size:61 final size:61
Alignment explanation
Indices: 48774233--48774420 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
48774223 TTATAGTATC
48774233 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
48774294 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
48774353 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
48774414 ATATATT
1 ATATATT
48774421 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:48774435 original size:16 final size:16
Alignment explanation
Indices: 48774414--48774455 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48774404 TTATTAAATT
*
48774414 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48774430 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48774445 AT-TATGTTTAA
1 ATATAT-TTTAA
48774456 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48774440 original size:15 final size:15
Alignment explanation
Indices: 48774405--48774446 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48774395 TTAAGAATTT
*
48774405 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48774419 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48774433 TATTTAATAATAAT
1 TATTTAATTATAAT
48774447 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48774681 original size:45 final size:43
Alignment explanation
Indices: 48774581--48774690 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
48774571 TTTTCCATTA
48774581 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
48774620 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
48774665 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
48774691 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:48774692 original size:16 final size:16
Alignment explanation
Indices: 48774671--48774722 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
48774661 GATTTGCTAT
*
48774671 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
48774687 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
48774703 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48774719 TACA
1 TACA
48774723 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48788546 original size:23 final size:22
Alignment explanation
Indices: 48788495--48788578 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 22
48788485 CACAGCTCGT
* *
48788495 ATGAGCTTACAGTTTCAACTCTA
1 ATGAGCTTACCGTTTCAGCTC-A
**
48788518 CGGAGCTTACCGTTTCAGCTCA
1 ATGAGCTTACCGTTTCAGCTCA
48788540 ATAGAGCTTACCGTTTATCAGCTCGGA
1 AT-GAGCTTACCG-TT-TCAGCTC--A
48788567 ATGAGCTTACCG
1 ATGAGCTTACCG
48788579 ATCATGGCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 1 0.02
23 27 0.54
24 2 0.04
25 7 0.14
26 10 0.20
27 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (22 bp):
ATGAGCTTACCGTTTCAGCTCA
Found at i:48794983 original size:15 final size:16
Alignment explanation
Indices: 48794965--48794998 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48794955 TTTTCTCCTT
48794965 GTTC-TTTTTATTTTG
1 GTTCTTTTTTATTTTG
48794980 GTTCTTTTTTATTTTG
1 GTTCTTTTTTATTTTG
48794996 GTT
1 GTT
48794999 AATCTACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.06, C:0.06, G:0.15, T:0.74
Consensus pattern (16 bp):
GTTCTTTTTTATTTTG
Found at i:48797200 original size:33 final size:30
Alignment explanation
Indices: 48797132--48797211 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
48797122 GGTGGAGATC
48797132 GTGATGGTGGTGGCGTTGAAAGGGGAGGTT
1 GTGATGGTGGTGGCGTTGAAAGGGGAGGTT
48797162 GTGATGGTGGTGGCGTTGAAAGGGGAGGTT
1 GTGATGGTGGTGGCGTTGAAAGGGGAGGTT
* *
48797192 GTGATGATGGTGGCGGTGAA
1 GTGATGGTGGTGGCGTTGAA
48797212 CTAACAGGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.17, C:0.04, G:0.53, T:0.26
Consensus pattern (30 bp):
GTGATGGTGGTGGCGTTGAAAGGGGAGGTT
Found at i:48797312 original size:21 final size:21
Alignment explanation
Indices: 48797278--48797318 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48797268 CGGTTGAGTA
*
48797278 GATGGTGTTGGTGGAGGTGGT
1 GATGGAGTTGGTGGAGGTGGT
*
48797299 GATGGAGTTTGTGGAGGTGG
1 GATGGAGTTGGTGGAGGTGG
48797319 AGGTGATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (21 bp):
GATGGAGTTGGTGGAGGTGGT
Found at i:48805189 original size:18 final size:17
Alignment explanation
Indices: 48805156--48805194 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48805146 TTGTATAAAT
48805156 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
48805174 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
48805191 TGTG
1 TGTG
48805195 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:48805447 original size:23 final size:23
Alignment explanation
Indices: 48805420--48805492 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
48805410 AGTGTTATTG
48805420 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
48805443 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48805466 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48805489 ATCA
1 ATCA
48805493 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48812056 original size:18 final size:17
Alignment explanation
Indices: 48812023--48812061 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48812013 TTGTATAAAT
48812023 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
48812041 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
48812058 TGTG
1 TGTG
48812062 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:48812193 original size:8 final size:8
Alignment explanation
Indices: 48812180--48812208 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
48812170 CACTAGAGAT
48812180 CAGTGTTA
1 CAGTGTTA
48812188 CAGTGTTA
1 CAGTGTTA
48812196 CAGTGTTA
1 CAGTGTTA
48812204 CAGTG
1 CAGTG
48812209 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:48812322 original size:23 final size:23
Alignment explanation
Indices: 48812295--48812367 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
48812285 AGTGTTATTG
48812295 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
48812318 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48812341 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48812364 ATCA
1 ATCA
48812368 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48817320 original size:14 final size:14
Alignment explanation
Indices: 48817301--48817350 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
48817291 AAAAATTATA
48817301 ATTATTTAAATAAT
1 ATTATTTAAATAAT
*
48817315 ATTATTTAAATAGT
1 ATTATTTAAATAAT
*
48817329 ATAATATTAAATTAAT
1 ATTAT-TTAAA-TAAT
48817345 AATTAT
1 -ATTAT
48817351 GTGTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 17 0.59
15 5 0.17
16 3 0.10
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
ATTATTTAAATAAT
Found at i:48823117 original size:48 final size:48
Alignment explanation
Indices: 48823046--48823142 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
48823036 TTAATAAATA
*
48823046 AGTATAATTCAACATTTCCTGCCAACCACAGTCTCAAGCAATGAATTT
1 AGTATAATTCAACATTTCCTGCCAACCACAATCTCAAGCAATGAATTT
48823094 AGTATAATTCAACATTTCCTGCCAACCACAATCTCAAGCAATGAATTT
1 AGTATAATTCAACATTTCCTGCCAACCACAATCTCAAGCAATGAATTT
48823142 A
1 A
48823143 CTCAATCGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (48 bp):
AGTATAATTCAACATTTCCTGCCAACCACAATCTCAAGCAATGAATTT
Found at i:48823364 original size:46 final size:46
Alignment explanation
Indices: 48823294--48823562 Score: 398
Period size: 46 Copynumber: 5.8 Consensus size: 46
48823284 ACAATGCTAT
*
48823294 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
48823340 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
48823386 AACTCAGTATAGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* * * *
48823432 AACTCAGTATGATTTT-TGTTATTAAAATACCTTACCTACTTCTT-AC
1 AACTCAGTATGGTTTTCT-TTACTGAAATACCATACCTACTT-TTCAC
*
48823478 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
48823524 AACTCAGTATGGTTTTCTTTACAGAAATGCCATACCTAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAC
48823563 GTTCCACACT
Statistics
Matches: 198, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
45 3 0.02
46 192 0.97
47 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:48825255 original size:23 final size:23
Alignment explanation
Indices: 48825230--48825605 Score: 260
Period size: 23 Copynumber: 16.0 Consensus size: 23
48825220 GGACAGCTCT
* * *
48825230 TATACATCAATTTGGACAGCATT
1 TATACAACAAATTGGACAGCATA
* * * *
48825253 TATATACCAAACTAGACAGCAT-
1 TATACAACAAATTGGACAGCATA
* *
48825275 TTTCACACCAAAATTTGGACAGCATA
1 TAT-ACAAC-AAA-TTGGACAGCATA
*
48825301 TATACAACAATTTGTG-CAGCATA
1 TATACAACAAATTG-GACAGCATA
*
48825324 TATACAACAAATT-GAGCAGCATT
1 TATACAACAAATTGGA-CAGCATA
* *
48825347 TTTACACCAAAAATTGGACAGCATA
1 TATACA--ACAAATTGGACAGCATA
*
48825372 TATACAACAAATTGGGCAGCATA
1 TATACAACAAATTGGACAGCATA
* * *
48825395 TATATACCAAATT-GAGCAGCATT
1 TATACAACAAATTGGA-CAGCATA
* *
48825418 TTTACATCAAAATTGGACAGCATA
1 TATACAAC-AAATTGGACAGCATA
* *
48825442 TATACAACAATTTGGGCAGCATA
1 TATACAACAAATTGGACAGCATA
* *
48825465 AATACAACAAATT-GAGCAGCATT
1 TATACAACAAATTGGA-CAGCATA
* *
48825488 TTTACATCAAAAATTGGACAGCATA
1 TATACA--ACAAATTGGACAGCATA
*
48825513 TATACAACAAATTGGGCAGCATA
1 TATACAACAAATTGGACAGCATA
* * *
48825536 TATATACCAAATT-GAGCAGCATT
1 TATACAACAAATTGGA-CAGCATA
* * *
48825559 TTTACACCAAAATTTGGAAAGCATA
1 TATACAAC-AAA-TTGGACAGCATA
* * *
48825584 TATATAACAATTTGGGCAGCAT
1 TATACAACAAATTGGACAGCAT
48825606 TTAAGCATCA
Statistics
Matches: 275, Mismatches: 57, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
21 1 0.00
22 5 0.02
23 172 0.63
24 28 0.10
25 61 0.22
26 8 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (23 bp):
TATACAACAAATTGGACAGCATA
Found at i:48825344 original size:71 final size:71
Alignment explanation
Indices: 48825217--48825605 Score: 559
Period size: 71 Copynumber: 5.5 Consensus size: 71
48825207 ATCTACCCTG
* * * * * *
48825217 TTTGGACAGC-TCTTATACATCAATTTGGACAGCATTTATATACCAAACT-AGACAGCATTTTCA
1 TTTGGACAGCAT-ATATACAACAATTTGGGCAGCATATATATACCAAATTGAG-CAGCATTTTTA
48825280 CACCAAAA
64 CACCAAAA
* * *
48825288 TTTGGACAGCATATATACAACAATTTGTGCAGCATATATACAACAAATTGAGCAGCATTTTTACA
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
48825353 CCAAAA
66 CCAAAA
* *
48825359 ATTGGACAGCATATATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
*
48825424 TCAAAA
66 CCAAAA
* * *
48825430 -TTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCATTTTTACA
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
*
48825494 TCAAAA
66 CCAAAA
* *
48825500 ATTGGACAGCATATATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
1 TTTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
48825565 CCAAAA
66 CCAAAA
* *
48825571 TTTGGAAAGCATATATATAACAATTTGGGCAGCAT
1 TTTGGACAGCATATATACAACAATTTGGGCAGCAT
48825606 TTAAGCATCA
Statistics
Matches: 287, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
70 66 0.23
71 218 0.76
72 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (71 bp):
TTTGGACAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACA
CCAAAA
Found at i:48825479 original size:141 final size:142
Alignment explanation
Indices: 48825230--48825605 Score: 621
Period size: 141 Copynumber: 2.7 Consensus size: 142
48825220 GGACAGCTCT
* * * * * *
48825230 TATACATCAATTTGGACAGCATTTATATACCAAACT-AGACAGCATTTTCACACCAAAATTTGGA
1 TATACAACAAATTGGGCAGCATATATATACCAAATTGAG-CAGCATTTTTACACCAAAATTTGGA
* *
48825294 CAGCATATATACAACAATTTGTGCAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAA
65 CAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAA
48825359 ATTGGACAGCATA
130 ATTGGACAGCATA
*
48825372 TATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA-TTGGAC
1 TATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACACCAAAATTTGGAC
*
48825436 AGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCATTTTTACATCAAAAA
66 AGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAA
48825501 TTGGACAGCATA
131 TTGGACAGCATA
*
48825513 TATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACACCAAAATTTGGAA
1 TATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACACCAAAATTTGGAC
*
48825578 AGCATATATATAACAATTTGGGCAGCAT
66 AGCATATATACAACAATTTGGGCAGCAT
48825606 TTAAGCATCA
Statistics
Matches: 219, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
141 137 0.63
142 80 0.37
143 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (142 bp):
TATACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACACCAAAATTTGGAC
AGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAA
TTGGACAGCATA
Found at i:48826347 original size:24 final size:25
Alignment explanation
Indices: 48826319--48826400 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 25
48826309 TTCGAAAATA
*
48826319 TTTAATAAGTTCGCACACTTAGTGC
1 TTTAATAAATTCGCACACTTAGTGC
*
48826344 TTAATAATCAATTTCGCACACTTAGTGC
1 TT--TAAT-AAATTCGCACACTTAGTGC
*
48826372 TTTACAATTAAACTCGCACACTTAGTGC
1 TTT--AA-TAAATTCGCACACTTAGTGC
48826400 T
1 T
48826401 AATCTCATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 4 0.08
28 40 0.83
29 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (25 bp):
TTTAATAAATTCGCACACTTAGTGC
Found at i:48826360 original size:28 final size:28
Alignment explanation
Indices: 48826328--48826400 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
48826318 ATTTAATAAG
* *
48826328 TTCGCACACTTAGTGCTTAATAATCAAT
1 TTCGCACACTTAGTGCTTAACAATCAAA
* *
48826356 TTCGCACACTTAGTGCTTTACAATTAAA
1 TTCGCACACTTAGTGCTTAACAATCAAA
*
48826384 CTCGCACACTTAGTGCT
1 TTCGCACACTTAGTGCT
48826401 AATCTCATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (28 bp):
TTCGCACACTTAGTGCTTAACAATCAAA
Found at i:48828127 original size:32 final size:32
Alignment explanation
Indices: 48828085--48828145 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
48828075 TTTTTTGAAA
48828085 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
48828117 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
48828146 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:48828138 original size:20 final size:20
Alignment explanation
Indices: 48828104--48828145 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48828094 AACTATTTAA
** *
48828104 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
48828124 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48828144 AT
1 AT
48828146 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:48830831 original size:13 final size:11
Alignment explanation
Indices: 48830804--48830837 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
48830794 TTTTTATAAT
48830804 TAAAATATTAA
1 TAAAATATTAA
48830815 TAAAATATCTAAA
1 TAAAATAT-T-AA
48830828 TAAAATATTA
1 TAAAATATTA
48830838 TCACAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATATTAA
Found at i:48834183 original size:23 final size:22
Alignment explanation
Indices: 48834145--48834208 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
48834135 AAAAATTCTA
48834145 TTTTTTATATTTGAAATTTAAT
1 TTTTTTATATTTGAAATTTAAT
48834167 TTTTTTA-ATTTAAGAAATTTAAT
1 TTTTTTATATTT--GAAATTTAAT
* * * *
48834190 CTATTTATTTTTAAAATTT
1 TTTTTTATATTTGAAATTT
48834209 TTAAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.11
22 13 0.37
23 15 0.43
24 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTTTTATATTTGAAATTTAAT
Found at i:48836793 original size:5 final size:5
Alignment explanation
Indices: 48836783--48836807 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48836773 AGGATAACAT
48836783 GTGTG GTGTG GTGTG GTGTG GTGTG
1 GTGTG GTGTG GTGTG GTGTG GTGTG
48836808 AGAATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (5 bp):
GTGTG
Found at i:48853475 original size:32 final size:31
Alignment explanation
Indices: 48853406--48853483 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
48853396 ACTACACTAG
* *
48853406 TAGTCACCTAACTATTAGTAAATTACTTTTT
1 TAGTCACCCAACTATTAATAAATTACTTTTT
* * *
48853437 TGGTCACCCAATTATTAATAAATTGCTTTTTT
1 TAGTCACCCAACTATTAATAAATTAC-TTTTT
*
48853469 TAGTCACTCAACTAT
1 TAGTCACCCAACTAT
48853484 GAAAAGTTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 21 0.55
32 17 0.45
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (31 bp):
TAGTCACCCAACTATTAATAAATTACTTTTT
Found at i:48873984 original size:210 final size:210
Alignment explanation
Indices: 48873433--48874823 Score: 1915
Period size: 210 Copynumber: 6.7 Consensus size: 210
48873423 CTTCATCGGG
* * * *
48873433 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
48873498 ATTTGGCTTTCACGTGTTTACGA-GAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
48873562 GAACGAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
48873625 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
** ** *** * * * * *
48873642 GTGGATCCAAGATG---G-T-TTGGCATC-CT-TATGTTTACAAGGAACAAATCGAATACATAGC
1 GCAGATCCAAGATGACAGATCTTATC-TCTCTGTAT-TCGGCAGGGAGCAGATCGAAGATATAGC
* *
48873700 TGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
48873765 GAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTT
129 GAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTT
48873830 CAGATGTTTACGCTGAA
194 CAGATGTTTACGCTGAA
48873847 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
48873912 ATTTAGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
48873977 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATTTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
*
48874042 GATGTTTATGCTGAA
196 GATGTTTACGCTGAA
* * *
48874057 GTAGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGAGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
48874122 ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
48874187 GAATAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACGTAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
*
48874252 GATGTCTACGCTGAA
196 GATGTTTACGCTGAA
* * *
48874267 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGTAGATCGAAAATATAACTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
48874332 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCGGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
48874397 GAACAAATCGAAGTCTGGCATTTCCAATTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
48874462 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
48874477 ACAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* * *
48874542 ATTTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCATCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * **
48874607 GAACAAATCAAAGTTTGGCATCTT-CACTTTGATGG-AGATCAGACACATAGCAGATCTCGCCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
** *
48874670 TGGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* ** * ** ** *
48874687 GCGGATCCAAGATG---G-T-TTGGCATC-CT-TATGCTTACAATGAGCAAATCG-A-ATCATAG
1 GCAGATCCAAGATGACAGATCTTATC-TCTCTGTATTC-GGCAGGGAGCAGATCGAAGAT-ATAG
* * * * * * *
48874743 TTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATC
63 CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
*
48874808 AGGGAACAAATCGAAG
128 AGAGAACAAATCGAAG
48874824 AAGCTGATTT
Statistics
Matches: 1058, Mismatches: 107, Indels: 39
0.88 0.09 0.03
Matches are distributed among these distances:
203 5 0.00
204 129 0.12
205 140 0.13
206 6 0.01
207 1 0.00
208 1 0.00
209 16 0.02
210 755 0.71
211 5 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:48874971 original size:45 final size:45
Alignment explanation
Indices: 48874917--48875002 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
48874907 GAAGAAGCAA
* *
48874917 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAATAC
1 ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAATAC
* *
48874962 ATTTGGCGTCTTTGTAGTAGACGGGGGGCAGATCAAAGATA
1 ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATA
48875003 GCAGATATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAATAC
Found at i:48876269 original size:39 final size:38
Alignment explanation
Indices: 48876226--48876375 Score: 192
Period size: 39 Copynumber: 3.9 Consensus size: 38
48876216 ATAAAGTATG
* *
48876226 GTTTTAATTAATAATAAAACAAAATAGTATGAAGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGTATG-GGAAGTA
*
48876265 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGTAT-GGGAAGTA
* * *
48876304 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTG
1 GTTTTAATTAACAATAAAACAAAATAGTATGGGAAGTA
* * * *
48876342 GTTTTGATTAATAATAAAACAAAGTAGCATGGGA
1 GTTTTAATTAACAATAAAACAAAATAGTATGGGA
48876376 GGAGTGGAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
38 35 0.35
39 63 0.64
40 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGTATGGGAAGTA
Found at i:48876329 original size:78 final size:77
Alignment explanation
Indices: 48876226--48876374 Score: 208
Period size: 77 Copynumber: 1.9 Consensus size: 77
48876216 ATAAAGTATG
* *
48876226 GTTTTAATTAATAATAAAACAAAATAGTATGAAGAAGTAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-AGAAGTAGTTTTAATTAACAATAAAACAAAATA
*
48876291 GTATGGGGAAATA
65 GCATGGGGAAATA
* * * * * *
48876304 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTGGTTTTGATTAATAATAAAACAAAGTAG
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGAAGTAGTTTTAATTAACAATAAAACAAAATAG
48876369 CATGGG
66 CATGGG
48876375 AGGAGTGGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 33 0.53
78 29 0.47
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.29
Consensus pattern (77 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGAGAAGTAGTTTTAATTAACAATAAAACAAAATAG
CATGGGGAAATA
Found at i:48879499 original size:20 final size:20
Alignment explanation
Indices: 48879457--48879500 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
48879447 GTTCCTATAC
*
48879457 TTTTATTTCTTTATTTTCCT
1 TTTTATTTCTTTATTTTCAT
*
48879477 TTTTTTTTCTTTATCTTT-AT
1 TTTTATTTCTTTAT-TTTCAT
48879497 TTTT
1 TTTT
48879501 CTCTTTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATTTCTTTATTTTCAT
Found at i:48891994 original size:28 final size:28
Alignment explanation
Indices: 48891963--48892020 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48891953 TGAATTATCC
48891963 AAAATTTTGTCATACATTACTTCAATCA
1 AAAATTTTGTCATACATTACTTCAATCA
48891991 AAAATTTTGTCATACATTACTTCAATCA
1 AAAATTTTGTCATACATTACTTCAATCA
48892019 AA
1 AA
48892021 CACTTCGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAATTTTGTCATACATTACTTCAATCA
Found at i:48894866 original size:26 final size:26
Alignment explanation
Indices: 48894830--48894885 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
48894820 TGAAATTCCC
*
48894830 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
48894856 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48894882 ATCA
1 ATCA
48894886 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48916727 original size:5 final size:5
Alignment explanation
Indices: 48916714--48916758 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
48916704 CCGACCCTAT
* * *
48916714 TCTCA TCTCG TCTCA TCTCG TCTCC TCTCG TCATCG TCTCG TCTC
1 TCTCG TCTCG TCTCG TCTCG TCTCG TCTCG TC-TCG TCTCG TCTC
48916759 CCCTTGTCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.07, C:0.42, G:0.11, T:0.40
Consensus pattern (5 bp):
TCTCG
Found at i:48916729 original size:10 final size:10
Alignment explanation
Indices: 48916714--48916758 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
48916704 CCGACCCTAT
48916714 TCTCATCTCG
1 TCTCATCTCG
48916724 TCTCATCTCG
1 TCTCATCTCG
*
48916734 TCTCCTCTCG
1 TCTCATCTCG
*
48916744 TCATCGTCTCG
1 TC-TCATCTCG
48916755 TCTC
1 TCTC
48916759 CCCTTGTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.07, C:0.42, G:0.11, T:0.40
Consensus pattern (10 bp):
TCTCATCTCG
Found at i:48916806 original size:15 final size:15
Alignment explanation
Indices: 48916774--48916805 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48916764 GTCACGCTGC
48916774 TTTCTTTTCTTTCTT
1 TTTCTTTTCTTTCTT
48916789 TTTCTTTTCTTT-TT
1 TTTCTTTTCTTTCTT
48916803 TTT
1 TTT
48916806 TTGTCTCGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTCTTTTCTTTCTT
Found at i:48917055 original size:14 final size:14
Alignment explanation
Indices: 48917036--48917062 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48917026 GCCTATTCAA
48917036 TAATAATCCATAAC
1 TAATAATCCATAAC
48917050 TAATAATCCATAA
1 TAATAATCCATAA
48917063 GCCTAATCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAATCCATAAC
Found at i:48917542 original size:20 final size:20
Alignment explanation
Indices: 48917517--48917559 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
48917507 AGCATGCTTT
*
48917517 AATACTTAAGTCATTAGTTG
1 AATACTTAAATCATTAGTTG
48917537 AATACTTAAATCATTAGTTG
1 AATACTTAAATCATTAGTTG
48917557 AAT
1 AAT
48917560 GATAGAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (20 bp):
AATACTTAAATCATTAGTTG
Found at i:48927733 original size:16 final size:17
Alignment explanation
Indices: 48927696--48927736 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
48927686 TTTCCATTTA
*
48927696 TCTATTTTTTCATCCCT
1 TCTAATTTTTCATCCCT
*
48927713 T-TAATTTTTCAT-CTT
1 TCTAATTTTTCATCCCT
48927728 TCTAATTTT
1 TCTAATTTT
48927737 CTTTTCACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTAATTTTTCATCCCT
Found at i:48930801 original size:24 final size:24
Alignment explanation
Indices: 48930769--48930820 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
48930759 TAATTTATAT
*
48930769 TTTATATATCATTGT-ATTAAATTA
1 TTTAAATATCATT-TAATTAAATTA
48930793 TTTAAATATCATTTAAATTAAATTA
1 TTTAAATATCATTT-AATTAAATTA
48930818 TTT
1 TTT
48930821 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 12 0.48
25 12 0.48
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTAAATATCATTTAATTAAATTA
Found at i:48931712 original size:17 final size:18
Alignment explanation
Indices: 48931676--48931715 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
48931666 AAAATATGTA
*
48931676 TTTATTTGTAAATGTTTT
1 TTTATTTGTAAATGTATT
*
48931694 TTTATTT-TATATGTATT
1 TTTATTTGTAAATGTATT
48931711 TTTAT
1 TTTAT
48931716 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTATTTGTAAATGTATT
Found at i:48932995 original size:18 final size:18
Alignment explanation
Indices: 48932962--48933001 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48932952 TAAAAAAATC
*
48932962 ATATTTTTTATATTTAAT
1 ATATTTTTTATATTTAAA
48932980 ATATTTTTTA-ATTTTAAA
1 ATATTTTTTATA-TTTAAA
48932998 ATAT
1 ATAT
48933002 ATAATGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTTTATATTTAAA
Found at i:48933955 original size:22 final size:22
Alignment explanation
Indices: 48933930--48934021 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
48933920 AAATTCAATA
* *
48933930 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
48933952 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
48933974 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
48933995 ATCAATTTCCTTCTAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
48934018 TCAA
1 TCAA
48934022 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:48934037 original size:52 final size:51
Alignment explanation
Indices: 48933971--48934073 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
48933961 TTCAAAATTT
* *
48933971 CTCTCAATTCCCTTC-AAAATTTCC-ATCAATTTCCTTCTAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCGAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
48934023 CTCTCAAATT-CCTTCGAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCGAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
48934074 TCCATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 30 0.67
53 8 0.18
ACGTcount: A:0.33, C:0.31, G:0.01, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCGAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:48934051 original size:22 final size:22
Alignment explanation
Indices: 48934023--48934064 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48934013 TTCTCTCAAA
*
48934023 CTCTCAAATTCCTTCGAAAATC
1 CTCTCAAATTCCTTCAAAAATC
*
48934045 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
48934065 ATCTCCAAAT
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:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:48934312 original size:24 final size:23
Alignment explanation
Indices: 48934257--48934312 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
48934247 TAAATTTTAA
*
48934257 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
48934280 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
48934306 ATTTTTT
1 ATTTTTT
48934313 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:48936464 original size:17 final size:18
Alignment explanation
Indices: 48936442--48936476 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48936432 TAAAATCCCT
48936442 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
48936459 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
48936477 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:48936526 original size:24 final size:23
Alignment explanation
Indices: 48936430--48936518 Score: 117
Period size: 23 Copynumber: 3.8 Consensus size: 23
48936420 ACATTATTTG
*
48936430 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTACTTA
** *
48936453 ATTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTACTT-A
48936476 ATTAAAAACCCTAAACCCTACTTA
1 ATTAAAAACCCT-AACCCTACTTA
48936500 ATTAAAAACCCTAACCCTA
1 ATTAAAAACCCTAACCCTA
48936519 ACCTAATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 4 0.07
23 33 0.59
24 15 0.27
25 4 0.07
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTACTTA
Found at i:48936544 original size:28 final size:28
Alignment explanation
Indices: 48936462--48936776 Score: 281
Period size: 28 Copynumber: 11.5 Consensus size: 28
48936452 AATTAAAAAC
*
48936462 CCTAATTTAATTAAATTAAAAACCCTAAA
1 CCTAACTTAATTAAATTAAAAACCCT-AA
*
48936491 CCCT-ACTTAATTAAA--AACCCTAACCCTAA
1 -CCTAACTTAATTAAATTAA---AAACCCTAA
*
48936520 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
48936548 CCTAACCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAA-C----TTAATTAAATTAAAAACCCTAA
* * *
48936581 CCTAACCTAATTTAATTAAAAACCTTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
* *
48936609 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACTTAATTAAATTAAAAACCCTAA
*
48936632 CCTAACTTAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
* *
48936660 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
48936688 CCTAA--T--TT-AATTAAAAACCCTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
48936711 CCT-AC----TTAAATTAAAAACCCTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
* *
48936734 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACTTAATTAAATTAAAAACCCTAA
48936762 CCT-ACTTAAATTAAA
1 CCTAACTT-AATTAAA
48936777 ACCCTAATTA
Statistics
Matches: 247, Mismatches: 14, Indels: 50
0.79 0.05 0.16
Matches are distributed among these distances:
22 3 0.01
23 57 0.23
24 4 0.02
25 1 0.00
26 1 0.00
27 5 0.02
28 115 0.47
29 22 0.09
30 9 0.04
31 2 0.01
32 1 0.00
33 27 0.11
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (28 bp):
CCTAACTTAATTAAATTAAAAACCCTAA
Found at i:48936557 original size:33 final size:33
Alignment explanation
Indices: 48936499--48936628 Score: 207
Period size: 33 Copynumber: 4.1 Consensus size: 33
48936489 AACCCTACTT
48936499 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAATTA
48936533 AATTAAAAACCCTAACCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAACCTAATTTAATTA
48936566 AATTAAAAACCCTAACCTAACCTAA--T--TT-
1 AATTAAAAACCCTAACCTAACCTAATTTAATTA
*
48936594 AATTAAAAACCTTAACCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAACCTAATTTAATTA
48936627 AA
1 AA
48936629 AACCCTAACT
Statistics
Matches: 90, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
28 24 0.27
29 2 0.02
30 1 0.01
31 1 0.01
32 2 0.02
33 45 0.50
34 15 0.17
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (33 bp):
AATTAAAAACCCTAACCTAACCTAATTTAATTA
Found at i:48936579 original size:23 final size:23
Alignment explanation
Indices: 48936579--48936783 Score: 216
Period size: 23 Copynumber: 8.3 Consensus size: 23
48936569 TAAAAACCCT
48936579 AACC-TAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
48936601 AACCTTAACCTAACCTAATTTAATTAAA
1 AA-C----CCTAACCTAATTTAATTAAA
*
48936629 AACCCTAACTTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
48936652 AACCCTAACCTAACCTAATTTAATTAAA
1 AA--C---CCTAACCTAATTTAATTAAA
48936680 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
48936703 AACCCTAACCTACTTAAATTAAA
1 AACCCTAACCTAATTTAATTAAA
48936726 AACCCTAACCTAACCTAATTTAATTAAA
1 AA--C---CCTAACCTAATTTAATTAAA
* *
48936754 AACCCTAACCTACTTAAATT-AA
1 AACCCTAACCTAATTTAATTAAA
48936776 AACCCTAA
1 AACCCTAA
48936784 TTAAATTGTA
Statistics
Matches: 159, Mismatches: 8, Indels: 32
0.80 0.04 0.16
Matches are distributed among these distances:
22 12 0.08
23 80 0.50
25 2 0.01
26 2 0.01
27 2 0.01
28 61 0.38
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:48936661 original size:51 final size:51
Alignment explanation
Indices: 48936520--48936765 Score: 277
Period size: 51 Copynumber: 4.6 Consensus size: 51
48936510 CTAACCCTAA
* *
48936520 CCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAACCCTAACCTAACCTAA--T--TT-AATTAAAAAC
*
48936576 CCTAACCTAACCTAATTTAATTAAAAACCTTAACCTAACCTAATTTAATTAAAAAC
1 CCTAA-CT----TAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
48936632 CCTAACTTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
* *
48936683 CCTAACCTAATTTAATTAAAAACCCTAACCT-A-C---TTAAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
48936729 CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTA
1 CCTAA-CT----TAATTTAATTAAAAACCCTAACCTA
48936766 CTTAAATTAA
Statistics
Matches: 172, Mismatches: 7, Indels: 26
0.84 0.03 0.13
Matches are distributed among these distances:
46 17 0.10
47 1 0.01
49 1 0.01
50 1 0.01
51 97 0.56
55 2 0.01
56 20 0.12
57 3 0.02
59 1 0.01
61 29 0.17
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (51 bp):
CCTAACTTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
Found at i:48940117 original size:85 final size:86
Alignment explanation
Indices: 48939923--48940128 Score: 378
Period size: 85 Copynumber: 2.4 Consensus size: 86
48939913 CAAACTTGCT
*
48939923 ACTGTAGCGAAATCGCATCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
48939988 AAATTATTTCCTACATGACCA
66 AAATTATTTCCTACATGACCA
*
48940009 ACTGTAGCGAAATCACGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
48940073 AAATTATTTCCTACATGACCA
66 AAATTATTTCCTACATGACCA
*
48940094 ACTGTAGCGAAATCGCGTCCACGAGGGCGCAATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
48940129 CACAATTTCT
Statistics
Matches: 116, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 60 0.52
86 56 0.48
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (86 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
AAATTATTTCCTACATGACCA
Found at i:48940262 original size:124 final size:125
Alignment explanation
Indices: 48940037--48940317 Score: 365
Period size: 124 Copynumber: 2.3 Consensus size: 125
48940027 CCACGAGGGC
*
48940037 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * * * *
48940102 GAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAA
66 AAAATCACGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTAGTAT-AA
* *
48940163 -CGATTTTATACTATTTCCTCAGAAAACGTC-AAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
48940224 GCAAAATCACGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTATAA
64 GCAAAATCACGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTAGTATAA
** *
48940286 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTGACACTATTT-CCTCAGAAACGTCAA
48940318 CTCGAAAATT
Statistics
Matches: 135, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
123 9 0.07
124 77 0.57
125 42 0.31
126 7 0.05
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
AAAATCACGTCCACGAGGCCACAATTTCACAATTTCTTCTCAAATAGCATCCTAGTATAA
Found at i:48941910 original size:20 final size:20
Alignment explanation
Indices: 48941885--48941935 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
48941875 AAAATATTAA
48941885 AATAATATTTTTACAT-TTTT
1 AATAATATTTTTA-ATATTTT
48941905 AAT-A-ATTTTTAATATTTT
1 AATAATATTTTTAATATTTT
*
48941923 AAAAATAGTTTTT
1 AATAATA-TTTTT
48941936 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 2 0.08
20 4 0.15
21 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
AATAATATTTTTAATATTTT
Found at i:48954028 original size:14 final size:14
Alignment explanation
Indices: 48953992--48954025 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
48953982 TCATCATTTG
48953992 CCTATAACCAAAAC
1 CCTATAACCAAAAC
48954006 CCTATAACCAAAAC
1 CCTATAACCAAAAC
48954020 CC-ATAA
1 CCTATAA
48954026 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:48956318 original size:60 final size:60
Alignment explanation
Indices: 48956251--48956371 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
48956241 TAATGCATAC
48956251 TATCTATTATTTAATATATAATAAAACCTTCTAAAGAGTATGTTGGTAAGAAAAATAATT
1 TATCTATTATTTAATATATAATAAAACCTTCTAAAGAGTATGTTGGTAAGAAAAATAATT
48956311 TATCTATTATTTAATATATAATAAAACCTTCTAAAGAGTATGTTGGTAAGAAAAATAATT
1 TATCTATTATTTAATATATAATAAAACCTTCTAAAGAGTATGTTGGTAAGAAAAATAATT
48956371 T
1 T
48956372 TGAGCTATTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.39
Consensus pattern (60 bp):
TATCTATTATTTAATATATAATAAAACCTTCTAAAGAGTATGTTGGTAAGAAAAATAATT
Found at i:48957373 original size:26 final size:26
Alignment explanation
Indices: 48957337--48957389 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48957327 CCCATAGACA
48957337 ACACCTATTATTATAACAATTAAGTT
1 ACACCTATTATTATAACAATTAAGTT
48957363 ACACCTATTATTATAACAATTAAGTT
1 ACACCTATTATTATAACAATTAAGTT
48957389 A
1 A
48957390 TACAAAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (26 bp):
ACACCTATTATTATAACAATTAAGTT
Found at i:48960818 original size:19 final size:17
Alignment explanation
Indices: 48960781--48960829 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 17
48960771 TAAAAACTTT
48960781 AAATTTATAAAATATTAA
1 AAATTTA-AAAATATTAA
48960799 AAATTTAAAAATACATTAA
1 AAATTTAAAAAT--ATTAA
48960818 AAATTTTAAAAA
1 AAA-TTTAAAAA
48960830 ATATAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 8 0.29
20 8 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTTAAAAATATTAA
Found at i:48964896 original size:30 final size:29
Alignment explanation
Indices: 48964862--48965023 Score: 227
Period size: 30 Copynumber: 5.4 Consensus size: 29
48964852 TATATATTTC
48964862 CGAATTGATTTGTATATAGATATACATTG
1 CGAATTGATTTGTATATAGATATACATTG
*
48964891 TCGAATTGATTTGTATATGGATATACATTG
1 -CGAATTGATTTGTATATAGATATACATTG
*
48964921 TCGAATTGATTTGTATATGGATATACATTG
1 -CGAATTGATTTGTATATAGATATACATTG
*
48964951 CTGAATTGATTTGTATATAGATACACATTG
1 C-GAATTGATTTGTATATAGATATACATTG
*
48964981 CCGAATTGATTTGTATAT-GTATATATATTG
1 -CGAATTGATTTGTATATAG-ATATACATTG
48965011 CTGAATTGATTTG
1 C-GAATTGATTTG
48965024 AGCATTGGAT
Statistics
Matches: 123, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
29 3 0.02
30 119 0.97
31 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (29 bp):
CGAATTGATTTGTATATAGATATACATTG
Found at i:48971053 original size:19 final size:19
Alignment explanation
Indices: 48971029--48971067 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48971019 ATTCATGATG
48971029 ATTGATTAATTTAATTTTT
1 ATTGATTAATTTAATTTTT
48971048 ATTGATTAATTTAATTTTT
1 ATTGATTAATTTAATTTTT
48971067 A
1 A
48971068 CTTTGAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTGATTAATTTAATTTTT
Found at i:48973858 original size:25 final size:25
Alignment explanation
Indices: 48973828--48973918 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
48973818 TGTCAACAGT
* *
48973828 AAGCTCTTCCGAGCTAAATAACGGG
1 AAGCTCATGCGAGCTAAATAACGGG
*
48973853 AAGCTCATGCGAGCTAAATAACTGG
1 AAGCTCATGCGAGCTAAATAACGGG
* * **
48973878 AAGCTCTTGCGAACTGTATAACGGG
1 AAGCTCATGCGAGCTAAATAACGGG
*
48973903 ACGCTCATGCGAGCTA
1 AAGCTCATGCGAGCTA
48973919 TGGTGTGTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
AAGCTCATGCGAGCTAAATAACGGG
Done.