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 163 of 196
Found at i:47857994 original size:53 final size:53
Alignment explanation
Indices: 47857922--47858031 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
47857912 TTACATATAT
47857922 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
1 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
47857975 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
1 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
47858028 TGAT
1 TGAT
47858032 TTATTTATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (53 bp):
TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
Found at i:47859794 original size:18 final size:17
Alignment explanation
Indices: 47859758--47859809 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
47859748 TTAACATTAA
**
47859758 TAAATTTATAT-TTATT
1 TAAATTTATATAAAATT
*
47859774 TAATTTTAATATAAAATT
1 TAAATTT-ATATAAAATT
*
47859792 TAAATTTATATAATATT
1 TAAATTTATATAAAATT
47859809 T
1 T
47859810 CTAAATTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 14 0.48
18 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATATAAAATT
Found at i:47876333 original size:8 final size:8
Alignment explanation
Indices: 47876320--47876348 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
47876310 TTAATTTAAA
47876320 AAAATAAT
1 AAAATAAT
47876328 AAAATAAT
1 AAAATAAT
47876336 AAAATAAT
1 AAAATAAT
47876344 AAAAT
1 AAAAT
47876349 TAGAAAAAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATAAT
Found at i:47876355 original size:16 final size:16
Alignment explanation
Indices: 47876320--47876359 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
47876310 TTAATTTAAA
*
47876320 AAAATAATAAAATAAT
1 AAAATAATAAAATAAG
*
47876336 AAAATAATAAAATTAG
1 AAAATAATAAAATAAG
47876352 AAAA-AATA
1 AAAATAATA
47876360 CAAAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAATAAAATAAG
Found at i:47876418 original size:29 final size:29
Alignment explanation
Indices: 47876384--47876481 Score: 142
Period size: 29 Copynumber: 3.4 Consensus size: 29
47876374 TACATCTTGG
47876384 CCCTAACTTTTTATTATTTACATTTTGAC
1 CCCTAACTTTTTATTATTTACATTTTGAC
47876413 CCCTAACTTTTTATTATTTACATTTTGAC
1 CCCTAACTTTTTATTATTTACATTTTGAC
* * * * *
47876442 CCTTAACATTTTACTATTTATATTTTGGC
1 CCCTAACTTTTTATTATTTACATTTTGAC
*
47876471 CCTTAACTTTT
1 CCCTAACTTTT
47876482 CCTAAAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.23, C:0.20, G:0.04, T:0.52
Consensus pattern (29 bp):
CCCTAACTTTTTATTATTTACATTTTGAC
Found at i:47876467 original size:58 final size:57
Alignment explanation
Indices: 47876373--47876481 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 57
47876363 AAATTACTAA
* * *
47876373 TTACATCTTGGCCCTAACTTTTTATTATTTACATTTTGACCCCTAACTTTTTATTAT
1 TTACATCTTGACCCTAACATTTTACTATTTACATTTTGACCCCTAACTTTTTATTAT
* * * *
47876430 TTACATTTTGACCCTTAACATTTTACTATTTATATTTTGGCCCTTAACTTTT
1 TTACATCTTGACCC-TAACATTTTACTATTTACATTTTGACCCCTAACTTTT
47876482 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 12 0.27
58 32 0.73
ACGTcount: A:0.23, C:0.20, G:0.06, T:0.51
Consensus pattern (57 bp):
TTACATCTTGACCCTAACATTTTACTATTTACATTTTGACCCCTAACTTTTTATTAT
Found at i:47876495 original size:30 final size:29
Alignment explanation
Indices: 47876366--47876512 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 29
47876356 AATACAAAAA
* * * *
47876366 TTACTAATTACATCTTGGCCC-TAACTTT
1 TTACTAATTATATTTTGACCCTTAACATT
* * * * *
47876394 TTATTATTTACATTTTGACCCCTAACTTT
1 TTACTAATTATATTTTGACCCTTAACATT
* * *
47876423 TTATTATTTACATTTTGACCCTTAACATT
1 TTACTAATTATATTTTGACCCTTAACATT
* *
47876452 TTACTATTTATATTTTGGCCCTTAAC-TT
1 TTACTAATTATATTTTGACCCTTAACATT
*
47876480 TTCCTAAAATTATATTTTGACCC-TAGACATT
1 TTACT--AATTATATTTTGACCCTTA-ACATT
47876511 TT
1 TT
47876513 GCATCCTCTC
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.23
29 59 0.58
30 16 0.16
31 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (29 bp):
TTACTAATTATATTTTGACCCTTAACATT
Found at i:47877060 original size:5 final size:5
Alignment explanation
Indices: 47877052--47877097 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
47877042 ACAACAAAAC
* *
47877052 AGAAA AGAAGA A-AGA AGAGA AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAA-A AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
47877098 AAGAAGACGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 2 0.05
5 33 0.89
6 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:47877219 original size:9 final size:10
Alignment explanation
Indices: 47877198--47877243 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
47877188 AGGGCTAGAG
47877198 AGAAAAAGAA
1 AGAAAAAGAA
47877208 AGAAAAAG-A
1 AGAAAAAGAA
*
47877217 AGAAAGAAAAA
1 AGAAA-AAGAA
47877228 AGAAAAA-AA
1 AGAAAAAGAA
*
47877237 ATAAAAA
1 AGAAAAA
47877244 TAAAAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 14 0.44
10 12 0.38
11 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:47877221 original size:13 final size:13
Alignment explanation
Indices: 47877203--47877227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47877193 TAGAGAGAAA
47877203 AAGAAAGAAAAAG
1 AAGAAAGAAAAAG
47877216 AAGAAAGAAAAA
1 AAGAAAGAAAAA
47877228 AGAAAAAAAA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAG
Found at i:47877232 original size:7 final size:7
Alignment explanation
Indices: 47877206--47877253 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
47877196 AGAGAAAAAG
47877206 AAAG-AA
1 AAAGAAA
*
47877212 AAAGAAG
1 AAAGAAA
47877219 AAAGAAA
1 AAAGAAA
47877226 AAAGAAA
1 AAAGAAA
*
47877233 AAAAATAA
1 AAAGA-AA
*
47877241 AAATAAA
1 AAAGAAA
47877248 AAAGAA
1 AAAGAA
47877254 TAGTCGGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
6 4 0.11
7 25 0.71
8 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:47877526 original size:16 final size:17
Alignment explanation
Indices: 47877499--47877530 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47877489 AGCCCAAAAT
47877499 AAAAAGAGAAAAAGAAG
1 AAAAAGAGAAAAAGAAG
47877516 AAAAAGA-AAAAAGAA
1 AAAAAGAGAAAAAGAA
47877531 AAGTCCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAAGAAG
Found at i:47880305 original size:41 final size:41
Alignment explanation
Indices: 47880260--47880439 Score: 279
Period size: 41 Copynumber: 4.4 Consensus size: 41
47880250 GGCTCGATGC
* *
47880260 CTAGCAGGTTTAATGCTGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* * *
47880301 CTAGCAGGCTTAATGCCAGTGAGTTATTTCAGGCTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* *
47880342 CTAGTAGGTTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
47880383 CTAACAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
47880424 CTAGCAGGCTTCATGC
1 CTAGCAGGCTTAATGC
47880440 TAGTGTATTA
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
Found at i:47880461 original size:82 final size:82
Alignment explanation
Indices: 47880260--47880475 Score: 229
Period size: 82 Copynumber: 2.6 Consensus size: 82
47880250 GGCTCGATGC
* ** ** * *
47880260 CTAGCAGGTTTAATGCTGGTGAATTATTTCAGACTTTATGTCTAGCAGGCTTAATGCCAGTGAGT
1 CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
*
47880325 TATTTCAGGCTTTATGT
66 TATTTCAGACTTTATGT
* * * ** *
47880342 CTAGTAGGTTTAATGCCGGTGAATTATTTCAGACTTTATGTCTAACAGGCTTAATGCCGGTGAAT
1 CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
47880407 TATTTCAGACTTTATGT
66 TATTTCAGACTTTATGT
* * * * *
47880424 CTAGCAGGCTTCATGCTAGTGTATTAAAGT-AGGCTTTA-GACCTAACAGGCTT
1 CTAGCAGGCTTAATGCCAGTGAATT-AAGTCAGACTTTATG-TCTAACAGGCTT
47880476 CGTGTCGGTG
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 113 0.97
83 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (82 bp):
CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
TATTTCAGACTTTATGT
Found at i:47888830 original size:12 final size:12
Alignment explanation
Indices: 47888808--47888841 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
47888798 AAAATATACA
47888808 ACTCT-TTTCTT
1 ACTCTATTTCTT
47888819 ACTCTATTTCTT
1 ACTCTATTTCTT
*
47888831 ACTCAATTTCT
1 ACTCTATTTCT
47888842 ATCATTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (12 bp):
ACTCTATTTCTT
Found at i:47889635 original size:46 final size:45
Alignment explanation
Indices: 47889558--47889743 Score: 309
Period size: 46 Copynumber: 4.1 Consensus size: 45
47889548 CATTGCTATA
* *
47889558 ACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAAC
1 ACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTC-AC
*
47889604 ACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCATA
1 ACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCA-C
*
47889650 ACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 ACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
47889695 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 -ACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
47889741 ACT
1 ACT
47889744 TTTCCATGGA
Statistics
Matches: 132, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
45 4 0.03
46 128 0.97
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (45 bp):
ACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:47890971 original size:17 final size:16
Alignment explanation
Indices: 47890924--47890965 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
47890914 TTTTAAATCG
*
47890924 CAAAAATTCACTAAAT
1 CAAAAATTCACTAATT
47890940 CATAAAATTCACTAATT
1 CA-AAAATTCACTAATT
47890957 CAAAAATTC
1 CAAAAATTC
47890966 TTCTAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
CAAAAATTCACTAATT
Found at i:47900072 original size:76 final size:76
Alignment explanation
Indices: 47899869--47900463 Score: 759
Period size: 76 Copynumber: 7.8 Consensus size: 76
47899859 ATTGTTTTCT
* *
47899869 TTTTTCGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCGGGTCGCACGTCGA
1 TTTTT-GTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
47899934 GGTATTTTCCAA
65 GGTATTTTCCAA
* * * * *
47899946 TTTCT-TTTTTCAAAAAAATTAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGAT-GTACGCC
1 TTTTTGTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG-TCGCACGCC
47900009 GAGGTATTTTCCAA
63 GAGGTATTTTCCAA
* * ** *
47900023 TTTTTGTTTTTTAAAGATCAACTCATAATCCGATAATTGAGTTGAGCCTCAGGTCGCACGCCGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
47900088 TTA-TTTCCAA
66 GTATTTTCCAA
* * * *
47900098 TTTCTATTTTTCAAAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
1 TTTTTGTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
47900163 AGGTATTTTCCAA
64 AGGTATTTTCCAA
* * * *
47900176 TTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGAGAGTTGAGCCTCAGTTCGCACGCCGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
47900241 TTATTTT-CAA
66 GTATTTTCCAA
* * * * *
47900251 TTTCTATTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCACGGCAAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
47900316 GTACTTTCCAA
66 GTATTTTCCAA
* * * * * * *
47900327 TTTCTGTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTAAGCTTTGGGTCGCACACTGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
47900392 CTATTTT-CAA
66 GTATTTTCCAA
* *
47900402 TTTTTGTTTTTCAAAGGTCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCC
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCC
47900464 AATATATTTT
Statistics
Matches: 442, Mismatches: 67, Indels: 20
0.84 0.13 0.04
Matches are distributed among these distances:
75 143 0.32
76 163 0.37
77 113 0.26
78 23 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (76 bp):
TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
GTATTTTCCAA
Found at i:47900340 original size:151 final size:152
Alignment explanation
Indices: 47899871--47900463 Score: 791
Period size: 153 Copynumber: 3.9 Consensus size: 152
47899861 TGTTTTCTTT
* *
47899871 TTTC-GTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCGGGTCGCACGTCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * *
47899935 GTATTTTCCAATTTCT-TTTTTCAAAAAAATTAACTCATAATCCGAGAAGTGAGTTGAGCCTCGG
66 TTATTTT-CAATTTCTATTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGG
*
47899999 GAT-GTACGCCGAGGTATTTTCCAA
129 G-TCGCACGCCGAGGTATTTTCCAA
* * * ** *
47900023 TTTTTGTTTTTTAAAGATCAACTCATAATCCGATAATTGAGTTGAGCCTCAGGTCGCACGCCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* *
47900088 TTATTTCCAATTTCTATTTTTCAAAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGG
66 TTATTTTCAATTTCTATTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG
47900153 TCGCACGCCGAGGTATTTTCCAA
130 TCGCACGCCGAGGTATTTTCCAA
* * * * *
47900176 TTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGAGAGTTGAGCCTCAGTTCGCACGCCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* *
47900241 TTATTTTCAATTTCTATTTTTC-AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGT
66 TTATTTTCAATTTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
* * *
47900305 CGCACGGCAAGGTACTTTCCAA
131 CGCACGCCGAGGTATTTTCCAA
* * ** * *
47900327 TTTCTGTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTAAGCTTTGGGTCGCACACTGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * * ** *
47900392 CTATTTTCAATTTTTGTTTTTC-AAAGGTCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGT
66 TTATTTTCAATTTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
47900456 CGCACGCC
131 CGCACGCC
47900464 AATATATTTT
Statistics
Matches: 392, Mismatches: 46, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
151 177 0.45
152 12 0.03
153 203 0.52
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (152 bp):
TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
TTATTTTCAATTTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
CGCACGCCGAGGTATTTTCCAA
Found at i:47900984 original size:23 final size:23
Alignment explanation
Indices: 47900958--47901002 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
47900948 TAGGGATTTG
*
47900958 GCCCATTAGTGTTTTTGTTTTTA
1 GCCCATTAGTATTTTTGTTTTTA
47900981 GCCCATTAGTATTTTTGTTTTT
1 GCCCATTAGTATTTTTGTTTTT
47901003 GTTTTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (23 bp):
GCCCATTAGTATTTTTGTTTTTA
Found at i:47901113 original size:29 final size:29
Alignment explanation
Indices: 47901069--47901149 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
47901059 AATACAAAAA
* *
47901069 TTTACTAATTATATTTTTACCCTTAACTT
1 TTTACTATTTATATTTTGACCCTTAACTT
* *
47901098 TTTACTATTTACATTTTGACCCTTAATTT
1 TTTACTATTTATATTTTGACCCTTAACTT
* *
47901127 TTTACAATTTATATTTTGGCCCT
1 TTTACTATTTATATTTTGACCCT
47901150 CAAGTTTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.25, C:0.17, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTACTATTTATATTTTGACCCTTAACTT
Found at i:47901889 original size:7 final size:7
Alignment explanation
Indices: 47901872--47901905 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
47901862 AAGTAGATAT
47901872 AAAAAAG
1 AAAAAAG
47901879 -AAAAAG
1 AAAAAAG
47901885 AAAAAAG
1 AAAAAAG
47901892 AAAAAAAG
1 -AAAAAAG
47901900 AAAAAA
1 AAAAAA
47901906 AAATAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:47901904 original size:9 final size:8
Alignment explanation
Indices: 47901879--47901917 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
47901869 TATAAAAAAG
47901879 AAAAAG-A
1 AAAAAGAA
47901886 AAAAAGAA
1 AAAAAGAA
47901894 AAAAAGAA
1 AAAAAGAA
47901902 AAAAA-AA
1 AAAAAGAA
47901909 TAAAAAGAA
1 -AAAAAGAA
47901918 TCAGCCGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 8 0.28
8 19 0.66
9 2 0.07
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:47903251 original size:3 final size:3
Alignment explanation
Indices: 47903243--47903276 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
47903233 GAAAGAGAGA
47903243 AAG AAG AAG AA- AAG AAG -AG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
47903277 GAGAGGGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47903256 original size:11 final size:11
Alignment explanation
Indices: 47903242--47903275 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
47903232 CGAAAGAGAG
47903242 AAAGAAGAAGA
1 AAAGAAGAAGA
47903253 AAAGAAG-AGA
1 AAAGAAGAAGA
47903263 AGAAGAAGAAGA
1 A-AAGAAGAAGA
47903275 A
1 A
47903276 GGAGAGGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 13 0.62
12 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAGA
Found at i:47903265 original size:19 final size:19
Alignment explanation
Indices: 47903234--47903272 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47903224 CCCCTAGCCG
47903234 AAAGAGAGAAAGAAGAAGA
1 AAAGAGAGAAAGAAGAAGA
47903253 AAAGA-AGAGAAGAAGAAGA
1 AAAGAGAGA-AAGAAGAAGA
47903272 A
1 A
47903273 GAAGGAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAGAGAGAAAGAAGAAGA
Found at i:47903310 original size:4 final size:4
Alignment explanation
Indices: 47903301--47903333 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
47903291 GGAAGGGAAT
47903301 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
47903334 GCAAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:47910207 original size:12 final size:12
Alignment explanation
Indices: 47910188--47910218 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47910178 ATTCTATTTG
47910188 AAAATAACAATA
1 AAAATAACAATA
*
47910200 ACAATAACAATA
1 AAAATAACAATA
47910212 AAAATAA
1 AAAATAA
47910219 ATTTTCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAACAATA
Found at i:47910240 original size:15 final size:15
Alignment explanation
Indices: 47910220--47910248 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47910210 TAAAAATAAA
47910220 TTTTCTTTCTTTCTC
1 TTTTCTTTCTTTCTC
47910235 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
47910249 TCTCTTCTCT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTTCTTTCTC
Found at i:47910267 original size:23 final size:19
Alignment explanation
Indices: 47910221--47910268 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
47910211 AAAAATAAAT
*
47910221 TTTCTTTCTTTCTCTTTTC
1 TTTCTTTCTTTCTCTTCTC
47910240 TTTCTTTC-TTCTCTTCTC
1 TTTCTTTCTTTCTCTTCTC
*
47910258 TCTCTCTTCTT
1 TTTCT-TTCTT
47910269 CTGCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.52
19 11 0.44
20 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTCTTTCTCTTCTC
Found at i:47915430 original size:16 final size:17
Alignment explanation
Indices: 47915405--47915436 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47915395 CAAAAATTAT
47915405 AAAAATATTATAAAAAC
1 AAAAATATTATAAAAAC
47915422 AAAAA-ATTATAAAAA
1 AAAAATATTATAAAAA
47915437 AATTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATATTATAAAAAC
Found at i:47915452 original size:27 final size:27
Alignment explanation
Indices: 47915366--47915452 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
47915356 TCAAAACAAA
**
47915366 GAAAAAATATT-T-AAAAAATTATTTTTT
1 GAAAAAA-ATTATAAAAAAATTA-TAATT
* * *
47915393 GACAAAAATTATAAAAATATTATAA-A
1 GAAAAAAATTATAAAAAAATTATAATT
*
47915419 AACAAAAAATTATAAAAAAATTATAATT
1 GA-AAAAAATTATAAAAAAATTATAATT
47915447 GAAAAA
1 GAAAAA
47915453 TCGAAGCATA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
26 4 0.09
27 33 0.72
28 9 0.20
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (27 bp):
GAAAAAAATTATAAAAAAATTATAATT
Found at i:47917362 original size:23 final size:22
Alignment explanation
Indices: 47917326--47917382 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
47917316 ACTTAAGAGT
47917326 AATTAAAATAATTAAATTCAAAAA
1 AATT-AAATAATTAAATT-AAAAA
* *
47917350 AATTAAATGATTAAATTTAAAA
1 AATTAAATAATTAAATTAAAAA
47917372 AATT-AATAATT
1 AATTAAATAATT
47917383 GAGTGAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
23 12 0.40
24 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AATTAAATAATTAAATTAAAAA
Found at i:47919192 original size:19 final size:21
Alignment explanation
Indices: 47919165--47919205 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
47919155 CGAACACGCC
*
47919165 AACATAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
47919184 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
47919205 A
1 A
47919206 TCCATCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:47920909 original size:39 final size:40
Alignment explanation
Indices: 47920850--47920939 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
47920840 AAAAATTATA
* * * * *
47920850 TTTAATACAATAAAGCATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAATAAAACATTTATTATACTTATGTAGTATTT
*
47920889 TTTAATATAATAAAATATTTATTATACTTATGGTAGTATTT
1 TTTAATATAATAAAACATTTATTATACTTAT-GTAGTATTT
47920930 TTTAATATAA
1 TTTAATATAA
47920940 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 27 0.63
41 16 0.37
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTATACTTATGTAGTATTT
Found at i:47921942 original size:2 final size:2
Alignment explanation
Indices: 47921937--47921963 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47921927 AAAAACCCCA
47921937 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
47921964 ATATTCAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:47927004 original size:30 final size:31
Alignment explanation
Indices: 47926970--47927030 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
47926960 ATTAAAATAT
**
47926970 TATTATAA-AAGGATTGTAAAGTTGATTTGC
1 TATTATAAGAAGGATTACAAAGTTGATTTGC
*
47927000 TATTATAATGAAGGATTACAAAGTTGGTTTG
1 TATTATAA-GAAGGATTACAAAGTTGATTTG
47927031 TGCTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
32 18 0.69
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (31 bp):
TATTATAAGAAGGATTACAAAGTTGATTTGC
Found at i:47935731 original size:23 final size:22
Alignment explanation
Indices: 47935686--47935732 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
47935676 CGAAAATATA
*
47935686 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
47935708 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
47935730 TTA
1 TTA
47935733 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:47935792 original size:16 final size:16
Alignment explanation
Indices: 47935771--47935842 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 16
47935761 ATTTTGTTAC
47935771 AACAATTAATATAATT
1 AACAATTAATATAATT
*
47935787 AACAATTAATA-ATTT
1 AACAATTAATATAATT
* * * * *
47935802 GA-TA-TAATTTTACT
1 AACAATTAATATAATT
*
47935816 AACAATTAATACAATT
1 AACAATTAATATAATT
47935832 AACAATTAATA
1 AACAATTAATA
47935843 ATTTTACTAA
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
13 4 0.10
14 3 0.08
15 5 0.12
16 28 0.70
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (16 bp):
AACAATTAATATAATT
Found at i:47935847 original size:35 final size:35
Alignment explanation
Indices: 47935805--47935927 Score: 149
Period size: 35 Copynumber: 3.3 Consensus size: 35
47935795 ATAATTTGAT
*
47935805 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAGTACAATTAACAATTA
* *
47935840 ATAATTTTACTAACAAAATATTAGTAACAATTAATAATTTG
1 ATAATTTTACTAAC---A-ATTAGT-ACAATTAACAA-TTA
47935881 ATAATTTTAGC-AACAATTAGTACAATTAACAATTA
1 ATAATTTTA-CTAACAATTAGTACAATTAACAATTA
47935916 ATAATTTTACTA
1 ATAATTTTACTA
47935928 GCAAAATGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
34 1 0.01
35 26 0.35
36 10 0.13
37 6 0.08
38 2 0.03
39 5 0.07
40 10 0.13
41 14 0.19
42 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (35 bp):
ATAATTTTACTAACAATTAGTACAATTAACAATTA
Found at i:47935873 original size:33 final size:34
Alignment explanation
Indices: 47935805--47935879 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
47935795 ATAATTTGAT
*
47935805 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
47935840 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
47935873 ATAATTT
1 ATAATTT
47935880 GATAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 21 0.57
35 16 0.43
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:47935908 original size:76 final size:77
Alignment explanation
Indices: 47935786--47935939 Score: 249
Period size: 76 Copynumber: 2.0 Consensus size: 77
47935776 TTAATATAAT
47935786 TAACAATTAATAATTTGATATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACT
1 TAACAATTAATAATTTGA-ATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACT
47935851 AACAAAATATTAG
65 AACAAAATATTAG
*
47935864 TAACAATTAATAATTTG-ATAATTTTAGC-AACAATTAGTACAATTAACAATTAATAATTTTACT
1 TAACAATTAATAATTTGAATAATTTTA-CTAACAATTAATACAATTAACAATTAATAATTTTACT
* *
47935927 AGCAAAATGTTAG
65 AACAAAATATTAG
47935940 ATTTTATAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
76 54 0.75
77 1 0.01
78 17 0.24
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (77 bp):
TAACAATTAATAATTTGAATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTA
ACAAAATATTAG
Found at i:47936197 original size:5 final size:5
Alignment explanation
Indices: 47936182--47936212 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
47936172 TAGATAATTC
47936182 TAAACA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAA-A TAAAA TAAAA TAAAA TAAAA TAAAA
47936213 GTTTTTGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:47939365 original size:19 final size:19
Alignment explanation
Indices: 47939338--47939413 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
47939328 TTTATACATG
47939338 TACATATTTATATTTTATA
1 TACATATTTATATTTTATA
* *
47939357 TATATATTTCTATAATTTATA
1 TACATA-TT-TATATTTTATA
* * *
47939378 TACATATCTATATATATCTA
1 TACATATTTATAT-TTTATA
* *
47939398 TACACATTTTTATTTT
1 TACATATTTATATTTT
47939414 CACGAATCTA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
19 11 0.26
20 17 0.40
21 15 0.35
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (19 bp):
TACATATTTATATTTTATA
Found at i:47939391 original size:21 final size:19
Alignment explanation
Indices: 47939338--47939389 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
47939328 TTTATACATG
*
47939338 TACATATTTATATTTTATA
1 TACATATTTATAATTTATA
*
47939357 TATATATTTCTATAATTTATA
1 TACATA-TT-TATAATTTATA
*
47939378 TACATATCTATA
1 TACATATTTATA
47939390 TATATCTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATTTATAATTTATA
Found at i:47940937 original size:25 final size:26
Alignment explanation
Indices: 47940886--47940941 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
47940876 AAAATAAATA
*
47940886 AATAAATAAAAATGGAATGTATATAT
1 AATAAATAAAAATGGAAAGTATATAT
*
47940912 AATAAAGTAAATAT-GAAAGTAT-TAT
1 AATAAA-TAAAAATGGAAAGTATATAT
47940937 AATAA
1 AATAA
47940942 TACTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AATAAATAAAAATGGAAAGTATATAT
Found at i:47942743 original size:44 final size:45
Alignment explanation
Indices: 47942695--47943243 Score: 226
Period size: 44 Copynumber: 12.2 Consensus size: 45
47942685 TCCACTTCAT
47942695 TGCAACTTTAGGGAGAT-AGAATTAATT-GCTTCAATCTGCTCCAC
1 TGCAACTTTAGGGAGATAAG-ATTAATTAGCTTCAATCTGCTCCAC
** * * *
47942739 TGCAACTTTAGGGAGATAAGATT-GGTATCTTCAACCTACTCCAC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * ** * *
47942783 TGCAAC--TATGGAGATAAGGTTGGTTATCTTCAGTCTGCTCCAC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * * * * ** *
47942826 TGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATAAGAC-CTAC
1 TGCAACTTTAGGGAGATAAGA--T-TAAT--TAGCTTCAATCTG-CTCCAC
* * * * * * *
47942876 CGCAACTTTAGAGG-CATAGGATTCA-TCGTTTTAATCTGCTCCAC
1 TGCAACTTTAG-GGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * ** *
47942920 TACAACTTTAGGGAGATAGGATTAA-TAGCTTCAATCTATTCCGC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * * * *
47942964 TGCAACTTCAGGGTGATAAGATT-GTTATCTTCAACCTGCTCCAC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * * * ** * *
47943008 TACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCAC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * * * * *
47943053 TGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGAC-CTAC
1 TGCAACTTTAGGGAGATAAGA--T-TAAT--TAGCTTCAATCTG-CTCCAC
* * * * * * * *
47943103 TGCAACTTCAGAGG-CATAGGATTTA-TCGTTTTAATCCGCTCCAC
1 TGCAACTTTAG-GGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
* * ** * * * *
47943147 TACAACTTCAAAGAAATAGGATTAA-TAGCTTCAATTTGCTCCGC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
** * * *
47943191 TGCAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCAC
1 TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
47943236 TGCAACTT
1 TGCAACTT
47943244 CAATGAGATA
Statistics
Matches: 379, Mismatches: 100, Indels: 51
0.72 0.19 0.10
Matches are distributed among these distances:
42 13 0.03
43 28 0.07
44 197 0.52
45 71 0.19
47 7 0.02
48 7 0.02
50 50 0.13
51 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (45 bp):
TGCAACTTTAGGGAGATAAGATTAATTAGCTTCAATCTGCTCCAC
Found at i:47942825 original size:43 final size:42
Alignment explanation
Indices: 47942723--47942846 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 42
47942713 GAATTAATTG
47942723 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGCAAC--TAGGGAGATAAGATTGGTAT
* * * *
47942767 CTTCAACCTACTCCACTGCAACTATGGAGATAAGGTTGGTTAT
1 CTTCAATCTGCTCCACTGCAACTAGGGAGATAAGATTGG-TAT
* *
47942810 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAAC-T-AGGGAGATAAGA
47942847 CTTGTTATGG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 15 0.22
43 21 0.31
44 21 0.31
45 10 0.15
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
CTTCAATCTGCTCCACTGCAACTAGGGAGATAAGATTGGTAT
Found at i:47943049 original size:45 final size:45
Alignment explanation
Indices: 47942723--47943451 Score: 218
Period size: 44 Copynumber: 16.1 Consensus size: 45
47942713 GAATTAATTG
* * *
47942723 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA-GATTGGTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
* * * *
47942767 CTTCAACCTACTCCACTGCAAC-T-ATGGAGATAAGG-TTGGTTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATT-GTTAT
* **
47942810 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAA-GACTTGTTATGGT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGA-TTGTTA---T
* * ** * ** * * *
47942858 AGATTTAATAAGAC-CTACCGCAACTTTAGAGG-CAT-AGGA-T-TCAT
1 --CTTCAATCTG-CTCCACTACAACTTCAG-GGAGATAAGGATTGTTAT
* * ** *
47942902 CGTTTTAATCTGCTCCACTACAACTTTAGGGAGAT-AGGATTAATAG
1 C--TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
** * * *
47942948 CTTCAATCTATTCCGCTGCAACTTCAGGGTGATAA-GATTGTTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
* * *
47942992 CTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
* *
47943037 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA-GACTTGTTATGGT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGA-TTGTTA---T
* * * * * *
47943085 AGATTTAATCCGAC-CTACTGCAACTTCAGAGG-CAT-AGGA-T-TTAT
1 --CTTCAATCTG-CTCCACTACAACTTCAG-GGAGATAAGGATTGTTAT
* * ** * ** *
47943129 CGTTTTAATCCGCTCCACTACAACTTCAAAGAAAT-AGGATTAATAG
1 C--TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
* * * *
47943175 CTTCAATTTGCTCCGCTGCAACTTTAGGGAGATAA-GATTGGTTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATT-GTTAT
* * * **
47943220 CTTCAGTCTGCTTCACTGCAACTTCAATGAGATAA-GACTTGTTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGA-TTGTTAT
** * ** * * * * *
47943265 GGT-AGATTTAATCCGACCTATTGCAGCTTCAGAGG-CAT-TGGATTCATCAT
1 CTTCA-ATCTGCTCC-A-CTA---CAACTTCAG-GGAGATAAGGATT-GTTAT
* ** ** *
47943315 -TTTAATCCACTCCACTACAACTTCAGGGAGAT-AGGATTAATAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
* * * *
47943358 CTTTAATATGCTCCACTGCAACTTCTGGGAGATAA-GATTAG-TAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATT-GTTAT
* * * * * *
47943402 TTTCAACCTTCTCCACTGCAACTTCAGGGAGATAAAGTTTGTTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
47943447 CTTCA
1 CTTCA
47943452 GTCTTGATCT
Statistics
Matches: 503, Mismatches: 126, Indels: 111
0.68 0.17 0.15
Matches are distributed among these distances:
42 11 0.02
43 33 0.07
44 242 0.48
45 115 0.23
46 10 0.02
47 10 0.02
48 5 0.01
49 11 0.02
50 59 0.12
51 7 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTTAT
Found at i:47943071 original size:89 final size:89
Alignment explanation
Indices: 47942911--47943081 Score: 227
Period size: 89 Copynumber: 1.9 Consensus size: 89
47942901 TCGTTTTAAT
* * * *
47942911 CTGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTATTCCGCTGCAACTTCAGG
1 CTGCTCCACTACAACTTCAGAGAGATAGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAGG
*
47942976 GTGATAAGA-TTGTTATCTTCAAC
66 GAGATAAGACTTGTTATCTTCAAC
* ** * * *
47942999 CTGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
1 CTGCTCCACTACAACTTCAGAGAGAT-AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAG
47943064 GGAGATAAGACTTGTTAT
65 GGAGATAAGACTTGTTAT
47943082 GGTAGATTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
88 24 0.34
89 39 0.56
90 7 0.10
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (89 bp):
CTGCTCCACTACAACTTCAGAGAGATAGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAGG
GAGATAAGACTTGTTATCTTCAAC
Found at i:47943118 original size:227 final size:227
Alignment explanation
Indices: 47942570--47943264 Score: 934
Period size: 227 Copynumber: 3.1 Consensus size: 227
47942560 AACATCAATA
* ** * * * *
47942570 AGATAAGGCTTGTT-GCTTCAACCTGCTCCACTGCGACTTCAGAGAGATAAAACTCGTTATGGTA
1 AGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTA
* * * * * * * *
47942634 GATTTAATCCAACTTACTGTAACTTTAGAGGTATAGGATTCATCGTTTTAATCCACTTCATTGCA
66 GATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCACTACA
* * * *
47942699 ACTTTAGGGAGATAGAATTAATTGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGG
131 ACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGT
*
47942764 TATCTTCAACCTACTCCACTGCAAC-T-ATG-G
196 TATCTTCAACCTGCTCCACTGCAACTTCA-GAG
*
47942794 AGATAAGG-TTGGTTATCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGT
1 AGATAAGGCTT-GTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGT
** * *
47942858 AGATTTAATAAGACCTACCGCAACTTTAGAGGCATAGGATTCATCGTTTTAATCTGCTCCACTAC
65 AGATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCACTAC
** * *
47942923 AACTTTAGGGAGATAGGATTAATAGCTTCAATCTATTCCGCTGCAACTTCAGGGTGATAAGATTG
130 AACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTG
*
47942988 TTATCTTCAACCTGCTCCACTACAACTTCAGAG
195 TTATCTTCAACCTGCTCCACTGCAACTTCAGAG
*
47943021 AGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTA
1 AGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTA
* *
47943086 GATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATCGTTTTAATCCGCTCCACTACA
66 GATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCACTACA
* ** * *
47943151 ACTTCAAAGAAATAGGATTAATAGCTTCAATTTGCTCCGCTGCAACTTTAGGGAGATAAGATTGG
131 ACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATT-G
** *
47943216 TTATCTTCAGTCTGCTTCACTGCAACTTCA-ATG
195 TTATCTTCAACCTGCTCCACTGCAACTTCAGA-G
*
47943249 AGATAAGACTTGTTAT
1 AGATAAGGCTTGTTAT
47943265 GGTAGATTTA
Statistics
Matches: 411, Mismatches: 52, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
223 2 0.00
224 11 0.03
225 175 0.43
226 2 0.00
227 177 0.43
228 44 0.11
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (227 bp):
AGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTA
GATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCACTACA
ACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGT
TATCTTCAACCTGCTCCACTGCAACTTCAGAG
Found at i:47943227 original size:183 final size:183
Alignment explanation
Indices: 47943000--47943436 Score: 626
Period size: 183 Copynumber: 2.4 Consensus size: 183
47942990 ATCTTCAACC
* * * * *
47943000 TGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
47943065 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTCATC
* * *
47943130 GTTTTAATCCGCTCCACTACAACTTCAAAGAAATAGGATTAATAGCTTCAATT
131 ATTTTAATCCACTCCACTACAACTTCAAAGAAATAGGATTAATAGCTTCAATA
* * * **
47943183 TGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCACTGCAACTTCAAT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* * *
47943248 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTATTGCAGCTTCAGAGGCATTGGATTCATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTCATC
** * *
47943313 ATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTTAATA
131 ATTTTAATCCACTCCACTACAACTTCAAAGAAATAGGATTAATAGCTTCAATA
* ** *
47943366 TGCTCCACTGCAACTTCT-GGGAGATAAGATTAG-TATTTTCAACCTTCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTT-TAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
47943429 GGAGATAA
65 GGAGATAA
47943437 AGTTTGTTAT
Statistics
Matches: 224, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
182 31 0.14
183 192 0.86
184 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (183 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTCATC
ATTTTAATCCACTCCACTACAACTTCAAAGAAATAGGATTAATAGCTTCAATA
Found at i:47943321 original size:227 final size:224
Alignment explanation
Indices: 47942596--47943455 Score: 659
Period size: 227 Copynumber: 3.8 Consensus size: 224
47942586 TTCAACCTGC
* * * * * * * * * *
47942596 TCCACTGCGACTTCAGAGAGATAAAACTCGTTATGGTAGATTTAATCCAACTTACTGTAACTTTA
1 TCCACTGCAACTTCAGGGACATAAGACT-GTCAT-GCAGATTTAATCCGACCTACTGCAACTTCA
* * ** * * * * * *
47942661 GAGGTATAGGATTCATCGTTTTAATCCACTTCATTGCAACTTTAGGGAGATAGAATTAATTGCTT
64 GAGGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * * * ** * *
47942726 CAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTACTCCACTGCAAC-T
129 CAAT-TTCTCCGCTGCAACTTCAGGGAGATAAGATTGTTATCTTCAGTCTGCTCCACTACAACTT
* * **
47942790 -ATG-GAGATAAG-GTTGGTTATCTTCAGTCTGC
193 CA-GAGAGATAAGACTT-GTTATCGTCAGTCTAA
* * * * ** * *
47942821 TCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATAAGACCTACCGCAACTTTA
1 TCCACTGCAACTTCAGGGACATAAGAC-TGTCAT-GCAGATTTAATCCGACCTACTGCAACTTCA
* *
47942886 GAGGCATAGGATTCATCGTTTTAATCTGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTT
64 GAGGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* **
47942951 CAATCTAT-TCCGCTGCAACTTCAGGGTGATAAGATTGTTATCTTCAACCTGCTCCACTACAACT
129 CAAT-T-TCTCCGCTGCAACTTCAGGGAGATAAGATTGTTATCTTCAGTCTGCTCCACTACAACT
** * **
47943015 TCAGAGAGATAAGGTTTGTTATCTTCAGTCTGC
192 TCAGAGAGATAAGACTTGTTATCGTCAGTCTAA
* * *
47943048 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCA
1 TCCACTGCAACTTCAGGGACATAAGAC-TGTCAT-GCAGATTTAATCCGACCTACTGCAACTTCA
* * ** *
47943113 GAGGCATAGGATTTATCGTTTTAATCCGCTCCACTACAACTTCAAAGAAATAGGATTAATAGCTT
64 GAGGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * *
47943178 CAATTTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCACTGCAACT
129 CAATTT-CTCCGCTGCAACTTCAGGGAGATAAGATT-GTTATCTTCAGTCTGCTCCACTACAACT
* *
47943243 TCA-ATGAGATAAGACTTGTTATGGT-AGATTTAA
192 TCAGA-GAGATAAGACTTGTTATCGTCAG-TCTAA
* ** * * *
47943276 TCCGACCTATTGCAGCTTCAGAGG-CATTGGA-T-TCAT-CA-TTTTAATCC-ACTCCACTACAA
1 TCC-A-C---TGCAACTTCAG-GGACATAAGACTGTCATGCAGATTTAATCCGAC-CTACTGCAA
* * * * * * * *
47943335 CTTCAG-GGAGATAGGATTAATAGCTTTAATATGCTCCACTGCAACTTCTGGGAGATAAGATTAG
59 CTTCAGAGG-CATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAA
** * * *
47943399 TATTTTCAACCTTCTCCACTGCAACTTCAGGGAGATAAAGTTTGTTATCTTCAGTCT
123 TAGCTTCAA-TTTCTCCGCTGCAACTTCAGGGAGAT-AAGATTGTTATCTTCAGTCT
47943456 TGATCTGCTT
Statistics
Matches: 536, Mismatches: 78, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
225 166 0.31
226 8 0.01
227 282 0.53
228 58 0.11
229 1 0.00
230 4 0.01
231 1 0.00
233 14 0.03
234 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (224 bp):
TCCACTGCAACTTCAGGGACATAAGACTGTCATGCAGATTTAATCCGACCTACTGCAACTTCAGA
GGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTCA
ATTTCTCCGCTGCAACTTCAGGGAGATAAGATTGTTATCTTCAGTCTGCTCCACTACAACTTCAG
AGAGATAAGACTTGTTATCGTCAGTCTAA
Found at i:47943876 original size:123 final size:123
Alignment explanation
Indices: 47943656--47943878 Score: 277
Period size: 123 Copynumber: 1.8 Consensus size: 123
47943646 GTTTCGCCAC
* * * * *
47943656 CTTCAGCTTTAATCTGCTCCACTGCAACGTTAGGGAAACAAGATTCGCAACCTTTAGTTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGCTAGGGAAACAAGATTCGCAACATATAGCTTTAATC
* * **
47943721 TGTTCCACTGTAACACCAAGGAGATGGGATTCGCTGTCTTCAGCTTTAATCCGCTCCA
66 TGTTCCACTGCAACACCAAGGAAATAAGATTCGCTGTCTTCAGCTTTAATCCGCTCCA
* * * * *
47943779 CTTCATCTTTAATCTATTCCACTGCAACGCTATGGAAACAAGATTCGCTACATATAGCTTTAATT
1 CTTCAGCTTTAATCTACTCCACTGCAACGCTAGGGAAACAAGATTCGCAACATATAGCTTTAATC
* * *
47943844 TGTTTCACTGCAACGCC-AGAGAAATAATATTCGCT
66 TGTTCCACTGCAACACCAAG-GAAATAAGATTCGCT
47943879 ATCTGCAATC
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
122 2 0.02
123 80 0.98
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCCACTGCAACGCTAGGGAAACAAGATTCGCAACATATAGCTTTAATC
TGTTCCACTGCAACACCAAGGAAATAAGATTCGCTGTCTTCAGCTTTAATCCGCTCCA
Found at i:47944259 original size:24 final size:24
Alignment explanation
Indices: 47944231--47944285 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
47944221 ATTTTCCCCT
*
47944231 CTGTAATCTTCTAGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
47944255 CTGTAATCTTCAAGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
*
47944279 CTATAAT
1 CTGTAAT
47944286 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (24 bp):
CTGTAATCTTCAAGGTTCAATCCA
Found at i:47950507 original size:25 final size:26
Alignment explanation
Indices: 47950456--47950511 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
47950446 AAAATAAATA
*
47950456 AATAAATAAAAATGGAATGTATATAT
1 AATAAATAAAAATGGAAAGTATATAT
*
47950482 AATAAAGTAAATAT-GAAAGTAT-TAT
1 AATAAA-TAAAAATGGAAAGTATATAT
47950507 AATAA
1 AATAA
47950512 TACTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AATAAATAAAAATGGAAAGTATATAT
Found at i:47952444 original size:10 final size:10
Alignment explanation
Indices: 47952423--47952502 Score: 62
Period size: 10 Copynumber: 8.2 Consensus size: 10
47952413 GGTATATAAT
47952423 ATTTATTAAAA
1 ATTTA-TAAAA
47952434 ATTTATAAAA
1 ATTTATAAAA
47952444 ATTTAT-AAA
1 ATTTATAAAA
47952453 ATTT-T--AA
1 ATTTATAAAA
* * *
47952460 ATATGTAAGA
1 ATTTATAAAA
*
47952470 ATTTAT-CAA
1 ATTTATAAAA
47952479 ATTTATTAAAAA
1 ATTTA-T-AAAA
47952491 ATTTATAAAA
1 ATTTATAAAA
47952501 AT
1 AT
47952503 ATTAATAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 13 0.23
10 23 0.41
11 6 0.11
12 7 0.12
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (10 bp):
ATTTATAAAA
Found at i:47952453 original size:9 final size:9
Alignment explanation
Indices: 47952417--47952500 Score: 55
Period size: 9 Copynumber: 8.8 Consensus size: 9
47952407 TAAAAAGGTA
*
47952417 TATAATATT
1 TATAAAATT
47952426 TATTAAAAATT
1 TA-T-AAAATT
47952437 TATAAAAATT
1 TAT-AAAATT
47952447 TATAAAATT
1 TATAAAATT
*
47952456 T-TAAATATG
1 TATAAA-ATT
*
47952465 TA-AGAATT
1 TATAAAATT
*
47952473 TATCAAATT
1 TATAAAATT
47952482 TATTAAAAAATT
1 TA-T--AAAATT
47952494 TATAAAA
1 TATAAAA
47952501 ATATTAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
8 8 0.13
9 24 0.40
10 13 0.22
11 8 0.13
12 7 0.12
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (9 bp):
TATAAAATT
Found at i:47952741 original size:16 final size:17
Alignment explanation
Indices: 47952722--47952771 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
47952712 GAATTTGAAT
47952722 TTTTCATAATTTTA-AA
1 TTTTCATAATTTTATAA
47952738 TTTTCATAACATTTTATAA
1 TTTTCAT-A-ATTTTATAA
47952757 TTTT-AGTAATTTTAT
1 TTTTCA-TAATTTTAT
47952772 TAAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.23
17 8 0.27
18 8 0.27
19 7 0.23
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTCATAATTTTATAA
Found at i:47962265 original size:17 final size:17
Alignment explanation
Indices: 47962243--47962281 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
47962233 CTAGCCCGGT
*
47962243 GCCGCCACCATTCTGTC
1 GCCGCCACCATTCTGAC
*
47962260 GCCGCCACCGTTCTGAC
1 GCCGCCACCATTCTGAC
47962277 GCCGC
1 GCCGC
47962282 GCCGCACGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.49, G:0.23, T:0.18
Consensus pattern (17 bp):
GCCGCCACCATTCTGAC
Found at i:47962909 original size:37 final size:37
Alignment explanation
Indices: 47962865--47962938 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
47962855 AAACGAAGCT
47962865 GTTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
1 GTTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
47962902 GTTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
1 GTTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
47962939 CGATCCGACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.11, C:0.32, G:0.22, T:0.35
Consensus pattern (37 bp):
GTTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
Found at i:47963269 original size:12 final size:12
Alignment explanation
Indices: 47963252--47963291 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
47963242 TTATTTAACC
*
47963252 TTATTATTTCTA
1 TTATTATTACTA
47963264 TTATTATTACTA
1 TTATTATTACTA
*
47963276 TTATTAATTATTA
1 TTATT-ATTACTA
47963289 TTA
1 TTA
47963292 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:47964309 original size:108 final size:108
Alignment explanation
Indices: 47964184--47964584 Score: 664
Period size: 108 Copynumber: 3.7 Consensus size: 108
47964174 AAAAATAATA
47964184 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
47964249 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
*
47964292 AAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
47964357 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
*
47964400 AAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * ** *
47964465 TCGTTCAACCAAATAGCTAAATATCCCTTCAAAAATTTCAAAAT
66 TCGTTCAACCAAATGGCTTAATAT-CCTTTTAAAATTTTAAAAT
* * * *
47964509 AAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAAGTGCTGGGTTTCGA--TTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
47964571 TCGTTTAACCAAAT
66 TCGTTCAACCAAAT
47964585 TGCCAAATAT
Statistics
Matches: 280, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
106 17 0.06
108 218 0.78
109 45 0.16
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (108 bp):
AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
Found at i:47968700 original size:17 final size:17
Alignment explanation
Indices: 47968678--47968737 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
47968668 TCAGACTCAA
47968678 AAAAAAATAAAAAAATC
1 AAAAAAATAAAAAAATC
*
47968695 AAAAAAATCAAAAAATC
1 AAAAAAATAAAAAAATC
47968712 AAAAAAA-AATCAAAAATC
1 AAAAAAATAA--AAAAATC
47968730 AAAAAAAT
1 AAAAAAAT
47968738 CAAAGTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.03
17 23 0.61
18 14 0.37
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAAAAATC
Found at i:47968727 original size:35 final size:36
Alignment explanation
Indices: 47968674--47968741 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
47968664 GAGTTCAGAC
47968674 TCAAAAAAAAATAAAAAAATCAAAAAAATCAAAAAA
1 TCAAAAAAAAATAAAAAAATCAAAAAAATCAAAAAA
*
47968710 TCAAAAAAAAAT-CAAAAATCAAAAAAATCAAA
1 TCAAAAAAAAATAAAAAAATCAAAAAAATCAAA
47968742 GTCAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (36 bp):
TCAAAAAAAAATAAAAAAATCAAAAAAATCAAAAAA
Found at i:47968738 original size:9 final size:9
Alignment explanation
Indices: 47968678--47968741 Score: 82
Period size: 9 Copynumber: 7.3 Consensus size: 9
47968668 TCAGACTCAA
47968678 AAAAAAAT-
1 AAAAAAATC
47968686 AAAAAAATC
1 AAAAAAATC
47968695 AAAAAAATC
1 AAAAAAATC
47968704 -AAAAAATC
1 AAAAAAATC
47968712 AAAAAAA--
1 AAAAAAATC
47968719 AATCAAAAATC
1 AA--AAAAATC
47968730 AAAAAAATC
1 AAAAAAATC
47968739 AAA
1 AAA
47968742 GTCAAAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
7 2 0.04
8 16 0.32
9 30 0.60
11 2 0.04
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:47968771 original size:7 final size:6
Alignment explanation
Indices: 47968754--47968799 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
47968744 CAAAAATAGG
*
47968754 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAA AGAAAA AGATAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
47968800 GAGAGGTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 28 0.76
7 6 0.16
8 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:47969625 original size:7 final size:7
Alignment explanation
Indices: 47969615--47969657 Score: 59
Period size: 8 Copynumber: 5.7 Consensus size: 7
47969605 ATGAAAATGA
47969615 AAAAAAT
1 AAAAAAT
47969622 AAAAAAT
1 AAAAAAT
47969629 GAAAAAAT
1 -AAAAAAT
47969637 GAAAAAAT
1 -AAAAAAT
47969645 AAAAAAGT
1 AAAAAA-T
47969653 AAAAA
1 AAAAA
47969658 TAGAGAGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 13 0.38
8 21 0.62
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:47969625 original size:8 final size:8
Alignment explanation
Indices: 47969608--47969657 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
47969598 AATGATGATG
47969608 AAAATGAAA
1 AAAAT-AAA
47969617 AAAAT-AA
1 AAAATAAA
*
47969624 AAAATGAA
1 AAAATAAA
*
47969632 AAAATGAA
1 AAAATAAA
47969640 AAAATAAA
1 AAAATAAA
*
47969648 AAAGTAAA
1 AAAATAAA
47969656 AA
1 AA
47969658 TAGAGAGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 7 0.18
8 26 0.68
9 5 0.13
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:47969629 original size:16 final size:16
Alignment explanation
Indices: 47969608--47969657 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
47969598 AATGATGATG
47969608 AAAATGAAAAAAATAA
1 AAAATGAAAAAAATAA
47969624 AAAATG-AAAAAATGAA
1 AAAATGAAAAAAAT-AA
*
47969640 AAAAT-AAAAAAGTAA
1 AAAATGAAAAAAATAA
47969655 AAA
1 AAA
47969658 TAGAGAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (16 bp):
AAAATGAAAAAAATAA
Found at i:47971038 original size:88 final size:88
Alignment explanation
Indices: 47970877--47971380 Score: 773
Period size: 88 Copynumber: 5.7 Consensus size: 88
47970867 ATGAAGTTGC
* * * *
47970877 AGATCTTGCCTTTCTGCATTAACAGCGAAGCAGATCGAAGATACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
47970942 T-AGCGGAGCTGGTTCAAGACAAA
66 TGA-TGGAGCTGGTTGAAGACAAA
* * *
47970965 AGATCTTGCCTTTCTGCATTGACAGCAAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
47971030 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
47971053 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
47971118 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
* * *
47971141 AGATCTTACCTTCCTGCATTGACAGCAAAGCAGATCGAAGACACAAACCTTGCCTTTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
47971206 TGGTGGCGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
47971229 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
47971294 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
** *
47971317 AGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC-CATCGGT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTC-TCGGT
47971379 TG
64 TG
47971381 CAGTGAAGCT
Statistics
Matches: 387, Mismatches: 26, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
86 6 0.02
87 17 0.04
88 363 0.94
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:47971587 original size:44 final size:44
Alignment explanation
Indices: 47971490--47971952 Score: 203
Period size: 44 Copynumber: 10.6 Consensus size: 44
47971480 AAAAATTTCA
* * *
47971490 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT--AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAGATAAAG
* *
47971533 TAATAC-TATCTCCCTGAGATTACAGTGGAGCGGATTAAGATAAAG
1 -GAT-CTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGATAAAG
** ** * *
47971578 GATCTTATCTCTTTGA-AGTTACAGCAGAGCAGA-T-CGTATCAA-
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAG-ATAAAG
* * ** *
47971620 G-TCTTATCTCCCTGAAATTACAGTGGGGCAGACCAA-A-AAATTTCA
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGATAAA----G
* *
47971665 GATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCT--AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAGATAAAG
* * * * * *
47971708 TAATCCTATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGATAAAG
* ** * * **
47971753 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-T-CGCA-CCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAG-ATAAAG
* * ** **
47971795 G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAAG-A-TAAAG
* *
47971840 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCT--AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAGATAAAG
* * * * *
47971883 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAA
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGATAAAG
*
47971928 GATCTTATCTCTCTGA-AGTTACAGT
1 GATCTTATCTCCCTGAGA-TTACAGT
47971953 AAAGTAGATC
Statistics
Matches: 310, Mismatches: 73, Indels: 72
0.68 0.16 0.16
Matches are distributed among these distances:
40 2 0.01
41 48 0.15
42 8 0.03
43 21 0.07
44 159 0.51
45 8 0.03
46 61 0.20
47 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGATAAAG
Found at i:47971701 original size:175 final size:175
Alignment explanation
Indices: 47971399--47971982 Score: 909
Period size: 175 Copynumber: 3.3 Consensus size: 175
47971389 CTGATTGAAG
* * *
47971399 AAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
*
47971464 ACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAG
66 ACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
* *
47971529 CTAGTAATACTATCTCCCTGAGATTACAGTGGAGCGGATTAAGAT
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
* * * * *
47971574 AAAGGATCTTATCTCTTTGAAGTTACAGCAGAGCAGATCGTATCAAGTCTTATCTCCCTGAAATT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
** * **
47971639 ACAGTGGGGCAGACCAAAAAATTTCAGATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAG
66 ACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
* *
47971704 CTAGTAATCCTATCTCTCTGAGATTATAGTGGAGCGGATTAAAAT
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
* *
47971749 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
* *
47971814 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAG
66 ACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
47971879 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
* * * * *
47971924 AAAAGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGTATC-AGATCTTATCTCCCT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAG-TCTTATCTCCCT
47971983 AAGCAGTAGT
Statistics
Matches: 367, Mismatches: 41, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
174 1 0.00
175 366 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (175 bp):
AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
ACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
Found at i:47972560 original size:17 final size:17
Alignment explanation
Indices: 47972538--47972576 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
47972528 TTAGCCTGGT
*
47972538 GCCGCCACCATTCTGTC
1 GCCGCCACCATTCTGAC
**
47972555 GCCGCCACTGTTCTGAC
1 GCCGCCACCATTCTGAC
47972572 GCCGC
1 GCCGC
47972577 GCCGCACGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.46, G:0.23, T:0.21
Consensus pattern (17 bp):
GCCGCCACCATTCTGAC
Found at i:47973495 original size:12 final size:12
Alignment explanation
Indices: 47973478--47973517 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
47973468 TTATTTAACC
*
47973478 TTATTATTGCTA
1 TTATTATTACTA
47973490 TTATTATTACTA
1 TTATTATTACTA
*
47973502 TTATTAATTATTA
1 TTATT-ATTACTA
47973515 TTA
1 TTA
47973518 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:47974539 original size:108 final size:108
Alignment explanation
Indices: 47974414--47974827 Score: 663
Period size: 108 Copynumber: 3.9 Consensus size: 108
47974404 AAAAATAATA
47974414 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
47974479 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
66 TCGTTCAACCAAATGGCTAAATATCCTTTTAAAATTTTAAAAT
*
47974522 AAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
47974587 TCGTTCAACAAAATGGCTCAATATCCTTTTAAAATTTTAAAAT
66 TCGTTCAACCAAATGGCTAAATATCCTTTTAAAATTTTAAAAT
*
47974630 AAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* ** *
47974695 TCGTTCAACCAAATAGCTAAATATCCCTTCAAAAATTTCAAAAT
66 TCGTTCAACCAAATGGCTAAATAT-CCTTTTAAAATTTTAAAAT
* * *
47974739 AAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * *
47974801 TCGTTTAACCAAATTGCCAAATATCCT
66 TCGTTCAACCAAATGGCTAAATATCCT
47974828 CTTGAATTTT
Statistics
Matches: 289, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
105 3 0.01
106 25 0.09
108 216 0.75
109 45 0.16
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (108 bp):
AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCGTTCAACCAAATGGCTAAATATCCTTTTAAAATTTTAAAAT
Found at i:47979479 original size:19 final size:19
Alignment explanation
Indices: 47979455--47979495 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
47979445 ATAATAGTAA
47979455 TATATAATATATTAATTAT
1 TATATAATATATTAATTAT
* * *
47979474 TATATATTATTTTTATTAT
1 TATATAATATATTAATTAT
47979493 TAT
1 TAT
47979496 CTTGATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATAATATATTAATTAT
Found at i:47985313 original size:3 final size:3
Alignment explanation
Indices: 47985307--47985337 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
47985297 TTACCTTTTT
47985307 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
47985338 AGGGATTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:47986110 original size:37 final size:39
Alignment explanation
Indices: 47986058--47986133 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 39
47986048 ATATGTTATT
* **
47986058 TTTATATATTATATATTTTATTATACATA-AAA-ATTAAA
1 TTTATATATAATATATAATATTATA-ATATAAATATTAAA
47986096 TTTATA-ATAATATATAATATTATAATATAAATATTAAA
1 TTTATATATAATATATAATATTATAATATAAATATTAAA
47986134 AAATTCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.09
37 18 0.55
38 12 0.36
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (39 bp):
TTTATATATAATATATAATATTATAATATAAATATTAAA
Found at i:47986120 original size:15 final size:14
Alignment explanation
Indices: 47986102--47986131 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
47986092 TAAATTTATA
47986102 ATAATATATAATATT
1 ATAATATA-AATATT
47986117 ATAATATAAATATT
1 ATAATATAAATATT
47986131 A
1 A
47986132 AAAAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATATAAATATT
Found at i:47986127 original size:31 final size:32
Alignment explanation
Indices: 47986090--47986198 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 32
47986080 ATACATAAAA
47986090 ATTAAATTTATAATAATATATAATATTATAAT
1 ATTAAATTTATAATAATATATAATATTATAAT
* * *
47986122 A-TAAATATTA-AAAAAT-TCTAAATATGAT-AT
1 ATTAAAT-TTATAATAATATAT-AATATTATAAT
47986152 ATTAAATTTTAATAAATAATATATAATTATTA-AAT
1 ATTAAA-TTT-AT-AATAATATATAA-TATTATAAT
*
47986187 ATTAAATCTATA
1 ATTAAATTTATA
47986199 TATTTATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
30 5 0.08
31 23 0.38
32 7 0.12
33 2 0.03
34 9 0.15
35 14 0.23
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (32 bp):
ATTAAATTTATAATAATATATAATATTATAAT
Found at i:47995504 original size:36 final size:36
Alignment explanation
Indices: 47995463--47995653 Score: 220
Period size: 36 Copynumber: 5.0 Consensus size: 36
47995453 GGTAGCTTTA
47995463 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
47995499 GCTACACTTATCTGATCAAGAGACAATGTGATAAGTGGTAACTTT
1 GCTACACTTATCTGATCAAGTG--AA----A-AAGTGATAA--GT
47995544 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
47995581 GCTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
47995617 GATATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
47995653 G
1 G
47995654 TTAGCCTTAG
Statistics
Matches: 134, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
36 89 0.66
37 1 0.01
38 2 0.01
39 8 0.06
40 1 0.01
42 1 0.01
43 8 0.06
44 2 0.01
45 1 0.01
46 21 0.16
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:47995564 original size:82 final size:82
Alignment explanation
Indices: 47995427--47995617 Score: 310
Period size: 82 Copynumber: 2.3 Consensus size: 82
47995417 TTTGAGTACT
* * *
47995427 TCTGATAAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
47995492 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
47995509 TCTGATCAAGAGACAATGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
47995574 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* *
47995591 TCTAATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
47995618 ATATACTTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:47995676 original size:118 final size:118
Alignment explanation
Indices: 47995463--47995699 Score: 384
Period size: 118 Copynumber: 2.0 Consensus size: 118
47995453 GGTAGCTTTA
* * *
47995463 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAATGT
1 GCTACACTTATCTAATCAAGTGAAAAAGTGATAAGTGATACACTTATCTGATCAAGAGACAAAGT
*
47995528 GATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAACCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
47995581 GCTATACTTATCTAATCAAGTGAAAAAGTGATAAGTGATATACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTAATCAAGTGAAAAAGTGATAAGTGATACACTTATCTGATCAAGAGACAAAGT
* * *
47995646 GATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
66 GATAAGTGGTAACCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
47995699 G
1 G
47995700 GTAGCCTAGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (118 bp):
GCTACACTTATCTAATCAAGTGAAAAAGTGATAAGTGATACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAACCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:47996850 original size:35 final size:34
Alignment explanation
Indices: 47996810--47997078 Score: 334
Period size: 35 Copynumber: 8.0 Consensus size: 34
47996800 TTGTCTATTC
* *
47996810 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT-TG
* * *
47996845 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
47996877 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
*
47996912 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * *
47996947 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
*
47996979 TTGCAGGGAATCTCTCCTGTTCACGAATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* *
47997014 TTGCAGGGAATCTCTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
47997046 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
47997079 CTTTTTGGAC
Statistics
Matches: 207, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
32 74 0.36
33 13 0.06
34 13 0.06
35 107 0.52
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
Found at i:47996986 original size:102 final size:102
Alignment explanation
Indices: 47996810--47997068 Score: 425
Period size: 102 Copynumber: 2.6 Consensus size: 102
47996800 TTGTCTATTC
* * * *
47996810 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATT
*
47996875 TCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
66 TCTTGCAGGGAATCTCTCCTGTTCACGAATTATTTTG
47996912 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATT
47996977 TCTTGCAGGGAATCTCTCCTGTTCACGAATTATTTTG
66 TCTTGCAGGGAATCTCTCCTGTTCACGAATTATTTTG
* * *
47997014 TTGCAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
47997069 TGTATTATTT
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
99 25 0.17
100 6 0.04
102 118 0.79
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (102 bp):
TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATT
TCTTGCAGGGAATCTCTCCTGTTCACGAATTATTTTG
Found at i:47997076 original size:67 final size:68
Alignment explanation
Indices: 47996810--47997078 Score: 341
Period size: 67 Copynumber: 4.0 Consensus size: 68
47996800 TTGTCTATTC
* * * * * *
47996810 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTGCAGGGAATCTCTCCTGTTCAC-CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
47996873 -TTTC
64 TTTTG
* * *
47996877 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTGCAGGGAATCTCTCCTGTTCAC-CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
47996942 TTTTG
64 TTTTG
* *
47996947 TTGCAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCACGAATTATT
1 TTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATT
47997011 TTG
66 TTG
* *
47997014 TTGCAGGGAATCTCTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATT
1 TTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATT
47997078 T
66 T
47997079 CTTTTTGGAC
Statistics
Matches: 185, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
67 150 0.81
68 6 0.03
69 4 0.02
70 25 0.14
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (68 bp):
TTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATT
TTG
Found at i:47999914 original size:20 final size:22
Alignment explanation
Indices: 47999877--47999920 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
47999867 GAGCAAATTG
47999877 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
47999898 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
47999919 TT
1 TT
47999921 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:48006178 original size:50 final size:50
Alignment explanation
Indices: 48006101--48006292 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
48006091 CACACCACAG
* * *
48006101 CTCTTATGAGCATCCCGATAATAGGCTCTCATGAGCTTCCCGTTATTAAA
1 CTCTTATGAGCATCCCGATATTTGGCTCTCATGAGCTTCCCGTTATTAGA
* ** * * *
48006151 CTCTTATGAGCATCCCGTTATTTGGCTCTCCGGAGCTTCCTGATATT-GG
1 CTCTTATGAGCATCCCGATATTTGGCTCTCATGAGCTTCCCGTTATTAGA
* * * *
48006200 CT-TGCATGAGCTTCCCGA-ATTTGGCTCTCTTGAGCTTCTCG-T-TTACGA
1 CTCT-TATGAGCATCCCGATATTTGGCTCTCATGAGCTTCCCGTTATTA-GA
* * * *
48006248 CTCGTATGAGCTTCCCGATATTTGGCT-TGTAAGAGCTTCCCGTTA
1 CTCTTATGAGCATCCCGATATTTGGCTCT-CATGAGCTTCCCGTTA
48006293 CATAGATCAC
Statistics
Matches: 111, Mismatches: 23, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 37 0.33
49 30 0.27
50 41 0.37
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.35
Consensus pattern (50 bp):
CTCTTATGAGCATCCCGATATTTGGCTCTCATGAGCTTCCCGTTATTAGA
Found at i:48006179 original size:25 final size:25
Alignment explanation
Indices: 48006100--48006179 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
48006090 ACACACCACA
* *
48006100 GCTCTTATGAGCATCCCGATAATAG
1 GCTCTTATGAGCATCCCGTTATTAG
* * *
48006125 GCTCTCATGAGCTTCCCGTTATTAA
1 GCTCTTATGAGCATCCCGTTATTAG
* *
48006150 ACTCTTATGAGCATCCCGTTATTTG
1 GCTCTTATGAGCATCCCGTTATTAG
48006175 GCTCT
1 GCTCT
48006180 CCGGAGCTTC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCATCCCGTTATTAG
Found at i:48006223 original size:24 final size:23
Alignment explanation
Indices: 48006183--48006289 Score: 65
Period size: 24 Copynumber: 4.4 Consensus size: 23
48006173 TGGCTCTCCG
*
48006183 GAGCTTCCTGATATTGGCTTGCAT
1 GAGCTTCCCGAT-TTGGCTTGCAT
*
48006207 GAGCTTCCCGAATTTGGCTCT-CTT
1 GAGCTTCCCG-ATTTGGCT-TGCAT
* * * *
48006231 GAGCTTCTCG-TTTACGACTCGTAT
1 GAGCTTCCCGATTT--GGCTTGCAT
* *
48006255 GAGCTTCCCGATATTTGGCTTGTAA
1 GAGCTTCCCG--ATTTGGCTTGCAT
48006280 GAGCTTCCCG
1 GAGCTTCCCG
48006290 TTACATAGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
22 3 0.05
24 39 0.61
25 19 0.30
27 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (23 bp):
GAGCTTCCCGATTTGGCTTGCAT
Found at i:48006324 original size:50 final size:50
Alignment explanation
Indices: 48006253--48006371 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 50
48006243 TACGACTCGT
* * * * * *
48006253 ATGAGCTTCCCGATATTTGGCTTGTAAGAGCTTCCCG-TTACATAGATCAC
1 ATGAGCTTCCTGATATATGGCTCGAAAAAGCTACCCGTTTACATA-ATCAC
* * *
48006303 ATGAGCTTCCTGTTATATGGCTCGAAAAAGCTACCCGTTTATATACTCAC
1 ATGAGCTTCCTGATATATGGCTCGAAAAAGCTACCCGTTTACATAATCAC
48006353 ATGAGCATTCCTGA-ATATG
1 ATGAGC-TTCCTGATATATG
48006372 AATTGACAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 45 0.79
51 12 0.21
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (50 bp):
ATGAGCTTCCTGATATATGGCTCGAAAAAGCTACCCGTTTACATAATCAC
Found at i:48008179 original size:25 final size:25
Alignment explanation
Indices: 48008121--48008208 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
48008111 TGAGCATGTA
* * *
48008121 AACGGGAAGCTCCTCCGAGCTGATT
1 AACGGGAAGCTCATGCGAGCTGAAT
** *
48008146 AACAAGAAGCTCATGTGAGCTGAAT
1 AACGGGAAGCTCATGCGAGCTGAAT
* **
48008171 AACGGGAAGCTTATGCGAGCCAAAT
1 AACGGGAAGCTCATGCGAGCTGAAT
*
48008196 ATCGGGAAGCTCA
1 AACGGGAAGCTCA
48008209 AGAGGGCCAA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (25 bp):
AACGGGAAGCTCATGCGAGCTGAAT
Found at i:48011325 original size:51 final size:50
Alignment explanation
Indices: 48011179--48011335 Score: 208
Period size: 51 Copynumber: 3.1 Consensus size: 50
48011169 TGATCAATGT
* *
48011179 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGATCAATA-
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-AC
* * * * *
48011229 TCATTCGGTACACGTAGTAGCCTGTACATAGTACTACACACGTGACCAAAGC
1 T-ATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA-C
48011281 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AAC
48011332 TATC
1 TATC
48011336 TTATACTCAT
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.02
51 86 0.95
52 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAC
Found at i:48011347 original size:51 final size:50
Alignment explanation
Indices: 48011185--48011352 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 50
48011175 ATGTTATCCG
* *
48011185 GTACACATAGTAGCCTACACTTAGTACTACACATGTGATC-AA-TATCATT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACTATC-TT
* * * * **
48011234 CGGTACACGTAGTAGCCTGTACATAGTACTACACACGTGACCAAAGCTATCCG
1 --GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA-CTATCTT
48011287 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAACTATCTT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AACTATCTT
* *
48011338 ATACTCATAGTAGCC
1 GTACACATAGTAGCC
48011353 CATATAATCC
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
51 89 0.92
52 4 0.04
54 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACTATCTT
Found at i:48012545 original size:16 final size:17
Alignment explanation
Indices: 48012516--48012547 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48012506 AGAAATTTCA
48012516 AATATTTCATATCATAT
1 AATATTTCATATCATAT
48012533 AATATTT-ATATCATA
1 AATATTTCATATCATA
48012548 AACCAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATTTCATATCATAT
Found at i:48024828 original size:16 final size:16
Alignment explanation
Indices: 48024807--48024850 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
48024797 ATTCTAATTC
48024807 ATTTGATATATTTAAT
1 ATTTGATATATTTAAT
*
48024823 ATTTGATATATTAAAT
1 ATTTGATATATTTAAT
*
48024839 AATT-ATATATTT
1 ATTTGATATATTT
48024851 TTAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTTGATATATTTAAT
Found at i:48030749 original size:49 final size:49
Alignment explanation
Indices: 48030692--48030791 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
48030682 CCTTAATCGT
48030692 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
1 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
48030741 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
1 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
48030790 TT
1 TT
48030792 CGGAATCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (49 bp):
TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
Found at i:48030904 original size:43 final size:42
Alignment explanation
Indices: 48030834--48030974 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 42
48030824 AGCTCGTAAA
** * *
48030834 ATGCCAACATCCCAGACATG-GTATTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACA-GAGTCTTACACGTAATCAAAT-ACG
* * *
48030877 ATGCCACTGTCCCAGGCAGAGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACAGAGTCTTACACGTAATCAAATACG
* * * *
48030919 ATGCCAATGTCCTAGACATAGTCTTACGCGTAAATCTCAAAT-TG
1 ATGCCAATGTCCCAGACAGAGTCTTACACGT-AA--TCAAATACG
48030963 ATGCCAATGTCC
1 ATGCCAATGTCC
48030975 TAGATGTGGT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.38
43 32 0.40
44 13 0.16
45 5 0.06
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGAGTCTTACACGTAATCAAATACG
Found at i:48030942 original size:42 final size:42
Alignment explanation
Indices: 48030847--48030978 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 42
48030837 CCAACATCCC
* * * * * *
48030847 AGACATGGTATTACATGTAATCAAATAACGATGCCACTGTCCC
1 AGACATAGTCTTACACGTAATCATAT-ACGATGCCAATGTCCT
* *
48030890 AGGCAGAGTCTTACACGTAATCATATACGATGCCAATGTCCT
1 AGACATAGTCTTACACGTAATCATATACGATGCCAATGTCCT
* * *
48030932 AGACATAGTCTTACGCGTAAATC-TCAAATTGATGCCAATGTCCT
1 AGACATAGTCTTACACGT-AATCAT-ATA-CGATGCCAATGTCCT
48030976 AGA
1 AGA
48030979 TGTGGTCTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
42 30 0.41
43 26 0.36
44 17 0.23
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
AGACATAGTCTTACACGTAATCATATACGATGCCAATGTCCT
Found at i:48031696 original size:12 final size:12
Alignment explanation
Indices: 48031679--48031720 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
48031669 ATCCCATTAT
48031679 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
48031691 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
48031703 TCCCTCCTCAAA
1 TCTCTCCTCAAA
48031715 TCTCTC
1 TCTCTC
48031721 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:48033488 original size:5 final size:5
Alignment explanation
Indices: 48033478--48033503 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48033468 TTTTAAAACG
48033478 ATGAA ATGAA ATGAA ATGAA ATGAA A
1 ATGAA ATGAA ATGAA ATGAA ATGAA A
48033504 CGATAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
ATGAA
Found at i:48033914 original size:21 final size:22
Alignment explanation
Indices: 48033877--48033917 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
48033867 TATGGTAGTT
48033877 TAAAACAAATAATGTAAATAAA
1 TAAAACAAATAATGTAAATAAA
48033899 TAAAA-AAATTAA-GTAAATA
1 TAAAACAAA-TAATGTAAATA
48033918 TTAGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
TAAAACAAATAATGTAAATAAA
Found at i:48038352 original size:24 final size:25
Alignment explanation
Indices: 48038297--48038381 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
48038287 AAGGCTATTT
*
48038297 CATGAGCTTCCCGATTAACGGCTCT
1 CATGAGCTTCCCGATTAACGGCTCG
**
48038322 C-TGGAGCTTCCCGA-TATTGGCTCG
1 CAT-GAGCTTCCCGATTAACGGCTCG
* * *
48038346 CATGAGCTT-CCTATTACATGGCTCA
1 CATGAGCTTCCCGATTA-ACGGCTCG
48038371 CATGAGCTTCC
1 CATGAGCTTCC
48038382 TGTGATATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.06
24 17 0.35
25 28 0.57
26 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (25 bp):
CATGAGCTTCCCGATTAACGGCTCG
Found at i:48038391 original size:25 final size:25
Alignment explanation
Indices: 48038334--48038394 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
48038324 GGAGCTTCCC
*
48038334 GATATTGGCTCGCATGAGCTTCCTAT
1 GATA-TGGCTCACATGAGCTTCCTAT
* * *
48038360 TACATGGCTCACATGAGCTTCCTGT
1 GATATGGCTCACATGAGCTTCCTAT
48038385 GATATGGCTC
1 GATATGGCTC
48038395 GAAAGAGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (25 bp):
GATATGGCTCACATGAGCTTCCTAT
Found at i:48038402 original size:25 final size:25
Alignment explanation
Indices: 48038334--48038403 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
48038324 GGAGCTTCCC
*
48038334 GATATTGGCTCGCATGAGCTTCCTAT
1 GATA-TGGCTCGAATGAGCTTCCTAT
* * *
48038360 TACATGGCTC-ACATGAGCTTCCTGT
1 GATATGGCTCGA-ATGAGCTTCCTAT
*
48038385 GATATGGCTCGAAAGAGCT
1 GATATGGCTCGAATGAGCT
48038404 ACCCGTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 32 0.91
26 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
GATATGGCTCGAATGAGCTTCCTAT
Found at i:48040431 original size:51 final size:51
Alignment explanation
Indices: 48040354--48040576 Score: 376
Period size: 51 Copynumber: 4.4 Consensus size: 51
48040344 CGGATCACAT
* *
48040354 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
48040405 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTTGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
48040455 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
48040506 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
48040557 TTATCACTTGTCACTTATCA
1 TTATCACTTGTCACTTATCA
48040577 GAAGAACTCA
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 45 0.28
51 116 0.72
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:48040459 original size:101 final size:102
Alignment explanation
Indices: 48040354--48040576 Score: 376
Period size: 101 Copynumber: 2.2 Consensus size: 102
48040344 CGGATCACAT
* * *
48040354 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAATGCAACTAAAGCTACCACTTATCACTTGTCAC
* *
48040419 TTGTCACCGATCAGATAAGTGTTGCT-AAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
*
48040455 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAATGCAACTAAAGCTACCACTTATCACTTGTCAC
*
48040520 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
48040557 TTATCACTTGTCACTTATCA
1 TTATCACTTGTCACTTATCA
48040577 GAAGAACTCA
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 84 0.74
102 30 0.26
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (102 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAATGCAACTAAAGCTACCACTTATCACTTGTCAC
TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:48040672 original size:17 final size:17
Alignment explanation
Indices: 48040650--48040682 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48040640 TATTCTCAAT
48040650 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
48040667 TCATCATACAATATAT
1 TCATCATACAATATAT
48040683 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:48043604 original size:6 final size:7
Alignment explanation
Indices: 48043587--48043612 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48043577 TATTATCTAT
48043587 TTTTTAC
1 TTTTTAC
48043594 TTTTTAC
1 TTTTTAC
48043601 TTTTTAC
1 TTTTTAC
48043608 TTTTT
1 TTTTT
48043613 TATTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAC
Found at i:48046821 original size:11 final size:10
Alignment explanation
Indices: 48046798--48046856 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
48046788 AATGTTTAAA
48046798 TTTAATAATT
1 TTTAATAATT
48046808 TTTAATATATT
1 TTTAATA-ATT
48046819 TTT-AT-A-T
1 TTTAATAATT
48046826 TTTAA-AATT
1 TTTAATAATT
48046835 TTT-ATAATAT
1 TTTAATAAT-T
48046845 TTTAA-AATT
1 TTTAATAATT
48046854 TTT
1 TTT
48046857 TGTTTTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
7 4 0.10
8 4 0.10
9 11 0.26
10 16 0.38
11 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:48046844 original size:19 final size:19
Alignment explanation
Indices: 48046802--48046856 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
48046792 TTTAAATTTA
*
48046802 ATAAT-TTTTAATATATTTT
1 ATAATATTTTAAAAT-TTTT
48046821 -T-ATATTTTAAAATTTTT
1 ATAATATTTTAAAATTTTT
48046838 ATAATATTTTAAAATTTTT
1 ATAATATTTTAAAATTTTT
48046857 TGTTTTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.19
18 10 0.31
19 16 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATATTTTAAAATTTTT
Found at i:48046855 original size:27 final size:28
Alignment explanation
Indices: 48046798--48046855 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
48046788 AATGTTTAAA
* *
48046798 TTTAATAATTTTTAATATATTTTTATAT
1 TTTAATAATTTTTAATATATTTTAAAAT
48046826 TTTAA-AATTTTT-ATAATATTTTAAAAT
1 TTTAATAATTTTTAAT-ATATTTTAAAAT
48046853 TTT
1 TTT
48046856 TTGTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 20 0.74
28 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTAATAATTTTTAATATATTTTAAAAT
Found at i:48048498 original size:20 final size:20
Alignment explanation
Indices: 48048473--48048510 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48048463 TCCATATTTA
*
48048473 TTAATATCATTTTCTAAATT
1 TTAATACCATTTTCTAAATT
*
48048493 TTAATACCATTTTTTAAA
1 TTAATACCATTTTCTAAA
48048511 CATTTTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATACCATTTTCTAAATT
Found at i:48049773 original size:20 final size:19
Alignment explanation
Indices: 48049748--48049787 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
48049738 GAACCCAAAA
48049748 TTTGGGTTCGAGGTTTAGGG
1 TTTGGGTTCG-GGTTTAGGG
48049768 TTTGGGTTCGGGTTTAGGG
1 TTTGGGTTCGGGTTTAGGG
48049787 T
1 T
48049788 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.07, C:0.05, G:0.45, T:0.42
Consensus pattern (19 bp):
TTTGGGTTCGGGTTTAGGG
Found at i:48055842 original size:27 final size:27
Alignment explanation
Indices: 48055812--48056091 Score: 295
Period size: 27 Copynumber: 10.4 Consensus size: 27
48055802 TTTCATCTCC
** *
48055812 TAGGGGTATAACAGTTATTTTACCCTT
1 TAGGGGTATTTCAGTTATTTTACCCTA
* * *
48055839 TAGGGGTATTTCGGTCATTTTACCTTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
* *
48055866 T-GGGTGTATTTCAGTCATTCTACCCTA
1 TAGGG-GTATTTCAGTTATTTTACCCTA
*
48055893 TAGGGGTATTTCGGTTATTTTACCCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
*
48055920 T-GGGGTATTTC-GATCATTTTACCCTA
1 TAGGGGTATTTCAG-TTATTTTACCCTA
*
48055946 TGGGGGTATTTCAGTTATTTTACCCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
* *
48055973 T-GAGGGTATTTCAGTCATTTTAACCTA
1 TAG-GGGTATTTCAGTTATTTTACCCTA
*
48056000 TTGGGGTATTTCAGTTATTTTACCCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
* *
48056027 TAAGGGTATTTC-GATTATTTAACCCTA
1 TAGGGGTATTTCAG-TTATTTTACCCTA
* *
48056054 TAGGGGTATATC-GATCATTTTACCCTA
1 TAGGGGTATTTCAG-TTATTTTACCCTA
48056081 T-GAGGGTATTT
1 TAG-GGGTATTT
48056092 TGGTCATTTA
Statistics
Matches: 218, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.00
26 29 0.13
27 183 0.84
28 5 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTCAGTTATTTTACCCTA
Found at i:48055914 original size:54 final size:53
Alignment explanation
Indices: 48055810--48056100 Score: 327
Period size: 54 Copynumber: 5.4 Consensus size: 53
48055800 AATTTCATCT
** * * *
48055810 CCTA-GGGGTATAACAGTTATTTTACCCTTTAGGGGTATTTCGGTCATTTTAC
1 CCTATGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTTATTTTAC
* *
48055862 CTTATGGGTGTATTTCAGTCATTCTACCCTATAGGGGTATTTCGGTTATTTTAC
1 CCTATGGG-GTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTTATTTTAC
* *
48055916 CCTATGGGGTATTTC-GATCATTTTACCCTATGGGGGTATTTCAGTTATTTTAC
1 CCTATGGGGTATTTCAG-TCATTTTACCCTATAGGGGTATTTCGGTTATTTTAC
* * *
48055969 CCTATGAGGGTATTTCAGTCATTTTAACCTATTGGGGTATTTCAGTTATTTTAC
1 CCTATG-GGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTTATTTTAC
* * * * * *
48056023 CCTATAAGGGTATTTC-GATTATTTAACCCTATAGGGGTATATCGATCATTTTAC
1 CCTAT-GGGGTATTTCAG-TCATTTTACCCTATAGGGGTATTTCGGTTATTTTAC
**
48056077 CCTATGAGGGTATTTTGGTCATTT
1 CCTATG-GGGTATTTCAGTCATTT
48056101 AACCTATTTT
Statistics
Matches: 205, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.02
53 50 0.24
54 149 0.73
55 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (53 bp):
CCTATGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTTATTTTAC
Found at i:48055969 original size:107 final size:108
Alignment explanation
Indices: 48055828--48056107 Score: 379
Period size: 107 Copynumber: 2.6 Consensus size: 108
48055818 TATAACAGTT
* * * *
48055828 ATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTATG-GGTGTATTTCAGTCATTCTACCCT
1 ATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGG-GTATTTCAGTCATTCTAACCT
* *
48055892 ATAGGGGTATTTCGGTTATTTTACCCTAT-GGGGTATTTCGATC
65 ATAGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATC
* * *
48055935 ATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATGAGGGTATTTCAGTCATTTTAACCTA
1 ATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTAACCTA
* *
48056000 TTGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATT
66 TAGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATC
* * **
48056043 ATTTAACCCTATAGGGGTATATC-GATCATTTTACCCTATGAGGGTATTTTGGTCATT-TAACCT
1 ATTTTACCCTATAGGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCAGTCATTCTAACCT
48056106 AT
65 AT
48056108 TTTAGAGTTT
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 90 0.59
108 63 0.41
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (108 bp):
ATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTAACCTA
TAGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATC
Found at i:48059226 original size:23 final size:24
Alignment explanation
Indices: 48059171--48059226 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
48059161 CAATCTTGGG
48059171 ATGA-TTTGT-AATCTTAGAAGAT
1 ATGATTTTGTAAATCTTAGAAGAT
* *
48059193 ATGGTTCTGTAAATCTTAG-AGAT
1 ATGATTTTGTAAATCTTAGAAGAT
*
48059216 TTGATTTTGTA
1 ATGATTTTGTA
48059227 GATAGTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.11
23 16 0.59
24 8 0.30
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (24 bp):
ATGATTTTGTAAATCTTAGAAGAT
Found at i:48063939 original size:24 final size:25
Alignment explanation
Indices: 48063912--48063972 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
48063902 AGAGTGTCCA
48063912 GTTAATAGCTCTCTTG-AGCTTCCC
1 GTTAATAGCTCTCTTGAAGCTTCCC
*
48063936 GTTATATTG-T-TCTTGCAAGCTTCCC
1 GTTA-ATAGCTCTCTTG-AAGCTTCCC
48063961 GTTAATAGCTCT
1 GTTAATAGCTCT
48063973 TCGGAGCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 5 0.17
24 8 0.27
25 16 0.53
26 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (25 bp):
GTTAATAGCTCTCTTGAAGCTTCCC
Done.