Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 296 of 770
Found at i:90336410 original size:80 final size:80
Alignment explanation
Indices: 90336326--90336477 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
90336316 TATGGTAACC
* * * *
90336326 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90336390 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
90336406 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90336471 CCGGATA
66 CCGGATA
90336478 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90336478 original size:40 final size:38
Alignment explanation
Indices: 90336335--90336479 Score: 146
Period size: 40 Copynumber: 3.7 Consensus size: 38
90336325 CCGCACCAAG
* * * *
90336335 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACGACTAGCAC-AAT
* * * *
90336375 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATA-TACGACTAGCAC-AAT
* *
90336415 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CGACTAGCACAA-T
90336455 GCCTTCGGGTCTTAACCCGGATATA
1 GCCTTCGGGTCTTAACCCGGATATA
90336480 ATTTCCAGCA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 86 0.97
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACGACTAGCACAAT
Found at i:90336495 original size:40 final size:38
Alignment explanation
Indices: 90336370--90336517 Score: 138
Period size: 40 Copynumber: 3.8 Consensus size: 38
90336360 ACGATTTGCA
* *
90336370 CAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-G
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAATTAC-CAG
*** *
90336408 CACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAG
1 CA--AATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
* *
90336448 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAG
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
*
90336488 CATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
90336518 CATTCAATTT
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.02
39 15 0.16
40 74 0.81
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
Found at i:90336501 original size:80 final size:79
Alignment explanation
Indices: 90336367--90336517 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
90336357 ATCACGATTT
*
90336367 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
90336432 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
90336447 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
90336510 CCGGATAT
64 CCGGATAT
90336518 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:90342115 original size:7 final size:7
Alignment explanation
Indices: 90342103--90342127 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90342093 CAGTTGAAAC
90342103 AAAGAAG
1 AAAGAAG
90342110 AAAGAAG
1 AAAGAAG
90342117 AAAGAAG
1 AAAGAAG
90342124 AAAG
1 AAAG
90342128 GGGAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:90346420 original size:15 final size:15
Alignment explanation
Indices: 90346400--90346430 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90346390 ATGCTGAACG
90346400 TGGTATTCCAAAGAT
1 TGGTATTCCAAAGAT
90346415 TGGTATTCCAAAGAT
1 TGGTATTCCAAAGAT
90346430 T
1 T
90346431 TGTTGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TGGTATTCCAAAGAT
Found at i:90349373 original size:21 final size:22
Alignment explanation
Indices: 90349349--90349391 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
90349339 ATATATTCTC
*
90349349 CTTTTTTTTCACG-AATTTTTT
1 CTTTTTTGTCACGAAATTTTTT
90349370 CTTTTTTGTCACGAAATTTTTT
1 CTTTTTTGTCACGAAATTTTTT
90349392 TAACAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.16, C:0.14, G:0.07, T:0.63
Consensus pattern (22 bp):
CTTTTTTGTCACGAAATTTTTT
Found at i:90350850 original size:20 final size:20
Alignment explanation
Indices: 90350802--90350851 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
90350792 AAAAAATAGA
* *
90350802 ATCAAGCTCAATGAGCTATC
1 ATCAAGCTGAATGAGCTACC
90350822 ATCAAGCTGAATTGAGCT-CC
1 ATCAAGCTGAA-TGAGCTACC
90350842 ATCAAGCTGA
1 ATCAAGCTGA
90350852 GTCGAGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCAAGCTGAATGAGCTACC
Found at i:90350858 original size:20 final size:20
Alignment explanation
Indices: 90350802--90350859 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
90350792 AAAAAATAGA
* *
90350802 ATCAAGCTCAAT-GAGCTATC
1 ATCAAGCTGAATCGAGCT-CC
*
90350822 ATCAAGCTGAATTGAGCTCC
1 ATCAAGCTGAATCGAGCTCC
*
90350842 ATCAAGCTGAGTCGAGCT
1 ATCAAGCTGAATCGAGCT
90350860 AAGTTAGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 28 0.85
21 5 0.15
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
ATCAAGCTGAATCGAGCTCC
Found at i:90355399 original size:21 final size:21
Alignment explanation
Indices: 90355375--90355429 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
90355365 TACTTTAGCC
90355375 ATTTATTTTTCTTGCAATT-TTA
1 ATTTATTTTTCTT--AATTATTA
* *
90355397 TTTTA-TTTTCTTATTTATTA
1 ATTTATTTTTCTTAATTATTA
90355417 ATTTATTTTTCTT
1 ATTTATTTTTCTT
90355430 TCTCTTGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 14 0.50
22 4 0.14
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTATTTTTCTTAATTATTA
Found at i:90364055 original size:47 final size:47
Alignment explanation
Indices: 90364001--90364171 Score: 179
Period size: 47 Copynumber: 3.7 Consensus size: 47
90363991 GGCATCCAAA
*
90364001 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAAG
* *** * * *
90364048 CTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTA-AC-AAGGCATCCG-AG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA--CGTCCGAAG
* * *
90364095 CTCGTTGAGTTGAGTCTGAGTTCACTTGTGGATGCGAACG-CCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAAG
*
90364141 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90364172 GCGGGTTACA
Statistics
Matches: 97, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
45 2 0.02
46 37 0.38
47 47 0.48
48 11 0.11
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAAG
Found at i:90364131 original size:94 final size:93
Alignment explanation
Indices: 90363991--90364164 Score: 276
Period size: 94 Copynumber: 1.9 Consensus size: 93
90363981 AGGATATTTG
* *
90363991 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAGCTCGTTGA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
90364056 GTTGAGTCCAAGTTCGAGAGATGTAACAA
65 GTTGAGTCCAAGTTCGAGAGATGTAACAA
* * * *
90364085 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTGTGGATGCGAACGCCCAAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAG
*
90364150 TTGAGTCCGAGTTCG
66 TTGAGTCCAAGTTCG
90364165 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 28 0.38
94 45 0.62
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACAA
Found at i:90365899 original size:14 final size:16
Alignment explanation
Indices: 90365877--90365909 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
90365867 AATGATATAC
90365877 AATTTT-TATGAGATA
1 AATTTTATATGAGATA
90365892 AATTTTATATGAGATA
1 AATTTTATATGAGATA
90365908 AA
1 AA
90365910 GATAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
AATTTTATATGAGATA
Found at i:90367163 original size:29 final size:29
Alignment explanation
Indices: 90367077--90367160 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
90367067 CATAGTATCG
* * * *
90367077 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
90367107 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
90367136 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
90367161 TCTTGTTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.10
29 23 0.48
30 20 0.42
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:90367164 original size:14 final size:15
Alignment explanation
Indices: 90367086--90367164 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
90367076 GTATCTTGGG
*
90367086 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
90367101 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
90367116 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
90367130 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
90367145 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
90367159 TTTCTT
1 TTTCTT
90367165 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:90369757 original size:40 final size:40
Alignment explanation
Indices: 90369709--90369839 Score: 226
Period size: 40 Copynumber: 3.3 Consensus size: 40
90369699 GGACTAAGAT
90369709 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
90369749 CCGAAGGCATTTGTGCTAGTGATTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
* * *
90369789 CCGAAGGTATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
90369829 CCGAAGGCATT
1 CCGAAGGCATT
90369840 CGTGGGAGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
Found at i:90369860 original size:40 final size:40
Alignment explanation
Indices: 90369709--90369864 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
90369699 GGACTAAGAT
*
90369709 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
90369749 CCGAAGGCATTTGTGCTAGTGATTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
90369789 CCGAAGGTATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* **
90369829 CCGAAGGCATTCGTGGGAGTTG-CTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
90369865 ATTCTGAAGG
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:90372718 original size:46 final size:45
Alignment explanation
Indices: 90372662--90372837 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
90372652 TATTTGGGCA
*
90372662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
90372708 TCCGAGCTCGTTGAGTTGAGCCCGTGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
90372755 TCCGAGCTCGTTGAGTTGAG-CCTGAGTTCACTTGTGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCGAA-G
* * *
90372801 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90372838 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.61
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:90372830 original size:93 final size:93
Alignment explanation
Indices: 90372658--90372830 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
90372648 AGGATATTTG
* *
90372658 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
*
90372723 TTGAGCCCGTGTTCGAGAGATGTAACTA
66 TTGAGCCCGAGTTCGAGAGATGTAACTA
* *
90372751 GGCATCCGAGCTCGTTGAGTTGAG-CCTGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
* *
90372815 GTTGAGTCTGAGTTCG
65 GTTGAGCCCGAGTTCG
90372831 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGCCCGAGTTCGAGAGATGTAACTA
Found at i:90375902 original size:13 final size:13
Alignment explanation
Indices: 90375886--90375910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90375876 TGAATAAGAT
90375886 AAAGTATTTTAAA
1 AAAGTATTTTAAA
90375899 AAAGTATTTTAA
1 AAAGTATTTTAA
90375911 TGTGACACGC
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AAAGTATTTTAAA
Found at i:90377550 original size:48 final size:48
Alignment explanation
Indices: 90377479--90377584 Score: 149
Period size: 48 Copynumber: 2.2 Consensus size: 48
90377469 TAGGAAATTC
** * *
90377479 ATTGATTTACCTTCAGGCCATGATATTAGCACTTCGGGTGCAAGCTTT
1 ATTGATTTGGCTTCAGCCCATGATATTAGCACTTCGGGTGCAAGCTCT
***
90377527 ATTGATTTGGCTTCAGCCCATGATATTAGCACTTCGGGTTTGAGCTCT
1 ATTGATTTGGCTTCAGCCCATGATATTAGCACTTCGGGTGCAAGCTCT
90377575 ATTGATTTGG
1 ATTGATTTGG
90377585 TCAACACTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (48 bp):
ATTGATTTGGCTTCAGCCCATGATATTAGCACTTCGGGTGCAAGCTCT
Found at i:90377660 original size:81 final size:81
Alignment explanation
Indices: 90377508--90377660 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
90377498 ATGATATTAG
* * ** ***
90377508 CACTTCGGGTGCAAGCTTTATTGATTTGGCTTCAGCCCATGATATTAGCACTTCGGGTTTGAGCT
1 CACTTCGGGTGCAAGCTTTATTAATTTGGCTTCAGCCCATGATATTAGCACTTCAGGTCAGAAAA
90377573 CTATTGATTTGGTCAA
66 CTATTGATTTGGTCAA
* *
90377589 CACTTTGGGTGCGAGCTTTATTAATTTGGCTTCGAG-CCATGATATTAGCACTTCAGGTGCAGAA
1 CACTTCGGGTGCAAGCTTTATTAATTTGGCTTC-AGCCCATGATATTAGCACTTCAGGT-CAGAA
90377653 AAC-ATTGA
64 AACTATTGA
90377661 GTTAGCTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
81 56 0.92
82 5 0.08
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (81 bp):
CACTTCGGGTGCAAGCTTTATTAATTTGGCTTCAGCCCATGATATTAGCACTTCAGGTCAGAAAA
CTATTGATTTGGTCAA
Found at i:90385487 original size:49 final size:49
Alignment explanation
Indices: 90385427--90385874 Score: 788
Period size: 49 Copynumber: 9.1 Consensus size: 49
90385417 GTATGAGATA
90385427 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
90385476 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
90385525 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
90385574 TATATATGTGATTAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
90385623 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
90385672 AATATATGTGATGAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
90385721 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
90385770 AATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
90385819 TACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
90385868 TATATAT
1 TATATAT
90385875 ATGTGGTAAA
Statistics
Matches: 381, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 381 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:90385998 original size:37 final size:36
Alignment explanation
Indices: 90385948--90386029 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
90385938 AGAAATATGT
90385948 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTACG
1 TCCGGGT-AGACCCGATGACTACGTGTGGAGATTACG
*
90385985 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTA-GACCCGATGACTACGTGTGGAGATTACG
90386022 TCCGGGTA
1 TCCGGGTA
90386030 AGACTTCGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (36 bp):
TCCGGGTAGACCCGATGACTACGTGTGGAGATTACG
Found at i:90387879 original size:41 final size:41
Alignment explanation
Indices: 90387833--90387974 Score: 112
Period size: 41 Copynumber: 3.5 Consensus size: 41
90387823 AGTGCCAAAA
* * * *
90387833 CATAGCCTAAGCTATTTTAATCTCGCACACTAATTGCCTTT
1 CATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCCTTT
** *
90387874 CATAGCCAAAGCTATCTCGGTCTCGCACACTAAGTGCCATAT
1 CATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCC-TTT
** * * *
90387916 -ATAATCGAAGCTAT-TCTAA-ATCGCACACTAAGTGCCATAT
1 CATAGCCAAAGCTATCTC-AATCTCGCACACTAAGTGCC-TTT
*
90387956 -ATAGCCGAAGCTATCTCAA
1 CATAGCCAAAGCTATCTCAA
90387975 ATCATCGTCA
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 36 0.43
41 45 0.54
42 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (41 bp):
CATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCCTTT
Found at i:90387947 original size:40 final size:40
Alignment explanation
Indices: 90387896--90387977 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 40
90387886 TATCTCGGTC
*
90387896 TCGCACACTAAGTGCCATATATAATCGAAGCTAT-TCTAAA
1 TCGCACACTAAGTGCCATATATAACCGAAGCTATCTC-AAA
*
90387936 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAACCGAAGCTATCTCAAA
90387976 TC
1 TC
90387978 ATCGTCAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 37 0.95
41 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAACCGAAGCTATCTCAAA
Found at i:90393386 original size:193 final size:193
Alignment explanation
Indices: 90393057--90393444 Score: 722
Period size: 193 Copynumber: 2.0 Consensus size: 193
90393047 CACATTGGTT
*
90393057 TTGAACCATACATAAAACTTACTCATTCAAACATGCAATATCTGCGTACTTAACCAATACAATTT
1 TTGAACCATACATAAAACTTACTCATTCAAACATACAATATCTGCGTACTTAACCAATACAATTT
* *
90393122 AATCAAAATAACCATTATACAATCGGCTATAAATTCATCATTTACTCCATTACAAAATTGAATCA
66 AATCAAAATAACCATTATACAATCAGCTATAAATTCAGCATTTACTCCATTACAAAATTGAATCA
*
90393187 CAAGACTAACTAGATATGCAAATCAAACCATATACCAAGATTATTAAATGAGCTAGTTATAAG
131 CAAGACTAACCAGATATGCAAATCAAACCATATACCAAGATTATTAAATGAGCTAGTTATAAG
*
90393250 TTGAACCATACATAAAACTTACTCATTCAAACATACAATATCTGTGTACTTAACCAATACAATTT
1 TTGAACCATACATAAAACTTACTCATTCAAACATACAATATCTGCGTACTTAACCAATACAATTT
90393315 AATCAAAATAACCATTATACAATCAGCTATAAATTCAGCATTTACTCCATTACAAAATTGAATCA
66 AATCAAAATAACCATTATACAATCAGCTATAAATTCAGCATTTACTCCATTACAAAATTGAATCA
*
90393380 CAAGACTAACCAGATATGCAAATCAAACCATATACTAAGATTATTAAATGAGCTAGTTATAAG
131 CAAGACTAACCAGATATGCAAATCAAACCATATACCAAGATTATTAAATGAGCTAGTTATAAG
90393443 TT
1 TT
90393445 ATTCATATCA
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 189 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.29
Consensus pattern (193 bp):
TTGAACCATACATAAAACTTACTCATTCAAACATACAATATCTGCGTACTTAACCAATACAATTT
AATCAAAATAACCATTATACAATCAGCTATAAATTCAGCATTTACTCCATTACAAAATTGAATCA
CAAGACTAACCAGATATGCAAATCAAACCATATACCAAGATTATTAAATGAGCTAGTTATAAG
Found at i:90399640 original size:46 final size:46
Alignment explanation
Indices: 90399573--90399750 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
90399563 TGTAACCCGC
* * *
90399573 CCATAAGTGAACTTGGACTCAACTCAATGATCTCGGGTGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATGTTCGTAT
* * *
90399619 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATG-TTCGTAT
* *** ** *
90399665 ACATCTCTCGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGA-TCTCGGATGTTCGTAT
90399712 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGATG
90399751 CCCAAATATC
Statistics
Matches: 106, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATGTTCGTAT
Found at i:90399714 original size:93 final size:93
Alignment explanation
Indices: 90399581--90399752 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
90399571 GCCCATAAGT
* * *** *
90399581 GAACTTGGACTCAACTCAATGATCTCGGGTGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90399646 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
90399674 GAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGA-TCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
90399738 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
90399753 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:90399767 original size:46 final size:44
Alignment explanation
Indices: 90399624--90399767 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
90399614 CGTATCCATA
* *
90399624 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
90399673 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
90399716 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
90399763 AGTGA
1 AGTGA
90399768 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 28 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:90402826 original size:80 final size:80
Alignment explanation
Indices: 90402742--90402890 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90402732 TATGGTAACC
* * * *
90402742 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90402806 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90402822 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90402887 CCGG
66 CCGG
90402891 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90402832 original size:40 final size:38
Alignment explanation
Indices: 90402783--90402890 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90402773 ATCACGATTT
*
90402783 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90402823 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90402863 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90402891 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90410850 original size:80 final size:80
Alignment explanation
Indices: 90410766--90410914 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90410756 TATGGTAACC
* * * *
90410766 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90410830 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90410846 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90410911 CCGG
66 CCGG
90410915 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90410856 original size:40 final size:38
Alignment explanation
Indices: 90410807--90410914 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90410797 ATCACGATTT
*
90410807 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90410847 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90410887 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90410915 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90415341 original size:11 final size:10
Alignment explanation
Indices: 90415313--90415346 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
90415303 AGCCTGTAAG
90415313 TATTCTGAAT
1 TATTCTGAAT
*
90415323 TTTTCTGAAT
1 TATTCTGAAT
90415333 ATATTCTGAAT
1 -TATTCTGAAT
90415344 TAT
1 TAT
90415347 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:90421565 original size:8 final size:8
Alignment explanation
Indices: 90421552--90421582 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
90421542 CTAGATCGGC
90421552 AAAAGCCG
1 AAAAGCCG
90421560 AAAAGCCG
1 AAAAGCCG
*
90421568 AAATGCCG
1 AAAAGCCG
90421576 AAAAGCC
1 AAAAGCC
90421583 TGTATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:90421870 original size:28 final size:28
Alignment explanation
Indices: 90421830--90421894 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
90421820 ATGTACTATT
*
90421830 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATGACCATA
* *
90421858 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATA
90421886 ATACCCCTA
1 ATACCCCTA
90421895 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATA
Found at i:90422100 original size:29 final size:28
Alignment explanation
Indices: 90422000--90422089 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
90421990 AGGAAGCGTC
* *
90422000 CTGGTGGCTA-TGCCACGAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
90422028 CTGGTGGCCCTGCCAC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
90422055 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
90422084 CTGGTG
1 CTGGTG
90422090 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 24 0.44
28 23 0.43
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:90422108 original size:55 final size:56
Alignment explanation
Indices: 90422000--90422114 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
90421990 AGGAAGCGTC
* * *
90422000 CTGGTGGCTATGCCACGAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
90422055 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
90422111 CTGG
1 CTGG
90422115 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:90423283 original size:3 final size:3
Alignment explanation
Indices: 90423275--90423304 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
90423265 GAACTCAAAA
90423275 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
90423305 TTTAAACGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90425511 original size:14 final size:16
Alignment explanation
Indices: 90425492--90425524 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
90425482 TTTCTTTTCC
90425492 ATAAAT-AATA-TAAA
1 ATAAATAAATACTAAA
90425506 ATAAATAAATACTAAA
1 ATAAATAAATACTAAA
90425522 ATA
1 ATA
90425525 GGATAAGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 4 0.24
16 7 0.41
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAATAAATACTAAA
Found at i:90428966 original size:20 final size:20
Alignment explanation
Indices: 90428941--90428991 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
90428931 TGGCTGAGGG
90428941 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
90428961 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
90428981 CACGGGCGTGT
1 CACGGGCGTGT
90428992 GATACTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
CACGGGCGTGTCCCAAGCCA
Found at i:90434690 original size:12 final size:12
Alignment explanation
Indices: 90434673--90434704 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
90434663 GTTAGGCTCA
*
90434673 AGGGGTTTTACT
1 AGGGGTTATACT
90434685 AGGGGTTATACT
1 AGGGGTTATACT
90434697 AGGGGTTA
1 AGGGGTTA
90434705 ATCGTGGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.34
Consensus pattern (12 bp):
AGGGGTTATACT
Found at i:90435643 original size:12 final size:12
Alignment explanation
Indices: 90435615--90435645 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
90435605 AAATTTGCTA
*
90435615 AAAAATAAAAAT
1 AAAAGTAAAAAT
90435627 AAAAGTAAAAAT
1 AAAAGTAAAAAT
90435639 AAAAGTA
1 AAAAGTA
90435646 GTTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAGTAAAAAT
Found at i:90440291 original size:48 final size:48
Alignment explanation
Indices: 90440216--90440329 Score: 192
Period size: 48 Copynumber: 2.4 Consensus size: 48
90440206 TAGTTCTAAG
* * *
90440216 ACACAGGCACATGTATCATCGCCAATGCTATGTCCTAGACATGGTCTT
1 ACACAGGCACATATATCATCGCCAATGCCATGTCCCAGACATGGTCTT
*
90440264 ACATAGGCACATATATCATCGCCAATGCCATGTCCCAGACATGGTCTT
1 ACACAGGCACATATATCATCGCCAATGCCATGTCCCAGACATGGTCTT
90440312 ACACAGGCACATATATCA
1 ACACAGGCACATATATCA
90440330 CCGTGTCACG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
ACACAGGCACATATATCATCGCCAATGCCATGTCCCAGACATGGTCTT
Found at i:90441806 original size:113 final size:113
Alignment explanation
Indices: 90441626--90441846 Score: 298
Period size: 113 Copynumber: 2.0 Consensus size: 113
90441616 GTCCTTGGCT
* ** *
90441626 TGTGTCCTTCACACGGCCATGACACACCCGTCTCCTAGCCCGTGTGCAAAAACATAGACGTTCTA
1 TGTGTCCTTCACACGGCCATGACACACCCGTCTCCTAGCCCATGTAAAAAAACATAGACATTCTA
* * * *
90441691 TTTTTTACGTCAGCATCCCCAAAATGTCACATGGCTAAGGCACACGCC
66 TTTCTAACGTCAGCATCCCCAAAATGTCACACGACTAAGGCACACGCC
** * * * * *
90441739 TGTGTCCTTCATTCGGCCATGACACGCCTGTGTCCTAGCCCATGTAAAAAAACATGGACATTTTA
1 TGTGTCCTTCACACGGCCATGACACACCCGTCTCCTAGCCCATGTAAAAAAACATAGACATTCTA
*
90441804 TTTCTAACGTCAGCATCCCTAAAATGTCACACGACTAAGGCAC
66 TTTCTAACGTCAGCATCCCCAAAATGTCACACGACTAAGGCAC
90441847 GCGTTCGTGT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
113 92 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (113 bp):
TGTGTCCTTCACACGGCCATGACACACCCGTCTCCTAGCCCATGTAAAAAAACATAGACATTCTA
TTTCTAACGTCAGCATCCCCAAAATGTCACACGACTAAGGCACACGCC
Found at i:90442892 original size:46 final size:45
Alignment explanation
Indices: 90442776--90442945 Score: 114
Period size: 46 Copynumber: 3.7 Consensus size: 45
90442766 ATATCTGTGT
* * *
90442776 TGATGCCATGTCCTAGACATGGTTTTACACTGACAC-C-TCTCGTAG-C
1 TGATG-CATGTCCCAGACAT-GTCTTACACTG-CACTCGTCTC-AAGAC
* * ** * *
90442822 CGATGCATGTCACAGACACATCTTACACTG-ACTTATGTCTCAAGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGCAC-T-CGTCTCAAGAC
* * *
90442868 TGATGCATGTCCCAAACATGTCTTATACTAGCACTCGTCTCAATAC
1 TGATGCATGTCCCAGACATGTCTTACACT-GCACTCGTCTCAAGAC
*
90442914 TGATGCCATGCCCCAGACATGGTCTTACACTG
1 TGATG-CATGTCCCAGACAT-GTCTTACACTG
90442946 GCTCTCATAA
Statistics
Matches: 95, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
44 9 0.09
45 13 0.14
46 45 0.47
47 15 0.16
48 11 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
TGATGCATGTCCCAGACATGTCTTACACTGCACTCGTCTCAAGAC
Found at i:90447577 original size:45 final size:45
Alignment explanation
Indices: 90447513--90447604 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
90447503 CAACAACAGG
*
90447513 TATATCATGAAAAGAAAAGGTACCCGTGATCACGTTTGGAGACTC
1 TATATCATGAAAAGAAAAGGTACCCGTGATCACGTCTGGAGACTC
*
90447558 TATATCATGAAAAGAAAAGGTACGCGTGATCACGTCTGGAGACTC
1 TATATCATGAAAAGAAAAGGTACCCGTGATCACGTCTGGAGACTC
90447603 TA
1 TA
90447605 CCTCTTCACG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (45 bp):
TATATCATGAAAAGAAAAGGTACCCGTGATCACGTCTGGAGACTC
Found at i:90450560 original size:46 final size:47
Alignment explanation
Indices: 90450477--90450646 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 47
90450467 TCTTGTAGCC
* * * *
90450477 ATGCATGTCTCAGACACGTCTTACACT-G-ACTTACGTCTCGAGGA-TG
1 ATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCGAAGACAG
* *
90450523 ATGCATGTCCCAGACATGTATTACACTAGCACTCGTCTC-AATACAG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAAGACAG
* * * * * *
90450569 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TGACCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCGAAGACAG
90450617 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
90450647 TCACAAAAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 46 0.45
47 30 0.29
48 23 0.23
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAAGACAG
Found at i:90462033 original size:27 final size:27
Alignment explanation
Indices: 90462011--90462084 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
90462001 GCATATAGTG
*
90462011 AGTCCGCACACTTAGTGCTATATAATC
1 AGTCCGCACACTTAGTGCTATATAATA
*
90462038 AGCTCC-CACACATAGTGCTATATAATCA
1 AG-TCCGCACACTTAGTGCTATATAAT-A
* *
90462066 AATTCGCACACTTAGTGCT
1 AGTCCGCACACTTAGTGCT
90462085 GTACAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
AGTCCGCACACTTAGTGCTATATAATA
Found at i:90469616 original size:96 final size:93
Alignment explanation
Indices: 90469435--90469609 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 93
90469425 GAGGAGTACA
* * * * *
90469435 ATTGATCTCTCACCTGTTGTGAAATGTTATTGTAGTCCAAAAGATCATTAGGGTTTTCAATGTTC
1 ATTGAGCTATCACCTGTTGTGAAATGTTATTGTAGTCCAAAAGATCATAAGGGTTTCCAATGTCC
90469500 AATTAAATATCCAAATAGAGAGAATAAG
66 AATTAAATATCCAAATAGAGAGAATAAG
* * * * *
90469528 ATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAATATCATAAGGGTTTCCGATG
1 ATTGAGCTATCACCTGTTGTGAAATGTTA-T--TGTAGTCCAAAAGATCATAAGGGTTTCCAATG
90469593 TCCAATTAAATATCCAA
63 TCCAATTAAATATCCAA
90469610 CAAGAGAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
93 25 0.36
94 1 0.01
96 43 0.62
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (93 bp):
ATTGAGCTATCACCTGTTGTGAAATGTTATTGTAGTCCAAAAGATCATAAGGGTTTCCAATGTCC
AATTAAATATCCAAATAGAGAGAATAAG
Found at i:90476293 original size:30 final size:30
Alignment explanation
Indices: 90476259--90476319 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90476249 TCCTTAACTC
90476259 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90476289 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90476319 A
1 A
90476320 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90502004 original size:46 final size:45
Alignment explanation
Indices: 90501937--90502110 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 45
90501927 TGTAACCCGC
*
90501937 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
90501983 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
90502033 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
90502075 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
90502111 ATGCTCAACC
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:90502103 original size:92 final size:93
Alignment explanation
Indices: 90501945--90502114 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
90501935 GCCCATAAGT
* *
90501945 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90502010 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
90502038 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90502102 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90502115 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 44 0.59
93 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90504507 original size:15 final size:15
Alignment explanation
Indices: 90504475--90504538 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
90504465 CAAAGATAAC
90504475 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
90504488 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
90504503 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
90504518 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
90504533 AAGAAA
1 AAGAAA
90504539 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:90507599 original size:93 final size:93
Alignment explanation
Indices: 90507440--90507610 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
90507430 CCCCCTAAGT
* *
90507440 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90507505 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
90507533 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90507598 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90507611 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90507607 original size:46 final size:46
Alignment explanation
Indices: 90507435--90507607 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
90507425 GTAACCCCCC
* * * *
90507435 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
90507481 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
90507529 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
90507574 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90507608 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:90514159 original size:40 final size:39
Alignment explanation
Indices: 90513976--90514159 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 39
90513966 ACGACTCGCT
** * *
90513976 CAAATGCCTTCGGGACGAAGCCCGGTTATA-TCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGT-AACTTGCA
* * * *
90514016 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
90514056 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
90514094 CGAATGCCTTC-GAATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
90514135 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
90514160 CATCATTCGA
Statistics
Matches: 113, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 23 0.20
39 20 0.18
40 61 0.54
41 9 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:90521103 original size:28 final size:28
Alignment explanation
Indices: 90521072--90521143 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
90521062 TTGATATTTT
*
90521072 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
90521100 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
90521128 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
90521144 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:90523222 original size:30 final size:32
Alignment explanation
Indices: 90523188--90523251 Score: 96
Period size: 30 Copynumber: 2.0 Consensus size: 32
90523178 AAAAAGTCAA
*
90523188 AATTTAAATAATTTA-CT-ATAAATATGAAAT
1 AATTTAAATAATTTAGCTAATAAATATAAAAT
90523218 AATTTAAATAATTTATGCTAATAAATATAAAAT
1 AATTTAAATAATTTA-GCTAATAAATATAAAAT
90523251 A
1 A
90523252 TTATAAACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.50
32 2 0.07
33 13 0.43
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (32 bp):
AATTTAAATAATTTAGCTAATAAATATAAAAT
Found at i:90524748 original size:46 final size:46
Alignment explanation
Indices: 90524695--90524822 Score: 247
Period size: 46 Copynumber: 2.8 Consensus size: 46
90524685 ATTTGGGCAT
90524695 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
90524741 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
90524787 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90524823 GCGGTTACAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:90527787 original size:15 final size:15
Alignment explanation
Indices: 90527767--90527835 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
90527757 GTATCTTGGG
90527767 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
90527782 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
90527797 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
90527812 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
90527827 TTTCTTTAT
1 TTTCTTTAT
90527836 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:90527836 original size:30 final size:30
Alignment explanation
Indices: 90527758--90527845 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
90527748 CATAGTATCG
* * * *
90527758 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
90527788 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
90527818 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
90527846 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:90540363 original size:87 final size:88
Alignment explanation
Indices: 90540201--90540439 Score: 276
Period size: 86 Copynumber: 2.8 Consensus size: 88
90540191 AATTCATAAG
* *
90540201 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACACCCTAAGCAGTA
* *
90540266 GTGGAGCAGATCGAAGACGAA-GAA
66 GTGGAACAGATCAAAGA-GAATG-A
*
90540290 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG-AG-TTTACAGATCTTAACACCCTAAGCAGTA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACACCCTAAGCAGTA
*
90540353 G-GGAAACAGATCAAAGATAATGA
66 GTGG-AACAGATCAAAGAGAATGA
* * * * * * *
90540376 GCTTTATCCCCTAAGCAGTAGGGTAAC-GAGC-CAA-ATTTACAGACCTTAACCCCCTAAGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACACCCTAAGCAGT
90540438 AG
65 AG
90540440 GGTAATAGGC
Statistics
Matches: 131, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
85 1 0.01
86 57 0.44
87 40 0.31
88 2 0.02
89 31 0.24
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (88 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACACCCTAAGCAGTA
GTGGAACAGATCAAAGAGAATGA
Found at i:90540430 original size:43 final size:42
Alignment explanation
Indices: 90540201--90540444 Score: 163
Period size: 43 Copynumber: 5.6 Consensus size: 42
90540191 AATTCATAAG
*
90540201 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACA-GC-CAA-ATTTACAGA
* * * * *
90540246 TCTTAACCCCCTAAGCAGTAGTGG-AGCAGATCGAA--GACGAAGAA
1 CCTTAACCCCCTAAGCAGTAG-GGTAACAG-CCAAATTTAC--AG-A
* *** *
90540290 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACA-GCCAAATTTACAGA
* * * * **
90540333 TCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATA-ATGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAG-CCAAATTTACA-GA
* * *
90540376 GCTTTATCCCCTAAGCAGTAGGGTAACGAGCCAAATTTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAAC-AGCCAAATTTACAGA
*
90540419 CCTTAACCCCCTAAGTAGTAGGGTAA
1 CCTTAACCCCCTAAGCAGTAGGGTAA
90540445 TAGGCTGAAA
Statistics
Matches: 153, Mismatches: 33, Indels: 28
0.71 0.15 0.13
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 88 0.58
44 33 0.22
45 24 0.16
46 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (42 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGCCAAATTTACAGA
Found at i:90540706 original size:218 final size:218
Alignment explanation
Indices: 90540320--90540928 Score: 970
Period size: 218 Copynumber: 2.8 Consensus size: 218
90540310 GGGTAACAGG
90540320 TTGAGTTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAATGAGCTTTATCC
1 TTGAGTTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAATGAGCTTTATCC
90540385 CCTAAGCAGTAGGGTAACGAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGC
66 CCTAAGCAGTAGGGTAACGAGCCAAATTTACAGACCTTAA-CCCCTAAGTAGTAGGGTAATAGGC
*
90540450 TGAAAATTACAGATCTGGTCTCCTTGAAGTTACAGTGGAACAGATCGAATCCAGCGAATCTTGTC
130 TGAAAATTACAGATCTGGTCTCCCTGAAGTTACAGTGGAACAGATCGAATCCAGCGAATCTTGTC
90540515 TTCCTGAAGTTGCAGTGAAGCAGA
195 TTCCTGAAGTTGCAGTGAAGCAGA
90540539 TTGAGTTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAATGAGCTTTATCC
1 TTGAGTTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAATGAGCTTTATCC
90540604 CCTAAGCAGTAGGGTAACGAGCCAAATTTACAGACCTTAACCCCTAAGTAGTAGGGTAATAGGCT
66 CCTAAGCAGTAGGGTAACGAGCCAAATTTACAGACCTTAACCCCTAAGTAGTAGGGTAATAGGCT
*
90540669 GAAAATTACAGATCTGGTCTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGCGAATCTTGTCT
131 GAAAATTACAGATCTGGTCTCCCTGAAGTTACAGTGGAACAGATCGAATCCAGCGAATCTTGTCT
90540734 TCCTGAAGTTGCAGTGAAGCAGA
196 TCCTGAAGTTGCAGTGAAGCAGA
* * * *
90540757 TTGAAGATCTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAA-AGTGATGGGCTTTA
1 TTG-AG-TTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGA-TAATGAGCTTT-
* * * * * ** *
90540821 ACCCCCTAAACTGTGGGGTAACAAGCTGAATTTACA-AGCCTTAAACCCCTAAGCAGTAGGGTAA
62 ATCCCCTAAGCAGTAGGGTAACGAGCCAAATTTACAGA-CCTT-AACCCCTAAGTAGTAGGGTAA
* * * * *
90540885 TAGGTTGAAAATCACAGATCTTGCCTTCCTGAAGTTACAGTGGA
125 TAGGCTGAAAATTACAGATCTGGTCTCCCTGAAGTTACAGTGGA
90540929 GTAGATCAAA
Statistics
Matches: 364, Mismatches: 20, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
218 114 0.31
219 108 0.30
220 51 0.14
221 33 0.09
222 58 0.16
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (218 bp):
TTGAGTTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAATGAGCTTTATCC
CCTAAGCAGTAGGGTAACGAGCCAAATTTACAGACCTTAACCCCTAAGTAGTAGGGTAATAGGCT
GAAAATTACAGATCTGGTCTCCCTGAAGTTACAGTGGAACAGATCGAATCCAGCGAATCTTGTCT
TCCTGAAGTTGCAGTGAAGCAGA
Found at i:90542542 original size:3 final size:3
Alignment explanation
Indices: 90542534--90542560 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
90542524 TTATTTCTAC
90542534 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
90542561 GATGAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90542658 original size:9 final size:9
Alignment explanation
Indices: 90542644--90542683 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
90542634 CTTTTTATTT
90542644 TTATTTTTA
1 TTATTTTTA
*
90542653 TTATTTCTA
1 TTATTTTTA
*
90542662 TTATTGTTA
1 TTATTTTTA
90542671 TTATATTTTA
1 TTAT-TTTTA
90542681 TTA
1 TTA
90542684 CTATTATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (9 bp):
TTATTTTTA
Found at i:90543218 original size:2 final size:2
Alignment explanation
Indices: 90543211--90543238 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90543201 ATATCTTTTC
90543211 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90543239 TTTAATGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90543375 original size:12 final size:12
Alignment explanation
Indices: 90543358--90543383 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90543348 ATAAACACCG
90543358 TATACATATATA
1 TATACATATATA
90543370 TATACATATATA
1 TATACATATATA
90543382 TA
1 TA
90543384 CAATCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATACATATATA
Found at i:90544986 original size:4 final size:4
Alignment explanation
Indices: 90544975--90545025 Score: 61
Period size: 4 Copynumber: 13.0 Consensus size: 4
90544965 TTATACCCGT
* *
90544975 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TGTA TTT- TCTA TTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
90545022 TTTA
1 TTTA
90545026 ATCACTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 5 0.12
4 31 0.77
5 4 0.10
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:90549223 original size:11 final size:11
Alignment explanation
Indices: 90549207--90549236 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
90549197 TAACATTAAG
90549207 AATATATATAT
1 AATATATATAT
*
90549218 AATATAAATAT
1 AATATATATAT
90549229 AATATATA
1 AATATATA
90549237 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:90549780 original size:17 final size:17
Alignment explanation
Indices: 90549760--90549798 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
90549750 AAAAAAAAAA
*
90549760 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
90549777 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
90549794 AAAAT
1 AAAAT
90549799 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:90550991 original size:72 final size:72
Alignment explanation
Indices: 90550827--90551236 Score: 429
Period size: 72 Copynumber: 5.6 Consensus size: 72
90550817 AGTGTGTGAT
* * *
90550827 CTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTTCGAAAACAGAAATTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------ATTTT-GAAAACAGAAATTGAAAA
*
90550892 TACCTCAACGTGTC
59 TACCTCAGCGTGTC
* ** *
90550906 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
90550971 GCGTGTC
66 GCGTGTC
* * * *
90550978 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT----TCAAAAATTGAAAATACCTCG
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
90551038 GCGTGTGAC
66 GCGTGT--C
* * * * * * *
90551047 CTGAGGCTCAACTCGCCGCTTGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCT
90551112 CAGCGTGTC
64 CAGCGTGTC
* * *
90551121 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-ATTAAAACACAAAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA-ACAGAAATTGAAAATACCTC
*
90551185 AGCGTGAC
65 AGCGTGTC
* * *
90551193 CTGAGGTTCGACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
90551237 ACAAAAATAA
Statistics
Matches: 278, Mismatches: 42, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
67 23 0.08
69 30 0.11
71 11 0.04
72 125 0.45
73 4 0.01
74 32 0.12
76 23 0.08
79 30 0.11
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (72 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTC
Found at i:90551119 original size:143 final size:145
Alignment explanation
Indices: 90550882--90551231 Score: 455
Period size: 143 Copynumber: 2.4 Consensus size: 145
90550872 TCGAAAACAG
* * ** * *
90550882 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--AT
1 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
90550943 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
***
90551008 GTTG-ATT-TTTCAA
131 GTTGAATTAACACAA
* * * * *
90551021 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTTGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
* *
90551086 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
90551151 GTTGAAATTAAAACACAA
131 GTTG-AATT--AACACAA
* *
90551169 AAATTGAAAATACCTCAGC--GTGACCTGAGGTTCGACTCACCTCTAGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
90551232 GAAAAACAAA
Statistics
Matches: 180, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
139 21 0.12
141 29 0.16
143 68 0.38
145 3 0.02
146 38 0.21
148 21 0.12
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (145 bp):
AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGAATTAACACAA
Found at i:90558459 original size:46 final size:46
Alignment explanation
Indices: 90558399--90558672 Score: 442
Period size: 46 Copynumber: 6.0 Consensus size: 46
90558389 TTTGACATGA
* * * * * *
90558399 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
90558445 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90558491 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90558537 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90558583 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90558629 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
90558673 AGAGCACACT
Statistics
Matches: 216, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 212 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:90560821 original size:11 final size:11
Alignment explanation
Indices: 90560805--90560856 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
90560795 TATACTAAAT
90560805 AAATAATAATA
1 AAATAATAATA
*
90560816 AAATAAT-ATT
1 AAATAATAATA
* *
90560826 AAATATCTCATA
1 AAATA-ATAATA
*
90560838 AAATATTAATA
1 AAATAATAATA
90560849 AAATAATA
1 AAATAATA
90560857 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:90563233 original size:12 final size:12
Alignment explanation
Indices: 90563213--90563244 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
90563203 TGGGATATGC
*
90563213 AATGTATGAATG
1 AATGCATGAATG
90563225 AATGCATGAATG
1 AATGCATGAATG
90563237 AATGCATG
1 AATGCATG
90563245 TTAGTTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:90567473 original size:11 final size:11
Alignment explanation
Indices: 90567457--90567486 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
90567447 TAACATTAAG
90567457 AATATATATAT
1 AATATATATAT
*
90567468 AATATAAATAT
1 AATATATATAT
90567479 AATATATA
1 AATATATA
90567487 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:90568030 original size:17 final size:17
Alignment explanation
Indices: 90568010--90568048 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
90568000 AAAAAAATAA
*
90568010 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
90568027 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
90568044 AAAAT
1 AAAAT
90568049 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:90569567 original size:129 final size:130
Alignment explanation
Indices: 90569376--90569705 Score: 415
Period size: 129 Copynumber: 2.6 Consensus size: 130
90569366 TAATTATTTA
* * *
90569376 TTTAAAAATTCTTAAAACAAAGGCAATGTTCGATGTTTGGCAACTCGGAGAATCGTGCCCTATCG
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGA-GTTTGGCAATTCGGGGAATCGTGCCCTATCG
* *
90569441 TGCTGGGTTGCAATTTCCAGTTT-GTTCAAAACAATCGAATATCCCTTTGGAATTTTACTCATG-
65 TGCTGGGTTGCAATTTCCAGTTTAG-TCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGT
90569504 TC
129 TC
* *
90569506 TTTAAAAATTCTTCAAAACGAAGGTAATGTTTGA-TTTGGCAATTCGGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGAGTTTGGCAATTCGGGGAATCGTGCCCTATCG
* * * *
90569570 TGCTAGGTTGCAATTTCCCGTTTAGTCAAAATAATCGAATATCCCTTTAGAATTTCACTCGTGTT
65 TGCTGGGTTGCAATTTCCAGTTTAGTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGTT
90569635 C
130 C
* * * * *
90569636 TCT--AAATTC-TAAAATG-AGGCAATGTTCGATGTTTAGAAATTCGAGGAATCGTGCCCTA-CT
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGA-GTTTGGCAATTCGGGGAATCGTGCCCTATC-
90569696 GTGCTGGGTT
64 GTGCTGGGTT
90569706 TCGGTTTTTT
Statistics
Matches: 175, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
125 11 0.06
126 6 0.03
127 34 0.19
128 6 0.03
129 83 0.47
130 18 0.10
131 17 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (130 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGAGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCCAGTTTAGTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGTTC
Found at i:90571731 original size:6 final size:6
Alignment explanation
Indices: 90571720--90571749 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
90571710 TTTTTTATAT
90571720 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
90571750 TAAAATGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:90573815 original size:30 final size:32
Alignment explanation
Indices: 90573772--90573847 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 32
90573762 TAATTTTATC
* * *
90573772 ATTTTAATAATTTTTAAAGGG-TTAAATTA-A
1 ATTTTTATTATTTTTAAAGGGATTAAAGTATA
90573802 ATTTTTATTATTTTT--AGGGATTAAAGTATA
1 ATTTTTATTATTTTTAAAGGGATTAAAGTATA
*
90573832 A-TTTTATTATTATTAA
1 ATTTTTATTATTTTTAA
90573848 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.11
29 19 0.50
30 15 0.39
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (32 bp):
ATTTTTATTATTTTTAAAGGGATTAAAGTATA
Found at i:90581211 original size:2 final size:2
Alignment explanation
Indices: 90581204--90581240 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
90581194 GCATAAGATG
90581204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90581241 GTGACTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90581365 original size:40 final size:39
Alignment explanation
Indices: 90581301--90581392 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 39
90581291 TGCGTTTCAA
* * *
90581301 AATAGCTTCGGCTATAAATAGCACTTAGTGTGCGA-ATTGG
1 AATAGCTTCGGCTAT-AATAGCACTAAGTATGCGATACT-G
90581341 AATAGCTTCGGCTAT-ATGAGGCACTAAGTATGCGATACTG
1 AATAGCTTCGGCTATAAT-A-GCACTAAGTATGCGATACTG
90581381 AGATAGCTTCGG
1 A-ATAGCTTCGG
90581393 TTTAAATGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 30 0.67
41 12 0.27
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (39 bp):
AATAGCTTCGGCTATAATAGCACTAAGTATGCGATACTG
Found at i:90583382 original size:64 final size:64
Alignment explanation
Indices: 90583276--90583409 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 64
90583266 TTAATTCTTA
* *
90583276 GTTTAATATTTCTAGAATATTGATCCATGTTTGATCTACTTAAATCAAAGGTTGAATAGACCCT
1 GTTTAATATTTCTAGAATATTAATCCATGTTTGATCTACTTAAATCAAAGGTTAAATAGACCCT
* * * *
90583340 GTTTAATATTTTTAGAGTATTAATCCATGTTTGATGTGCTTAAATCAAAGGTTAAATAGACCCT
1 GTTTAATATTTCTAGAATATTAATCCATGTTTGATCTACTTAAATCAAAGGTTAAATAGACCCT
90583404 GTTTAA
1 GTTTAA
90583410 GAGTAGATCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (64 bp):
GTTTAATATTTCTAGAATATTAATCCATGTTTGATCTACTTAAATCAAAGGTTAAATAGACCCT
Found at i:90586020 original size:18 final size:19
Alignment explanation
Indices: 90585994--90586033 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
90585984 TCGGATCACC
90585994 TTTGCTTTAATAAAAC-GT
1 TTTGCTTTAATAAAACGGT
* *
90586012 TTTGGTTTATTAAAACGGT
1 TTTGCTTTAATAAAACGGT
90586031 TTT
1 TTT
90586034 TTTGGTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (19 bp):
TTTGCTTTAATAAAACGGT
Found at i:90586918 original size:2 final size:2
Alignment explanation
Indices: 90586911--90586949 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
90586901 TAAAAATAGA
90586911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90586950 AGAAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90586972 original size:26 final size:26
Alignment explanation
Indices: 90586943--90587015 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
90586933 ATATATATAT
* * *
90586943 ATATATAAGAAATTTTAAAATAGGTA
1 ATATATGAGAAAATTTAAAATAAGTA
* * * *
90586969 ATATAGGTGAAAGTTTGAAATAAGTA
1 ATATATGAGAAAATTTAAAATAAGTA
90586995 ATATATGAGAAAAATTTAAAA
1 ATATATGAG-AAAATTTAAAA
90587016 AAAACAGATG
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 27 0.75
27 9 0.25
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (26 bp):
ATATATGAGAAAATTTAAAATAAGTA
Found at i:90587233 original size:22 final size:22
Alignment explanation
Indices: 90587200--90587260 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
90587190 ATAATACGTG
* *
90587200 AAAA-AATCTAAAGTAAATAAT
1 AAAACAATTTAAAATAAATAAT
*
90587221 AAAACAATTTAAAATGAATAAT
1 AAAACAATTTAAAATAAATAAT
90587243 ACATAACAAATTTAAAAT
1 A-A-AAC-AATTTAAAAT
90587261 GAACAATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 15 0.45
23 1 0.03
24 3 0.09
25 10 0.30
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAACAATTTAAAATAAATAAT
Found at i:90587254 original size:25 final size:25
Alignment explanation
Indices: 90587163--90587263 Score: 84
Period size: 25 Copynumber: 4.0 Consensus size: 25
90587153 TAAAAAATAG
* *
90587163 ATAATACATATAAAAAATTTGAAATTA
1 ATAATAC--ATAAAAAATTTAAAATGA
* * *
90587190 ATAATACGTGAAAAAATCT-AAA-GT
1 ATAATACAT-AAAAAATTTAAAATGA
90587214 A-AATA-ATAAAACAATTTAAAATGA
1 ATAATACATAAAA-AATTTAAAATGA
*
90587238 ATAATACATAACAAATTTAAAATGA
1 ATAATACATAAAAAATTTAAAATGA
90587263 A
1 A
90587264 CAATGTACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.07
22 5 0.08
23 7 0.12
24 3 0.05
25 21 0.35
26 13 0.22
27 7 0.12
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAATACATAAAAAATTTAAAATGA
Found at i:90587611 original size:22 final size:22
Alignment explanation
Indices: 90587583--90587626 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
90587573 CTTGAGGGAT
90587583 TGATTGGGAAATATTCCCAATC
1 TGATTGGGAAATATTCCCAATC
90587605 TGATTGGGAAATATTCCCAATC
1 TGATTGGGAAATATTCCCAATC
90587627 CCTTTATGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (22 bp):
TGATTGGGAAATATTCCCAATC
Found at i:90590785 original size:9 final size:9
Alignment explanation
Indices: 90590771--90590804 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
90590761 AACTTCCCAG
90590771 TTTTTATTT
1 TTTTTATTT
90590780 TTTTTATTT
1 TTTTTATTT
90590789 TTTTT-TTT
1 TTTTTATTT
90590797 ATTTTTAT
1 -TTTTTAT
90590805 AATTTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.13
9 19 0.83
10 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:90590794 original size:12 final size:12
Alignment explanation
Indices: 90590777--90590802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90590767 CCAGTTTTTA
90590777 TTTTTTTTATTT
1 TTTTTTTTATTT
90590789 TTTTTTTTATTT
1 TTTTTTTTATTT
90590801 TT
1 TT
90590803 ATAATTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:90597427 original size:26 final size:26
Alignment explanation
Indices: 90597391--90597526 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
90597381 TGATACAAAT
90597391 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90597417 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90597443 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90597469 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90597495 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90597521 TGATAA
1 TGATAA
90597527 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:90599067 original size:26 final size:26
Alignment explanation
Indices: 90599015--90599067 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
90599005 TTTACAGTTT
*
90599015 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
90599041 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
90599067 T
1 T
90599068 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:90601268 original size:26 final size:26
Alignment explanation
Indices: 90601237--90601344 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90601227 TGAAATGCCC
*
90601237 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90601263 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90601289 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90601315 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90601341 ATCA
1 ATCA
90601345 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90604606 original size:17 final size:18
Alignment explanation
Indices: 90604561--90604606 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
90604551 ATTACTCATC
90604561 TATTTATA-TTTCTTATG
1 TATTTATATTTTCTTATG
90604578 TATTTATATTTTCATTAT-
1 TATTTATATTTTC-TTATG
90604596 TA-TTATATTTT
1 TATTTATATTTT
90604607 AGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTCTTATG
Found at i:90604612 original size:26 final size:26
Alignment explanation
Indices: 90604583--90604680 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
90604573 TTATGTATTT
90604583 ATATTTTCATTATTATTATATTTTAG
1 ATATTTTCATTATTATTATATTTTAG
*
90604609 ATATTAT-ATCTA-TATT-TATATTTAG
1 ATATTTTCAT-TATTATTATAT-TTTAG
* *
90604634 GTATTAATATCATTATT-TTACTATTGTTAT
1 ATATT--T-TCATTATTATTA-TATT-TTAG
90604664 AT-TTTTCA-TATTATTAT
1 ATATTTTCATTATTATTAT
90604681 TATTATCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
24 3 0.05
25 20 0.36
26 14 0.25
27 1 0.02
28 5 0.09
29 6 0.11
30 7 0.12
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATTTTCATTATTATTATATTTTAG
Found at i:90604693 original size:18 final size:18
Alignment explanation
Indices: 90604672--90604717 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
90604662 ATATTTTTCA
*
90604672 TATTATTATTATTATCAC
1 TATTATTATTATTAGCAC
*
90604690 TATTATTACTATTAGCAC
1 TATTATTATTATTAGCAC
*
90604708 TATTTTTATT
1 TATTATTATT
90604718 TGCTATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATTATTATTAGCAC
Found at i:90605916 original size:24 final size:24
Alignment explanation
Indices: 90605888--90605947 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
90605878 AACCGTATTT
* * *
90605888 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
90605912 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
90605936 GCACACATAGTG
1 GCACACATAGTG
90605948 TATTGGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:90618475 original size:3 final size:3
Alignment explanation
Indices: 90618467--90618504 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
90618457 ATCTACTCAC
90618467 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
90618505 ATCTTCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:90618940 original size:33 final size:30
Alignment explanation
Indices: 90618860--90618942 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 30
90618850 ATTTTTATTT
* *
90618860 TTATTACTATTATCATTTTTTTAAATTATTA
1 TTATTATTATTAT-ATTTTTTTAAATTATCA
* *
90618891 TTACTATTA-TATTATTTGTTATTTAATATATCA
1 TTATTATTATTA-TATTT-TT-TTAAAT-TATCA
90618924 TTATTATTATTATATTTTT
1 TTATTATTATTATATTTTT
90618943 ACTACTACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
30 6 0.14
31 10 0.24
32 7 0.17
33 17 0.40
34 2 0.05
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (30 bp):
TTATTATTATTATATTTTTTTAAATTATCA
Found at i:90619102 original size:17 final size:18
Alignment explanation
Indices: 90619057--90619102 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
90619047 ATTACTCATC
90619057 TATTTATA-TTTCTTATG
1 TATTTATATTTTCTTATG
90619074 TATTTATATTTTCATTAT-
1 TATTTATATTTTC-TTATG
90619092 TA-TTATATTTT
1 TATTTATATTTT
90619103 AGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTCTTATG
Found at i:90619108 original size:26 final size:26
Alignment explanation
Indices: 90619079--90619176 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
90619069 TTATGTATTT
90619079 ATATTTTCATTATTATTATATTTTAG
1 ATATTTTCATTATTATTATATTTTAG
*
90619105 ATATTAT-ATCTA-TATT-TATATTTAG
1 ATATTTTCAT-TATTATTATAT-TTTAG
* *
90619130 GTATTAATATCATTATT-TTACTATTGTTAT
1 ATATT--T-TCATTATTATTA-TATT-TTAG
90619160 AT-TTTTCA-TATTATTAT
1 ATATTTTCATTATTATTAT
90619177 TATTATCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
24 3 0.05
25 20 0.36
26 14 0.25
27 1 0.02
28 5 0.09
29 6 0.11
30 7 0.12
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATTTTCATTATTATTATATTTTAG
Found at i:90619189 original size:18 final size:18
Alignment explanation
Indices: 90619168--90619213 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
90619158 ATATTTTTCA
*
90619168 TATTATTATTATTATCAC
1 TATTATTATTATTAGCAC
*
90619186 TATTATTACTATTAGCAC
1 TATTATTATTATTAGCAC
*
90619204 TATTTTTATT
1 TATTATTATT
90619214 TGCTATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATTATTATTAGCAC
Found at i:90622657 original size:38 final size:38
Alignment explanation
Indices: 90622615--90622694 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
90622605 TATTATTAAT
90622615 TTTAAATTTTATAAATTATAAAAAACCTAAATTAAAAA
1 TTTAAATTTTATAAATTATAAAAAACCTAAATTAAAAA
*
90622653 TTTAAATTTTATAAATTATAAAAAATCTAAATTAAAAA
1 TTTAAATTTTATAAATTATAAAAAACCTAAATTAAAAA
90622691 TTTA
1 TTTA
90622695 CTATTTTAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (38 bp):
TTTAAATTTTATAAATTATAAAAAACCTAAATTAAAAA
Found at i:90630608 original size:24 final size:24
Alignment explanation
Indices: 90630531--90630670 Score: 79
Period size: 25 Copynumber: 5.6 Consensus size: 24
90630521 ATTTTATATA
* * *
90630531 TATTATGTATATATTTTTTAATGC
1 TATTATGTATATATTCTTAAATAC
* ** *
90630555 CATTA-GTTATATATTTCTTATGTATT
1 TATTATG-TATATA-TTCTTAAATA-C
90630581 TATTATGTATATATTCTTAAATAC
1 TATTATGTATATATTCTTAAATAC
* * *
90630605 TATTATATATATATATATATATATA-
1 TATTATGTATATAT-TCT-TAAATAC
*
90630630 TATATATATATATATT-TTAAATACC
1 TAT-TATGTATATATTCTTAAATA-C
*
90630655 ATATTGTGTATATATT
1 -TATTATGTATATATT
90630671 ATTATTACAA
Statistics
Matches: 89, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
23 6 0.07
24 24 0.27
25 29 0.33
26 29 0.33
27 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (24 bp):
TATTATGTATATATTCTTAAATAC
Found at i:90630613 original size:2 final size:2
Alignment explanation
Indices: 90630608--90630644 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
90630598 TAAATACTAT
90630608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90630645 TTTAAATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90630752 original size:2 final size:2
Alignment explanation
Indices: 90630740--90630793 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
90630730 TTTTATGTAC
* * *
90630740 AT AT GT AT AT AT AT AT GT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90630782 AT AT AT AT AT AT
1 AT AT AT AT AT AT
90630794 TTACATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90630816 original size:13 final size:13
Alignment explanation
Indices: 90630798--90630839 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
90630788 ATATATTTAC
*
90630798 ATATTATTATTTT
1 ATATTATTATTGT
*
90630811 ATATTATTGTTGT
1 ATATTATTATTGT
*
90630824 ATATTTTTA-TGT
1 ATATTATTATTGT
90630836 ATAT
1 ATAT
90630840 ATTTTTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
ATATTATTATTGT
Found at i:90630842 original size:14 final size:15
Alignment explanation
Indices: 90630823--90630851 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90630813 ATTATTGTTG
90630823 TATA-TTTTTATGTA
1 TATATTTTTTATGTA
90630837 TATATTTTTTATGTA
1 TATATTTTTTATGTA
90630852 CGTTTCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TATATTTTTTATGTA
Found at i:90641124 original size:72 final size:72
Alignment explanation
Indices: 90640910--90642296 Score: 555
Period size: 72 Copynumber: 18.0 Consensus size: 72
90640900 TTTTCAAGGG
* * *
90640910 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCTG
90640975 TTTTC--A
65 TTTTCAAA
* * * *
90640981 AAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAATTTTTGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGT
90641045 CTTTCAAA
66 -TTTCAAA
*
90641053 AAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGT
*
90641118 TGTCAAA
66 TTTCAAA
* * * * *
90641125 AAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCAACGC-GAGGTATTTTCAATTTCC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC-ACGCTGAGGTA-TTTCAATTTCT
90641189 GTTTTTCAATTTCTGCTTTTCA
64 G-TTTTCAA------------A
** * * * * * * * * *
90641211 AAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTTTT
1 AAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGG---ACACGCTGAGGTATT
90641272 TCAATTTCTGTTTTCAAA
55 TCAATTTCTGTTTTCAAA
* * *
90641290 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATCATACACTGAAGTATTTTTTTCAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-C--ACGCTGAGGTA----TTTCAA
90641354 TTT-TGTTTT--AA
59 TTTCTGTTTTCAAA
* * ** **
90641365 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGAGTCACATATCGAGGTATTTTCAAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACAC-GCT-GAGGTA-TTTCAATTT
**
90641429 CAACTTTTCAAGTTAAGTTTCA
62 C-TGTTTTC-----AA-----A
* * *
90641451 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGGCTGAGCTAATTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-GCTGAGGT-ATTTCAATTTC
*
90641515 TGTTGTCAAAA
63 TGTTTTC-AAA
* * * *
90641526 AAACCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA-TTTCAATTTC
* *
90641591 CGTTTTTCAAT
63 TG-TTTTCAAA
*** *** * * * * * * * * * ** *
90641602 TTCTGCCTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAG-TTGA-GCCTTGGCTCACGCGCT
1 AAAT-CAACTC----ATATTG-C-GAGA--G-GTGAGTTGAGCCTCAGGAC-ACGCTGA-G-G-T
***
90641665 -GAGCTAATTTTAATTTCTGTTTTC--A
52 ATTTC-AATT------TCTGTTTTCAAA
* *
90641690 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAA--TCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCTG
90641753 TTTTC-AA
65 TTTTCAAA
* ** * * *
90641760 AATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCTG
90641825 TTTTC-AA
65 TTTTCAAA
* ** * *
90641832 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAATTTCTGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGT
90641897 TTTCAAA
66 TTTCAAA
* **
90641904 AAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATACTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA-TTTCAATTT
90641968 CTGTTTTCAAAA
62 CTGTTTTC-AAA
* * *
90641980 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTAC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA--------T--
* *
90642045 TTCAATTTATATTTTTC-AA
54 TTCAATTTCT-GTTTTCAAA
* * **
90642064 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGAGTCACATATCGAGGTATTTTCAAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACAC-GCT-GAGGTA-TTTC---A-
*
90642128 CTACTTTTCAAGTTAAGTTTC-AA
58 --A--TTTC-TG-T---TTTCAAA
* ***
90642151 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATATTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTCTG
90642216 TCTTTCAAAA
65 T-TTTC-AAA
** * * * *
90642226 AAATCAGGTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGCTTTCCATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCTG
90642289 TTCTTCAA
65 TT-TTCAA
90642297 TTTCTGTGTT
Statistics
Matches: 1011, Mismatches: 172, Indels: 265
0.70 0.12 0.18
Matches are distributed among these distances:
69 22 0.02
70 85 0.08
71 41 0.04
72 176 0.17
73 83 0.08
74 30 0.03
75 133 0.13
76 73 0.07
77 27 0.03
78 20 0.02
79 23 0.02
80 7 0.01
81 8 0.01
82 9 0.01
83 18 0.02
84 50 0.05
85 44 0.04
86 75 0.07
87 47 0.05
88 1 0.00
90 7 0.01
91 13 0.01
92 14 0.01
93 5 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGT
TTTCAAA
Found at i:90641196 original size:14 final size:14
Alignment explanation
Indices: 90641177--90641211 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
90641167 ACGCGAGGTA
*
90641177 TTTTCAATTTCCGT
1 TTTTCAATTTCCGC
*
90641191 TTTTCAATTTCTGC
1 TTTTCAATTTCCGC
90641205 TTTTCAA
1 TTTTCAA
90641212 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGC
Found at i:90641396 original size:75 final size:72
Alignment explanation
Indices: 90641190--90642030 Score: 324
Period size: 75 Copynumber: 11.0 Consensus size: 72
90641180 TCAATTTCCG
* *
90641190 TTTTTCAATTTCTGCTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTTCAATTTCTG-TTTT----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGA
* *
90641255 TCACGCGCTGAGC
60 TCACACACTGAGC
*
90641268 TTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAT
1 TTTTTCAATTTCTGTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATCAC
*
90641333 ACACTGAAGTATT
64 ACACTG-AG---C
90641346 TTTTTCAATTT-TGTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GAGTCAC
1 TTTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGA-TCAC
* *
90641408 ATA-TCGAGGTA
64 ACACT-GA-G-C
* **
90641419 TTTTCAAAATCAACTTTTCAAGTTAAGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTT-----TCAA--TTTC-TGTT---TTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-
* * **
90641484 CTTGGCTCAC-GGCTGAGC
54 CTTAGATCACACACTGAGC
* * * * * * *
90641502 TAATTTCAATTTCTGTTGTCAAAAAAACCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTC
1 T-TTTTCAATTTCTGTT-T-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATC
* * *
90641567 ACACGCCGAGG
62 ACACACTGAGC
* ** ** ** * * * * * *
90641578 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAATCGACTCATATTGCGAGAGGTGA
1 T-TTTTCAATTTCTGTTTTAAAAAATC-AAC--TC----ATATTG-C-GAGA--G-GTGAGTTGA
* * * *
90641643 GTTGAGCCTTGGCTCACGCGCTGAGC
53 G------CTTAGATCACACACTGAGC
* * * **
90641669 TAATTTT-AATTTCTGTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGAC
1 T--TTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCAC
*
90641731 ACACTGAGG
64 ACACTGAGC
* * * ** * * *
90641740 TAATTTCAA--TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCA-A-GAC
1 T-TTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTAGATCAC
** *
90641801 ACGTTGAGG
64 ACACTGAGC
* * * ** * *
90641810 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 T-TTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCAC
** *
90641873 ACGTTGAGG
64 ACACTGAGC
* * ** *
90641882 TATTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCAC
1 TTTTTCAATTTCTGTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCAC
* *
90641947 ATACTGAGG
64 ACACTGAGC
90641956 TATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 T-TTTTCAATTTCTGTTTT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATC
90642021 ACACACTGAG
62 ACACACTGAG
90642031 GTATTTTTTT
Statistics
Matches: 604, Mismatches: 101, Indels: 118
0.73 0.12 0.14
Matches are distributed among these distances:
69 8 0.01
70 51 0.08
71 31 0.05
72 96 0.16
73 8 0.01
74 61 0.10
75 101 0.17
76 72 0.12
77 16 0.03
78 37 0.06
79 5 0.01
80 3 0.00
81 5 0.01
82 5 0.01
83 7 0.01
84 3 0.00
85 5 0.01
86 50 0.08
87 3 0.00
89 1 0.00
90 5 0.01
91 26 0.04
92 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACAC
ACTGAGC
Found at i:90641556 original size:161 final size:163
Alignment explanation
Indices: 90641283--90642100 Score: 524
Period size: 161 Copynumber: 5.3 Consensus size: 163
90641273 CAATTTCTGT
* * ** *
90641283 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCATACACTGAAG-TATT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTG-AGCTA--
* * *
90641346 TTTTTCAATTT-TGTT-TTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA-GTCAC
61 -ATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGTCAC
* *
90641408 ATATCGAGGTATTTTCAAAATCAACTTTTCAAGTTAAG-
125 ACACCGAGGTATTTTCAAAATCAACTTTTCAAGTTAAGC
90641446 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG-GCTGAGCTAATTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAATTTC
* * * *
90641509 AATTTCTGTTGTCAAAAAAACCAACTCGTATTGCGAGAGGCGAGTTGAGCC-TCAGGTCACACGC
66 AATTTCTGTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGTCACACAC
** *** * **
90641573 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
129 CGAGGTATTTTCAAAATCAACTTTTCAAGTTAAG-C
*
90641609 TTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAATT
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAATT
* * *
90641674 TTAATTTCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TC-GG-GACACAC
64 TCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGTCACACAC
* *
90641735 TGAGGTAATTTC--AAT---C---T---G-T----
129 CGAGGTATTTTCAAAATCAACTTTTCAAGTTAAGC
* ** * ** * * *
90641754 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACC-T--CAAGACACGTTGAGGTAATTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTAATTT
* * ** * ***
90641816 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-TCAAG--ACACGTT
65 CAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGTCACACACC
*
90641878 GAGGTA--TT-----TCAA--TTTC----T--GT
130 GAGGTATTTTCAAAATCAACTTTTCAAGTTAAGC
* * * *** * *
90641897 TTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATACTGAGGTATTTT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAATTT
* *
90641962 CAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA
65 CAATTTCTGTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGTCACACA
* ** ** * **
90642026 CTGAGGTATTTT---TTTTTAC--TTCAATTTATATT
128 CCGAGGTATTTTCAAAATCAACTTTTCAAGTTA-AGC
90642058 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
90642101 AGTCACATAT
Statistics
Matches: 532, Mismatches: 78, Indels: 93
0.76 0.11 0.13
Matches are distributed among these distances:
137 1 0.00
140 3 0.01
141 29 0.05
142 46 0.09
143 36 0.07
144 31 0.06
145 4 0.01
146 27 0.05
147 1 0.00
148 34 0.06
150 12 0.02
152 2 0.00
154 6 0.01
157 9 0.02
158 5 0.01
159 3 0.01
160 45 0.08
161 107 0.20
162 18 0.03
163 10 0.02
164 34 0.06
166 44 0.08
167 25 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (163 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAATTTC
AATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGGTCACACACCG
AGGTATTTTCAAAATCAACTTTTCAAGTTAAGC
Found at i:90641680 original size:91 final size:90
Alignment explanation
Indices: 90641505--90641687 Score: 228
Period size: 91 Copynumber: 2.0 Consensus size: 90
90641495 GCTGAGCTAA
*
90641505 TTTCAATTTCTGTTGTCAAAAAAACCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
*
90641570 CGCCGAGGTATTTTCAATTTCCGTT
66 CGCCGAGCTATTTTCAATTTCCGTT
* * * *
90641595 TTTCAATTTCTGCCTT-TCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTCAATTTCTG--TTGTCAAAAAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TC
* * *
90641658 ACGCGCTGAGCTAATTTT-AATTTCTGTT
63 ACACGCCGAGCT-ATTTTCAATTTCCGTT
90641686 TT
1 TT
90641688 CAAAATCAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
90 14 0.17
91 59 0.74
92 7 0.09
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CGCCGAGCTATTTTCAATTTCCGTT
Found at i:90641847 original size:142 final size:143
Alignment explanation
Indices: 90641664--90642262 Score: 481
Period size: 160 Copynumber: 3.9 Consensus size: 143
90641654 GCTCACGCGC
* * **
90641664 TGAGCTAATTTTAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TGAGGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
90641729 ACACACTGAGGTAATTTCAA-TCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAA
66 ACACACTGAGGT-ATTTCAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAA
*
90641792 CCTCAAG-ACACGT-
130 CCTC-AGTACACATA
**
90641805 TGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
1 TGAGGTAATTTCAATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
** * **
90641870 GACACGTTGAGGTATTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGA
65 GACACACTGAGGTATTTCAA-TTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
* * *
90641935 GCCTCGGTTCACATA
129 ACCTCAGTACACATA
* *
90641950 CTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 -TGAGGTAATTTCAATTTCTGTTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
90642015 CAGATCACACACTGAGGTATTTTTTTTTACTTCAATTTATATTTTTC-AAAAATCAACTCATATT
62 CA-A-GACACACTGAGGTA--------T--TTCAA-TTCT-GTTTTCAAAAAATCAACTCATATT
** * *
90642079 GCGAGAGGTGAGTTGAGCCTTGAGT-CACATA
113 GCGAGAAATGAGTTGAACC-TCAGTACACATA
* *
90642110 TCGAGGTATTTTCAAAATCTACTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGT
1 T-GAGGTAATTTC---A---A--TTTC-TG-T---TTTC-AAAATCAACTCATATTGCGAGAGGT
* * **
90642175 GAGTTGAGCCTCAAGACATATTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGGTCATAT
51 GAGTTGAGCCTCAAGACACACTGAGGTA-TTTCAA-TTCTGT-TTTC-AAAAAATCAACTCATAT
**
90642240 TGCGAGAGGTGAGTTGAACCTCA
112 TGCGAGAAATGAGTTGAACCTCA
90642263 AGACGCTGAG
Statistics
Matches: 378, Mismatches: 39, Indels: 62
0.79 0.08 0.13
Matches are distributed among these distances:
141 34 0.09
142 42 0.11
143 10 0.03
144 37 0.10
146 24 0.06
148 31 0.08
149 5 0.01
150 11 0.03
158 1 0.00
159 2 0.01
160 74 0.20
161 10 0.03
162 35 0.09
163 1 0.00
166 1 0.00
168 4 0.01
169 12 0.03
170 2 0.01
171 38 0.10
173 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (143 bp):
TGAGGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACACTGAGGTATTTCAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAAC
CTCAGTACACATA
Found at i:90642180 original size:87 final size:87
Alignment explanation
Indices: 90641978--90642209 Score: 275
Period size: 84 Copynumber: 2.7 Consensus size: 87
90641968 CTGTTTTCAA
* *
90641978 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA-CTGAGGTATTTT---
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCACATATC-GAGGTATTTTCAA
** * * *
90642038 TTTTTACTTCAATTTATATTTTTC
64 AATCTACTTCAAGTTATATGTTTC
*
90642062 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACATATCGAGGTATTTTCAAAA
90642127 TCTACTTTTCAAGTTA-A-GTTTC
66 TCTAC--TTCAAGTTATATGTTTC
* *
90642149 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACATATTGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACATATCGAGGTATTTTCAA
90642210 TTTCTGTCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
84 50 0.38
85 25 0.19
87 47 0.36
88 1 0.01
89 8 0.06
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACATATCGAGGTATTTTCAAAA
TCTACTTCAAGTTATATGTTTC
Found at i:90642296 original size:73 final size:74
Alignment explanation
Indices: 90642149--90642289 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 74
90642139 GTTAAGTTTC
* * *
90642149 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA-ACTGAGGTACTTTCAATTTC
90642214 TGTCTTTCAA
65 TGTCTTTCAA
** * * *
90642224 AAAAATCAGGTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-GCTGAGGTGCTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAACTGAGGTACTTTCAATTTCT
90642288 GT
66 GT
90642290 TCTTCAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 18 0.31
75 40 0.69
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAACTGAGGTACTTTCAATTTCT
GTCTTTCAA
Done.