Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 159 of 161
Found at i:49661463 original size:178 final size:178
Alignment explanation
Indices: 49661163--49661486 Score: 558
Period size: 178 Copynumber: 1.8 Consensus size: 178
49661153 CAATTAACAC
* * *
49661163 GTAGACTTTTGATTTTATAAGTGGTAGGATGTTAGACTTCCATTAATTGGTTTAAAGTTTGTATT
1 GTAGACTTATGATTTTATAAGTGGTAGGATGCTAGACTTCCACTAATTGGTTTAAAGTTTGTATT
* * * **
49661228 TGTCATGTAATTGAATTTTGGGTGTTGGTTTGCCATGACTAGGTCAGTGGCCGTCTCCCTTGGAT
66 CGTCATGTAATTGAATTTTGGGTGTTGATTTGCCATGACTAGGTCAATGGCCGTCTCCCAAGGAT
*
49661293 GACAAGTTCAAAAGTAATTTGTTTTTTTTTATATGTAAGGACATTTTT
131 AACAAGTTCAAAAGTAATTTGTTTTTTTTTATATGTAAGGACATTTTT
49661341 GTAGACTTATGATTTTATAAGTGGTAGGATGCTAGACTTCCACTAATTGGTTTAAAGTTTGTATT
1 GTAGACTTATGATTTTATAAGTGGTAGGATGCTAGACTTCCACTAATTGGTTTAAAGTTTGTATT
*
49661406 CGTCATGTAATTGAATTTTGGGTGTTGATTTGCCATGACTAGGTCAATGGTCGTCTCCCAAGGAT
66 CGTCATGTAATTGAATTTTGGGTGTTGATTTGCCATGACTAGGTCAATGGCCGTCTCCCAAGGAT
49661471 AACAAGTTCAAAAGTA
131 AACAAGTTCAAAAGTA
49661487 TCTGATACGA
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 136 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (178 bp):
GTAGACTTATGATTTTATAAGTGGTAGGATGCTAGACTTCCACTAATTGGTTTAAAGTTTGTATT
CGTCATGTAATTGAATTTTGGGTGTTGATTTGCCATGACTAGGTCAATGGCCGTCTCCCAAGGAT
AACAAGTTCAAAAGTAATTTGTTTTTTTTTATATGTAAGGACATTTTT
Found at i:49668039 original size:12 final size:10
Alignment explanation
Indices: 49668021--49668067 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
49668011 ACCGTATGCA
49668021 TATTTTTTTT
1 TATTTTTTTT
49668031 TCAATTTTTTTT
1 T--ATTTTTTTT
49668043 TATTTTTTTT
1 TATTTTTTTT
49668053 T-TTTTATTTT
1 TATTTT-TTTT
49668063 T-TTTT
1 TATTTT
49668068 GAATCTACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
12 10 0.29
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:49668042 original size:14 final size:12
Alignment explanation
Indices: 49668021--49668067 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
49668011 ACCGTATGCA
*
49668021 TATTTTTTTTTC
1 TATTTTTTTTTT
*
49668033 AATTTTTTTTTAT
1 TATTTTTTTTT-T
49668046 T-TTTTTTTTTT
1 TATTTTTTTTTT
49668057 TATTTTTTTTT
1 TATTTTTTTTT
49668068 GAATCTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 2 0.07
12 28 0.93
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (12 bp):
TATTTTTTTTTT
Found at i:49670433 original size:26 final size:26
Alignment explanation
Indices: 49670404--49670469 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
49670394 AGTTTAGCAT
**
49670404 TGCTTTTGAAAAGTGTTTTTAAGAAG
1 TGCTTTTGAAAAGTAATTTTAAGAAG
* * *
49670430 TGCTTTAGAAAAATAATTTTGAGAAG
1 TGCTTTTGAAAAGTAATTTTAAGAAG
*
49670456 TACTTTTGAAAAGT
1 TGCTTTTGAAAAGT
49670470 TTGGTTTAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (26 bp):
TGCTTTTGAAAAGTAATTTTAAGAAG
Found at i:49677770 original size:25 final size:26
Alignment explanation
Indices: 49677728--49677776 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
49677718 ATTATTATTA
*
49677728 AAAGTAAAGTAAATAG-AAAGAAATT
1 AAAGTAAAGTAAAAAGAAAAGAAATT
49677753 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
49677777 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.16, T:0.12
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAATT
Found at i:49684979 original size:100 final size:98
Alignment explanation
Indices: 49684672--49685032 Score: 406
Period size: 100 Copynumber: 3.6 Consensus size: 98
49684662 AATTATTCAA
* * * *
49684672 ACGTAAGACCATAGTTGGACCATGGCAATGTTTATATGTAAGACCATAGATGGGCTATGACATTT
1 ACGTAAGACCATGGTTGGACCATGGCAATG-TTATATGTAAGACCATAGCTGGACTATGGCATTT
*
49684737 TGATGATAAGACCATTACTGGGTTATGGCACTATAG
65 TGATGATAAGACCATAACTGGGTTATGGCA-T-TAG
* * * *
49684773 ACGTAAGACCATGGTTGGACCATGGTAATGTTATATGAAAGGCCATAGCTGAGA-TATGGCATTC
1 ACGTAAGACCATGGTTGGACCATGGCAATGTTATATGTAAGACCATAGCTG-GACTATGGCATTT
* * *
49684837 TGATGATAAGACCATAACTAGGTCATGGCACTATGG
65 TGATGATAAGACCATAACTGGGTTATGGCA-T-TAG
* *
49684873 ACGTAAGACCATGGTTGGACCATGGCAGTGTTATACGTAAGACCATAGCTGGACTATGGCATTTT
1 ACGTAAGACCATGGTTGGACCATGGCAATGTTATATGTAAGACCATAGCTGGACTATGGCATTTT
* *
49684938 GATGATAAGATCATAACTGGGTTATGACATTACG
66 GATGATAAGACCATAACTGGGTTATGGCATTA-G
* ** * * *
49684972 AATGTAAGACCATGGCAAGG-CCATGACAATG-CAGATGTAAGACCATAG-TGGGACTATGGCA
1 -ACGTAAGACCATGG-TTGGACCATGGCAATGTTATATGTAAGACCATAGCT-GGACTATGGCA
49685033 CAAGGAAATG
Statistics
Matches: 223, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
98 2 0.01
99 29 0.13
100 161 0.72
101 31 0.14
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (98 bp):
ACGTAAGACCATGGTTGGACCATGGCAATGTTATATGTAAGACCATAGCTGGACTATGGCATTTT
GATGATAAGACCATAACTGGGTTATGGCATTAG
Found at i:49685569 original size:17 final size:17
Alignment explanation
Indices: 49685549--49685647 Score: 144
Period size: 17 Copynumber: 5.6 Consensus size: 17
49685539 CAATGATATG
49685549 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
49685566 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
49685584 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
49685601 CAATCTTAGATATGATTT
1 CAATCTTAGATATGA-TA
49685619 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
49685638 CAATCTTAGA
1 CAATCTTAGA
49685648 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.42
18 31 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:49685587 original size:35 final size:35
Alignment explanation
Indices: 49685541--49685647 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
49685531 ATAATCTTCA
49685541 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
49685577 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
*
49685612 ATGATTTCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
49685648 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 50 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:49685589 original size:18 final size:18
Alignment explanation
Indices: 49685549--49685647 Score: 157
Period size: 18 Copynumber: 5.6 Consensus size: 18
49685539 CAATGATATG
49685549 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
49685566 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
49685584 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
49685601 CAATCTTAGATATGATTT
1 CAATCTTAGATATGATTA
49685619 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
49685638 CAATCTTAGA
1 CAATCTTAGA
49685648 AGATATGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 31 0.41
18 33 0.44
19 11 0.15
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:49687889 original size:17 final size:17
Alignment explanation
Indices: 49687863--49687901 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
49687853 AGATTATTGA
49687863 AAGCTCAATCAGGTTGG
1 AAGCTCAATCAGGTTGG
*
49687880 AAGCTTAATCAGGTTGG
1 AAGCTCAATCAGGTTGG
49687897 AAGCT
1 AAGCT
49687902 AGTCAGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (17 bp):
AAGCTCAATCAGGTTGG
Found at i:49689119 original size:24 final size:24
Alignment explanation
Indices: 49689092--49689144 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
49689082 TTATGAAAAG
**
49689092 AAATAACAAAGATTTTATACTAAT
1 AAATAACAAAGATACTATACTAAT
* * *
49689116 AAATATCAAATATACTATGCTAAT
1 AAATAACAAAGATACTATACTAAT
49689140 AAATA
1 AAATA
49689145 CTAAATCTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAACAAAGATACTATACTAAT
Found at i:49689280 original size:24 final size:23
Alignment explanation
Indices: 49689244--49689318 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
49689234 AACTCGTATC
*
49689244 TTTT-TTGTGACCCTAGTTTGCAT
1 TTTTCTTGCGACCC-AGTTTGCAT
49689267 TTTTCTTGCGACCCCAGTTCT-CAT
1 TTTTCTTGCGA-CCCAGTT-TGCAT
* *
49689291 TTTTCTTGCAAACCCAGTTCGCAT
1 TTTTCTTGC-GACCCAGTTTGCAT
49689315 TTTT
1 TTTT
49689319 ATTCTAGTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 4 0.09
24 35 0.80
25 5 0.11
ACGTcount: A:0.15, C:0.25, G:0.13, T:0.47
Consensus pattern (23 bp):
TTTTCTTGCGACCCAGTTTGCAT
Found at i:49689305 original size:25 final size:23
Alignment explanation
Indices: 49689253--49689318 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
49689243 CTTTTTTGTG
*
49689253 ACCCTAGTTTGCATTTTTCTTGCGA
1 ACCC-AGTTCGCATTTTTCTTGC-A
* *
49689278 CCCCAGTTCTCATTTTTCTTGCAA
1 ACCCAGTTCGCATTTTTCTTGC-A
49689302 ACCCAGTTCGCATTTTT
1 ACCCAGTTCGCATTTTT
49689319 ATTCTAGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 32 0.91
25 3 0.09
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.42
Consensus pattern (23 bp):
ACCCAGTTCGCATTTTTCTTGCA
Found at i:49691866 original size:12 final size:12
Alignment explanation
Indices: 49691851--49691885 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
49691841 TTTGGCCCCC
49691851 ATATTAATTTTT
1 ATATTAATTTTT
49691863 ATATT-ATTTTT
1 ATATTAATTTTT
49691874 ATA-TAATTTTT
1 ATATTAATTTTT
49691885 A
1 A
49691886 AATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:49691897 original size:21 final size:22
Alignment explanation
Indices: 49691851--49691901 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
49691841 TTTGGCCCCC
* *
49691851 ATAT-TAATTTTTATATTATTT
1 ATATATAATTTTTATAATATAT
*
49691872 TTATATAATTTTTA-AATATAT
1 ATATATAATTTTTATAATATAT
49691893 ATATATAAT
1 ATATATAAT
49691902 ACATCAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATATAATTTTTATAATATAT
Found at i:49692050 original size:30 final size:30
Alignment explanation
Indices: 49692014--49692076 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
49692004 ACTTAACAAG
49692014 CAAATGCC-TCTAAAATAATAACAAAATTAA
1 CAAATGCCTTC-AAAATAATAACAAAATTAA
49692044 CAAATGCCTTCAAAATAATAACAAAATTAA
1 CAAATGCCTTCAAAATAATAACAAAATTAA
49692074 CAA
1 CAA
49692077 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAATGCCTTCAAAATAATAACAAAATTAA
Found at i:49692131 original size:22 final size:22
Alignment explanation
Indices: 49692106--49692148 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49692096 TATCCAAACA
49692106 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
49692128 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
49692149 AAAAAGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:49710608 original size:3 final size:3
Alignment explanation
Indices: 49710600--49710702 Score: 63
Period size: 3 Copynumber: 33.3 Consensus size: 3
49710590 TTTAAATATA
*
49710600 AAT AAT AAT AAT -AT AAAT AAT AAT -AT ATAT AAA AAT AAT ACAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT
* * *
49710646 AAAT AAT ATGT AAT AAT AAT -AT AAAT ATAT AAT -AG AAT ACAA AAT
1 -AAT AAT A-AT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT A-AT AAT
49710691 AAT -AT AAT AAT A
1 AAT AAT AAT AAT A
49710703 TAGTAAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
2 9 0.11
3 50 0.63
4 20 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49710614 original size:15 final size:15
Alignment explanation
Indices: 49710594--49710702 Score: 89
Period size: 15 Copynumber: 6.9 Consensus size: 15
49710584 TTAATATTTA
49710594 AATATAAATAATAAT
1 AATATAAATAATAAT
49710609 AATATAAATAATAAT
1 AATATAAATAATAAT
49710624 ATATATAAA-AATAAT
1 A-ATATAAATAATAAT
*
49710639 ACATAATAAATAATATGT
1 A-AT-ATAAATAATA-AT
49710657 AATAATAATATAAATATAT
1 AAT-ATAA-AT-AATA-AT
* *
49710676 AATA-GAATACAAAAT
1 AATATAAATA-ATAAT
49710691 AATAT-AATAATA
1 AATATAAATAATA
49710703 TAGTAAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
14 2 0.03
15 36 0.45
16 16 0.20
17 12 0.15
18 5 0.06
19 9 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AATATAAATAATAAT
Found at i:49710623 original size:18 final size:18
Alignment explanation
Indices: 49710600--49710704 Score: 94
Period size: 18 Copynumber: 5.8 Consensus size: 18
49710590 TTTAAATATA
49710600 AATAATAATAATATAAAT
1 AATAATAATAATATAAAT
49710618 AATAAT-AT-ATATAAA-
1 AATAATAATAATATAAAT
*
49710633 AATAATACATAATAAATAAT
1 AATAATA-ATAATATA-AAT
*
49710653 ATGTAATAATAATATAAAT
1 A-ATAATAATAATATAAAT
* *
49710672 ATATAAT-AGAATACAAAAT
1 A-ATAATAATAATA-TAAAT
49710691 AAT-ATAATAATATA
1 AATAATAATAATATA
49710705 GTAAAAAACA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.08
16 7 0.10
17 7 0.10
18 22 0.31
19 16 0.23
20 8 0.11
21 5 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AATAATAATAATATAAAT
Found at i:49710679 original size:29 final size:29
Alignment explanation
Indices: 49710601--49710697 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 29
49710591 TTAAATATAA
49710601 ATAATAATAATATAAATA-ATAAT-ATAT
1 ATAATAATAATATAAATATATAATAATAT
* * *
49710628 ATAAAAATAATACATA-ATA-AATAATAT
1 ATAATAATAATATAAATATATAATAATAT
*
49710655 GTAATAATAATATAAATATATAATAGA-AT
1 ATAATAATAATATAAATATATAATA-ATAT
*
49710684 ACAA-AATAATATAA
1 ATAATAATAATATAA
49710698 TAATATAGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.07
27 30 0.54
28 13 0.23
29 8 0.14
30 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAATAATAATATAAATATATAATAATAT
Found at i:49712382 original size:88 final size:88
Alignment explanation
Indices: 49712281--49712765 Score: 264
Period size: 88 Copynumber: 5.5 Consensus size: 88
49712271 ATGCCAAATA
**
49712281 ATCTTGGATCTGCTTCAGTGTAAAATCATCTGATGGTTAGATCTGCTATGTATCTACTCTCCGTC
1 ATCTTGGATCTGCTTCAGTGTAAAA-CATCTGAAAGTTAGATCTGCTATGTATCTACTCTCCGTC
49712346 GAAA-TGGAGATGCCAGATCTATT
65 GAAACTGGAGATGCCAGATCTATT
** * * * * * * * *
49712369 ATCTTGGATCTGCTTTGGTGCAAGAACATCCGAAAGTCAAATCTGCTATGTCTTTGATTTGTTCC
1 ATCTTGGATCTGCTTCAGTGTAA-AACATCTGAAAGTTAGATCTGCTATGTATCT-A-CT-CTCC
* *** *
49712434 -TTGTAAACACAAGAATGCCA-A---ATC
62 GTCG-AAACTGGAG-ATGCCAGATCTATT
* * *
49712458 ATCTTGGATCTGCTTCAATAT-AAACATCTGAAAGTTAGATCTGCTATGTATCTGCTCTCCGTC-
1 ATCTTGGATCTGCTTCAGTGTAAAACATCTGAAAGTTAGATCTGCTATGTATCTACTCTCCGTCG
* *
49712521 AAAGTGGAGATGCCAGATCTGTT
66 AAACTGGAGATGCCAGATCTATT
** ** * * * * *
49712544 ATCTTGGATCTGCTTTGGTGTAAGAACATCCAAAAGTCAGATCTGCTATGTCTTCGATTTGTTCC
1 ATCTTGGATCTGCTTCAGTGTAA-AACATCTGAAAGTTAGATCTGCTATGT-ATCTA-CT-CTCC
* *** *
49712609 -TTGTAAACACAAGAATGCCA-A---ATC
62 GTCG-AAACTGGAG-ATGCCAGATCTATT
* * * * *
49712633 ATCTTAGATCTGTTTCAGTG-AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC-
1 ATCTTGGATCTGCTTCAGTGTAAAACATCTGAAAGTTAGATCTGCTATGTATCTACTCTCCGTCG
* ** * *
49712696 AAAATATAGATGTCAGATCTGTT
66 AAACTGGAGATGCCAGATCTATT
* ** * *
49712719 ATCTTGGATCTACTTTGGTGTGAGAACAT-TAGAAAGTCAGATCTGCT
1 ATCTTGGATCTGCTTCAGTGT-AAAACATCT-GAAAGTTAGATCTGCT
49712766 GTCTTCTATT
Statistics
Matches: 282, Mismatches: 87, Indels: 56
0.66 0.20 0.13
Matches are distributed among these distances:
82 11 0.04
83 12 0.04
84 6 0.02
85 4 0.01
86 36 0.13
87 50 0.18
88 88 0.31
89 40 0.14
90 5 0.02
91 9 0.03
92 9 0.03
93 12 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
ATCTTGGATCTGCTTCAGTGTAAAACATCTGAAAGTTAGATCTGCTATGTATCTACTCTCCGTCG
AAACTGGAGATGCCAGATCTATT
Found at i:49712500 original size:87 final size:87
Alignment explanation
Indices: 49712183--49712681 Score: 247
Period size: 87 Copynumber: 5.7 Consensus size: 87
49712173 CAAATACAGA
* * ** * * * *
49712183 AATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACA-CGTGAAAGTCAAATCTGCTGTGTCTTC
1 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-CGAAAGTCAGATCTGCTATGTCTTT
* *
49712247 GATTTGCTCCTTGTGAACACAATG
65 GATTTGTTCCTTGTAAACACAA-G
* * * ** * * *
49712271 -ATGCCAAATAATCTTGGATCTGCTTCAGTGTAAAATCATCTGATGGTTAGATCTGCTATGTATC
1 AATGCCAAATCATCTTGGATCTGCTTCAGTAT-AAA-CATCCGAAAGTCAGATCTGCTATGTCTT
* * * ***
49712335 T-A-CT-CTCCGTCG-AAA-TGGAG
64 TGATTTGTTCC-TTGTAAACACAAG
* ** *
49712355 -ATGCCAGATCTATTATCTTGGATCTGCTTTGGTGCA-AGAACATCCGAAAGTCAAATCTGCTAT
1 AATGCCA-A---ATCATCTTGGATCTGCTTCAGT--ATA-AACATCCGAAAGTCAGATCTGCTAT
49712418 GTCTTTGATTTGTTCCTTGTAAACACAAG
59 GTCTTTGATTTGTTCCTTGTAAACACAAG
* * * * *
49712447 AATGCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAAGTTAGATCTGCTATGTATCTG
1 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCCGAAAGTCAGATCTGCTATGTCTTTG
* * * ***
49712512 --CT-CTCC--GTCAA-AGTGG
66 ATTTGTTCCTTGTAAACACAAG
* ** * *
49712528 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCCAAAAGTCAGATCTGCTAT
1 A-ATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AACATCCGAAAGTCAGATCTGCTAT
*
49712593 GTCTTCGATTTGTTCCTTGTAAACACAAG
59 GTCTTTGATTTGTTCCTTGTAAACACAAG
* * * * * *
49712622 AATGCCAAATCATCTTAGATCTGTTTCAGTGA-AATCATCTGAAGGTTAGATCTGCTATGT
1 AATGCCAAATCATCTTGGATCTGCTTCAGT-ATAAACATCCGAAAGTCAGATCTGCTATGT
49712682 ATCTGCTCTC
Statistics
Matches: 301, Mismatches: 78, Indels: 65
0.68 0.18 0.15
Matches are distributed among these distances:
81 3 0.01
82 13 0.04
84 10 0.03
85 3 0.01
86 23 0.08
87 81 0.27
88 74 0.25
89 55 0.18
90 5 0.02
91 9 0.03
92 3 0.01
93 19 0.06
94 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (87 bp):
AATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCCGAAAGTCAGATCTGCTATGTCTTTG
ATTTGTTCCTTGTAAACACAAG
Found at i:49712531 original size:175 final size:174
Alignment explanation
Indices: 49712223--49712782 Score: 786
Period size: 175 Copynumber: 3.2 Consensus size: 174
49712213 GTAAACACGT
* * * *
49712223 GAAAGTCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAATG-ATGCCAAATAATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAA-GAATGCCAAATCATCTTG
* * *
49712287 GATCTGCTTCAGTGTAAAATCATCTGATGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATG
65 GATCTGCTTCAGTAT-AAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC-AAATG
* *
49712352 GAGATGCCAGATCTATTATCTTGGATCTGCTTTGGTGCAAGAACATCC
127 GAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
*
49712400 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
49712465 ATCTGCTTCAATATAAACATCTGAAAGTTAGATCTGCTATGTATCTGCTCTCCGTCAAAGTGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAA-TGGAG
49712530 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
130 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
* * *
49712575 AAAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * **
49712640 ATCTGTTTCAGTGA-AATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAAATATA
66 ATCTGCTTCAGT-ATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC-AAATGGA
* * * **
49712704 GATGTCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATTA
129 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
* * *
49712750 GAAAGTCAGATCTGC--TGTCTTCTATTTGCTCCT
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCT
49712783 CATCGAAGAT
Statistics
Matches: 349, Mismatches: 30, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
173 16 0.05
174 3 0.01
175 252 0.72
176 8 0.02
177 70 0.20
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (174 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAATGGAGA
TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
Found at i:49717015 original size:14 final size:14
Alignment explanation
Indices: 49716968--49717017 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
49716958 ATAACTTTGA
*
49716968 ATGCAAATGATGCG
1 ATGCAAATGATGAG
49716982 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
49716997 ATGCAAATGCATG-G
1 ATGCAAATG-ATGAG
49717011 ATGCAAA
1 ATGCAAA
49717018 AAGGACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 11 0.35
15 10 0.32
16 5 0.16
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:49720930 original size:3 final size:3
Alignment explanation
Indices: 49720922--49721024 Score: 63
Period size: 3 Copynumber: 33.3 Consensus size: 3
49720912 TTTAAATATA
*
49720922 AAT AAT AAT AAT -AT AAAT AAT AAT -AT ATAT AAA AAT AAT ACAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT
* * *
49720968 AAAT AAT ATGT AAT AAT AAT -AT AAAT ATAT AAT -AG AAT ACAA AAT
1 -AAT AAT A-AT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT A-AT AAT
49721013 AAT -AT AAT AAT A
1 AAT AAT AAT AAT A
49721025 TAGTAAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
2 9 0.11
3 50 0.63
4 20 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49720936 original size:15 final size:15
Alignment explanation
Indices: 49720916--49721024 Score: 89
Period size: 15 Copynumber: 6.9 Consensus size: 15
49720906 TTAATATTTA
49720916 AATATAAATAATAAT
1 AATATAAATAATAAT
49720931 AATATAAATAATAAT
1 AATATAAATAATAAT
49720946 ATATATAAA-AATAAT
1 A-ATATAAATAATAAT
*
49720961 ACATAATAAATAATATGT
1 A-AT-ATAAATAATA-AT
49720979 AATAATAATATAAATATAT
1 AAT-ATAA-AT-AATA-AT
* *
49720998 AATA-GAATACAAAAT
1 AATATAAATA-ATAAT
49721013 AATAT-AATAATA
1 AATATAAATAATA
49721025 TAGTAAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
14 2 0.03
15 36 0.45
16 16 0.20
17 12 0.15
18 5 0.06
19 9 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AATATAAATAATAAT
Found at i:49720945 original size:18 final size:18
Alignment explanation
Indices: 49720922--49721026 Score: 94
Period size: 18 Copynumber: 5.8 Consensus size: 18
49720912 TTTAAATATA
49720922 AATAATAATAATATAAAT
1 AATAATAATAATATAAAT
49720940 AATAAT-AT-ATATAAA-
1 AATAATAATAATATAAAT
*
49720955 AATAATACATAATAAATAAT
1 AATAATA-ATAATATA-AAT
*
49720975 ATGTAATAATAATATAAAT
1 A-ATAATAATAATATAAAT
* *
49720994 ATATAAT-AGAATACAAAAT
1 A-ATAATAATAATA-TAAAT
49721013 AAT-ATAATAATATA
1 AATAATAATAATATA
49721027 GTAAAAAACA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.08
16 7 0.10
17 7 0.10
18 22 0.31
19 16 0.23
20 8 0.11
21 5 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AATAATAATAATATAAAT
Found at i:49721001 original size:29 final size:29
Alignment explanation
Indices: 49720923--49721019 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 29
49720913 TTAAATATAA
49720923 ATAATAATAATATAAATA-ATAAT-ATAT
1 ATAATAATAATATAAATATATAATAATAT
* * *
49720950 ATAAAAATAATACATA-ATA-AATAATAT
1 ATAATAATAATATAAATATATAATAATAT
*
49720977 GTAATAATAATATAAATATATAATAGA-AT
1 ATAATAATAATATAAATATATAATA-ATAT
*
49721006 ACAA-AATAATATAA
1 ATAATAATAATATAA
49721020 TAATATAGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.07
27 30 0.54
28 13 0.23
29 8 0.14
30 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAATAATAATATAAATATATAATAATAT
Found at i:49724019 original size:17 final size:17
Alignment explanation
Indices: 49723997--49724077 Score: 146
Period size: 17 Copynumber: 4.8 Consensus size: 17
49723987 AATAGGCCGT
49723997 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
49724014 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
49724031 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
*
49724048 GTGTGGGCCACATAGGC
1 GTGTGGGCCACACAGGC
49724065 GTGTGGGCC-CACA
1 GTGTGGGCCACACA
49724078 CGGGTGAACC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
16 3 0.05
17 59 0.95
ACGTcount: A:0.17, C:0.28, G:0.41, T:0.14
Consensus pattern (17 bp):
GTGTGGGCCACACAGGC
Found at i:49724174 original size:18 final size:18
Alignment explanation
Indices: 49724146--49724189 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
49724136 AGGCCAATTT
*
49724146 TGTGA-CCCACATGGGCG
1 TGTGAGCCCACACGGGCG
*
49724163 TGTGGGCCCACACGGGCG
1 TGTGAGCCCACACGGGCG
49724181 TGTGAGCCC
1 TGTGAGCCC
49724190 CTTTAATCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.14, C:0.32, G:0.39, T:0.16
Consensus pattern (18 bp):
TGTGAGCCCACACGGGCG
Found at i:49726976 original size:59 final size:59
Alignment explanation
Indices: 49726884--49726997 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
49726874 GTATGTCTTT
*
49726884 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAACATTATAGCCAATAGCAA
1 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATAGCCAATAGCAA
*
49726943 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATATCCAATA
1 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATAGCCAATA
49726998 ACAAAGCGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (59 bp):
GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATAGCCAATAGCAA
Found at i:49727212 original size:22 final size:21
Alignment explanation
Indices: 49727187--49727243 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
49727177 ATATTAGTTG
*
49727187 AAATTAAAAATATTATTTTAAA
1 AAATTAAAAATATT-TTGTAAA
49727209 AAATGTAAAAGA-ATTTTGTAAA
1 AAAT-TAAAA-ATATTTTGTAAA
49727231 AAATTTAAAAATA
1 AAA-TTAAAAATA
49727244 ATTAAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 1 0.03
22 19 0.63
23 9 0.30
24 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AAATTAAAAATATTTTGTAAA
Found at i:49728358 original size:28 final size:28
Alignment explanation
Indices: 49728327--49728380 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
49728317 ATTTAGTATA
*
49728327 CAATATGATATATG-AATTTTGGTTTGCG
1 CAAT-TGATAAATGTAATTTTGGTTTGCG
* *
49728355 CAATTTATAAATGTAATTTTTGTTTG
1 CAATTGATAAATGTAATTTTGGTTTG
49728381 ATTCAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.48
Consensus pattern (28 bp):
CAATTGATAAATGTAATTTTGGTTTGCG
Found at i:49733060 original size:16 final size:16
Alignment explanation
Indices: 49733039--49733075 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
49733029 TTAAAAAAAT
49733039 TAAAATATATA-ATTTC
1 TAAAATATATAGA-TTC
49733055 TAAAATATATAGATTC
1 TAAAATATATAGATTC
49733071 TAAAA
1 TAAAA
49733076 ATGTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAAATATATAGATTC
Found at i:49733619 original size:17 final size:17
Alignment explanation
Indices: 49733599--49733666 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
49733589 ATTTTTGGAT
49733599 ATTTAAATTTTTATAAA
1 ATTTAAATTTTTATAAA
*
49733616 ATTT-AATTTTCT-TGAA
1 ATTTAAATTTT-TATAAA
*
49733632 TTTTATAATTTTTAATAAA
1 ATTTA-AATTTTT-ATAAA
**
49733651 AAATAAATTTTTATAA
1 ATTTAAATTTTTATAA
49733667 TTTGTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 12 0.30
17 10 0.25
18 13 0.32
19 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTTTATAAA
Found at i:49739282 original size:14 final size:14
Alignment explanation
Indices: 49739263--49739289 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49739253 TAATGAGTTA
49739263 GAATAAGTGTGTTG
1 GAATAAGTGTGTTG
49739277 GAATAAGTGTGTT
1 GAATAAGTGTGTT
49739290 AAAAAAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (14 bp):
GAATAAGTGTGTTG
Found at i:49743305 original size:19 final size:19
Alignment explanation
Indices: 49743280--49743350 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
49743270 AATTACAAAA
*
49743280 AAAAAATCAAAATTATTTTC
1 AAAAATTCAAAA-TATTTTC
*
49743300 AAAAATTCAAAATATTTTTT
1 AAAAATTCAAAATA-TTTTC
* *
49743320 TAAAATACAAAATATTTAT-
1 AAAAATTCAAAATATTT-TC
49743339 AAAAATTCAAAA
1 AAAAATTCAAAA
49743351 GAATATATAC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.35
20 28 0.65
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTC
Found at i:49744203 original size:31 final size:31
Alignment explanation
Indices: 49744167--49744268 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
49744157 TAATCACATT
*
49744167 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
* ** *
49744198 AATATTTAATT--TAATTTAATATCT--ATT
1 AATATTAAATTAATAAAATAATATCTAGATA
*
49744225 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
*
49744256 AATAGTAAATTAA
1 AATATTAAATTAA
49744269 ATTTAATATT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
27 12 0.21
29 20 0.36
31 24 0.43
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:49744254 original size:58 final size:58
Alignment explanation
Indices: 49744164--49744277 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
49744154 AATTAATCAC
* * * *
49744164 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTTAATTTAATTTAATATCT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATATCT
49744222 ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATAT
49744278 TAAATTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATATCT
Found at i:49744960 original size:23 final size:22
Alignment explanation
Indices: 49744923--49744987 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
49744913 AGAGATATGC
49744923 AATCTTA-A-ATATGATATGTA
1 AATCTTAGAGATATGATATGTA
*
49744943 AATCTTAGAAGATATGATTCTGT-
1 AATCTTAG-AGATATGA-TATGTA
* *
49744966 AATCTTAGAGATTTGATTTGTA
1 AATCTTAGAGATATGATATGTA
49744988 GATAGCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.19
21 4 0.11
22 8 0.22
23 14 0.38
24 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (22 bp):
AATCTTAGAGATATGATATGTA
Found at i:49744982 original size:22 final size:22
Alignment explanation
Indices: 49744931--49744987 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
49744921 GCAATCTTAA
*
49744931 ATATGATATGTAAATCTTAGAAG
1 ATATGATTTGT-AATCTTAGAAG
49744954 ATATGATTCTGTAATCTTAG-AG
1 ATATGATT-TGTAATCTTAGAAG
*
49744976 ATTTGATTTGTA
1 ATATGATTTGTA
49744988 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 4 0.13
22 9 0.29
23 15 0.48
24 3 0.10
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (22 bp):
ATATGATTTGTAATCTTAGAAG
Found at i:49752850 original size:40 final size:40
Alignment explanation
Indices: 49752779--49752891 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
49752769 TATCTAGCAC
* * *
49752779 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
49752818 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
49752858 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
49752892 CATCAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 16 0.23
40 53 0.77
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:49756923 original size:9 final size:9
Alignment explanation
Indices: 49756909--49756938 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
49756899 TTGTGTGTTC
49756909 TTTATTTTA
1 TTTATTTTA
49756918 TTTATTTTA
1 TTTATTTTA
49756927 TTTATTTTA
1 TTTATTTTA
49756936 TTT
1 TTT
49756939 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:49758325 original size:5 final size:5
Alignment explanation
Indices: 49758315--49758346 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
49758305 TTGTGTGTTC
49758315 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
49758347 TCACATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:49758329 original size:9 final size:9
Alignment explanation
Indices: 49758315--49758345 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
49758305 TTGTGTGTTC
49758315 TTTATTTTA
1 TTTATTTTA
49758324 TTTATTTTA
1 TTTATTTTA
49758333 TTTTATTTTA
1 -TTTATTTTA
49758343 TTT
1 TTT
49758346 TTCACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:49771175 original size:126 final size:126
Alignment explanation
Indices: 49771015--49771258 Score: 470
Period size: 126 Copynumber: 1.9 Consensus size: 126
49771005 GTTTTAGCCT
49771015 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
49771080 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
49771141 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
49771206 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
49771259 AAGATCAATG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:49771391 original size:13 final size:12
Alignment explanation
Indices: 49771359--49771408 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
49771349 AACCATATAT
49771359 AAATAA-TAA-A
1 AAATAATTAATA
49771369 AAATAA-TAATA
1 AAATAATTAATA
*
49771380 ATAGTAATTAATA
1 A-AATAATTAATA
49771393 GAAATAATTAATA
1 -AAATAATTAATA
49771406 AAA
1 AAA
49771409 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:49771735 original size:14 final size:14
Alignment explanation
Indices: 49771716--49771746 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49771706 ATATATTTAC
*
49771716 ATAATAAATATATA
1 ATAATAAATAAATA
49771730 ATAATAAATAAATA
1 ATAATAAATAAATA
49771744 ATA
1 ATA
49771747 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:49771740 original size:21 final size:21
Alignment explanation
Indices: 49771699--49771754 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
49771689 TAACTTCGCT
* *
49771699 TAAATATAT-ATATTTACATAA
1 TAAATATATAATA-ATAAATAA
49771720 TAAATATATAATAATAAATAA
1 TAAATATATAATAATAAATAA
*
49771741 -ATA-ATATAATAATA
1 TAAATATATAATAATA
49771755 TGAAACATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 11 0.35
20 2 0.06
21 15 0.48
22 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATATAATAATAAATAA
Found at i:49771747 original size:19 final size:18
Alignment explanation
Indices: 49771718--49771754 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
49771708 ATATTTACAT
49771718 AATAAATATATAATAATA
1 AATAAATATATAATAATA
49771736 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
49771755 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:49771832 original size:60 final size:60
Alignment explanation
Indices: 49771729--49771860 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 60
49771719 ATAAATATAT
* *
49771729 AATAATAAATAAATAATATAATAATATGAAACATAACTCAAATTAATTAAATTAATAG-AA
1 AATAATAAA-AAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAA
* *
49771789 AATAATAAAAAAT-ATATAAAAATGATGAGA-ATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAATAATATAAAAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAACAGTAA
*
49771850 AATAACAAAAA
1 AATAATAAAAA
49771861 TAAAAAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
58 11 0.17
59 11 0.17
60 29 0.46
61 12 0.19
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (60 bp):
AATAATAAAAAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAA
Found at i:49772164 original size:18 final size:18
Alignment explanation
Indices: 49772141--49772213 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
49772131 ATAACAAGTA
*
49772141 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
49772159 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
49772177 ATGGTTCA-GTAGAGT-GTGG
1 --GGGTGATGGAG-GTAGTGG
49772196 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
49772214 ATGGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 6 0.14
18 24 0.56
19 7 0.16
20 6 0.14
ACGTcount: A:0.18, C:0.01, G:0.55, T:0.26
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:49772205 original size:37 final size:37
Alignment explanation
Indices: 49772155--49772225 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
49772145 GATGGAGTTA
49772155 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGAGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGAGT
*
49772192 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAG
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAG
49772226 GGTGATGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.01, G:0.52, T:0.28
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGAGT
Found at i:49772249 original size:29 final size:29
Alignment explanation
Indices: 49772196--49772252 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
49772186 TAGAGTGTGG
* *
49772196 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGCTAGTGGATAGTTTAGTA
49772225 GGGTGATGGAGCTAGTGG-TCAGTTTAGT
1 GGGTGATGGAGCTAGTGGAT-AGTTTAGT
49772253 GGAGTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.19, C:0.04, G:0.46, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGCTAGTGGATAGTTTAGTA
Found at i:49772621 original size:7 final size:7
Alignment explanation
Indices: 49772609--49772634 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49772599 GTTTGAAATT
49772609 TTTATTA
1 TTTATTA
49772616 TTTATTA
1 TTTATTA
49772623 TTTATTA
1 TTTATTA
49772630 TTTAT
1 TTTAT
49772635 GAGTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:49774007 original size:33 final size:33
Alignment explanation
Indices: 49773965--49774108 Score: 101
Period size: 33 Copynumber: 4.3 Consensus size: 33
49773955 GAATTGACAG
*
49773965 ATAAGACCATAACTGGGTTATGGCACTATGAAT
1 ATAAGACCATAACTGGGCTATGGCACTATGAAT
*** * * * * *
49773998 ATAAGACCATGGTTGGACTATGGTAGTGTTTATAT
1 ATAAGACCATAACTGGGCTATGGCACT-ATGA-AT
* * * *
49774033 GTAAGACCATAGCTGGGCTATGACACTCTG-AT
1 ATAAGACCATAACTGGGCTATGGCACTATGAAT
* * *
49774065 GATAAGACCATAACTAGGTTATGGCACTACGAAT
1 -ATAAGACCATAACTGGGCTATGGCACTATGAAT
*
49774099 GTAAGACCAT
1 ATAAGACCAT
49774109 GGTTGGACCA
Statistics
Matches: 81, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
32 2 0.02
33 52 0.64
34 5 0.06
35 22 0.27
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (33 bp):
ATAAGACCATAACTGGGCTATGGCACTATGAAT
Found at i:49774122 original size:33 final size:33
Alignment explanation
Indices: 49774085--49774157 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
49774075 TAACTAGGTT
*
49774085 ATGGCACTACGA-ATGTAAGACCATGGTTGGACC
1 ATGGCACTAC-ATATGTAAGACCATAGTTGGACC
* * * *
49774118 ATGGCAATGCATGTGTAAGACCATAGTTGGACT
1 ATGGCACTACATATGTAAGACCATAGTTGGACC
49774151 ATGGCAC
1 ATGGCAC
49774158 AAAGAAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (33 bp):
ATGGCACTACATATGTAAGACCATAGTTGGACC
Found at i:49776102 original size:23 final size:23
Alignment explanation
Indices: 49776020--49776106 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
49776010 CCTGATCAGT
*
49776020 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
49776042 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
49776062 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
49776085 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
49776107 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:49778973 original size:17 final size:17
Alignment explanation
Indices: 49778951--49778986 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49778941 TAAATAAGAG
* *
49778951 AAAATAAAATTGAAATA
1 AAAATAAAAATAAAATA
49778968 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
49778985 AA
1 AA
49778987 GGGACTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:49780607 original size:6 final size:6
Alignment explanation
Indices: 49780596--49780638 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
49780586 TGAGTAAATG
* *
49780596 AAATAA AAATAA AAATAA AAAT-A AAATAG TAAT-A AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
49780639 AAAGGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 8 0.26
6 23 0.74
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:49780615 original size:11 final size:11
Alignment explanation
Indices: 49780591--49780638 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
49780581 ATAAATGAGT
*
49780591 AAATGAAATAA
1 AAATAAAATAA
49780602 AAATAAAAATAA
1 AAAT-AAAATAA
*
49780614 AAATAAAATAG
1 AAATAAAATAA
*
49780625 TAATAAAATAA
1 AAATAAAATAA
49780636 AAA
1 AAA
49780639 AAAGGAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:49780622 original size:17 final size:17
Alignment explanation
Indices: 49780591--49780638 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
49780581 ATAAATGAGT
*
49780591 AAATGAAATAAAAATAA
1 AAATAAAATAAAAATAA
*
49780608 AAATAAAA-ATAAAATAG
1 AAATAAAATA-AAAATAA
*
49780625 TAATAAAATAAAAA
1 AAATAAAATAAAAA
49780639 AAAGGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:49780879 original size:19 final size:19
Alignment explanation
Indices: 49780857--49780896 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49780847 AGGGAAGAAG
*
49780857 AAAAGGGAAAGAAGAAGGA
1 AAAAAGGAAAGAAGAAGGA
* *
49780876 AAAAATGACAGAAGAAGGA
1 AAAAAGGAAAGAAGAAGGA
49780895 AA
1 AA
49780897 GAAAAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.30, T:0.03
Consensus pattern (19 bp):
AAAAAGGAAAGAAGAAGGA
Found at i:49780907 original size:19 final size:20
Alignment explanation
Indices: 49780864--49780916 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
49780854 AAGAAAAGGG
*
49780864 AAAGAAGAAGGAAA-AAATG
1 AAAGAAGAAGGAAAGAAATA
*
49780883 ACAGAAGAAGGAAAGAAA-A
1 AAAGAAGAAGGAAAGAAATA
*
49780902 AAAGAA-AAAGAAAGA
1 AAAGAAGAAGGAAAGA
49780917 GAAAGAGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.28
19 18 0.62
20 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (20 bp):
AAAGAAGAAGGAAAGAAATA
Found at i:49788219 original size:76 final size:76
Alignment explanation
Indices: 49788089--49788289 Score: 294
Period size: 76 Copynumber: 2.6 Consensus size: 76
49788079 TTATTTGACT
* * *
49788089 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCAACTAGTGTTAGGTACACAATTAATATCGTCAG
1 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACACAATTAATATCGTCAG
49788154 CTAATCTAACA
66 CTAATCTAACA
* * *
49788165 AGCTCTAGGCGCAAATCTTTGTCGATTTATTCGACTAGTGCTGGGCACACAATTAATATCGTCAG
1 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACACAATTAATATCGTCAG
* * *
49788230 TTAATCTGACT
66 CTAATCTAACA
* * *
49788241 AGCGCTGGGTGCAAATCTTTGTTGATTTATTCGACTAGTGCAAGGCACA
1 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACA
49788290 TCTAATGTCA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 110 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (76 bp):
AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACACAATTAATATCGTCAG
CTAATCTAACA
Found at i:49792519 original size:17 final size:17
Alignment explanation
Indices: 49792497--49792530 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49792487 ATCTGAAATT
*
49792497 TTCAGTAGTTGCTTTGG
1 TTCAGTAATTGCTTTGG
49792514 TTCAGTAATTGCTTTGG
1 TTCAGTAATTGCTTTGG
49792531 CAACGAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.26, T:0.47
Consensus pattern (17 bp):
TTCAGTAATTGCTTTGG
Found at i:49796033 original size:10 final size:10
Alignment explanation
Indices: 49796018--49796049 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
49796008 TAAATACATT
49796018 TAATTAAAGA
1 TAATTAAAGA
49796028 TAATTAAAGA
1 TAATTAAAGA
49796038 TAATTAAA-A
1 TAATTAAAGA
49796047 TAA
1 TAA
49796050 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:49809867 original size:18 final size:18
Alignment explanation
Indices: 49809835--49809964 Score: 134
Period size: 18 Copynumber: 7.2 Consensus size: 18
49809825 TAAATAAAAG
*
49809835 TACTGAATGACTGATTGT
1 TACTGAATAACTGATTGT
* * *
49809853 TATTGAATAATTGATCGT
1 TACTGAATAACTGATTGT
*
49809871 TACTGAATAACTGATCGT
1 TACTGAATAACTGATTGT
*
49809889 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
** *
49809907 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGT
* *
49809925 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
* * *
49809943 TACTGAATGATTGAATGT
1 TACTGAATAACTGATTGT
49809961 TACT
1 TACT
49809965 AAATGAAACT
Statistics
Matches: 90, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 90 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:49814143 original size:26 final size:25
Alignment explanation
Indices: 49814096--49814145 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
49814086 AAGATGCATG
49814096 TATATAAAATTTTAATAAATTAAAAA
1 TATATAAAATTTTAAT-AATTAAAAA
49814122 TATATAAAATTATTAGAT-ATTAAA
1 TATATAAAATT-TTA-ATAATTAAA
49814146 TTAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.77
27 3 0.14
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TATATAAAATTTTAATAATTAAAAA
Found at i:49819124 original size:14 final size:13
Alignment explanation
Indices: 49819105--49819141 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
49819095 TATAGTTTAA
49819105 ATTTAATAATATAT
1 ATTTAATAAT-TAT
49819119 ATTTAAT-ATTAT
1 ATTTAATAATTAT
49819131 ATTTAATAATT
1 ATTTAATAATT
49819142 TTCAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 5 0.23
14 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTAATAATTAT
Found at i:49821798 original size:24 final size:27
Alignment explanation
Indices: 49821751--49821799 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
49821741 ACTTATAATT
49821751 TTAATATTTAATATATATAACTTTATA
1 TTAATATTTAATATATATAACTTTATA
49821778 TTAA-ATTTAAT-T-TATAACTTTA
1 TTAATATTTAATATATATAACTTTA
49821800 CTTTTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 7 0.32
27 4 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATATTTAATATATATAACTTTATA
Found at i:49829779 original size:21 final size:21
Alignment explanation
Indices: 49829754--49829797 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
49829744 ATTGGGCTGT
* *
49829754 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
49829775 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
49829796 TA
1 TA
49829798 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:49833909 original size:6 final size:6
Alignment explanation
Indices: 49833900--49833945 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
49833890 TGGGGCAGAT
* * *
49833900 GCTGAA GCTGAA GCTGAA GCTGCA GCTGCA GCTGGA GCTGAA GCTG
1 GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTG
49833946 GAGATGGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.37, T:0.17
Consensus pattern (6 bp):
GCTGAA
Found at i:49833946 original size:12 final size:12
Alignment explanation
Indices: 49833900--49833960 Score: 77
Period size: 12 Copynumber: 5.1 Consensus size: 12
49833890 TGGGGCAGAT
*
49833900 GCTGAAGCTGAA
1 GCTGAAGCTGGA
*
49833912 GCTGAAGCTGCA
1 GCTGAAGCTGGA
*
49833924 GCTGCAGCTGGA
1 GCTGAAGCTGGA
49833936 GCTGAAGCTGGA
1 GCTGAAGCTGGA
* *
49833948 GATGGAGCTGGA
1 GCTGAAGCTGGA
49833960 G
1 G
49833961 AAGCGCCAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.25, C:0.18, G:0.41, T:0.16
Consensus pattern (12 bp):
GCTGAAGCTGGA
Found at i:49833953 original size:18 final size:18
Alignment explanation
Indices: 49833900--49833957 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
49833890 TGGGGCAGAT
*
49833900 GCTGAAGCTGAAGCTGAA
1 GCTGAAGCTGAAGCTGGA
* *
49833918 GCTGCAGCTGCAGCTGGA
1 GCTGAAGCTGAAGCTGGA
* *
49833936 GCTGAAGCTGGAGATGGA
1 GCTGAAGCTGAAGCTGGA
49833954 GCTG
1 GCTG
49833958 GAGAAGCGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.19, G:0.40, T:0.17
Consensus pattern (18 bp):
GCTGAAGCTGAAGCTGGA
Found at i:49838605 original size:6 final size:6
Alignment explanation
Indices: 49838553--49838613 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
49838543 TGGGGCAGCT
* * * * * *
49838553 GCTGAA GCTGAA GCTGAA GCTGCA CCTGGA GCTGAA GCTGGA GCTGGA
1 GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA
49838601 GCTGGA GC-GGA GC
1 GCTGGA GCTGGA GC
49838614 CAGCAGCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.23, C:0.21, G:0.41, T:0.15
Consensus pattern (6 bp):
GCTGGA
Found at i:49839820 original size:15 final size:15
Alignment explanation
Indices: 49839800--49839853 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
49839790 ATACTACAAA
49839800 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
49839815 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
49839832 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
49839849 ATATT
1 ATATT
49839854 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:49839960 original size:22 final size:22
Alignment explanation
Indices: 49839935--49839980 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
49839925 TAAAAGTGAA
*
49839935 ATATTTATTAAAATAATAAATT
1 ATATTAATTAAAATAATAAATT
* * *
49839957 ATATTAATTATATTAATAATTT
1 ATATTAATTAAAATAATAAATT
49839979 AT
1 AT
49839981 TATATGACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATTAAAATAATAAATT
Found at i:49840053 original size:13 final size:14
Alignment explanation
Indices: 49840031--49840062 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49840021 TATATTGAAA
49840031 AATA-TAATATTTT
1 AATATTAATATTTT
49840044 -ATATTAATATTTT
1 AATATTAATATTTT
49840057 AATATT
1 AATATT
49840063 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:49842298 original size:46 final size:46
Alignment explanation
Indices: 49842226--49842313 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
49842216 AACTAGGCAT
49842226 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
49842272 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
49842314 GCGCGCAGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:49845501 original size:18 final size:18
Alignment explanation
Indices: 49845461--49845503 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49845451 TGGGGCAGCT
*
49845461 GCTGAAGCTGAAGCTGCA
1 GCTGGAGCTGAAGCTGCA
* *
49845479 CCTGGAGCTGAAGCTGGA
1 GCTGGAGCTGAAGCTGCA
49845497 GCTGGAG
1 GCTGGAG
49845504 ATGGAGCGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.16
Consensus pattern (18 bp):
GCTGGAGCTGAAGCTGCA
Found at i:49846959 original size:19 final size:18
Alignment explanation
Indices: 49846937--49846980 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
49846927 ATTATTGAAC
*
49846937 TTAAAACATATTTAAATAT
1 TTAAAACATAATTAAA-AT
*
49846956 TTAATACATAATTAAAAT
1 TTAAAACATAATTAAAAT
49846974 TATAAAA
1 T-TAAAA
49846981 AAATATTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAACATAATTAAAAT
Found at i:49847880 original size:26 final size:26
Alignment explanation
Indices: 49847850--49847902 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
49847840 TTTTAAAAAG
*
49847850 ATTGAAAATAGTAAGACAAGTAACAA
1 ATTGAAAATAGTAAGACAAATAACAA
49847876 ATTGAAAATAGTAAGACAAATAACAA
1 ATTGAAAATAGTAAGACAAATAACAA
49847902 A
1 A
49847903 AACTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.19
Consensus pattern (26 bp):
ATTGAAAATAGTAAGACAAATAACAA
Found at i:49847910 original size:26 final size:26
Alignment explanation
Indices: 49847854--49847910 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
49847844 AAAAAGATTG
* ***
49847854 AAAATAGTAAGACAAGTAACAAATTG
1 AAAATAGTAAGACAAATAACAAAAAC
49847880 AAAATAGTAAGACAAATAACAAAAAC
1 AAAATAGTAAGACAAATAACAAAAAC
*
49847906 TAAAT
1 AAAAT
49847911 TGAAGTGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.18
Consensus pattern (26 bp):
AAAATAGTAAGACAAATAACAAAAAC
Found at i:49860438 original size:12 final size:12
Alignment explanation
Indices: 49860423--49860451 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49860413 GTGAATAAAG
49860423 AAGATAAATGGA
1 AAGATAAATGGA
49860435 AAGAT-AATGGA
1 AAGATAAATGGA
49860446 AAGATA
1 AAGATA
49860452 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:49863009 original size:44 final size:44
Alignment explanation
Indices: 49862943--49863029 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
49862933 CGGTAATTGA
* *
49862943 TTTAGGAGTGGGCCATTCTCTAATTGCCTTTACTTTGTCCTCAG
1 TTTAGGAGTGGGCCATTCTCTAATGGCATTTACTTTGTCCTCAG
*
49862987 TTTAGGAGTGGGCCATTTTCTAATGGCATTTACTTTGTCCTCA
1 TTTAGGAGTGGGCCATTCTCTAATGGCATTTACTTTGTCCTCA
49863030 TCGACATGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (44 bp):
TTTAGGAGTGGGCCATTCTCTAATGGCATTTACTTTGTCCTCAG
Found at i:49866348 original size:9 final size:10
Alignment explanation
Indices: 49866332--49866365 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
49866322 AACCCACAGA
*
49866332 ATTTTTTTTT
1 ATTTTTTTGT
49866342 ATTTTTTTGT
1 ATTTTTTTGT
49866352 -TTTTTTTGT
1 ATTTTTTTGT
49866361 ATTTT
1 ATTTT
49866366 ATTTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (10 bp):
ATTTTTTTGT
Found at i:49866366 original size:24 final size:25
Alignment explanation
Indices: 49866338--49866384 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
49866328 CAGAATTTTT
*
49866338 TTTTATTTTTTTGT-TTTTTTTGTA
1 TTTTATTTTTTTGTACTTTTTTGTA
49866362 TTTTATTTTTTTGTACTTTTTTG
1 TTTTATTTTTTTGTACTTTTTTG
49866385 ATCACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.81
Consensus pattern (25 bp):
TTTTATTTTTTTGTACTTTTTTGTA
Found at i:49866370 original size:15 final size:16
Alignment explanation
Indices: 49866352--49866381 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49866342 ATTTTTTTGT
49866352 TTTTTTTGTA-TTTTA
1 TTTTTTTGTACTTTTA
49866367 TTTTTTTGTACTTTT
1 TTTTTTTGTACTTTT
49866382 TTGATCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTTTTGTACTTTTA
Found at i:49866798 original size:12 final size:12
Alignment explanation
Indices: 49866783--49866811 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49866773 GTGAATAAAG
49866783 AAGATAAATGGA
1 AAGATAAATGGA
49866795 AAGAT-AATGGA
1 AAGATAAATGGA
49866806 AAGATA
1 AAGATA
49866812 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:49866989 original size:26 final size:27
Alignment explanation
Indices: 49866960--49867010 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
49866950 TTGTTAAAAC
* *
49866960 TCTTCTAAAAAAAATTC-AAGAGAAAT
1 TCTTCAAAAAAAAACTCAAAGAGAAAT
*
49866986 TCTTGAAAAAAAAACTCAAAGAGAA
1 TCTTCAAAAAAAAACTCAAAGAGAA
49867011 TTTATTAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.22
Consensus pattern (27 bp):
TCTTCAAAAAAAAACTCAAAGAGAAAT
Found at i:49871081 original size:55 final size:54
Alignment explanation
Indices: 49870994--49871248 Score: 224
Period size: 55 Copynumber: 4.8 Consensus size: 54
49870984 ATTAGGGTTT
* * *
49870994 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGACACCATGTAAGACCATGTCAAGACATGG-AATTGGTAA-GTTTCATAAGGC
* * *
49871049 AAGGACATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGACACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-ATAAGGC
* * * * * *
49871104 AAAAGTC-CCATGTAAGACCATGTCAAGGCATGGCATTGTTGAG-TTCATAAGGC
1 -AAGGACACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCATAAGGC
* *
49871157 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC--AA---
1 AAGGACACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTTCATAAGGC
* * * *
49871206 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGACACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAG
49871249 GTACCCGTCA
Statistics
Matches: 170, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
49 39 0.23
52 5 0.03
53 41 0.24
54 14 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGACACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCATAAGGC
Found at i:49871200 original size:108 final size:110
Alignment explanation
Indices: 49871001--49871203 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 110
49870991 TTTAAGGATA
*
49871001 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACACCATGTAAGA
*
49871066 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAAGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTC
* * * * *
49871111 CCATGTAAGACCATGTCAAGGCATGG-CATTGTTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGACACCATGTAAG
* *
49871173 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
49871204 AAAAGGATAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.59
109 6 0.07
110 25 0.30
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTC
Found at i:49871354 original size:53 final size:53
Alignment explanation
Indices: 49871257--49871433 Score: 170
Period size: 53 Copynumber: 3.4 Consensus size: 53
49871247 AGGTACCCGT
*
49871257 CAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-T-CTCATGTAAGACCATGC
1 CAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGATAC-CATGTAAGACCATGC
* * *
49871312 CAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGT
1 CAAGACATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGC
* * *
49871365 CGAGACATGGCAATGGTAAGTT--TCAA---AAGGATACCACGTAAGACCATGC
1 CAAGACATGGCATTGGTAAGTTCAT-AAGGCAAGGATACCATGTAAGACCATGC
* * *
49871414 CAAGTCATGGAAATGGTAAG
1 CAAGACATGGCATTGGTAAG
49871434 GTATCCATGT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
49 38 0.36
51 1 0.01
52 6 0.06
53 40 0.38
54 2 0.02
55 19 0.18
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
CAAGACATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGC
Found at i:49871382 original size:185 final size:185
Alignment explanation
Indices: 49871070--49871436 Score: 671
Period size: 185 Copynumber: 2.0 Consensus size: 185
49871060 GTAAGACCAT
* *
49871070 GTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAAGTCCCATGTAAGACCATGTCAAGGCAT
1 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAAGTCCCATGTAAGACCATGCCAAGGCAT
*
49871135 GGCATTGTTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG
66 GGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG
*
49871200 TTTCAAAAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAGGTACCC
131 TTTCAAAAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAGGTACCC
* *
49871255 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCTCATGTAAGACCATGCCAAGGCAT
1 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAAGTCCCATGTAAGACCATGCCAAGGCAT
49871320 GGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG
66 GGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG
*
49871385 TTTCAAAAGGATACCACGTAAGACCATGCCAAGTCATGGAAATGGTAAGGTA
131 TTTCAAAAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAGGTA
49871437 TCCATGTATC
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
185 175 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (185 bp):
GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAAGTCCCATGTAAGACCATGCCAAGGCAT
GGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG
TTTCAAAAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAGGTACCC
Found at i:49873834 original size:9 final size:9
Alignment explanation
Indices: 49873818--49873896 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
49873808 GGTATTTTTC
49873818 GGTAATTCG
1 GGTAATTCG
*
49873827 GTTAATTCG
1 GGTAATTCG
*
49873836 GTTAATTCG
1 GGTAATTCG
*
49873845 GTTAATTCG
1 GGTAATTCG
49873854 GGTAATTCG
1 GGTAATTCG
49873863 GGTAATTCG
1 GGTAATTCG
49873872 GGTAATTCG
1 GGTAATTCG
49873881 GGTAATTCG
1 GGTAATTCG
49873890 GGTAATT
1 GGTAATT
49873897 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:49881571 original size:16 final size:16
Alignment explanation
Indices: 49881552--49881582 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49881542 CTTCTTCACT
49881552 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49881568 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49881583 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49881588 original size:20 final size:20
Alignment explanation
Indices: 49881549--49881588 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49881539 AAACTTCTTC
* *
49881549 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49881569 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49881589 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:49881861 original size:31 final size:31
Alignment explanation
Indices: 49881826--49881888 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
49881816 TTTTGAAACT
49881826 TACCATTGCCATGTCTCGACATGGTCTTACA
1 TACCATTGCCATGTCTCGACATGGTCTTACA
49881857 TACCATTGCCATGTCTCGACATGGTCTTACA
1 TACCATTGCCATGTCTCGACATGGTCTTACA
49881888 T
1 T
49881889 GGTATCCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (31 bp):
TACCATTGCCATGTCTCGACATGGTCTTACA
Found at i:49881987 original size:55 final size:54
Alignment explanation
Indices: 49881857--49882060 Score: 243
Period size: 55 Copynumber: 3.8 Consensus size: 54
49881847 TGGTCTTACA
* * * *
49881857 TACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAACT
* * *
49881910 CACCAATGCCATGCCTTGACATGGTTTTACATGGGA-CCTTTGCCTTATTAAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTA-TAAAACT
** * *
49881965 TATTAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-AAAACCT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAA-CT
*
49882019 TACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
49882061 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 7 0.06
55 73 0.58
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAACT
Found at i:49888800 original size:19 final size:22
Alignment explanation
Indices: 49888754--49888799 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
49888744 AAGTAGGTTG
49888754 TATATTATTTTTTGTAATATTA
1 TATATTATTTTTTGTAATATTA
49888776 TATATTATTTTTAT-TAAT-TTA
1 TATATTATTTTT-TGTAATATTA
49888797 TAT
1 TAT
49888800 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTATTTTTTGTAATATTA
Found at i:49888816 original size:17 final size:16
Alignment explanation
Indices: 49888777--49888817 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
49888767 GTAATATTAT
*
49888777 ATATTAT-TTTTATTA
1 ATATTATATTTTAATA
49888792 AT-TTATATTTTAATA
1 ATATTATATTTTAATA
49888807 ATTATTATATT
1 A-TATTATATT
49888818 AAGAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 1 0.05
17 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTATATTTTAATA
Found at i:49888842 original size:60 final size:59
Alignment explanation
Indices: 49888776--49888942 Score: 203
Period size: 61 Copynumber: 2.8 Consensus size: 59
49888766 TGTAATATTA
* * **
49888776 TATATTATTTTTATTAATTTATATTTTAATAATTATTATATTAAGAATATTATTAAA-T-TG
1 TATATTATTTTTATTAAATTATA-TTTAATAATAATT-TATTAA-AATAGAATTAAATTATG
* *
49888836 TATATTATTATTGTTAAATTATATTTAATAATAAATTTATTAAAATAGAATTAAATTATG
1 TATATTATTTTTATTAAATTATATTTAATAAT-AATTTATTAAAATAGAATTAAATTATG
*
49888896 TATTATTGTTTTTATTAAATTATATTTAATAATAATTCTATTAAAAT
1 TA-TATTATTTTTATTAAATTATATTTAATAATAATT-TATTAAAAT
49888943 TTAATAACAA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
58 10 0.11
59 16 0.17
60 31 0.33
61 36 0.39
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (59 bp):
TATATTATTTTTATTAAATTATATTTAATAATAATTTATTAAAATAGAATTAAATTATG
Found at i:49889134 original size:16 final size:16
Alignment explanation
Indices: 49889091--49889139 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
49889081 TCAACTCTAA
49889091 TACAACTCTATTCCAT
1 TACAACTCTATTCCAT
** *
49889107 TACAGTTTTATTCCAT
1 TACAACTCTATTCCAT
*
49889123 TACAACCCTATTCCAT
1 TACAACTCTATTCCAT
49889139 T
1 T
49889140 GTACTGAACT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.41
Consensus pattern (16 bp):
TACAACTCTATTCCAT
Found at i:49896418 original size:83 final size:84
Alignment explanation
Indices: 49896274--49896443 Score: 243
Period size: 83 Copynumber: 2.0 Consensus size: 84
49896264 CTTTTTTATG
* * *
49896274 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGATAGGAAATGGTGCATTTATTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
49896339 TTTATTTATTTTACTAATT
66 TTTATTTATTTTACTAATT
* ** *
49896358 GGGTAGAAATAGT-GAGGTATGATTAACATGTTTAATGACAGGAAATAGTACATTTTTTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
* * *
49896422 TTTATTTGTTTTGCTCATT
66 TTTATTTATTTTACTAATT
49896441 GGG
1 GGG
49896444 GCTGAGATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
83 63 0.83
84 13 0.17
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.40
Consensus pattern (84 bp):
GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
TTTATTTATTTTACTAATT
Found at i:49896729 original size:33 final size:33
Alignment explanation
Indices: 49896691--49896757 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
49896681 AAAAATAAAA
49896691 AATCATGTCATCTATCATGGTCATACATTGATT
1 AATCATGTCATCTATCATGGTCATACATTGATT
49896724 AATCATGTCATCTATCATGGTCATACATTGATT
1 AATCATGTCATCTATCATGGTCATACATTGATT
49896757 A
1 A
49896758 TCTTTATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
AATCATGTCATCTATCATGGTCATACATTGATT
Found at i:49899463 original size:21 final size:22
Alignment explanation
Indices: 49899423--49899469 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
49899413 CTCTGCTCAA
*
49899423 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
49899444 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
49899466 ACTC
1 ACTC
49899470 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:49901296 original size:21 final size:22
Alignment explanation
Indices: 49901267--49901313 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49901257 CAGAAGGAGT
*
49901267 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
49901289 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
49901310 GAGT
1 GAGT
49901314 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:49903721 original size:23 final size:23
Alignment explanation
Indices: 49903675--49903717 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49903665 TACATTAATC
49903675 ATATTAATATTTTGTAATATTAA
1 ATATTAATATTTTGTAATATTAA
49903698 ATATTAATATTTT-T-ATATTA
1 ATATTAATATTTTGTAATATTA
49903718 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTAATATTTTGTAATATTAA
Found at i:49904269 original size:14 final size:14
Alignment explanation
Indices: 49904246--49904279 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
49904236 AAAAATGTGT
49904246 AAAACATTTTCC-A
1 AAAACATTTTCCGA
49904259 AAAATCATTTTCCGA
1 AAAA-CATTTTCCGA
49904274 AAAACA
1 AAAACA
49904280 AGTACACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 10 0.53
15 5 0.26
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAACATTTTCCGA
Found at i:49908675 original size:17 final size:18
Alignment explanation
Indices: 49908653--49908689 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
49908643 TAATAAAAAT
49908653 ATAATTTCAT-TATTT-TA
1 ATAATTT-ATATATTTATA
49908670 ATAATTTATATATTTATA
1 ATAATTTATATATTTATA
49908688 AT
1 AT
49908690 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.67
18 4 0.22
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTATATATTTATA
Found at i:49910486 original size:23 final size:22
Alignment explanation
Indices: 49910458--49910500 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
49910448 ATTTCACAGC
*
49910458 AAGAAAACAAAACTAAAAAAAAA
1 AAGAAAACAAAA-GAAAAAAAAA
*
49910481 AAGAAAATAAAAGAAAAAAA
1 AAGAAAACAAAAGAAAAAAA
49910501 GGAATCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (22 bp):
AAGAAAACAAAAGAAAAAAAAA
Found at i:49910487 original size:18 final size:18
Alignment explanation
Indices: 49910461--49910501 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49910451 TCACAGCAAG
*
49910461 AAAACAAAACTAAAA-AAA
1 AAAAGAAAA-TAAAAGAAA
49910479 AAAAGAAAATAAAAGAAA
1 AAAAGAAAATAAAAGAAA
49910497 AAAAG
1 AAAAG
49910502 GAATCTACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.83, C:0.05, G:0.07, T:0.05
Consensus pattern (18 bp):
AAAAGAAAATAAAAGAAA
Found at i:49912006 original size:95 final size:96
Alignment explanation
Indices: 49911907--49912081 Score: 264
Period size: 94 Copynumber: 1.8 Consensus size: 96
49911897 GAGTTCAATC
*
49911907 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGGTAAAATTTTATCAAT-AT-TATTT
1 TATTAAGAATAAATAATATTAATT-AATTATTAATAATAGATAAAATTTTATCAATAATATATTT
* *
49911970 TTTTTATTTTTTTATAAAAATCTGGTTAAAAT
65 ATTTTATGTTTTTATAAAAATCTGGTTAAAAT
* * * *
49912002 TATTAAGAATAAGTAATGTTAATTAATTTTTAATAATAGATAAAATTTTATTAATAATATATTTA
1 TATTAAGAATAAATAATATTAATTAATTATTAATAATAGATAAAATTTTATCAATAATATATTTA
49912067 TTTTATGTTTTTATA
66 TTTTATGTTTTTATA
49912082 TAATTGAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
94 28 0.39
95 24 0.34
96 19 0.27
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (96 bp):
TATTAAGAATAAATAATATTAATTAATTATTAATAATAGATAAAATTTTATCAATAATATATTTA
TTTTATGTTTTTATAAAAATCTGGTTAAAAT
Found at i:49915351 original size:6 final size:6
Alignment explanation
Indices: 49915275--49915347 Score: 92
Period size: 6 Copynumber: 12.2 Consensus size: 6
49915265 CAATACGTAT
* *
49915275 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ATATAT
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
* * * *
49915323 ATATAC ATATAC ATATAC ATATAC A
1 ACATAC ACATAC ACATAC ACATAC A
49915348 TATAAAGACG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (6 bp):
ACATAC
Found at i:49915744 original size:219 final size:219
Alignment explanation
Indices: 49915365--49915808 Score: 834
Period size: 219 Copynumber: 2.0 Consensus size: 219
49915355 ACGATACATC
49915365 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
49915430 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGGTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
49915495 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
49915560 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
* * *
49915584 TACAGATTGTTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCTCATAAATTTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
49915649 CTATGAACCAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
*
49915714 AGAAGCTATGTAGAAGTAATGCATGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
49915779 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
49915803 TACAGA
1 TACAGA
49915809 CCTCGCTTCT
Statistics
Matches: 219, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
219 219 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (219 bp):
TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
ATCATTCAAAGCTATATCAGAAAG
Found at i:49924586 original size:37 final size:37
Alignment explanation
Indices: 49924536--49924646 Score: 213
Period size: 37 Copynumber: 3.0 Consensus size: 37
49924526 CTCCACTGTA
49924536 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
*
49924573 ACGCATGATAATGCATCAACATCCTATTTTCATTTCT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
49924610 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
49924647 GGGACTATAG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (37 bp):
ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
Found at i:49929601 original size:19 final size:20
Alignment explanation
Indices: 49929564--49929603 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49929554 AATATAAAAT
*
49929564 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAACTTTTAAA
49929584 AATTCAAAAT-ACTTTTAAA
1 AATTCAAAATAACTTTTAAA
49929603 A
1 A
49929604 TTTTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAACTTTTAAA
Found at i:49933221 original size:13 final size:13
Alignment explanation
Indices: 49933203--49933227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49933193 AAAATGTCAT
49933203 AATATTAATATTA
1 AATATTAATATTA
49933216 AATATTAATATT
1 AATATTAATATT
49933228 TACAGGCTTG
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:0.00, T:0.48
Consensus pattern (13 bp):
AATATTAATATTA
Done.