Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 27 of 103
Found at i:10068735 original size:26 final size:23
Alignment explanation
Indices: 10068689--10068745 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
10068679 TATACGTATA
*
10068689 CCCATCATCATCATGCACATCAT
1 CCCATCATCATCATACACATCAT
*
10068712 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACATCAT
**
10068735 CATATCATCAT
1 CCCATCATCAT
10068746 AATCACCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.39, G:0.02, T:0.26
Consensus pattern (23 bp):
CCCATCATCATCATACACATCAT
Found at i:10068808 original size:43 final size:43
Alignment explanation
Indices: 10068758--10068876 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
10068748 TCACCAACTC
* *
10068758 ATGCGCACTCTCTACTCGCACATGGCTGGGTCA-TCACCGAG-TT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATTC-CCG-GCTT
* *
10068801 ATGCGCACTCCCTACTCGCACATAACTGGGTCATTCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATTCCCGGCTT
* *
10068844 ATGCACACTCCCTACTCGCACATAGCTGAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCA
10068877 ATATAATTAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 64 0.96
44 2 0.03
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCTGGGTCATTCCCGGCTT
Found at i:10072535 original size:31 final size:31
Alignment explanation
Indices: 10072497--10072667 Score: 288
Period size: 31 Copynumber: 5.5 Consensus size: 31
10072487 TTTGTCAGTC
*
10072497 ATGTGGTAACACGCCATGCATATAACATAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
*
10072528 ATGTGGTAACACGCCATGCATATAACATAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
*
10072559 ATGTGGTAACACGCCATGCATATAACGTCAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
* *
10072590 ATGTGGTAACACGCTATGCATATAACGTCAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
10072621 ATGTGGTAACACGCCATGCATATAACGTAAA
1 ATGTGGTAACACGCCATGCATATAACGTAAA
*
10072652 TTGTGGTAACACGCCA
1 ATGTGGTAACACGCCA
10072668 ACGCTGACAT
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (31 bp):
ATGTGGTAACACGCCATGCATATAACGTAAA
Found at i:10074153 original size:3 final size:3
Alignment explanation
Indices: 10074145--10074213 Score: 58
Period size: 3 Copynumber: 24.7 Consensus size: 3
10074135 CATCTATTTT
* * * *
10074145 TTA TTA TTA TTA TTA TTA TTA TT- TTG TCA TT- TTT TTA TTA TT- TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10074190 TTA TTA TTT TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10074214 CTTTATTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 9 0.17
3 44 0.83
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:10074164 original size:22 final size:21
Alignment explanation
Indices: 10074139--10074257 Score: 66
Period size: 22 Copynumber: 5.4 Consensus size: 21
10074129 TGCAATCATC
10074139 TATTTTTTATTATTATTATTAT
1 TATTTTTTATTATT-TTATTAT
* * *
10074161 TATTATTTTGTCATTTTTTTAT
1 TATT-TTTTATTATTTTATTAT
*
10074183 TATTTAATTATTA-TTT-TTAT
1 TATTT-TTTATTATTTTATTAT
*
10074203 T-TTATTTTATT-CTTTATTAT
1 TATT-TTTTATTATTTTATTAT
*
10074223 CATATTTTCTATTTTATTTCTAATTAT
1 --TATTTT-T-TATTATTT-T-ATTAT
10074250 TATTTTTT
1 TATTTTTT
10074258 TATACCTTAC
Statistics
Matches: 75, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
19 10 0.13
20 10 0.13
21 4 0.05
22 21 0.28
23 12 0.16
24 4 0.05
25 8 0.11
26 1 0.01
27 5 0.07
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (21 bp):
TATTTTTTATTATTTTATTAT
Found at i:10074195 original size:30 final size:29
Alignment explanation
Indices: 10074142--10074256 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 29
10074132 AATCATCTAT
*
10074142 TTTTTATTATTATTATTATTATTATTTTGTCA
1 TTTTT-TTATTATT-TAATTATTATTTT-TCA
10074174 TTTTTTTATTATTTAATTATTATTTTT-A
1 TTTTTTTATTATTTAATTATTATTTTTCA
* *
10074202 TTTTATTTTATTCTTT-ATTATCATATTTTC-
1 -TTT-TTTTATTATTTAATTATTAT-TTTTCA
* *
10074232 -TATTTTATT-TCTAATTATTATTTTT
1 TTTTTTTATTATTTAATTATTATTTTT
10074257 TTATACCTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
26 6 0.08
27 14 0.19
28 2 0.03
29 11 0.15
30 26 0.36
31 8 0.11
32 5 0.07
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (29 bp):
TTTTTTTATTATTTAATTATTATTTTTCA
Found at i:10089574 original size:3 final size:3
Alignment explanation
Indices: 10089562--10089635 Score: 59
Period size: 3 Copynumber: 26.3 Consensus size: 3
10089552 TGCAATCATC
* * * *
10089562 TAT T-T TAT TAT TAT TAT TAT TAT TAT TTT TGT CAT T-T TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10089608 T-T AAT TAT TAT TTT TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10089636 CTTTATTATC
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
2 9 0.16
3 47 0.84
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:10089641 original size:37 final size:36
Alignment explanation
Indices: 10089565--10089644 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
10089555 AATCATCTAT
*
10089565 TTTATTA-TTATTATTATTATTATTTTTGTCATTTT
1 TTTATTATTTATTATTATTATTATTTTTGTCATTTC
* * *
10089600 TTTATTATTTAATTATTATTTTTATTTTATTTTA-TTC
1 TTTATTATTT-ATTATTATTATTATTTT-TGTCATTTC
10089637 TTTATTAT
1 TTTATTAT
10089645 CATATTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 7 0.18
36 2 0.05
37 26 0.68
38 3 0.08
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (36 bp):
TTTATTATTTATTATTATTATTATTTTTGTCATTTC
Found at i:10103781 original size:19 final size:19
Alignment explanation
Indices: 10103757--10103803 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
10103747 GTAAATGCTC
10103757 TTCACAATGCATCACCCCA
1 TTCACAATGCATCACCCCA
* *
10103776 TTCACAAAATGTATCACCCCG
1 TTCAC--AATGCATCACCCCA
10103797 TTCACAA
1 TTCACAA
10103804 AACAAAGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.23
Consensus pattern (19 bp):
TTCACAATGCATCACCCCA
Found at i:10103791 original size:21 final size:21
Alignment explanation
Indices: 10103762--10103805 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10103752 TGCTCTTCAC
10103762 AATGCATCACCCCATTCACAA
1 AATGCATCACCCCATTCACAA
* *
10103783 AATGTATCACCCCGTTCACAA
1 AATGCATCACCCCATTCACAA
10103804 AA
1 AA
10103806 CAAAGGAGAA
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:0.39, C:0.34, G:0.07, T:0.20
Consensus pattern (21 bp):
AATGCATCACCCCATTCACAA
Found at i:10105182 original size:30 final size:31
Alignment explanation
Indices: 10105146--10105205 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
10105136 ATAAAAATTT
*
10105146 ATTTAATTCAAAATAA-AAATAAATAAAAAG
1 ATTTAATTCAAAATAATAAAAAAATAAAAAG
* *
10105176 ATTTAATTGAATATAATAAAAAAATAAAAA
1 ATTTAATTCAAAATAATAAAAAAATAAAAA
10105206 TTTACTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (31 bp):
ATTTAATTCAAAATAATAAAAAAATAAAAAG
Found at i:10115210 original size:33 final size:33
Alignment explanation
Indices: 10115173--10115259 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
10115163 TTTTAATGTC
*
10115173 ATATATTTTATTTTTATTTTTTATTATAA-TCTT
1 ATATATTTTATTTTTATTTTTTAATATAACT-TT
* *
10115206 ATATATTTTATTTTCATTTCTTAATATAACTTT
1 ATATATTTTATTTTTATTTTTTAATATAACTTT
* *
10115239 CTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
10115260 AATTTCTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
33 37 0.82
34 8 0.18
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTAATATAACTTT
Found at i:10125104 original size:99 final size:99
Alignment explanation
Indices: 10124883--10125105 Score: 268
Period size: 99 Copynumber: 2.3 Consensus size: 99
10124873 CGACTTGCTA
* * * * * *
10124883 GGTAGGAAGAGACCGATATAGGGAGAGCTCGATTTGGGCAAAGAGAGAGCAGATCCAGGCAGCTG
1 GGTAGGAAGAGACCGGTAAAGGGAGAGCCCGATTTGGGCAAAGAGAGAGCAAATCCAGGCAACCG
* * * *
10124948 GCAGAGGGAGGTCCGGCGTGGGCTAGTGGTCGAC
66 ACAGAAGAAGGTCCGGCGTGGGCTAGTGGCCGAC
* * * * * *
10124982 GATAGGAAAAGACCGGTAGAGGGAGAGCCCGATTTTGGTAAA-AGAGAGCAAATCTAGGCAACCG
1 GGTAGGAAGAGACCGGTAAAGGGAGAGCCCGATTTGGGCAAAGAGAGAGCAAATCCAGGCAACCG
10125046 ACAGAAGAAGGTCCGGCGTGGGCTAGGTGGCCGAC
66 ACAGAAGAAGGTCCGGCGTGGGCTA-GTGGCCGAC
* *
10125081 GGTAGGAAGAGAGCGGCAAAGGGAG
1 GGTAGGAAGAGACCGGTAAAGGGAG
10125106 GTCCGGCATG
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 40 0.39
99 63 0.61
ACGTcount: A:0.30, C:0.17, G:0.41, T:0.13
Consensus pattern (99 bp):
GGTAGGAAGAGACCGGTAAAGGGAGAGCCCGATTTGGGCAAAGAGAGAGCAAATCCAGGCAACCG
ACAGAAGAAGGTCCGGCGTGGGCTAGTGGCCGAC
Found at i:10126076 original size:15 final size:15
Alignment explanation
Indices: 10126053--10126137 Score: 61
Period size: 15 Copynumber: 5.7 Consensus size: 15
10126043 AAATCATTCA
*
10126053 AAAAAAATAAATAAT
1 AAAATAATAAATAAT
10126068 AAAATAATAAATAA-
1 AAAATAATAAATAAT
**
10126082 ACAAATAATAGGTAAT
1 A-AAATAATAAATAAT
*
10126098 -ATATATATAAATAA-
1 AAAATA-ATAAATAAT
10126112 ATAAATAATAAA-AAT
1 A-AAATAATAAATAAT
*
10126127 GATAATAATAA
1 -AAAATAATAA
10126138 TTCAAATGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
14 7 0.13
15 43 0.78
16 5 0.09
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:10132904 original size:19 final size:20
Alignment explanation
Indices: 10132875--10132914 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
10132865 TCACTTCTAA
10132875 ACTTCAAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
10132895 ACTT-AAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
10132914 A
1 A
10132915 AGTCAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (20 bp):
ACTTCAAATCATACTCCAAT
Found at i:10141080 original size:38 final size:38
Alignment explanation
Indices: 10141024--10141627 Score: 630
Period size: 38 Copynumber: 15.7 Consensus size: 38
10141014 CAAAAAAGAA
* * *
10141024 AAAAGGTTTTGTTACCTCAGTTTTGAGGAGTTCATTTTT
1 AAAA-GTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
10141063 AAAAGTTTCGTTGCCTCAGCTTTGAAGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
10141100 AAAAGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTC
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
10141138 AAAAGTCTCATTGTCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
10141176 AAAAGTCTCGTTGCCTCAACTTCGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
10141214 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * * *
10141251 AAAAGTCTCGATGCCTCAGCTTTGAGGAGTTC-GTTTA
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
10141288 AAGAAGTTTCGTTGCCTCAGCTTTGAGGAGTTTATTTTTT
1 AA-AAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT
*
10141328 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * **
10141366 AAAAGTTCCGTTGCCTCAGTTTTGAAAAGTTCATTTTTTTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-----TTTTT
* * ** * *
10141409 AAATA-TCTCATTGCCTCATTTTTTAGGAGTTTA-TTTT
1 AAA-AGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
10141446 AGAAGTTTCATTGCCTCAGCTTTGAGGAGTT-AATTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
10141483 AAAAG-TTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * * *
10141520 AGAAGTTTCATTGCCTCAGCTTTGGGGAGTTTTATTTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAG-TTCA-TTTTT
* ** *
10141560 AAAAAAAAAAGTTTCGTAGCCTCAATTTTGAGGAGTTTATTTTT
1 ------AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
10141604 -AAAGTTTCGTCGCCTCAACTTTGA
1 AAAAGTTTCGTTGCCTCAGCTTTGA
10141628 ATAGTCTCAT
Statistics
Matches: 482, Mismatches: 60, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
36 26 0.05
37 141 0.29
38 208 0.43
39 36 0.07
40 10 0.02
43 28 0.06
44 6 0.01
45 4 0.01
46 23 0.05
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (38 bp):
AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
Found at i:10141129 original size:75 final size:76
Alignment explanation
Indices: 10141038--10141550 Score: 610
Period size: 75 Copynumber: 6.7 Consensus size: 76
10141028 GGTTTTGTTA
* *
10141038 CCTCAGTTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAAGAGTTCA-TTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
*
10141102 AAGTTTCATTG
66 AAGTCTCATTG
* * * *
10141113 CCTCAGCTTTGAGGAGTTCATTTTCAAAAGTCTCATTGTCTCAGCTTTGAGGAGTTCATTTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
*
10141178 AAGTCTCGTTG
66 AAGTCTCATTG
* *
10141189 CCTCAACTTCGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
10141253 AAGTCTCGA-TG
66 AAGTCTC-ATTG
* * *
10141264 CCTCAGCTTTGAGGAGTTC-GTTTAAAGAAGTTTCGTTGCCTCAGCTTTGAGGAGTTTATTTTTT
1 CCTCAGCTTTGAGGAGTTCATTTTTAA-AAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT
* *
10141328 AAAAGTTTCGTTG
64 AAAAGTCTCATTG
* * * **
10141341 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTTCCGTTGCCTCAGTTTTGAAAAGTTCATTTTTTT
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-----TT
10141406 TTTAAATA-TCTCATTG
61 TTTAAA-AGTCTCATTG
** * * * * *
10141422 CCTCATTTTTTAGGAGTTTA-TTTTAGAAGTTTCATTGCCTCAGCTTTGAGGAGTT-AATTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
*
10141485 AAGT-TCGTTG
66 AAGTCTCATTG
* * *
10141495 CCTCAGCTTTGAGGAGTTCATTTTTAGAAGTTTCATTGCCTCAGCTTTGGGGAGTT
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTT
10141551 TTATTTTTTA
Statistics
Matches: 375, Mismatches: 49, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
73 22 0.06
74 47 0.13
75 114 0.30
76 67 0.18
77 58 0.15
78 5 0.01
79 1 0.00
80 29 0.08
81 31 0.08
82 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.42
Consensus pattern (76 bp):
CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
AAGTCTCATTG
Found at i:10141255 original size:113 final size:111
Alignment explanation
Indices: 10141038--10141550 Score: 609
Period size: 113 Copynumber: 4.5 Consensus size: 111
10141028 GGTTTTGTTA
* *
10141038 CCTCAGTTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAAGAGTTCATTTTAAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAA
10141103 AGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTCAAAAGTCTCATTG
66 AGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTT-AAAAGT-TCATTG
* * * *
10141151 TCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAACTTCGAGGAGTTCATTTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTAA
*
10141216 AAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAAAGTCTCGA-TG
65 AAGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTAAAAGT-TC-ATTG
* * *
10141264 CCTCAGCTTTGAGGAGTTC-GTTTAAAGAAGTTTCGTTGCCTCAGCTTTGAGGAGTTTATTTTTT
1 CCTCAGCTTTGAGGAGTTCATTTTTAA-AAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA--TTTT
* * *
10141328 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAAAAGTTCCGTTG
63 AAAAGTTTCATTGCCTCAGCTTTGAGGAGTTCA-TTTTAAAAGTT-CATTG
* ** * * ** * *
10141379 CCTCAGTTTTGAAAAGTTCATTTTTTTTTTAAATA-TCTCATTGCCTCATTTTTTAGGAGTTTAT
1 CCTCAGCTTTGAGGAGTTCA-----TTTTTAAA-AGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
* * *
10141443 TTTAGAAGTTTCATTGCCTCAGCTTTGAGGAGTTAATTTTAAAAGTTCGTTG
60 TTTAAAAGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTAAAAGTTCATTG
* * *
10141495 CCTCAGCTTTGAGGAGTTCATTTTTAGAAGTTTCATTGCCTCAGCTTTGGGGAGTT
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTT
10141551 TTATTTTTTA
Statistics
Matches: 346, Mismatches: 39, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
110 1 0.00
111 28 0.08
112 5 0.01
113 108 0.31
114 79 0.23
115 29 0.08
116 22 0.06
117 11 0.03
118 33 0.10
120 24 0.07
121 6 0.02
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.42
Consensus pattern (111 bp):
CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTAAA
AGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTAAAAGTTCATTG
Found at i:10141646 original size:1 final size:1
Alignment explanation
Indices: 10141640--10141717 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
10141630 AGTCTCATTT
* * * * * * * * *
10141640 AAAAAAAAACAAAAACAAAAACAAAAACAAAAAAACAAACAAAAAAAAACAACAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
10141705 TAAAAAAAAAAAA
1 AAAAAAAAAAAAA
10141718 CCATGGTAAA
Statistics
Matches: 57, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.87, C:0.12, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:10141647 original size:83 final size:84
Alignment explanation
Indices: 10141483--10141653 Score: 184
Period size: 83 Copynumber: 2.0 Consensus size: 84
10141473 AGTTAATTTT
* * * * **
10141483 AAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAGAAGTTTCATTGCCTCAGCTTTGGGGA
1 AAAAGTTCGTAGCCTCAACTTTGAGGAGTTCATTTTTAGAAGTTTCATCGCCTCAACTTTGAAGA
* * ***
10141548 GTTTTATTTTTTAAAAAA-
66 GTCTCATTTAAAAAAAAAC
* * * *
10141566 AAAAGTTTCGTAGCCTCAATTTTGAGGAGTTTATTTTTA-AAGTTTCGTCGCCTCAACTTTGAAT
1 AAAAG-TTCGTAGCCTCAACTTTGAGGAGTTCATTTTTAGAAGTTTCATCGCCTCAACTTTGAAG
10141630 AGTCTCATTTAAAAAAAAAC
65 AGTCTCATTTAAAAAAAAAC
10141650 AAAA
1 AAAA
10141654 ACAAAAACAA
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
83 38 0.54
84 33 0.46
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (84 bp):
AAAAGTTCGTAGCCTCAACTTTGAGGAGTTCATTTTTAGAAGTTTCATCGCCTCAACTTTGAAGA
GTCTCATTTAAAAAAAAAC
Found at i:10141661 original size:12 final size:12
Alignment explanation
Indices: 10141640--10141718 Score: 80
Period size: 12 Copynumber: 6.9 Consensus size: 12
10141630 AGTCTCATTT
10141640 AAAA-AAAAACA
1 AAAACAAAAACA
10141651 AAAACAAAAACA
1 AAAACAAAAACA
10141663 AAAACAAAAA-A
1 AAAACAAAAACA
*
10141674 ACAAACAAAAAAA
1 A-AAACAAAAACA
10141687 AACAAC-AAAACA
1 AA-AACAAAAACA
*
10141699 AAAA-AATAA-A
1 AAAACAAAAACA
10141709 AAAA-AAAAAC
1 AAAACAAAAAC
10141719 CATGGTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
10 9 0.15
11 11 0.19
12 34 0.58
13 5 0.08
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (12 bp):
AAAACAAAAACA
Found at i:10141667 original size:18 final size:17
Alignment explanation
Indices: 10141640--10141718 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 17
10141630 AGTCTCATTT
10141640 AAAA-AAAAACAAAAACA
1 AAAACAAAAACAAAAA-A
10141657 AAAACAAAAACAAAAAA
1 AAAACAAAAACAAAAAA
10141674 ACAAACAAAAA-AAAACAA
1 A-AAACAAAAACAAAA-AA
*
10141692 CAAAACAAAAA-AATAAA
1 -AAAACAAAAACAAAAAA
10141709 AAAA-AAAAAC
1 AAAACAAAAAC
10141719 CATGGTAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
15 5 0.09
16 4 0.07
17 12 0.21
18 34 0.61
19 1 0.02
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (17 bp):
AAAACAAAAACAAAAAA
Found at i:10141680 original size:30 final size:27
Alignment explanation
Indices: 10141640--10141718 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 27
10141630 AGTCTCATTT
10141640 AAAAAAAAACAAAAACAAAAACAAAAACA
1 AAAAAAAAACAAAAA-AAAAAC-AAAACA
10141669 AAAAAACAAACAAAAAAAAACAACAAAACA
1 AAAAAA-AAAC-AAAAAAAA-AACAAAACA
*
10141699 AAAAAATAA-AAAAAAAAAAC
1 AAAAAAAAACAAAAAAAAAAC
10141719 CATGGTAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.07
27 8 0.17
29 8 0.17
30 19 0.41
31 8 0.17
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (27 bp):
AAAAAAAAACAAAAAAAAAACAAAACA
Found at i:10142573 original size:99 final size:100
Alignment explanation
Indices: 10142397--10142601 Score: 270
Period size: 99 Copynumber: 2.1 Consensus size: 100
10142387 GCTCGATTGA
* * * *
10142397 AAGAGACCGGTAGATGGAGAACCCAATTTGGGCAAAGAAAGAGCAAATCCAGGCAGCCGGCAGAG
1 AAGAGACCGGTAGATGGAGAACCCAATTTAGGCAAAGAAAGAGCAAATCCAGGCAACCGACAGAA
10142462 GGAGGTCCGGCGTGGGCTA-GTGGCCAGTGGTAGG
66 GGAGGTCCGGCGTGGGCTAGGTGGCCAGTGGTAGG
* * * ** * * *
10142496 AAGAGACCGGTAGA-GAGAGAGCCCGATTTAGGTAAAGGGAGAGCAGATCTAGGCAATCGACAGA
1 AAGAGACCGGTAGATG-GAGAACCCAATTTAGGCAAAGAAAGAGCAAATCCAGGCAACCGACAGA
*
10142560 AGGAGGTCCGGCGTGGGCTAGGTGGCCGGTGGTAGG
65 AGGAGGTCCGGCGTGGGCTAGGTGGCCAGTGGTAGG
10142596 AAGAGA
1 AAGAGA
10142602 GCGGCAAAGG
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
98 1 0.01
99 70 0.77
100 20 0.22
ACGTcount: A:0.30, C:0.17, G:0.40, T:0.13
Consensus pattern (100 bp):
AAGAGACCGGTAGATGGAGAACCCAATTTAGGCAAAGAAAGAGCAAATCCAGGCAACCGACAGAA
GGAGGTCCGGCGTGGGCTAGGTGGCCAGTGGTAGG
Found at i:10143617 original size:15 final size:15
Alignment explanation
Indices: 10143593--10143667 Score: 73
Period size: 15 Copynumber: 4.9 Consensus size: 15
10143583 AATCATTCAA
10143593 AAAT-AATAATAAAT
1 AAATAAATAATAAAT
10143607 -AATAAAATAATAAAT
1 AAAT-AAATAATAAAT
**
10143622 AAATAAATAATAGGT
1 AAATAAATAATAAAT
*
10143637 AAAATATATAAATAAAT
1 -AAATAAAT-AATAAAT
*
10143654 AAATAAATAGTAAA
1 AAATAAATAATAAA
10143668 AATGATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
13 3 0.06
15 24 0.49
16 17 0.35
17 5 0.10
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:10143622 original size:4 final size:4
Alignment explanation
Indices: 10143600--10143662 Score: 60
Period size: 4 Copynumber: 16.0 Consensus size: 4
10143590 CAAAAATAAT
** *
10143600 AATA AAT- AATA AA-A TAATA AATA AATA AAT- AATA GGTAA AATA TATA
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AAT-A AATA AATA
10143647 AATA AATA AATA AATA
1 AATA AATA AATA AATA
10143663 GTAAAAATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
3 7 0.15
4 38 0.79
5 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:10143622 original size:12 final size:12
Alignment explanation
Indices: 10143592--10143662 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
10143582 AAATCATTCA
10143592 AAAATAAT-AAT
1 AAAATAATAAAT
10143603 -AAATAATAAA-
1 AAAATAATAAAT
*
10143613 ATAATAAATAAAT
1 AAAAT-AATAAAT
**
10143626 -AAATAATAGGT
1 AAAATAATAAAT
10143637 AAAATATATAAAT
1 AAAATA-ATAAAT
10143650 -AAATAAATAAAT
1 AAAAT-AATAAAT
10143662 A
1 A
10143663 GTAAAAATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
10 7 0.15
11 10 0.22
12 24 0.52
13 5 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:10143655 original size:28 final size:27
Alignment explanation
Indices: 10143593--10143668 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
10143583 AATCATTCAA
*
10143593 AAAT-AAT-AATAAATAATAAAATAAT
1 AAATAAATAAATAAATAGTAAAATAAT
10143618 AAATAAATAAAT-AATAGGTAAAATATAT
1 AAATAAATAAATAAATA-GTAAAATA-AT
10143646 AAATAAATAAATAAATAGTAAAA
1 AAATAAATAAATAAATAGTAAAA
10143669 ATGATAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 4 0.09
26 7 0.16
27 10 0.22
28 20 0.44
29 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (27 bp):
AAATAAATAAATAAATAGTAAAATAAT
Found at i:10143918 original size:15 final size:15
Alignment explanation
Indices: 10143898--10143938 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
10143888 AGAAACTTAG
10143898 AATATAAAAAAATAA
1 AATATAAAAAAATAA
*
10143913 AATATAAAAGAATAA
1 AATATAAAAAAATAA
*
10143928 AAAATAAAAAA
1 AATATAAAAAA
10143939 TATGATAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (15 bp):
AATATAAAAAAATAA
Found at i:10143919 original size:7 final size:7
Alignment explanation
Indices: 10143904--10143940 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
10143894 TTAGAATATA
10143904 AAAAAAT
1 AAAAAAT
*
10143911 AAAATAT
1 AAAAAAT
10143918 AAAAGAAT
1 AAAA-AAT
10143926 AAAAAAT
1 AAAAAAT
10143933 AAAAAAT
1 AAAAAAT
10143940 A
1 A
10143941 TGATAACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:10152995 original size:206 final size:206
Alignment explanation
Indices: 10152636--10153045 Score: 660
Period size: 206 Copynumber: 2.0 Consensus size: 206
10152626 TAAAACACTT
* * *
10152636 AACGATATATAATGGCTAGTTAGTTTGTATTCATATACAATCAAATACAGTTTAAATCATATGAC
1 AACGATATATAATCGCTAGTTAGCTTGTATTCATACACAATCAAATACAGTTTAAATCATATGAC
* *
10152701 TAACATATGTAGAAGTAATTAACCATAAACGTAAAGAGAACAAACTATTACAATTAATTTTAGTT
66 TAACATATGTAGAAGTAATTAACCATAAACGTAAAGAGAACAAACTATTACAAGTAATTTTAATT
10152766 ACAAATCAATATATGTCACATTCATAACTAAACATAATAATAATATATTAAATT-AAAAATCATA
131 ACAAATCAATATATGTCACATTCATAACTAAACATAATAATAATATATTAAATTAAAAAAT-ATA
10152830 TTACAATAGCTA
195 TTACAATAGCTA
* * *
10152842 AACGATATGTAATCGCTAGTTGGCTTGTATTCATACACAATCAAATACAGTTTAAATCATATGAT
1 AACGATATATAATCGCTAGTTAGCTTGTATTCATACACAATCAAATACAGTTTAAATCATATGAC
* * * * *
10152907 TAACATGTGTAGAAGTAATTAATCATGAACGTAAAGTGAACAAACTATTACAGGTAATTTTAATT
66 TAACATATGTAGAAGTAATTAACCATAAACGTAAAGAGAACAAACTATTACAAGTAATTTTAATT
* * *
10152972 ACAAATTAATATATGTTACATTCATAACTAAACATAATAGTAATATATTAAATTAAAAAATATAT
131 ACAAATCAATATATGTCACATTCATAACTAAACATAATAATAATATATTAAATTAAAAAATATAT
10153037 TACAATAGC
196 TACAATAGC
10153046 CAGAATAAAT
Statistics
Matches: 187, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
206 181 0.97
207 6 0.03
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (206 bp):
AACGATATATAATCGCTAGTTAGCTTGTATTCATACACAATCAAATACAGTTTAAATCATATGAC
TAACATATGTAGAAGTAATTAACCATAAACGTAAAGAGAACAAACTATTACAAGTAATTTTAATT
ACAAATCAATATATGTCACATTCATAACTAAACATAATAATAATATATTAAATTAAAAAATATAT
TACAATAGCTA
Found at i:10153271 original size:2 final size:2
Alignment explanation
Indices: 10153264--10153297 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10153254 CAAAACAACN
10153264 AT AT AT 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 AT AT AT
10153298 TAATTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10154201 original size:28 final size:28
Alignment explanation
Indices: 10154161--10154232 Score: 144
Period size: 28 Copynumber: 2.6 Consensus size: 28
10154151 AAGTGATGTT
10154161 CATTAGTGTTACAATAACAGAGATAGAA
1 CATTAGTGTTACAATAACAGAGATAGAA
10154189 CATTAGTGTTACAATAACAGAGATAGAA
1 CATTAGTGTTACAATAACAGAGATAGAA
10154217 CATTAGTGTTACAATA
1 CATTAGTGTTACAATA
10154233 TAATCATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (28 bp):
CATTAGTGTTACAATAACAGAGATAGAA
Found at i:10154446 original size:26 final size:24
Alignment explanation
Indices: 10154413--10154463 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
10154403 AATTAATTAA
* *
10154413 TTAGCTAAAACTAATTAATCAAAAT
1 TTAGCTAAAACGAA-AAATCAAAAT
10154438 TTAGACTAAAACGAAAAATCAAAAT
1 TTAG-CTAAAACGAAAAATCAAAAT
10154463 T
1 T
10154464 ATAATAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (24 bp):
TTAGCTAAAACGAAAAATCAAAAT
Found at i:10156426 original size:15 final size:17
Alignment explanation
Indices: 10156406--10156438 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10156396 TTTGTATTTT
10156406 TTTTC-TCTTTT-TCTA
1 TTTTCTTCTTTTATCTA
10156421 TTTTCTTCTTTTATCTA
1 TTTTCTTCTTTTATCTA
10156438 T
1 T
10156439 ATGTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTCTTTTATCTA
Found at i:10157857 original size:5 final size:5
Alignment explanation
Indices: 10157847--10157872 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10157837 GCTACTATTA
10157847 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
10157873 TTAACTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:10158429 original size:18 final size:18
Alignment explanation
Indices: 10158406--10158442 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10158396 TGGCGTGGCT
*
10158406 GTTGTCATTTGAGTAGCA
1 GTTGTCATTGGAGTAGCA
*
10158424 GTTGTCATTGGAGTTGCA
1 GTTGTCATTGGAGTAGCA
10158442 G
1 G
10158443 AAGTTTCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.32, T:0.38
Consensus pattern (18 bp):
GTTGTCATTGGAGTAGCA
Found at i:10164908 original size:2 final size:2
Alignment explanation
Indices: 10164901--10164942 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10164891 CTGTTATTCC
10164901 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10164943 ATATATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10164947 original size:2 final size:2
Alignment explanation
Indices: 10164942--10164976 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10164932 TCTCTCTCTC
*
10164942 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10164977 TATTTGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10167690 original size:12 final size:12
Alignment explanation
Indices: 10167673--10167700 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10167663 TTTTTTACTA
10167673 TTTATGTGTTTT
1 TTTATGTGTTTT
10167685 TTTATGTGTTTT
1 TTTATGTGTTTT
10167697 TTTA
1 TTTA
10167701 CTATAGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.75
Consensus pattern (12 bp):
TTTATGTGTTTT
Found at i:10169686 original size:37 final size:36
Alignment explanation
Indices: 10169645--10169721 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
10169635 GTTACTCTAT
* * *
10169645 GTGACATAACCTTTAAGCTAATATAGTTTCTCATTAC
1 GTGACATAACCTTTAAACTAAGATAGCTT-TCATTAC
*
10169682 GTGACATAACCTTTAAACTAAGATAGCTTTCATTAT
1 GTGACATAACCTTTAAACTAAGATAGCTTTCATTAC
10169718 GTGA
1 GTGA
10169722 GACAATCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 10 0.28
37 26 0.72
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (36 bp):
GTGACATAACCTTTAAACTAAGATAGCTTTCATTAC
Found at i:10172580 original size:38 final size:38
Alignment explanation
Indices: 10172475--10172798 Score: 362
Period size: 38 Copynumber: 8.6 Consensus size: 38
10172465 TATTTTTTTT
* * *
10172475 AAATGAGATTCCTTAAAGCTGAGGCAACGAAACTTTAA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
** *
10172513 AAAT-AAACTCCTCAAAATTGAGGCTACGAAACTTTAA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* *
10172550 AAATGAAACTCCTCAAAACTGAGCCAACGAAACTTTAA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
10172588 AAATGAAACTCC-CAAAAGCTGAGGCAAC-ATAACTTTAA
1 AAATGAAACTCCTC-AAAGCTGAGGCAACGA-AACTTTAA
**
10172626 AAAT-ATGGCTCCTCAAAGCTGAGGCAAC-ATAACTTTAA
1 AAATGA-AACTCCTCAAAGCTGAGGCAACGA-AACTTTAA
*** *
10172664 AAATGTGGCTCCTCAAAGCTGAGGCAAC-ATGACTTTAA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGA-AACTTTAA
* * *
10172702 AAATG-AACTCCTCAAAACTGAGGTAACGAGACTTTAA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
10172739 AAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTCT-A
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTT-TAA
*
10172776 AAATG-AACTCGTCAAAGCTGAGG
1 AAATGAAACTCCTCAAAGCTGAGG
10172799 TTACAAAACC
Statistics
Matches: 255, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
37 114 0.45
38 140 0.55
39 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (38 bp):
AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
Found at i:10173699 original size:12 final size:12
Alignment explanation
Indices: 10173677--10173707 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
10173667 TCTTTCTTTT
10173677 TTTTGTTATTTGA
1 TTTT-TTATTTGA
10173690 TTTTTTATTTGA
1 TTTTTTATTTGA
10173702 TTTTTT
1 TTTTTT
10173708 TACGTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (12 bp):
TTTTTTATTTGA
Found at i:10173706 original size:13 final size:13
Alignment explanation
Indices: 10173676--10173709 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10173666 TTCTTTCTTT
10173676 TTTTTGTTATTTGA
1 TTTTT-TTATTTGA
10173690 -TTTTTTATTTGA
1 TTTTTTTATTTGA
10173702 TTTTTTTA
1 TTTTTTTA
10173710 CGTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (13 bp):
TTTTTTTATTTGA
Found at i:10184806 original size:15 final size:16
Alignment explanation
Indices: 10184785--10184886 Score: 66
Period size: 17 Copynumber: 6.1 Consensus size: 16
10184775 CTTATGAAGC
10184785 TTATATTTATTTTATTT
1 TTATA-TTATTTTATTT
* *
10184802 TTATTTTGATTATTATAT
1 TTATATT-ATT-TTATTT
*
10184820 TTATTATTATTATA-TT
1 TTA-TATTATTTTATTT
*
10184836 TTCTATT-TTTTATTCCT
1 TTATATTATTTTATT--T
*
10184853 CTATATT-TTTTATTT
1 TTATATTATTTTATTT
*
10184868 TATATATTTTTTTATTT
1 T-TATATTATTTTATTT
10184885 TT
1 TT
10184887 TTCCTAACTC
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
14 4 0.06
15 6 0.09
16 12 0.18
17 31 0.46
18 11 0.16
19 3 0.04
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (16 bp):
TTATATTATTTTATTT
Found at i:10184825 original size:12 final size:11
Alignment explanation
Indices: 10184791--10184849 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 11
10184781 AAGCTTATAT
*
10184791 TTATTTTATTT
1 TTATTTTATTA
10184802 TTATTTTGATTA
1 TTATTTT-ATTA
10184814 TTATATTTATTA
1 TTAT-TTTATTA
* *
10184826 TTATTATATTT
1 TTATTTTATTA
10184837 TCTATTTT-TTA
1 T-TATTTTATTA
10184848 TT
1 TT
10184850 CCTCTATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 1 0.03
11 16 0.40
12 20 0.50
13 3 0.08
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:10184848 original size:22 final size:24
Alignment explanation
Indices: 10184817--10184868 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10184807 TTGATTATTA
*
10184817 TATTTATTATT-AT-TATATTTTC
1 TATTTTTTATTCATCTATATTTTC
* *
10184839 TATTTTTTATTCCTCTATATTTTT
1 TATTTTTTATTCATCTATATTTTC
10184863 TATTTT
1 TATTTT
10184869 ATATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.40
23 1 0.04
24 14 0.56
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTTTTATTCATCTATATTTTC
Found at i:10184861 original size:17 final size:16
Alignment explanation
Indices: 10184839--10184879 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
10184829 TTATATTTTC
*
10184839 TATTTTTTATTCCTCTA
1 TATTTTTTATT-CTATA
*
10184856 TATTTTTTATTTTATA
1 TATTTTTTATTCTATA
10184872 TATTTTTT
1 TATTTTTT
10184880 TATTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTTATTCTATA
Found at i:10186364 original size:16 final size:16
Alignment explanation
Indices: 10186343--10186373 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10186333 TGCTACTACT
10186343 TTTTTTTTAATTTTAA
1 TTTTTTTTAATTTTAA
10186359 TTTTTTTTAATTTTA
1 TTTTTTTTAATTTTA
10186374 TATTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTAATTTTAA
Found at i:10189065 original size:36 final size:37
Alignment explanation
Indices: 10188978--10189069 Score: 116
Period size: 36 Copynumber: 2.5 Consensus size: 37
10188968 TATGTCATTC
* *
10188978 TATATGACATAA-CTTTTGAATTAAGATAACTTTTCAT
1 TATATGACACAACCTTTT-AACTAAGATAACTTTTCAT
* *
10189015 TATGTGACATAACCTTTTAACTAAGATAAC-TTTCAT
1 TATATGACACAACCTTTTAACTAAGATAACTTTTCAT
*
10189051 TATATGAGACAACCTTTTA
1 TATATGACACAACCTTTTA
10189070 TTTTGAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 22 0.45
37 22 0.45
38 5 0.10
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (37 bp):
TATATGACACAACCTTTTAACTAAGATAACTTTTCAT
Found at i:10194642 original size:2 final size:2
Alignment explanation
Indices: 10194637--10194668 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10194627 ACACACACAC
10194637 AT AT 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 AT AT
10194669 GCAGTCAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10199512 original size:2 final size:2
Alignment explanation
Indices: 10199505--10199529 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10199495 AGAATTGATA
10199505 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
10199530 TTGCTTAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10203786 original size:15 final size:15
Alignment explanation
Indices: 10203766--10203809 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
10203756 TCTAGCCCTA
10203766 CAAGAGAAGCCTTGG
1 CAAGAGAAGCCTTGG
10203781 CAAGAGAAGCCTTGG
1 CAAGAGAAGCCTTGG
10203796 CAAGAGAAGCCTTG
1 CAAGAGAAGCCTTG
10203810 ACCATGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.32, T:0.14
Consensus pattern (15 bp):
CAAGAGAAGCCTTGG
Found at i:10213390 original size:31 final size:31
Alignment explanation
Indices: 10213355--10213419 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
10213345 CATTAGTTAT
* * * *
10213355 AAGATTTTATTTAACTTAA-CATAAAAATATA
1 AAGATTTAATTAAACGTAATCA-AAAAATAAA
10213386 AAGATTTAATTAAACGTAATCAAAAAATAAA
1 AAGATTTAATTAAACGTAATCAAAAAATAAA
10213417 AAG
1 AAG
10213420 TTATTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (31 bp):
AAGATTTAATTAAACGTAATCAAAAAATAAA
Found at i:10218243 original size:54 final size:54
Alignment explanation
Indices: 10218161--10218325 Score: 321
Period size: 54 Copynumber: 3.1 Consensus size: 54
10218151 CCGAAAGAAT
10218161 AACTAACTACATCATCAAAAAGCAGGAAAGCATATGAACGTATTATTGCTTTCC
1 AACTAACTACATCATCAAAAAGCAGGAAAGCATATGAACGTATTATTGCTTTCC
10218215 AACTAACTACATCATCAAAAAGCAGGAAAGCATATGAACGTATTATTGCTTTCC
1 AACTAACTACATCATCAAAAAGCAGGAAAGCATATGAACGTATTATTGCTTTCC
*
10218269 AACTAACTACATCATCAAAAAGCAGGAAAGCATAAGAACGTATTATTGCTTTCC
1 AACTAACTACATCATCAAAAAGCAGGAAAGCATATGAACGTATTATTGCTTTCC
10218323 AAC
1 AAC
10218326 ATACTATATT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.25
Consensus pattern (54 bp):
AACTAACTACATCATCAAAAAGCAGGAAAGCATATGAACGTATTATTGCTTTCC
Found at i:10220442 original size:22 final size:22
Alignment explanation
Indices: 10220411--10220510 Score: 98
Period size: 21 Copynumber: 4.7 Consensus size: 22
10220401 TAATCACTAT
10220411 GTGAC-AGTTTTTAGGTATTAC
1 GTGACTAGTTTTTAGGTATTAC
* * *
10220432 GTGA-TTGGTTTTAAGTATTAC
1 GTGACTAGTTTTTAGGTATTAC
* * * *
10220453 ATTACTAGTTTTTAAGCATTAC
1 GTGACTAGTTTTTAGGTATTAC
* *
10220475 GTAATTAG-TTTTAGGTATTAC
1 GTGACTAGTTTTTAGGTATTAC
10220496 GTGACTAGTTTTTAG
1 GTGACTAGTTTTTAG
10220511 ACATTGCGTG
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
21 36 0.59
22 25 0.41
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (22 bp):
GTGACTAGTTTTTAGGTATTAC
Found at i:10220464 original size:43 final size:43
Alignment explanation
Indices: 10220412--10220515 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
10220402 AATCACTATG
* * *
10220412 TGAC-AGTTTTTAGGTATTACGTGATTGGTTTTAAGTATTACA
1 TGACTAGTTTTTAGGCATTACGTAATTAGTTTTAAGTATTACA
* * * *
10220454 TTACTAGTTTTTAAGCATTACGTAATTAGTTTTAGGTATTACG
1 TGACTAGTTTTTAGGCATTACGTAATTAGTTTTAAGTATTACA
*
10220497 TGACTAGTTTTTAGACATT
1 TGACTAGTTTTTAGGCATT
10220516 GCGTGACTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 3 0.06
43 48 0.94
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (43 bp):
TGACTAGTTTTTAGGCATTACGTAATTAGTTTTAAGTATTACA
Found at i:10220520 original size:22 final size:22
Alignment explanation
Indices: 10220411--10220531 Score: 72
Period size: 22 Copynumber: 5.6 Consensus size: 22
10220401 TAATCACTAT
**
10220411 GTGAC-AGTTTTTAGGTATTAC
1 GTGACTAGTTTTTAGACATTAC
* * * *
10220432 GTGATTGGTTTTAAG-TATTAC
1 GTGACTAGTTTTTAGACATTAC
* *
10220453 ATTACTAGTTTTTA-AGCATTAC
1 GTGACTAGTTTTTAGA-CATTAC
* * **
10220475 GTAATTAG-TTTTAGGTATTAC
1 GTGACTAGTTTTTAGACATTAC
*
10220496 GTGACTAGTTTTTAGACATTGC
1 GTGACTAGTTTTTAGACATTAC
10220518 GTGACT-GATTTTTA
1 GTGACTAG-TTTTTA
10220532 AGCAATGCCT
Statistics
Matches: 75, Mismatches: 19, Indels: 11
0.71 0.18 0.10
Matches are distributed among these distances:
21 36 0.48
22 39 0.52
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (22 bp):
GTGACTAGTTTTTAGACATTAC
Found at i:10220601 original size:26 final size:26
Alignment explanation
Indices: 10220566--10220754 Score: 260
Period size: 26 Copynumber: 7.4 Consensus size: 26
10220556 CTTACTAACA
*
10220566 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* * *
10220592 AGTTATGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
10220618 AGTCACGCAATGTC-TATC---AACT
1 AGTCACGCAATGCCTTATCAAAAACT
10220640 AGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
10220666 AGTCACGCAATGCCTTATCAAAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
*
10220692 AGTCACGCAATACCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* * *
10220718 AGTCACGTAATGTCTTATCAAAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
10220744 AGTCACGCAAT
1 AGTCACGCAAT
10220755 TTTCAAAGTC
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
22 17 0.12
23 4 0.03
25 4 0.03
26 120 0.83
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAAAAACT
Found at i:10220640 original size:22 final size:23
Alignment explanation
Indices: 10220543--10220738 Score: 144
Period size: 26 Copynumber: 7.9 Consensus size: 23
10220533 GCAATGCCTA
* * *
10220543 AGTCACACAATGTCTTA-CTAACA
1 AGTCACGCAATGCCTTATC-AACT
10220566 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATC---AACT
* *
10220592 AGTTATGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATC---AACT
*
10220618 AGTCACGCAATGTC-TATCAACT
1 AGTCACGCAATGCCTTATCAACT
10220640 AGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATC---AACT
*
10220666 AGTCACGCAATGCCTTATCAAAAATT
1 AGTCACGCAATGCCTTATC---AACT
*
10220692 AGTCACGCAATACCTTATCAAAAACT
1 AGTCACGCAATGCCTTATC---AACT
* *
10220718 AGTCACGTAATGTCTTATCAA
1 AGTCACGCAATGCCTTATCAA
10220739 AAATTAGTCA
Statistics
Matches: 150, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
22 17 0.11
23 21 0.14
24 1 0.01
25 4 0.03
26 107 0.71
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (23 bp):
AGTCACGCAATGCCTTATCAACT
Found at i:10220665 original size:74 final size:75
Alignment explanation
Indices: 10220543--10220754 Score: 257
Period size: 74 Copynumber: 2.8 Consensus size: 75
10220533 GCAATGCCTA
* * * * * *
10220543 AGTCACACAATGTCT-TACTAACAAGTCACGCAATGCCTTATCAGAAACTAGTTATGCAATGCCT
1 AGTCACGCAATGTCTAT-CAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCT
*
10220607 TATCAGAAACT
65 TATCAAAAACT
10220618 AGTCACGCAATGTCTATC-AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTT
1 AGTCACGCAATGTCTATCAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTT
*
10220682 ATCAAAAATT
66 ATCAAAAACT
** * * *
10220692 AGTCACGCAATACCTTATCAAAAACTAGTCACGTAATGTCTTATCAAAAATTAGTCACGCAAT
1 AGTCACGCAATGTC-TATC--AAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAAT
10220755 TTTCAAAGTC
Statistics
Matches: 120, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
74 62 0.52
75 19 0.16
76 1 0.01
78 38 0.32
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.26
Consensus pattern (75 bp):
AGTCACGCAATGTCTATCAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTT
ATCAAAAACT
Found at i:10220810 original size:21 final size:21
Alignment explanation
Indices: 10220744--10220813 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
10220734 ATCAAAAATT
* *
10220744 AGTCACGCAATTTTCAAAGTC
1 AGTCACGCAATATCCAAAGTC
* *
10220765 AATCACGTAATATCCAAAGTC
1 AGTCACGCAATATCCAAAGTC
*
10220786 AGTCACGCAATATCCAAAGTT
1 AGTCACGCAATATCCAAAGTC
10220807 AGTCACG
1 AGTCACG
10220814 TAATGCCTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (21 bp):
AGTCACGCAATATCCAAAGTC
Found at i:10221051 original size:60 final size:60
Alignment explanation
Indices: 10220937--10221062 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
10220927 AACGAATATG
* * **
10220937 AATGCTCAAAATGTTCAAAAGTTTTTCTTCATATATCAAAAATCACTTTAAAATGCTTAAA
1 AATGCTCAAAACGCTCAAAAGTTTTTCTTCATATATCAAAAATCACTCCAAAATGC-TAAA
* * * *
10220998 AATGCTCAAAACGCTCACAGGTTTTT-TTCGTATATCAAAAA-CTACTCCAAAATGCTCAA
1 AATGCTCAAAACGCTCAAAAGTTTTTCTTCATATATCAAAAATC-ACTCCAAAATGCTAAA
10221057 AATGCT
1 AATGCT
10221063 TAAATGTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 10 0.18
60 24 0.43
61 22 0.39
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (60 bp):
AATGCTCAAAACGCTCAAAAGTTTTTCTTCATATATCAAAAATCACTCCAAAATGCTAAA
Found at i:10221390 original size:36 final size:36
Alignment explanation
Indices: 10221350--10221424 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
10221340 ATGATAATAA
10221350 GAAAATTAATTATGGTGATTTTGTTGAGGAGGGGCT
1 GAAAATTAATTATGGTGATTTTGTTGAGGAGGGGCT
10221386 GAAAATTAATTATGGTGATTTTGTTGAGGAGGGGCT
1 GAAAATTAATTATGGTGATTTTGTTGAGGAGGGGCT
10221422 GAA
1 GAA
10221425 TTATGAGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.29, C:0.03, G:0.33, T:0.35
Consensus pattern (36 bp):
GAAAATTAATTATGGTGATTTTGTTGAGGAGGGGCT
Found at i:10221486 original size:22 final size:23
Alignment explanation
Indices: 10221459--10221509 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
10221449 TTATTTTGAC
*
10221459 TTTTATAT-AAAAGAAAACAAAT
1 TTTTATATAAAAAGAAAACAAAA
*
10221481 TTTTATATGAAAAAGAAAATAAAA
1 TTTTATAT-AAAAAGAAAACAAAA
10221505 TTTTA
1 TTTTA
10221510 ACATAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
24 17 0.68
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
TTTTATATAAAAAGAAAACAAAA
Found at i:10222359 original size:53 final size:55
Alignment explanation
Indices: 10222302--10222443 Score: 171
Period size: 53 Copynumber: 2.6 Consensus size: 55
10222292 ATGAAAAACC
* *
10222302 ATGAATATCCATTCCCTGAAGTGAATGTGACAAACAAGCTAC-AA-ATAAAAATT
1 ATGAATGTCCATTCCCTGAAGTGAATGTGACAAACAAGCTACTAATAAAAAAATT
** * *
10222355 ATGAATGTTTATTTCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAAAATT
1 ATGAATGTCCATTCCCTGAAGTGAATGTGACAAACAAGCTACTAATAAAAAAATT
* * *
10222410 ATAAATTTGTCCATTCCTTGAAGTGAATGCGACA
1 ATGAA--TGTCCATTCCCTGAAGTGAATGTGACA
10222444 TCATTTAATA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 37 0.51
54 2 0.03
55 12 0.16
57 22 0.30
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (55 bp):
ATGAATGTCCATTCCCTGAAGTGAATGTGACAAACAAGCTACTAATAAAAAAATT
Found at i:10222675 original size:51 final size:50
Alignment explanation
Indices: 10222579--10222722 Score: 175
Period size: 51 Copynumber: 2.9 Consensus size: 50
10222569 AATTCTAATT
* *
10222579 ATAATTTTACCACTAGTAATGGATAATAATTTTACCATCAGAATCTAAGA
1 ATAATTTTACCACTAGAAATGGATGATAATTTTACCATCAGAATCTAAGA
* * *
10222629 ATAATTTTACCACCAGAAATAGATGGATAATTTTACCATCTA-AATCTAAGG
1 ATAATTTTACCACTAGAAATGGAT-GATAATTTTACCATC-AGAATCTAAGA
* * *
10222680 ATAATTTTGCCACTAGAAGTGGATAGATAA-TTTACCACCAGAA
1 ATAATTTTACCACTAGAAATGGAT-GATAATTTTACCATCAGAA
10222723 ATGGATCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
50 31 0.39
51 47 0.59
52 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (50 bp):
ATAATTTTACCACTAGAAATGGATGATAATTTTACCATCAGAATCTAAGA
Found at i:10222722 original size:25 final size:26
Alignment explanation
Indices: 10222579--10222728 Score: 114
Period size: 25 Copynumber: 5.9 Consensus size: 26
10222569 AATTCTAATT
* *
10222579 ATAATTTTACCACTAGTAATGGATA-
1 ATAATTTTACCACCAGAAATGGATAG
* **
10222604 ATAATTTTACCATCAG-AATCTA-AG
1 ATAATTTTACCACCAGAAATGGATAG
* *
10222628 AATAATTTTACCACCAGAAATAGATGG
1 -ATAATTTTACCACCAGAAATGGATAG
* * **
10222655 ATAATTTTACCATC-TAAATCTA-AGG
1 ATAATTTTACCACCAGAAATGGATA-G
* * *
10222680 ATAATTTTGCCACTAGAAGTGGATAG
1 ATAATTTTACCACCAGAAATGGATAG
10222706 ATAA-TTTACCACCAGAAATGGAT
1 ATAATTTTACCACCAGAAATGGAT
10222729 CAATGCCATA
Statistics
Matches: 95, Mismatches: 23, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
23 1 0.01
24 4 0.04
25 62 0.65
26 26 0.27
27 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (26 bp):
ATAATTTTACCACCAGAAATGGATAG
Found at i:10222862 original size:28 final size:27
Alignment explanation
Indices: 10222797--10222872 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 27
10222787 GTGGATCACT
* *
10222797 CACCAAAAGTGAATGTATACTTGTAAC
1 CACCAAAAGTAAATGAATACTTGTAAC
* *
10222824 CTATCACAAGTAAATGAATACTT-TCAAC
1 C-ACCAAAAGTAAATGAATACTTGT-AAC
* *
10222852 GCACCAAAAGTAGATGGATAC
1 -CACCAAAAGTAAATGAATAC
10222873 CTTAACTCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
27 2 0.05
28 35 0.92
29 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (27 bp):
CACCAAAAGTAAATGAATACTTGTAAC
Found at i:10233926 original size:2 final size:2
Alignment explanation
Indices: 10233919--10233968 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
10233909 NNNNNNNNNN
10233919 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
*
10233961 AT AC AT AT
1 AT AT AT AT
10233969 GTTGTGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10236027 original size:15 final size:14
Alignment explanation
Indices: 10235983--10236028 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
10235973 AGATCAAAAA
10235983 TTTTGATTTTAAAG
1 TTTTGATTTTAAAG
*
10235997 CTTTGGATTTTAAAG
1 -TTTTGATTTTAAAG
10236012 TTTTCGATTTTAAAG
1 TTTT-GATTTTAAAG
10236027 TT
1 TT
10236029 GCTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (14 bp):
TTTTGATTTTAAAG
Found at i:10238870 original size:18 final size:19
Alignment explanation
Indices: 10238847--10238896 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
10238837 TATAAAAGTG
10238847 TTTATTTTATAATTTTT-T
1 TTTATTTTATAATTTTTAT
* *
10238865 TTTATTTTGTTATTTTTAT
1 TTTATTTTATAATTTTTAT
*
10238884 TTT-TTTTAAAATT
1 TTTATTTTATAATT
10238897 CAACATATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTATTTTATAATTTTTAT
Found at i:10241659 original size:14 final size:14
Alignment explanation
Indices: 10241620--10241662 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
10241610 TAAACTAAAT
*
10241620 AAAAT-TTTAATTT
1 AAAATGTTTAATTA
*
10241633 ACAATGATTTAATTA
1 AAAATG-TTTAATTA
10241648 AAAATGTTTAATTA
1 AAAATGTTTAATTA
10241662 A
1 A
10241663 GTGTTAGGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 12 0.48
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (14 bp):
AAAATGTTTAATTA
Found at i:10243623 original size:15 final size:15
Alignment explanation
Indices: 10243599--10243629 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10243589 TTATCTCCAA
*
10243599 TATTTTTTTTATATT
1 TATTTATTTTATATT
10243614 TATTTATTTTATATT
1 TATTTATTTTATATT
10243629 T
1 T
10243630 CCACGCTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTATTTTATATT
Found at i:10243825 original size:17 final size:17
Alignment explanation
Indices: 10243790--10243823 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10243780 TATAAAAATA
*
10243790 ATATTTTATTCATATTT
1 ATATATTATTCATATTT
10243807 ATATATTATATCATATT
1 ATATATTAT-TCATATT
10243824 ATTTTACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTATTCATATTT
Found at i:10244382 original size:21 final size:22
Alignment explanation
Indices: 10244358--10244409 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
10244348 AATAATTTTA
**
10244358 TCAAAAAGAATAT-TGGAAAAT
1 TCAAAAAGAATATATAAAAAAT
10244379 TCAAATAA-AATATATAAAAAAT
1 TCAAA-AAGAATATATAAAAAAT
*
10244401 ACAAAAAGA
1 TCAAAAAGA
10244410 GAATAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (22 bp):
TCAAAAAGAATATATAAAAAAT
Found at i:10261357 original size:24 final size:24
Alignment explanation
Indices: 10261330--10261379 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
10261320 TAGAACGGAC
10261330 TATATTGGTGTTGTAGTTATAATG
1 TATATTGGTGTTGTAGTTATAATG
10261354 TATATTGGTGTTGTAGTTATAATG
1 TATATTGGTGTTGTAGTTATAATG
10261378 TA
1 TA
10261380 AGTGAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (24 bp):
TATATTGGTGTTGTAGTTATAATG
Found at i:10276156 original size:14 final size:14
Alignment explanation
Indices: 10276116--10276160 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
10276106 AGATAAGAGA
10276116 TTTTAGTTTTAAAG
1 TTTTAGTTTTAAAG
* *
10276130 CTTTGAATTTTAAAG
1 -TTTTAGTTTTAAAG
10276145 TTTTAGTTTTAAAG
1 TTTTAGTTTTAAAG
10276159 TT
1 TT
10276161 GTTTTAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (14 bp):
TTTTAGTTTTAAAG
Found at i:10284726 original size:21 final size:20
Alignment explanation
Indices: 10284686--10284741 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
10284676 TGGTCTATGG
*
10284686 AATTGAATTAGTTAATTTAA
1 AATTGAATTAATTAATTTAA
*
10284706 AATTGAATATAATTCATTT-A
1 AATTGAAT-TAATTAATTTAA
*
10284726 AGTT-AATTAATTAATT
1 AATTGAATTAATTAATT
10284742 AAATTATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 12 0.39
21 8 0.26
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (20 bp):
AATTGAATTAATTAATTTAA
Found at i:10286639 original size:13 final size:15
Alignment explanation
Indices: 10286604--10286638 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10286594 GTATATACAC
10286604 TATA-ATACTTTTAA
1 TATATATACTTTTAA
*
10286618 TATATATACTTTAAA
1 TATATATACTTTTAA
10286633 TATATA
1 TATATA
10286639 CATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATATACTTTTAA
Found at i:10286694 original size:15 final size:16
Alignment explanation
Indices: 10286663--10286705 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
10286653 TTATTTTGTG
10286663 TTAACATTATAAAAATTA
1 TTAAC-TTAT-AAAATTA
10286681 -TAACTTATAAAATTA
1 TTAACTTATAAAATTA
10286696 TTAA-TTATAA
1 TTAACTTATAA
10286706 TATATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.54
16 7 0.29
17 4 0.17
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAACTTATAAAATTA
Found at i:10287568 original size:44 final size:44
Alignment explanation
Indices: 10287417--10287568 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 44
10287407 CATTGCCACA
* * *
10287417 CTCTTTCTTTTTTCTTTTCTCCCCAGCCACTGTCACGTCC-CACG
1 CTCTTTCTTCTTTCGTTTCTCCCCAGCCACTGCCACG-CCTCACG
* * *
10287461 CTCATTCTTCTTTCGTTTTTCCCCAGCCACTGCCATGCCTCACG
1 CTCTTTCTTCTTTCGTTTCTCCCCAGCCACTGCCACGCCTCACG
** * ** * *
10287505 CTCCATCTTTTTTTTTTTCTCCCCAACCATTGCCACGCCTCACG
1 CTCTTTCTTCTTTCGTTTCTCCCCAGCCACTGCCACGCCTCACG
*
10287549 TTCTTTCTTCTTTCGTTTCT
1 CTCTTTCTTCTTTCGTTTCT
10287569 TCTCCAAGCA
Statistics
Matches: 86, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
43 2 0.02
44 84 0.98
ACGTcount: A:0.10, C:0.39, G:0.09, T:0.43
Consensus pattern (44 bp):
CTCTTTCTTCTTTCGTTTCTCCCCAGCCACTGCCACGCCTCACG
Found at i:10287605 original size:88 final size:88
Alignment explanation
Indices: 10287422--10287584 Score: 213
Period size: 88 Copynumber: 1.8 Consensus size: 88
10287412 CCACACTCTT
* * *
10287422 TCTTTTTTCTTTTCTCCCCAGCCACTGTCACGTCCCACGCTCATTCTTCTTTCGTTTTTCCCCAG
1 TCTTTTTTCTTTTCTCCCCAACCACTGCCACGTCCCACGCTCATTCTTCTTTCGTTTTTCCCAAG
*
10287487 CCACTGCCATGCCTCACGCTCCA
66 CCACTACCATGCCTCACGCTCCA
* * * *
10287510 TCTTTTTTTTTTTCTCCCCAACCATTGCCACG-CCTCACGTTCTTTCTTCTTTCGTTTCTTCTCC
1 TCTTTTTTCTTTTCTCCCCAACCACTGCCACGTCC-CACGCTCATTCTTCTTTCGTTT-TTC-CC
10287574 AAG-CACTACCA
63 AAGCCACTACCA
10287585 GCCACTCTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
87 2 0.03
88 48 0.75
89 10 0.16
90 4 0.06
ACGTcount: A:0.12, C:0.39, G:0.09, T:0.40
Consensus pattern (88 bp):
TCTTTTTTCTTTTCTCCCCAACCACTGCCACGTCCCACGCTCATTCTTCTTTCGTTTTTCCCAAG
CCACTACCATGCCTCACGCTCCA
Found at i:10290795 original size:43 final size:43
Alignment explanation
Indices: 10290747--10290873 Score: 186
Period size: 41 Copynumber: 3.0 Consensus size: 43
10290737 TGTTTAACTA
* *
10290747 GTTGTTTGGATATTTATTTTTAGTTATTTAAGTTTATGTTGTT
1 GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGTT
* * *
10290790 GTTGTTTGGATATATGTGTTTGGTTATTTAAGTTTATGTT-AT
1 GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGTT
*
10290832 -TTGTTTGGATCTTTGTGTTTAGTTATTTAAGTTTATGTTGTT
1 GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGTT
10290874 ATTTGGATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
41 36 0.49
42 2 0.03
43 36 0.49
ACGTcount: A:0.17, C:0.01, G:0.21, T:0.61
Consensus pattern (43 bp):
GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGTT
Found at i:10290849 original size:41 final size:43
Alignment explanation
Indices: 10290747--10290900 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
10290737 TGTTTAACTA
* * *
10290747 GTTGTTTGGATATTTATTTTTAGTTATTTAAGTTTATGTTGTT
1 GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGAT
* *
10290790 GTTGTTTGGATATATGTGTTTGGTTATTTAAGTTTATGTT-AT
1 GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGAT
*
10290832 -TTGTTTGGATCTTTGTGTTTAGTTATTTAAGTTTATG-T--T
1 GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGAT
* * * *
10290871 GTTATTTGGATATTTATGTATAGATATTTA
1 GTTGTTTGGATATTTGTGTTTAGTTATTTA
10290901 TATAGTTATA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 25 0.26
41 34 0.35
42 1 0.01
43 36 0.37
ACGTcount: A:0.20, C:0.01, G:0.20, T:0.59
Consensus pattern (43 bp):
GTTGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGAT
Found at i:10290996 original size:36 final size:34
Alignment explanation
Indices: 10290921--10291006 Score: 82
Period size: 36 Copynumber: 2.4 Consensus size: 34
10290911 TGGATATTTG
* *
10290921 TTTTTAGTTATTTAAGTTTATGTTTAAGATCTTTGT
1 TTTTTA-TTATTTAAATTTATGTTTAAGATCTTT-A
* ** *
10290957 TTTTTATTATTTAAATTTAATTTTTATTATTTTTA
1 TTTTTATTATTTAAATTT-ATGTTTAAGATCTTTA
10290992 TTTTTATTAATTTAA
1 TTTTTATT-ATTTAA
10291007 TTAGTAGTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 19 0.45
36 23 0.55
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (34 bp):
TTTTTATTATTTAAATTTATGTTTAAGATCTTTA
Found at i:10304227 original size:26 final size:28
Alignment explanation
Indices: 10304198--10304259 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
10304188 ATCTGAATTA
*
10304198 TTTAAAAATTTAA-AAATTT-TTATTTT
1 TTTAAAAATTTAATAAATTTATAATTTT
* *
10304224 TTTATTAAATTTAATTAATTTATAATTTT
1 TTTA-AAAATTTAATAAATTTATAATTTT
10304253 TTTAAAA
1 TTTAAAA
10304260 CTAAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.14
27 8 0.28
28 7 0.24
29 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTAAAAATTTAATAAATTTATAATTTT
Found at i:10304233 original size:27 final size:29
Alignment explanation
Indices: 10304203--10304256 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10304193 AATTATTTAA
*
10304203 AAATTTAA-AAATTT-TTATTTTTTTATT
1 AAATTTAATAAATTTATAATTTTTTTATT
*
10304230 AAATTTAATTAATTTATAATTTTTTTA
1 AAATTTAATAAATTTATAATTTTTTTA
10304257 AAACTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 5 0.22
29 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
AAATTTAATAAATTTATAATTTTTTTATT
Found at i:10306920 original size:2 final size:2
Alignment explanation
Indices: 10306913--10306962 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
10306903 GAATAGATGA
10306913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT 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
10306954 AT AT A- AT AT
1 AT AT AT AT AT
10306963 GTCNATATGG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10306970 original size:17 final size:17
Alignment explanation
Indices: 10306913--10306962 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
10306903 GAATAGATGA
10306913 ATATATATATAT-ATAT
1 ATATATATATATAATAT
10306929 ATATATATATATAATAT
1 ATATATATATATAATAT
10306946 ATATATATATATAATAT
1 ATATATATATATAATAT
10306963 GTCNATATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 12 0.36
17 21 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATATATAATAT
Found at i:10314235 original size:2 final size:2
Alignment explanation
Indices: 10314228--10314288 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
10314218 AGAGAAATAC
* * * *
10314228 AT AT AT AT AT CT AT AT CT AT AT AT AT AT AT AT CT AT AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10314270 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
10314289 ATAAAATAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10314256 original size:22 final size:22
Alignment explanation
Indices: 10314228--10314287 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
10314218 AGAGAAATAC
10314228 ATATATATATCTATATCTATAT
1 ATATATATATCTATATCTATAT
10314250 ATATATATATCTATATCTATAT
1 ATATATATATCTATATCTATAT
*
10314272 ATATATATATATATAT
1 ATATATATATCTATAT
10314288 AATAAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATATATATCTATATCTATAT
Found at i:10403145 original size:23 final size:23
Alignment explanation
Indices: 10403119--10403162 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
10403109 TGTTGGAGTG
10403119 TGATAAAAATAGTCAAAAGCTTA
1 TGATAAAAATAGTCAAAAGCTTA
10403142 TGATAAAAATAGTCAAAAGCT
1 TGATAAAAATAGTCAAAAGCT
10403163 AAAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (23 bp):
TGATAAAAATAGTCAAAAGCTTA
Found at i:10403242 original size:119 final size:119
Alignment explanation
Indices: 10403027--10403256 Score: 379
Period size: 119 Copynumber: 1.9 Consensus size: 119
10403017 CAGGTTTTAC
* * *
10403027 AAAAATAATCAAAAGTTGAAAGAAAAAGAGAAGCAACAGGAGTATGAGAGTTCGAAGTGTGAAAT
1 AAAAATAATCAAAAGCTAAAAGAAAAAGAGAAACAACAGGAGTATGAGAGTTCGAAGTGTGAAAT
* *
10403092 TGAAAAGTTAAAGGGATTGTTGGAGTGTGATAAAAATAGTCAAAAGCTTATGAT
66 TGAAAAGTTAAAGGGATTGTTGGAGTATGATAAAAATAATCAAAAGCTTATGAT
* * *
10403146 AAAAATAGTCAAAAGCTAAAAGAAAAAGAGAAACAACGGGAGTATGAGAGTTTGAAGTGTGAAAT
1 AAAAATAATCAAAAGCTAAAAGAAAAAGAGAAACAACAGGAGTATGAGAGTTCGAAGTGTGAAAT
*
10403211 TGAAAAGTTGAAGGGATTGTTGGAGTATGATAAAAATAATCAAAAG
66 TGAAAAGTTAAAGGGATTGTTGGAGTATGATAAAAATAATCAAAAG
10403257 TTGAAAGAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 102 1.00
ACGTcount: A:0.48, C:0.05, G:0.25, T:0.22
Consensus pattern (119 bp):
AAAAATAATCAAAAGCTAAAAGAAAAAGAGAAACAACAGGAGTATGAGAGTTCGAAGTGTGAAAT
TGAAAAGTTAAAGGGATTGTTGGAGTATGATAAAAATAATCAAAAGCTTATGAT
Found at i:10404409 original size:2 final size:2
Alignment explanation
Indices: 10404402--10404436 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
10404392 TCATTATGGT
10404402 TA TA TA TA TA TA TA TA TA CTA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA T
10404437 GGGTATGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10405665 original size:28 final size:29
Alignment explanation
Indices: 10405624--10405683 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10405614 GTCTATGGGC
*
10405624 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
10405652 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
10405682 AA
1 AA
10405684 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:10421542 original size:18 final size:18
Alignment explanation
Indices: 10421519--10421563 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
10421509 AAGAATTGAC
*
10421519 GTAAAAACTTATAAATGT
1 GTAAAAACTTATAAAGGT
*
10421537 GTAAAAACTTGTAAAGGT
1 GTAAAAACTTATAAAGGT
10421555 GTAAAAACT
1 GTAAAAACT
10421564 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.29
Consensus pattern (18 bp):
GTAAAAACTTATAAAGGT
Found at i:10422261 original size:252 final size:251
Alignment explanation
Indices: 10421537--10423864 Score: 3159
Period size: 252 Copynumber: 9.3 Consensus size: 251
10421527 TTATAAATGT
*
10421537 GTAAAAACTTGTAAAGGTGTAAA-AACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGCTAAC
1 GTAAAAACTTGTAAAGGTG-AAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
* *
10421601 GTAACAAGTTAATTCAGTACAAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTC
65 GTAACAAGTCAATTAAGTA-AAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTC
* ** *
10421666 TTGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAA
129 TCGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAA
* * * * *
10421731 ATAATTATAGTTCAAATTTAATATGAAAAAGTCCTGACGTAAAACTGTAAGAATTGAC
194 ATAATTATAGTTCAAAGTTGACATGGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
* *
10421789 GAAAAAACTTGTAAAGGTTG-AATAACTAAATTTTAAATCTTAACGTAAATGTG-CAGGAGTTAA
1 GTAAAAACTTGTAAAGG-TGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGA-GAGTTAA
* * **
10421852 CCTAACAAG----TTAATTAAAAAAATCTAAATTTAATGAAAAGGAAATATTTAAATTTATATTC
64 CGTAACAAGTCAATTAAGTAAAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTC
** *
10421913 TCTAGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAA
129 TCGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAA
* * * * * *
10421978 ATTATCATAGTTCAAAATTGA-TTAAGAAAAGTCTTGACGTAAAACTGTAAGAATTGAT
194 ATAATTATAGTTCAAAGTTGACAT-GGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
* *
10422036 GTAAAAACTTGTAAAAGTGAAATAACTAAATTTCAAATCTTAACGTAAATGTGTGAGAGTTAACG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* *
10422101 TAACAAGTCAATTAAATAAAAATAATCTAAATTTAATAAAAAATAAATATTTAAATTTATATTCT
66 TAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCT
* *
10422166 CGGGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATTCAA-AATAATAAGGATAAAA
130 CGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAA-TAAAGAATAATAAGGATAAAA
* * *
10422230 ATAATTATAGTGCAAAGTTGATATGGAAAAGTCTTGACGTAAAACTATAAGAATTGAC
194 ATAATTATAGTTCAAAGTTGACATGGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
*
10422288 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTCAACG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * *
10422353 TAACGAGTCAATTAAATAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTTTATTCT
66 TAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCT
*** *
10422418 CGAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAACAAAGAATAATAAGGATAAAAA
130 CGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAA
* * *
10422483 TAATTATAGTTCAAATTTGACATGGAATAGT-TTAGACGTAAAATTGTAAGAATTGAC
195 TAATTATAGTTCAAAGTTGACATGGAAAAGTCTT-GACGTAAAACTGTAAGAATTGAC
* * * * * *
10422540 GTAAAAACTTGTAAATGTGGAGTTACTAAATTTTAAATCTTAACGTAAACGTGTGAGAATTAACG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
10422605 TAACAAGTCAATTAAGTAAAAACAATCTAAA--TAATG-AAAATAAATATTTAAATTTATATTCT
66 TAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCT
** *
10422667 CGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAA
130 CGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAA
* **
10422732 TAATTATAGTTCAAAGTTGACATGGAAAAG-CTTTTATATAAAACTGTAAGAATTGAC
195 TAATTATAGTTCAAAGTTGACATGGAAAAGTC-TTGACGTAAAACTGTAAGAATTGAC
* * * * *
10422789 ATAAAAACTTGTAAATGTGAAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAAAG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
*
10422854 TAACAAATCAATTAAGTAAAAATAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCT
66 TAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCT
* * * *
10422919 CAGGTTAAAAGTGTTTAACGATATACAAATTTTACTTTTTAAATAAAGAATAATCAGGATAAAAA
130 CGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAA
* * * *
10422984 TAATGATAGTTCAAAGTTGACATGAAAAAGTCTTGACATAAAACTATAAGAATTGAC
195 TAATTATAGTTCAAAGTTGACATGGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
* * * *
10423041 GTAAAAACTTGTAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAGTATATGAGAGTTAACG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * *
10423106 TAACAAGTCAATTAAGTAAAAATAATTTAAATTTAATAAAAAATAATTATTTAAATTTA-A-TCT
66 TAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCT
* *
10423169 CGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAAGAAAGTATAATAAGGATAAAAA
130 CGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAA
* * * * *
10423234 TAATTATAGTTCAAAATTGGCATAGAAAAG-CATTGACGTAAAATTGTAAGAATTGAA
195 TAATTATAGTTCAAAGTTGACATGGAAAAGTC-TTGACGTAAAACTGTAAGAATTGAC
* * * * *
10423291 ATAAAAACTTGTAAATGTGAAATAACTAAATTTTAAATCTTAACATAAATGTGTGGGAATTAACG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
** * *
10423356 TAACAAGTCAATTAAACAAAAAAATCTAAATTTAATGAAAATTAAATATTTAAATTTCTATTTTC
66 TAACAAGTCAATTAAGTAAAAAAATCTAAATTTAATGAAAAATAAATATTTAAA-TT-TATATTC
* * * *
10423421 TCGGGCTAAAAGTATTTAACGACATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAA
129 TCGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAA
* * *
10423486 ATAATTATAGTTCAAAATTGACATGAAAAAGTCTTGACGTAAAACTGTAAGAATTAAC
194 ATAATTATAGTTCAAAGTTGACATGGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
* * * *
10423544 ATAAAAACTTATGAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAGTGTGTGAGAGTTAACG
1 GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
*
10423609 TAACAAGTCAATTAAGTAAAAACAATCTAAATTTAATGAAAAATAAATTTTTAAATTTATAGTT-
66 TAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTATA-TTC
* *** * *
10423673 TTGAATTAAAAGGGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAA
129 TCGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAA
* ** * * ** *
10423738 ATAATTATAGTTTAAAGTT-ACTATTGGAAGGGT-TTAACGTCAAGTTGTAAGAATCGAC
194 ATAATTATAGTTCAAAGTTGAC-A-TGGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
* * * * * * *
10423796 GTAAAATCTTATGAAGGTGTAATAAAC-AAATTTAAAATCTAAACGTAAATGTGTAAGAGTTAAC
1 GTAAAAACTTGTAAAGGTGAAAT-AACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
10423860 GTAAC
65 GTAAC
10423865 TAGTGATAAA
Statistics
Matches: 1849, Mismatches: 195, Indels: 64
0.88 0.09 0.03
Matches are distributed among these distances:
246 3 0.00
247 210 0.11
248 6 0.00
249 248 0.13
250 193 0.10
251 27 0.01
252 922 0.50
253 209 0.11
254 31 0.02
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (251 bp):
GTAAAAACTTGTAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
TAACAAGTCAATTAAGTAAAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCTC
GGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAAT
AATTATAGTTCAAAGTTGACATGGAAAAGTCTTGACGTAAAACTGTAAGAATTGAC
Found at i:10422937 original size:753 final size:754
Alignment explanation
Indices: 10421537--10423864 Score: 3165
Period size: 751 Copynumber: 3.1 Consensus size: 754
10421527 TTATAAATGT
* *
10421537 GTAAAAACTTGTAAAGGTGTAA-AAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAG-CTAA
1 GTAAAAACTTATAAAGGTGAAATAAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTC-AA
* * *
10421600 CGTAACAAGTTAATTCAGTACAAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATT
65 CGTAACAAGTCAATTAAGTA-AAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTTTATT
* * *
10421665 CTTGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAA
129 CTCGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAACAAAGAATAATAAGGATAAA
* * * * * *
10421730 AATAATTATAGTTCAAATTTAATATGAAAAAGTCCTGACGTAAAACTGTAAGAATTGACGAAAAA
194 AATAATTATAGTTCAAATTTGACATGGAAAAGT-TTGACGTAAAATTGTAAGAATTGACGTAAAA
* * * * * *
10421795 ACTTGTAAAGGTTGAATAACTAAATTTTAAATCTTAACGTAAATGTG-CAGGAGTTAACCTAACA
258 ACTTGTAAATGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTGA-GAATTAACGTAACA
* * *
10421859 AG----TTAATTAAAAAAATCTAAATTTAATGAAAAGGAAATATTTAAATTTATATTCTCTAGCT
322 AGTCAATTAAGTAAAAAAATCTAAA-TTAATGAAAAGTAAATATTTAAATTTATATTCTCGAGCT
* * *
10421920 AAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATTATCA
386 AAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAATAATTA
* **
10421985 TAGTTCAAAATTGA-TTAAGAAAAGTCTTGACGTAAAACTGTAAGAATTGATGTAAAAACTTGTA
451 TAGTTCAAAATTGACAT-AGAAAAGTCTTGACGTAAAACTGTAAGAATTGACATAAAAACTTGTA
* *
10422049 AAAGTGAAATAACTAAATTTCAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATT
515 AAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATT
* * * *
10422114 AAATAAAAATAATCTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGGGCTAAAAGTG
580 AAGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCTCAGGCTAAAAGTG
* *
10422179 TTTAACGATATAAAAATTTTAATTTTTAAATTCAA-AATAATAAGGATAAAAATAATTATAGTGC
645 TTTAACGATATAAAAATTTTAATTTTTAAATTAAAGAATAATAAGGATAAAAATAATTATAGTTC
* *
10422243 AAAGTTGATATGGAAAAGTCTTGACGTAAAACTATAAGAATTGAC
710 AAAGTTGACATGGAAAAGTCTTAACGTAAAACTATAAGAATTGAC
*
10422288 GTAAAAACTTGTAAAGGTGAAAT-AACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTCAAC
1 GTAAAAACTTATAAAGGTGAAATAAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTCAAC
* *
10422352 GTAACGAGTCAATTAAATAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTTTATTC
66 GTAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTTTATTC
*
10422417 TCGAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAACAAAGAATAATAAGGATAAAA
130 TCGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAACAAAGAATAATAAGGATAAAA
*
10422482 ATAATTATAGTTCAAATTTGACATGGAATAGTTTAGACGTAAAATTGTAAGAATTGACGTAAAAA
195 ATAATTATAGTTCAAATTTGACATGGAAAAGTTT-GACGTAAAATTGTAAGAATTGACGTAAAAA
* * * *
10422547 CTTGTAAATGTGGAGTTACTAAATTTTAAATCTTAACGTAAACGTGTGAGAATTAACGTAACAAG
259 CTTGTAAATGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTGAGAATTAACGTAACAAG
*
10422612 TCAATTAAGTAAAAACAATCTAAA-TAATGAAAA-TAAATATTTAAATTTATATTCTCG-GATTA
324 TCAATTAAGTAAAAA-AATCTAAATTAATGAAAAGTAAATATTTAAATTTATATTCTCGAG-CTA
*
10422674 AAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAATAATTAT
387 AAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAATAATTAT
* * * **
10422739 AGTTCAAAGTTGACATGGAAAAG-CTTTTATATAAAACTGTAAGAATTGACATAAAAACTTGTAA
452 AGTTCAAAATTGACATAGAAAAGTC-TTGACGTAAAACTGTAAGAATTGACATAAAAACTTGTAA
* * * * *
10422803 ATGTGAAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAAAGTAACAAATCAATTA
516 AGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTA
* *
10422868 AGTAAAAATAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCTCAGGTTAAAAGTGT
581 AGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCTCAGGCTAAAAGTGT
* * * *
10422933 TTAACGATATACAAATTTTACTTTTTAAA-TAAAGAATAATCAGGATAAAAATAATGATAGTTCA
646 TTAACGATATAAAAATTTTAATTTTTAAATTAAAGAATAATAAGGATAAAAATAATTATAGTTCA
* * *
10422997 AAGTTGACATGAAAAAGTCTTGACATAAAACTATAAGAATTGAC
711 AAGTTGACATGGAAAAGTCTTAACGTAAAACTATAAGAATTGAC
* * * * * *
10423041 GTAAAAACTTGTAAAGGTGGAAT-AACTAAATTTTAAATCTTAACGTAAGTATATGAGAGTTAAC
1 GTAAAAACTTATAAAGGTGAAATAAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTCAAC
* * * *
10423105 GTAACAAGTCAATTAAGTAAAAATAATTTAAATTTAATAAAAAATAATTATTTAAA--TTTAATC
66 GTAACAAGTCAATTAAGTAAAAA-AATCTAAATTTAATGAAAAATAAATATTTAAATTTTTATTC
** * *
10423168 TCGGGCTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAAGAAAGTATAATAAGGATAAAA
130 TCGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAACAAAGAATAATAAGGATAAAA
* * * * **
10423233 ATAATTATAGTTCAAAATTGGCATAGAAAAGCATTGACGTAAAATTGTAAGAATTGAAATAAAAA
195 ATAATTATAGTTCAAATTTGACATGGAAAAG-TTTGACGTAAAATTGTAAGAATTGACGTAAAAA
* *
10423298 CTTGTAAATGTGAAATAACTAAATTTTAAATCTTAACATAAATGTGTGGGAATTAACGTAACAAG
259 CTTGTAAATGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTGAGAATTAACGTAACAAG
** * * *
10423363 TCAATTAAACAAAAAAATCTAAATTTAATGAAAATTAAATATTTAAATTTCTATTTTCTCGGGCT
324 TCAATTAAGTAAAAAAATCTAAA-TTAATGAAAAGTAAATATTTAAA-TT-TATATTCTCGAGCT
* * * *
10423428 AAAAGTATTTAACGACATACAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATTA
386 AAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAATAATTA
* * *
10423493 TAGTTCAAAATTGACAT-GAAAAAGTCTTGACGTAAAACTGTAAGAATTAACATAAAAACTTATG
451 TAGTTCAAAATTGACATAG-AAAAGTCTTGACGTAAAACTGTAAGAATTGACATAAAAACTTGTA
*
10423557 AAGGTGAAATAACTAAATTTTAAATCTTAACGTAAGTGTGTGAGAGTTAACGTAACAAGTCAATT
515 AAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATT
* * * ** *
10423622 AAGTAAAAACAATCTAAATTTAATGAAAAATAAATTTTTAAATTTATAGTTTTGA-ATTAAAAGG
580 AAGTAAAAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATA-TTCTCAGGCTAAAAGT
* *
10423686 GTTTAACGATATACAAATTTTAATTTTTAAA-TAAAAAATAATAAGGATAAAAATAATTATAGTT
644 GTTTAACGATATAAAAATTTTAATTTTTAAATTAAAGAATAATAAGGATAAAAATAATTATAGTT
* ** * ** * *
10423750 TAAAGTT-ACTATTGGAAGGGT-TTAACGTCAAGTTGTAAGAATCGAC
709 CAAAGTTGAC-A-TGGAAAAGTCTTAACGTAAAACTATAAGAATTGAC
* * * * * * *
10423796 GTAAAATCTTATGAAGGTGTAATAAAC-AAATTTAAAATCTAAACGTAAATGTGTAAGAGTTAAC
1 GTAAAAACTTATAAAGGTGAAATAAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTCAAC
10423860 GTAAC
66 GTAAC
10423865 TAGTGATAAA
Statistics
Matches: 1409, Mismatches: 141, Indels: 50
0.88 0.09 0.03
Matches are distributed among these distances:
750 13 0.01
751 480 0.34
752 18 0.01
753 473 0.34
754 15 0.01
755 387 0.27
756 23 0.02
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (754 bp):
GTAAAAACTTATAAAGGTGAAATAAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTCAAC
GTAACAAGTCAATTAAGTAAAAAAATCTAAATTTAATGAAAAATAAATATTTAAATTTTTATTCT
CGGATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAACAAAGAATAATAAGGATAAAAA
TAATTATAGTTCAAATTTGACATGGAAAAGTTTGACGTAAAATTGTAAGAATTGACGTAAAAACT
TGTAAATGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTGAGAATTAACGTAACAAGTC
AATTAAGTAAAAAAATCTAAATTAATGAAAAGTAAATATTTAAATTTATATTCTCGAGCTAAAAG
TGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAATAATTATAGTT
CAAAATTGACATAGAAAAGTCTTGACGTAAAACTGTAAGAATTGACATAAAAACTTGTAAAGGTG
AAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAA
AAACAATCTAAATTTAATGAAAAATAAATATTTAAATTTATATTCTCAGGCTAAAAGTGTTTAAC
GATATAAAAATTTTAATTTTTAAATTAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAGTT
GACATGGAAAAGTCTTAACGTAAAACTATAAGAATTGAC
Found at i:10424008 original size:27 final size:27
Alignment explanation
Indices: 10423955--10424010 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
10423945 TAGTAAAAAG
*
10423955 TAAAATAAAATTAAAAGTTAAATAACT
1 TAAAATAAAATAAAAAGTTAAATAACT
* *
10423982 TAAAATAAACTAAATAAGTTTAA-AACT
1 TAAAATAAAATAAA-AAGTTAAATAACT
10424009 TA
1 TA
10424011 TTTACGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (27 bp):
TAAAATAAAATAAAAAGTTAAATAACT
Found at i:10432546 original size:4 final size:4
Alignment explanation
Indices: 10432537--10432569 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
10432527 TTTACTCTAT
10432537 TTCC TTCC TTCC TTCC TTCC TTCC TTCC TTCC T
1 TTCC TTCC TTCC TTCC TTCC TTCC TTCC TTCC T
10432570 CTTTTCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (4 bp):
TTCC
Found at i:10433845 original size:20 final size:20
Alignment explanation
Indices: 10433820--10433860 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10433810 GTTCATCAAG
10433820 AGTCAAGAGCTGAAAGGAAA
1 AGTCAAGAGCTGAAAGGAAA
* *
10433840 AGTCAATAGTTGAAAGGAAA
1 AGTCAAGAGCTGAAAGGAAA
10433860 A
1 A
10433861 ATGAAGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.27, T:0.15
Consensus pattern (20 bp):
AGTCAAGAGCTGAAAGGAAA
Found at i:10435314 original size:18 final size:18
Alignment explanation
Indices: 10435288--10435322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10435278 ACCCACAAAC
*
10435288 CCACTAAAAATGGATAAT
1 CCACCAAAAATGGATAAT
*
10435306 CCACCAAAAGTGGATAA
1 CCACCAAAAATGGATAA
10435323 CCTGTTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (18 bp):
CCACCAAAAATGGATAAT
Found at i:10444110 original size:17 final size:18
Alignment explanation
Indices: 10444074--10444113 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10444064 GCCGAAAAAG
*
10444074 GAAAAAAAAAAGAATAAA
1 GAAAAAAAAAACAATAAA
10444092 GAAAAAAAAAACAAT-AA
1 GAAAAAAAAAACAATAAA
10444109 GAAAA
1 GAAAA
10444114 CAATTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (18 bp):
GAAAAAAAAAACAATAAA
Found at i:10447757 original size:20 final size:20
Alignment explanation
Indices: 10447712--10447761 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
10447702 GAAACAACTT
* *
10447712 AATCAACTAAGAAGTAAGTT
1 AATCGACTAAGAAGTAAGTC
10447732 AATCGACTAAGAAGTAAGTC
1 AATCGACTAAGAAGTAAGTC
*
10447752 AGTCGACTAA
1 AATCGACTAA
10447762 AAGCTTACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (20 bp):
AATCGACTAAGAAGTAAGTC
Found at i:10447825 original size:93 final size:93
Alignment explanation
Indices: 10447641--10447816 Score: 212
Period size: 93 Copynumber: 1.9 Consensus size: 93
10447631 GAAGATTTTG
* * * * * * * **
10447641 TCGACCAAGAAGTAAGTTAGTTGACTAAGAGCTTACTGCCAAAAATTTGGACTTTAAGACAGAAA
1 TCGACTAAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGACTAAAAGACAGAAA
10447706 CAACTTAATCAACTAAGAAGTAAGTTAA
66 CAACTTAATCAACTAAGAAGTAAGTTAA
10447734 TCGACTAAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGA-TCAAAAGACA-AA
1 TCGACTAAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGACT-AAAAGACAGAA
* * *
10447797 GACGACTTAGTCGACTAAGA
65 -ACAACTTAATCAACTAAGA
10447817 GTGCAGTTAG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
92 3 0.04
93 66 0.96
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (93 bp):
TCGACTAAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGACTAAAAGACAGAAA
CAACTTAATCAACTAAGAAGTAAGTTAA
Found at i:10447834 original size:93 final size:93
Alignment explanation
Indices: 10447647--10447836 Score: 206
Period size: 93 Copynumber: 2.0 Consensus size: 93
10447637 TTTGTCGACC
* * * * * * **
10447647 AAGAAGTAAGTTAGTTGACTAAGAGCTTACTGCCAAAAATTTGGACTTTAAGACAGAAACAACTT
1 AAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGACTAAAAGACAGAAACAACTT
*
10447712 AATCAACTAAGAAGTAAGTTAATCGACT
66 AATCAACTAAGAAGTAAGTTAATCAACT
*
10447740 AAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGA-TCAAAAGACA-AAGACGAC
1 AAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGACT-AAAAGACAGAA-ACAAC
* * * *
10447803 TTAGTCGACTAAG-AGTGCAGTTAGTCAACT
64 TTAATCAACTAAGAAGT-AAGTTAATCAACT
10447833 AAGA
1 AAGA
10447837 TCATTCTGTT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
92 6 0.08
93 74 0.93
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (93 bp):
AAGAAGTAAGTCAGTCGACTAAAAGCTTACTACCAAAAACTGGGACTAAAAGACAGAAACAACTT
AATCAACTAAGAAGTAAGTTAATCAACT
Found at i:10453034 original size:13 final size:13
Alignment explanation
Indices: 10453016--10453040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10453006 TTCTAGAAAA
10453016 TTTATAAAATCAT
1 TTTATAAAATCAT
10453029 TTTATAAAATCA
1 TTTATAAAATCA
10453041 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10457485 original size:21 final size:19
Alignment explanation
Indices: 10457449--10457489 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
10457439 ACATGTTGAG
10457449 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
10457468 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
10457489 T
1 T
10457490 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:10460132 original size:2 final size:2
Alignment explanation
Indices: 10460125--10460163 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
10460115 TCTTAAATCT
*
10460125 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10460164 ATAATAGNTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10460531 original size:12 final size:12
Alignment explanation
Indices: 10460497--10460538 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10460487 CAGAAGTTTT
10460497 TTTTCTCAATTA
1 TTTTCTCAATTA
* *
10460509 TTCTT-TAAATTC
1 TT-TTCTCAATTA
10460521 TTTTCTCAATTA
1 TTTTCTCAATTA
10460533 TTTTCT
1 TTTTCT
10460539 TAGTATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTCTCAATTA
Found at i:10461904 original size:25 final size:25
Alignment explanation
Indices: 10461876--10461926 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
10461866 AATTTTTACT
*
10461876 TGACACCTGAAGTTGTTAATACAAG
1 TGACACCTGAAGTTGTCAATACAAG
*
10461901 TGACACCTGAAGTTGTCAATATAAG
1 TGACACCTGAAGTTGTCAATACAAG
10461926 T
1 T
10461927 TCAAATGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (25 bp):
TGACACCTGAAGTTGTCAATACAAG
Found at i:10463658 original size:39 final size:39
Alignment explanation
Indices: 10463606--10463680 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
10463596 AATCATGAAT
10463606 TTGCTCCAAAAGAGCCCATTGCCCGTAAAGAGGCACGAA
1 TTGCTCCAAAAGAGCCCATTGCCCGTAAAGAGGCACGAA
* * * *
10463645 TTGCTCCAGAAGAGCCTATTGCCCTTGAAGAGGCAC
1 TTGCTCCAAAAGAGCCCATTGCCCGTAAAGAGGCAC
10463681 AAACCCATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
TTGCTCCAAAAGAGCCCATTGCCCGTAAAGAGGCACGAA
Found at i:10468216 original size:30 final size:32
Alignment explanation
Indices: 10468182--10468254 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
10468172 TCATGACAAA
* *
10468182 TTAGCATGTCACGTCATCA-AA-TATAATATT
1 TTAGCATGTCACATCATCACAATTATAATATG
*
10468212 TTAGCATGCCACATCATCATCAATTATAATATG
1 TTAGCATGTCACATCATCA-CAATTATAATATG
10468245 TTAGCATGTC
1 TTAGCATGTC
10468255 GTGTCAGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 17 0.47
32 2 0.06
33 17 0.47
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (32 bp):
TTAGCATGTCACATCATCACAATTATAATATG
Found at i:10468350 original size:30 final size:30
Alignment explanation
Indices: 10468314--10468384 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
10468304 AATCATTAGT
*
10468314 TATAAGAGTTTATTTGACTCAAAATAAAAA
1 TATAAGAGCTTATTTGACTCAAAATAAAAA
* * *
10468344 TATAAGAGCTTATTTGGCTCAAAATGAAAG
1 TATAAGAGCTTATTTGACTCAAAATAAAAA
*
10468374 TATAAGGGCTT
1 TATAAGAGCTT
10468385 GATTGAACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.32
Consensus pattern (30 bp):
TATAAGAGCTTATTTGACTCAAAATAAAAA
Found at i:10470391 original size:36 final size:37
Alignment explanation
Indices: 10470351--10470442 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 37
10470341 GGGCAAAGTC
* *
10470351 ACTGGCGAAGAAATAGATCAC-C-CATGTGTCGAAGCA
1 ACTGGCGGAGAAACAGATCACACACA-GTGTCGAAGCA
* *
10470387 ACTGGTGGAG-AACAGATCACACACAGTGTCGACGCA
1 ACTGGCGGAGAAACAGATCACACACAGTGTCGAAGCA
* *
10470423 ACTGACGGAGAAACAAATCA
1 ACTGGCGGAGAAACAGATCA
10470443 TCGATTAGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
35 9 0.20
36 27 0.59
37 10 0.22
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (37 bp):
ACTGGCGGAGAAACAGATCACACACAGTGTCGAAGCA
Found at i:10481240 original size:36 final size:36
Alignment explanation
Indices: 10481155--10481225 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
10481145 TTTTTTAATG
* *
10481155 AGATCAACCGATAACTCTTACACTGACTTTTTCACA
1 AGATCAAACGATAACCCTTACACTGACTTTTTCACA
10481191 AGATCAAACGATAACCCTTACACTTG-CTTTTTCAC
1 AGATCAAACGATAACCCTTACAC-TGACTTTTTCAC
10481226 GGGATTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.31
Consensus pattern (36 bp):
AGATCAAACGATAACCCTTACACTGACTTTTTCACA
Found at i:10488962 original size:60 final size:60
Alignment explanation
Indices: 10488883--10489019 Score: 204
Period size: 60 Copynumber: 2.3 Consensus size: 60
10488873 TGAATCACGA
* **
10488883 CTTCAAGT-CCCTCTTTACCTACTCATGGGAACTACCCACGCCACCCATTATAAATCGGGG
1 CTTCAAGTCCCCT-TTTACCTACTCATGGGAACTACCCACACCACCCATTATAAATCAAGG
*
10488943 CTTCAAGTCCCCTTTTACCTACTCATGGGAACTATCCACACCACCCATTATAAATCAAGG
1 CTTCAAGTCCCCTTTTACCTACTCATGGGAACTACCCACACCACCCATTATAAATCAAGG
*
10489003 CTTCAGGTCTCCCTTTT
1 CTTCAAGTC-CCCTTTT
10489020 TAAAATCAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
60 59 0.84
61 11 0.16
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.28
Consensus pattern (60 bp):
CTTCAAGTCCCCTTTTACCTACTCATGGGAACTACCCACACCACCCATTATAAATCAAGG
Found at i:10490166 original size:30 final size:30
Alignment explanation
Indices: 10490132--10490194 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
10490122 TCCTTCCTTG
10490132 TTCCAGTCGGCCTTCTCATGAACCAACTCT
1 TTCCAGTCGGCCTTCTCATGAACCAACTCT
10490162 TTCCAGTCGGCCTTCTCATGAACCAACTCT
1 TTCCAGTCGGCCTTCTCATGAACCAACTCT
10490192 TTC
1 TTC
10490195 TCTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.37, G:0.13, T:0.32
Consensus pattern (30 bp):
TTCCAGTCGGCCTTCTCATGAACCAACTCT
Found at i:10490266 original size:18 final size:17
Alignment explanation
Indices: 10490239--10490272 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10490229 ATTTTCTCTC
*
10490239 TCTTTTTCTTTCTTTCTT
1 TCTTTATCTTT-TTTCTT
10490257 TCTTTATCTTTTTTCT
1 TCTTTATCTTTTTTCT
10490273 CGATTTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTATCTTTTTTCTT
Done.