Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
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: 4603428
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 19
Found at i:2862870 original size:20 final size:20
Alignment explanation
Indices: 2862840--2862916 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
2862830 AGATCCAATC
2862840 AAGAAAAAAAAAAGAAAAAA
1 AAGAAAAAAAAAAGAAAAAA
* *
2862860 AA-AAGAAAAAAGAGAAACAA
1 AAGAA-AAAAAAAAGAAAAAA
2862880 AAGAAAAAAAGAAAGAACAAAA
1 AAGAAAAAAA-AAAGAA-AAAA
**
2862902 ATCAAAAAGAAAAAG
1 AAGAAAAA-AAAAAG
2862917 GGACAAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 22 0.48
21 7 0.15
22 13 0.28
23 2 0.04
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.01
Consensus pattern (20 bp):
AAGAAAAAAAAAAGAAAAAA
Found at i:2862882 original size:29 final size:31
Alignment explanation
Indices: 2862840--2862901 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
2862830 AGATCCAATC
2862840 AAGAAAAAAAAAAGAAAAAAA-AAAGAA-AA
1 AAGAAAAAAAAAAGAAAAAAAGAAAGAACAA
* *
2862869 AAGAGAAACAAAAGAAAAAAAGAAAGAACAA
1 AAGAAAAAAAAAAGAAAAAAAGAAAGAACAA
2862900 AA
1 AA
2862902 ATCAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 19 0.66
30 6 0.21
31 4 0.14
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (31 bp):
AAGAAAAAAAAAAGAAAAAAAGAAAGAACAA
Found at i:2862914 original size:26 final size:24
Alignment explanation
Indices: 2862843--2862916 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 24
2862833 TCCAATCAAG
*
2862843 AAAAA-AAAAAGAAAAAAAAAAGA
1 AAAAACAAAAACAAAAAAAAAAGA
* *
2862866 AAAAAGAGAAACAAAAGAAAAAAAGA
1 AAAAACAAAAAC-AAA-AAAAAAAGA
*
2862892 AAGAACAAAAATCAAAAAGAAAAAG
1 AAAAACAAAAA-CAAAAA-AAAAAG
2862917 GGACAAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
23 5 0.12
24 4 0.10
25 5 0.12
26 26 0.63
27 1 0.02
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.01
Consensus pattern (24 bp):
AAAAACAAAAACAAAAAAAAAAGA
Found at i:2863548 original size:22 final size:22
Alignment explanation
Indices: 2863521--2863597 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
2863511 GCTACCCCAT
* *
2863521 CAAACCGTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
*
2863543 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2863565 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2863587 CAAACCTTTGA
1 CAAACCTTTGA
2863598 CCAAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2864573 original size:63 final size:62
Alignment explanation
Indices: 2864438--2864581 Score: 198
Period size: 63 Copynumber: 2.3 Consensus size: 62
2864428 ACAACACAAG
* * * * * *
2864438 TTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAATAATTTTCCAATTTCGGAGCCAAT
1 TTCAACTTCACAGCGAAGGGACGGCTGGTTGTCAAAAACAATTTCCCAATTTCAGAGCCAAT
* * *
2864500 TTCAACTTCACAGCGAAGGGACTGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCTAAT
1 TTCAACTTCACAGCGAAGGGACGGCTGGTTGTCAA-AAACAATTTCCCAATTTCAGAGCCAAT
2864563 TTCAACTTCACAGCGAAGG
1 TTCAACTTCACAGCGAAGG
2864582 ATATTGGACT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
62 32 0.44
63 40 0.56
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (62 bp):
TTCAACTTCACAGCGAAGGGACGGCTGGTTGTCAAAAACAATTTCCCAATTTCAGAGCCAAT
Found at i:2864685 original size:106 final size:105
Alignment explanation
Indices: 2864500--2866700 Score: 3134
Period size: 106 Copynumber: 20.9 Consensus size: 105
2864490 CGGAGCCAAT
* * *
2864500 TTCAACTTCAC-AGCGAAGGGACTGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCTAATT
1 TTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATT
*
2864564 TCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAG
64 TCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
2864606 TTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTTCAGAGCCAATTT
*
2864671 CAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * *
2864712 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTTCAGAGCCAATTT
* * *
2864777 CAACTTCACAACGAAGGATATTGAACTCCTGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
2864818 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTTCAGAGCCAATTT
**
2864883 CAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
2864924 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTT
* *
2864989 CAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * *
2865030 TTCAACTTCACGACGAAGGAACCACTGGTTGTTAATAAACAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTTCAGAGCCAATTT
2865095 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
2865136 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTTCAGAGCCAATTT
* *
2865201 TAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
2865242 TTTAACTTCACGACGAAAGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTT
* *
2865307 CAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
2865348 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTTCAGAGCCAATTT
* ** * * * *
2865413 CAACTTCTCAGCGAATTATCTTGAAC-CCAAGGCAACACAAG
65 CAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAG
* * * * *
2865454 CTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAT-AA-AATTT-C-A-TTCAGAGTCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAATTTCAGAGCCAATTTC
* * *
2865514 AACTTCACAGCGAAGGATATTAGACTCGAGATAACGCAAG
66 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
2865554 TTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCTAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTT
*
2865619 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
2865660 TTCAACTTCACGACGAAGGGATCTCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTTCAGAGCCAATTT
2865725 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
2865766 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTTCAGAGCCAATTT
* *
2865831 CAACTTCACAACGAAGGATATTGGACTCCTGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
2865872 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTTCAGAGCCAATTT
**
2865937 CAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
2865978 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTT
*
2866043 CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
2866084 TTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAACAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTTCAGAGCCAATTT
2866149 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
2866190 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTTCAGAGCCAATTT
* * *
2866255 TAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
2866296 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTT
* *
2866361 CAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCAAG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
2866402 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTTCAGAGCCAATTT
* ** * * * *
2866467 CAACTTCTCAGCGAATTATCTTGAAC-CCAAGGCAACACAAG
65 CAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAG
* * * * *
2866508 CTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAT-AA-AATTT-C-A-TTCAGAGTCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAATTTCAGAGCCAATTTC
* * * *
2866568 AACTTCATAGCGAAGGATATTAGACTCGAGACAACACAAG
66 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * * ** *
2866608 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGGTTCCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTT
* *
2866673 CAACTTCAC-GACGGAGGATAGTGGACTC
65 CAACTTCACAG-CGAAGGATATTGGACTC
2866701 AGAACAATGC
Statistics
Matches: 1887, Mismatches: 176, Indels: 64
0.89 0.08 0.03
Matches are distributed among these distances:
100 146 0.08
101 8 0.00
102 12 0.01
103 4 0.00
104 6 0.00
105 18 0.01
106 1674 0.89
107 19 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (105 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAATTTCAGAGCCAATTTC
AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2867530 original size:37 final size:37
Alignment explanation
Indices: 2867428--2867532 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
2867418 CTTTTTCGTC
*
2867428 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* *
2867465 -TCGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CT-ACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * *
2867502 CTACTATGATTTAAACTCCTAAAGATATGAT
1 CTACTAGGATTCAAACTCCTAAAAATATGAT
2867533 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 57 0.97
38 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:2867991 original size:11 final size:11
Alignment explanation
Indices: 2867977--2868005 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2867967 TTTTTTTAAA
2867977 TGATTTTCAAT
1 TGATTTTCAAT
2867988 TGATTTTCAAT
1 TGATTTTCAAT
2867999 TGATTTT
1 TGATTTT
2868006 TTACACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (11 bp):
TGATTTTCAAT
Found at i:2868099 original size:2 final size:2
Alignment explanation
Indices: 2868079--2868155 Score: 129
Period size: 2 Copynumber: 39.0 Consensus size: 2
2868069 TTTTTAATAC
* *
2868079 TA TA TT TA T- TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2868120 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2868156 CTTTTTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2868250 original size:2 final size:2
Alignment explanation
Indices: 2868245--2868281 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2868235 ACTTTATCAT
2868245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2868282 GTTTTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2868352 original size:23 final size:24
Alignment explanation
Indices: 2868326--2868378 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
2868316 ATATGTATAC
*
2868326 TTATATTTGATTTATA-TATTTAT
1 TTATATTTGATTTAAATTATTTAT
* *
2868349 TTAT-TTTGTTTTAAATTTTTTAT
1 TTATATTTGATTTAAATTATTTAT
2868372 TTATATT
1 TTATATT
2868379 ATATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.36
23 14 0.56
24 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (24 bp):
TTATATTTGATTTAAATTATTTAT
Found at i:2868475 original size:4 final size:4
Alignment explanation
Indices: 2868462--2868511 Score: 57
Period size: 4 Copynumber: 12.2 Consensus size: 4
2868452 TATATATTAA
* *
2868462 TATT TCATT TATT TATT TATT TATT TATT CT-TT TATT TTTT TACT TATT
1 TATT T-ATT TATT TATT TATT TATT TATT -TATT TATT TATT TATT TATT
2868511 T
1 T
2868512 TTATTCTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 1 0.03
4 33 0.85
5 5 0.13
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:2868536 original size:12 final size:12
Alignment explanation
Indices: 2868464--2868536 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
2868454 TATATTAATA
2868464 TTTCATTTATTT
1 TTTCATTTATTT
2868476 ATTT-ATTTATTT
1 -TTTCATTTATTT
* *
2868488 ATTCTTTTATTT
1 TTTCATTTATTT
* *
2868500 TTTTACTTATTTT
1 TTTCATTTA-TTT
*
2868513 TATTC-TTCATTT
1 T-TTCATTTATTT
2868525 TTTCATTTATTT
1 TTTCATTTATTT
2868537 AATTTTTCCC
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
11 5 0.11
12 30 0.65
13 9 0.20
14 2 0.04
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCATTTATTT
Found at i:2871440 original size:19 final size:19
Alignment explanation
Indices: 2871405--2871453 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
2871395 AAATGTGATA
*
2871405 ATATTTTAGATTATAG-ATT
1 ATATTTTA-AATATAGAATT
2871424 ACTATTTTAAATATAGAATT
1 A-TATTTTAAATATAGAATT
*
2871444 ATATATTAAA
1 ATATTTTAAA
2871454 AATATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (19 bp):
ATATTTTAAATATAGAATT
Found at i:2871541 original size:23 final size:23
Alignment explanation
Indices: 2871471--2871541 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
2871461 AAATGGTCTT
* * *
2871471 TAAATTATTATTATT-ATAATATA
1 TAAAATATTTTTATTAAAAATA-A
* * *
2871494 TAAAATATATTGATTTAAATTATAA
1 TAAAATATTTTTA-TTAAA-AATAA
2871519 TAAAATATTTTTATTAAAAATAA
1 TAAAATATTTTTATTAAAAATAA
2871542 ATGAATTCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
23 13 0.36
24 7 0.19
25 13 0.36
26 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TAAAATATTTTTATTAAAAATAA
Found at i:2871638 original size:30 final size:32
Alignment explanation
Indices: 2871575--2871650 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 32
2871565 AAAACATTTC
2871575 TTGG-TAAAATGAAATATCTAAAGTTATTATT
1 TTGGTTAAAATGAAATATCTAAAGTTATTATT
* * *
2871606 TTGGTTAAAAT-ATATATTTAAA-TTATTTTT
1 TTGGTTAAAATGAAATATCTAAAGTTATTATT
2871636 TTGGTTAAATATGAA
1 TTGGTTAAA-ATGAA
2871651 CCTAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 16 0.42
31 15 0.39
32 7 0.18
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (32 bp):
TTGGTTAAAATGAAATATCTAAAGTTATTATT
Found at i:2871656 original size:29 final size:31
Alignment explanation
Indices: 2871575--2871665 Score: 73
Period size: 31 Copynumber: 3.0 Consensus size: 31
2871565 AAAACATTTC
* *
2871575 TTGG-TAAAATGAAATATCTAAAGTTATTATT
1 TTGGTTAAAAT-ATATACCTAAAGTTATTATT
** *
2871606 TTGGTTAAAATATATATTTAAA-TTATTTTT
1 TTGGTTAAAATATATACCTAAAGTTATTATT
*
2871636 TTGGTT-AAATATGA-ACCTAAAATATATTAT
1 TTGGTTAAAATAT-ATACCTAAAGT-TATTAT
2871666 ATTTTTTTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
29 11 0.22
30 15 0.30
31 18 0.36
32 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (31 bp):
TTGGTTAAAATATATACCTAAAGTTATTATT
Found at i:2871790 original size:28 final size:31
Alignment explanation
Indices: 2871754--2871823 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
2871744 ATATACTTAG
* * *
2871754 GTATATATTTTAATC-AAA-AAT-ATTTTAT
1 GTATTTATTTTAACCAAAATAATAATTTTAA
*
2871782 GTATTTATTTTGACCAAAATAATAATTTTAA
1 GTATTTATTTTAACCAAAATAATAATTTTAA
2871813 GTATTTATTTT
1 GTATTTATTTT
2871824 TCAAAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.34
29 3 0.09
30 3 0.09
31 17 0.49
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (31 bp):
GTATTTATTTTAACCAAAATAATAATTTTAA
Found at i:2876058 original size:16 final size:16
Alignment explanation
Indices: 2876037--2876067 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2876027 TATGAATCTG
*
2876037 ACATGTAATTGACTCA
1 ACATGTAAATGACTCA
2876053 ACATGTAAATGACTC
1 ACATGTAAATGACTC
2876068 GACTTGTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (16 bp):
ACATGTAAATGACTCA
Found at i:2876699 original size:5 final size:5
Alignment explanation
Indices: 2876689--2876720 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
2876679 TAAAAGAGAA
2876689 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
2876721 GAAGATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2876702 original size:9 final size:9
Alignment explanation
Indices: 2876690--2876720 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2876680 AAAAGAGAAA
2876690 AAATAAAAT
1 AAATAAAAT
2876699 AAATAAAAT
1 AAATAAAAT
2876708 AAAATAAAAT
1 -AAATAAAAT
2876718 AAA
1 AAA
2876721 GAAGATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2876706 original size:14 final size:15
Alignment explanation
Indices: 2876689--2876720 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2876679 TAAAAGAGAA
2876689 AAAATAAAAT-AAAT
1 AAAATAAAATAAAAT
2876703 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
2876718 AAA
1 AAA
2876721 GAAGATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:2876847 original size:54 final size:53
Alignment explanation
Indices: 2876768--2876870 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 53
2876758 AAATGTTAAA
**
2876768 TTTTGAAAAAAAAAATGTTAAAAGAGCATGCTAAAATCTTTTTAAAAAAAGTG
1 TTTTGAAAAAAAAAATACTAAAAGAGCATGCTAAAATCTTTTTAAAAAAAGTG
* *
2876821 TTTT-AAAAAAAACAATACTAAGAAGAGCATGTTAAAATCTTTTTTAAAAA
1 TTTTGAAAAAAAA-AATACTAA-AAGAGCATGCTAAAATCTTTTTAAAAAA
2876871 TAGAATAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 8 0.18
53 10 0.23
54 26 0.59
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (53 bp):
TTTTGAAAAAAAAAATACTAAAAGAGCATGCTAAAATCTTTTTAAAAAAAGTG
Found at i:2880137 original size:219 final size:220
Alignment explanation
Indices: 2879593--2880262 Score: 720
Period size: 219 Copynumber: 3.0 Consensus size: 220
2879583 TAAGTAAGAG
* * * * * *
2879593 TTGAA-AAATCTTCGGAAGACAAGTCCGCTCCTTTTTCTTTCAATGAGTATAGGACTCGAACAAT
1 TTGAACAAA-CTTCGGAAAACAGGTCCACTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAAA
*** ** ** * * * *
2879657 CTTCGGCAAACATGTATGCTCATTCTTCTTTCAGGGAGTACAAGACTTGAACAATTTTCGGAAAA
65 CTTCAAAAAACGGGTCCGCTCATTCTTCTTTCAAGGAGTATAAGACTTGAACAATCTTCGAAAAA
* * ** **
2879722 CGGGTCTGCTCCTTCTTCTTTTAAGGCGTATAGGACTTAAACAATCTTCAAAAAATGGGTCCAGG
130 CGGGTCCGCTCCTTCTTCTTTCAAGAAGTATAGGACTCGAACAATCTTCAAAAAATGGGT-C---
* *
2879787 TCCGCTTCTTCTTCTTTCAAGGAGTATAAGAC
191 T--GCTCCTTCTTCTTTCAAGGAGTATAGGAC
* * *
2879819 TTGAACAAACTTCGGAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGAACAAAC
1 TTGAACAAACTTCGGAAAACAGGTCCACTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAAAC
* * *
2879884 TTCGAAAAACGGGTCCGCTTC-TTCATCTTTCAAGGAGTATATGACTTGAACAATCTTCGAAAAA
66 TTCAAAAAACGGGTCCGC-TCATTCTTCTTTCAAGGAGTATAAGACTTGAACAATCTTCGAAAAA
2879948 CGGGTCCGCTCCTTCTTCTTTCAAGAAGTATAGGACTCGAACAATCTTC-AAAAATGGGTCTGCT
130 CGGGTCCGCTCCTTCTTCTTTCAAGAAGTATAGGACTCGAACAATCTTCAAAAAATGGGTCTGCT
*
2880012 CCTTCTTCTTTCATGGAGTATAGGAC
195 CCTTCTTCTTTCAAGGAGTATAGGAC
* * * ** * * * *
2880038 TTGAACTATCTTCGGCATGCATGTCTACTTCC-TCTTCTTTCAAGGAGTATAGTACTCGAACAAT
1 TTGAACAAACTTCGGAAAACAGGTCCAC-TCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAAA
* * * * *
2880102 TTTCAAAAAATGGGTCCGCTCATTCTTCTTTCAAGGAGTATAGGGCTCGAACAATCTTCGAAAAA
65 CTTCAAAAAACGGGTCCGCTCATTCTTCTTTCAAGGAGTATAAGACTTGAACAATCTTCGAAAAA
** * * * * **
2880167 TAGGTACGCTCATTCTTCTTTCAA-AGAGTATAGGACTCGAATAATCTTCGAAAAATGGGTCCAC
130 CGGGTCCGCTCCTTCTTCTTTCAAGA-AGTATAGGACTCGAACAATCTTCAAAAAATGGGTCTGC
*
2880231 TCATTCTTCTTTCAAGGAGTATAGGAC
194 TCCTTCTTCTTTCAAGGAGTATAGGAC
2880258 TTGAA
1 TTGAA
2880263 TAATTTTTAG
Statistics
Matches: 382, Mismatches: 56, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
218 3 0.01
219 171 0.45
220 45 0.12
221 1 0.00
224 1 0.00
225 10 0.03
226 146 0.38
227 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (220 bp):
TTGAACAAACTTCGGAAAACAGGTCCACTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAAAC
TTCAAAAAACGGGTCCGCTCATTCTTCTTTCAAGGAGTATAAGACTTGAACAATCTTCGAAAAAC
GGGTCCGCTCCTTCTTCTTTCAAGAAGTATAGGACTCGAACAATCTTCAAAAAATGGGTCTGCTC
CTTCTTCTTTCAAGGAGTATAGGAC
Found at i:2880266 original size:55 final size:55
Alignment explanation
Indices: 2879615--2880262 Score: 637
Period size: 55 Copynumber: 11.7 Consensus size: 55
2879605 CGGAAGACAA
* * * * *
2879615 GTCCGCTCCTTTTTCTTTCAATGAGTATAGGACTCGAACAATCTTCGGCAAACAT--
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTC-G-AAAAATGG
** * * * * * *
2879670 GTATGCTCATTCTTCTTTCAGGGAGTACAAGACTTGAACAATTTTCGGAAAACGG
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * * * * *
2879725 GTCTGCTCCTTCTTCTTTTAAGGCGTATAGGACTTAAACAATCTTCAAAAAATGGGTCCAG
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAAT--G----G
* * * *
2879786 GTCCGCTTC-TTCTTCTTTCAAGGAGTATAAGACTTGAACAAACTTCGGAAAACGG
1 GTCCGC-TCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * *
2879841 GTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGAACAAACTTCGAAAAACGG
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * *
2879896 GTCCGCTTC-TTCATCTTTCAAGGAGTATATGACTTGAACAATCTTCGAAAAACGG
1 GTCCGC-TCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * *
2879951 GTCCGCTCCTTCTTCTTTCAAGAAGTATAGGACTCGAACAATCTTC-AAAAATGG
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * * * ** *
2880005 GTCTGCTCCTTCTTCTTTCATGGAGTATAGGACTTGAACTATCTTCG--GCATGCAT
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATG--G
** * * * * *
2880060 GTCTACTTC-CTCTTCTTTCAAGGAGTATAGTACTCGAACAATTTTCAAAAAATGG
1 GTCCGC-TCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * *
2880115 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGGCTCGAACAATCTTCGAAAAATAG
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
* * * *
2880170 GTACGCTCATTCTTCTTTCAAAGAGTATAGGACTCGAATAATCTTCGAAAAATGG
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
*
2880225 GTCCACTCATTCTTCTTTCAAGGAGTATAGGACTTGAA
1 GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAA
2880263 TAATTTTTAG
Statistics
Matches: 494, Mismatches: 80, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
53 6 0.01
54 55 0.11
55 380 0.77
56 4 0.01
57 4 0.01
59 1 0.00
61 42 0.09
62 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (55 bp):
GTCCGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGAAAAATGG
Found at i:2884356 original size:111 final size:111
Alignment explanation
Indices: 2884204--2885032 Score: 1225
Period size: 111 Copynumber: 7.5 Consensus size: 111
2884194 TACCAAATGA
* * * * * * *
2884204 CACTATGTGTGAAAAAGCTAATAAATTCATAATAAGTTTATGAATTTTCGTTTGGGCAATTTATG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTG
* *
2884269 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGA
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * *
2884316 CACATTGTGTGTAAAACTAAGAAATTCATAATGTGTTTATGAATTTTCGTATGGGCACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGT
* *
2884381 GCAAAAGCTAAGAAATTCATAACGAGTTTATGAATTTCTGTATGGG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
*
2884427 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTTT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGT
* *
2884492 ACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2884538 CACTTTGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAA-TTTCTGTATGGGCACTTTGTG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATGGGCACTTTGTG
* **
2884602 TTCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCTATATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2884648 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGATTTTATGAATTTCCGTATGGGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTG
* * *
2884713 AGCAAAA-CTAAGAAATTCATAATCAGTTTATGAATTTCCATATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * *
2884759 CACTTTGTTTACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTG
* *
2884824 TGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* **
2884870 CACTTTGTGTGCAAAACTAAGAAATTCATAACGAGTTTATGAATTTTTATATGGGCACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGT
*
2884935 GCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCCGTATGGG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * *
2884981 AACTTTGTGTGCAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
2885033 TGGTAGTGGG
Statistics
Matches: 652, Mismatches: 61, Indels: 9
0.90 0.08 0.01
Matches are distributed among these distances:
110 106 0.16
111 530 0.81
112 16 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (111 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGT
GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
Found at i:2884577 original size:166 final size:167
Alignment explanation
Indices: 2884204--2885032 Score: 1238
Period size: 166 Copynumber: 5.0 Consensus size: 167
2884194 TACCAAATGA
* * * * * *
2884204 CACTATGTGTGAAAAAGCTAATAAATTCATAATAAGTTTATGAATTT-TCGTTTGGGCAATTTAT
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTGT
* * * *
2884268 GTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGACACATTGTGTGTAAAA-
64 GTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAG
* *
2884332 CTAAGAAATTCATAATGTGTTTATGAATTTTCGTATGGG
129 CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
**
2884371 CACTTTGTGTGCAAAAGCTAAGAAATTCATAACGAGTTTATGAATTTCTGTATGGGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTG
* * *
2884436 TGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTTTACAAAAGC
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGC
*
2884500 TAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAG
130 TAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
*
2884538 CACTTTGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
* **
2884603 TCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCTATATGGGCACTTTGTGTGCAAAAGCT
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
*
2884667 AAGAAATTCATAATGATTTTATGAATTTCCGTATGGG
131 AAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * ** *
2884704 CACTTTGTGAGCAAAACTAAGAAATTCATAATCAGTTTATGAATTTCCATATGGGCACTTTGTTT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
* *
2884769 ACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAA-CT
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
* *
2884833 AAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
131 AAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
** * *
2884870 CACTTTGTGTGCAAAACTAAGAAATTCATAACGAGTTTATGAATTTTTATATGGGCACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
* *
2884935 GCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGC-AAAGCT
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
*
2884999 AAGAAATTCATAATAAGTTTATGAATTTCCGTAT
131 AAGAAATTCATAATGAGTTTATGAATTTCCGTAT
2885033 TGGTAGTGGG
Statistics
Matches: 605, Mismatches: 53, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
165 3 0.00
166 435 0.72
167 166 0.27
168 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (167 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
AAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
Found at i:2884711 original size:277 final size:276
Alignment explanation
Indices: 2884216--2885032 Score: 1330
Period size: 277 Copynumber: 2.9 Consensus size: 276
2884206 CTATGTGTGA
* * * * * * *
2884216 AAAAGCTAATAAATTCATAATAAGTTTATGAATTTTCGTTTGGGCAATTTATGTGCAAAAGCTAA
1 AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAA-CTAA
* ** * *
2884281 GAAATTCATAATGAGTTTATGAATTTCCATATGGACACATTGTGTGT-AAAACTAAGAAATTCAT
65 GAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT-TCAAAACTAAGAAATTCAT
* * *
2884345 AATGTGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAACGAGTTT
129 AATGAGTTTATGAATTTT-ATATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTT
* * *
2884410 ATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTC
193 ATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
2884475 GTATGGGCACTTTGTTTAC
258 GTATGGGCACTTTGTTTAC
2884494 AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAAG
1 AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAAG
*
2884559 AAATTTATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTTCAAAACTAAGAAATTCATAA
66 AAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTTCAAAACTAAGAAATTCATAA
*
2884624 TGAGTTTATGAATTTCTATATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGATTTTAT
131 TGAGTTTATGAATTT-TATATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTAT
* * *
2884689 GAATTTCCGTATGGGCACTTTGTGAGCAAAACTAAGAAATTCATAATCAGTTTATGAATTTCCAT
195 GAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
2884754 ATGGGCACTTTGTTTAC
260 ATGGGCACTTTGTTTAC
2884771 AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAAG
1 AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAAG
*
2884836 AAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
66 AAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTTCAAAACTAAGAAATTCATAA
* *
2884901 CGAGTTTATGAATTTTTATATGGGCACTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTAT
131 TGAGTTTATGAA-TTTTATATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTAT
* *
2884966 GAATTTCCGTATGGGAACTTTGTGTGCAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
195 GAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
2885031 AT
260 AT
2885033 TGGTAGTGGG
Statistics
Matches: 504, Mismatches: 32, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
276 1 0.00
277 446 0.88
278 57 0.11
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (276 bp):
AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAAG
AAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTTCAAAACTAAGAAATTCATAA
TGAGTTTATGAATTTTATATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATG
AATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
TGGGCACTTTGTTTAC
Found at i:2890260 original size:166 final size:167
Alignment explanation
Indices: 2889885--2890713 Score: 1238
Period size: 166 Copynumber: 5.0 Consensus size: 167
2889875 TACCAAATGA
* * * *
2889885 CACTATGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTT-TCGTTTGGGCAATTTAT
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTGT
* * * * *
2889949 GTGCAAAAGCTAAGAGATTCATAATGAGTTTATGAATTTCCATATGGACACATTGTGTGTAAAA-
64 GTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAG
* *
2890013 CTAAGAAATTCATAATGTGTTTATGAATTTTCGTATGGG
129 CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * *
2890052 CATTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTG
* *
2890117 TGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTTTACAAAAGC
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGC
* *
2890181 TAAGAAATACATAATGAGTTTATGAATTTCCGTATGAG
130 TAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
2890219 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
**
2890284 GCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCTATATGGGCACTTTGTGTGCAAAAGCT
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
* *
2890348 AAGAAATTCATAATGATTTTATGAATTTCCATATGGG
131 AAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * ** *
2890385 CACTTTGTGAGGAAAACTAAGAAATTCATAATCAGTTTATGAATTTCCATATGGGCACTTTGTTT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
* *
2890450 ACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAA-CT
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
* *
2890514 AAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
131 AAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * *
2890551 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTTATATGGGGACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
* *
2890616 GCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGC-AAAGCT
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
*
2890680 AAGAAATTCATAATAAGTTTATGAATTTCCGTAT
131 AAGAAATTCATAATGAGTTTATGAATTTCCGTAT
2890714 TGGTAGTGGG
Statistics
Matches: 603, Mismatches: 55, Indels: 9
0.90 0.08 0.01
Matches are distributed among these distances:
165 3 0.00
166 434 0.72
167 165 0.27
168 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (167 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCT
AAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
Found at i:2890391 original size:277 final size:276
Alignment explanation
Indices: 2889896--2890713 Score: 1339
Period size: 277 Copynumber: 2.9 Consensus size: 276
2889886 ACTATGTGTG
* * * * * *
2889896 CAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTTTGGGCAATTTATGTGCAAAAGCTA
1 CAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAA-CTA
* * ** * * *
2889961 AGAGATTCATAATGAGTTTATGAATTTCCATATGGACACATTGTGTGTAAAACTAAGAAATTCAT
65 AGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
* * *
2890026 AATGTGTTTATGAATTTTCGTATGGGCATTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTT
130 AATGAGTTTATGAATTTT-ATATGGGCACTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTT
* *
2890091 ATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCC
194 ATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
2890156 GTATGGGCACTTTGTTTA
259 GTATGGGCACTTTGTTTA
*
2890174 CAAAAGCTAAGAAATACATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAA
1 CAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAA
2890239 GAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATA
66 GAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATA
* *
2890304 ATGAGTTTATGAATTTCTATATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGATTTTA
131 ATGAGTTTATGAATTT-TATATGGGCACTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTA
* * * * *
2890369 TGAATTTCCATATGGGCACTTTGTGAGGAAAACTAAGAAATTCATAATCAGTTTATGAATTTCCA
195 TGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCG
2890434 TATGGGCACTTTGTTTA
260 TATGGGCACTTTGTTTA
2890451 CAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAA
1 CAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAA
2890516 GAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATA
66 GAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATA
*
2890581 ATGAGTTTATGAATTTTTATATGGGGACTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTA
131 ATGAGTTTATGAA-TTTTATATGGGCACTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTA
* *
2890646 TGAATTTCCGTATGGGAACTTTGTGTGCAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCG
195 TGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCG
2890711 TAT
260 TAT
2890714 TGGTAGTGGG
Statistics
Matches: 502, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
277 444 0.88
278 58 0.12
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (276 bp):
CAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAACTAA
GAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATA
ATGAGTTTATGAATTTTATATGGGCACTTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTAT
GAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
ATGGGCACTTTGTTTA
Found at i:2890730 original size:111 final size:111
Alignment explanation
Indices: 2889885--2890713 Score: 1223
Period size: 111 Copynumber: 7.5 Consensus size: 111
2889875 TACCAAATGA
* * * * * *
2889885 CACTATGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTTTGGGCAATTTATG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * *
2889950 TGCAAAAGCTAAGAGATTCATAATGAGTTTATGAATTTCCATATGGA
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * * *
2889997 CACATTGTGTGTAAAACTAAGAAATTCATAATGTGTTTATGAATTTTCGTATGGGCATTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
* *
2890062 GCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCTGTATGGG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
*
2890108 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTTT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
* * *
2890173 ACAAAAGCTAAGAAATACATAATGAGTTTATGAATTTCCGTATGAG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2890219 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
**
2890284 GCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCTATATGGG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2890329 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGATTTTATGAATTTCCATATGGGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * * *
2890394 AGGAAAA-CTAAGAAATTCATAATCAGTTTATGAATTTCCATATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * *
2890440 CACTTTGTTTACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTG
* *
2890505 TGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
*** *
2890551 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTTATATGGGGACTTTGTGT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
*
2890616 GCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCCGTATGGG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * *
2890662 AACTTTGTGTGCAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
2890714 TGGTAGTGGG
Statistics
Matches: 649, Mismatches: 66, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
110 101 0.16
111 535 0.82
112 13 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (111 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
Found at i:2896016 original size:55 final size:56
Alignment explanation
Indices: 2895859--2896415 Score: 829
Period size: 55 Copynumber: 10.0 Consensus size: 56
2895849 TACCAAATGA
* * *
2895859 CACTATGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2895915 CACTTTGTGTGCAAAAGCTAAGAAATTAATAATGAGTTTATGAATTTCCATATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
*
2895971 CACATTT-TGTGCAAAA-CTAAGAAATTCATAATGTGTTTATGAATTTCCGTATGGG
1 CAC-TTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2896026 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGATTTTATGAATTTCCATATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
*
2896082 CACTTTGTGAGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * * *
2896137 CACTTTGTTTACAAAAGCTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGAG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2896193 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* ***
2896248 CACTTTGTGCGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTTATATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* *
2896303 CAATTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
* * * *
2896359 AACTTTGTGTGC-AAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
1 CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
2896414 CA
1 CA
2896416 GTGGAGGTGC
Statistics
Matches: 452, Mismatches: 44, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
54 3 0.01
55 237 0.52
56 209 0.46
57 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (56 bp):
CACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG
Found at i:2896215 original size:166 final size:167
Alignment explanation
Indices: 2895855--2896415 Score: 853
Period size: 166 Copynumber: 3.4 Consensus size: 167
2895845 TGATTACCAA
* *
2895855 ATGA-CACTATGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACT
1 ATGAGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACT
* *
2895919 TTGTGTGCAAAAGCTAAGAAATTAATAATGAGTTTATGAATTTCCATATGGGCACATTT-TGTGC
66 TTGTGAGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGGCAC-TTTGTGTGC
*
2895983 AAAA-CTAAGAAATTCATAATGTGTTTATGAATTTCCGT
129 AAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGT
* * * *
2896021 ATGGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGATTTTATGAATTTCCATATGGGCACT
1 ATGAGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACT
* * *
2896086 TTGTGAGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTTTACAA
66 TTGTGAGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
* *
2896151 AAGCTAAGAAATTCATAATGAGTTTATAAATTTTCGT
131 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGT
*
2896188 ATGAGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACT
1 ATGAGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACT
* ** *
2896252 TTGTGCGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTTATATGGGCAATTTGTGTGCAA
66 TTGTGAGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
*
2896317 AAGCTAATAAATTCATAATGAGTTTATGAATTTCCGT
131 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGT
* * * *
2896354 ATGGGAACTTTGTGTGC-AAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCA
1 ATGAGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCA
2896416 GTGGAGGTGC
Statistics
Matches: 358, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
165 6 0.02
166 235 0.66
167 117 0.33
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (167 bp):
ATGAGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACT
TTGTGAGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGT
Found at i:2896427 original size:111 final size:111
Alignment explanation
Indices: 2895859--2896415 Score: 841
Period size: 111 Copynumber: 5.0 Consensus size: 111
2895849 TACCAAATGA
* * *
2895859 CACTATGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTG
*
2895924 TGCAAAAGCTAAGAAATTAATAATGAGTTTATGAATTTCCATATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGG
*
2895971 CACATTT-TGTGCAAAACTAAGAAATTCATAATGTGTTTATGAATTTCCGTATGGGCACTTTGTG
1 CAC-TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTG
*
2896035 TGCAAAAGCTAAGAAATTCATAATGATTTTATGAATTTCCATATGGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGG
* *
2896082 CACTTTGTGAGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTTT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
* * * * *
2896147 ACAAAAGCTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGAG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGG
* * *
2896193 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGC
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
**
2896258 GCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTTATATGGG
66 GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGG
* * *
2896303 CAATTTGTGTGCAAAAGCTAATAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTG
1 CACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * * *
2896368 TGC-AAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
65 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGG
2896414 CA
1 CA
2896416 GTGGAGGTGC
Statistics
Matches: 405, Mismatches: 36, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
110 56 0.14
111 335 0.83
112 12 0.03
113 2 0.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (111 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGT
GCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATGGG
Found at i:2905358 original size:7 final size:7
Alignment explanation
Indices: 2905346--2905690 Score: 311
Period size: 7 Copynumber: 48.1 Consensus size: 7
2905336 GTATAACAAA
2905346 ATAATAT
1 ATAATAT
2905353 ATAATAAT
1 ATAAT-AT
*
2905361 AGTAATTT
1 A-TAATAT
*
2905369 ATAATAA
1 ATAATAT
2905376 ATAATAT
1 ATAATAT
2905383 AT-ATAT
1 ATAATAT
*
2905389 ATATACAT
1 ATA-ATAT
2905397 ATAATGAT
1 ATAAT-AT
2905405 AT-ATAT
1 ATAATAT
2905411 ATAATGAT
1 ATAAT-AT
*
2905419 ATTATAT
1 ATAATAT
2905426 AT-ATAT
1 ATAATAT
2905432 AT-ATAT
1 ATAATAT
2905438 ATACCATAT
1 ATA--ATAT
2905447 -TACACTAT
1 ATA-A-TAT
2905455 ATAATAT
1 ATAATAT
2905462 ATAATAT
1 ATAATAT
2905469 ATAATAT
1 ATAATAT
2905476 ATAATAT
1 ATAATAT
2905483 ATAATAT
1 ATAATAT
2905490 ATAATAT
1 ATAATAT
2905497 ATAATAT
1 ATAATAT
2905504 ATAATAT
1 ATAATAT
2905511 ATAA-AT
1 ATAATAT
*
2905517 ATACTAT
1 ATAATAT
*
2905524 ATCATAT
1 ATAATAT
*
2905531 ATAATGT
1 ATAATAT
2905538 ATAAATAT
1 AT-AATAT
2905546 ATAATAAT
1 ATAAT-AT
2905554 ATAATAT
1 ATAATAT
2905561 ATATATAT
1 ATA-ATAT
2905569 ATATACTAT
1 ATA-A-TAT
2905578 ATAA-AT
1 ATAATAT
*
2905584 ATACTAT
1 ATAATAT
2905591 AT-A-AT
1 ATAATAT
2905596 ATAATAT
1 ATAATAT
2905603 A-AATAT
1 ATAATAT
2905609 ATAATCAT
1 ATAAT-AT
2905617 ATAATAT
1 ATAATAT
*
2905624 GT-ATAT
1 ATAATAT
2905630 ACTATATAAT
1 A-TA-AT-AT
2905640 ATAA-AT
1 ATAATAT
*
2905646 ATACTAT
1 ATAATAT
2905653 A-AGATAT
1 ATA-ATAT
2905660 ATAATAT
1 ATAATAT
*
2905667 ATAAATTT
1 AT-AATAT
2905675 ATAATAAT
1 ATAAT-AT
2905683 ATAATAT
1 ATAATAT
2905690 A
1 A
2905691 CTATATAAAA
Statistics
Matches: 286, Mismatches: 21, Indels: 62
0.78 0.06 0.17
Matches are distributed among these distances:
5 4 0.01
6 49 0.17
7 139 0.49
8 71 0.25
9 20 0.07
10 3 0.01
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:2905386 original size:2 final size:2
Alignment explanation
Indices: 2905379--2905697 Score: 231
Period size: 2 Copynumber: 166.5 Consensus size: 2
2905369 ATAATAAATA
*
2905379 AT AT AT AT AT AT AT AC AT AT A- AT GAT AT AT AT AT A- AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT -AT AT
* *
2905421 -T AT AT AT AT AT AT AT AT AT ACC AT AT -T AC ACT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT
2905462 AT A- AT AT AT A- AT AT AT A- AT AT AT A- AT AT AT A- 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
* *
2905499 A- AT AT AT A- AT AT AT AA AT AT ACT AT AT CAT AT AT A- AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT
*
2905540 AA AT AT AT A- AT A- AT AT A- AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* *
2905580 AA AT AT ACT AT AT A- AT AT A- AT AT AA AT AT AT A- AT CAT AT A-
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* * *
2905620 AT AT GT AT AT ACT AT AT A- AT AT AA AT AT ACT AT A- AG AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
2905662 A- AT AT AT AA AT TT AT A- AT A- AT AT A- AT AT ACT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A
2905698 AAAAGGGTCG
Statistics
Matches: 254, Mismatches: 25, Indels: 76
0.72 0.07 0.21
Matches are distributed among these distances:
1 26 0.10
2 206 0.81
3 22 0.09
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2905651 original size:129 final size:124
Alignment explanation
Indices: 2905346--2905697 Score: 400
Period size: 129 Copynumber: 2.8 Consensus size: 124
2905336 GTATAACAAA
* * * *
2905346 ATAATATATAATAATAGTAATTTATAATAAATA-ATATATATATATATACATATAATGATATATA
1 ATAATATATAAT-ATA-TAATATATAATATATATATATATATA-ATATAAATATACT-ATATATA
* *
2905410 TATAATG-AT-ATTATAT-AT-ATAT-ATATATATACCATATTACACTATATAATATATAATAT
62 TATAATGTATAAATATATAATAATATAATATATATA-TATATTACACTATATAATATATAATAT
2905469 ATAATATATAATATATAATATATAATATATA-ATATATA-ATATATAAATATACTATATCATATA
1 ATAATATATAATATATAATATATAATATATATATATATATA-ATATAAATATACTATAT-ATATA
*
2905532 TAATGTATAAATATATAATAATATAATATATATATATA-TATACTATATAAATATACTATATAAT
64 TAATGTATAAATATATAATAATATAATATATATATATATTACACTATAT-AATATA-TA-AT-AT
* *
2905596 ATAATATA-AATATATAATCATATAATATGTATATACTATATAATATAAATATACTATAAGATAT
1 ATAATATATAATATATAAT-ATATAATATATATATA-TATATAATATAAATATACTAT-ATATAT
* *
2905660 ATAATATATAAATTTATAATAATATAATATACTATATA
63 ATAATGTATAAATATATAATAATATAATATA-TATATA
2905698 AAAAGGGTCG
Statistics
Matches: 202, Mismatches: 11, Indels: 25
0.85 0.05 0.11
Matches are distributed among these distances:
119 4 0.02
120 23 0.11
121 23 0.11
122 9 0.04
123 23 0.11
124 13 0.06
125 11 0.05
126 12 0.06
127 21 0.10
128 3 0.01
129 52 0.26
130 8 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (124 bp):
ATAATATATAATATATAATATATAATATATATATATATATAATATAAATATACTATATATATATA
ATGTATAAATATATAATAATATAATATATATATATATTACACTATATAATATATAATAT
Found at i:2911535 original size:55 final size:55
Alignment explanation
Indices: 2911082--2911522 Score: 490
Period size: 55 Copynumber: 8.0 Consensus size: 55
2911072 TGAAATCCTT
* ** * ** * * *
2911082 GGGTTGCACATATAGTGCTGATACGGTCATTCACAAACTCATTGTGAATTACGT-
1 GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
* * * * * *
2911136 AGATTGCACACATAATACCCATACATAAAATTCATAAACTCATTATGAATTTCGTG
1 GGGTTGCACACATAGTGCCAATACA-GAAATTCATAAACTCATTATGAATTTCGTG
* * * *
2911192 GGATTGCACACATAGTACTAATACAGAAATTCATAAAATCATTATGAATTTCGTG
1 GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
* * * * *
2911247 GGGTTGTACACATAGTGTCAATACATAAATTCATAAACTTATTATGAATTTTGTG
1 GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
* * * *
2911302 GGGTTTCACACATAATGCCAATAC-GTAAATTTATAAACTCATTATGAATTTTGTG
1 GGGTTGCACACATAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTCGTG
* * * *
2911357 GGGCTGCACACATAGTGCCGATACGGAAATTCATAAACTCATTATGAATTTCATG
1 GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
** * * *
2911412 GATTTGCACGCATAGTGCCAATACAGAAATTCATAAACTCATTATAAATTTCGTT
1 GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
* * *
2911467 GGGTTGCACACATAGTGCCAAAACAAAAATTCATATACTCATTATGAATTTCGTG
1 GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
2911522 G
1 G
2911523 AGTTACATAC
Statistics
Matches: 323, Mismatches: 60, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
54 17 0.05
55 284 0.88
56 22 0.07
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (55 bp):
GGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTG
Found at i:2911859 original size:20 final size:19
Alignment explanation
Indices: 2911834--2911904 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
2911824 AGACTGAATA
2911834 GTATCGATACGCCTCTTTTG
1 GTATCGATAC-CCTCTTTTG
*
2911854 GTATCGATACTTCTCTTCTATG
1 GTATCGATAC-CCTCTT-T-TG
* * *
2911876 GTATTGATACCCAC-TTCG
1 GTATCGATACCCTCTTTTG
2911894 GTATCGATACC
1 GTATCGATACC
2911905 ATTCTAGCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 11 0.26
19 1 0.02
20 16 0.38
21 3 0.07
22 11 0.26
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (19 bp):
GTATCGATACCCTCTTTTG
Found at i:2912000 original size:21 final size:19
Alignment explanation
Indices: 2911974--2912018 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 19
2911964 GATACCTCTA
2911974 CATCAGTATCGATACTACTT
1 CATCAGTATCGATACTA-TT
2911994 GCATCAGTATCGATACTATT
1 -CATCAGTATCGATACTATT
2912014 CATCA
1 CATCA
2912019 TGTTCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 17 0.71
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (19 bp):
CATCAGTATCGATACTATT
Found at i:2915619 original size:176 final size:175
Alignment explanation
Indices: 2915325--2915676 Score: 670
Period size: 176 Copynumber: 2.0 Consensus size: 175
2915315 TTTTCTGGAT
2915325 CCATTGAAAATTCTCGAGTAGTTGAAACATTTCCCTCTCAACTAAGAAAGTCTAAATATGCACAT
1 CCATTGAAAATTCTCGAGTAGTTGAAACATTTCCCTCTCAACTAAGAAAGTCTAAATATGCACAT
2915390 CATTTAATAAGAAAACCTGACAATTTTGTAGTAATAACTTCATAGCAGTTAATGCTAAAATTACA
66 CATTTAATAAGAAAACCTGACAATTTTGTAGTAATAACTTCATAGCAGTTAATGCTAAAATTACA
2915455 GTAGTAGACAAATTTACTTTTTTTTCCTATCATTACGAAATTGACA
131 GTAGTAGACAAATTTAC-TTTTTTTCCTATCATTACGAAATTGACA
2915501 CCATTGAAAATT-TCGAGTAGTTGAAACATTTTCCCTCTCAACTAAGAAAGTCTAAATATGCACA
1 CCATTGAAAATTCTCGAGTAGTTGAAACA-TTTCCCTCTCAACTAAGAAAGTCTAAATATGCACA
2915565 TCATTTAATAAGAAAACCTGACAATTTTGTAGTAATAACTTCATAGCAGTTAATGCTAAAATTAC
65 TCATTTAATAAGAAAACCTGACAATTTTGTAGTAATAACTTCATAGCAGTTAATGCTAAAATTAC
*
2915630 AGTAGTAGACAAATTTACTTTTTTTCCTATCATTACGAACTTGACA
130 AGTAGTAGACAAATTTACTTTTTTTCCTATCATTACGAAATTGACA
2915676 C
1 C
2915677 TTTTCAAGTC
Statistics
Matches: 174, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
175 44 0.25
176 130 0.75
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (175 bp):
CCATTGAAAATTCTCGAGTAGTTGAAACATTTCCCTCTCAACTAAGAAAGTCTAAATATGCACAT
CATTTAATAAGAAAACCTGACAATTTTGTAGTAATAACTTCATAGCAGTTAATGCTAAAATTACA
GTAGTAGACAAATTTACTTTTTTTCCTATCATTACGAAATTGACA
Found at i:2917523 original size:55 final size:55
Alignment explanation
Indices: 2917089--2917506 Score: 516
Period size: 55 Copynumber: 7.6 Consensus size: 55
2917079 CACCTAAGTA
* * * * * * * * *
2917089 CCAATATGGAAATTCACAAACTCATTTTAAAATCCTTGGGG-TGCATATATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
** ** * * * * * *
2917143 CTGATACGGTCATTCACAAACTCATTGTGAATTACGT-AGGTTGAACACATAATG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
** * * * *
2917197 TAAATACGAAAATTCATAAATTCATTATGAATTTTGTGGGGTTTCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
*
2917252 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAATG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* *
2917307 CCAATACAGAAATTCATAAACTCATTATGAATTTCGTGGGGTTTCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* *
2917362 CCAATACGAAAATTCATAAATTCATTATGAATTTCGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* * *
2917417 CCAATACGGAAATTCATAAACTCATTATGAATTTCATGGAGTTGCATACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
*
2917472 CCAATATGGAAATTCATAAACTCATTATGAATTTC
1 CCAATACGGAAATTCATAAACTCATTATGAATTTC
2917507 ATAGAGTTAC
Statistics
Matches: 312, Mismatches: 50, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
53 2 0.01
54 62 0.20
55 248 0.79
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (55 bp):
CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
Found at i:2927537 original size:2 final size:2
Alignment explanation
Indices: 2927532--2927874 Score: 187
Period size: 2 Copynumber: 181.5 Consensus size: 2
2927522 TAACAAAATA
*
2927532 AT AT AT A- AT A- AT AGT A- AT AT AT A- AT AA AT A- AT AT -T AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2927569 AT AT AT AT AT AT AT AT AT AT CAT AT -T AT ACT AA AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A-T AT AT AT AT AT AT
* *
2927611 A- AT AT AT A- AT AT AT AA AT AT ACT AT AT CAT AT AT A- AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT
* *
2927652 -T A- AT AT A- AT AT AC AT A- AT AT AA AT AT ACT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT
2927692 AT A- AT AT AT AT ACT AT AT A- AT AT A- AT -T AT ACT AT A- AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
2927731 AT AG A- AT AT AT AA AT ACT AT AC A- AT AT AT ACT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
2927771 ACT AT AT AA AT AT AT AT A- AT CAT AT A- AT AT GT AT AT ACT TT
1 A-T AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT A-T AT
* * *
2927812 AT A- AT AT AA AT AT -T AT AT A- AG AT AT AT A- AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2927850 AT AT A- AT A- AT AT AT -T AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2927875 AAAAAGGTCG
Statistics
Matches: 266, Mismatches: 27, Indels: 96
0.68 0.07 0.25
Matches are distributed among these distances:
1 34 0.13
2 206 0.77
3 26 0.10
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2927578 original size:27 final size:26
Alignment explanation
Indices: 2927529--2927874 Score: 234
Period size: 25 Copynumber: 13.6 Consensus size: 26
2927519 GTATAACAAA
*
2927529 ATAATATATAATA-ATA-GTA-ATAT
1 ATAATATATAATATATATATATATAT
*
2927552 ATAATAAATAATAT-TATATATATAT
1 ATAATATATAATATATATATATATAT
*
2927577 AT-ATATAT-ATATCATAT-TATACTAA
1 ATAATATATAATAT-ATATATATA-TAT
*
2927602 ATAATATATAATATATAATATATAAAT
1 ATAATATATAATATAT-ATATATATAT
* * *
2927629 ATACTATATCATATATA-ATGTATTAAT
1 ATAATATATAATATATATATATA-T-AT
2927656 ATAATATACATAATATA-A-ATATACTAT
1 ATAATAT--ATAATATATATATATA-TAT
*
2927683 ATGATATAT-ATA-ATATATATACTAT
1 ATAATATATAATATATATATATA-TAT
*
2927708 ATAATATA-ATTATACTATA-ATATAT
1 ATAATATATAATATA-TATATATATAT
* *
2927733 AGAATATATAA-ATACTATACA-ATAT
1 ATAATATATAATATA-TATATATATAT
* *
2927758 ATACTATATAATAACTATATAAATATAT
1 ATAATATATAAT-A-TATATATATATAT
*
2927786 ATAATCATATAATATGTATATACT-T-T
1 ATAAT-ATATAATATATATATA-TATAT
*
2927812 ATAATATA-AATAT-TATATAAGATAT
1 ATAATATATAATATATATAT-ATATAT
2927837 ATAATATATAA-ATATATA-ATA-AT
1 ATAATATATAATATATATATATATAT
* *
2927860 ATATTATATTATATA
1 ATAATATATAATATA
2927875 AAAAAGGTCG
Statistics
Matches: 261, Mismatches: 29, Indels: 65
0.74 0.08 0.18
Matches are distributed among these distances:
23 35 0.13
24 27 0.10
25 82 0.31
26 27 0.10
27 54 0.21
28 22 0.08
29 14 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
ATAATATATAATATATATATATATAT
Found at i:2927636 original size:25 final size:24
Alignment explanation
Indices: 2927529--2927868 Score: 191
Period size: 27 Copynumber: 13.6 Consensus size: 24
2927519 GTATAACAAA
*
2927529 ATAATATATAATA-AT-AGTAATAT
1 ATAATATATAATATATAAAT-ATAT
* *
2927552 ATAATAAATAATAT-TATATATAT
1 ATAATATATAATATATAAATATAT
* *
2927575 AT-ATATATATATATCATATTATACTAA
1 ATAATATATA-ATAT-ATA-AATA-TAT
2927602 ATAATATATAATATAT-AATATAT
1 ATAATATATAATATATAAATATAT
*
2927625 A-AATATACTATATCATATATAATGTAT
1 ATAATATA-TA-AT-ATATA-AATATAT
* *
2927652 -TAATATA-ATATACATAATATAAAT
1 ATAATATATA-ATATATAA-ATATAT
* *
2927676 ATACTATATGATATATATAATATAT
1 ATAATATATAATATATA-AATATAT
* *
2927701 ATACTATAT-A-ATATAATTATACT
1 ATAATATATAATATATAAATATA-T
2927724 ATAATATATAGAATATATAAATACTAT
1 ATAATATAT--AATATATAAATA-TAT
* *
2927751 ACAATATATACTATATAATAACTATAT
1 ATAATATATA--ATAT-ATAAATATAT
* *
2927778 AAATATATATAATCATATAATATGTAT
1 ATA-ATATATAAT-ATATAA-ATATAT
* *
2927805 ATACTTTAT-A-ATATAAATATTAT
1 ATAATATATAATATATAAATA-TAT
2927828 ATAAGATATATAATATATAAATATAT
1 AT-A-ATATATAATATATAAATATAT
*
2927854 AATAATATATTATAT
1 -ATAATATATAATAT
2927869 TATATAAAAA
Statistics
Matches: 251, Mismatches: 30, Indels: 70
0.72 0.09 0.20
Matches are distributed among these distances:
22 19 0.08
23 54 0.22
24 16 0.06
25 52 0.21
26 23 0.09
27 65 0.26
28 22 0.09
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAATATATAATATATAAATATAT
Found at i:2928944 original size:21 final size:21
Alignment explanation
Indices: 2928918--2928973 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
2928908 AATTTTTAAA
*
2928918 TTATATATTATAGTTAAATAT-
1 TTATATATTA-AATTAAATATG
*
2928939 TTATATTTTAAATTAAATATG
1 TTATATATTAAATTAAATATG
2928960 TTATA-ATT-AATTAA
1 TTATATATTAAATTAA
2928974 TTAATTAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 6 0.19
20 11 0.35
21 14 0.45
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TTATATATTAAATTAAATATG
Found at i:2929244 original size:121 final size:121
Alignment explanation
Indices: 2929106--2929347 Score: 484
Period size: 121 Copynumber: 2.0 Consensus size: 121
2929096 CTTTTGAGAG
2929106 TATAAAATAAACACATCAATAGTCTTATGCCAAGTGAACTGGTATAAAATTTTGATAATTTATTT
1 TATAAAATAAACACATCAATAGTCTTATGCCAAGTGAACTGGTATAAAATTTTGATAATTTATTT
2929171 ATTTATTAAGAAATAAATTATATAGTTTTATGTCTCACATCATTTTATTTGTTGTT
66 ATTTATTAAGAAATAAATTATATAGTTTTATGTCTCACATCATTTTATTTGTTGTT
2929227 TATAAAATAAACACATCAATAGTCTTATGCCAAGTGAACTGGTATAAAATTTTGATAATTTATTT
1 TATAAAATAAACACATCAATAGTCTTATGCCAAGTGAACTGGTATAAAATTTTGATAATTTATTT
2929292 ATTTATTAAGAAATAAATTATATAGTTTTATGTCTCACATCATTTTATTTGTTGTT
66 ATTTATTAAGAAATAAATTATATAGTTTTATGTCTCACATCATTTTATTTGTTGTT
2929348 GTTTGTATTC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (121 bp):
TATAAAATAAACACATCAATAGTCTTATGCCAAGTGAACTGGTATAAAATTTTGATAATTTATTT
ATTTATTAAGAAATAAATTATATAGTTTTATGTCTCACATCATTTTATTTGTTGTT
Found at i:2931455 original size:18 final size:19
Alignment explanation
Indices: 2931420--2931456 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2931410 CACGGAATGT
2931420 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2931440 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2931457 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2937620 original size:29 final size:30
Alignment explanation
Indices: 2937575--2937637 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
2937565 AGATTTTGTT
* *
2937575 ATATTTTGAGAAATAAAAACGTGAA-TACA
1 ATATTTTGAAAAATAAAAACCTGAACTACA
*
2937604 ATATTTT-AAAAATTAAAAACCTTAACTACA
1 ATATTTTGAAAAA-TAAAAACCTGAACTACA
2937634 ATAT
1 ATAT
2937638 CTATGTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.14
29 17 0.59
30 8 0.28
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (30 bp):
ATATTTTGAAAAATAAAAACCTGAACTACA
Found at i:2938204 original size:2 final size:2
Alignment explanation
Indices: 2938197--2938340 Score: 120
Period size: 2 Copynumber: 74.0 Consensus size: 2
2938187 ACATAATTAC
* * * * *
2938197 AT AT AT AT CT AT AT GT AT A- AT AT AA AT A- AA AGT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
2938238 AT AT AT AC AT GT AT A- 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
* * *
2938279 AT AT AT AT AT AT AT AT AT AT -T AC AC AT AT A- AGT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
2938320 AT AT AT AC AT GT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2938341 GTATGTGTAT
Statistics
Matches: 113, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
1 6 0.05
2 105 0.93
3 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2938372 original size:14 final size:14
Alignment explanation
Indices: 2938353--2938379 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2938343 ATGTGTATGT
2938353 GTGCGCGTATGCGC
1 GTGCGCGTATGCGC
2938367 GTGCGCGTATGCG
1 GTGCGCGTATGCG
2938380 TGTGTGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.26, G:0.44, T:0.22
Consensus pattern (14 bp):
GTGCGCGTATGCGC
Found at i:2938446 original size:16 final size:16
Alignment explanation
Indices: 2938425--2938466 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2938415 TCATGTGCGT
2938425 GCGCGTGTGTGTGTGC
1 GCGCGTGTGTGTGTGC
* *
2938441 GTGCGTGTCTGTGTGC
1 GCGCGTGTGTGTGTGC
2938457 GCGCGTGTGT
1 GCGCGTGTGT
2938467 ATACTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.48, T:0.33
Consensus pattern (16 bp):
GCGCGTGTGTGTGTGC
Found at i:2938453 original size:18 final size:18
Alignment explanation
Indices: 2938418--2938455 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2938408 TACGTGTTCA
*
2938418 TGTGCGTGCGCGTGTGTG
1 TGTGCGTGCGCGTCTGTG
*
2938436 TGTGCGTGCGTGTCTGTG
1 TGTGCGTGCGCGTCTGTG
2938454 TG
1 TG
2938456 CGCGCGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.47, T:0.37
Consensus pattern (18 bp):
TGTGCGTGCGCGTCTGTG
Found at i:2938466 original size:18 final size:17
Alignment explanation
Indices: 2938418--2938457 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2938408 TACGTGTTCA
*
2938418 TGTGCGTGCGCGTGTGTG
1 TGTGCGTGCG-GTGTCTG
2938436 TGTGCGTGC-GTGTCTG
1 TGTGCGTGCGGTGTCTG
2938452 TGTGCG
1 TGTGCG
2938458 CGCGTGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.00, C:0.17, G:0.47, T:0.35
Consensus pattern (17 bp):
TGTGCGTGCGGTGTCTG
Found at i:2947654 original size:21 final size:21
Alignment explanation
Indices: 2947603--2947662 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
2947593 TCTCTTTCCA
* *
2947603 AAATGGATCGATCCATTTTTT
1 AAATGGATCGATCCCTTTTTG
* *
2947624 AAAAGAATCGATCCCTTTTTG
1 AAATGGATCGATCCCTTTTTG
* *
2947645 CAATGGATCGGTCCCTTT
1 AAATGGATCGATCCCTTT
2947663 AGGCCAAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (21 bp):
AAATGGATCGATCCCTTTTTG
Found at i:2950123 original size:19 final size:20
Alignment explanation
Indices: 2950093--2950150 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
2950083 TTTCACAATA
*
2950093 TTCTAGAACATTTTATAGTG
1 TTCTAGAACATTTTAGAGTG
*
2950113 TTCTA-AACATTCTAGAGTG
1 TTCTAGAACATTTTAGAGTG
*
2950132 TTCCAGAACATTTTAGAGT
1 TTCTAGAACATTTTAGAGT
2950151 ATTTTAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
TTCTAGAACATTTTAGAGTG
Found at i:2950180 original size:40 final size:39
Alignment explanation
Indices: 2950089--2950180 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
2950079 AACTTTTCAC
* *
2950089 AATATTCTAGAACATTTTATAGTGTTCTAAACATTCTAG
1 AATATTCTAGAACATTTTAGAGTATTCTAAACATTCTAG
* * * *
2950128 AGTGTTCCAGAACATTTTAGAGTATTTTAAGACATTCTAG
1 AATATTCTAGAACATTTTAGAGTATTCTAA-ACATTCTAG
2950168 AATATTCTAGAAC
1 AATATTCTAGAAC
2950181 CTTTAATAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 24 0.56
40 19 0.44
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (39 bp):
AATATTCTAGAACATTTTAGAGTATTCTAAACATTCTAG
Found at i:2951584 original size:35 final size:35
Alignment explanation
Indices: 2951543--2951622 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
2951533 AATACAAACA
*
2951543 TCAATTACATTTTAAACCCCAAAATCCAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
** *
2951578 TCAATTACATTCTAAACTTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
*
2951613 TTAATTACAT
1 TCAATTACAT
2951623 GCCCACCCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.34
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAAATCCAAAATACT
Found at i:2952072 original size:148 final size:147
Alignment explanation
Indices: 2951799--2952092 Score: 435
Period size: 148 Copynumber: 2.0 Consensus size: 147
2951789 AAATACTCAA
* ** *
2951799 TTCATTTTATAAAATAGTTGACTTGAATTTTTTTTATTTGAGTTTATAAAATTTAAATCAAATCG
1 TTCAATTTATAAAATAGTTGACTTGAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAATCA
* * ** * * *
2951864 AATTGAATTGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATAATTATCATATTATAATATT
66 AATTGAATCGAATTATCAAGTTTCTGATTAAATTTAATTATAAATAATTATAATACTATAATATT
2951929 ATTTGATTCTAATTTAG
131 ATTTGATTCTAATTTAG
* * *
2951946 TTCAATTTATAAAATAGTTGGCTTGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTT
1 TTCAATTTATAAAATAGTTGACTTG-AATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAATC
* *
2952011 AAATTGAATCGAATTATCAAGTTTTTGATTAAATTTAATTATAAATATTTATAATACTATAATAT
65 AAATTGAATCGAATTATCAAGTTTCTGATTAAATTTAATTATAAATAATTATAATACTATAATAT
2952076 TATTTGATTCTAATTTA
130 TATTTGATTCTAATTTA
2952093 AATAGTTTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
147 23 0.18
148 107 0.82
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (147 bp):
TTCAATTTATAAAATAGTTGACTTGAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAATCA
AATTGAATCGAATTATCAAGTTTCTGATTAAATTTAATTATAAATAATTATAATACTATAATATT
ATTTGATTCTAATTTAG
Found at i:2952629 original size:36 final size:35
Alignment explanation
Indices: 2952589--2952669 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
2952579 GGGGTTGGGC
* * *
2952589 ATGTAATTGAAGTATTTTTGGAATTTGAGGTTTATA
1 ATGTAATTGAAGTA-CTTTAGAATTTGAGGTTTAGA
* *
2952625 ATGTAATTAAAGTACTTTAGAATTTGGGGTTTAGA
1 ATGTAATTGAAGTACTTTAGAATTTGAGGTTTAGA
2952660 ATGTAATTGA
1 ATGTAATTGA
2952670 TAAATGTGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 26 0.67
36 13 0.33
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.43
Consensus pattern (35 bp):
ATGTAATTGAAGTACTTTAGAATTTGAGGTTTAGA
Found at i:2953539 original size:2 final size:2
Alignment explanation
Indices: 2953532--2953562 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2953522 GATAGGTAGA
2953532 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2953563 CAAACATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2957557 original size:54 final size:54
Alignment explanation
Indices: 2957470--2957591 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
2957460 CAGAACTCTT
*
2957470 ATATGTTTTAGAACATTCTCTACCCTGAGTGACTTTAAATTCCTCTTATAATCA
1 ATATGTTTTAGAACATTCTCTACCCTGAATGACTTTAAATTCCTCTTATAATCA
2957524 ATATGTTTTAGAACATTCTCTACCCTGAATGACTTTAAATTCCTCTTATAATCA
1 ATATGTTTTAGAACATTCTCTACCCTGAATGACTTTAAATTCCTCTTATAATCA
2957578 ATAT-TTTTCAGAAC
1 ATATGTTTT-AGAAC
2957592 TCTTATCTGG
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
53 4 0.06
54 62 0.94
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (54 bp):
ATATGTTTTAGAACATTCTCTACCCTGAATGACTTTAAATTCCTCTTATAATCA
Found at i:2964534 original size:62 final size:62
Alignment explanation
Indices: 2964458--2964584 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 62
2964448 CTTAGGCTAT
* * * *
2964458 TTATAGGAAATGGAATGGTTT-GGCTGAATAAGAGCATGTTGATTTGACAATCCCTTGTTTCC
1 TTATAGGAAATGGAATAGTTTAGTC-GAATAAGAACATGTTGATTTGACAAGCCCTTGTTTCC
* * *
2964520 TTATAGGAAATGGAATAGTTTAGTCGAATAGGAACTTGTTGATTTGACAAGCCCTTGTTTTC
1 TTATAGGAAATGGAATAGTTTAGTCGAATAAGAACATGTTGATTTGACAAGCCCTTGTTTCC
2964582 TTA
1 TTA
2964585 CATAAAGACG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 55 0.96
63 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (62 bp):
TTATAGGAAATGGAATAGTTTAGTCGAATAAGAACATGTTGATTTGACAAGCCCTTGTTTCC
Found at i:2971020 original size:30 final size:30
Alignment explanation
Indices: 2970981--2971044 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
2970971 CATACTTAGC
*
2970981 TCATATCATGCATATCATTATTTATCTAGA
1 TCATATCATGCATATCATTACTTATCTAGA
* * *
2971011 TCATCTCATGTATATCATTACTTATCTAGC
1 TCATATCATGCATATCATTACTTATCTAGA
2971041 TCAT
1 TCAT
2971045 TCTTAGCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (30 bp):
TCATATCATGCATATCATTACTTATCTAGA
Found at i:2972120 original size:20 final size:21
Alignment explanation
Indices: 2972078--2972122 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
2972068 GCTGAGAGTG
* *
2972078 TCGATACATATTCGTTGGGTA
1 TCGATACATATTAGTTGGATA
*
2972099 TCGATAC-TATTAGTTGTATA
1 TCGATACATATTAGTTGGATA
2972119 TCGA
1 TCGA
2972123 AACCACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (21 bp):
TCGATACATATTAGTTGGATA
Found at i:2974947 original size:20 final size:20
Alignment explanation
Indices: 2974898--2974947 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2974888 GGTTTTTAAG
*
2974898 TTGCAGTATCGATAATGTTC
1 TTGCAGTATCGATAATGTCC
* * *
2974918 TTGTAATATCGATATTGTCC
1 TTGCAGTATCGATAATGTCC
2974938 TTGCAGTATC
1 TTGCAGTATC
2974948 TATACTATGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCAGTATCGATAATGTCC
Found at i:2986556 original size:42 final size:41
Alignment explanation
Indices: 2986477--2986572 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 41
2986467 ACTTAGTAAG
* * *
2986477 TCCTTCGGGCCATCAGTAAGTCGTTCGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAGTAAATCGTTCAAGCAAGATGA-TAAA
* * * *
2986519 TCCTTTGGGTCATCTGTAAATCTTTCAAGCAAGATGATAAA
1 TCCTTCGGGCCATCAGTAAATCGTTCAAGCAAGATGATAAA
2986560 TCCTTCGGGCCAT
1 TCCTTCGGGCCAT
2986573 TCACATGACC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAATCGTTCAAGCAAGATGATAAA
Found at i:2986793 original size:239 final size:237
Alignment explanation
Indices: 2986374--2986945 Score: 756
Period size: 239 Copynumber: 2.4 Consensus size: 237
2986364 GATTTTTGAA
* * *
2986374 AAAAATGATAAAGCGATTTTCAAAG-TTCTCATTTAAATGTTTTCTGAAAATGAGATTTTTCAAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATGAGA--TTTCAAA
2986438 AAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCGTTC
64 AAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCGTTC
* * * *
2986503 GAGCATGATGATTAAATCCTTTGGGTCATCTGTAAATCTTTCAAGCAAGATGATAAATCCTTCGG
129 AAGCATGATGATTAAATCCTTCGGGTAATATGTAAATCTTTCAAGCAAGATGATAAATCCTTCGG
* * * * *
2986568 GCCATTCACATGACCTTTGGG-AGGGATGTTTTCACATGACTTTCG
194 GCCATCCACAAGACCTTCGGGCA-GGATATTGTCACATGA-TTTCG
* *
2986613 AAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAGATTTCCAAAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATGAGATTT-CAAAA
* * *
2986678 AGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTTGGGTCATCAGTAAGTCTTTCA
65 AGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCGTTCA
* * * *
2986743 AGCATGGTGATTAAATCCTTCGGGTAATATGTAAGTCTTTCAAGCAAGATGATAAGTCCTTTGGG
130 AGCATGATGATTAAATCCTTCGGGTAATATGTAAATCTTTCAAGCAAGATGATAAATCCTTCGGG
* * **
2986808 CCATCCATAAGACCTTCGGGCAGGATATTGTCACGTGATTTTT
195 CCATCCACAAGACCTTCGGGCAGGATATTGTCACATGATTTCG
* * * * **
2986851 AAAATATAAGAAAGCGATTTCCAAAGTTTCTCATTT-AGTATTTT-TAAAAAGTGAAATATTTGA
1 AAAA-ATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAA-TGAGAT-TTCAA
*
2986914 AAAGTAAGAAAGCGATTTCCAAAGTTTCTTAC
63 AAAGTAAGAAAACGATTTCCAAAGTTTCTTAC
2986946 CCAATAAACT
Statistics
Matches: 294, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
237 5 0.02
238 53 0.18
239 206 0.70
240 30 0.10
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (237 bp):
AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATGAGATTTCAAAAA
GTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCGTTCAA
GCATGATGATTAAATCCTTCGGGTAATATGTAAATCTTTCAAGCAAGATGATAAATCCTTCGGGC
CATCCACAAGACCTTCGGGCAGGATATTGTCACATGATTTCG
Found at i:2987221 original size:214 final size:216
Alignment explanation
Indices: 2986773--2987243 Score: 538
Period size: 214 Copynumber: 2.2 Consensus size: 216
2986763 CGGGTAATAT
* * *
2986773 GTAAGTCTTTCAAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTCGGGCAGGATATTG
1 GTAAGTCTTTCAAGCATGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGACAGGATATTG
* * *
2986838 TCACGTGATTTTTAAAATATAAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAAAAAGT
66 TCACATGATTTTTAAAATATAAGAAAGCAATTTCCAAAGTTTCTCATTTAATATTTTTAAAAAGT
* ** * * *
2986903 GAAATATTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATC
131 GAAATACTAAAAAACTAAGAAAACGATTTCAAAAGTTTCTTACCCAATAAACTATTTCCAAAATC
* *
2986968 GGTAAGTCCTTAAAGTCATGA
196 GGTAAGTCCTTAAAGCCATCA
* * * *
2986989 GTAAGCCTTTCAAGCATGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGACATGATGTTT
1 GTAAGTCTTTCAAGCATGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGACAGGATATTG
* * * * *
2987054 TCACATGATTTTTGAAAA-A-GAGAATGCAATTTCCAAAGTTTCTGATTTAAATCTTTTCTGAAA
66 TCACATGATTTTT-AAAATATAAGAAAGCAATTTCCAAAGTTTCTCATTT-AATATTTT-TAAAA
* * * * *
2987117 A-T-TAGT-CTAAAAAACTAAGAAAATGATTTCAAAAGTTTCTTATCCAGTAAACTATTTCCAAA
128 AGTGAAATACTAAAAAACTAAGAAAACGATTTCAAAAGTTTCTTACCCAATAAACTATTTCCAAA
* * ***
2987179 ATTGGTAAGTTCTTCGGGCCATCA
193 ATCGGTAAGTCCTTAAAGCCATCA
* * * *
2987203 GTAAGTCTTTCGAGCATGATGATTAAATGCTTCGGGTCATC
1 GTAAGTCTTTCAAGCATGATGA-TAAGTCCTTCGGGCCATC
2987244 TGTCAGTCTT
Statistics
Matches: 213, Mismatches: 38, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
214 84 0.39
215 42 0.20
216 78 0.37
217 9 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (216 bp):
GTAAGTCTTTCAAGCATGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGACAGGATATTG
TCACATGATTTTTAAAATATAAGAAAGCAATTTCCAAAGTTTCTCATTTAATATTTTTAAAAAGT
GAAATACTAAAAAACTAAGAAAACGATTTCAAAAGTTTCTTACCCAATAAACTATTTCCAAAATC
GGTAAGTCCTTAAAGCCATCA
Found at i:2987237 original size:42 final size:40
Alignment explanation
Indices: 2987189--2987284 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 40
2987179 ATTGGTAAGT
2987189 TCTTCGGGCCATCAGTAAGTCTTTCGAGC-ATGATGATTAAA
1 TCTTCGGGCCATCAGTAAGTCTTTCGAGCTA-GATGA-TAAA
* * * *
2987230 TGCTTCGGGTCATCTGTCAGTCTTTCGAGCTAGATGATAAG
1 T-CTTCGGGCCATCAGTAAGTCTTTCGAGCTAGATGATAAA
2987271 TCTTTCGGGCCATC
1 TC-TTCGGGCCATC
2987285 TATAAGACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
40 1 0.02
41 15 0.32
42 30 0.64
43 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (40 bp):
TCTTCGGGCCATCAGTAAGTCTTTCGAGCTAGATGATAAA
Found at i:2987427 original size:15 final size:15
Alignment explanation
Indices: 2987392--2987428 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2987382 AAAGAAAAAT
*
2987392 AAAAAAAGAAGGAAG
1 AAAAAGAGAAGGAAG
2987407 AAAAAGAGAAGGAAG
1 AAAAAGAGAAGGAAG
2987422 AAAAAGA
1 AAAAAGA
2987429 AATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAGGAAG
Found at i:2994525 original size:18 final size:18
Alignment explanation
Indices: 2994489--2994526 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2994479 TCAATTTATT
*
2994489 ATTTTAATTAAAATTAAA
1 ATTTTAATTAAAATCAAA
2994507 ATTTT-ATTAAAATGCAAA
1 ATTTTAATTAAAAT-CAAA
2994525 AT
1 AT
2994527 ACGTTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTTTAATTAAAATCAAA
Found at i:2997128 original size:20 final size:20
Alignment explanation
Indices: 2997103--2997152 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2997093 TCACGTAGTC
2997103 GACACTCGAGTCCCAATTTT
1 GACACTCGAGTCCCAATTTT
2997123 GACACTCGAGTCCCAATTTT
1 GACACTCGAGTCCCAATTTT
2997143 GACACTCGAG
1 GACACTCGAG
2997153 GTATCTGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (20 bp):
GACACTCGAGTCCCAATTTT
Found at i:3002697 original size:32 final size:32
Alignment explanation
Indices: 3002658--3002876 Score: 170
Period size: 32 Copynumber: 6.8 Consensus size: 32
3002648 ATACTAGTAA
* *
3002658 AGTGTTGCATTTAGATAATGCACAACAGTGTC
1 AGTGTTGCATTCAGATAATGCACAACAGTGTT
* * ** **
3002690 AATGTTGCATTTAGATAACACACAGTAGTGTT
1 AGTGTTGCATTCAGATAATGCACAACAGTGTT
* * *
3002722 AGTGTTGTATTCAAATAATGCACATA-AATGTT
1 AGTGTTGCATTCAGATAATGCACA-ACAGTGTT
* * *
3002754 AGTGATACATTCAGATAATGCATAACAGTGTT
1 AGTGTTGCATTCAGATAATGCACAACAGTGTT
* * * *
3002786 AGTGTTGCAATAAGATAATGTACAACGGTGTT
1 AGTGTTGCATTCAGATAATGCACAACAGTGTT
** * * * *
3002818 AGTGTCACATTCAGATATTTCACAATAGTGTC
1 AGTGTTGCATTCAGATAATGCACAACAGTGTT
* * * *
3002850 AGGGTTACATTTAGATAATGCATAACA
1 AGTGTTGCATTCAGATAATGCACAACA
3002877 ATTACAGTTA
Statistics
Matches: 141, Mismatches: 44, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
31 1 0.01
32 140 0.99
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (32 bp):
AGTGTTGCATTCAGATAATGCACAACAGTGTT
Found at i:3003557 original size:45 final size:45
Alignment explanation
Indices: 3003498--3003618 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
3003488 TTATAGCATA
* * *
3003498 CTTTTATGCTGATAATGCACCTATATACATT-TCAACTAGTGAATC
1 CTTTCATGCCGATAATGCACCAATATACATTATCAACTAG-GAATC
* * ** * *
3003543 CTTTCATGCCGATAATGCACCCATATACATTATTATTTTGGAATT
1 CTTTCATGCCGATAATGCACCAATATACATTATCAACTAGGAATC
*
3003588 CTTTCATGCCGATAATGCACCAATATGCATT
1 CTTTCATGCCGATAATGCACCAATATACATT
3003619 GCTATTTTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 61 0.94
46 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (45 bp):
CTTTCATGCCGATAATGCACCAATATACATTATCAACTAGGAATC
Found at i:3003647 original size:46 final size:46
Alignment explanation
Indices: 3003542--3003855 Score: 375
Period size: 46 Copynumber: 6.8 Consensus size: 46
3003532 ACTAGTGAAT
*
3003542 CCTTTCATGCCGATAATGCACCCATATACATTATTA-TTTTGG-AA
1 CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCAA
* * ** *
3003586 TTCTTTCATGCCGATAATGCACCAATATGCATTGCTATTTTTGGTAA
1 -CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCAA
** *
3003633 AATTTCATGTCGATAATGCACCCATATGCATTATTATTTTTGG-AA
1 CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCAA
* * * * *
3003678 TCCTTTCATACCGATAATGCACCCATACGCTTTGTTATTTTTGGCAT
1 -CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCAA
* * *
3003725 CCTTTCATGCCGATAATGCATCCATATGTATTATTATTTTTGGCAT
1 CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCAA
* * *
3003771 CCTTTCAAGCCGATAATGCACCCATATGCGTTGTTATTTTTGGCATA
1 CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCA-A
**
3003818 -CTTTCATATCGATAATGCACCCATATGCATTATTATTT
1 CCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
3003856 GTTCATTCAT
Statistics
Matches: 228, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
45 33 0.14
46 192 0.84
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (46 bp):
CCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGCAA
Found at i:3003719 original size:92 final size:92
Alignment explanation
Indices: 3003543--3003855 Score: 441
Period size: 92 Copynumber: 3.4 Consensus size: 92
3003533 CTAGTGAATC
* * *
3003543 CTTTCATGCCGATAATGCACCCATATACATTATTA-TTTTGGAATTCTTTCATGCCGATAATGCA
1 CTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGAATCCTTTCATACCGATAATGCA
* * * *
3003607 CCAATATGCATTGCTATTTTTGGTAAA
66 CCCATATGCATTGTTATTTTTGGCATA
* *
3003634 ATTTCATGTCGATAATGCACCCATATGCATTATTATTTTTGGAATCCTTTCATACCGATAATGCA
1 CTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGAATCCTTTCATACCGATAATGCA
* * *
3003699 CCCATACGCTTTGTTATTTTTGGCATC
66 CCCATATGCATTGTTATTTTTGGCATA
* * *
3003726 CTTTCATGCCGATAATGCATCCATATGTATTATTATTTTTGGCATCCTTTCA-AGCCGATAATGC
1 CTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGAATCCTTTCATA-CCGATAATGC
*
3003790 ACCCATATGCGTTGTTATTTTTGGCATA
65 ACCCATATGCATTGTTATTTTTGGCATA
**
3003818 CTTTCATATCGATAATGCACCCATATGCATTATTATTT
1 CTTTCATGCCGATAATGCACCCATATGCATTATTATTT
3003856 GTTCATTCAT
Statistics
Matches: 196, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
91 33 0.17
92 163 0.83
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (92 bp):
CTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTGGAATCCTTTCATACCGATAATGCA
CCCATATGCATTGTTATTTTTGGCATA
Found at i:3004305 original size:22 final size:22
Alignment explanation
Indices: 3004263--3004316 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3004253 TGGCTCCTCA
3004263 GTATCGATAC--CCATACCATG
1 GTATCGATACTACCATACCATG
**
3004283 GTATCGATACTACCATATTATG
1 GTATCGATACTACCATACCATG
3004305 GTA-CTGATACTA
1 GTATC-GATACTA
3004317 TGCTATGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (22 bp):
GTATCGATACTACCATACCATG
Found at i:3010830 original size:46 final size:46
Alignment explanation
Indices: 3010469--3010831 Score: 496
Period size: 46 Copynumber: 7.9 Consensus size: 46
3010459 TTCAATTATA
* * * * * * * *
3010469 GCATACTTTTATGCTGATAATGCACTCATATTCATT-TCAATTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
* * * *
3010514 GCATCATTTCATGCCGATAATGTACCTATATGCATTATTA-TTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
* * *
3010559 GCATCCTTTCATGCCTATAATGCACCAATATGCATTGTTATTTTTT
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
3010605 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
* * *
3010651 GCATCTTTTCATGCCGATAATGTACCCATGTGCATTGTTATTTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
*
3010697 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
* * *
3010743 GTATCATTTCATGCTGATAATGCACCCATATGCATTGTTATTTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
* *
3010789 GCATCCTTTCATGTCGATAATGCACCCATATGCATTATTATTT
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTT
3010832 GTTAATTCAT
Statistics
Matches: 281, Mismatches: 35, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
45 67 0.24
46 214 0.76
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (46 bp):
GCATCCTTTCATGCCGATAATGCACCCATATGCATTGTTATTTTTG
Found at i:3011281 original size:22 final size:22
Alignment explanation
Indices: 3011239--3011292 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
3011229 TGGCTCCTCA
*
3011239 GTATCGATAC--CTATACCATG
1 GTATCGATACTACCATACCATG
*
3011259 GTATCGATACTACCATACTATG
1 GTATCGATACTACCATACCATG
*
3011281 GTACCGATACTA
1 GTATCGATACTA
3011293 TGTTATGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.34
22 19 0.66
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (22 bp):
GTATCGATACTACCATACCATG
Found at i:3014396 original size:11 final size:11
Alignment explanation
Indices: 3014382--3014406 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3014372 ACAAAAAAAA
3014382 GAAGTGCAAGT
1 GAAGTGCAAGT
3014393 GAAGTGCAAGT
1 GAAGTGCAAGT
3014404 GAA
1 GAA
3014407 AGAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:3014464 original size:23 final size:22
Alignment explanation
Indices: 3014427--3014475 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
3014417 AATCAGCAAT
*
3014427 GAAATTTAAGTACTCAAAAGAA
1 GAAATTTAAGCACTCAAAAGAA
*
3014449 GAAATTGTAAGCACTCAAAGGAA
1 GAAATT-TAAGCACTCAAAAGAA
3014472 GAAA
1 GAAA
3014476 AAGAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.18
Consensus pattern (22 bp):
GAAATTTAAGCACTCAAAAGAA
Found at i:3018261 original size:16 final size:18
Alignment explanation
Indices: 3018235--3018268 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
3018225 CCATATTTTG
3018235 ATACATAAAAAAT-AAAT
1 ATACATAAAAAATGAAAT
3018252 ATAC-TAAAAAATGAAAT
1 ATACATAAAAAATGAAAT
3018269 GCGAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
ATACATAAAAAATGAAAT
Found at i:3018570 original size:3 final size:3
Alignment explanation
Indices: 3018562--3018599 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3018552 CCTTTCTTTA
3018562 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3018600 CATCAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3020519 original size:16 final size:16
Alignment explanation
Indices: 3020478--3020513 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3020468 TCAAATATAC
3020478 ATTCCAATAATCTTTT
1 ATTCCAATAATCTTTT
3020494 ATTCCAATAATCTTTT
1 ATTCCAATAATCTTTT
3020510 ATTC
1 ATTC
3020514 ATATAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTCCAATAATCTTTT
Found at i:3020610 original size:18 final size:19
Alignment explanation
Indices: 3020587--3020630 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
3020577 CCAGTAATCC
*
3020587 TATTCC-CTAGTAATCTTT
1 TATTCCACTAGTAATCTTA
*
3020605 TATTCCCACTGGTAATCTTA
1 TATT-CCACTAGTAATCTTA
3020625 TATTCC
1 TATTCC
3020631 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTAGTAATCTTA
Found at i:3022162 original size:3 final size:3
Alignment explanation
Indices: 3022154--3022199 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
3022144 TATAAAATAT
3022154 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3022200 CATCATCATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3022843 original size:29 final size:28
Alignment explanation
Indices: 3022778--3022843 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
3022768 AAAAATTATT
* * *
3022778 TTCATATCTTAAAATTTTATAAATTCAAA
1 TTCAT-TCTTAAAATTTGAAAAATTAAAA
3022807 TTCAATTCTTAAAATTTGAAAAAGTTAAAA
1 TTC-ATTCTTAAAATTTGAAAAA-TTAAAA
3022837 TTCATTC
1 TTCATTC
3022844 CAGATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (28 bp):
TTCATTCTTAAAATTTGAAAAATTAAAA
Found at i:3023361 original size:19 final size:21
Alignment explanation
Indices: 3023337--3023376 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
3023327 TGTTTAAAGA
3023337 TATATTTTTTA-ATTT-TTAT
1 TATATTTTTTATATTTCTTAT
3023356 TATATTTTTTATATTTCTTAT
1 TATATTTTTTATATTTCTTAT
3023377 ACTCGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 4 0.21
21 4 0.21
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TATATTTTTTATATTTCTTAT
Found at i:3024333 original size:16 final size:17
Alignment explanation
Indices: 3024312--3024344 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3024302 ACACACTAAA
*
3024312 TCGATT-TCAGTTTTTT
1 TCGATTATCACTTTTTT
3024328 TCGATTATCACTTTTTT
1 TCGATTATCACTTTTTT
3024345 AAATCGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (17 bp):
TCGATTATCACTTTTTT
Found at i:3032497 original size:20 final size:21
Alignment explanation
Indices: 3032472--3032532 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
3032462 TTTTGGTGCA
*
3032472 GAGGGAATCGATTCCCCC-AT
1 GAGGGAACCGATTCCCCCTAT
*
3032492 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCTAT
3032513 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
3032533 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 17 0.47
21 2 0.06
22 1 0.03
23 16 0.44
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCTAT
Found at i:3032541 original size:21 final size:21
Alignment explanation
Indices: 3032515--3032554 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3032505 CCCCCTTTGA
*
3032515 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
3032536 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
3032555 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3037625 original size:855 final size:854
Alignment explanation
Indices: 3035971--3038209 Score: 3924
Period size: 855 Copynumber: 2.6 Consensus size: 854
3035961 TAACTCAACA
3035971 TAAACCACTAAGGATTAAAAAAAATAAATCTCGAAAAGTGGGGATTTCTTCACCAAATCAGAGAA
1 TAAACCACTAAGGATTAAAAAAAATAAATCTCGAAAAGTGGGGATTTCTTCACCAAATCAGAGAA
*
3036036 AAAATGGAATCCTACTCATTAGACTTTACCATCTTACCTAAGGAGAATAAATAAAAGGAGCATAA
66 AAAATGGAATCCTACTCATTAGACTTTATCATCTTACCTAAGGAGAATAAATAAAAGGAGCATAA
3036101 CAACGAGAGGTGGGAGGAGTCGAACGGGAAGAG-AAAAACAGATTGAAACAAGAGAAAAATCTTA
131 CAACGAGAGGTGGGAGGAGTCGAACGGGAAGAGAAAAAACAGATTGAAACAAGAGAAAAATCTTA
* *
3036165 GCAAAAATACATTGTAAACGCTCATATTCAAGATATAATAGGCTCCAAAGGTTACATATTATTCT
196 GCAAAAATACATTGTAAACGCTCATATTCAAGAAATAGTAGGCTCCAAAGGTTACATATTATTCT
3036230 TTTTTTTATGTTATGTTCGAATGTATGTGTTTTTTTCTGATCGGTTCACTTCTAATTCATCAAGA
261 TTTTTTT-TGTTATGTTCGAATGTATGTGTTTTTTTCTGATCGGTTCACTTCTAATTCATCAAGA
3036295 GATTATGTTTTTTTAGTTCGAATACATAACATTTTTTTCCTTGTGGAGCATAGTAACGATCCATA
325 GATTATGTTTTTTTAGTTCGAATACATAACA-TTTTTTCCTTGTGGAGCATAGTAACGATCCATA
*
3036360 TATATATTCGAAATAATAAATATAAAAAATAAATAAGTCTATAATTTACATGAGAAAGGAGGGGT
389 AATATATTCGAAATAATAAATATAAAAAATAAATAAGTCTATAATTTACATGAGAAAGGAGGGGT
*
3036425 CTCACTGGAGTTGGGGCTGACGGTTAGGTCATAGGGAAGGAGGCTGAATAGATTAAACGTTCTAG
454 CTCACTGGAGTTGGGGCTGACGGTTAGGTCATAGGGAAGGAGGCTGAATAGCTTAAACGTTCTAG
* * * *
3036490 GGTTCTTGCATGTAGGGTCGGCCCTGAGCCCAGGCGGGGAGTGCGACCGCCTAGGGCCCAGGTTT
519 GGTTCTTGCATGCAGGGCCGACCCTGAGCCCAGGCGGGGAGTGCGACCGCCTAGGGCCCAGATTT
3036555 GGAGGAACCCATTCTTAAAAATAATAATAATTTTATAATTTTTAAGTTTTAATAATTAAAAAATA
584 GGAGGAACCCATTCTTAAAAATAATAATAATTTTATAATTTTTAAGTTTTAATAATTAAAAAATA
3036620 TTTTTACATAATTTAACGAATAATTATATAGTTAATCTAATAATAAAAATAGATAAATGTAAGCA
649 TTTTTACATAATTTAACGAATAATTATATAGTTAATCTAATAATAAAAATAGATAAATGTAAGCA
* * *
3036685 CCATTTTTCTTATTTTATTCAACAGCCCATGACCCCACGTGAAGCACTTTCCCATTGCACATGCT
714 CCATTTTTCTTATTTTATTCAACAACCCATGACCCCACGTGAAACACTTTCCCATTACACATGCT
*
3036750 ACAACAACTCAGCTCCCACTTGAAGTCAAGCAACCCATACCTCCACCATTCCCATAATCCCACTC
779 ACAACAACTCAGCTCCCACTTGAAGCCAAGCAACCCATACCTCCACCATTCCCATAATCCCACTC
3036815 AAATTTTTACC
844 AAATTTTTACC
* * *
3036826 TAACCCACTAAGGATTATAAAAAATAAATCTCAAAAAGTGGGGATTTCTTCACCAAATCAGAGAA
1 TAAACCACTAAGGATTAAAAAAAATAAATCTCGAAAAGTGGGGATTTCTTCACCAAATCAGAGAA
3036891 AAAATGGAATCCTACTCATTAGACTTTATCATCTTACCTAAGGAGAATAAATAAAAGGAGCATAA
66 AAAATGGAATCCTACTCATTAGACTTTATCATCTTACCTAAGGAGAATAAATAAAAGGAGCATAA
*
3036956 CAACGAGAGGTGGGAGGAGTCGAACGGGAAGAGAAAAAACATATTGAAACAAGAGAAAAATCTTA
131 CAACGAGAGGTGGGAGGAGTCGAACGGGAAGAGAAAAAACAGATTGAAACAAGAGAAAAATCTTA
3037021 GCAAAAATACATTGTAAACGCTCATATTCAAGAAATAGTAGGCTCCAAAGGTTACATATTATTCT
196 GCAAAAATACATTGTAAACGCTCATATTCAAGAAATAGTAGGCTCCAAAGGTTACATATTATTCT
3037086 TTTTTTTTGTTATGTTCGAATGTATGTGTTTTTTTTCTGATCGGTTCACTTCTAATTCATCAAGA
261 TTTTTTTTGTTATGTTCGAATGTATGTG-TTTTTTTCTGATCGGTTCACTTCTAATTCATCAAGA
** * *
3037151 GATTATGTTTTTTTAGTTTAAATACATAATATTTTTTCCTTGTGGAGAATAGTAACGATCCATAA
325 GATTATGTTTTTTTAGTTCGAATACATAACATTTTTTCCTTGTGGAGCATAGTAACGATCCATAA
*
3037216 ATATATTCGAAATAATAAATATAAAAAATAAATAAGTCTATAATTTACCTGAGAAAGGAGGGGTC
390 ATATATTCGAAATAATAAATATAAAAAATAAATAAGTCTATAATTTACATGAGAAAGGAGGGGTC
* ** *
3037281 TCACTGGAGTTGGGGCCGACGGTTAGGTCATAGGGAAAAAGGCTGAATAGCTTAAACATTCTAGG
455 TCACTGGAGTTGGGGCTGACGGTTAGGTCATAGGGAAGGAGGCTGAATAGCTTAAACGTTCTAGG
3037346 GTTCTTGCATGCAGGGCCGACCCTGAGCCCAGGCGGGGAGTGCGACCGCCTAGGGCCCAGATTTG
520 GTTCTTGCATGCAGGGCCGACCCTGAGCCCAGGCGGGGAGTGCGACCGCCTAGGGCCCAGATTTG
3037411 GAGGAACCCATTCTTAAAAATAATAATAATTTTATAATTTTTAAGTTTTAATAATTAAAAAATAT
585 GAGGAACCCATTCTTAAAAATAATAATAATTTTATAATTTTTAAGTTTTAATAATTAAAAAATAT
3037476 TTTTACATAATTTAACGAATAATTATATAGTTAATCTAATAATAAAAATAGATAAATGTAAGCAC
650 TTTTACATAATTTAACGAATAATTATATAGTTAATCTAATAATAAAAATAGATAAATGTAAGCAC
*
3037541 CTTTTTTCTTATTTTATTCAACAACCCATGACCCCACGTGAAACACTTTCCCATTACACATGCTA
715 CATTTTTCTTATTTTATTCAACAACCCATGACCCCACGTGAAACACTTTCCCATTACACATGCTA
* * *
3037606 CAACAACTTAGCTCCCACTTGAAGCCAAGCATCCCATACCTCCACCATTTCCATAATCCCACTCA
780 CAACAACTCAGCTCCCACTTGAAGCCAAGCAACCCATACCTCCACCATTCCCATAATCCCACTCA
3037671 AATTTTTACC
845 AATTTTTACC
* *
3037681 TAAACCACTAAGGTTTAAAAATAAATAAATCTTGAAAAGTGGGGATTTCTTCACCAAATCAGAGA
1 TAAACCACTAAGGATTAAAAA-AAATAAATCTCGAAAAGTGGGGATTTCTTCACCAAATCAGAGA
* * *
3037746 AAAAATGGAATCGTACTCATTAGACCTTATCATTTTACCTAAGGAGAATAAATAAAAGGAGCATA
65 AAAAATGGAATCCTACTCATTAGACTTTATCATCTTACCTAAGGAGAATAAATAAAAGGAGCATA
* * *
3037811 ACAACGAGATGTGGGAGGAGTCGAACGGGAAGATAAAAAACAGATTGAAACAAG-GGAAAATCTT
130 ACAACGAGAGGTGGGAGGAGTCGAACGGGAAGAGAAAAAACAGATTGAAACAAGAGAAAAATCTT
* * * *
3037875 AGCAAAAATACATTGTAAACGCTCATATTCAAGAAATAGCAGACTCAAAATGTTACATATTATTC
195 AGCAAAAATACATTGTAAACGCTCATATTCAAGAAATAGTAGGCTCCAAAGGTTACATATTATTC
* * * * * *
3037940 TTTTTTTTTATTCTGTTCGAATGTATGTGTTTTTTTCTGATTGGTTTACTTCTATTTCATCGAGA
260 TTTTTTTTTGTTATGTTCGAATGTATGTGTTTTTTTCTGATCGGTTCACTTCTAATTCATCAAGA
* * *
3038005 GATTATGTTTTTTTAGTTCGAATACATAACATTTTTTCCTTGTCGAGCATAGTAACGATTCATAC
325 GATTATGTTTTTTTAGTTCGAATACATAACATTTTTTCCTTGTGGAGCATAGTAACGATCCATAA
* * *
3038070 ATATATTCAAAATAATAAATATAAAAAATAAATAAGCCTATAATTTACTTGAGAAAGGAGGGGTC
390 ATATATTCGAAATAATAAATATAAAAAATAAATAAGTCTATAATTTACATGAGAAAGGAGGGGTC
* *
3038135 TCACCGGAGTTGGGGCTGACGATTAGGTCATAGGGAAGGAGGCTGAATAGCTTAAACGTTCTAGG
455 TCACTGGAGTTGGGGCTGACGGTTAGGTCATAGGGAAGGAGGCTGAATAGCTTAAACGTTCTAGG
3038200 GTTCTTGCAT
520 GTTCTTGCAT
3038210 TTTGGTTTTA
Statistics
Matches: 1313, Mismatches: 68, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
854 221 0.17
855 774 0.59
856 318 0.24
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (854 bp):
TAAACCACTAAGGATTAAAAAAAATAAATCTCGAAAAGTGGGGATTTCTTCACCAAATCAGAGAA
AAAATGGAATCCTACTCATTAGACTTTATCATCTTACCTAAGGAGAATAAATAAAAGGAGCATAA
CAACGAGAGGTGGGAGGAGTCGAACGGGAAGAGAAAAAACAGATTGAAACAAGAGAAAAATCTTA
GCAAAAATACATTGTAAACGCTCATATTCAAGAAATAGTAGGCTCCAAAGGTTACATATTATTCT
TTTTTTTTGTTATGTTCGAATGTATGTGTTTTTTTCTGATCGGTTCACTTCTAATTCATCAAGAG
ATTATGTTTTTTTAGTTCGAATACATAACATTTTTTCCTTGTGGAGCATAGTAACGATCCATAAA
TATATTCGAAATAATAAATATAAAAAATAAATAAGTCTATAATTTACATGAGAAAGGAGGGGTCT
CACTGGAGTTGGGGCTGACGGTTAGGTCATAGGGAAGGAGGCTGAATAGCTTAAACGTTCTAGGG
TTCTTGCATGCAGGGCCGACCCTGAGCCCAGGCGGGGAGTGCGACCGCCTAGGGCCCAGATTTGG
AGGAACCCATTCTTAAAAATAATAATAATTTTATAATTTTTAAGTTTTAATAATTAAAAAATATT
TTTACATAATTTAACGAATAATTATATAGTTAATCTAATAATAAAAATAGATAAATGTAAGCACC
ATTTTTCTTATTTTATTCAACAACCCATGACCCCACGTGAAACACTTTCCCATTACACATGCTAC
AACAACTCAGCTCCCACTTGAAGCCAAGCAACCCATACCTCCACCATTCCCATAATCCCACTCAA
ATTTTTACC
Found at i:3040906 original size:77 final size:77
Alignment explanation
Indices: 3040779--3040934 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
3040769 CTGAAATTCT
*
3040779 TAAGTTTGTCAAATCTGCAGATTGTTATCCGAATGCTTCAATTTCTTATAGGATTTTATTAACTG
1 TAAGTTTGTCAAATCTGCAGATTGTTATCCGAATGCTTCAATTGCTTATAGGATTTTATTAACTG
3040844 TGCATGTGACCG
66 TGCATGTGACCG
3040856 TAAGTTTGTCAAATCTGCAGATTGTTATCCGAATGCTTCAATTGCTTATAGGATTTTATTAACTG
1 TAAGTTTGTCAAATCTGCAGATTGTTATCCGAATGCTTCAATTGCTTATAGGATTTTATTAACTG
* *
3040921 TGCCTTTGACCG
66 TGCATGTGACCG
3040933 TA
1 TA
3040935 GCTTCAGCCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (77 bp):
TAAGTTTGTCAAATCTGCAGATTGTTATCCGAATGCTTCAATTGCTTATAGGATTTTATTAACTG
TGCATGTGACCG
Found at i:3042645 original size:33 final size:33
Alignment explanation
Indices: 3042603--3042668 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
3042593 GCAAAGAAAC
3042603 ACTATGCAAATTTCATTAGTTCCAGCTCTCTCA
1 ACTATGCAAATTTCATTAGTTCCAGCTCTCTCA
3042636 ACTATGCAAATTTCATTAGTTCCAGCTCTCTCA
1 ACTATGCAAATTTCATTAGTTCCAGCTCTCTCA
3042669 TTTTTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (33 bp):
ACTATGCAAATTTCATTAGTTCCAGCTCTCTCA
Found at i:3043531 original size:21 final size:20
Alignment explanation
Indices: 3043505--3043575 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
3043495 CCTGTCATCA
*
3043505 TTCAAGAGGCCCCTCCCACAG
1 TTCAAGAGGCCCCTCTCAC-G
* *
3043526 TTCAAGAGGCCCCTGTTATCG
1 TTCAAGAGGCCCCTCTCA-CG
*
3043547 TTCAAGAGGTCCCTCTCACCG
1 TTCAAGAGGCCCCTCTCA-CG
3043568 TTCAAGAG
1 TTCAAGAG
3043576 CCCGATTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (20 bp):
TTCAAGAGGCCCCTCTCACG
Found at i:3043554 original size:42 final size:42
Alignment explanation
Indices: 3043495--3043575 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
3043485 ATACAATTCA
3043495 CCTGTCATCATTCAAGAGGCCCCTCCCACAGTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCCCCTCCCACAGTTCAAGAGGCC
* * * * *
3043537 CCTGTTATCGTTCAAGAGGTCCCTCTCACCGTTCAAGAG
1 CCTGTCATCATTCAAGAGGCCCCTCCCACAGTTCAAGAG
3043576 CCCGATTCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (42 bp):
CCTGTCATCATTCAAGAGGCCCCTCCCACAGTTCAAGAGGCC
Found at i:3046173 original size:54 final size:54
Alignment explanation
Indices: 3046114--3046241 Score: 166
Period size: 54 Copynumber: 2.4 Consensus size: 54
3046104 GGTTTTCGCA
* * *
3046114 TAAGGCGTTGGCACGACTTATTCATCCTGAGCTATCGCAAAAGAAGTCTGCAAT
1 TAAGGCGTGGGAACGACTTATTCATCCTGAGCTATCACAAAAGAAGTCTGCAAT
* ** * *
3046168 TAAGGCGTGGGAATGGTTTATTCATCCTGAGCTATCACAGAAGAAGTCTGCAGT
1 TAAGGCGTGGGAACGACTTATTCATCCTGAGCTATCACAAAAGAAGTCTGCAAT
* *
3046222 TAAGGCGTGGGGACGTCTTA
1 TAAGGCGTGGGAACGACTTA
3046242 CCAGCCCGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (54 bp):
TAAGGCGTGGGAACGACTTATTCATCCTGAGCTATCACAAAAGAAGTCTGCAAT
Found at i:3048132 original size:20 final size:20
Alignment explanation
Indices: 3048073--3048132 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
3048063 AGACCTGTTG
*
3048073 AAGTCAAATTCGTGTTGTGA
1 AAGTCAAATTCGTGTTGCGA
* **
3048093 AAGTAAAATTCG-GAACGCGA
1 AAGTCAAATTCGTG-TTGCGA
*
3048113 AAGTCAAATTTGTGTTGCGA
1 AAGTCAAATTCGTGTTGCGA
3048133 TTTTGATCTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (20 bp):
AAGTCAAATTCGTGTTGCGA
Found at i:3048164 original size:20 final size:20
Alignment explanation
Indices: 3048141--3048185 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3048131 GATTTTGATC
* *
3048141 TTCGCGTTGCGAATTTTACT
1 TTCGCGTTGCAAATTTGACT
*
3048161 TTCGCGTTTCAAATTTGACT
1 TTCGCGTTGCAAATTTGACT
3048181 TTCGC
1 TTCGC
3048186 AATAATCGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (20 bp):
TTCGCGTTGCAAATTTGACT
Found at i:3051508 original size:15 final size:15
Alignment explanation
Indices: 3051488--3051523 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3051478 GAAATCATTG
*
3051488 AAAAATTATATAGAA
1 AAAAATTATATAAAA
3051503 AAAAATTATATAAAA
1 AAAAATTATATAAAA
3051518 AAAAAT
1 AAAAAT
3051524 AGAGATAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:3051696 original size:18 final size:18
Alignment explanation
Indices: 3051656--3051701 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
3051646 CAAAACATTT
3051656 GTGTTGCGAAAATAAAAC
1 GTGTTGCGAAAATAAAAC
* * **
3051674 CTGTTGCGAAATTAATTC
1 GTGTTGCGAAAATAAAAC
3051692 GTGTTGCGAA
1 GTGTTGCGAA
3051702 TTCGAAAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAAATAAAAC
Found at i:3051719 original size:20 final size:20
Alignment explanation
Indices: 3051694--3051768 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
3051684 ATTAATTCGT
3051694 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
3051714 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
*
3051734 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTCGAAAATCGA
* *
3051754 GTTACGAATTTGAAA
1 GTTGCGAATTCGAAA
3051769 TTTAGTGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:3051901 original size:20 final size:21
Alignment explanation
Indices: 3051694--3051946 Score: 100
Period size: 20 Copynumber: 12.6 Consensus size: 21
3051684 ATTAATTCGT
* *
3051694 GTTGCGAA-TTCGAAAATCGA
1 GTTGCGAATTTGGAAAATCGC
* *
3051714 GTTGCGAA-TTCGAAAATCGA
1 GTTGCGAATTTGGAAAATCGC
** *
3051734 GTTGCGAA-TTCAAAAATCGA
1 GTTGCGAATTTGGAAAATCGC
* * * *
3051754 GTTACGAATTT-GAAATTTAGT
1 GTTGCGAATTTGGAAA-ATCGC
* *
3051775 GTTGCAAATTTGG-AAATAGC
1 GTTGCGAATTTGGAAAATCGC
** *
3051795 GTTGCGAATTT--AACTTCTGT
1 GTTGCGAATTTGGAAAATC-GC
* ** *
3051815 GTTGTGAA-TTACAAATTCGC
1 GTTGCGAATTTGGAAAATCGC
** * * *
3051835 GTTGCG-ATTTATATATTTGC
1 GTTGCGAATTTGGAAAATCGC
3051855 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTTGGAAAATCGC
* *
3051876 GTTGCGAATTTGGAAACT-GT
1 GTTGCGAATTTGGAAAATCGC
* ** *
3051896 GTTGCGAAATTGG-AGTTCGT
1 GTTGCGAATTTGGAAAATCGC
* *
3051916 GTTGCGAA-TTCG-AGATCGC
1 GTTGCGAATTTGGAAAATCGC
3051935 GTTGCGAATTTG
1 GTTGCGAATTTG
3051947 TTGGTTATTT
Statistics
Matches: 186, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
19 23 0.12
20 116 0.62
21 46 0.25
22 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (21 bp):
GTTGCGAATTTGGAAAATCGC
Found at i:3051938 original size:19 final size:19
Alignment explanation
Indices: 3051896--3051944 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
3051886 TGGAAACTGT
* * *
3051896 GTTGCGAAATTGGAGTTCGT
1 GTTGCG-AATTCGAGATCGC
3051916 GTTGCGAATTCGAGATCGC
1 GTTGCGAATTCGAGATCGC
3051935 GTTGCGAATT
1 GTTGCGAATT
3051945 TGTTGGTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.33
Consensus pattern (19 bp):
GTTGCGAATTCGAGATCGC
Found at i:3054152 original size:30 final size:30
Alignment explanation
Indices: 3054116--3054173 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3054106 ATGCCATTGG
*
3054116 AAGAGAATAAAAGTGTGCAAAGTGAAGTAA
1 AAGAGAATAAAAGTATGCAAAGTGAAGTAA
* **
3054146 AAGAGAATGAGTGTATGCAAAGTGAAGT
1 AAGAGAATAAAAGTATGCAAAGTGAAGT
3054174 TAATGCCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (30 bp):
AAGAGAATAAAAGTATGCAAAGTGAAGTAA
Found at i:3057309 original size:24 final size:24
Alignment explanation
Indices: 3057267--3057318 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3057257 GCAAAATCAA
*
3057267 CAACACCCTCACCAACATCAGCAT
1 CAACACCCTCAACAACATCAGCAT
* * *
3057291 CAACACCCTCAACACCATCTGTAT
1 CAACACCCTCAACAACATCAGCAT
3057315 CAAC
1 CAAC
3057319 CTCAACACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.44, G:0.04, T:0.15
Consensus pattern (24 bp):
CAACACCCTCAACAACATCAGCAT
Found at i:3059386 original size:49 final size:49
Alignment explanation
Indices: 3059331--3059534 Score: 196
Period size: 49 Copynumber: 4.2 Consensus size: 49
3059321 AATGCCTAAA
* *
3059331 GGTGCATTTTTTGTAGAAAGGTTCCACTAATGCAAGTTAGATGAAAAAT
1 GGTGCATTTTTGGTAGAAAGGTTCCACTAATGCAAGTTAAATGAAAAAT
* * * * * *** *
3059380 GATGCA-TCTTGGAAGAAATGTGCCACTAATGCAAGTTAAATGTGTAAG
1 GGTGCATTTTTGGTAGAAAGGTTCCACTAATGCAAGTTAAATGAAAAAT
* * *
3059428 GGTGCATTTTTGGTAGAAATGTGT-CACTAATGCAAGTTACATGACAAAT
1 GGTGCATTTTTGGTAGAAAGGT-TCCACTAATGCAAGTTAAATGAAAAAT
* * * * * *
3059477 GGTGCATTTTTTGGCAGAAAGGTCCCACGAATGCAAGTTAAATGCATAAC
1 GGTGCA-TTTTTGGTAGAAAGGTTCCACTAATGCAAGTTAAATGAAAAAT
3059527 GGTGCATT
1 GGTGCATT
3059535 ATCAGCATGA
Statistics
Matches: 122, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
48 37 0.30
49 46 0.38
50 39 0.32
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (49 bp):
GGTGCATTTTTGGTAGAAAGGTTCCACTAATGCAAGTTAAATGAAAAAT
Found at i:3059483 original size:97 final size:98
Alignment explanation
Indices: 3059310--3059534 Score: 274
Period size: 97 Copynumber: 2.3 Consensus size: 98
3059300 ACTGCTCTAA
* * * *
3059310 AATGAAAGTTAAATGCCTAAAGGTGCATTTTTTGTAGAAAGGTTCCACTAATGCAAGTTAGATGA
1 AATGCAAGTTAAATGCATAAAGGTGCATTTTTGGTAGAAAGGTTCCACTAATGCAAGTTACATGA
* * *
3059375 AAAATGATGCA-TCTTGGAAGAAATGTGCCACT
66 AAAATGATGCATTCTTGGAAGAAAGGTCCCACG
** * *
3059407 AATGCAAGTTAAATGTGTAAGGGTGCATTTTTGGTAGAAATGTGT-CACTAATGCAAGTTACATG
1 AATGCAAGTTAAATGCATAAAGGTGCATTTTTGGTAGAAAGGT-TCCACTAATGCAAGTTACATG
* * * *
3059471 ACAAATGGTGCATTTTTTGGCAGAAAGGTCCCACG
65 AAAAATGATGCA-TTCTTGGAAGAAAGGTCCCACG
*
3059506 AATGCAAGTTAAATGCATAACGGTGCATT
1 AATGCAAGTTAAATGCATAAAGGTGCATT
3059535 ATCAGCATGA
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
97 65 0.60
98 1 0.01
99 42 0.39
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (98 bp):
AATGCAAGTTAAATGCATAAAGGTGCATTTTTGGTAGAAAGGTTCCACTAATGCAAGTTACATGA
AAAATGATGCATTCTTGGAAGAAAGGTCCCACG
Found at i:3059575 original size:46 final size:46
Alignment explanation
Indices: 3059516--3059765 Score: 358
Period size: 46 Copynumber: 5.4 Consensus size: 46
3059506 AATGCAAGTT
*
3059516 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATAA
1 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGA
3059562 AAATGCATAACGGTGCATTATC-GACATGAAAGGATGCCATAAATGA
1 AAATGCATAACGGTGCATTATCAG-CATGAAAGGATGCCATAAATGA
* *
3059608 AAATGTATAACGGTGCATTATCAGCATGAAAGGATGTCATAAATGA
1 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGA
* * *
3059654 AAATGCATAACGGTGCATTATCGGTATGAAAGGATGCTATAAATGA
1 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGA
* * * * *
3059700 AAATGCATAACGGTGTATAATCGGCATGAAAGGATGCTACAAATGA
1 AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGA
** *
3059746 AAATAAATAACGGTGTATTA
1 AAATGCATAACGGTGCATTA
3059766 ACGACATATA
Statistics
Matches: 187, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 185 0.99
47 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (46 bp):
AAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGA
Found at i:3062121 original size:29 final size:28
Alignment explanation
Indices: 3062059--3062126 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
3062049 TATCTTCACT
* *
3062059 TAAAAATATAATAGTATATTTAATAAATA
1 TAAAAAT-TAAAAGTATATTTAAGAAATA
* *
3062088 AAAAAATTAAAAGATATATTTAAGATATA
1 TAAAAATTAAAAG-TATATTTAAGAAATA
3062117 TAAAATATTA
1 TAAAA-ATTA
3062127 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.16
29 23 0.72
30 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
TAAAAATTAAAAGTATATTTAAGAAATA
Found at i:3064511 original size:38 final size:39
Alignment explanation
Indices: 3064429--3064522 Score: 138
Period size: 39 Copynumber: 2.4 Consensus size: 39
3064419 TTTTTAAAAA
3064429 ATATTATAATATATATTTTCAAAATATTTTCAAAAACTAT
1 ATATTAT-ATATATATTTTCAAAATATTTTCAAAAACTAT
*
3064469 ATATTATATATATGTTTTCAAAAT-TTTAT-AAAAACTAT
1 ATATTATATATATATTTTCAAAATATTT-TCAAAAACTAT
3064507 ATATTATATAATATAT
1 ATATTATAT-ATATAT
3064523 ATATATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
38 21 0.42
39 22 0.44
40 7 0.14
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (39 bp):
ATATTATATATATATTTTCAAAATATTTTCAAAAACTAT
Found at i:3069348 original size:17 final size:17
Alignment explanation
Indices: 3069326--3069384 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
3069316 GTACTGAAAG
3069326 AAAGAAAATTGAATTCA
1 AAAGAAAATTGAATTCA
*
3069343 AAAGAAAAGTACTGAA-T-G
1 AAAGAAAA-T--TGAATTCA
*
3069361 AAAGAAAATTGAGTTCA
1 AAAGAAAATTGAATTCA
3069378 AAAGAAA
1 AAAGAAA
3069385 TAAGAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 16 0.47
18 9 0.26
19 1 0.03
20 4 0.12
ACGTcount: A:0.59, C:0.05, G:0.17, T:0.19
Consensus pattern (17 bp):
AAAGAAAATTGAATTCA
Found at i:3069364 original size:35 final size:35
Alignment explanation
Indices: 3069314--3069384 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
3069304 AAAAAACATG
3069314 AAGTACTGAAAGAAAGAAAATTGAATTCAAAAGAA
1 AAGTACTGAAAGAAAGAAAATTGAATTCAAAAGAA
* *
3069349 AAGTACTGAATGAAAGAAAATTGAGTTCAAAAGAA
1 AAGTACTGAAAGAAAGAAAATTGAATTCAAAAGAA
3069384 A
1 A
3069385 TAAGAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (35 bp):
AAGTACTGAAAGAAAGAAAATTGAATTCAAAAGAA
Found at i:3072974 original size:50 final size:50
Alignment explanation
Indices: 3072899--3073000 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
3072889 TTAGAGGTAT
3072899 TGATCCAGAAACGTGTTTGTTATTATAAATAATCTTTATTGAGGCAAAAG
1 TGATCCAGAAACGTGTTTGTTATTATAAATAATCTTTATTGAGGCAAAAG
3072949 TGATCCAGAAACGTGTTTGTTATTATAAATAATCTTTATTGAGGCAAAAG
1 TGATCCAGAAACGTGTTTGTTATTATAAATAATCTTTATTGAGGCAAAAG
3072999 TG
1 TG
3073001 TTCTATTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (50 bp):
TGATCCAGAAACGTGTTTGTTATTATAAATAATCTTTATTGAGGCAAAAG
Found at i:3074788 original size:27 final size:26
Alignment explanation
Indices: 3074713--3074788 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 26
3074703 AAAAGTCAAT
* *
3074713 TAAATTAAAAATAAAAAATGACAAATAC
1 TAAAATAAAAAT-AAAAAT-AAAAATAC
* ** *
3074741 -AAAATATAAATAAGGACAAAAATTAC
1 TAAAATAAAAATAAAAATAAAAA-TAC
3074767 TAAAATAAAAATAAAAATAAAA
1 TAAAATAAAAATAAAAATAAAA
3074789 GAAATAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
25 4 0.11
26 6 0.17
27 26 0.72
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (26 bp):
TAAAATAAAAATAAAAATAAAAATAC
Found at i:3074803 original size:19 final size:17
Alignment explanation
Indices: 3074767--3074810 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
3074757 CAAAAATTAC
*
3074767 TAAAATAAAAATAAAAA
1 TAAAAGAAAAATAAAAA
3074784 TAAAAGAAATAATAAAAAA
1 TAAAAGAAA-AAT-AAAAA
3074803 TAAAAGAA
1 TAAAAGAA
3074811 CGACTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 3 0.12
19 13 0.54
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
TAAAAGAAAAATAAAAA
Found at i:3076038 original size:15 final size:14
Alignment explanation
Indices: 3076009--3076084 Score: 62
Period size: 15 Copynumber: 5.1 Consensus size: 14
3075999 AAAAAATAAA
* *
3076009 AATAAATAAAATAT
1 AATATATAATATAT
3076023 AATATATAATACTAT
1 AATATATAATA-TAT
*
3076038 ACTATATAATATAT
1 AATATATAATATAT
* *
3076052 AAATATATTAATTTAAA
1 -AATATA-TAATAT-AT
3076069 AACTATATAATATAT
1 AA-TATATAATATAT
3076084 A
1 A
3076085 TTTTCAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
14 12 0.24
15 20 0.41
16 12 0.24
17 5 0.10
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATATAATATAT
Found at i:3076083 original size:24 final size:25
Alignment explanation
Indices: 3076047--3076147 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 25
3076037 TACTATATAA
*
3076047 TATATAAATATATTAATTT-AAAAAC
1 TATAT-AATATATTATTTTCAAAAAC
*
3076072 TATATAATATA-TATTTTCAAAATC
1 TATATAATATATTATTTTCAAAAAC
* *
3076096 TAAATATTATATATATTTTCAAAAAC
1 TATATAATATAT-TATTTTCAAAAAC
*
3076122 TATATATTATATATATATTTTTAAAA
1 TATATA--ATATAT-TATTTTCAAAA
3076148 TGTTTTCAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
23 5 0.08
24 20 0.32
25 5 0.08
26 17 0.27
28 16 0.25
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATAATATATTATTTTCAAAAAC
Found at i:3076084 original size:7 final size:7
Alignment explanation
Indices: 3076009--3076084 Score: 62
Period size: 7 Copynumber: 10.1 Consensus size: 7
3075999 AAAAAATAAA
*
3076009 AATAAAT
1 AATATAT
*
3076016 AAAATAT
1 AATATAT
3076023 AATATAT
1 AATATAT
3076030 AATACTAT
1 AATA-TAT
*
3076038 ACTATAT
1 AATATAT
3076045 AATATAT
1 AATATAT
3076052 AAATATATT
1 -AATATA-T
* *
3076061 AATTTAAA
1 AATAT-AT
3076069 AACTATAT
1 AA-TATAT
3076077 AATATAT
1 AATATAT
3076084 A
1 A
3076085 TTTTCAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
7 30 0.55
8 21 0.38
9 4 0.07
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (7 bp):
AATATAT
Done.