Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000650.1 Hibiscus syriacus cultivar Beakdansim tig00001256_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: 90906
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:2698 original size:7 final size:7
Alignment explanation
Indices: 2688--2748 Score: 122
Period size: 7 Copynumber: 8.7 Consensus size: 7
2678 AGAAACAGAA
2688 AGAAACG
1 AGAAACG
2695 AGAAACG
1 AGAAACG
2702 AGAAACG
1 AGAAACG
2709 AGAAACG
1 AGAAACG
2716 AGAAACG
1 AGAAACG
2723 AGAAACG
1 AGAAACG
2730 AGAAACG
1 AGAAACG
2737 AGAAACG
1 AGAAACG
2744 AGAAA
1 AGAAA
2749 ATAGAACAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.59, C:0.13, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAAACG
Found at i:2780 original size:8 final size:8
Alignment explanation
Indices: 2760--2808 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
2750 TAGAACAGAT
2760 AGAAAAGAA
1 AGAAAA-AA
2769 AGAAAAAA
1 AGAAAAAA
2777 AG-AAAAA
1 AGAAAAAA
*
2784 AGATGAAAA
1 AGA-AAAAA
2793 AGAAAAAA
1 AGAAAAAA
2801 AGAGAAAA
1 AGA-AAAA
2809 TAAATCAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 7 0.20
8 11 0.31
9 17 0.49
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (8 bp):
AGAAAAAA
Found at i:2808 original size:7 final size:7
Alignment explanation
Indices: 2610--2798 Score: 82
Period size: 7 Copynumber: 26.1 Consensus size: 7
2600 GTAAGAATAT
2610 AGAGATAA
1 AGAGA-AA
* *
2618 AGAGGAG
1 AGAGAAA
2625 AGAGAAGA
1 AGAGAA-A
*
2633 AGAAAAAA
1 AG-AGAAA
*
2641 AGAAAAA
1 AGAGAAA
*
2648 AAAGAAA
1 AGAGAAA
*
2655 AAAGAAA
1 AGAGAAA
2662 AG-GAAAA
1 AGAG-AAA
*
2669 AGGGAAA
1 AGAGAAA
2676 AGAGAAA
1 AGAGAAA
2683 CAGAAAGAAA
1 -AG--AGAAA
*
2693 CGAGAAA
1 AGAGAAA
*
2700 CGAGAAA
1 AGAGAAA
*
2707 CGAGAAA
1 AGAGAAA
*
2714 CGAGAAA
1 AGAGAAA
*
2721 CGAGAAA
1 AGAGAAA
*
2728 CGAGAAA
1 AGAGAAA
*
2735 CGAGAAA
1 AGAGAAA
*
2742 CGAGAAA
1 AGAGAAA
*
2749 ATAGAACA
1 AGAGAA-A
*
2757 GATAGAAA
1 -AGAGAAA
2765 AGA-AAGA
1 AGAGAA-A
2772 A-A-AAA
1 AGAGAAA
*
2777 AGAAAAA
1 AGAGAAA
2784 AGATGAAA
1 AGA-GAAA
2792 A-AGAAA
1 AGAGAAA
2798 A
1 A
2799 AAAGAGAAAA
Statistics
Matches: 154, Mismatches: 14, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
5 2 0.01
6 12 0.08
7 107 0.69
8 18 0.12
9 10 0.06
10 5 0.03
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.02
Consensus pattern (7 bp):
AGAGAAA
Found at i:3789 original size:2 final size:2
Alignment explanation
Indices: 3782--3833 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
3772 ATTCATTTGC
3782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3824 AT AT AT AT AT
1 AT AT AT AT AT
3834 TATTGTTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4099 original size:18 final size:18
Alignment explanation
Indices: 4078--4119 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4068 GTGGTCCTTT
4078 GGGACATACTGGTCATTC
1 GGGACATACTGGTCATTC
* * *
4096 GGGATATAGTGGTCTTTC
1 GGGACATACTGGTCATTC
4114 GGGACA
1 GGGACA
4120 AATATTCAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (18 bp):
GGGACATACTGGTCATTC
Found at i:5927 original size:69 final size:69
Alignment explanation
Indices: 5811--5953 Score: 259
Period size: 69 Copynumber: 2.1 Consensus size: 69
5801 GATCAATTTG
* *
5811 TAGTGGTGTTTATTGATGACATATTGATGTATTAAAAAATGAATGAAGATCATAGTGCACACTTG
1 TAGTTGTGTTTATTGATGACATATTGATGTATTAAAAAACGAATGAAGATCATAGTGCACACTTG
5876 AAAA
66 AAAA
*
5880 TAGTTGTGTTTATTGATGACATATTGATGTATTAACAAACGAATGAAGATCATAGTGCACACTTG
1 TAGTTGTGTTTATTGATGACATATTGATGTATTAAAAAACGAATGAAGATCATAGTGCACACTTG
5945 AAAA
66 AAAA
5949 TAGTT
1 TAGTT
5954 TTGTAAACTC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (69 bp):
TAGTTGTGTTTATTGATGACATATTGATGTATTAAAAAACGAATGAAGATCATAGTGCACACTTG
AAAA
Found at i:9672 original size:18 final size:18
Alignment explanation
Indices: 9649--9697 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
9639 GGGTTATTAG
9649 TGGTCCTTCGGGACATAA
1 TGGTCCTTCGGGACATAA
*
9667 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAA
* *
9685 TGATCATTCGGGA
1 TGGTCCTTCGGGA
9698 TAAATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAA
Found at i:11465 original size:258 final size:258
Alignment explanation
Indices: 11008--11780 Score: 1037
Period size: 258 Copynumber: 3.0 Consensus size: 258
10998 TTCTTACTTA
* * * * *
11008 GTAAGTCATTCGGGCCATCAGTAAATCTTTAGAGCATGATGATTAAATCCTTCAGGTCATCTGTC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCC
* *
11073 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCCATAAGACCTTCGGGTAAGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCAATCCATAAGACCTTCGGGTAGGATGTTTTCA
* * *
11138 AATGAA-TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAAATGA
131 CATGAATTTTAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTTCAG-AAAATGA
* * * * * *
11202 AATTTTTGAAAAGAAAGAAAGAAATTTCAAAAGTTTATTACCCGGTAAACTATTTCCCAATTTG
195 AATTTTTGAAAAGAAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTG
* * *
11266 GTAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTCATCTGCC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCC
** * * *
11331 AGTCTTTAAAGCAAGATAATAAGTCATTCGGGCAATCCGTAAGACCTTTGGGTAGGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCAATCCATAAGACCTTCGGGTAGGATGTTTTCA
* * * * * *
11396 CGTGAATTTTAAAAAATGAGAGAGTGATTTCCAAAGTTTCTCGTTTAGTATTTTCAGAAATTGAA
131 CATGAATTTTAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAA
* * * *
11461 ATTTTTGAAAAGTAAGAAGGCTATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
196 ATTTTTGAAAAGAAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTG
**
11524 GTAAGTCCTTCGGGAGATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCC
* * * * * * * * * *
11589 AGTCTTTCGAGTAAGATGTTAAGTCCTTCAGACCATCTATAAAACCTTCGGGCAGAATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCAATCCATAAGACCTTCGGGTAGGATGTTTTCA
* * *
11654 CATGATTTTTGAAAAAAATGAGAAAGTGATTTTCAAAGTTTATCATTTAATGTTTTCAGAAAATG
131 CATGAATTTT--AAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATG
* *
11719 AAATTTTTGAAAA-ATAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAA
194 AAATTTTTGAAAAGA-AAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAA
11781 GGAAAACCAA
Statistics
Matches: 443, Mismatches: 68, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
258 297 0.67
259 44 0.10
260 102 0.23
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (258 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCC
AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCAATCCATAAGACCTTCGGGTAGGATGTTTTCA
CATGAATTTTAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAA
ATTTTTGAAAAGAAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTG
Found at i:11626 original size:41 final size:42
Alignment explanation
Indices: 11547--11626 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
11537 GAGATCAGTA
* * **
11547 AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCC
1 AGTCTTTCGAGCAAGATGATTAAATCCTTCAGACCATCTGCC
* *
11589 AGTCTTTCGAGTAAGATG-TTAAGTCCTTCAGACCATCT
1 AGTCTTTCGAGCAAGATGATTAAATCCTTCAGACCATCT
11627 ATAAAACCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 16 0.50
42 16 0.50
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (42 bp):
AGTCTTTCGAGCAAGATGATTAAATCCTTCAGACCATCTGCC
Found at i:12258 original size:42 final size:42
Alignment explanation
Indices: 12199--12719 Score: 469
Period size: 42 Copynumber: 12.8 Consensus size: 42
12189 GAAGCTTCAA
* * *
12199 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTCATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
12241 CTTGACTTCCTTGTGAAGAGAAGTCAATC-TT---TGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * *
12279 CCTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATGTTA-T
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
12320 CATTGACTTTCTCGTGAAGAGAAGTCAATC--TC--TGTTATT
1 C-TTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
12359 CTTGACTTCCTCGTGAAAAGAAGTCAATC-TT---TGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * *
12397 CTTGACTTTCTCATGAAGAGAAGTCAATC-TT---TGTTGTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * *
12435 CTTGACTCCCTCGGGAAGATG-AGCCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTCAATGTTATT
* * * * *
12477 CTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATATCATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * *
12519 CTTGATTTTCTCGTGAAAAGAAGTCAATCTTTTAGTATTGTCT-TT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCA--A-TGT-TATT
* * * * *
12564 CTTGACTCCCTCGTGAAGAGGAGTCAATTTTTTAATTTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
*
12606 CTTGACTTTCTCGTGAAGAGAAGTCAATC-TT---TGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * *
12644 CTTTAC-TCTCTCGTGAAGAGGAGTCAATATTTTAGTGTTATT
1 CTTGACTTC-CTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* *
12686 CTTGACTTTCTCATGAAGAGAAGTCAATCTTTCA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCA
12720 GTATTTTAGT
Statistics
Matches: 394, Mismatches: 61, Indels: 48
0.78 0.12 0.10
Matches are distributed among these distances:
37 1 0.00
38 153 0.39
39 10 0.03
40 2 0.01
41 8 0.02
42 185 0.47
43 2 0.01
44 1 0.00
45 32 0.08
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
Found at i:12300 original size:80 final size:80
Alignment explanation
Indices: 12199--12719 Score: 452
Period size: 80 Copynumber: 6.4 Consensus size: 80
12189 GAAGCTTCAA
* *
12199 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTCATTCTTGACTTCCTTGTGAAGAGAAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAG
12264 TCAATCTTTGTTATT
66 TCAATCTTTGTTATT
* * *
12279 CCTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATGTTA-TCATTGACTTTCTCGTGAAGAGAA
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTC-TTGACTTCCTCGTGAAGAGAA
*
12343 GTCAATCTCTGTTATT
65 GTCAATCTTTGTTATT
* * * * *
12359 CTTGACTTCCTCGTGAAAAGAAGTCAATC-TT---TGTTATTCTTGACTTTCTCATGAAGAGAAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAG
*
12420 TCAATCTTTGTTGTT
66 TCAATCTTTGTTATT
* * * * * *
12435 CTTGACTCCCTCGGGAAGATGAGCCAATCTTTCAATGTTATTCTTGACTCCCTCGCGAAGAGGAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAG
*
12500 TCAATCTTTCAATATCATT
66 TCAATCTTT--GT-T-ATT
* ** * * * *
12519 CTTGATTTTCTCGTGAAAAGAAGTCAATCTTTTAGTATTGTCT-TTCTTGACTCCCTCGTGAAGA
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCA--A-TGT-TATTCTTGACTTCCTCGTGAAGA
* * *
12583 GGAGTCAATTTTTTAATTTTATT
62 GAAGTCAA--TCTT--TGTTATT
** * * *
12606 CTTGACTTTCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTTTAC-TCTCTCGTGAAGAGGA
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTC-CTCGTGAAGAGAA
*
12666 GTCAATATTTTAGTGTTATT
65 GTC-A-ATCTT--TGTTATT
** * *
12686 CTTGACTTTCTCATGAAGAGAAGTCAATCTTTCA
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCA
12720 GTATTTTAGT
Statistics
Matches: 370, Mismatches: 46, Indels: 47
0.80 0.10 0.10
Matches are distributed among these distances:
76 62 0.17
77 4 0.01
79 6 0.02
80 194 0.52
81 3 0.01
82 2 0.01
83 1 0.00
84 27 0.07
86 3 0.01
87 61 0.16
88 2 0.01
89 4 0.01
91 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (80 bp):
CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAG
TCAATCTTTGTTATT
Found at i:12576 original size:87 final size:85
Alignment explanation
Indices: 12475--12725 Score: 316
Period size: 87 Copynumber: 3.0 Consensus size: 85
12465 TTCAATGTTA
* * * * * *
12475 TTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATATCATTCTTGATTTTCTCGTGAAAAGA
1 TTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTTAATATTATTCTTGACTTTCTCGTGAAGAGA
12540 AGTCAATCTTTTAGTATTGTC
66 AGTCAATCTTTTAGTATT-TC
* *
12561 TTTCTTGACTCCCTCGTGAAGAGGAGTCAATTTTTTAATTTTATTCTTGACTTTCTCGTGAAGAG
1 -TTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTTAATATTATTCTTGACTTTCTCGTGAAGAG
12626 AAGTCAATC-TTT-GT-TATTC
65 AAGTCAATCTTTTAGTAT-TTC
* * * *
12645 -T-TT-ACTCTCTCGTGAAGAGGAGTCAATATTTTAGTGTTATTCTTGACTTTCTCATGAAGAGA
1 TTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTTAATATTATTCTTGACTTTCTCGTGAAGAGA
*
12707 AGTCAATCTTTCAGTATTT
66 AGTCAATCTTTTAGTATTT
12726 TAGTGTTGTT
Statistics
Matches: 147, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
80 62 0.42
81 4 0.03
82 5 0.03
83 1 0.01
84 3 0.02
85 3 0.02
86 3 0.02
87 66 0.45
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (85 bp):
TTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTTAATATTATTCTTGACTTTCTCGTGAAGAGA
AGTCAATCTTTTAGTATTTC
Found at i:12644 original size:167 final size:174
Alignment explanation
Indices: 12470--12810 Score: 417
Period size: 167 Copynumber: 2.0 Consensus size: 174
12460 AATCTTTCAA
* * *
12470 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATATCATTCTTGATTTTCTCGTGA
1 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATATTTCAATATCATTCTTGACTTTCTCATGA
* * *
12535 AAAGAAGTCAATCTTTTAGTA-T-TG-T-CT-TTCTTGACTCCCTCGTGAAGAGGAGTCAATTTT
66 AAAGAAGTCAATCTTTCAGTATTATGTTGCTCTTCTTGACTCCCTCGCGAAGAGGAGTCAATCTT
*
12595 TTAATTT-TATT-CTTGACTTTCTCGTGAAGAGAAGTCAATCTT
131 TTAATTTGTATTCCTTGACTTTCTCGTAAAGAGAAGTCAATCTT
* * * * * * *
12637 TGTTATTCTTTACTCTCTCGTGAAGAGGAGTCAATATTTTAGTGTTATTCTTGACTTTCTCATGA
1 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATATTTCAATATCATTCTTGACTTTCTCATGA
* * **
12702 AGAGAAGTCAATCTTTCAGTATTTTAGTGTTGTTCTTCTTGACTTTCTCGCGAAGAGGAGTCAAT
66 AAAGAAGTCAATCTTTCAGTA--TTA-TGTTGCTCTTCTTGACTCCCTCGCGAAGAGGAGTCAAT
* * *
12767 CTTTTAGTTTGTCTTCCTTGACTTTCTCGTAAAGAGTAGTCAAT
128 CTTTTAATTTGTATTCCTTGACTTTCTCGTAAAGAGAAGTCAAT
12811 ATTTTAGTGT
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
167 74 0.52
170 1 0.01
172 2 0.01
173 1 0.01
174 1 0.01
175 35 0.24
176 3 0.02
177 26 0.18
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (174 bp):
TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATATTTCAATATCATTCTTGACTTTCTCATGA
AAAGAAGTCAATCTTTCAGTATTATGTTGCTCTTCTTGACTCCCTCGCGAAGAGGAGTCAATCTT
TTAATTTGTATTCCTTGACTTTCTCGTAAAGAGAAGTCAATCTT
Found at i:12846 original size:45 final size:44
Alignment explanation
Indices: 12721--12849 Score: 163
Period size: 44 Copynumber: 2.9 Consensus size: 44
12711 AATCTTTCAG
*
12721 TATTTTAGTGTTGTTCTTCTTGACTTTCTCGCGAAGAGGAGTCAA
1 TATTTTAGTGTTG-TCTTCTTGACTTTCTCGCAAAGAGGAGTCAA
* * *
12766 TCTTTTAGT-TTGTCTTCCTTGACTTTCTCGTAAAGAGTAGTCAA
1 TATTTTAGTGTTGTCTT-CTTGACTTTCTCGCAAAGAGGAGTCAA
*
12810 TATTTTAGTGTTGTCCTTCTTGACTTACTCAG-AAAGAGGA
1 TATTTTAGTGTTGT-CTTCTTGACTTTCTC-GCAAAGAGGA
12850 CTTACTCAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
43 4 0.05
44 35 0.48
45 30 0.41
46 4 0.05
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (44 bp):
TATTTTAGTGTTGTCTTCTTGACTTTCTCGCAAAGAGGAGTCAA
Found at i:12853 original size:17 final size:17
Alignment explanation
Indices: 12831--12866 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12821 TGTCCTTCTT
12831 GACTTACTCAGAAAGAG
1 GACTTACTCAGAAAGAG
12848 GACTTACTCAGAAAGAG
1 GACTTACTCAGAAAGAG
12865 GA
1 GA
12867 GTCAACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (17 bp):
GACTTACTCAGAAAGAG
Found at i:13726 original size:134 final size:134
Alignment explanation
Indices: 13515--13833 Score: 430
Period size: 134 Copynumber: 2.4 Consensus size: 134
13505 ATAATAGAAG
* * *
13515 CAAATCAAATTCGATTCAATCTTTCCTGAAGAGCAGTGAAGTGGATC-AAAGTTTTCTCGAGTCT
1 CAAATC-AATTCTATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAAGTTGTCTCGAGTCT
** *
13579 GATCTCCCCTAAAGAGTAGTGGAGA-AGATTCTTCTTCTTTCAGACTTGGTCTTCATGAAGAGTA
65 GATCTCCCCTAAAGAGTAGTGGA-ACAGACGCTTCTTCTTTCAGACTTGGTCTTCATGAAGAGCA
13643 GCGAAT
129 GCGAAT
* *
13649 CAAATCAAGTTCTATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAAAG-TGTCTCGAGTCT
1 CAAATCAA-TTCTATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAAGTTGTCTCGAGTCT
* ** * *
13713 GATTTCCTTTAAAGAGTAGTGGAACAGACGCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAG
65 GATCTCCCCTAAAGAGTAGTGGAACAGACGCTTCTTCTTTCAGACTTGGTCTTCATGAAGAGCAG
*
13778 TGAAT
130 CGAAT
*
13783 CAAATCGAA-TCTGATTCAATCTTCCCTGAAGAGCAATGAAGTGGATCAAAA
1 CAAATC-AATTCT-ATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAA
13834 TTTTCTCAAG
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
133 6 0.04
134 151 0.93
135 6 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (134 bp):
CAAATCAATTCTATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAAGTTGTCTCGAGTCTG
ATCTCCCCTAAAGAGTAGTGGAACAGACGCTTCTTCTTTCAGACTTGGTCTTCATGAAGAGCAGC
GAAT
Found at i:21808 original size:2 final size:2
Alignment explanation
Indices: 21801--21825 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21791 AATCTTCCTT
21801 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 T
21826 GCAGCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24578 original size:32 final size:32
Alignment explanation
Indices: 24537--24602 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
24527 CATGTATATA
24537 TATATATGAAACATGACATCGTTTATTAACTT
1 TATATATGAAACATGACATCGTTTATTAACTT
*
24569 TATATATGAAACATGACATCGTTTGTTAACTT
1 TATATATGAAACATGACATCGTTTATTAACTT
24601 TA
1 TA
24603 AATTAAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (32 bp):
TATATATGAAACATGACATCGTTTATTAACTT
Found at i:30602 original size:17 final size:17
Alignment explanation
Indices: 30582--30614 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30572 AAATGTGGTG
30582 TCGTTAAAAATATTTTT
1 TCGTTAAAAATATTTTT
*
30599 TCGTTAATAATATTTT
1 TCGTTAAAAATATTTT
30615 ACCCTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (17 bp):
TCGTTAAAAATATTTTT
Found at i:31982 original size:31 final size:31
Alignment explanation
Indices: 31940--31998 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
31930 ATAAAAGGAT
*
31940 CACTAATATTATCGATTTGTAACAAAATAAC
1 CACTAACATTATCGATTTGTAACAAAATAAC
* *
31971 CACTAACATTATCTATTTGTAATAAAAT
1 CACTAACATTATCGATTTGTAACAAAAT
31999 TGTCGCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (31 bp):
CACTAACATTATCGATTTGTAACAAAATAAC
Found at i:36759 original size:24 final size:24
Alignment explanation
Indices: 36727--36783 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
36717 TCAAATGGTC
36727 GACTGTTGACCGTTGACCTACGTT
1 GACTGTTGACCGTTGACCTACGTT
36751 GACTGTTGACCGTTGACCTACGTT
1 GACTGTTGACCGTTGACCTACGTT
*
36775 GACCGTTGA
1 GACTGTTGA
36784 TCGGCGTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.32
Consensus pattern (24 bp):
GACTGTTGACCGTTGACCTACGTT
Found at i:36791 original size:17 final size:17
Alignment explanation
Indices: 36755--36793 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36745 TACGTTGACT
*
36755 GTTGACCGTTGACCTAC
1 GTTGACCGTTGACCGAC
* *
36772 GTTGACCGTTGATCGGC
1 GTTGACCGTTGACCGAC
36789 GTTGA
1 GTTGA
36794 TCATAACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (17 bp):
GTTGACCGTTGACCGAC
Found at i:41706 original size:18 final size:17
Alignment explanation
Indices: 41676--41709 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41666 ATATTTATTT
*
41676 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
41693 ATATGAAAAAATAATAT
1 ATAT-AAAAAATAATAT
41710 TATGATGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:45376 original size:90 final size:91
Alignment explanation
Indices: 45222--45394 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 91
45212 TTTTTCAAAG
* *
45222 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGATTAAATTGAACATCGAATGCATT
1 TGATGCACCGATGCACCAAACCATGCATCGATGCACCATGGACTAAATTGAACATCGAATGCATT
45287 TTATGCATCGATGCACTCAGTGCATT
66 TTATGCATCGATGCACTCAGTGCATT
* **
45313 TGATGCATCGATGCA-CAAACCATGCATCGATGCACTC-TGG-CTATTTTGAAACATCGAATGCA
1 TGATGCACCGATGCACCAAACCATGCATCGATGCAC-CATGGACTAAATTG-AACATCGAATGCA
*
45375 TTTTATGCATCGTTGCACTC
64 TTTTATGCATCGATGCACTC
45395 TTAGTGTACC
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
89 5 0.07
90 54 0.73
91 15 0.20
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (91 bp):
TGATGCACCGATGCACCAAACCATGCATCGATGCACCATGGACTAAATTGAACATCGAATGCATT
TTATGCATCGATGCACTCAGTGCATT
Found at i:45383 original size:45 final size:44
Alignment explanation
Indices: 45272--45395 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 44
45262 GATTAAATTG
*
45272 AACATCGAATGCATTTTATGCATCGATGCACTCAGTGCATTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACTCTGTGCATTTGA
** ****
45316 TGCATCG-ATGCACAAACCATGCATCGATGCACTCTG-GCTATTTTGA
1 AACATCGAATG--CATTTTATGCATCGATGCACTCTGTGC-A-TTTGA
*
45362 AACATCGAATGCATTTTATGCATCGTTGCACTCT
1 AACATCGAATGCATTTTATGCATCGATGCACTCT
45396 TAGTGTACCA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
43 3 0.05
44 7 0.11
45 38 0.62
46 10 0.16
47 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
AACATCGAATGCATTTTATGCATCGATGCACTCTGTGCATTTGA
Found at i:47253 original size:16 final size:16
Alignment explanation
Indices: 47232--47263 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47222 ATCCGTCAAT
47232 TGAGTCGTTGAAATAG
1 TGAGTCGTTGAAATAG
47248 TGAGTCGTTGAAATAG
1 TGAGTCGTTGAAATAG
47264 AGAGCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.31
Consensus pattern (16 bp):
TGAGTCGTTGAAATAG
Found at i:50451 original size:15 final size:13
Alignment explanation
Indices: 50421--50455 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
50411 GCTTACGAAT
50421 GAGAGAAAACTAA
1 GAGAGAAAACTAA
**
50434 GAGAGAAAACTGG
1 GAGAGAAAACTAA
50447 GAGAGAAAA
1 GAGAGAAAA
50456 GGTTATATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.57, C:0.06, G:0.31, T:0.06
Consensus pattern (13 bp):
GAGAGAAAACTAA
Found at i:51448 original size:44 final size:44
Alignment explanation
Indices: 51393--51479 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
51383 ATGAATAGTA
* *
51393 CCCCTGAGGGACATGAGTGACATAATAGGGTAATGATAACATAG
1 CCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATAG
51437 CCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
1 CCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
51480 TTCTCTGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (44 bp):
CCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATAG
Found at i:53372 original size:22 final size:22
Alignment explanation
Indices: 53347--53396 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
53337 AAATATATCA
53347 TTGATTATAGTGCGTTGTTTTG
1 TTGATTATAGTGCGTTGTTTTG
53369 TTGATTATAGTGCGTTGTTTTG
1 TTGATTATAGTGCGTTGTTTTG
53391 TTGATT
1 TTGATT
53397 CTAGAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.14, C:0.04, G:0.26, T:0.56
Consensus pattern (22 bp):
TTGATTATAGTGCGTTGTTTTG
Found at i:56323 original size:29 final size:29
Alignment explanation
Indices: 56280--56362 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
56270 CTCACCTAAC
56280 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
56310 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
* *
56339 TAAATTATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
56363 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:61061 original size:29 final size:29
Alignment explanation
Indices: 61018--61100 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
61008 CTCACCTAAC
61018 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
61048 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
* *
61077 TAAATGATGTAAGTAATTACATCA
1 TAAATGATGTAAGCAATGACATCA
61101 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:65068 original size:29 final size:29
Alignment explanation
Indices: 65036--65115 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
65026 ATAATTATGT
* *
65036 GACTATTTTGTAACTTTTAATAGTCGGCG
1 GACTATTTTATAACTTTTAATAGTCGACG
65065 GACTATTTTATAACTTTTAATAGTCGACG
1 GACTATTTTATAACTTTTAATAGTCGACG
*
65094 GATTATTTTATAACTTTTAATA
1 GACTATTTTATAACTTTTAATA
65116 ATAAATGAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (29 bp):
GACTATTTTATAACTTTTAATAGTCGACG
Found at i:65665 original size:18 final size:19
Alignment explanation
Indices: 65642--65683 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
65632 ATATTCATAT
65642 AATAATGTTTTA-ATGATC
1 AATAATGTTTTATATGATC
* *
65660 AATAATTTTTTATATTATC
1 AATAATGTTTTATATGATC
65679 AATAA
1 AATAA
65684 ATTAAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (19 bp):
AATAATGTTTTATATGATC
Found at i:66626 original size:182 final size:181
Alignment explanation
Indices: 66320--66809 Score: 687
Period size: 181 Copynumber: 2.7 Consensus size: 181
66310 TGTCGGTTTA
* * * * *
66320 TGTCGATACTTTATAAAAATGTATCGATCGACATCAATATAACAGG-AAAAATATGACAAAATCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGACAAAATCG
* * *
66384 GTCACGAAAAGACAAAACCGGTAAAGTGCTACCGGATATAATGCAAATATCGCTACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGTGCTACCGGATATATTG-AAATGTCGATACTTTAATATA
*
66449 AGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCTTATAAAG
130 AGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
66501 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGACAAAATCG
* * *
66566 GTCAGGAAAAGACAAAACCGGTAAAGAGATACCGGATATATTGAAACTGTCGATACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGTGCTACCGGATATATTGAAA-TGTCGATACTTTAATATA
* * ** *
66631 AGTATCGACATATTGTGAATTTAAAGGAGAAGTTGTTTTAGTGCCTATAAAG
130 AGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
66683 TATCGATT-TTTATAAAAATGTATTGATCCATAACGATATAAAAGGTAAAAATATGATAAAATCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGACAAAATCG
* * * *
66747 GTCTCTAAATGACAAAACCGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATAATTTAATA
66 GTCACGAAAAGACAAAACCGGTAAAGTGCTACCGGATATATTGAAA-TGTCGATACTTTAATA
66810 AGTACGCGTA
Statistics
Matches: 273, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
181 148 0.54
182 125 0.46
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (181 bp):
TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAAAAGGTAAAAATATGACAAAATCG
GTCACGAAAAGACAAAACCGGTAAAGTGCTACCGGATATATTGAAATGTCGATACTTTAATATAA
GTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:68826 original size:22 final size:23
Alignment explanation
Indices: 68775--68830 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
68765 CGTTTCTGTT
*
68775 TTTTTTTATATAAAATGATAATA
1 TTTTATTATATAAAATGATAATA
* *
68798 TAGTTATTATATAAAATTATAA-A
1 T-TTTATTATATAAAATGATAATA
68821 TTTTATTATA
1 TTTTATTATA
68831 AATGCAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAATA
Found at i:69242 original size:21 final size:21
Alignment explanation
Indices: 69218--69261 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
69208 AAGACAATCA
69218 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
69239 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
69260 AG
1 AG
69262 GCATAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:69407 original size:66 final size:67
Alignment explanation
Indices: 69283--69412 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 67
69273 AAGTGGAAGG
** *
69283 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGAACTTAAGATGGTG-AGGGGT
1 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGAGGTGAACTTAAGAGGGTGAAGGGGT
69347 GA
66 GA
* * * * *
69349 AAAAATTGATGGAGTGGTGAAAGAGGTTGTGGAATTGAG-GAGTGAACTTACGGGGGTGAAGGGG
1 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGAG-GTGAACTTAAGAGGGTGAAGGGG
69413 GTGGTTGATG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.02
66 48 0.89
67 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.42, T:0.22
Consensus pattern (67 bp):
AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGAGGTGAACTTAAGAGGGTGAAGGGGT
GA
Found at i:69566 original size:22 final size:18
Alignment explanation
Indices: 69513--69568 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
69503 AAAAAATATA
*
69513 AAGAATAAAAGAGGGAGG
1 AAGAAGAAAAGAGGGAGG
69531 AAGAAGAAAAGAGGGAGG
1 AAGAAGAAAAGAGGGAGG
*
69549 AAGAAGAAAAGATGGAGG
1 AAGAAGAAAAGAGGGAGG
69567 AA
1 AA
69569 ATGAGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.39, T:0.04
Consensus pattern (18 bp):
AAGAAGAAAAGAGGGAGG
Found at i:71089 original size:19 final size:19
Alignment explanation
Indices: 71065--71113 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
71055 AATGTAGAGT
71065 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
71084 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
71103 TAATTTTGTAT
1 TAATTTTGTAT
71114 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:71814 original size:200 final size:198
Alignment explanation
Indices: 71462--72577 Score: 1264
Period size: 200 Copynumber: 5.6 Consensus size: 198
71452 GTAAGCATAT
* * *
71462 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATAGAAACCCATAATTATAATGTAATA
* * *
71527 GGTAATTTTGTAATATAACCAGTATAAATATACCGATTTTAT-ATGAGAATAAGTCTACATAATG
66 GGTAATTTT-TAATGTAACCGGTATAAATATACCGATTTTATGA-GAGAATAGGTCTACAT-ATG
** * * * * *
71591 TATCGACACTTTTTCATTATGTGTCGATACTTTTTATCCAGAATGAATTCCCAAAATGATGAACG
128 TATCGACACTTTTGGAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGATGCACG
*
71656 CATAAC
193 CATAAA
** * *
71662 GTGTCGATACATTTATTGAAAGTATCGATCCCAGAAACATAGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATAGAAACCCATAATTATAATGTAATA
* * * *
71727 GGTAATTTTTCAATGTAACCGGTATAACTAAACTGGTTTTATGAGAGAATAGGTCTACATGATGT
66 GGTAATTTTT-AATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAT-ATGT
* * *
71792 ATCGACACTTCTGGAATATGTGTCGATA-TTATTTCTCCAGAAGGAATGCCCAAAA-GAGTGCAC
129 ATCGACACTTTTGGAATATGTGTCGATACTT-TTTGTCCAGAATGAATGCCCAAAAGGA-TGCAC
*
71855 GCAAAAA
192 GCATAAA
*
71862 GTGTCGATACATTTATAAATAAGTATCGATCCCAGAAACATCA-AAACCCATAATTATAATGTAA
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACAT-AGAAACCCATAATTATAATGTAA
* * * *
71926 TAGGTAATTTTTCATTGTAACCGGTATACATATACCGATTTTATGACAGAATAGGTGTACAATAT
64 TAGGTAATTTTT-AATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTAC-ATAT
* * * * * * *
71991 GTATCGACACTTGTGTAATTTTTGTCGATACTTTTGGTCCAGAATGAAAGCCCAAAAAGGGTGCA
127 GTATCGACACTTTTGGAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGATGCA
72056 C-CACT-AA
191 CGCA-TAAA
* * *
72063 GTGTCGATACATTTATACAAAGTGTCGATCCTAAAAACATCA-AAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACAT-AGAAACCCATAATTATAATGTAAT
* *
72127 AGGTAATTTTGTAATATTAA-CGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAAT
65 AGGTAATTTT-TAAT-GTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAT-AT
** * * * * ** *
72191 GTATCGACACTTTTTTATTTTGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAATGATAAAT
127 GTATCGACACTTTTGGAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGATGCAC
72256 GCATAAA
192 GCATAAA
* * * ** * *
72263 GTGTCGATATATTTATAGAAAGTGTTGATATCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATAGAAACCCATAATTATAATGTAATA
* * *
72328 GGTAAATTTATAATGTAACCGGTATAACTATACCGATTTTATGAGAGAATAGATCTACAATATGT
66 GGT-AATTTTTAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTAC-ATATGT
* * * * * *
72393 ATCGATACTTATGGAAT-TGGCGTCGATACTTTTTGTCCAGAATGAATG-CCAAAGGGTTGCATG
129 ATCGACACTTTTGGAATAT-GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGATGCACG
72456 CATAAA
193 CATAAA
* * * *
72462 GTGTCGATACTTTTTTAAAAAGTGTCGATCCCA-AGAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGA-AACATAGAAACCCATAATTATAATGTAAT
** * * *
72526 AGGTAAATTTCCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATA
65 AGGT-AATTTTTAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATA
72578 TGTCATCATA
Statistics
Matches: 785, Mismatches: 109, Indels: 45
0.84 0.12 0.05
Matches are distributed among these distances:
198 1 0.00
199 134 0.17
200 464 0.59
201 171 0.22
202 14 0.02
203 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (198 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATAGAAACCCATAATTATAATGTAATA
GGTAATTTTTAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATATGTAT
CGACACTTTTGGAATATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGATGCACGCAT
AAA
Found at i:72234 original size:401 final size:395
Alignment explanation
Indices: 71462--72620 Score: 1357
Period size: 401 Copynumber: 2.9 Consensus size: 395
71452 GTAAGCATAT
* *
71462 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
71527 GGTAATTTTGTAATATAACCAGTATAAATATACCGATTTTAT-ATGAGAATAAGTCTAC-ATAAT
66 GGTAATTTT-TAATGTAACCGGTAT-AATATACCGATTTTATGA-GAGAATAGGTCTACAAT-AT
* * * * * * *
71590 GTATCGACACTTTTTCATTATGTGTCGATACTTTTTATCCAGAATGAATTCCCAAAATGATGAAC
127 GTATCGACACTTTGTAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCAC
** * * *
71655 GCATAACGTGTCGATACATTTATTGAAAGTATCGATCCCAGAAACAT-AGAAACTCATAATTATA
191 -CATAA-GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCA-AAACCCATAATTATA
* *
71719 ATGTAATAGGTAATTTTTCAATGTAACCGGTATAACTAAACTGGTTTTATGAGAGAATAGGTCTA
253 ATGTAATAGGTAATTTTT-AATGTAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTA
* * ** * *
71784 CATGATGTATCGACACTTCTGGAATATGTGTCGATA-TTATTTCTCCAGAAGGAATGCCCAAAA-
317 CATAATGTATCGACACTTATTAAATTTGTGTCGATACGTATTTCTCCAGAAGGAATGCCCAAAAT
**
71847 GAGTGCACGCAAAAA
382 GA-TAAACGCAAAAA
* *
71862 GTGTCGATACATTTATAAATAAGTATCGATCCCAGAAACATCAAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * *
71927 AGGTAATTTTTCATTGTAACCGGTATACATATACCGATTTTATGACAGAATAGGTGTACAATATG
65 AGGTAATTTTT-AATGTAACCGGTATA-ATATACCGATTTTATGAGAGAATAGGTCTACAATATG
* * *
71992 TATCGACACTTGTGTAATTTTTGTCGATACTTTTGGTCCAGAATGAAAGCCCAAAAAGGGTGCAC
128 TATCGACACTT-TGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGCAC
* *
72057 CACTAAGTGTCGATACATTTATACAAAGTGTCGATCCTAAAAACATCAAAACCCATAATTATAAT
191 CA-TAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAAT
* * * *
72122 GTAATAGGTAATTTTGTAATATTAA-CGGTATAAATATACCGATTTTATGTGAGAATAGGTCTAC
255 GTAATAGGTAATTTT-TAAT-GTAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTAC
* * * * *
72186 ATAATGTATCGACACTTTTTTATTTTGTGTCGATACGT-TTTGTCCAGAATGAATGCCCAAAATG
318 ATAATGTATCGACACTTATTAAATTTGTGTCGATACGTATTTCTCCAGAAGGAATGCCCAAAATG
* *
72250 ATAAATGCATAAA
383 ATAAACGCAAAAA
* * * ** *
72263 GTGTCGATATATTTATAGAAAGTGTTGATATCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
72328 GGTAAATTTATAATGTAACCGGTATAACTATACCGATTTTATGAGAGAATAGATCTACAATATGT
66 GGT-AATTTTTAATGTAACCGGTATAA-TATACCGATTTTATGAGAGAATAGGTCTACAATATGT
* * * * *
72393 ATCGATACTTATGGAATTGGCGTCGATACTTTTTGTCCAGAATGAATG-CC-AAAGGGTTGCATG
129 ATCGACACTT-TGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG-TGCA-C
* * * * *
72456 CATAAAGTGTCGATACTTTTTTAAAAAGTGTCGATCCCAAGAACATCGAAACCGATAATTATAAT
191 CAT-AAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAAT
** * *
72521 GTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATATGTC-ATC
255 GTAATAGGT-AATTTTTAATGTAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTA-C
* * *
72585 ATAAAGTATAGACAATTATTAAATTTGTGTCGATAC
318 ATAATGTATCGACACTTATTAAATTTGTGTCGATAC
72621 CATTTTAAAT
Statistics
Matches: 650, Mismatches: 88, Indels: 43
0.83 0.11 0.06
Matches are distributed among these distances:
397 6 0.01
398 9 0.01
399 133 0.20
400 157 0.24
401 317 0.49
402 28 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (395 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTAATGTAACCGGTATAATATACCGATTTTATGAGAGAATAGGTCTACAATATGTAT
CGACACTTTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCATAA
GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
GGTAATTTTTAATGTAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACATAATGTA
TCGACACTTATTAAATTTGTGTCGATACGTATTTCTCCAGAAGGAATGCCCAAAATGATAAACGC
AAAAA
Found at i:73270 original size:2 final size:2
Alignment explanation
Indices: 73263--73308 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
73253 ATGGGGAAGG
73263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73305 AT AT
1 AT AT
73309 CTGGAAACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74147 original size:3 final size:3
Alignment explanation
Indices: 74128--74168 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
74118 CAAGAGGTCA
* * *
74128 ATG ACG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATT ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
74169 TTTCCAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:75457 original size:15 final size:15
Alignment explanation
Indices: 75437--75475 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
75427 TCTCCACAAC
* *
75437 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
75452 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
75467 AAAGTTTCC
1 AAAGTTTCC
75476 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:75956 original size:187 final size:188
Alignment explanation
Indices: 75629--77187 Score: 1060
Period size: 201 Copynumber: 7.9 Consensus size: 188
75619 CTTCTGGAAT
* * *
75629 TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGGTGCACTCATAAAGTGTCAAAATA
1 TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGGTGAACGCATAAAGTGTCAAAACA
* ** * * * * **
75694 TTTTTAAAGCGTATCAATCCCAAAAACATCGAAACCTATAATTATGATGTAATAGGTAATTTTTT
66 TTTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTAC
* *
75759 AATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCGACACTTTTTAATG
131 AATATAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTCGACACTTTTTAATG
* ** * *
75817 TTGTGTCGATACTTTTTGTAC-AGATTGAATGCCCA-AAAGGGTGAACGCATAAAGTGAT-GATA
1 TTGTGTCGATACTGTTTGT-CTAGAAGGAATGCCCATAAAGGGTGAACGCATAAAGTG-TCAAAA
* *
75879 CATTTATAAAAAGTATCGATCACAAAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTT
64 CATTTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
* * *
75944 ACAATGTAACCGGTATAAATATACCAGTTTTATGTTAAAATATGTGAACATAATGTATCGACACG
129 ACAATATAACCGGTATAAATATACCAG-----T-TT----TATGTGAAAAT-ATG--TCGACACT
76009 TTTTAGAT-
181 TTTTA-ATG
* * * * * * * *
76017 TTGTGTCGATACTTTTTGTCCAAAATGAAT-ACCA-AAAGGGTTGCACGCATAAAGTGTCGATAC
1 TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGG-TGAACGCATAAAGTGTCAAAAC
* * * * * *
76080 ATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATAATTATAATATAATAGGT-AATTT
65 AT-TTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
**
76144 GTAATATAACCGGTATAAATATACC-GATTTTATGTGAGAATAGGTCTACATAATATGTCGACAC
129 ACAATATAACCGGTATAAATATACCAG-TTTTA--T--G--T--G---A-A-AATATGTCGACAC
76208 TTTTTAATG
180 TTTTTAATG
* * * * *
76217 TTGTGTCGATACTTTTTGTAC-AGAATGAATGCCCA-AAAGGGTGAACACATAAAGTGTCGATAC
1 TTGTGTCGATACTGTTTGT-CTAGAAGGAATGCCCATAAAGGGTGAACGCATAAAGTGTCAAAAC
** *
76280 ATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTA
65 ATTTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTA
* * * * *
76345 CAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGTGAACATAATGTATCGACACGT
130 CAATATAACCGGTATAAATATACCAG---T-T-TT---AT--GTGAAAAT-ATG--TCGACACTT
76410 TTTAGAT-
182 TTTA-ATG
* * * * * * * *
76417 TTGTGTCGATACTTTTTGTCCAAAATGAATG-TCA-AAAGGGTTGCACGCATAAAGTGTCGATAC
1 TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGG-TGAACGCATAAAGTGTCAAAAC
* * *
76480 ATGTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATT
65 AT-TTATAAAAAGTATCAATCAC-AAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATT
* * * * *
76544 TACAATGTAACCGATATAAATGTACCGGTTTTATGTTAAAATAGGTGAACATAATGTATCGACAC
128 TACAATATAACCGGTATAAATATACCAG---T-T-TT---AT--GTGAAAAT-ATG--TCGACAC
*
76609 GTTTTAGAT-
180 TTTTTA-ATG
* * * * * * *
76618 TTGTGTCGATACTTTTTGTCCAAAATGAATG-CCA-AAAGGGTTGCACGTATAAAGTGTCAATAC
1 TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGG-TGAACGCATAAAGTGTCAAAAC
* * * * * * * *
76681 ATGTTTTAAAACGTATCGATCCCAAAACCATCGAAACCTATAGTTATAATGTAATAGGTAATTTT
65 AT-TTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
** *
76746 GTAATATAACTGGTATAAATATACCAGTTTTATGTGAGAATATGTCTACATAATGTGTCGACACT
129 ACAATATAACCGGTATAAATATACCAGTTTTATGT--G-A-A-----A-AT-A--TGTCGACACT
*
76811 TTTTAAGG
181 TTTTAATG
* * * * *
76819 TTGTGTCGATACTTTTTGTAC-AGAATGAATGCCCA-AAAGGGTGAACGTATAAAGTGTCGATAC
1 TTGTGTCGATACTGTTTGT-CTAGAAGGAATGCCCATAAAGGGTGAACGCATAAAGTGTCAAAAC
* *
76882 A-TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTA
65 ATTTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTA
* * * *
76946 CAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGTAAACATAATGTATCGACACGT
130 CAATATAACCGGTATAAATATACCAGTTTTATG------T--G-AAA-AT-ATG--TCGACACTT
77011 TTTAGAT-
182 TTTA-ATG
* * * * * * *
77018 TTGTGTCGATACTTTTTGTCCAAAATGAATG-CCA-AAAGGGTTGCACGCATAAAGTGTCGATAC
1 TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGG-TGAACGCATAAAGTGTCAAAAC
* *
77081 ATGTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATT
65 AT-TTATAAAAAGTATCAATCAC-AAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATT
* * * *
77145 TATAATGTAACCGGTATAAATATACCAATTTTATGAGAAAATA
128 TACAATATAACCGGTATAAATATACCAGTTTTATGTGAAAATA
77188 GGTGAACATA
Statistics
Matches: 1173, Mismatches: 115, Indels: 164
0.81 0.08 0.11
Matches are distributed among these distances:
187 99 0.08
188 31 0.03
189 1 0.00
190 3 0.00
191 4 0.00
192 5 0.00
193 6 0.01
194 4 0.00
195 3 0.00
196 3 0.00
197 14 0.01
198 19 0.02
199 226 0.19
200 239 0.20
201 484 0.41
202 16 0.01
203 5 0.00
204 3 0.00
205 5 0.00
206 2 0.00
208 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (188 bp):
TTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAAGGGTGAACGCATAAAGTGTCAAAACA
TTTATAAAAAGTATCAATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTAC
AATATAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTCGACACTTTTTAATG
Found at i:76336 original size:400 final size:399
Alignment explanation
Indices: 75476--77232 Score: 2270
Period size: 400 Copynumber: 4.4 Consensus size: 399
75466 TAAAGTTTCC
* *
75476 CATAAAGTGTCGATACAGTTT-TAAAAAGTATCGATCCCAGAAACATCGAAATCC-ATAAATATA
1 CATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATA
* * * * * * **
75539 ATGTAATAGGTAAATTTACAATGTAACCGGTATAACTAAATCGGTTTTATGAGAGAATATGTCTA
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTGAA
* * * * * * * *
75604 CATAATTTATCGTCAC-TTCTGGAATTTGTGTCGATACTGTTTGTCTAGAAGGAATGCCCATAAA
129 CATAATGTATCGACACGTTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCA-AAA
* * * * ** *
75668 GGGTGCACTCATAAAGTGTCAAAATATTTTTAAAGCGTATCAATCCCAAAAACATCGAAACCTAT
192 GGGTGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCTAT
* * **
75733 AATTATGATGTAATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATG------T
257 AATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTTAAAAT
* * * * *
75792 --G----AGAATATGTCGACACTTTTTA-ATGTTGTGTCGATACTTTTTGTACAGATTGAATGCC
322 AGGTAACATAATATATCGACACGTTTTAGAT-TTGTGTCGATACTTTTTGTACAAAATGAATG-C
75850 CAAAAGGG-TGAACG
385 CAAAAGGGTTGAACG
* *
75864 CATAAAGTGAT-GATACATTTATAAAAAGTATCGATCACAAAAATATCGAAACCGATAATTATAA
1 CATAAAGTG-TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
*
75928 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTTAAAATATGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTGAAC
*
75993 ATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAAT-ACCAAAAGGG
130 ATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGGG
*
76057 TTGCACGCATAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATA
195 -TGCACGCATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCTATA
* ** * * *
76122 ATTATAATATAATAGGT-AATTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATA
258 ATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTTAAAATA
* * * *
76186 GGTCTACATAATATGTCGACACTTTTTA-ATGTTGTGTCGATACTTTTTGTACAGAATGAATGCC
323 GGT-AACATAATATATCGACACGTTTTAGAT-TTGTGTCGATACTTTTTGTACAAAATGAATG-C
*
76250 CAAAAGGG-TGAACA
385 CAAAAGGGTTGAACG
*
76264 CATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * *
76329 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTGAACA
*
76394 TAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATG-TCAAAAGGGT
131 TAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGGG-
*
76458 TGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAA-CTGATA
195 TGCACGCATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCT-ATA
* * *
76522 ATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATGTACCGGTTTTATGTTAAAATA
258 ATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTTAAAATA
* *
76587 GGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCA
323 GGT-AACATAATATATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTACAAAATGAATGCCA
*
76652 AAAGGGTTGCACG
387 AAAGGGTTGAACG
* * * * * * *
76665 TATAAAGTGTCAATACATGTTTTAAAACGTATCGATCCCAAAACCATCGAAACCTATAGTTATAA
1 CATAAAGTGTCGATACAT-TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* ** * * * **
76730 TGTAATAGGTAATTTTGTAATATAACTGGTATAAATATACCAGTTTTATGTGAGAATATGTCTAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTGAAC
* * * * *
76795 ATAATGTGTCGACACTTTTTA-AGGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGG
130 ATAATGTATCGACACGTTTTAGA-TTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGG
* * * *
76859 GTGAACGTATAAAGTGTCGATACA-TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
194 GTGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCTATAA
* *
76923 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAG
259 TTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTTAAAATAG
* *
76988 GTAAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAA
324 GT-AACATAATATATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTACAAAATGAATGCCAA
*
77053 AAGGGTTGCACG
388 AAGGGTTGAACG
* *
77065 CATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACAT-TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * *
77130 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATACCAATTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTGAAC
77195 ATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
130 ATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
77233 ATAAATAACG
Statistics
Matches: 1221, Mismatches: 118, Indels: 48
0.88 0.09 0.03
Matches are distributed among these distances:
386 6 0.00
387 64 0.05
388 200 0.16
389 5 0.00
393 1 0.00
395 1 0.00
399 3 0.00
400 655 0.54
401 114 0.09
402 164 0.13
403 8 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (399 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATATGTGAACA
TAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGGGT
GCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATT
ATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGT
AACATAATATATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTACAAAATGAATGCCAAAAG
GGTTGAACG
Found at i:76578 original size:201 final size:201
Alignment explanation
Indices: 75801--77232 Score: 2087
Period size: 201 Copynumber: 7.1 Consensus size: 201
75791 TGAGAATATG
* * * * *
75801 TCGACACTTTTTA-ATGTTGTGTCGATACTTTTTGTACAGATTGAATGCCCAAAAGGG-TGAACG
1 TCGACACGTTTTAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGTTGCACG
* * *
75864 CATAAAGTGAT-GATACAT-TTATAAAAAGTATCGATCACAAAAATATCGAAACCGATAATTATA
64 CATAAAGTG-TCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
* *
75927 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTTAAAATATGTGAA
128 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAA
75992 CATAATGTA
193 CATAATGTA
*
76001 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATACCAAAAGGGTTGCACGCA
1 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGCA
* * *
76066 TAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATAATTATAATA
66 TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
** * * * * **
76131 TAATAGGT-AATTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACAT
131 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAACAT
* *
76195 AATATG
196 AATGTA
* * * * *
76201 TCGACACTTTTTA-ATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGG-TGAACA
1 TCGACACGTTTTAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGTTGCACG
* *
76264 CATAAAGTGTCGATACAT-TTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAA
64 CATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
*
76328 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGTGAAC
129 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAAC
76393 ATAATGTA
194 ATAATGTA
*
76401 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGTCAAAAGGGTTGCACGCA
1 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGCA
* *
76466 TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACTGATAATTATAATG
66 TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* *
76531 TAATAGGTAAATTTACAATGTAACCGATATAAATGTACCGGTTTTATGTTAAAATAGGTGAACAT
131 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAACAT
76596 AATGTA
196 AATGTA
*
76602 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGTA
1 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGCA
* * * * *
76667 TAAAGTGTCAATACATGTTTTAAAACGTATCGATCCCAAAACCATCGAAACCTATAGTTATAATG
66 TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* ** * * * * * * **
76732 TAATAGGTAATTTTGTAATATAACTGGTATAAATATACCAGTTTTATGTGAGAATATGTCTACAT
131 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAACAT
*
76797 AATGTG
196 AATGTA
* * * * *
76803 TCGACACTTTTTA-AGGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGG-TGAACG
1 TCGACACGTTTTAGA-TTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGTTGCACG
* *
76866 TATAAAGTGTCGATACA--TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
64 CATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* *
76929 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGTAAAC
129 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAAC
76994 ATAATGTA
194 ATAATGTA
77002 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGCA
1 TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGCA
*
77067 TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATG
66 TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* ** **
77132 TAATAGGTAAATTTATAATGTAACCGGTATAAATATACCAATTTTATGAGAAAATAGGTGAACAT
131 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAACAT
77197 AATGTA
196 AATGTA
77203 TCGACACGTTTTAGATTTGTGTCGATACTT
1 TCGACACGTTTTAGATTTGTGTCGATACTT
77233 ATAAATAACG
Statistics
Matches: 1095, Mismatches: 121, Indels: 31
0.88 0.10 0.02
Matches are distributed among these distances:
198 9 0.01
199 234 0.21
200 288 0.26
201 555 0.51
202 9 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (201 bp):
TCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACGCA
TAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTTAAAATAGGTGAACAT
AATGTA
Found at i:76605 original size:601 final size:601
Alignment explanation
Indices: 75476--77232 Score: 2653
Period size: 601 Copynumber: 2.9 Consensus size: 601
75466 TAAAGTTTCC
* * *
75476 CATAAAGTGTCGATACA-GTTTTAAAAAGTATCGATCCCAGAAACATCGAAATCC-ATAAATATA
1 CATAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAA-CCTATAATTATA
** * * * * * *
75539 ATGTAATAGGTAAATTTACAATGTAACCGGTATAACTAAATCGGTTTTATGAGAGAATATGTCTA
65 ATGTAATAGGT-AATTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATATGTCTA
* * * ** * *
75604 CATAATTTATCGTCACTTCTGGAAT-TTGTGTCGATACTGTTTGT-CTAGAAGGAATGCCCATAA
129 CATAATATGTCGACACTT-TTTAATGTTGTGTCGATACTTTTTGTAC-AGAATGAATGCCCA-AA
* * * * * * ** * *
75667 AGGGTGCACTCATAAAGTGTCAAAATATTTTTAAAGCGTATCAATCCCAAAAACATCGAAACCTA
191 AGGGTGAACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGA
* * ** * *
75732 TAATTATGATGTAATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATG------
256 TAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAA
* * * * *
75791 T--GAG-A-AT-ATG--TCGACACTTTTTA-ATGTTGTGTCGATACTTTTTGTACAGATTGAATG
321 TAGGTGAACATAATGTATCGACACGTTTTAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAATG
* * *
75848 CCCAAAAGGG-TGAACGCATAAAGTGAT-GATACAT-TTATAAAAAGTATCGAT-CACAAAAATA
385 -CCAAAAGGGTTGCACGCATAAAGTG-TCGATACATGTTTTAAAAAGTATCGATCCA-AAAAACA
75909 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTT
447 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTT
*
75974 TATGTTAAAATATGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCA
512 TATGTTAAAATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCA
76039 AAATGAATACCAAAAGGGTTGCACG
577 AAATGAATACCAAAAGGGTTGCACG
76064 CATAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATAATTATAA
1 CATAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATAATTATAA
* *
76129 TATAATAGGTAATTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACA
66 TGTAATAGGTAATTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATATGTCTACA
76194 TAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGGT
131 TAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGGT
*
76259 GAACACATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATT
196 GAACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATT
76324 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGT
261 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGT
*
76389 GAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGTCAAAA
326 GAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAA
*
76454 GGGTTGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACTG
391 GGGTTGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCG
* * *
76519 ATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATGTACCGGTTTTATGTTAAA
456 ATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTTAAA
*
76584 ATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATG
521 ATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATA
76649 CCAAAAGGGTTGCACG
586 CCAAAAGGGTTGCACG
* * * *
76665 TATAAAGTGTCAATACATGTTTTAAAACGTATCGATCCCAAAACCATCGAAACCTATAGTTATAA
1 CATAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATAATTATAA
*
76730 TGTAATAGGTAATTTTGTAATATAACTGGTATAAATATACC-AGTTTTATGTGAGAATATGTCTA
66 TGTAATAGGTAA-TTTGTAATATAACCGGTATAAATATACCGA-TTTTATGTGAGAATATGTCTA
* *
76794 CATAATGTGTCGACACTTTTTAAGGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGG
129 CATAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGG
**
76859 GTGAACGTATAAAGTGTCGATACA-TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
194 GTGAACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
76923 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAG
259 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAG
*
76988 GTAAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAA
324 GTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAA
77053 AAGGGTTGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAAC
389 AAGGGTTGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAAC
* * **
77118 CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTATAAATATACCAATTTTATGAGA
454 CGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTTA
77183 AAATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
519 AAATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
77233 ATAAATAACG
Statistics
Matches: 1071, Mismatches: 74, Indels: 35
0.91 0.06 0.03
Matches are distributed among these distances:
587 113 0.11
588 109 0.10
589 51 0.05
593 1 0.00
595 2 0.00
596 1 0.00
597 2 0.00
598 3 0.00
599 9 0.01
600 61 0.06
601 585 0.55
602 134 0.13
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (601 bp):
CATAAAGTGTCGATACATGTTTTAAAACGTATCGATCCCAAAAACATCGAAACCTATAATTATAA
TGTAATAGGTAATTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATATGTCTACA
TAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGGT
GAACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATT
ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGTTAAAATAGGT
GAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAA
GGGTTGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCG
ATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGTTAAA
ATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATA
CCAAAAGGGTTGCACG
Found at i:81710 original size:196 final size:197
Alignment explanation
Indices: 81047--81960 Score: 1022
Period size: 196 Copynumber: 4.6 Consensus size: 197
81037 ACCTAAATAT
**
81047 GTGTCGATACATTT-TCTAAAAGTATCGA--CAAAAACATCGAAACTAATAATTATAAT-TAATA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
81108 GGTAAATTAACAATGTAACCGGTATAAATATACC-GATTAATTAGAAAACAGGTCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATGT
*
81172 ATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCAC
130 ATCGACACTT-T-TAAATTTATGTCGATACTT-TTGTCCAGAATGAATG-CCAAACGAGGTGCAC
*
81236 ACATAAA
191 GCATAAA
*
81243 GTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGAT-CCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * * * * ** *
81307 TGGTAAACTTACAATGTAACCGGAATAAATATATCGATTTTATGTTAAAATAGGTGAACATAATG
64 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATG
* * * * * *
81372 TATCTACACGTTTTATATTTGTGTCGATACTTTTTGTCCAAAATGAATTCCAAAAG-GGTTGCAC
129 TATCGACAC-TTTTAAATTTATGTCGATAC-TTTTGTCCAGAATGAATGCCAAACGAGG-TGCAC
*
81436 TCATAAA
191 GCATAAA
* * *
81443 ATGTCGATAC-TGTT-TTAAAAAGTAT-TATCCAAAAAACATCGAAACTGATAATTATAATGTAA
1 GTGTCGATACAT-TTATT-AAAAGTATCGATCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * *
81505 TATGTAAATTTACAATGTAACC-GTATAAATATACCGGCTTTATGAGAAAATAGGTCATCATAAA
63 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAT
* * * *
81569 GTATCGACACTTATTAAATTTATG-CGATACATTTGTCTATAATGAATGTCAAACG-GGTGCACG
128 GTATCGACACTT-TTAAATTTATGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACG
81632 CATAAA
192 CATAAA
* * *
81638 GTGTCGATACATTTATTAAAACTATCGATCTCAAAAACATCGAAACCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATC-CAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
81703 GGTAAATTTACAATGTACCCGGTAGAAATATACTGGTTTTAT-AAAAAATAGGTCTAA-ATAATG
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTC-AACATAATG
* *
81766 TATCGACACTCTTTAAGTTTATGTCGATACTTGTT-TCCAGAATGAATGCCCAACGAGGTGCACG
129 TATCGACACT-TTTAAATTTATGTCGATACTT-TTGTCCAGAATGAATGCCAAACGAGGTGCACG
81830 CATAAA
192 CATAAA
* * *
81836 GTGTCGATACATTTA--AAATTGTATCTATCCAAAAATATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAA-AGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
81899 GGTAAATTTGCAATGTTACCGGTATAAATATACCAG-TTTACTTATAAAATAGGTCAATATAA
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTA-TGAGAAAATAGGTCAACATAA
81961 GCGCTACCTA
Statistics
Matches: 607, Mismatches: 81, Indels: 59
0.81 0.11 0.08
Matches are distributed among these distances:
195 33 0.05
196 203 0.33
197 75 0.12
198 87 0.14
199 73 0.12
200 74 0.12
201 58 0.10
202 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATGTA
TCGACACTTTTAAATTTATGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATA
AA
Found at i:82079 original size:87 final size:87
Alignment explanation
Indices: 81955--82200 Score: 428
Period size: 84 Copynumber: 2.9 Consensus size: 87
81945 AAATAGGTCA
81955 ATATAAGCGCTACCTATTACA-TATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
82019 TCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
82041 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTAC-T--TAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
82103 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* * *
82125 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAAGATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
82190 CCGGTTAAATG
66 CCGGTTAAATG
82201 ATATAACATA
Statistics
Matches: 152, Mismatches: 4, Indels: 7
0.93 0.02 0.04
Matches are distributed among these distances:
84 79 0.52
85 1 0.01
86 22 0.14
87 50 0.33
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:82088 original size:23 final size:23
Alignment explanation
Indices: 82038--82082 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
82028 TGCCTATTTT
*
82038 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
82061 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
82083 TGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:82172 original size:23 final size:23
Alignment explanation
Indices: 82122--82166 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
82112 TGCCTATTTT
**
82122 ATTATATAAGAGCTACCTATTAC
1 ATTATATAAGAGCTACCTAAGAC
*
82145 ATTATATAAGCGCTACCTAAGA
1 ATTATATAAGAGCTACCTAAGA
82167 TGTTATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (23 bp):
ATTATATAAGAGCTACCTAAGAC
Found at i:82909 original size:15 final size:15
Alignment explanation
Indices: 82874--82919 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
82864 GGTCCTCTAT
82874 CTATTATTTAGTTTATA
1 CTATTATTTA-TTTA-A
82891 -TATTGA-TTATTTAA
1 CTATT-ATTTATTTAA
82905 CTATTATTTATTTAA
1 CTATTATTTATTTAA
82920 AATTATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 2 0.08
15 16 0.62
16 7 0.27
17 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (15 bp):
CTATTATTTATTTAA
Found at i:89295 original size:35 final size:35
Alignment explanation
Indices: 89256--89323 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
89246 TCATTAAACC
*
89256 ATTTTAT-ATTTTCAATTTTGTAAAAAAAAATATTA
1 ATTTTATGAATTT-AATTTTGTAAAAAAAAATATTA
* * *
89291 ATTTTATGAATTTAATTTTTTTAAAGAAAATAT
1 ATTTTATGAATTTAATTTTGTAAAAAAAAATAT
89324 ATAAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.86
36 4 0.14
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (35 bp):
ATTTTATGAATTTAATTTTGTAAAAAAAAATATTA
Found at i:90433 original size:29 final size:30
Alignment explanation
Indices: 90382--90453 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
90372 GTACGAATTT
90382 ATTTAATTATATACATAAAATTTAAACTTC-A
1 ATTTAATTATATACAT-AAATTTAAA-TTCTA
* *
90413 ATTTATTTATATACAT-AATTTTAATTCTA
1 ATTTAATTATATACATAAATTTAAATTCTA
90442 ATTTAATTATAT
1 ATTTAATTATAT
90454 CATTTCAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 19 0.51
31 15 0.41
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTAATTATATACATAAATTTAAATTCTA
Found at i:90666 original size:2 final size:2
Alignment explanation
Indices: 90659--90685 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90649 TATAAATAAA
90659 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
90686 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:90690 original size:2 final size:2
Alignment explanation
Indices: 90685--90754 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
90675 ACACACACAC
90685 AT AT AT AT AT AT AT AT AT AT AT -T 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
*
90726 -T AT AT AT AT AT AT AG AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90755 TAACATCTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Done.