Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 276 of 318
Found at i:87433368 original size:21 final size:20
Alignment explanation
Indices: 87433344--87433397 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
87433334 GGCCTCTCCA
87433344 TTTTTTCTTTTTTCTCTTTAT
1 TTTTTTCTTTTTTCT-TTTAT
*
87433365 TTTTTTCTCTTTTTCTTTTCT
1 TTTTTTCT-TTTTTCTTTTAT
87433386 TTTTTT-TTTTTT
1 TTTTTTCTTTTTT
87433398 TGAAATAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.16
20 1 0.03
21 18 0.58
22 7 0.23
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTCTTTTTTCTTTTAT
Found at i:87433370 original size:14 final size:13
Alignment explanation
Indices: 87433346--87433395 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
87433336 CCTCTCCATT
87433346 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
87433360 TTTATTTTTTTCTC
1 TTT-TTTTTTTCTC
*
87433374 TTTTTCTTTTCT-
1 TTTTTTTTTTCTC
87433386 TTTTTTTTTT
1 TTTTTTTTTT
87433396 TTTGAAATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 9 0.27
13 8 0.24
14 15 0.45
15 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:87439199 original size:17 final size:17
Alignment explanation
Indices: 87439140--87439199 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
87439130 TAATAAATTT
87439140 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
87439159 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
87439173 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
87439191 AAAATATAA
1 AAAATATAA
87439200 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:87439740 original size:35 final size:35
Alignment explanation
Indices: 87439682--87439831 Score: 178
Period size: 35 Copynumber: 4.3 Consensus size: 35
87439672 AATCATATCT
*
87439682 TCTAAGATTGTATATCATATCTAAGATTCCAATCATA
1 TCTAAGATTG-AAATCATATCTAAGATT-CAATCATA
* *
87439719 TCTAAGATTG-TATCATATCTAAGATGCAATCATA
1 TCTAAGATTGAAATCATATCTAAGATTCAATCATA
**
87439753 TCTAAGATTGCAAAT-ATATCTAAGATTGTATCATA
1 TCTAAGATTG-AAATCATATCTAAGATTCAATCATA
* * **
87439788 TCTAAGATTGCAATCATATTTAAGATTGTATCATA
1 TCTAAGATTGAAATCATATCTAAGATTCAATCATA
87439823 TCTAAGATT
1 TCTAAGATT
87439832 ACATATCATT
Statistics
Matches: 103, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
34 21 0.20
35 70 0.68
36 2 0.02
37 10 0.10
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGAAATCATATCTAAGATTCAATCATA
Found at i:87439761 original size:52 final size:53
Alignment explanation
Indices: 87439682--87439831 Score: 216
Period size: 52 Copynumber: 2.8 Consensus size: 53
87439672 AATCATATCT
* *
87439682 TCTAAGATTGTATATCATATCTAAGATTCCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTCAAATCATATCTAAGATTGTATCATA
87439736 TCTAAGA-TGCAATCATATCTAAGATTGCAAAT-ATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATT-CAAATCATATCTAAGATTGTATCATA
* **
87439788 TCTAAGATTGCAATCATATTTAAGATT-GTATCATATCTAAGATT
1 TCTAAGATTGCAATCATATCTAAGATTCAAATCATATCTAAGATT
87439832 ACATATCATT
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
51 2 0.02
52 54 0.61
53 25 0.28
54 7 0.08
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (53 bp):
TCTAAGATTGCAATCATATCTAAGATTCAAATCATATCTAAGATTGTATCATA
Found at i:87451856 original size:28 final size:28
Alignment explanation
Indices: 87451803--87451886 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
87451793 CACTTTGTGC
87451803 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
87451832 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
87451860 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
87451887 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:87451898 original size:23 final size:24
Alignment explanation
Indices: 87451807--87451900 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
87451797 TTGTGCTATT
87451807 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
87451834 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
87451864 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
87451887 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
87451901 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:87452119 original size:23 final size:22
Alignment explanation
Indices: 87452089--87452173 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
87452079 GCTTTACTGA
87452089 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
* *
87452112 TCAGGCACTTGTGTGTCGCA--
1 TCAGGCACTTATGTGTCGTATT
* * *
87452132 GCAGGCACCT-CGTGT-GT-TT
1 TCAGGCACTTATGTGTCGTATT
87452151 TCAGGCACTTATGTGTCGTATT
1 TCAGGCACTTATGTGTCGTATT
87452173 T
1 T
87452174 GATCAGGTAC
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
18 1 0.02
19 12 0.25
20 12 0.25
21 2 0.04
22 13 0.27
23 8 0.17
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:87458319 original size:23 final size:23
Alignment explanation
Indices: 87458293--87458345 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
87458283 ATAGTAAGTC
87458293 ACATCACTACTTCATGCAATTTG
1 ACATCACTACTTCATGCAATTTG
87458316 ACATCACTACTTCATGCAATTTG
1 ACATCACTACTTCATGCAATTTG
87458339 ACATCAC
1 ACATCAC
87458346 ATCTGTCGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (23 bp):
ACATCACTACTTCATGCAATTTG
Found at i:87459933 original size:35 final size:35
Alignment explanation
Indices: 87459869--87459936 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
87459859 TATATTCAAA
*
87459869 AAAATATATATATCAAATCAAACACATAACATCTT
1 AAAATATATATACCAAATCAAACACATAACATCTT
*
87459904 AAAATAATATATACCATAT-AAAC-CTATAACATC
1 AAAAT-ATATATACCAAATCAAACAC-ATAACATC
87459937 CTGTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (35 bp):
AAAATATATATACCAAATCAAACACATAACATCTT
Found at i:87462556 original size:30 final size:31
Alignment explanation
Indices: 87462516--87462576 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
87462506 AAGATTTTTT
87462516 TTATGTTTTATA-T-ATTATAATGATTATTA
1 TTATGTTTTATATTAATTATAATGATTATTA
*
87462545 TTATGGTTTTATATTAAATTATTATGATTATT
1 TTAT-GTTTTATATT-AATTATAATGATTATT
87462577 TAATTGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 4 0.15
30 8 0.30
31 1 0.04
33 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (31 bp):
TTATGTTTTATATTAATTATAATGATTATTA
Found at i:87462933 original size:14 final size:14
Alignment explanation
Indices: 87462908--87462941 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
87462898 AAAGAATTAA
87462908 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
87462922 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
87462936 AGAAAC
1 AGAAAC
87462942 GAAGCAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:87463959 original size:39 final size:40
Alignment explanation
Indices: 87463849--87463959 Score: 93
Period size: 38 Copynumber: 2.8 Consensus size: 40
87463839 GACCTCGAGT
* * **
87463849 CGATGAGACATTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
87463890 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
*
87463928 CGATGAGACACTGGGTGTCAACTATTGCTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
87463960 AACTATTCGA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
38 19 0.35
39 18 0.33
40 1 0.02
41 14 0.26
42 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:87464803 original size:3 final size:3
Alignment explanation
Indices: 87464795--87464831 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
87464785 TTTTTTACAA
*
87464795 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
87464832 CGAAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:87471495 original size:46 final size:46
Alignment explanation
Indices: 87471442--87471617 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87471432 TATTTGGGCA
87471442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87471488 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
87471533 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87471581 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87471618 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87471597 original size:93 final size:93
Alignment explanation
Indices: 87471438--87471610 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
87471428 GGGATATTTG
* *
87471438 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
87471503 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
87471531 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
87471596 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
87471611 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:87473321 original size:14 final size:14
Alignment explanation
Indices: 87473296--87473329 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
87473286 AAAGAATCAA
87473296 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
87473310 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
87473324 AGAAAC
1 AGAAAC
87473330 GAAGCAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:87474347 original size:39 final size:39
Alignment explanation
Indices: 87474237--87474371 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
87474227 GACCTCGAGT
* * *
87474237 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
87474278 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
* *
87474316 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
87474355 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
87474372 CCATTTGGTG
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.25
39 35 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:87480021 original size:13 final size:13
Alignment explanation
Indices: 87480003--87480030 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
87479993 ATAAAATTAG
87480003 AAAGATGATAAAT
1 AAAGATGATAAAT
87480016 AAAGATGATAAAT
1 AAAGATGATAAAT
87480029 AA
1 AA
87480031 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:87490448 original size:46 final size:44
Alignment explanation
Indices: 87490352--87490558 Score: 193
Period size: 46 Copynumber: 4.5 Consensus size: 44
87490342 GCCCATGCCG
* *
87490352 TGTCCCAGACATGGTCTTACACTGACACATCTC-ATAGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTCATCTCGA-GGCCGATGCA
*
87490397 TGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAC-T-CATCTCGAGGCCGATGCA
* * * * *
87490443 CGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCCATGCGA
1 TGTCCCAGACATGTCTTACACT-G-ACTCATCTCGAGGCCGATGC-A
* * *
87490490 TGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTCATC-T--CGAGGCCGATGCA
*
87490537 TGTTCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
87490559 AGCTCACAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
44 13 0.09
45 14 0.10
46 63 0.46
47 28 0.20
48 19 0.14
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGACTCATCTCGAGGCCGATGCA
Found at i:87490531 original size:94 final size:94
Alignment explanation
Indices: 87490301--87490566 Score: 264
Period size: 94 Copynumber: 2.9 Consensus size: 94
87490291 GTGCCGATAA
* * * *
87490301 CATGTCTCAGACATGGTCTTACA-TAAGCTCTAGCATATTGT-GCCCATGC-CGTGTCCCAGACA
1 CATGTCCCAGACATGGTCTTACACT-GGCTCTA-CATAATGTGGCCGATGCAC--GTCCCAGACA
*
87490363 TGGTCTTACACT-G-ACACATCTCATAGCCGATG
62 T-GTCTTACACTAGCACACATCTCATAGCCCATG
* * * *
87490395 CATGTCCCAGACAT-GTCTTACACTGACT-TACGT-CTCGAGGCCGATGCACGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATAAT-GTGGCCGATGCACGTCCCAGACATGT
* *
87490457 CTTACACTAGCACTCGTCTCA-ATGCCCATG
65 CTTACACTAGCACACATCTCATA-GCCCATG
* *
87490487 CGATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTTCCAGACATGT
1 C-ATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGTGGCCGATGCACGTCCCAGACATGT
*
87490551 CTTACACTAGCTCACA
65 CTTACACTAGCACACA
87490567 ATAACCCATA
Statistics
Matches: 142, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
90 11 0.08
91 16 0.11
92 24 0.17
93 24 0.17
94 65 0.46
95 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGTGGCCGATGCACGTCCCAGACATGTC
TTACACTAGCACACATCTCATAGCCCATG
Found at i:87492060 original size:45 final size:45
Alignment explanation
Indices: 87491996--87492089 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
87491986 ATAGCTTGGC
87491996 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
1 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
87492041 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
1 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
87492086 TATG
1 TATG
87492090 TAAGACCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (45 bp):
TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
Found at i:87492201 original size:27 final size:28
Alignment explanation
Indices: 87492130--87492201 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
87492120 AGAGCTCGTC
*
87492130 AGGACAGTAAACAT-GGGATAGTCCACT
1 AGGACAATAAACATGGGGATAGTCCACT
* * * **
87492157 GGGAAAATAAACACGGGGA-AGTCCGTT
1 AGGACAATAAACATGGGGATAGTCCACT
87492184 AGGACAATAAACATGGGG
1 AGGACAATAAACATGGGG
87492202 CATGAAGAGT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 31 0.89
28 4 0.11
ACGTcount: A:0.39, C:0.15, G:0.31, T:0.15
Consensus pattern (28 bp):
AGGACAATAAACATGGGGATAGTCCACT
Found at i:87504957 original size:16 final size:18
Alignment explanation
Indices: 87504936--87504968 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
87504926 AATTAGGAAT
87504936 AAAATT-ATTT-TTTAAA
1 AAAATTAATTTATTTAAA
87504952 AAAATTAATTTATTTAA
1 AAAATTAATTTATTTAA
87504969 TATTGAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAATTAATTTATTTAAA
Found at i:87509740 original size:20 final size:21
Alignment explanation
Indices: 87509712--87509762 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
87509702 ATATAAAATA
*
87509712 ATTACTTTTAT-AATAATATTT
1 ATTA-TTTTATAAAAAATATTT
87509733 ATTATTTT-TAAAAAATATTT
1 ATTATTTTATAAAAAATATTT
* *
87509753 TTTAATTTAT
1 ATTATTTTAT
87509763 CTATTTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATTTTATAAAAAATATTT
Found at i:87509760 original size:21 final size:21
Alignment explanation
Indices: 87509712--87509752 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
87509702 ATATAAAATA
* *
87509712 ATTACTTTTATAATAATATTT
1 ATTATTTTTATAAAAATATTT
87509733 ATTATTTTTA-AAAAATATTT
1 ATTATTTTTATAAAAATATTT
87509753 TTTAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTTTTATAAAAATATTT
Found at i:87511104 original size:5 final size:5
Alignment explanation
Indices: 87511094--87511118 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
87511084 AATTTTCACC
87511094 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
87511119 GAGAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:87511441 original size:87 final size:87
Alignment explanation
Indices: 87511288--87511448 Score: 189
Period size: 87 Copynumber: 1.9 Consensus size: 87
87511278 GATTTCGCCA
* * * * * *
87511288 TTCCTAGTACTGACATTTCGTGCAGACTTCAAGCCTGCTTGATATGTGTTTCATTTTGGATCGCC
1 TTCCTAGTACTAACATTTCGTGCAGACTTCAAGACTGCTTGACACGTGTTTCACTCTGGATCGCC
*
87511353 TACGGAGCATGCGGTCCTCTTG
66 TACGAAGCATGCGGTCCTCTTG
* ** * * *
87511375 TTCCTAGTACTAACATTTTGTGTGGACTTCAGGACTG-TTGGACACGTGTTTCACTCTGGGTTGC
1 TTCCTAGTACTAACATTTCGTGCAGACTTCAAGACTGCTT-GACACGTGTTTCACTCTGGATCGC
87511439 CTACGAAGCA
65 CTACGAAGCA
87511449 CACGGTCCCC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
86 2 0.03
87 58 0.97
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (87 bp):
TTCCTAGTACTAACATTTCGTGCAGACTTCAAGACTGCTTGACACGTGTTTCACTCTGGATCGCC
TACGAAGCATGCGGTCCTCTTG
Found at i:87516073 original size:50 final size:50
Alignment explanation
Indices: 87515895--87516438 Score: 572
Period size: 50 Copynumber: 10.8 Consensus size: 50
87515885 TCCGTTGTGA
*
87515895 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* * * * * * * *
87515945 GTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACTC--CTTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATT--GTTAG
* * * * * * * *
87515996 ATCACATGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGCTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
*
87516046 GTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* * * * * * *
87516096 GTCGCATGTGTAGTATTAAGTGCAAGCTACTATGTGTACCCA-ATAGCTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAG
* * *
87516147 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* *
87516197 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* * **** * * *
87516247 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATACATACCCGATAGCTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAG
* * * * *
87516298 ATCACGTGTATAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
87516348 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* * * * *
87516398 GTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
87516439 AAGAGCTTCA
Statistics
Matches: 401, Mismatches: 84, Indels: 18
0.80 0.17 0.04
Matches are distributed among these distances:
49 2 0.00
50 284 0.71
51 114 0.28
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
Found at i:87516076 original size:101 final size:100
Alignment explanation
Indices: 87515896--87516438 Score: 500
Period size: 101 Copynumber: 5.4 Consensus size: 100
87515886 CCGTTGTGAG
* * * * *
87515896 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGCTAGGTCACGTGTGTAGTAC
* * * *
87515961 TAAGTGCAGGCTACTATGCGTACTCCTTAACTTCGA
66 TAAGTGCAGGCTACTACGCGTAC-CCATAGCTTAGA
* * * * * *
87515997 TCACATGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGCTAAGTCACGTATGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGCTAGGTCACGTGTGTAGTAC
* * * *
87516062 TAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGG
66 TAAGTGCAGGCTACTACGCGTACC-CATAGCTTAGA
* * * * * * * *
87516097 TCGCATGTGTAGTATTAAGTGCAAGCTACTATGTGTACCCA-ATAGCTTCGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATGGC-TAGGTCACGTGTGTAGT
* * * * *
87516161 ACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGG
64 ACTAAGTGCAGGCTACTACGCGTACCCATA-GCTTAGA
* * * * * *
87516198 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGCTAGGTCACGTGTGTAGTAC
** * *
87516263 TAAGTGCAGGCTACTATACATACCCGATAGCTTCGA
66 TAAGTGCAGGCTACTACGCGTACCC-ATAGCTTAGA
* * * *
87516299 TCACGTGTATAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGCTAGGTCACGTGTGTAGTAC
* * * *
87516364 TAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGG
66 TAAGTGCAGGCTACTACGCGTACC-CATAGCTTAGA
* * * * *
87516399 TCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
87516439 AAGAGCTTCA
Statistics
Matches: 356, Mismatches: 77, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
99 1 0.00
100 113 0.32
101 240 0.67
102 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGCTAGGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCATAGCTTAGA
Found at i:87516174 original size:151 final size:151
Alignment explanation
Indices: 87515894--87516447 Score: 876
Period size: 151 Copynumber: 3.7 Consensus size: 151
87515884 ATCCGTTGTG
* *
87515894 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
* * * * *
87515959 ACTAAGTGCAGGCTACTATGCGTACTCC-TTAACTTCGATCACATGTGTAGTACTAAATGTAGGC
66 ACTAAGTGCAGGCTACTATGCGTAC-CCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGC
*
87516023 TACTACGTGTATCAGATGGCTA
130 TACTACGTGTATCAGATGGTTA
*
87516045 AGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
* * *
87516110 ATTAAGTGCAAGCTACTATGTGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
87516175 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
87516196 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
* * * *
87516261 ACTAAGTGCAGGCTACTATACATACCCGATAGCTTCGATCACGTGTATAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
*
87516326 ACTATGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* *
87516347 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATATGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
* *
87516412 ACTAAGTGCAGGCTACTATGCGTACCAAAGAGCTTC
66 ACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTC
87516448 AGTTACAAGG
Statistics
Matches: 370, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
150 2 0.01
151 368 0.99
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
ACTACGTGTATCAGATGGTTA
Found at i:87517345 original size:180 final size:180
Alignment explanation
Indices: 87516993--87517354 Score: 487
Period size: 180 Copynumber: 2.0 Consensus size: 180
87516983 ACATCTGAGA
* *
87516993 TCTGTACCATGCGATAAATAATTTTTAGTGAAGAAAGGTCAGAACTTTCAGATAGTGAAATATGG
1 TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCAGAACTTTCAGATAGTGAAATAGGG
* * * * *
87517058 GTATCTTTAATGAATAAATTTTACTAATTGGATAATCCAAAAATTCTGAAAATTTTATGTTAAGC
66 GTATCTTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGATAAGA
* *
87517123 ATATATATGAGTATAGTTTCTGGAAAAATTAGCGGTTCTTAATTTGGAGT
131 ATATATATGAGTATAGTTTCTGGAAAAATTAGCGGATCTTAATTTGAAGT
* * ** *
87517173 TCTGTATCATGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTATT-TGATAGTGAAATAGG
1 TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCAGAACT-TTCAGATAGTGAAATAGG
* * * *
87517237 GGTATTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTTTGAAAATTTTATGATAAG
65 GGTATCTTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGATAAG
* * *
87517302 AATATATGTGAGTCTAGTTT-TGGGGAAAATTTA-CGGATCTTAATTTGAAGT
130 AATATATATGAGTATAGTTTCT--GGAAAAATTAGCGGATCTTAATTTGAAGT
87517353 TC
1 TC
87517355 CGTAGCTCCA
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
179 1 0.01
180 146 0.92
181 11 0.07
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.37
Consensus pattern (180 bp):
TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCAGAACTTTCAGATAGTGAAATAGGG
GTATCTTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGATAAGA
ATATATATGAGTATAGTTTCTGGAAAAATTAGCGGATCTTAATTTGAAGT
Found at i:87531545 original size:27 final size:27
Alignment explanation
Indices: 87531507--87531559 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
87531497 AAAAATATGG
87531507 GTGAAGGGTACCCCACAGGCGGCACCA
1 GTGAAGGGTACCCCACAGGCGGCACCA
*
87531534 GTGAAGGGTACCCTACAGGCGGCACC
1 GTGAAGGGTACCCCACAGGCGGCACC
87531560 GCTGACTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.32, G:0.34, T:0.09
Consensus pattern (27 bp):
GTGAAGGGTACCCCACAGGCGGCACCA
Found at i:87531704 original size:6 final size:6
Alignment explanation
Indices: 87531695--87531753 Score: 79
Period size: 6 Copynumber: 10.2 Consensus size: 6
87531685 AAGAAAGGGG
*
87531695 GAAGGA GAAG-A GAAAGA- GAA-AA GAAGAA GAAGAA GAAGAA GAAGAA
1 GAAGAA GAAGAA G-AAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
87531741 GAAGAA GAAGAA G
1 GAAGAA GAAGAA G
87531754 GAGTAGGCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.02
5 7 0.14
6 41 0.84
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GAAGAA
Found at i:87531723 original size:3 final size:3
Alignment explanation
Indices: 87531711--87531753 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
87531701 GAAGAGAAAG
87531711 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
87531754 GAGTAGGCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87531791 original size:6 final size:6
Alignment explanation
Indices: 87531780--87531810 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
87531770 TGAGGGAAGA
*
87531780 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
87531811 GAAGGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:87531805 original size:18 final size:18
Alignment explanation
Indices: 87531782--87531828 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
87531772 AGGGAAGAAA
87531782 AAAGAAAAAGAAAAAGAG
1 AAAGAAAAAGAAAAAGAG
* *
87531800 AAAGAAAAAGAGAAGGAG
1 AAAGAAAAAGAAAAAGAG
*
87531818 -AAGAAGAAGAA
1 AAAGAAAAAGAA
87531829 GAGGGAGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGAG
Found at i:87531811 original size:12 final size:12
Alignment explanation
Indices: 87531780--87531813 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
87531770 TGAGGGAAGA
*
87531780 AAAAAGAAAAAG
1 AAAAAGAGAAAG
87531792 AAAAAGAGAAAG
1 AAAAAGAGAAAG
87531804 AAAAAGAGAA
1 AAAAAGAGAA
87531814 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:87532289 original size:14 final size:15
Alignment explanation
Indices: 87532265--87532293 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87532255 AGAATAGCTT
87532265 AATAGTATATTTTAA
1 AATAGTATATTTTAA
87532280 AATA-TATATTTTAA
1 AATAGTATATTTTAA
87532294 GAAATTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
AATAGTATATTTTAA
Found at i:87532968 original size:281 final size:287
Alignment explanation
Indices: 87532302--87533454 Score: 1519
Period size: 286 Copynumber: 4.0 Consensus size: 287
87532292 AAGAAATTCG
* * * * *
87532302 AAAATAAA-AAAAGGTCAAAATCAGAGTTTTTTTACTAAATTAATATAAATATACTAAAATAATA
1 AAAATAAATAAAAGGCCAAAATCACAG-ATTTTTACTAAATTAATATAAAAAAACTAAAATAATA
* *
87532366 CATATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATAGTATATTTTGAAAAA
65 CATATGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
* * * *
87532431 TAAAATCTGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAA
130 TAAAACCTGAAAATAAAA-AATAAA-AAA-GGCCAAAATCAGAGTTTTTTTCTAAATTAATATAA
87532496 AAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAA
192 AAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAA
*
87532561 ATAATATATTTTAAAATAAAAAATTCGAAAAC
257 ATAATATATTTTAAAA-AAAAAATCCGAAAAC
* *
87532593 AAAATAAAGAAAAGGCCAAAACCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
1 AAAATAAATAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
* *
87532658 --ATGAAACATTATGTACTAAAATAATAT-AAAA-AAAATACGAAAATAATATATCTTAAAAAAT
66 ATATGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
87532719 -AAACCTGAAAAT-AAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAA
131 AAAACCTGAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAA
* * * *
87532782 ATTAAAATAATAAATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACG-AAA-AG
196 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAA
87532845 TATATTTTAAAAAATAAAATCCGAAAAC
261 TATATTTTAAAAAA-AAAATCCGAAAAC
87532873 AAAATAAATAAAATGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATA
1 AAAATAAATAAAA-GGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATA
*
87532938 -A-ATGAAACATTATGTACTATAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAA
65 CATATGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAA
* * * * *
87533001 ATAAAATC-GAAAATAAAAAATAAAAAGGGCCAAAATCAGAGATTTTTTTCTATAGTCATATAAA
129 ATAAAACCTGAAAATAAAAAATAAAAAAGGCCAAAATCAGAG-TTTTTTTCTAAATTAATATAAA
* * *
87533065 AAAACTAAAGTAATACATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGAAA
193 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA-ATAAAATACGAAA
*
87533130 ATAGTATATTTT---AAAAAAAT---AAAA-
257 ATAATATATTTTAAAAAAAAAATCCGAAAAC
* * * * *
87533154 TAAA-AAATAAACGGCTAAAATCAGAG-TTTTTATTAAATTAATATAAAAAAACTAAAATAATAC
1 AAAATAAATAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
* * * * *
87533217 ATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTTTATTTTAAAAAG
66 ATATGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAA
* * *
87533282 TAAAATCCGAGAATAAAATAAAAAA-ACAAAAGGTCAAAATCAGAGTTTTTTAT-TAAATTAATA
130 TAAAA-CC-TG---AAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTT-TCTAAATTAATA
* *
87533345 TAAAAAAATACAAAAATAATACATTTGAAATATTATGTACTAAAATAATAT--AAAAATAAAATA
189 T-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATA
* * *
87533408 CAAAAATAATATATTTTAAAATATAAAATCCGAAAAT
252 CGAAAATAATATATTTTAAAA-AAAAAATCCGAAAAC
87533445 AAAATAAATA
1 AAAATAAATA
87533455 CCAAAATATA
Statistics
Matches: 769, Mismatches: 60, Indels: 65
0.86 0.07 0.07
Matches are distributed among these distances:
278 35 0.05
279 15 0.02
280 106 0.14
281 83 0.11
282 96 0.12
283 31 0.04
284 57 0.07
285 61 0.08
286 129 0.17
287 43 0.06
288 7 0.01
289 36 0.05
290 4 0.01
291 46 0.06
292 20 0.03
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (287 bp):
AAAATAAATAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
ATATGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
AAAACCTGAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAA
ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAA
TATATTTTAAAAAAAAAATCCGAAAAC
Found at i:87533446 original size:149 final size:147
Alignment explanation
Indices: 87532302--87533452 Score: 1124
Period size: 146 Copynumber: 8.0 Consensus size: 147
87532292 AAGAAATTCG
* * * *
87532302 AAAATAAA-AAAAGG-TCAAAATCAGAGTTTTTTTACTAAATTAATATAAATATACTAAAATAAT
1 AAAA-AAACAAAAGGCT-AAAATCAGAG--TTTTTATTAAATTAATATAAAAAAACAAAAATAAT
* * *
87532365 ACATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGTATATTTTGAAA
62 ACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTT-AAA
*
87532429 AA-TAAAATCTGAAAATAAAAT
126 AAGTAAAATCCGAAAATAAAAT
* * * * *
87532450 -AAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACA
1 AAAAAAACAAAAGGCTAAAATCAG-AGTTTTTATTAAATTAATATAAAAAAACAAAAATAATACA
*
87532514 TTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAATA
65 TTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACAAAAATAATATATTTTAAAA-A
* * *
87532579 -AAAAATTCGAAAACAAAAT
128 GTAAAATCCGAAAATAAAAT
* * * * * *
87532598 ----AAAGAAAAGGCCAAAACCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATACA
1 AAAAAAACAAAAGGCTAAAATCAGAG-TTTTTATTAAATTAATATAAAAAAACAAAAATAATACA
* * *
87532659 --TGAAACATTATGTACTAAAATAATAT--AAAA-AAAATACGAAAATAATATATCTTAAAAAAT
65 TTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAAGT
87532719 -AAA-CCTGAAAAT---A-
130 AAAATCC-GAAAATAAAAT
* * * ** *
87532732 AAAATAA-AAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAAATTAAAATAATAAA
1 AAAAAAACAAAAGGCTAAAATCAGAGTTTTTAT-TAAATTAATATAAAAAAACAAAAATAATACA
* * * *
87532796 TTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATAC-GAAA-AGTATATTTTAAAAAA
65 TTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACAAAAATAATATATTTTAAAAAG
*
87532859 TAAAATCCGAAAACAAAAT
129 TAAAATCCGAAAATAAAAT
* * * * * *
87532878 --AAATA-AAATGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATA-A
1 AAAAAAACAAAAGGCTAAAATCAGAG-TTTTTATTAAATTAATATAAAAAAACAAAAATAATACA
* * * * *
87532939 -ATGAAACATTATGTACTATAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
65 TTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAAGT
87533003 AAAAT-CGAAAAT--AA-
130 AAAATCCGAAAATAAAAT
* * * * * * * * *
87533017 AAAATAA-AAAGGGCCAAAATCAGAGATTTTTTTCTATAGTCATATAAAAAAACTAAAGTAATAC
1 AAAAAAACAAAAGGCTAAAATCAGAG-TTTTTAT-TAAATTAATATAAAAAAACAAAAATAATAC
* * * *
87533081 ATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGAAAATAGTATATTTT--AA
64 ATTTGAAACATTATGTACTAAAATAATAT-AAAAA-ATAAAATACAAAAATAATATATTTTAAAA
87533144 A--AAAAT---AAAAT-AAA-
127 AGTAAAATCCGAAAATAAAAT
* *
87533158 AAATAAAC----GGCTAAAATCAGAGTTTTTATTAAATTAATATAAAAAAACTAAAATAATACAT
1 AAAAAAACAAAAGGCTAAAATCAGAGTTTTTATTAAATTAATATAAAAAAACAAAAATAATACAT
* ** * *
87533219 TTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTTTATTTTAAAAAGTA
66 TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAAGTA
*
87533284 AAATCCGAGAATAAAAT
131 AAATCCGAAAATAAAAT
87533301 AAAAAAACAAAAGG-TCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAAATACAAAAATAAT
1 AAAAAAACAAAAGGCT-AAAATCAGAG-TTTTTATTAAATTAATAT-AAAAAA-ACAAAAATAAT
*
87533365 ACATTTGAAATATTATGTACTAAAATAATAT-AAAAATAAAATACAAAAATAATATATTTTAAAA
62 ACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAA
87533429 TA-TAAAATCCGAAAATAAAAT
127 -AGTAAAATCCGAAAATAAAAT
87533450 AAA
1 AAA
87533453 TACCAAAATA
Statistics
Matches: 866, Mismatches: 81, Indels: 111
0.82 0.08 0.10
Matches are distributed among these distances:
134 23 0.03
135 6 0.01
136 60 0.07
137 52 0.06
138 29 0.03
139 51 0.06
140 11 0.01
141 65 0.08
142 81 0.09
143 66 0.08
144 74 0.09
145 65 0.08
146 91 0.11
147 32 0.04
148 64 0.07
149 56 0.06
150 40 0.05
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (147 bp):
AAAAAAACAAAAGGCTAAAATCAGAGTTTTTATTAAATTAATATAAAAAAACAAAAATAATACAT
TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAAGTA
AAATCCGAAAATAAAAT
Found at i:87533452 original size:54 final size:52
Alignment explanation
Indices: 87533341--87533452 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 52
87533331 TTATTAAATT
* * * ** *
87533341 AATATAAAAAAATACAAAAATAATACATTTGAAATATTATGTACTAAAATAA
1 AATAAAAAAAAATACAAAAATAATACATTTAAAATATAAAATACGAAAATAA
* * *
87533393 TATAAAAATAAAATACAAAAATAATATATTTTAAAATATAAAATCCGAAAATAA
1 AATAAAAA-AAAATACAAAAATAATACA-TTTAAAATATAAAATACGAAAATAA
87533447 AATAAA
1 AATAAA
87533453 TACCAAAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
52 6 0.12
53 18 0.38
54 24 0.50
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (52 bp):
AATAAAAAAAAATACAAAAATAATACATTTAAAATATAAAATACGAAAATAA
Found at i:87539989 original size:27 final size:27
Alignment explanation
Indices: 87539959--87540036 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
87539949 AAAAGGCACC
87539959 ACTGGTGCCGCCTGTGGGGTACCCTCA
1 ACTGGTGCCGCCTGTGGGGTACCCTCA
* ** *
87539986 ACTGGTGCTGCCTGTGGAATACCCTCC
1 ACTGGTGCCGCCTGTGGGGTACCCTCA
87540013 ACTGGTGCCGCCTGT-GGGTACCCT
1 ACTGGTGCCGCCTGTGGGGTACCCT
87540037 TCACCCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 7 0.16
27 37 0.84
ACGTcount: A:0.12, C:0.33, G:0.31, T:0.24
Consensus pattern (27 bp):
ACTGGTGCCGCCTGTGGGGTACCCTCA
Found at i:87542055 original size:27 final size:28
Alignment explanation
Indices: 87542012--87542073 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
87542002 AAACAACATT
* *
87542012 AAAA-ATAATAGAAAATACAA-AATTTA
1 AAAATATAATAGAAAATAAAATAATATA
* *
87542038 AAAATATAATATATAATAAAATAATATA
1 AAAATATAATAGAAAATAAAATAATATA
87542066 AATAATAT
1 AA-AATAT
87542074 TTTTGAAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.14
27 13 0.45
28 7 0.24
29 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAATATAATAGAAAATAAAATAATATA
Found at i:87542714 original size:13 final size:13
Alignment explanation
Indices: 87542696--87542722 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87542686 GACGTAATCG
87542696 CACACGGGCGTGT
1 CACACGGGCGTGT
87542709 CACACGGGCGTGT
1 CACACGGGCGTGT
87542722 C
1 C
87542723 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:87543620 original size:17 final size:17
Alignment explanation
Indices: 87543598--87543632 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
87543588 TACTTTTAGT
87543598 TCCTTTGGGTTCAACAA
1 TCCTTTGGGTTCAACAA
*
87543615 TCCTTTGGGTTTAACAA
1 TCCTTTGGGTTCAACAA
87543632 T
1 T
87543633 AGTTAGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (17 bp):
TCCTTTGGGTTCAACAA
Found at i:87545912 original size:12 final size:12
Alignment explanation
Indices: 87545895--87545919 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87545885 TGTTTTAGAC
87545895 ATTGAAGAGGGT
1 ATTGAAGAGGGT
87545907 ATTGAAGAGGGT
1 ATTGAAGAGGGT
87545919 A
1 A
87545920 GTAACGCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (12 bp):
ATTGAAGAGGGT
Found at i:87552042 original size:11 final size:11
Alignment explanation
Indices: 87552010--87552042 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
87552000 TATGCTAGGT
87552010 TTTATAGAAGA
1 TTTATAGAAGA
87552021 TTTATTA-AAGA
1 TTTA-TAGAAGA
87552032 TTTATAGAAGA
1 TTTATAGAAGA
87552043 GATAAGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (11 bp):
TTTATAGAAGA
Found at i:87552643 original size:16 final size:16
Alignment explanation
Indices: 87552622--87552655 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
87552612 GAAGATCTTA
*
87552622 GAACACTGCCACTCAG
1 GAACACTACCACTCAG
87552638 GAACACTACCACTCAG
1 GAACACTACCACTCAG
87552654 GA
1 GA
87552656 CCAACTGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.12
Consensus pattern (16 bp):
GAACACTACCACTCAG
Found at i:87554288 original size:13 final size:13
Alignment explanation
Indices: 87554266--87554305 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
87554256 GACGCGATCC
87554266 ACACGGGCGTGTG
1 ACACGGGCGTGTG
*
87554279 ACATGGGCGTGTG
1 ACACGGGCGTGTG
87554292 ACACGGGCGTGTG
1 ACACGGGCGTGTG
87554305 A
1 A
87554306 GATTAGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.45, T:0.17
Consensus pattern (13 bp):
ACACGGGCGTGTG
Found at i:87556301 original size:13 final size:13
Alignment explanation
Indices: 87556283--87556309 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87556273 GAAGTAATCG
87556283 CACACGGGCGTGT
1 CACACGGGCGTGT
87556296 CACACGGGCGTGT
1 CACACGGGCGTGT
87556309 C
1 C
87556310 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:87557083 original size:13 final size:13
Alignment explanation
Indices: 87557065--87557090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87557055 CTGTGCACCC
87557065 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
87557078 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
87557091 ACAAATCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:87557938 original size:32 final size:32
Alignment explanation
Indices: 87557902--87557965 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
87557892 ACAACTAGGT
87557902 CCAATTGTCTATTTCATTAGTTTTTGATTTTA
1 CCAATTGTCTATTTCATTAGTTTTTGATTTTA
87557934 CCAATTGTCTATTTCATTAGTTTTTGATTTTA
1 CCAATTGTCTATTTCATTAGTTTTTGATTTTA
87557966 TGGGTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.56
Consensus pattern (32 bp):
CCAATTGTCTATTTCATTAGTTTTTGATTTTA
Found at i:87560066 original size:15 final size:15
Alignment explanation
Indices: 87560046--87560077 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
87560036 CTTTGAAATG
87560046 AATAGTAAATTATAT
1 AATAGTAAATTATAT
87560061 AATAGTAAATTATAT
1 AATAGTAAATTATAT
87560076 AA
1 AA
87560078 ATTAACTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AATAGTAAATTATAT
Found at i:87566600 original size:69 final size:69
Alignment explanation
Indices: 87566413--87567361 Score: 705
Period size: 69 Copynumber: 13.7 Consensus size: 69
87566403 TGTAACTCTT
* * ** * * *
87566413 GCTAATTGTGTTGGAGGCTGCAATTTTAATCCTACGAGCCTTATTATGATAGCTGGGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
*
87566478 TCTC
66 TTTC
* * * * **
87566482 GCTAACTGTGTTGGAGGATA-TGATTTAATCCTGCGAGCCTTAGTATGACAACTAAGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
87566546 TTTC
66 TTTC
* * * * *
87566550 GCTAATTATGTTGGAGGCTACAGTTTTAATCCTGCAAGCCTTAGTATGACAGTTGGGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
87566615 TCTT-
66 T-TTC
* ** * *
87566619 GCTAACTATGTTGGAGGCTGTGGTTTTAATCCTGCAAGCCTTAGTATGACAGTTGGGAGC-TTGC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
87566683 TCTT-
66 T-TTC
* * * * * * * * * *
87566687 GCTAACCGTGTTGGAGCCTATGATTTTTTATCCTACTAGTCTTATTATGACAGTTGGGAGCTTTG
1 GCTAACTGTGTTGGAGGCTACG-GTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTG
87566752 CTTTC
65 CTTTC
* * * * *** * * *
87566757 GTTAACTGTGTTGAAGGCTACGATATTAATCCTATAAGCTTTAGTATGATAGCTGGGAGCTTTGA
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
*
87566822 TCTC
66 TTTC
* * * * ** * *
87566826 ACTGACTATGTTAGAGGCTGTGGTTTTAATCCTGCGAGCCCTAAT-TGGACAGCTGGGAGCTTTG
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTAT-GACAGCTGGGAGCTTTG
*
87566890 CTATC
65 CTTTC
* * * * *
87566895 GTTAACTGTGTTGGA-GCTACGGTTTTAATCCCGCGAGCCTTAGTATGATAGTTGGGAACTTTGC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
87566959 TCTT-
66 T-TTC
* * * * ** * ** * * * *
87566963 GCTAAATATGCTGGAGGTTGTGGTTTTTTATCCTATGATCCTTATTATAAGAGCTGGGAGCTTTG
1 GCTAACTGTGTTGGAGGCTACGG-TTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTG
*
87567028 CTCTC
65 CTTTC
* * * * * * * *
87567033 ACTAACTGTGTCGGAAGCTATGGTTTTTAATCCCGCGACCCTTTA-TACGACAACTGGGAG-TTC
1 GCTAACTGTGTTGGAGGCTACGG-TTTTAATCCTGCGAGCC-TTAGTATGACAGCTGGGAGCTT-
* *
87567096 TTCTCTC
63 TGCTTTC
* * * * * * * * *
87567103 GCTAATTATGTTGGAAGCTACGGTTTTTATCCTACGAGCCTTATTATGACAGTTGGTAGCTTTTC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
*
87567168 TCTC
66 TTTC
* * * * ** * * **
87567172 GCTAACTATGTTAGAGGGTGCAATTTTTTATCCTGCGAGCCTTATTATGACAAATGGGAGCTTTG
1 GCTAACTGTGTTGGAGGCTAC-GGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTG
87567237 CTCTT-
65 CT-TTC
* * * * ** *
87567242 GCTAACTGTGTTGGTGGCTGCGGTTTTAATCCTGTGAGCCTTATTATGACAAATGAGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
87567307 TCTT-
66 T-TTC
* *
87567311 GCTAACTGTGTTGGGGGCTACAGTTTTAATCCTGCGAGCCTTAGTATGACA
1 GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACA
87567362 CAAATGTTGT
Statistics
Matches: 700, Mismatches: 163, Indels: 34
0.78 0.18 0.04
Matches are distributed among these distances:
68 136 0.19
69 383 0.55
70 177 0.25
71 4 0.01
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (69 bp):
GCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAGCTGGGAGCTTTGC
TTTC
Found at i:87566743 original size:138 final size:138
Alignment explanation
Indices: 87566408--87567361 Score: 824
Period size: 138 Copynumber: 6.9 Consensus size: 138
87566398 AAGTTTGTAA
* * **** *
87566408 CTCTTGCTAATTGTGTTGGAGGCTGCAATTTTAATCCTACGAGCCTTATTATGATAGCTGGGAGC
1 CTCTTGCTAACTATGTTGGAGGCTATGGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAGC
* * * **
87566473 TTTGCTCTCGCTAACTGTGTTGGAGGATA-TGATTTAATCCTGCGAGCCTTAGTATGACAACTAA
66 TTTGCTCTCGCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACTGG
87566537 GAGCTTTG
131 GAGCTTTG
* ** * * * *
87566545 CT-TTCGCTAATTATGTTGGAGGCTACAGTTTTAATCCTGCAAGCCTTAGTATGACAGTTGGGAG
1 CTCTT-GCTAACTATGTTGGAGGCTATGGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
* * ** * **
87566609 CTTTGCTCTTGCTAACTATGTTGGAGGCTGTGGTTTTAATCCTGCAAGCCTTAGTATGACAGTTG
65 CTTTGCTCTCGCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACTG
87566674 GGAGC-TTG
130 GGAGCTTTG
** * * * * * *
87566682 CTCTTGCTAACCGTGTTGGAGCCTATGATTTTTTATCCTACTAGTCTTATTATGACAGTTGGGAG
1 CTCTTGCTAACTATGTTGGAGGCTATG-GTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
* * * * * *** * * *
87566747 CTTTGCTTTCGTTAACTGTGTTGAAGGCTACGATATTAATCCTATAAGCTTTAGTATGATAGCTG
65 CTTTGCTCTCGCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACTG
87566812 GGAGCTTTG
130 GGAGCTTTG
* ** * * * * * *
87566821 ATCTCACTGACTATGTTAGAGGCTGTGGTTTTAATCCTGCGAGCCCTAATT-GGACAGCTGGGAG
1 CTCTTGCTAACTATGTTGGAGGCTATGGTTTTAATCCTACGAG-CCTTATTATGACAGCTGGGAG
* * * * **
87566885 CTTTGCTATCGTTAACTGTGTTGGA-GCTACGGTTTTAATCCCGCGAGCCTTAGTATGATAGTTG
65 CTTTGCTCTCGCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACTG
*
87566949 GGAACTTTG
130 GGAGCTTTG
* * * * * * * * *
87566958 CTCTTGCTAAATATGCTGGAGGTTGTGGTTTTTTATCCTATGATCCTTATTATAAGAGCTGGGAG
1 CTCTTGCTAACTATGTTGGAGGCTATGG-TTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
* * * * * * *
87567023 CTTTGCTCTCACTAACTGTGTCGGAAGCTATGGTTTTTAATCCCGCGACCCTTTA-TACGACAAC
65 CTTTGCTCTCGCTAACTGTGTTGGAGGCTACGG-TTTTAATCCTGCGAGCC-TTAGTATGACAAC
*
87567087 TGGGAG-TTCTT
128 TGGGAGCTT-TG
* * * * * * *
87567098 CTCTCGCTAATTATGTTGGAAGCTACGGTTTTTATCCTACGAGCCTTATTATGACAGTTGGTAGC
1 CTCTTGCTAACTATGTTGGAGGCTATGGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAGC
* * * * * ** * * *
87567163 TTTTCTCTCGCTAACTATGTTAGAGGGTGCAATTTTTTATCCTGCGAGCCTTATTATGACAAATG
66 TTTGCTCTCGCTAACTGTGTTGGAGGCTAC-GGTTTTAATCCTGCGAGCCTTAGTATGACAACTG
87567228 GGAGCTTTG
130 GGAGCTTTG
* * ** ** ** *
87567237 CTCTTGCTAACTGTGTTGGTGGCTGCGGTTTTAATCCTGTGAGCCTTATTATGACAAATGAGAGC
1 CTCTTGCTAACTATGTTGGAGGCTATGGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAGC
* * *
87567302 TTTGCTCTTGCTAACTGTGTTGGGGGCTACAGTTTTAATCCTGCGAGCCTTAGTATGACA
66 TTTGCTCTCGCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACA
87567362 CAAATGTTGT
Statistics
Matches: 648, Mismatches: 154, Indels: 29
0.78 0.19 0.03
Matches are distributed among these distances:
136 2 0.00
137 165 0.25
138 239 0.37
139 189 0.29
140 50 0.08
141 3 0.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (138 bp):
CTCTTGCTAACTATGTTGGAGGCTATGGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAGC
TTTGCTCTCGCTAACTGTGTTGGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACTGG
GAGCTTTG
Found at i:87566816 original size:207 final size:207
Alignment explanation
Indices: 87566408--87567361 Score: 830
Period size: 207 Copynumber: 4.6 Consensus size: 207
87566398 AAGTTTGTAA
* *** * *
87566408 CTCTTGCTAATTGTGTTGGAGGCTGCAATTTTAATCCTACGAGCCTTATTATGATAGCTGGGAGC
1 CTCTTGCTAACTGTGTTGGAGGCTGTGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGC
* * * * ** **
87566473 TTTGCTCTCGCTAACTGTGTTGGAGGATA-TGATTTAATCCTGCGAGCCTTAGTATGACAACTAA
66 TTTGCTCTCGCTAACTGTGTTGGA-GCTACGGTTTTAATCCTACGAGCCTTAGTATGACAGTTGG
* * *
87566537 GAGCTTTGCTTTCGCTAATTATGTTGGAGGCTAC-AGTTTTAATCCTGCAAGCCTTAGTATGACA
130 GAGCTTTGCTTTCGCTAACTATGTTGAAGGCTACGAGTTTTAATCCTACAAGCCTTAGTATGACA
*
87566601 GTTGGGAGCTTTG
195 GCTGGGAGCTTTG
* * * *
87566614 CTCTTGCTAACTATGTTGGAGGCTGTGGTTTTAATCCTGCAAGCCTTAGTATGACAGTTGGGAGC
1 CTCTTGCTAACTGTGTTGGAGGCTGTGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGC
* * * * * * * *
87566679 -TTGCTCTTGCTAACCGTGTTGGAGCCTATGATTTTTTATCCTACTAGTCTTATTATGACAGTTG
66 TTTGCTCTCGCTAACTGTGTTGGAG-CTACG-GTTTTAATCCTACGAGCCTTAGTATGACAGTTG
* * * * * *
87566743 GGAGCTTTGCTTTCGTTAACTGTGTTGAAGGCTACGA-TATTAATCCTATAAGCTTTAGTATGAT
129 GGAGCTTTGCTTTCGCTAACTATGTTGAAGGCTACGAGTTTTAATCCTACAAGCCTTAGTATGAC
87566807 AGCTGGGAGCTTTG
194 AGCTGGGAGCTTTG
* ** * * * * *
87566821 ATCTCACTGACTATGTTAGAGGCTGTGGTTTTAATCCTGCGAGCCCTAATT-GGACAGCTGGGAG
1 CTCTTGCTAACTGTGTTGGAGGCTGTGGTTTTAATCCTGCGAG-CCTTATTATGACAGCTGGGAG
* * ** *
87566885 CTTTGCTATCGTTAACTGTGTTGGAGCTACGGTTTTAATCCCGCGAGCCTTAGTATGATAGTTGG
65 CTTTGCTCTCGCTAACTGTGTTGGAGCTACGGTTTTAATCCTACGAGCCTTAGTATGACAGTTGG
* * * * * ** * ** * * *
87566950 GAACTTTGCTCTT-GCTAAATATGCTGGAGGTTGTG-GTTTTTTATCCTATGATCCTTATTATAA
130 GAGCTTTGCT-TTCGCTAACTATGTTGAAGGCTACGAG-TTTTAATCCTACAAGCCTTAGTATGA
*
87567013 GAGCTGGGAGCTTTG
193 CAGCTGGGAGCTTTG
** * * * * * * *
87567028 CTCTCACTAACTGTGTCGGAAGCTATGGTTTTTAATCCCGCGACCCTT-TATACGACAACTGGGA
1 CTCTTGCTAACTGTGTTGGAGGCTGTGG-TTTTAATCCTGCGAGCCTTAT-TATGACAGCTGGGA
* * * * *
87567092 G-TTCTTCTCTCGCTAATTATGTTGGAAGCTACGGTTTTTATCCTACGAGCCTTATTATGACAGT
64 GCTT-TGCTCTCGCTAACTGTGTTGG-AGCTACGGTTTTAATCCTACGAGCCTTAGTATGACAGT
* * * * * * * * * * *
87567156 TGGTAGCTTTTCTCTCGCTAACTATGTT-AGAGGGTGCAATTTTTTATCCTGCGAGCCTTATTAT
127 TGGGAGCTTTGCTTTCGCTAACTATGTTGA-AGGCTACGAGTTTTAATCCTACAAGCCTTAGTAT
**
87567220 GACAAATGGGAGCTTTG
191 GACAGCTGGGAGCTTTG
* * * ** *
87567237 CTCTTGCTAACTGTGTTGGTGGCTGCGGTTTTAATCCTGTGAGCCTTATTATGACAAATGAGAGC
1 CTCTTGCTAACTGTGTTGGAGGCTGTGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGC
* * * *
87567302 TTTGCTCTTGCTAACTGTGTTGGGGGCTACAGTTTTAATCCTGCGAGCCTTAGTATGACA
66 TTTGCTCTCGCTAACTGTGTT-GGAGCTACGGTTTTAATCCTACGAGCCTTAGTATGACA
87567362 CAAATGTTGT
Statistics
Matches: 591, Mismatches: 137, Indels: 38
0.77 0.18 0.05
Matches are distributed among these distances:
204 1 0.00
205 23 0.04
206 105 0.18
207 203 0.34
208 141 0.24
209 118 0.20
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (207 bp):
CTCTTGCTAACTGTGTTGGAGGCTGTGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGC
TTTGCTCTCGCTAACTGTGTTGGAGCTACGGTTTTAATCCTACGAGCCTTAGTATGACAGTTGGG
AGCTTTGCTTTCGCTAACTATGTTGAAGGCTACGAGTTTTAATCCTACAAGCCTTAGTATGACAG
CTGGGAGCTTTG
Found at i:87571234 original size:16 final size:16
Alignment explanation
Indices: 87571215--87571247 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
87571205 TCATAAGTCA
87571215 AAAGGATAATAATCTC
1 AAAGGATAATAATCTC
87571231 AAAGGATAATAATCTC
1 AAAGGATAATAATCTC
87571247 A
1 A
87571248 TATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAGGATAATAATCTC
Found at i:87578018 original size:38 final size:39
Alignment explanation
Indices: 87577970--87578047 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
87577960 TCCCTATCCA
* * * *
87577970 TACTTTAAATCTGTTTTATTTTTTAGACTTAATA-TTTT
1 TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
87578008 TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
1 TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
87578047 T
1 T
87578048 GTTCAAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 30 0.86
39 5 0.14
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (39 bp):
TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
Found at i:87580744 original size:55 final size:55
Alignment explanation
Indices: 87580683--87580794 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
87580673 TTATATATGA
* *
87580683 GTTAGCATATTTACTTATTTAGTTGTTTCAATTATCTTCTAATTATTGTCACTAT
1 GTTAGCATATTTACTTACTTAGTTGTTTCAATTATCTTCTAATTATTATCACTAT
* *
87580738 GTTAGCATCTTTGCTTACTTAGTTGTTTCAATTATCTTCTAATTATTATCACTAT
1 GTTAGCATATTTACTTACTTAGTTGTTTCAATTATCTTCTAATTATTATCACTAT
87580793 GT
1 GT
87580795 ATTTTGAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (55 bp):
GTTAGCATATTTACTTACTTAGTTGTTTCAATTATCTTCTAATTATTATCACTAT
Found at i:87583090 original size:18 final size:18
Alignment explanation
Indices: 87583076--87583128 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
87583066 TTATAAATGA
87583076 AATAATTATTTTAAATAT
1 AATAATTATTTTAAATAT
* *
87583094 AATTATTATTTTAATATGT
1 AATAATTATTTTAA-ATAT
*
87583113 AA-AA-TATTTAAAATAT
1 AATAATTATTTTAAATAT
87583129 CATTGTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 3 0.10
17 7 0.24
18 14 0.48
19 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATAATTATTTTAAATAT
Found at i:87586683 original size:19 final size:17
Alignment explanation
Indices: 87586646--87586685 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
87586636 ATGGAAAAAT
*
87586646 AAAGAGAGAAAGTTGAG
1 AAAGAGAGAAAGATGAG
87586663 AAAGAAGAGAAGAGATGAG
1 AAAG-AGAGAA-AGATGAG
87586682 AAAG
1 AAAG
87586686 TTATGGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.07
Consensus pattern (17 bp):
AAAGAGAGAAAGATGAG
Found at i:87587274 original size:22 final size:22
Alignment explanation
Indices: 87587233--87587275 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
87587223 AAAATAATCC
* *
87587233 AAATTAATCAAAATTTATTATA
1 AAATTAATCAAAAATCATTATA
*
87587255 AAATTAATTAAAAATCATTAT
1 AAATTAATCAAAAATCATTAT
87587276 GTTAATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTAATCAAAAATCATTATA
Found at i:87589711 original size:43 final size:43
Alignment explanation
Indices: 87589646--87589810 Score: 160
Period size: 43 Copynumber: 3.8 Consensus size: 43
87589636 TATTGAGATA
*
87589646 TGATTACATGTAAGACCTTGTGTGGGACAGTGGCATTTTATTG
1 TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTTTATTG
* *
87589689 TGATTACATGTAAGACCCTGTGTGGGATAGT-GAATTTGTATTG
1 TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTT-TATTG
* ** * * *
87589732 CGATTATGTGTAAGACCATGTGTGGGACA-TCGACATCGTTA--G
1 TGATTACATGTAAGACCCTGTGTGGGACAGT-GGCAT-TTTATTG
*
87589774 TCGACTT-CGTGTAAGACCCTGTGTGGGACAGTGGCAT
1 T-GA-TTACATGTAAGACCCTGTGTGGGACAGTGGCAT
87589811 CAATATACGA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
42 7 0.07
43 85 0.85
44 7 0.07
45 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTTTATTG
Found at i:87597929 original size:20 final size:19
Alignment explanation
Indices: 87597891--87597932 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
87597881 TTATTTTTAC
87597891 TATAAATATTATGTATATA
1 TATAAATATTATGTATATA
87597910 TATAAATGATTTAT-TATATA
1 TATAAAT-A-TTATGTATATA
87597930 TAT
1 TAT
87597933 TATTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TATAAATATTATGTATATA
Found at i:87598007 original size:20 final size:22
Alignment explanation
Indices: 87597978--87598045 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
87597968 TATGTTTTAT
87597978 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
87597997 TTATATCATTTTACTATATATA
1 TTATATCATTTTACTATATATA
* * * *
87598019 TTAT-TCATTATATTATTTTTA
1 TTATATCATTTTACTATATATA
87598040 TTATAT
1 TTATAT
87598046 TTAATGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:87598042 original size:14 final size:14
Alignment explanation
Indices: 87597995--87598046 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
87597985 TTTTATAATA
*
87597995 TATTATATCA-TTT
1 TATTATATTATTTT
*
87598008 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
87598024 CATTATATTATTTT
1 TATTATATTATTTT
87598038 TATTATATT
1 TATTATATT
87598047 TAATGTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:87610081 original size:44 final size:44
Alignment explanation
Indices: 87610010--87611040 Score: 1204
Period size: 44 Copynumber: 23.6 Consensus size: 44
87610000 ATAGATCACC
* * *
87610010 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* *
87610054 AATAACAAATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* *
87610098 GATAACAGGTTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
87610142 GATGATAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCAAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
87610186 GATAGCAGATTTGACATTTTTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
87610230 GATAGCAGATTTGGCGTCTCGGTATTGTCAGAGAGTAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
*
87610274 GATAACAGGTTTGGCATCTCTGTATTGAT-AGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTG-TCAGAGAGCAGATCGAA
*
87610318 GATGGA-AGATTTGG-AGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GAT-AACAGATTTGGCA-TCTCTGTATTGTCAGAGAGCAGATCGAA
* *
87610362 GATAACAGGTTTGGCGTCTCTGTATTGAT-AGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTG-TCAGAGAGCAGATCGAA
**
87610406 GATGGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
** * * *
87610450 GATAGTAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATAGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
87610494 GATGACAGATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
87610538 GATAGCAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* *
87610582 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
87610626 GATAGCAGATTTGGTATTTCTGTATTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
87610670 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCATATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
87610714 GATGATAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
87610758 GATAGCAGATTTGGCATTTCTGTATTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
87610802 GATAACAGATTTGACGTCTCTGTACTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
**** * *
87610846 GATAACAGATTTTTTGTCTCTGTATTGACAAAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
87610890 GATAACAGATTTGG-----C-GTATTGACAGAGGGCAGATTGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
87610928 GATGACAGATTTGGCATCTCTGTATTGACAGAAAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
87610972 GATAGCAGATTTGG-AGTATCTGTATTGACAGAG-GACAGATCGAA
1 GATAACAGATTTGGCA-TCTCTGTATTGTCAGAGAG-CAGATCGAA
* * * *
87611016 GATGACAGATTCGGCTTCTCCGTAT
1 GATAACAGATTTGGCATCTCTGTAT
87611041 AAGGCAAGGA
Statistics
Matches: 845, Mismatches: 125, Indels: 34
0.84 0.12 0.03
Matches are distributed among these distances:
38 33 0.04
39 1 0.00
43 7 0.01
44 801 0.95
45 3 0.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
GATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:87612705 original size:22 final size:22
Alignment explanation
Indices: 87612679--87612723 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
87612669 TTAATCCTTT
87612679 TTTATATATTGCTAAAT-TTTTA
1 TTTATATATT-CTAAATATTTTA
* *
87612701 TTTATTTATTTTAAATATTTTA
1 TTTATATATTCTAAATATTTTA
87612723 T
1 T
87612724 ATATTACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATATATTCTAAATATTTTA
Found at i:87612850 original size:29 final size:30
Alignment explanation
Indices: 87612764--87612880 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 30
87612754 ATATATAAAA
*
87612764 ATTATTTATCGTATATTATTT-TATTATATAT
1 ATTATTTAT--TATGTTATTTATATTATATAT
*
87612795 -TTATATTATTATGTTATGTTGTCTATTATATAT
1 ATTAT-TTATTATGTTA--TT-TATATTATATAT
*
87612828 ATTATCTATTAT-TTATTTATATTTTATCATAT
1 ATTATTTATTATGTTATTTATA--TTAT-ATAT
*
87612860 ATTATTTATTATGTTGTTTAT
1 ATTATTTATTATGTTATTTAT
87612881 CTTTATCTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
29 9 0.13
30 6 0.08
31 10 0.14
32 19 0.27
33 23 0.32
34 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTATTTATTATGTTATTTATATTATATAT
Found at i:87625208 original size:220 final size:219
Alignment explanation
Indices: 87624804--87625257 Score: 748
Period size: 220 Copynumber: 2.1 Consensus size: 219
87624794 CAGGCTAAAG
* * * * * *
87624804 CATAGCAGATCTGACCTTCAGGTGTTTACGCTAAAGCAGATCCAAGATGATTTGACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGAAGATCCAAGATGATTTGACATCTATGTA
87624869 TTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
66 TTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
*
87624934 GACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
131 GACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCT
87624999 TGCGTTTACAAGGAGCAGATCGAAGA
196 TGCGTTTACAAGGAGCAGATC-AA-A
* * * *
87625025 CATGGCAGATTTGGCTTTCACGTGTTTACGCTGAAGAAGATCTAAGATGATTTGGCATCTATGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGAAGATCCAAGATGATTTGACATCTATGTA
* *
87625090 TTGTCAGAGAACAAATCGAATA-AACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
66 TTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
87625154 GACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCT
131 GACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCT
*
87625219 TGCGTTTACAATGAGCAGATCAAA
196 TGCGTTTACAAGGAGCAGATCAAA
*
87625243 GATAGCAGATTTGGC
1 CATAGCAGATTTGGC
87625258 GTCTCTGTAT
Statistics
Matches: 217, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
218 14 0.06
219 2 0.01
220 125 0.58
221 76 0.35
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (219 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGAAGATCCAAGATGATTTGACATCTATGTA
TTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAA
GACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCT
TGCGTTTACAAGGAGCAGATCAAA
Found at i:87625279 original size:44 final size:44
Alignment explanation
Indices: 87625231--87625743 Score: 692
Period size: 44 Copynumber: 11.7 Consensus size: 44
87625221 CGTTTACAAT
* *
87625231 GAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
87625275 GAGCAGATCGATGATAGCAGATTTGGTATCTCTGTATTGTCAGT
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
87625319 GAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
87625363 GAGAAGATCAAAGATAGCAGATTTGGTATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
87625407 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
87625451 GAGTAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
87625495 GAGCAGATCGAAGATAG-ATGATTTGGCATC-CTTGCGT-TTATAAG-
1 GAGCAGATCGAAGATAGCA-GATTTGGCATCTC-T--GTATTGTCAGA
* * *
87625539 GAGCAGATCGAATATAGCAGATTTGGTATCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
87625583 GAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
87625627 GAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * * *
87625671 GAGTAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTATCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
87625715 GAGCAGAACGAAGATAACAGATCTGGCAT
1 GAGCAGATCGAAGATAGCAGATTTGGCAT
87625744 TCCTGAGTTT
Statistics
Matches: 409, Mismatches: 52, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
42 2 0.00
43 7 0.02
44 391 0.96
45 7 0.02
46 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:87625326 original size:88 final size:88
Alignment explanation
Indices: 87625231--87625736 Score: 768
Period size: 88 Copynumber: 5.8 Consensus size: 88
87625221 CGTTTACAAT
* *
87625231 GAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGATGATAGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
*
87625296 TTTGGTATCTCTGTATTGTCAGT
66 TTTGGTATCTCTGTATTGTCAGA
* * *
87625319 GAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGAAGATCAAAGATAGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
87625384 TTTGGTATCTCTGTATTGTCAGA
66 TTTGGTATCTCTGTATTGTCAGA
*
87625407 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
*
87625472 TTTGGTATCTCTGTATTGTTAGA
66 TTTGGTATCTCTGTATTGTCAGA
* * * *
87625495 GAGCAGATCGAAGATAG-ATGATTTGGCATC-CTTGCGT-TTATAAG-GAGCAGATCGAATATAG
1 GAGCAGATCGAAGATAGCA-GATTTGGCGTCTC-T--GTATTGTCAGAGAGCAGATCGAAGATAG
*
87625556 CAGATTTGGTATCTCTGTATTGTTAGA
62 CAGATTTGGTATCTCTGTATTGTCAGA
*
87625583 GAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
*
87625648 TTTGGTATCTCTGTATTGTCAAA
66 TTTGGTATCTCTGTATTGTCAGA
* * * * *
87625671 GAGTAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTATCAGAGAGCAGAACGAAGATAACAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
87625736 T
66 T
87625737 CTGGCATTCC
Statistics
Matches: 383, Mismatches: 27, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
86 2 0.01
87 7 0.02
88 365 0.95
89 7 0.02
90 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (88 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
TTTGGTATCTCTGTATTGTCAGA
Found at i:87626029 original size:17 final size:17
Alignment explanation
Indices: 87626007--87626041 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
87625997 TACAAAAATT
*
87626007 AAAAAATGAAATTAAAC
1 AAAAAATAAAATTAAAC
87626024 AAAAAATAAAATTAAAC
1 AAAAAATAAAATTAAAC
87626041 A
1 A
87626042 GTCCATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAATTAAAC
Found at i:87627337 original size:22 final size:22
Alignment explanation
Indices: 87627312--87627356 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
87627302 TTTAATCCTT
87627312 TTTATATATTGCTAAAT-TTTTA
1 TTTATATATT-CTAAATATTTTA
* *
87627334 TTTATTTATTTTAAATATTTTA
1 TTTATATATTCTAAATATTTTA
87627356 T
1 T
87627357 ATTACTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATATATTCTAAATATTTTA
Found at i:87627365 original size:23 final size:21
Alignment explanation
Indices: 87627324--87627369 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
87627314 TATATATTGC
*
87627324 TAAATTTTTATTTATTTATTT
1 TAAATTTTTATTTACTTATTT
87627345 TAAATATTTTATATTACTTATTT
1 TAAAT-TTTTAT-TTACTTATTT
87627368 TA
1 TA
87627370 CTATAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TAAATTTTTATTTACTTATTT
Found at i:87627482 original size:29 final size:30
Alignment explanation
Indices: 87627396--87627512 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 30
87627386 TATATAAAAA
*
87627396 ATTATTTATCGTATATTATTT-TATTATATAT
1 ATTATTTAT--TATGTTATTTATATTATATAT
*
87627427 -TTATATTATTATGTTATGTTGTCTATTATATAT
1 ATTAT-TTATTATGTTA--TT-TATATTATATAT
*
87627460 ATTATCTATTAT-TTATTTATATTTTATCATAT
1 ATTATTTATTATGTTATTTATA--TTAT-ATAT
*
87627492 ATTATTTATTATGTTGTTTAT
1 ATTATTTATTATGTTATTTAT
87627513 CTCTATCTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
29 9 0.13
30 6 0.08
31 10 0.14
32 19 0.27
33 23 0.32
34 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTATTTATTATGTTATTTATATTATATAT
Found at i:87627869 original size:18 final size:18
Alignment explanation
Indices: 87627846--87627887 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
87627836 AGTATGTTAA
87627846 TTTTATCTTAAATTATT-T
1 TTTTATCTT-AATTATTGT
* *
87627864 TTTTATGTTATTTATTGT
1 TTTTATCTTAATTATTGT
87627882 TTTTAT
1 TTTTAT
87627888 ATATTTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTATCTTAATTATTGT
Found at i:87631849 original size:17 final size:17
Alignment explanation
Indices: 87631829--87631887 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
87631819 TTAATAGATA
87631829 ATTGAAGTGAATATGAT
1 ATTGAAGTGAATATGAT
*
87631846 ATTG-AGTTGATTAATAGAT
1 ATTGAAG-TGAAT-AT-GAT
*
87631865 AATTGAAGTGAATGTGAT
1 -ATTGAAGTGAATATGAT
87631883 ATTGA
1 ATTGA
87631888 GTTATGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
16 2 0.06
17 13 0.38
18 5 0.15
19 4 0.12
20 8 0.24
21 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (17 bp):
ATTGAAGTGAATATGAT
Found at i:87631857 original size:37 final size:37
Alignment explanation
Indices: 87631816--87631890 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
87631806 ATTTAATGAA
87631816 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
1 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
*
87631853 TGATTAATAGATAATTGAAGTGAATGTGATATTGAGT
1 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
87631890 T
1 T
87631891 ATGAAATGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (37 bp):
TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
Found at i:87631869 original size:20 final size:19
Alignment explanation
Indices: 87631816--87631875 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
87631806 ATTTAATGAA
87631816 TGATTAATAGATAATTGAAG
1 TGATTAATAGATAATTG-AG
*
87631836 TGAAT-AT-GAT-ATTGAG
1 TGATTAATAGATAATTGAG
87631852 TTGATTAATAGATAATTGAAG
1 -TGATTAATAGATAATTG-AG
87631873 TGA
1 TGA
87631876 ATGTGATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
16 2 0.06
17 8 0.24
18 5 0.15
19 5 0.15
20 11 0.33
21 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TGATTAATAGATAATTGAG
Found at i:87631903 original size:20 final size:21
Alignment explanation
Indices: 87631875--87631919 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
87631865 AATTGAAGTG
*
87631875 AATGTGATATTGAG-TTATGA
1 AATGCGATATTGAGATTATGA
87631895 AATGCGATATTGAGATTATGA
1 AATGCGATATTGAGATTATGA
87631916 AATG
1 AATG
87631920 TGATCTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (21 bp):
AATGCGATATTGAGATTATGA
Found at i:87631996 original size:35 final size:34
Alignment explanation
Indices: 87631950--87632210 Score: 143
Period size: 35 Copynumber: 7.0 Consensus size: 34
87631940 TGAGTAATGG
87631950 ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
1 ACTAG-ACTGGGTGCAAATATCGTTGGTTTATCCA
**
87631985 ACTAGATCTGGGCT-CACTATTTATATCGTCT-GTTTATCTG
1 ACTAGA-CTGGG-TGCA--A---ATATCGT-TGGTTTATCCA
* *
87632025 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCTA
1 ACTAG-ACTGGGTGCAAATATCGTTGGTTTATCCA
* *
87632060 ACTAGAGCTGAGCT-CACTATTTATATCGTCGGTTTATCCA
1 ACTAGA-CTG-GGTGCA--A---ATATCGTTGGTTTATCCA
*
87632100 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
1 ACTAG-ACTGGGTGCAAATATCGTTGGTTTATCCA
* ** *
87632135 ACTAGAGCTGGGCT-CACTATTTATATTGTCAGTTTATCCG
1 ACTAGA-CTGGG-TGCA--A---ATATCGTTGGTTTATCCA
* *
87632175 ACTAACACTAGGTGCAAATATCGTTGGTTTATCCA
1 ACT-AGACTGGGTGCAAATATCGTTGGTTTATCCA
87632210 A
1 A
87632211 TTATAGTTGG
Statistics
Matches: 177, Mismatches: 20, Indels: 58
0.69 0.08 0.23
Matches are distributed among these distances:
34 4 0.02
35 79 0.45
36 4 0.02
37 3 0.02
38 3 0.02
39 4 0.02
40 75 0.42
41 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (34 bp):
ACTAGACTGGGTGCAAATATCGTTGGTTTATCCA
Found at i:87632022 original size:40 final size:39
Alignment explanation
Indices: 87631967--87632235 Score: 162
Period size: 40 Copynumber: 7.1 Consensus size: 39
87631957 CTGGGTGCAA
87631967 ATATCGTTGGTTTATCCAACTAGATCTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGA-CTGGGCTCACTATTT
**
87632007 ATATCGTCT-GTTTATCTGACTAGCACTGGG-TGCA--A---
1 ATATCGT-TGGTTTATCCAACTAG-ACTGGGCT-CACTATTT
* * *
87632042 ATATTGTTGGTTTATCTAACTAGAGCTGAGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGA-CTGGGCTCACTATTT
*
87632082 ATATCGTCGGTTTATCCAACTAGCACTGGG-TGCA--A---
1 ATATCGTTGGTTTATCCAACTAG-ACTGGGCT-CACTATTT
*
87632117 ATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGA-CTGGGCTCACTATTT
* ** * * *
87632157 ATATTGTCAGTTTATCCGACTAACACTAGG-TGCA--A---
1 ATATCGTTGGTTTATCCAACT-AGACTGGGCT-CACTATTT
* * *
87632192 ATATCGTTGGTTTATCCAATTATAGTTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGA-CTGGGCTCACTATTT
87632232 ATAT
1 ATAT
87632236 TTGTCGGTTT
Statistics
Matches: 176, Mismatches: 24, Indels: 58
0.68 0.09 0.22
Matches are distributed among these distances:
34 5 0.03
35 74 0.42
36 3 0.02
37 3 0.02
38 3 0.02
39 3 0.02
40 80 0.45
41 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (39 bp):
ATATCGTTGGTTTATCCAACTAGACTGGGCTCACTATTT
Found at i:87632075 original size:75 final size:75
Alignment explanation
Indices: 87631949--87632255 Score: 452
Period size: 75 Copynumber: 4.1 Consensus size: 75
87631939 ATGAGTAATG
*
87631949 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGATCTGGGCTCACTATTTATATCGT
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
* *
87632014 CTGTTTATCT
66 CGGTTTATCC
* * *
87632024 GACTAGCACTGGGTGCAAATATTGTTGGTTTATCTAACTAGAGCTGAGCTCACTATTTATATCGT
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
87632089 CGGTTTATCC
66 CGGTTTATCC
* * *
87632099 AACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATTGT
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
*
87632164 CAGTTTATCC
66 CGGTTTATCC
* * * * * *
87632174 GACTAACACTAGGTGCAAATATCGTTGGTTTATCCAATTATAGTTGGGCTCACTATTTATATTTG
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATA-TCG
*
87632239 TCGGTTTATCT
65 TCGGTTTATCC
87632250 GACTAG
1 GACTAG
87632256 AGCTGGACGT
Statistics
Matches: 210, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
75 193 0.92
76 17 0.08
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (75 bp):
GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
CGGTTTATCC
Found at i:87633574 original size:10 final size:10
Alignment explanation
Indices: 87633559--87633608 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
87633549 AAATTTTAGG
87633559 ATTTAT-TTT
1 ATTTATCTTT
87633568 CATTTATCTTT
1 -ATTTATCTTT
*
87633579 AATTATCTTT
1 ATTTATCTTT
87633589 ATTTAT-TTGT
1 ATTTATCTT-T
*
87633599 AATTATCTTT
1 ATTTATCTTT
87633609 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:87633592 original size:20 final size:20
Alignment explanation
Indices: 87633569--87633608 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87633559 ATTTATTTTC
87633569 ATTTATCTT-TAATTATCTTT
1 ATTTAT-TTGTAATTATCTTT
87633589 ATTTATTTGTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
87633609 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:87634356 original size:17 final size:18
Alignment explanation
Indices: 87634324--87634357 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87634314 TATTCTTCAT
87634324 TTTAATTTTCGTAATTTA
1 TTTAATTTTCGTAATTTA
87634342 TTTAATTTT-GTAATTT
1 TTTAATTTTCGTAATTT
87634358 TTAATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTAATTTTCGTAATTTA
Found at i:87637702 original size:21 final size:21
Alignment explanation
Indices: 87637676--87637724 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
87637666 AGGAAAAGAC
87637676 CACTTTTACGTGCCCATTTGG
1 CACTTTTACGTGCCCATTTGG
*
87637697 CACTTTTACGTTCCCATTTGG
1 CACTTTTACGTGCCCATTTGG
87637718 CACTTTT
1 CACTTTT
87637725 GCATACAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (21 bp):
CACTTTTACGTGCCCATTTGG
Found at i:87639909 original size:5 final size:5
Alignment explanation
Indices: 87639899--87639961 Score: 53
Period size: 5 Copynumber: 13.0 Consensus size: 5
87639889 CCAGTTTTTA
* *
87639899 TTATT TTATT TTATTT TTATT TT-TA TT-TT TTATTT TTATT TT-TA TTATT
1 TTATT TTATT TTA-TT TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT
*
87639948 TTA-A TTATT TTATT
1 TTATT TTATT TTATT
87639962 AATAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
4 12 0.26
5 25 0.53
6 10 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:87639912 original size:13 final size:12
Alignment explanation
Indices: 87639894--87639961 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 12
87639884 GCAACCCAGT
87639894 TTTTATTATTTTA
1 TTTTATT-TTTTA
87639907 TTTTA-TTTTTA
1 TTTTATTTTTTA
87639918 TTTTTATTTTTTA
1 -TTTTATTTTTTA
87639931 TTTTTATTTTTATTA
1 -TTTTA-TTTT-TTA
87639946 TTTTAATTATTTTA
1 TTTT-ATT-TTTTA
87639960 TT
1 TT
87639962 AATAAAAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.10
12 6 0.12
13 17 0.35
14 15 0.31
15 6 0.12
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:87639917 original size:19 final size:19
Alignment explanation
Indices: 87639893--87639961 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 19
87639883 GGCAACCCAG
87639893 TTTTTATTATTTTATTTTA
1 TTTTTATTATTTTATTTTA
87639912 TTTTTA-T-TTTTATTTT-
1 TTTTTATTATTTTATTTTA
*
87639928 TTATTT-TTATTTT-TATTA
1 TT-TTTATTATTTTATTTTA
*
87639946 TTTTAATTATTTTATT
1 TTTTTATTATTTTATT
87639962 AATAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
16 2 0.05
17 18 0.44
18 14 0.34
19 7 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTATTTTATTTTA
Found at i:87639918 original size:6 final size:6
Alignment explanation
Indices: 87639893--87639944 Score: 70
Period size: 6 Copynumber: 8.3 Consensus size: 6
87639883 GGCAACCCAG
87639893 TTTTTA TTATTT- TATTTTA TTTTTA TTTTTA TTTTTTA TTTTTA TTTTTA
1 TTTTTA TT-TTTA T-TTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA
87639943 TT
1 TT
87639945 ATTTTAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 31 0.74
7 11 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:87639935 original size:25 final size:25
Alignment explanation
Indices: 87639893--87639961 Score: 95
Period size: 25 Copynumber: 2.6 Consensus size: 25
87639883 GGCAACCCAG
87639893 TTTTTATTATTTTATTTTATTTTTA
1 TTTTTATTATTTTATTTTATTTTTA
87639918 TTTTTATT-TTTTATTTTTATTTTTA
1 TTTTTATTATTTTA-TTTTATTTTTA
87639943 TTATTTTAATTATTTTATT
1 -T-TTTT-ATTATTTTATT
87639962 AATAAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.13
25 19 0.49
26 1 0.03
27 4 0.10
28 5 0.13
29 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTATTATTTTATTTTATTTTTA
Found at i:87639955 original size:12 final size:11
Alignment explanation
Indices: 87639896--87639962 Score: 61
Period size: 11 Copynumber: 6.3 Consensus size: 11
87639886 AACCCAGTTT
87639896 TTATTATTTTA
1 TTATTATTTTA
87639907 TT-TTATTTTTA
1 TTATTA-TTTTA
*
87639918 TTTTTATTTT-
1 TTATTATTTTA
* *
87639928 TTATTTTTATTT
1 TTATTATT-TTA
87639940 TTATTATTTTA
1 TTATTATTTTA
87639951 --ATTATTTTA
1 TTATTATTTTA
87639960 TTA
1 TTA
87639963 ATAAAAATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 18 0.39
12 10 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:87639964 original size:12 final size:12
Alignment explanation
Indices: 87639894--87639962 Score: 63
Period size: 12 Copynumber: 5.7 Consensus size: 12
87639884 GCAACCCAGT
87639894 TTTTATTATTTTA
1 TTTTATTA-TTTA
87639907 TTTTATT-TTTA
1 TTTTATTATTTA
*
87639918 TTTTTATTTTTTA
1 -TTTTATTATTTA
87639931 TTTTTATT-TTTA
1 -TTTTATTATTTA
*
87639943 TTATT-TTAATTA
1 TT-TTATTATTTA
87639955 TTTTATTA
1 TTTTATTA
87639963 ATAAAAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
11 10 0.20
12 21 0.42
13 19 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:87641554 original size:10 final size:10
Alignment explanation
Indices: 87641539--87641588 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
87641529 AAATTTTAGG
87641539 ATTTAT-TTT
1 ATTTATCTTT
87641548 CATTTATCTTT
1 -ATTTATCTTT
*
87641559 AATTATCTTT
1 ATTTATCTTT
87641569 ATTTAT-TTGT
1 ATTTATCTT-T
*
87641579 AATTATCTTT
1 ATTTATCTTT
87641589 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:87641572 original size:20 final size:20
Alignment explanation
Indices: 87641549--87641588 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87641539 ATTTATTTTC
87641549 ATTTATCTT-TAATTATCTTT
1 ATTTAT-TTGTAATTATCTTT
87641569 ATTTATTTGTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
87641589 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:87652428 original size:34 final size:34
Alignment explanation
Indices: 87652362--87652625 Score: 246
Period size: 34 Copynumber: 7.7 Consensus size: 34
87652352 TTTCCTCATT
* * * *
87652362 GAAATACCATA-CTACATTTTACAACTCGGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
* *
87652395 GAAAACACCATACCTACGTTTCA-TGCTCAGTATG
1 G-AAATACCATACCTACGTTTCACAGCTCAGTATG
** * * *
87652429 GAAAATACCATACCTATATTTCATAACTCAATATAG
1 G-AAATACCATACCTACGTTTCACAGCTCAGTAT-G
** * * *
87652465 GTGATGCCATACCTACGTATCATAGCTCAGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
** *
87652499 G-ACGACGTCATACCTACGTTTCACAGCTCGGTATG
1 GAAATAC--CATACCTACGTTTCACAGCTCAGTATG
* *
87652534 GAAATACCATACCTATGTTTCACAGCTCGGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
* *
87652568 GAATTACCATACCTACGTTTCACAGCTCGGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
*
87652602 GAAATTCCATACCTACGTTTCACA
1 GAAATACCATACCTACGTTTCACA
87652626 CTTTGTCTTG
Statistics
Matches: 190, Mismatches: 34, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
33 2 0.01
34 119 0.63
35 64 0.34
36 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAGCTCAGTATG
Found at i:87652645 original size:68 final size:68
Alignment explanation
Indices: 87652367--87652625 Score: 236
Period size: 69 Copynumber: 3.8 Consensus size: 68
87652357 TCATTGAAAT
* * * * * *
87652367 ACCATA-CTACATTTTACAACTCGGTATGGAAAACACCATACCTACGTTTCA-TGCTCAGTATGG
1 ACCATACCTACGTTTCACAGCTCGGTATGG-AAATACCATACCTACGTTTCACAGCTCGGTATGG
*
87652430 AAAA
65 AATA
** * * ** ** * * * *
87652434 TACCATACCTATATTTCATAACTCAATATAGGTGATGCCATACCTACGTATCATAGCTCAGTATG
1 -ACCATACCTACGTTTCACAGCTCGGTAT-GGAAATACCATACCTACGTTTCACAGCTCGGTATG
**
87652499 G-ACG
64 GAATA
*
87652503 ACGTCATACCTACGTTTCACAGCTCGGTATGGAAATACCATACCTATGTTTCACAGCTCGGTATG
1 AC--CATACCTACGTTTCACAGCTCGGTATGGAAATACCATACCTACGTTTCACAGCTCGGTATG
*
87652568 GAATT
64 GAATA
*
87652573 ACCATACCTACGTTTCACAGCTCGGTATGGAAATTCCATACCTACGTTTCACA
1 ACCATACCTACGTTTCACAGCTCGGTATGGAAATACCATACCTACGTTTCACA
87652626 CTTTGTCTTG
Statistics
Matches: 155, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
68 57 0.37
69 62 0.40
70 36 0.23
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (68 bp):
ACCATACCTACGTTTCACAGCTCGGTATGGAAATACCATACCTACGTTTCACAGCTCGGTATGGA
ATA
Found at i:87652710 original size:27 final size:27
Alignment explanation
Indices: 87652680--87652745 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
87652670 GATCACTGAA
*
87652680 CACTTTGTCATGTTTGACACACTTTAT
1 CACTTTGTCATATTTGACACACTTTAT
*
87652707 CACTTTGTCATATTTGGCACACTTTAT
1 CACTTTGTCATATTTGACACACTTTAT
*
87652734 CACTTTGCCATA
1 CACTTTGTCATA
87652746 GCTTAACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (27 bp):
CACTTTGTCATATTTGACACACTTTAT
Found at i:87655857 original size:18 final size:18
Alignment explanation
Indices: 87655834--87655870 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
87655824 TCTTCAATTT
87655834 TCAATATGATCAATCCAA
1 TCAATATGATCAATCCAA
*
87655852 TCAATATGTTCAATCCAA
1 TCAATATGATCAATCCAA
87655870 T
1 T
87655871 TAAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (18 bp):
TCAATATGATCAATCCAA
Found at i:87671995 original size:24 final size:24
Alignment explanation
Indices: 87671951--87671997 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
87671941 AAATAAAAAA
* *
87671951 ATTTAAATACAATAAATCAAATAC
1 ATTTAAAAACAATAAAACAAATAC
87671975 ATTTAAAAAC-ATAAAAACAAATA
1 ATTTAAAAACAAT-AAAACAAATA
87671998 TTAAAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTAAAAACAATAAAACAAATAC
Found at i:87672124 original size:28 final size:27
Alignment explanation
Indices: 87672060--87672124 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
87672050 ACACAAATTG
* * *
87672060 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
87672087 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
87672116 AAAATAAAA
1 AAAATAAAA
87672125 AATATATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:87689966 original size:24 final size:21
Alignment explanation
Indices: 87689926--87689979 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
87689916 AAATAAAATA
* *
87689926 ATAAAATAATAATAAATATCTT
1 ATAAAATATTAATAAATAAC-T
87689948 ATTAAAATATTAAATAAATAACT
1 A-TAAAATATT-AATAAATAACT
87689971 ATAAAATAT
1 ATAAAATAT
87689980 CACCAACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATATTAATAAATAACT
Found at i:87692611 original size:46 final size:44
Alignment explanation
Indices: 87692548--87692636 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
87692538 ATTTTTTTCC
* *
87692548 TTTTCTCCTTCCTTTCTCTTTTATCT-TCTCTACTATTCTCTTTTTT
1 TTTTCTCCTTCCCTTCTC-TTT-TCTAT-TCTACTAGTCTCTTTTTT
87692594 TTTTC-CCTTCTCCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
1 TTTTCTCCTTC-CCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
87692637 CTTTCTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 19 0.49
45 9 0.23
46 11 0.28
ACGTcount: A:0.07, C:0.29, G:0.01, T:0.63
Consensus pattern (44 bp):
TTTTCTCCTTCCCTTCTCTTTTCTATTCTACTAGTCTCTTTTTT
Found at i:87695070 original size:15 final size:15
Alignment explanation
Indices: 87695050--87695101 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
87695040 ATTCAATATT
87695050 AATATTTTAATAATA
1 AATATTTTAATAATA
*
87695065 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
87695084 AATATATTAATAATA
1 AATATTTTAATAATA
87695099 AAT
1 AAT
87695102 GATTAGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:87695509 original size:32 final size:33
Alignment explanation
Indices: 87695473--87695544 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
87695463 AACTTTTATG
87695473 AAATATTTT-TA-AGAAATC-TACCAAACAACAGA
1 AAATATTTTATACAG-AATCAT-CCAAACAACAGA
* *
87695505 AAATATTTTATACAGATTCATCCAAACACCAGA
1 AAATATTTTATACAGAATCATCCAAACAACAGA
87695538 AAATATT
1 AAATATT
87695545 AACTTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 9 0.26
33 23 0.66
34 3 0.09
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (33 bp):
AAATATTTTATACAGAATCATCCAAACAACAGA
Found at i:87696609 original size:16 final size:16
Alignment explanation
Indices: 87696588--87696636 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
87696578 TCAAAGCCAG
87696588 AATAAAAAATAAAA-AA
1 AATAAAAAA-AAAACAA
87696604 AATAAAAAAAAAACAA
1 AATAAAAAAAAAACAA
* *
87696620 AA-CAAAACAAAACAA
1 AATAAAAAAAAAACAA
87696635 AA
1 AA
87696637 AAGCAAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (16 bp):
AATAAAAAAAAAACAA
Found at i:87702072 original size:18 final size:18
Alignment explanation
Indices: 87702049--87702087 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87702039 CTATTCAAAT
*
87702049 ATTTATTATTGGAATTT-A
1 ATTTATT-TTGAAATTTGA
87702067 ATTTATTTTGAAATTTGA
1 ATTTATTTTGAAATTTGA
87702085 ATT
1 ATT
87702088 CAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTATTTTGAAATTTGA
Found at i:87703008 original size:17 final size:16
Alignment explanation
Indices: 87702980--87703017 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
87702970 TTGAATCGAT
87702980 TTTTTTATTTTTAATATA
1 TTTTTTATTTTT-ATA-A
87702998 TTTTTTA-TTTTATAA
1 TTTTTTATTTTTATAA
87703013 TTTTT
1 TTTTT
87703018 AACAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTATAA
Found at i:87703390 original size:23 final size:24
Alignment explanation
Indices: 87703364--87703409 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
87703354 TAGCCATTTT
*
87703364 TTAAATTTCTTTTA-GATTTAGGG
1 TTAAATTTCTTTTATGAATTAGGG
* *
87703387 TTAAGTTTTTTTTATGAATTAGG
1 TTAAATTTCTTTTATGAATTAGG
87703410 ATTTAGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.54
Consensus pattern (24 bp):
TTAAATTTCTTTTATGAATTAGGG
Found at i:87708341 original size:5 final size:5
Alignment explanation
Indices: 87708331--87708369 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
87708321 GCCTAAGATG
* *
87708331 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
87708370 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:87708990 original size:25 final size:24
Alignment explanation
Indices: 87708962--87709018 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
87708952 ATAGCTATTT
*
87708962 GGAGCTTCCCAATTAATGGCTCTTC
1 GGAGCTTCCC-ATTAATGGCTCTTA
* * *
87708987 GGAGCTACCCGTTATTGGCTCTTA
1 GGAGCTTCCCATTAATGGCTCTTA
*
87709011 TGAGCTTC
1 GGAGCTTC
87709019 TAGTTATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (24 bp):
GGAGCTTCCCATTAATGGCTCTTA
Found at i:87713638 original size:46 final size:46
Alignment explanation
Indices: 87713574--87713723 Score: 167
Period size: 46 Copynumber: 3.1 Consensus size: 46
87713564 ACACACCGTA
*
87713574 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACATTGAT
1 GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATTGAT
* * * * *
87713620 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCTATGGTCTTACAC-GAATCACAT-ATCAC--A--T-TGAT
87713673 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCACATTGAT
87713719 GCCAT
1 GCCAT
87713724 GGTCCAACCA
Statistics
Matches: 85, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
46 31 0.36
47 8 0.09
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.07
52 6 0.07
53 27 0.32
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATTGAT
Found at i:87714878 original size:23 final size:22
Alignment explanation
Indices: 87714811--87714882 Score: 96
Period size: 21 Copynumber: 3.4 Consensus size: 22
87714801 TGATCAGTAT
*
87714811 ACGACACATAA-GTGCCT-AAA
1 ACGACACACAAGGTGCCTGAAA
*
87714831 ACGACACACGAGGTGCCTG-AA
1 ACGACACACAAGGTGCCTGAAA
87714852 ACGACACACAAGGTGCCTGAAA
1 ACGACACACAAGGTGCCTGAAA
87714874 TACGACACA
1 -ACGACACA
87714883 TAAAGTGCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.20
21 26 0.58
22 2 0.04
23 8 0.18
ACGTcount: A:0.40, C:0.28, G:0.21, T:0.11
Consensus pattern (22 bp):
ACGACACACAAGGTGCCTGAAA
Found at i:87714890 original size:23 final size:22
Alignment explanation
Indices: 87714814--87714890 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
87714804 TCAGTATACG
87714814 ACACATAAGTGCCT-AAAACGAC
1 ACACA-AAGTGCCTGAAAACGAC
* *
87714836 ACACGAGGTGCCTG-AAACGAC
1 ACACAAAGTGCCTGAAAACGAC
*
87714857 ACACAAGGTGCCTGAAATACGAC
1 ACACAAAGTGCCTGAAA-ACGAC
*
87714880 ACATAAAGTGC
1 ACACAAAGTGC
87714891 TGATCAGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
21 27 0.57
22 6 0.13
23 14 0.30
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.13
Consensus pattern (22 bp):
ACACAAAGTGCCTGAAAACGAC
Found at i:87715108 original size:23 final size:24
Alignment explanation
Indices: 87715082--87715176 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
87715072 AAATGTCCAA
87715082 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
87715105 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
87715133 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
87715162 CCAAAACACACCAGA
1 CCAAAACACACCAGA
87715177 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:87715178 original size:29 final size:28
Alignment explanation
Indices: 87715096--87715179 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
87715086 AACACACCAG
* *
87715096 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
87715124 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
87715152 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
87715180 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:87718084 original size:53 final size:51
Alignment explanation
Indices: 87717995--87718149 Score: 165
Period size: 53 Copynumber: 3.0 Consensus size: 51
87717985 CCATGGCAAC
* * * *
87717995 ATGTGATATGTGATTTCCGTATAAGACTATAGCTGGGCTATAGCATCAGAGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATAGCATCAG-GAG
87718048 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATAGCATC---AG
1 ATGTGA-TATGTGCTTCCGTATAAGACCATATCTGGGATATAGCATCAGGAG
* * * * *
87718097 -TGTGATATATGCTACTGTATAAGACCATATCTAGGATATGGCATCAGTGAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATAGCATCAG-GAG
87718148 AT
1 AT
87718150 ATGTGATTCG
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
47 35 0.40
48 5 0.06
49 2 0.02
51 2 0.02
52 1 0.01
53 36 0.41
54 6 0.07
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (51 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATAGCATCAGGAG
Done.