Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 104 of 373
Found at i:33975655 original size:49 final size:49
Alignment explanation
Indices: 33975583--33975814 Score: 295
Period size: 49 Copynumber: 4.7 Consensus size: 49
33975573 TTGATACGCA
* * *
33975583 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATCTGGTACACG
* *
33975632 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACTATCTGGTACACG
* * * *
33975682 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CTATCT-GGTACACG
* * * * *
33975733 TAGTAGCCTGCACTTAGTACTAAACATGCGACCAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATCTGGTACACG
33975782 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
33975815 TCACAATAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
49 69 0.45
50 50 0.32
51 36 0.23
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATCTGGTACACG
Found at i:33975802 original size:100 final size:99
Alignment explanation
Indices: 33975574--33975814 Score: 331
Period size: 100 Copynumber: 2.4 Consensus size: 99
33975564 CGAAGCTATT
* * * * *
33975574 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGC
* * *
33975639 CTGCACTTAGTACTACACACGTGACCTAACCATC
66 CTGCACTTAGTACTAAACACGCGACCTAACAATC
* * *
33975673 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTAGGTACGCATAGTA
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTA
*
33975738 GCCTGCACTTAGTACTAAACATGCGACC-AACAATC
64 GCCTGCACTTAGTACTAAACACGCGACCTAACAATC
* *
33975773 TGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
33975815 TCACAATAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 38 0.30
100 47 0.38
101 40 0.32
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGC
CTGCACTTAGTACTAAACACGCGACCTAACAATC
Found at i:33976495 original size:30 final size:30
Alignment explanation
Indices: 33976461--33976520 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33976451 CTTTAATACG
33976461 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
33976491 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
33976521 GGCTTATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:33977449 original size:31 final size:32
Alignment explanation
Indices: 33977412--33977471 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
33977402 ACATATAAAA
*
33977412 CATGGTCTTAC-CTGCACA-CATATATCAATGC
1 CATGGTCTTACTC-GCACATCACATATCAATGC
33977443 CATGGTCTTACTCGCACATCACATATCAA
1 CATGGTCTTACTCGCACATCACATATCAA
33977472 AATCCTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (32 bp):
CATGGTCTTACTCGCACATCACATATCAATGC
Found at i:33989263 original size:13 final size:13
Alignment explanation
Indices: 33989245--33989271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33989235 AAGGACCGTA
33989245 ACTTTAACGTTCT
1 ACTTTAACGTTCT
33989258 ACTTTAACGTTCT
1 ACTTTAACGTTCT
33989271 A
1 A
33989272 TAACTATTAA
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:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (13 bp):
ACTTTAACGTTCT
Found at i:33990270 original size:36 final size:36
Alignment explanation
Indices: 33990182--33990271 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 36
33990172 TATAATAAAT
* * **
33990182 AAAAGAAACAAAAAGAAACAGAAAGAAAAAGAATTG
1 AAAAGAAACAAAGAGAAAAAGAAAGAAAAAGAAAGG
*
33990218 AAACA-AAACAATGAGAAAAAGAAAGAAAAA-AAAGG
1 AAA-AGAAACAAAGAGAAAAAGAAAGAAAAAGAAAGG
33990253 AAAAGAAACAAAGGAGAAA
1 AAAAGAAACAAA-GAGAAA
33990272 TTAGGGTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 1 0.02
35 12 0.27
36 31 0.69
37 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.18, T:0.03
Consensus pattern (36 bp):
AAAAGAAACAAAGAGAAAAAGAAAGAAAAAGAAAGG
Found at i:33993182 original size:62 final size:59
Alignment explanation
Indices: 33993091--33993207 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
33993081 ATTGATTATC
* * * *
33993091 TTAAAATTAAATTAAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAAAATTAAATTAAATCTAATGTTTATC-T-T-CATAAATATTATATTAATTTAATAAGAT
* * *
33993153 TTAATATTAAATTTAATCTAATTTTTATCTTCATAAATATTATATTAATTTAATA
1 TTAAAATTAAATTAAATCTAATGTTTATCTTCATAAATATTATATTAATTTAATA
33993208 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
60 1 0.02
61 1 0.02
62 25 0.52
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAAAATTAAATTAAATCTAATGTTTATCTTCATAAATATTATATTAATTTAATAAGAT
Found at i:33993660 original size:14 final size:13
Alignment explanation
Indices: 33993622--33993663 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
33993612 GTTTTGTCCT
*
33993622 AAATTTATTTTCC
1 AAATTCATTTTCC
*
33993635 -ATTTCATTTTCC
1 AAATTCATTTTCC
33993647 AAATTCATTTTTCC
1 AAATTCA-TTTTCC
33993661 AAA
1 AAA
33993664 AATTGGTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 5 0.21
14 9 0.38
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATTCATTTTCC
Found at i:33997949 original size:47 final size:47
Alignment explanation
Indices: 33997895--33998088 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
33997885 TTAGGATTTT
** * *
33997895 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
33997942 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
33997989 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * **
33998036 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
33998083 ATGTGA
1 ATGTGA
33998089 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:33998440 original size:37 final size:37
Alignment explanation
Indices: 33998298--33998439 Score: 257
Period size: 37 Copynumber: 3.8 Consensus size: 37
33998288 AATATATTCT
33998298 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
33998335 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
33998372 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
33998409 GGGTAAGACCCGATAACTTCGTGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
33998440 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:33999954 original size:22 final size:23
Alignment explanation
Indices: 33999929--33999974 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33999919 CAACCAAATC
33999929 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
33999951 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
33999974 A
1 A
33999975 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:33999980 original size:23 final size:23
Alignment explanation
Indices: 33999936--33999980 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33999926 ATCAATTCAA
*
33999936 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
33999959 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
33999981 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:34004995 original size:48 final size:48
Alignment explanation
Indices: 34004718--34004995 Score: 241
Period size: 48 Copynumber: 5.8 Consensus size: 48
34004708 CTCATAATAG
* * ** * * *
34004718 TGCCGATGCCATGTCCCAGGCATGGTCTTATACGAGACCTCATATCGA
1 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGA
* ** * * * *
34004766 TGACAATGCCATATCTTAGATATGGTCTTTCATGGGATCTCATGTCAA
1 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGA
* * *
34004814 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGATTTCATATCGA
1 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGA
** ** * * *
34004862 TGCCGGTGTTATATCCCAGATATGGTCTTACACTGGTTCTCATCTCGA
1 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGA
* * * ** * *
34004910 TGCCTATACCATATCCCAGACACAGTCTTACAAGGGATCTCATATTGA
1 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGA
* * * *
34004958 TGCCAATACCATATCCTAGATATCGTCTTATACGGGAT
1 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGAT
34004996 TTCAAAACTC
Statistics
Matches: 178, Mismatches: 52, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (48 bp):
TGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGA
Found at i:34019144 original size:45 final size:44
Alignment explanation
Indices: 34019027--34019244 Score: 125
Period size: 45 Copynumber: 4.7 Consensus size: 44
34019017 AGGATATAAT
* * *
34019027 GCCGATGCCATGCCCCAGACATGGTCTTACACTGACTCTCACATATCCGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGA--CT-ACATCT-CGA
* * ** * *
34019077 GCTGAAGCCATGTCTGAAACATGGTCTTACACTGAC-ACATCTTGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-A
* *
34019123 GCCGATGCATGTCCCAGACATGTCTTACAGTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTCGA
* * * * * *
34019168 GGCGATGCATGTCCTAGACATGTCATACACT-AGCTCTCGTCTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CT-ACATCTCGA
*
34019213 TGCCGATGCCATGTCCCAAACATGGTCTTACA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACA
34019245 TTGGCTCTCA
Statistics
Matches: 131, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
44 12 0.09
45 47 0.36
46 23 0.18
47 12 0.09
48 8 0.06
50 29 0.22
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCGA
Found at i:34019281 original size:94 final size:91
Alignment explanation
Indices: 34019123--34019295 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 91
34019113 ACATCTTGTA
* * *
34019123 GCCGATGCATGTCCCAGACATGTCTTACAGTGGCTTACATCTCGAGGCGATGCATGTCCTAGACA
1 GCCGATGCATGTCCCAAACATGTCTTACAGTGGCTTACATATCGAGGCGATGCATGTCCGAGACA
34019188 TGTCATACACTAGCTCTCGTCTCAAT
66 TGTCATACACTAGCTCTCGTCTCAAT
* *
34019214 GCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCT-CATAAT-GTGGCTGATGCATGTCCG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACAGTGGCT-TACAT-ATCGAGGC-GATGCATGTCCG
*
34019277 AGACATGTCTTACACTAGC
61 AGACATGTCATACACTAGC
34019296 ACACAATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
91 7 0.10
92 13 0.18
93 20 0.28
94 31 0.44
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (91 bp):
GCCGATGCATGTCCCAAACATGTCTTACAGTGGCTTACATATCGAGGCGATGCATGTCCGAGACA
TGTCATACACTAGCTCTCGTCTCAAT
Found at i:34028304 original size:48 final size:48
Alignment explanation
Indices: 34028233--34028370 Score: 222
Period size: 48 Copynumber: 2.9 Consensus size: 48
34028223 CGAGAGTCTT
*
34028233 GCACCCTAAGTGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTC
1 GCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTC
* * * *
34028281 GCACCTGAAGTGCCAATATCATGGCCCGAAGCCCACTCAATAAATCTC
1 GCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTC
*
34028329 GCACCCGAAGTGCCAATATCATGGCCTGAAGCCAAATCAATG
1 GCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATG
34028371 TAACCCCTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (48 bp):
GCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTC
Found at i:34030291 original size:20 final size:19
Alignment explanation
Indices: 34030266--34030370 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 19
34030256 TGCATAACAG
34030266 GGGCACCAAAGTGCAATCA
1 GGGCACCAAAGTGCAATCA
* *
34030285 GGAGCA-CAAATATGCATTCA
1 GG-GCACCAAA-GTGCAATCA
*
34030305 GGGTCACCAAAGTGCAA-AA
1 GGG-CACCAAAGTGCAATCA
* *
34030324 GGG-ACACATATGTGCATTCA
1 GGGCAC-CA-AAGTGCAATCA
* *
34030344 GGGGCATCAAAGTGCAACCAA
1 -GGGCACCAAAGTGCAATC-A
34030365 GGGCAC
1 GGGCAC
34030371 GTATATGCAT
Statistics
Matches: 63, Mismatches: 13, Indels: 19
0.66 0.14 0.20
Matches are distributed among these distances:
17 2 0.03
18 2 0.03
19 17 0.27
20 31 0.49
21 10 0.16
22 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.27, T:0.14
Consensus pattern (19 bp):
GGGCACCAAAGTGCAATCA
Found at i:34030313 original size:40 final size:38
Alignment explanation
Indices: 34030243--34030396 Score: 164
Period size: 40 Copynumber: 3.9 Consensus size: 38
34030233 AATCACACCA
* *
34030243 AGGGCATCATAAATGCATAACAGGGGCACCAAAGTGCAATC
1 AGGGCA-CATATATGCAT-TCAGGGGCACCAAAGTGCAA-C
* * *
34030284 AGGAGCACAAATATGCATTCAGGGTCACCAAAGTGCAAA
1 AGG-GCACATATATGCATTCAGGGGCACCAAAGTGCAAC
* *
34030323 AGGGACACATATGTGCATTCAGGGGCATCAAAGTGCAACC
1 AGGG-CACATATATGCATTCAGGGGCACCAAAGTGCAA-C
* *
34030363 AAGGGCACGTATATGCATTCAGGGGTACCAAAGT
1 -AGGGCACATATATGCATTCAGGGGCACCAAAGT
34030397 ACAAAAAAGG
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.34
40 43 0.45
41 16 0.17
42 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (38 bp):
AGGGCACATATATGCATTCAGGGGCACCAAAGTGCAAC
Found at i:34030407 original size:40 final size:40
Alignment explanation
Indices: 34030297--34030464 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
34030287 AGCACAAATA
* *
34030297 TGCATTCA-GGGTCACCAAAGTGC--AAAAGGGACACATATG
1 TGCATTCAGGGGT-ACCAAAGTACAAAAAAGGG-CACGTATG
* * * ** *
34030336 TGCATTCAGGGGCATCAAAGTGCAACCAAGGGCACGTATA
1 TGCATTCAGGGGTACCAAAGTACAAAAAAGGGCACGTATG
*
34030376 TGCATTCAGGGGTACCAAAGTACAAAAAAGGGCATGTATG
1 TGCATTCAGGGGTACCAAAGTACAAAAAAGGGCACGTATG
* * * * * *
34030416 TGCATTCAAGGCTACCGAAGGACAAACAGGGGCACGTATG
1 TGCATTCAGGGGTACCAAAGTACAAAAAAGGGCACGTATG
34030456 TGCATTCAG
1 TGCATTCAG
34030465 CAAAAAATAT
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 17 0.16
40 83 0.79
41 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.18
Consensus pattern (40 bp):
TGCATTCAGGGGTACCAAAGTACAAAAAAGGGCACGTATG
Found at i:34031083 original size:29 final size:29
Alignment explanation
Indices: 34031021--34031085 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
34031011 TTGTGTCTGC
* * *
34031021 CCATATGTCTACTCATGTGCTTCACACAG
1 CCATGTGTCTACTCATGTGCTTAACACAA
* **
34031050 TCATGTGTCTACTTGTGTGCTTAACACAA
1 CCATGTGTCTACTCATGTGCTTAACACAA
34031079 CCATGTG
1 CCATGTG
34031086 AAAGCCTGTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (29 bp):
CCATGTGTCTACTCATGTGCTTAACACAA
Found at i:34035907 original size:52 final size:52
Alignment explanation
Indices: 34035850--34035953 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
34035840 ATATGTATGA
** * *
34035850 GGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCATGATGGATGTGATACATGT
1 GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAATGGATGCGATACATGT
*
34035902 GGCATCCGATCTCGTTGAGTTGGTCCAAGTTCATAATGGATGCGATACATGT
1 GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAATGGATGCGATACATGT
34035954 AATTGGGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (52 bp):
GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAATGGATGCGATACATGT
Found at i:34037575 original size:29 final size:29
Alignment explanation
Indices: 34037509--34037578 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 29
34037499 TACATCCATG
34037509 CATATGGCCCA-CTAGGCCCAATCTCATT
1 CATATGGCCCATCTAGGCCCAATCTCATT
*
34037537 TATATGGCCCATCT-GGCCCAAT-TCACCTT
1 CATATGGCCCATCTAGGCCCAATCTCA--TT
34037566 CATATGGCCCATC
1 CATATGGCCCATC
34037579 AGGTTCCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.08
28 18 0.49
29 16 0.43
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATCTAGGCCCAATCTCATT
Found at i:34037642 original size:28 final size:28
Alignment explanation
Indices: 34037586--34037645 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
34037576 ATCAGGTTCC
* *
34037586 TATGGCCCATTAGGCCCGATATCCTTTA
1 TATGGCCCATTAGGCCCGAAATCCATTA
34037614 TATGGCCCATCT-GGCCC-AAATCACATTA
1 TATGGCCCAT-TAGGCCCGAAATC-CATTA
34037642 TATG
1 TATG
34037646 CTCACACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 23 0.82
29 1 0.04
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (28 bp):
TATGGCCCATTAGGCCCGAAATCCATTA
Found at i:34037731 original size:18 final size:19
Alignment explanation
Indices: 34037708--34037743 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34037698 ATGGCCCAAC
34037708 AGCCCATT-GGGCCCATTT
1 AGCCCATTCGGGCCCATTT
*
34037726 AGCCCATTCTGGCCCATT
1 AGCCCATTCGGGCCCATT
34037744 AGGCCAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.17, C:0.36, G:0.19, T:0.28
Consensus pattern (19 bp):
AGCCCATTCGGGCCCATTT
Found at i:34037892 original size:16 final size:16
Alignment explanation
Indices: 34037850--34037892 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
34037840 GTAGCCAAAC
34037850 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
34037866 TTTTAGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
34037882 TTTTGGATTTT
1 TTTTGGCTTTT
34037893 GCCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.09, C:0.14, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:34045308 original size:28 final size:29
Alignment explanation
Indices: 34045220--34045318 Score: 114
Period size: 29 Copynumber: 3.4 Consensus size: 29
34045210 GGCCCATCCA
*
34045220 GCCCAATTCACGTTCATATGGCCCATTAG
1 GCCCAATTCACATTCATATGGCCCATTAG
* *
34045249 GCCGAATTCACATTCCTATGGCCCATTAG
1 GCCCAATTCACATTCATATGGCCCATTAG
*
34045278 GCCCAATCTC-C-TTTATATGGCCCATCT-G
1 GCCCAAT-TCACATTCATATGGCCCAT-TAG
*
34045306 GCCCAAATCACAT
1 GCCCAATTCACAT
34045319 AGCATCACTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.03
28 20 0.34
29 35 0.59
30 2 0.03
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
GCCCAATTCACATTCATATGGCCCATTAG
Found at i:34050984 original size:14 final size:14
Alignment explanation
Indices: 34050965--34050995 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34050955 AGCTTGGCAA
34050965 TTGGGAACTATTTG
1 TTGGGAACTATTTG
34050979 TTGGGAACTATTTG
1 TTGGGAACTATTTG
34050993 TTG
1 TTG
34050996 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:34051275 original size:12 final size:12
Alignment explanation
Indices: 34051255--34051284 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34051245 TATGGTTAAT
*
34051255 TTCTTTAGCAGC
1 TTCTGTAGCAGC
34051267 TTCTGTAGCAGC
1 TTCTGTAGCAGC
34051279 TTCTGT
1 TTCTGT
34051285 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:34051930 original size:91 final size:91
Alignment explanation
Indices: 34051798--34052005 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
34051788 TTGATTTTAG
* *
34051798 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
34051863 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
34051890 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
34051955 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
34051981 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
34052006 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:34052054 original size:16 final size:17
Alignment explanation
Indices: 34052035--34052066 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34052025 TTATTAAATC
34052035 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
34052051 ATATATTTAATATTAA
1 ATATATTTAATATTAA
34052067 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:34052130 original size:66 final size:63
Alignment explanation
Indices: 34052059--34052271 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
34052049 AAATATATTT
34052059 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
34052123 AG
62 AG
* * * * * * *
34052125 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
34052185 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
34052245 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
34052272 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:34052145 original size:120 final size:119
Alignment explanation
Indices: 34052021--34052312 Score: 471
Period size: 120 Copynumber: 2.4 Consensus size: 119
34052011 AATTATTTTA
* *
34052021 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTT-AATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
34052084 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
34052141 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
34052206 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
34052261 AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTT
34052313 TAAATATGAT
Statistics
Matches: 160, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
119 35 0.22
120 120 0.75
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:34052173 original size:18 final size:17
Alignment explanation
Indices: 34052142--34052176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34052132 ATTATTAAGA
34052142 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
34052159 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
34052177 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:34052282 original size:17 final size:17
Alignment explanation
Indices: 34052262--34052295 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34052252 ATTATTAAGA
* *
34052262 ATTTTATTAAATTATAT
1 ATTTAATTAAAATATAT
34052279 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
34052296 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:34052414 original size:146 final size:149
Alignment explanation
Indices: 34052250--34052523 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
34052240 ATAAGAATAT
*
34052250 TAATTATTAAGAATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
34052314 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
34052377 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
34052396 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
34052461 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
34052524 CAATAATCAT
Statistics
Matches: 122, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
146 30 0.25
147 60 0.49
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:34052436 original size:18 final size:17
Alignment explanation
Indices: 34052408--34052442 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34052398 ATTATTAAGA
*
34052408 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34052425 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34052443 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34052694 original size:45 final size:44
Alignment explanation
Indices: 34052604--34052698 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 44
34052594 TTACACCTCT
*
34052604 ATTACATTCAACCAAACACAGTTTTAGTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGTTTTAGTATTACACCTCTATTCC
*
34052648 ATTACATTCAACC-AA-ACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGTT--TTAG-TATTACACCTCTATTCC
34052693 ATTACA
1 ATTACA
34052699 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
42 6 0.13
43 2 0.04
44 16 0.35
45 22 0.48
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGTTTTAGTATTACACCTCTATTCC
Found at i:34052698 original size:16 final size:16
Alignment explanation
Indices: 34052677--34052746 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
34052667 TTGATTTGCT
*
34052677 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
34052693 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
34052709 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
34052725 -TATACACCTCTAATCC
1 AT-TACACCTCTAATCC
*
34052741 AATACA
1 ATTACA
34052747 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:34052720 original size:32 final size:32
Alignment explanation
Indices: 34052679--34052746 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
34052669 GATTTGCTAT
*
34052679 TACACCTCTATTCC-ATTACACCTCTAATCCAA
1 TACACCTCTAATCCTA-TACACCTCTAATCCAA
34052711 TACACCTCTAATCCTATACACCTCTAATCCAA
1 TACACCTCTAATCCTATACACCTCTAATCCAA
34052743 TACA
1 TACA
34052747 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (32 bp):
TACACCTCTAATCCTATACACCTCTAATCCAA
Found at i:34052816 original size:30 final size:30
Alignment explanation
Indices: 34052782--34052849 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
34052772 AAAATGTTGT
34052782 GGGAGAAATAATAAAATACTAGTTGATGGG
1 GGGAGAAATAATAAAATACTAGTTGATGGG
34052812 GGGAGAAATAATAAAATACTAGTTGATGGG
1 GGGAGAAATAATAAAATACTAGTTGATGGG
34052842 GGGAGAAA
1 GGGAGAAA
34052850 CAAAAGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (30 bp):
GGGAGAAATAATAAAATACTAGTTGATGGG
Found at i:34054449 original size:48 final size:48
Alignment explanation
Indices: 34054387--34054667 Score: 463
Period size: 48 Copynumber: 5.9 Consensus size: 48
34054377 TATATATGTG
* *
34054387 TGTGATAAAGCCGAATAGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
34054435 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
34054483 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
34054531 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * * * *
34054579 TGTGGTAAAGCCGCATGGCTAGTGTGACATTTGTGTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
34054627 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
34054668 GTGTGTATAT
Statistics
Matches: 219, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 219 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:34054858 original size:37 final size:37
Alignment explanation
Indices: 34054808--34054947 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
34054798 GGAAATATAT
34054808 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
34054845 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
34054882 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
34054919 TCCTGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
34054948 GGACTATTTG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:34062630 original size:37 final size:37
Alignment explanation
Indices: 34062571--34062679 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
34062561 AGCTCAGATG
* *
34062571 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
34062608 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
34062645 TAATCTCCACACGTAGCCATCGAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34062680 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:34062952 original size:48 final size:48
Alignment explanation
Indices: 34062826--34063107 Score: 397
Period size: 48 Copynumber: 5.8 Consensus size: 48
34062816 ACACATCGCC
* *
34062826 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC----A
* *
34062878 TATATATTTCACATT-GACCATTCGACTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGACTTTACCACATATACATATCTCA
*
34062926 TACATATTTCACATTAGCCATTCGACTTTACAACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC--A
* *
34062976 TATATATTTCACATTAACCATTC-AGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGA-CTTTACCACATATACATATCTCA
*
34063024 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
*
34063072 TACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 TACATATTTCACATTAGCCATTCGACTTTACCACAT
34063108 GATTCATTAA
Statistics
Matches: 211, Mismatches: 13, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
48 124 0.59
49 2 0.01
50 43 0.20
51 1 0.00
52 41 0.19
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
Found at i:34063030 original size:98 final size:97
Alignment explanation
Indices: 34062826--34063107 Score: 442
Period size: 98 Copynumber: 2.9 Consensus size: 97
34062816 ACACATCGCC
*
34062826 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATATTTCACA
* *
34062891 TTGACCATTCGACTTTACCACATATGCATATCTCA
64 TTAACCATTCG-CTTTACCACATATACATATCTCA
* *
34062926 TACATATTTCACATTAGCCATTCGACTTTACAACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
34062991 AACCATTCAGCTTTACCACATATACATATCTCA
66 AACCATTC-GCTTTACCACATATACATATCTCA
*
34063024 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
34063087 AGCCATTCGGCTTTACCACAT
66 AACCATTC-GCTTTACCACAT
34063108 GATTCATTAA
Statistics
Matches: 171, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
96 34 0.20
98 92 0.54
99 1 0.01
100 44 0.26
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (97 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
AACCATTCGCTTTACCACATATACATATCTCA
Found at i:34063073 original size:146 final size:147
Alignment explanation
Indices: 34062829--34063107 Score: 436
Period size: 146 Copynumber: 1.9 Consensus size: 147
34062819 CATCGCCTAC
* * *
34062829 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTG
1 ATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTC--A-ATACATATTTCACATTG
*
34062894 ACCATTCGACTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGACTTTACAA
63 ACCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACAA
34062959 CATATACATATCTCATATAT
128 CATATACATATCTCATATAT
*
34062979 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTC-ATACATATTTCACATT-AGC
1 ATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTGA-C
* * *
34063042 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
65 CATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACAACA
34063107 T
130 T
34063108 GATTCATTAA
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
145 1 0.01
146 78 0.65
150 41 0.34
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (147 bp):
ATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTGACC
ATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACAACAT
ATACATATCTCATATAT
Found at i:34065429 original size:28 final size:27
Alignment explanation
Indices: 34065398--34065488 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 27
34065388 CTGACTGATT
*
34065398 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* *
34065426 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
*
34065455 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
34065483 TCGCAC
1 TCGCAC
34065489 TCTCAGTGCC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.04
28 26 0.50
29 23 0.44
30 1 0.02
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:34066058 original size:40 final size:40
Alignment explanation
Indices: 34065711--34066057 Score: 523
Period size: 40 Copynumber: 8.7 Consensus size: 40
34065701 CCAGCATGAT
* * * *
34065711 TGCTCTTCGGGACCTAGCCCGGCTATAACACCAGCGCGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
34065751 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * * *
34065791 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGTACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
34065831 TGCTCTTCGGGACTTAGCCCGGATACATCACCATCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
34065871 TGCTCTTCGGGACTTAGCCCAGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
34065911 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
34065951 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
34065991 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
34066031 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
34066058 TATAACTCTC
Statistics
Matches: 278, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 278 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:34079277 original size:47 final size:47
Alignment explanation
Indices: 34079223--34079765 Score: 885
Period size: 47 Copynumber: 11.5 Consensus size: 47
34079213 TATTTGAATA
*
34079223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34079270 AATGTGAAAGTGTATATATATGTTG-TAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATG-TGATAAGGCCTAATGGCCGATGTGATG
34079319 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34079366 AATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34079413 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34079460 AATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34079507 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34079556 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34079603 AATGTGAAAGTGTATATATGTGATAAGG-CTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34079649 AATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
34079695 AATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34079742 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
34079766 GAGTCCCGAA
Statistics
Matches: 472, Mismatches: 17, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 91 0.19
47 290 0.61
49 89 0.19
50 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34079525 original size:143 final size:141
Alignment explanation
Indices: 34079223--34079771 Score: 879
Period size: 143 Copynumber: 3.9 Consensus size: 141
34079213 TATTTGAATA
*
34079223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
* *
34079288 TATGTTG-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
64 TATG-TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAA
34079352 TGGCCGATGTGATG
128 TGGCCGATGTGATG
*
34079366 AATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
34079431 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAATGG
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAATGG
34079496 CCGATGTGATG
131 CCGATGTGATG
34079507 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
34079572 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG-GCTAAT
64 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAAT
*
34079636 AGCCGATGTGATG
129 GGCCGATGTGATG
34079649 AATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * * * * *
34079713 TGTGACAGGGTCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATGAGTCC
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCC
34079772 CGAAGGGCAT
Statistics
Matches: 383, Mismatches: 19, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
139 81 0.21
140 19 0.05
141 89 0.23
142 29 0.08
143 165 0.43
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAATGG
CCGATGTGATG
Found at i:34079546 original size:190 final size:187
Alignment explanation
Indices: 34079223--34079765 Score: 892
Period size: 190 Copynumber: 2.9 Consensus size: 187
34079213 TATTTGAATA
* *
34079223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATA
34079288 TATGTTG-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
64 TATG-TGATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
34079352 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATG
127 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
34079413 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
34079478 TGTGATAAGTCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAG-CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
34079543 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
128 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
34079603 AATGTGAAAGTGTATATATGTGATAAGG-CTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
34079667 TGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGC
66 TGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
34079732 CAACGTGATGGATGTGAAAGTGTATAAATGTGAT
131 CGATGTGATGAATGTGAAAGTGTATATATGTGAT
34079766 GAGTCCCGAA
Statistics
Matches: 336, Mismatches: 13, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
186 50 0.15
187 3 0.01
188 72 0.21
189 45 0.13
190 166 0.49
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (187 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:34082380 original size:40 final size:40
Alignment explanation
Indices: 34082279--34082638 Score: 537
Period size: 40 Copynumber: 9.1 Consensus size: 40
34082269 AGGTCTCGAC
*
34082279 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
*
34082318 GATGTA-CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
*
34082357 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
* *
34082397 GATGTATTCGGGCTAAG-TCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTTC-CGAAGAGCATTCATGCTAGT
*
34082437 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
*
34082477 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
*
34082517 GATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
* * *
34082557 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
* * * * * *
34082597 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
34082637 GA
1 GA
34082639 CGTGTATTCG
Statistics
Matches: 297, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 45 0.15
40 250 0.84
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
Found at i:34085890 original size:47 final size:47
Alignment explanation
Indices: 34085836--34086402 Score: 770
Period size: 47 Copynumber: 12.5 Consensus size: 47
34085826 TATTTGAATA
*
34085836 AATGTGAAAGTGTATATATGTGATACGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34085883 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34085932 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34085979 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA--TG-TG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34086023 -A--TG-AACTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
34086066 AACGTGAAAGCGTATATATGTGATAAGGCCTAATCGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34086113 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34086160 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34086209 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG-GATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34086255 --TG-G--A-TG-ATATA-GTGATAA-G-C-AAT-----A-GTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34086285 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
34086332 AATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34086379 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
34086403 GAGTCCCGAA
Statistics
Matches: 470, Mismatches: 21, Indels: 58
0.86 0.04 0.11
Matches are distributed among these distances:
29 1 0.00
30 5 0.01
32 2 0.00
33 1 0.00
35 4 0.01
36 3 0.01
37 6 0.01
38 14 0.03
39 6 0.01
40 35 0.07
41 6 0.01
42 2 0.00
43 4 0.01
44 5 0.01
45 2 0.00
46 7 0.01
47 275 0.59
49 92 0.20
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34085944 original size:96 final size:94
Alignment explanation
Indices: 34085836--34086402 Score: 770
Period size: 96 Copynumber: 6.3 Consensus size: 94
34085826 TATTTGAATA
*
34085836 AATGTGAAAGTGTATATATGTGATACGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
34085901 TATGTGATAAGGCCTAATGGTCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
34085932 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
34085997 TGTGATAAGGCCTAATAGCCGA--TG-TG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
34086023 -A--TG-AACTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAACGTGAAAGCGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
34086084 TGTGATAAGGCCTAATCGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
34086113 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
34086178 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
34086209 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG-GATG--TG-G--A-TG-ATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
34086266 -GTGATAA-G-C-AAT-----A-GTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
34086285 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
34086350 TGTGACAGGGTCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
34086379 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
34086403 GAGTCCCGAA
Statistics
Matches: 426, Mismatches: 18, Indels: 56
0.85 0.04 0.11
Matches are distributed among these distances:
76 48 0.11
77 5 0.01
79 2 0.00
80 1 0.00
82 4 0.01
83 3 0.01
84 6 0.01
85 12 0.03
86 6 0.01
87 76 0.18
88 4 0.01
89 4 0.01
90 4 0.01
91 3 0.01
92 3 0.01
93 5 0.01
94 102 0.24
95 4 0.01
96 134 0.31
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34086024 original size:22 final size:22
Alignment explanation
Indices: 34085996--34086064 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
34085986 AAGTGTATAT
34085996 ATGTGATAAGGCCTAATAGCCG
1 ATGTGATAAGGCCTAATAGCCG
* *
34086018 ATGTGATGAA---CTGTATA---T
1 ATGTGAT-AAGGCCT-AATAGCCG
34086036 ATGTGATAAGGCCTAATAGCCG
1 ATGTGATAAGGCCTAATAGCCG
34086058 ATGTGAT
1 ATGTGAT
34086065 GAACGTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
17 2 0.06
18 7 0.20
19 3 0.09
20 4 0.11
21 3 0.09
22 14 0.40
23 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATAGCCG
Found at i:34086049 original size:134 final size:136
Alignment explanation
Indices: 34085836--34086402 Score: 716
Period size: 134 Copynumber: 4.2 Consensus size: 136
34085826 TATTTGAATA
* *
34085836 AATGTGAAAGTGTATATATGTGATACGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA--TGATG-A--TGAAAGTG--TATA
*
34085901 TATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
59 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
34085966 GGCCGATGTGATG
124 GGCCGATGTGATG
*
34085979 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG-TGATG-AACTGTATATATGTGA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGATGATGAAAGTGTATATATGTGA
* * * *
34086042 TAAGGCCTAATAGCCGATGTGATGAACGTGAAAGCGTATATATGTGATAAGGCCTAATCGCCGAT
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
34086107 GTGATG
131 GTGATG
*
34086113 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA--TGATG-A--TGAAAGTG--TATA
34086178 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
59 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
34086243 GGCCGATG-GATG
124 GGCCGATGTGATG
*
34086255 --TG-G--A-TG-ATATA-GTGATAA-G-C-AATAG-TGATGAATG-TGAAAGTGTATATATGTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG-ATGATGAAAGTGTATATATGTG
* * * * * *
34086307 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAA
65 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
*
34086372 CGTGATG
130 TGTGATG
* *
34086379 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
34086403 GAGTCCCGAA
Statistics
Matches: 381, Mismatches: 24, Indels: 49
0.84 0.05 0.11
Matches are distributed among these distances:
123 70 0.18
124 4 0.01
125 8 0.02
126 2 0.01
127 1 0.00
128 2 0.01
129 4 0.01
130 4 0.01
131 8 0.02
132 6 0.02
133 1 0.00
134 123 0.32
135 5 0.01
136 8 0.02
137 5 0.01
138 1 0.00
139 2 0.01
140 6 0.02
141 6 0.02
142 4 0.01
143 111 0.29
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (136 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGATGATGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATG
Found at i:34091283 original size:43 final size:43
Alignment explanation
Indices: 34091259--34092256 Score: 1013
Period size: 43 Copynumber: 23.6 Consensus size: 43
34091249 CATCCAATGT
* * **
34091259 CCTAGGTTGCCTATGGTGTCCGAGGCTCCCGCAC-ACCCAAGCA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * ** *
34091302 CCAAGG-TGCCAATGCTGATCGAGGCTCCCGCAC-ATCCGA-GG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* *
34091343 CAACAAGG-TGCCGATGGTGCCCGAGGCTCCCGCATGACCAAGGG
1 C--CTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** *
34091387 CCTAGGTTATCGATGGTGCCCGAGGCTCCCGCACGACCAAAGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
34091430 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGTAC-ATCCAAGCA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
** *
34091473 CGAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAGGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
34091515 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACC-AGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** *
34091557 CCTAGG-TGCCGATGGTG-CCGAGGCTTTCGCACGACCAGGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* *
34091598 CCTAGGTTGCCGATGGTGCCCAAGGATCCCGCACGACC-AGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* *
34091640 CTTAGGTTGCCGATGGTGCCCGAGGCT-CCGCACGA-CAGGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
*
34091681 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAGGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
34091724 CCTAGGTTGCCGATGGTG-CCGAGGCTCGC-CATGACCAGGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
34091765 CCTAGGTTGCCGATGGTG-CCAAGACTCCCGCACGACCAGGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* **
34091807 CCTAGGTTGCCGATGGTGTCCGAGGCTTTCGCAC-ATCCAAGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * **
34091850 CCTAGGTTGCCGATGGTGTCCGCGGCTCCCGTAC-ATCCAACCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * * *
34091893 CCAAGG-TGCCGATGGTGTCTGAGGCTCCCGTACGACCAAAGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
34091935 CCTAGGTTGCCGATGGTGTTCGAGGCTCCCGTACGACCAATGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
34091978 CCTAGGTTGCGGATGCTG-CCGAGGCTCTCGCACGACCAAGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
*
34092020 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGTACGACCAAGGG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
34092063 CCTAGGTTGCCGATGGTGCCTGAGGCTCCCGTACGACCAAGGT
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * ** **
34092106 CCTAGGTTGCCAATGGTG-TCGAGGCTCTCGCAC-ATCCTTGCA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * **
34092148 CCAAGG-TGCCGATGGTGCCCAAGGCTCCCGCAC-ATCCGAGCA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * * *
34092190 CCAAGG-TGCTGATGGT-CACCGAGGCTCCTGCACAACCAAGAG
1 CCTAGGTTGCCGATGGTGC-CCGAGGCTCCCGCACGACCAAGGG
* *
34092232 CCTAGTTTGCCGATGGTGTCCGAGG
1 CCTAGGTTGCCGATGGTGCCCGAGG
34092257 TGTCCGAGGC
Statistics
Matches: 815, Mismatches: 114, Indels: 52
0.83 0.12 0.05
Matches are distributed among these distances:
40 18 0.02
41 107 0.13
42 305 0.37
43 381 0.47
44 4 0.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (43 bp):
CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:34091360 original size:85 final size:84
Alignment explanation
Indices: 34091259--34092256 Score: 809
Period size: 85 Copynumber: 11.8 Consensus size: 84
34091249 CATCCAATGT
* * * * **
34091259 CCTAGGTTGCCTATGGTGTCCGAGGCTCCCGCACACCCAAGCACCAAGGTGCCAATGCTGATCGA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCAAGGTGCCGATGGTGCCCGA
34091324 GGCTCCCGCAC-ATCC-GAGG
65 GGCTCCCGCACGA-CCAGAGG
* * ** * **
34091343 CAACAAGG-TGCCGATGGTGCCCGAGGCTCCCGCATGACCAAGGGCCTAGGTTATCGATGGTGCC
1 C--CTAGGTTGCCGATGGTGCCCGAGGCTCCCGCA-CACCAAGCACCAAGG-TGCCGATGGTGCC
*
34091407 CGAGGCTCCCGCACGACCAAAGG
62 CGAGGCTCCCGCACGACCAGAGG
* * *
34091430 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGTACATCCAAGCACGAAGGTGCCGATGGTGCCCGA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCAAGGTGCCGATGGTGCCCGA
*
34091495 GGCTCCCGCACGACCAGGGG
65 GGCTCCCGCACGACCAGAGG
** *
34091515 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACC-AGGGCCTAGGTGCCGATGGTG-CCGA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCAAGGTGCCGATGGTGCCCGA
** *
34091578 GGCTTTCGCACGACCAGGGG
65 GGCTCCCGCACGACCAGAGG
* * ** **
34091598 CCTAGGTTGCCGATGGTGCCCAAGGATCCCGCACGACC-AGGGCTTAGGTTGCCGATGGTGCCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCAAGG-TGCCGATGGTGCCCG
*
34091662 AGGCT-CCGCACGA-CAGGGG
64 AGGCTCCCGCACGACCAGAGG
* ** *
34091681 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTG-CCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCAAGG-TGCCGATGGTGCCCG
* * *
34091745 AGGCTCGC-CATGACCAGGGG
64 AGGCTCCCGCACGACCAGAGG
* * * ** * *
34091765 CCTAGGTTGCCGATGGTG-CCAAGACTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTGTCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCAAGG-TGCCGATGGTGCCCG
**
34091829 AGGCTTTCGCAC-ATCCA-AGGG
64 AGGCTCCCGCACGA-CCAGA-GG
* * * * * * *
34091850 CCTAGGTTGCCGATGGTGTCCGCGGCTCCCGTACATCCAACCGCCAAGGTGCCGATGGTGTCTGA
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCAAGGTGCCGATGGTGCCCGA
* *
34091915 GGCTCCCGTACGACCAAAGG
65 GGCTCCCGCACGACCAGAGG
** * * * * *
34091935 CCTAGGTTGCCGATGGTGTTCGAGGCTCCCGTACGACCAATG-GCCTAGGTTGCGGATGCTG-CC
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAA-GCACCAAGG-TGCCGATGGTGCCC
*
34091998 GAGGCTCTCGCACGACCA-AGGG
63 GAGGCTCCCGCACGACCAGA-GG
* ** * *
34092020 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGTACGACCAAGGGCCTAGGTTGCCGATGGTGCCTG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCAAGG-TGCCGATGGTGCCCG
*
34092085 AGGCTCCCGTACGACCA-AGG
64 AGGCTCCCGCACGACCAGAGG
* * * ** *
34092105 TCCTAGGTTGCCAATGGTG-TCGAGGCTCTCGCACATCCTTGCACCAAGGTGCCGATGGTGCCCA
1 -CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCAAGGTGCCGATGGTGCCCG
*
34092169 AGGCTCCCGCAC-ATCC-GAGCA
64 AGGCTCCCGCACGA-CCAGAG-G
* * * * * *
34092190 CCAAGG-TGCTGATGGT-CACCGAGGCTCCTGCACAACCAAG-AGCCTAGTTTGCCGATGGTGTC
1 CCTAGGTTGCCGATGGTGC-CCGAGGCTCCCGCAC-ACCAAGCA-CCAAG-GTGCCGATGGTGCC
34092252 CGAGG
62 CGAGG
34092257 TGTCCGAGGC
Statistics
Matches: 773, Mismatches: 103, Indels: 75
0.81 0.11 0.08
Matches are distributed among these distances:
83 171 0.22
84 146 0.19
85 322 0.42
86 129 0.17
87 5 0.01
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (84 bp):
CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACACCAAGCACCAAGGTGCCGATGGTGCCCGAG
GCTCCCGCACGACCAGAGG
Found at i:34091479 original size:128 final size:129
Alignment explanation
Indices: 34091259--34092256 Score: 992
Period size: 128 Copynumber: 7.9 Consensus size: 129
34091249 CATCCAATGT
* * ** * * *
34091259 CCTAGGTTGCCTATGGTGTCCGAGGCTCCCGCAC-ACCCAAGCACCAAGG-TGCCAATGCTGAT-
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTG-TC
* * *
34091321 CGAGGCTCCCGCAC-ATCCGAG-GCAACAAGG-TGCCGATGGTGCCCGAGGCTCCCGCATGACCA
64 CGAGGCTCCCGCACGA-CCAAGCGC--CTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA
34091383 AGGG
126 AGGG
** *
34091387 CCTAGGTTATCGATGGTGCCCGAGGCTCCCGCACGACCAAAGGCCTAGGTTGCCGATGGTGTCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCG
* * ** *
34091452 AGGCTCCCGTAC-ATCCAAGCACGAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAGGGG
66 AGGCTCCCGCACGA-CCAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
34091515 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACC-AGGGCCTAGG-TGCCGATGGTG-CCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCG
** * * * *
34091577 AGGCTTTCGCACGACCAGGGGCCTAGGTTGCCGATGGTGCCCAAGGATCCCGCACGACC-AGGG
66 AGGCTCCCGCACGACCAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
34091640 CTTAGGTTGCCGATGGTGCCCGAGGCT-CCGCACGA-CAGGGGCCTAGGTTGCCGATGGTGCCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCG
* * * * *
34091703 AGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTG-CCGAGGCTCGC-CATGACCAGGGG
66 AGGCTCCCGCACGACCAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
34091765 CCTAGGTTGCCGATGGTG-CCAAGACTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTGTCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCG
** * * * * **
34091829 AGGCTTTCGCAC-ATCCAAGGGCCTAGGTTGCCGATGGTGTCCGCGGCTCCCGTAC-ATCCAACC
66 AGGCTCCCGCACGA-CCAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGG
34091892 G
129 G
* * * * * *
34091893 CCAAGG-TGCCGATGGTGTCTGAGGCTCCCGTACGACCAAAGGCCTAGGTTGCCGATGGTGTTCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCG
* * * *
34091957 AGGCTCCCGTACGACCAATG-GCCTAGGTTGCGGATGCTG-CCGAGGCTCTCGCACGACCAAGGG
66 AGGCTCCCGCACGACCAA-GCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
*
34092020 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGTACGACCAAGGGCCTAGGTTGCCGATGGTG-CCT
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCC-
* * * * **
34092084 GAGGCTCCCGTACGACCAAG-GTCCTAGGTTGCCAATGGTG-TCGAGGCTCTCGCAC-ATCCTTG
65 GAGGCTCCCGCACGACCAAGCG-CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG
**
34092146 CA
128 GG
* * * ** * * **
34092148 CCAAGG-TGCCGATGGTGCCCAAGGCTCCCGCAC-ATCCGAGCACCAAGG-TGCTGATGGTCACC
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGTCC
* * * * *
34092210 GAGGCTCCTGCACAACCAAGAGCCTAGTTTGCCGATGGTGTCCGAGG
65 GAGGCTCCCGCACGACCAAGCGCCTAGGTTGCCGATGGTGCCCGAGG
34092257 TGTCCGAGGC
Statistics
Matches: 743, Mismatches: 99, Indels: 57
0.83 0.11 0.06
Matches are distributed among these distances:
123 1 0.00
124 29 0.04
125 97 0.13
126 185 0.25
127 98 0.13
128 301 0.41
129 31 0.04
130 1 0.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (129 bp):
CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCG
AGGCTCCCGCACGACCAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:34092589 original size:24 final size:25
Alignment explanation
Indices: 34092554--34092632 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 25
34092544 TTTCTATATT
* *
34092554 CCGGG-ATGGCTCACCGGAGCACCG
1 CCGGGAATAGCTCGCCGGAGCACCG
34092578 CCGGGAA-AGCTCGCCGGAGCACC-
1 CCGGGAATAGCTCGCCGGAGCACCG
* * *
34092601 CCCGGAATGGATCGCCGGAGCACCG
1 CCGGGAATAGCTCGCCGGAGCACCG
34092626 CCGGGAA
1 CCGGGAA
34092633 CCTAACCGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
23 6 0.13
24 33 0.72
25 7 0.15
ACGTcount: A:0.20, C:0.37, G:0.37, T:0.06
Consensus pattern (25 bp):
CCGGGAATAGCTCGCCGGAGCACCG
Found at i:34093912 original size:8 final size:8
Alignment explanation
Indices: 34093899--34093926 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
34093889 CCCCGTCGCG
34093899 TGCCACTT
1 TGCCACTT
34093907 TGCCACTT
1 TGCCACTT
34093915 TGCCACTT
1 TGCCACTT
34093923 TGCC
1 TGCC
34093927 TACTGCGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.39, G:0.14, T:0.36
Consensus pattern (8 bp):
TGCCACTT
Found at i:34098762 original size:39 final size:40
Alignment explanation
Indices: 34098660--34098842 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
34098650 TTGAATGATG
* * *
34098660 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
34098699 ATCCGGACTAAGAT-ACGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
34098740 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
34098779 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
34098818 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
34098843 AGAACGAGTA
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 35 0.30
40 73 0.62
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:34098866 original size:79 final size:79
Alignment explanation
Indices: 34098716--34098867 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
34098706 CTAAGATACG
* * * **
34098716 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAAATC
34098781 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
34098795 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTAGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTAGAACGAGTTA-CTAA
34098858 ATCC-GGTTAA
63 ATCCGGGTTAA
34098868 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 24 0.39
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:34106664 original size:40 final size:39
Alignment explanation
Indices: 34106620--34106697 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
34106610 AGTGACCATA
*
34106620 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGACTAAGAT-CGAAGGCATTTGTGCGAGATACTAAT
* * *
34106660 TCCGGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAA
34106698 ATACGGGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34106726 original size:40 final size:40
Alignment explanation
Indices: 34106580--34106764 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
34106570 TTGAATGATG
* * * *
34106580 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
34106620 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34106660 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
34106699 TACGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34106740 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34106765 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 32 0.27
40 78 0.66
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34106786 original size:79 final size:79
Alignment explanation
Indices: 34106633--34106797 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
34106623 GGACTAAGAT
* * * * **
34106633 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
34106698 ATACGGGTTAAGTC
66 ATACCGGTTAAATC
* *
34106712 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
34106775 TATAT-CCGGTTAAATT
63 TAAATACCGGTTAAATC
34106791 CCGAAGG
1 CCGAAGG
34106798 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.66
80 22 0.31
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATACCGGTTAAATC
Found at i:34113916 original size:46 final size:45
Alignment explanation
Indices: 34113866--34114041 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
34113856 TGGTTGAGCA
34113866 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
34113912 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
34113957 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
34114005 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34114042 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:34114022 original size:93 final size:93
Alignment explanation
Indices: 34113863--34114033 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34113853 GGATGGTTGA
* *
34113863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34113928 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
34113956 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34114021 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34114034 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34115502 original size:45 final size:45
Alignment explanation
Indices: 34115452--34115539 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
34115442 AAACATGTGT
* *
34115452 CACATATATCATGAACTCAGACCATAACTCAGTGAGTTCAGATGC
1 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
34115497 CACATATATCATGAACTCAGACCACAACTTAATGAGTTCAGAT
1 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
34115540 CACATAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (45 bp):
CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:34120473 original size:28 final size:29
Alignment explanation
Indices: 34120407--34120480 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
34120397 AAAACAAGCG
34120407 AAAAAATAAAAA-AAAAATAATAGTGCAT
1 AAAAAATAAAAACAAAAATAATAGTGCAT
*
34120435 AATAAATTAAAAACAAAACAT-ATAAGT-C-T
1 AA-AAAATAAAAACAAAA-ATAAT-AGTGCAT
34120464 AAAAAAT-AAAACAAAAA
1 AAAAAATAAAAACAAAAA
34120481 CAACTAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
26 1 0.03
27 9 0.22
28 6 0.15
29 12 0.30
30 7 0.17
31 5 0.12
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.18
Consensus pattern (29 bp):
AAAAAATAAAAACAAAAATAATAGTGCAT
Found at i:34123179 original size:15 final size:15
Alignment explanation
Indices: 34123159--34123189 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34123149 TAAAAAATGT
34123159 AAATTGAGTAGTAAG
1 AAATTGAGTAGTAAG
34123174 AAATTGAGTAGTAAG
1 AAATTGAGTAGTAAG
34123189 A
1 A
34123190 TGTATCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
AAATTGAGTAGTAAG
Found at i:34124547 original size:21 final size:21
Alignment explanation
Indices: 34124523--34124598 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
34124513 CTAGGAATTA
34124523 TTGTGATCTGAACTCATTGAG
1 TTGTGATCTGAACTCATTGAG
* ** *
34124544 TTGTGGTCTGAGTTCA-TGATA
1 TTGTGATCTGAACTCATTGA-G
34124565 TATGTGGCATCTGAACTCATTGAG
1 T-TGT-G-ATCTGAACTCATTGAG
*
34124589 TTATG-TCTGA
1 TTGTGATCTGA
34124599 GTTCATGATG
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
20 8 0.20
21 14 0.34
22 4 0.10
23 3 0.07
24 9 0.22
25 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.39
Consensus pattern (21 bp):
TTGTGATCTGAACTCATTGAG
Found at i:34124614 original size:44 final size:45
Alignment explanation
Indices: 34124528--34124614 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
34124518 AATTATTGTG
* *
34124528 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATACATGTGGC
*
34124573 ATCTGAACTCATTGAGTTAT-GTCTGAGTTCATGATGCATGTG
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATACATGTG
34124615 ACACATGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATACATGTGGC
Found at i:34128511 original size:40 final size:40
Alignment explanation
Indices: 34128456--34128636 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
34128446 TATTCGGATG
* * *
34128456 ATATCCGGGCTAAGTCCCGAAGGGATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
34128496 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
34128536 ATATTCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
34128576 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
34128616 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
34128637 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.10
40 112 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34136691 original size:40 final size:40
Alignment explanation
Indices: 34136636--34136816 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
34136626 TATTCGGATG
* *
34136636 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
34136676 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
34136716 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
34136756 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
34136796 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
34136817 ATACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34148620 original size:46 final size:46
Alignment explanation
Indices: 34148453--34148628 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
34148443 TGTAACCCGC
* *** *
34148453 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
34148499 CCATGAGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
34148549 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
34148592 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34148629 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.58
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:34148620 original size:93 final size:93
Alignment explanation
Indices: 34148461--34148631 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
34148451 GCCCATAAGT
* *** * *
34148461 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGGCTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34148526 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
34148554 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34148619 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34148632 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34151116 original size:15 final size:15
Alignment explanation
Indices: 34151022--34151107 Score: 120
Period size: 15 Copynumber: 5.7 Consensus size: 15
34151012 CAAGAAAATC
34151022 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
34151037 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
34151052 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
34151067 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
34151082 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
34151097 GGATAAAGAAA
1 GAATAAAGAAA
34151108 CCCAAGATAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
14 1 0.02
15 60 0.97
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.17, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:34154196 original size:93 final size:93
Alignment explanation
Indices: 34154037--34154207 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34154027 CGCCCATAAG
* * *
34154037 CGAACTCGGACTCAACTCAAGGAGCTCGGACGTTTGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
*
34154102 ACGAGTTTGGATGTCTAGTTACATCTCA
66 ACGAGTTCGGATGTCTAGTTACATCTCA
*
34154130 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
34154195 ACGAGTTCGGATG
66 ACGAGTTCGGATG
34154208 CTCAACCATC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGTCTAGTTACATCTCA
Found at i:34154198 original size:46 final size:46
Alignment explanation
Indices: 34154030--34154205 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
34154020 TGTAACCCGC
* * *
34154030 CCATAAGCGAACTCGGACTCAACTCAAGGAGCTCGGACGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
34154076 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTGGATGTCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
34154126 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
34154169 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34154206 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:34179162 original size:21 final size:21
Alignment explanation
Indices: 34179132--34179208 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
34179122 TTAGGAATTA
*
34179132 TTGTGATCTGAACTCATTGAG
1 TTGTGGTCTGAACTCATTGAG
** *
34179153 TTGTGGTCTGAGTTCA-TGATA
1 TTGTGGTCTGAACTCATTGA-G
34179174 TATGTGGCATCTGAACTCATTGAG
1 T-TGTGG--TCTGAACTCATTGAG
*
34179198 TTATGGTCTGA
1 TTGTGGTCTGA
34179209 GTTCATGATA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 3 0.07
21 19 0.44
22 5 0.12
23 4 0.09
24 9 0.21
25 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (21 bp):
TTGTGGTCTGAACTCATTGAG
Found at i:34179187 original size:24 final size:22
Alignment explanation
Indices: 34179154--34179224 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 22
34179144 CTCATTGAGT
34179154 TGTGGTCTGAGTTCATGATATA
1 TGTGGTCTGAGTTCATGATATA
**
34179176 TGTGGCATCTGAACTCATTGAGT-TA
1 TGTGG--TCTGAGTTCA-TGA-TATA
34179201 --TGGTCTGAGTTCATGATATA
1 TGTGGTCTGAGTTCATGATATA
34179221 TGTG
1 TGTG
34179225 ACACATGTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 8 0.21
22 7 0.18
23 3 0.08
24 8 0.21
25 5 0.13
26 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (22 bp):
TGTGGTCTGAGTTCATGATATA
Found at i:34179205 original size:45 final size:45
Alignment explanation
Indices: 34179137--34179224 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
34179127 AATTATTGTG
*
34179137 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
34179182 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
34179225 ACACATGTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
Found at i:34179591 original size:33 final size:28
Alignment explanation
Indices: 34179527--34179583 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
34179517 GTGGCACAGG
34179527 TATGTACATCGAACTAATGAGAATGACA
1 TATGTACATCGAACTAATGAGAATGACA
34179555 TATGTACATCGAACTAATGAGAATGACA
1 TATGTACATCGAACTAATGAGAATGACA
34179583 T
1 T
34179584 GAGATATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (28 bp):
TATGTACATCGAACTAATGAGAATGACA
Found at i:34182955 original size:20 final size:21
Alignment explanation
Indices: 34182916--34182955 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34182906 GTCAAGTTGG
* *
34182916 TCACACGGGCCTGTTGCCCTT
1 TCACACGAGCATGTTGCCCTT
34182937 TCACACGAGCATG-TGCCCT
1 TCACACGAGCATGTTGCCCT
34182956 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.25
Consensus pattern (21 bp):
TCACACGAGCATGTTGCCCTT
Found at i:34189257 original size:55 final size:55
Alignment explanation
Indices: 34189168--34189273 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
34189158 TTAAAATTTT
*
34189168 AAGTTAGTATATGACACGGGTAGGTCACACGGGCATGTGCCATAGCCGTGTCCCA
1 AAGTCAGTATATGACACGGGTAGGTCACACGGGCATGTGCCATAGCCGTGTCCCA
* *
34189223 AAGTCAGTAT-TGAACACGGGTAGG-CTATACGGGCATGTGCCATGGCCGTGT
1 AAGTCAGTATATG-ACACGGGTAGGTC-ACACGGGCATGTGCCATAGCCGTGT
34189274 TTAAAATTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
54 3 0.07
55 43 0.93
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (55 bp):
AAGTCAGTATATGACACGGGTAGGTCACACGGGCATGTGCCATAGCCGTGTCCCA
Found at i:34191507 original size:38 final size:38
Alignment explanation
Indices: 34191456--34191536 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
34191446 TATATAAGGA
34191456 AAGGATATGAAGCCTACCTTGCATTTGTACTGAACACT
1 AAGGATATGAAGCCTACCTTGCATTTGTACTGAACACT
34191494 AAGGATATGAAGCCTACCTTGCATTTGTACTGAACACT
1 AAGGATATGAAGCCTACCTTGCATTTGTACTGAACACT
34191532 AAGGA
1 AAGGA
34191537 AACAGAGCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (38 bp):
AAGGATATGAAGCCTACCTTGCATTTGTACTGAACACT
Found at i:34197631 original size:46 final size:46
Alignment explanation
Indices: 34197581--34197756 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
34197571 TGGTTGAGCA
34197581 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34197627 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
34197672 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34197720 CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34197757 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34197737 original size:93 final size:93
Alignment explanation
Indices: 34197578--34197749 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34197568 GGATGGTTGA
* * * * *
34197578 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCTGAACTCATTGAGT
34197643 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34197671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCTGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCTGAACTCATTGAGT
34197736 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
34197750 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCTGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34200757 original size:40 final size:40
Alignment explanation
Indices: 34200688--34200853 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
34200678 AACCCAAGTA
* **
34200688 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34200727 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34200767 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34200807 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34200847 CGTTCGG
1 CCTTCGG
34200854 ATCTTAGTTC
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34206143 original size:24 final size:24
Alignment explanation
Indices: 34206093--34206146 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
34206083 AATCGAATTT
*
34206093 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
34206117 GCACACATAGTGCCTTAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
34206141 GCACAC
1 GCACAC
34206147 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.28, C:0.39, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:34211833 original size:40 final size:40
Alignment explanation
Indices: 34211764--34211929 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
34211754 AACCCAAGTA
* **
34211764 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34211803 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34211843 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34211883 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34211923 CCTTCGG
1 CCTTCGG
34211930 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.11
40 107 0.89
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34213972 original size:55 final size:55
Alignment explanation
Indices: 34213853--34213974 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 55
34213843 TTAAAATTTT
* * * * * **
34213853 AAGTTAGTATCGGACACGGGTAGGTCACACGGGCGTGTGCCATAGCCGTGTCCCG
1 AAGTTAGTATTGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTCCAA
* * * * **
34213908 AAGTCAGTATTGAACACGGGCAGGCCATACGGGCGTGTGTCATGGCCATGTTTAA
1 AAGTTAGTATTGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTCCAA
34213963 AAGTTAGTATTG
1 AAGTTAGTATTG
34213975 CCCACGGACT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (55 bp):
AAGTTAGTATTGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTCCAA
Found at i:34215525 original size:23 final size:25
Alignment explanation
Indices: 34215484--34215537 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
34215474 CAAACTAAAG
**
34215484 AAAAAAAAATGTAACAATTAAATTT
1 AAAAAAAAATGTAACAATTAAAAAT
*
34215509 AAAAAAATAT-TAA-AATTAAAAAT
1 AAAAAAAAATGTAACAATTAAAAAT
34215532 AAAAAA
1 AAAAAA
34215538 TGACAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.54
24 3 0.12
25 9 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAAAAAAATGTAACAATTAAAAAT
Found at i:34222757 original size:23 final size:23
Alignment explanation
Indices: 34222730--34222777 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34222720 TTCATTAGGA
*
34222730 TTAATGTTGGACTAAGCTATTAG
1 TTAATGTTGCACTAAGCTATTAG
* *
34222753 TTAATGTTTCACTAAGCTTTTAG
1 TTAATGTTGCACTAAGCTATTAG
34222776 TT
1 TT
34222778 TTAATTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (23 bp):
TTAATGTTGCACTAAGCTATTAG
Found at i:34223210 original size:25 final size:25
Alignment explanation
Indices: 34223182--34223230 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
34223172 TTATTTTGGC
*
34223182 TTTTCTTCTCCCAATTAAACTCTAT
1 TTTTATTCTCCCAATTAAACTCTAT
* * *
34223207 TTTTATTTTTCCACTTAAACTCTA
1 TTTTATTCTCCCAATTAAACTCTA
34223231 ACTAACCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTATTCTCCCAATTAAACTCTAT
Found at i:34229773 original size:26 final size:26
Alignment explanation
Indices: 34229744--34229851 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34229734 TGGTACAAAT
34229744 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
34229770 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
34229796 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
34229822 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
34229848 TGAT
1 TGAT
34229852 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:34231509 original size:27 final size:27
Alignment explanation
Indices: 34231469--34231597 Score: 156
Period size: 27 Copynumber: 4.8 Consensus size: 27
34231459 AGGAAGCGTC
*
34231469 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
34231496 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* **
34231523 CTGGTGGCTATGCCTTGAT-TATCTGAT
1 CTGGTGGCTCTGCC-ACATATATCTGAT
*
34231550 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
34231577 CTGGTGGCTCTACCACA-ATAT
1 CTGGTGGCTCTGCCACATATAT
34231598 TTGTATCTAG
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.07
27 79 0.90
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:34231551 original size:54 final size:54
Alignment explanation
Indices: 34231469--34231595 Score: 209
Period size: 54 Copynumber: 2.4 Consensus size: 54
34231459 AGGAAGCGTC
34231469 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
***
34231523 CTGGTGGCTATGCCTTGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
34231577 CTGGTGGCTCTACCACAAT
1 CTGGTGGCTATGCCACAAT
34231596 ATTTGTATCT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:34239678 original size:28 final size:28
Alignment explanation
Indices: 34239640--34239746 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
34239630 GAATCATTCG
* *
34239640 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
34239668 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
34239696 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
34239724 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
34239747 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:34244401 original size:26 final size:26
Alignment explanation
Indices: 34244372--34244479 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34244362 TGGTACAAAT
34244372 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34244398 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34244424 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34244450 TGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34244476 TGAT
1 TGAT
34244480 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34246141 original size:27 final size:26
Alignment explanation
Indices: 34246101--34246178 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 26
34246091 AGGAAGCGTC
34246101 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
34246128 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
34246155 CTGGTGGCTATGCCACGATTATCT
1 CTGGTGGCTATGCCAC-ATTATCT
34246179 TTGAATATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 2 0.04
27 42 0.91
28 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:34246561 original size:443 final size:443
Alignment explanation
Indices: 34245735--34246621 Score: 1693
Period size: 443 Copynumber: 2.0 Consensus size: 443
34245725 GATAGTTGGG
*
34245735 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCGTACATTTTGATAATT
1 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
* * *
34245800 TGGGCTTAATGGGCCAAAGATCGGGTTCATGGGCCAACAGGCCCAATTCGGTAAGTATGCGCGGT
66 TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCCAACAGGCCCAATTCAGTAAGTATGCGCGAT
*
34245865 AAGTGTTCTGATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
131 AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
34245930 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
196 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
34245995 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
261 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
*
34246060 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTATCT
326 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
34246125 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
391 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
34246178 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
1 TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
* *
34246243 TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCTAACGGGCCCAATTCAGTAAGTATGCGCGAT
66 TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCCAACAGGCCCAATTCAGTAAGTATGCGCGAT
34246308 AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
131 AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
34246373 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
196 ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
*
34246438 AGGGTTAATTTTGACTAAAAAGCTTGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
261 AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
34246503 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
326 CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
34246568 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
391 GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
34246621 T
1 T
34246622 GATCTGGTGG
Statistics
Matches: 435, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 435 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (443 bp):
TTTGAATATTTGGTAATCTAAAGTAATAAACTGCAGTACACGCGATTTCATACATTTTGATAATT
TGGGCTTAATGGGCCAAAGATCGAGTTCATGGGCCAACAGGCCCAATTCAGTAAGTATGCGCGAT
AAGTGTTCTAATAGTATGTAAATAGTTAGGATATGCATGAAAACCCTAAAAGTAGCTAAATTACT
ATAATACCCCTATGTATGGAAAATTACTGTTATACCCCTAGGTGCAAAATTATCGTTATACCCCT
AGGGTTAATTTTGACTAAAAAGCATGACGATCTGATTCTGTATGATGTATGCCATGATTATATAT
CTGTTGCATGGGGACATGGGTTATATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTACCT
GATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATC
Found at i:34246584 original size:27 final size:27
Alignment explanation
Indices: 34246544--34246684 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
34246534 AGGAAGCGTC
* *
34246544 CTGGTGGCTATGCCACAATTACCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
34246571 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
34246598 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
34246625 CTGGTGGCTCTGCCAC-ATATATATGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
34246652 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
34246679 CTGGTG
1 CTGGTG
34246685 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
26 9 0.09
27 87 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:34246626 original size:54 final size:53
Alignment explanation
Indices: 34246544--34246684 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
34246534 AGGAAGCGTC
* *
34246544 CTGGTGGCTATGCCACAATTACCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
34246598 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
* *
34246652 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
34246685 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATATGTT
Found at i:34248662 original size:46 final size:46
Alignment explanation
Indices: 34248609--34248784 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
34248599 TGGTTGAGTA
*
34248609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
34248655 TCTGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
34248702 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
34248748 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34248785 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:34248767 original size:93 final size:93
Alignment explanation
Indices: 34248608--34248777 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
34248598 ATGGTTGAGT
* * * *
34248608 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTTGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
34248673 AGTCCGAGTTCGTGAGATGTAACTAGGC
66 AGTCCGAGTTCGTGAGATGTAACTAGGC
* *
34248701 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
34248766 AGTCCGAGTTCG
66 AGTCCGAGTTCG
34248778 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGC
Found at i:34253728 original size:24 final size:26
Alignment explanation
Indices: 34253687--34253738 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
34253677 TCGGGACTAA
*
34253687 TTTAATATCCACATTTAA-TCCTAAAT
1 TTTAATATCCACAATTAACT-CTAAAT
34253713 TTTAATAT-CA-AATTAACTCTAAAT
1 TTTAATATCCACAATTAACTCTAAAT
34253737 TT
1 TT
34253739 CCCTAATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 8 0.33
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTAATATCCACAATTAACTCTAAAT
Found at i:34255447 original size:24 final size:21
Alignment explanation
Indices: 34255399--34255439 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34255389 GCTATATATT
34255399 ATAAAAATAATATAGTTTTTC
1 ATAAAAATAATATAGTTTTTC
34255420 ATAAAAA-AATTATAGTTTTT
1 ATAAAAATAA-TATAGTTTTT
34255440 TATCATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAAAAATAATATAGTTTTTC
Found at i:34265981 original size:46 final size:46
Alignment explanation
Indices: 34265892--34266063 Score: 281
Period size: 46 Copynumber: 3.7 Consensus size: 46
34265882 AACCCGCCCC
* * *
34265892 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
34265938 TAAATGAACTCAGACTCAACTCAACAAGTTTGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
34265984 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
34266030 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34266064 TGCTCAACCA
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:34272691 original size:45 final size:45
Alignment explanation
Indices: 34272635--34272723 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
34272625 TTGAGTAATC
*
34272635 ATGGCGAATCTTAT-CTCCTTGAAGTTGCAATGGAGTAGATCGAAA
1 ATGGCGAATCTTATACTCC-TGAAGTTGCAATGGAGCAGATCGAAA
* * *
34272680 ATGGCGAATCTTATATTCCTGAAGTTGTACTGGAGCAGATCGAA
1 ATGGCGAATCTTATACTCCTGAAGTTGCAATGGAGCAGATCGAA
34272724 GCCACCAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 36 0.92
46 3 0.08
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (45 bp):
ATGGCGAATCTTATACTCCTGAAGTTGCAATGGAGCAGATCGAAA
Found at i:34272962 original size:143 final size:143
Alignment explanation
Indices: 34272699--34272962 Score: 321
Period size: 143 Copynumber: 1.8 Consensus size: 143
34272689 CTTATATTCC
* * * * * *
34272699 TGAAGTTGTACTGGAGCAGATCGAAGCCACCAGTCTTATCTCCCTAAAGTTGTAGTGGGGCAGAC
1 TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTGCAGTAGAGCAGAC
* * ** ** * *
34272764 TAAAGACAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACATATTAAAGTTACAAATTATGGTG
66 TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAAATTATGGTG
34272829 AACTTTCTCTCCT
131 AACTTTCTCTCCT
* * * *
34272842 TGAAGTTGCAGTGGAGCAGATTGAAACCACCAGCCTTATTTCCCTGAAGTTGCAGTAGAGCAGAC
1 TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTGCAGTAGAGCAGAC
** * **
34272907 TAAAGTTAGCGAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTGCAGCTACAA
66 TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAA
34272963 GTCATAATCC
Statistics
Matches: 98, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
143 98 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (143 bp):
TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTGCAGTAGAGCAGAC
TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAAATTATGGTG
AACTTTCTCTCCT
Found at i:34277901 original size:40 final size:40
Alignment explanation
Indices: 34277843--34277969 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
34277833 GAATTTGGCT
* * *
34277843 CGGATGTAACAACCAGCACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCAC-AATGCCTTCGGGATCTTAACC
* **
34277883 CGGTTATAATAACTAGCACAATTGCCTTC-GGATCTTAGTC
1 CGGATATAATAACTAGCACAA-TGCCTTCGGGATCTTAACC
* **
34277923 CGGATATAGTAACTAGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATATAATAACTAGCAC-AATGCCTTCGGGATCTTAACC
34277963 CGGATAT
1 CGGATAT
34277970 CATCCGAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
39 5 0.07
40 69 0.91
41 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAATGCCTTCGGGATCTTAACC
Found at i:34279909 original size:15 final size:15
Alignment explanation
Indices: 34279891--34279920 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34279881 TTTTAATAAC
34279891 AAAGCTTTTATTCAT
1 AAAGCTTTTATTCAT
34279906 AAAGCTTTTATTCAT
1 AAAGCTTTTATTCAT
34279921 TTGAACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
AAAGCTTTTATTCAT
Found at i:34282299 original size:31 final size:32
Alignment explanation
Indices: 34282264--34282332 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
34282254 TACTAATAGA
34282264 AAATAAAATGAAATTCATATATATAAATG-TT
1 AAATAAAATGAAATTCATATATATAAATGATT
*
34282295 AAATAAAATGAAATTCATATTTATAAATGATT
1 AAATAAAATGAAATTCATATATATAAATGATT
*
34282327 TAATAA
1 AAATAA
34282333 TTCTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATAAAATGAAATTCATATATATAAATGATT
Found at i:34287049 original size:30 final size:30
Alignment explanation
Indices: 34287005--34287093 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
34286995 CAAAGATACT
34287005 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
34287034 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
34287064 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
34287094 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:34287053 original size:15 final size:15
Alignment explanation
Indices: 34287005--34287084 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
34286995 CAAAGATACT
*
34287005 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
34287019 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
34287034 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
34287049 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
34287064 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
34287079 AAGAAA
1 AAGAAA
34287085 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:34287093 original size:15 final size:15
Alignment explanation
Indices: 34287016--34287093 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
34287006 AGAAAACCGA
34287016 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
34287031 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
34287045 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
34287060 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
34287076 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34287091 ATA
1 ATA
34287094 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:34304862 original size:127 final size:130
Alignment explanation
Indices: 34304727--34304963 Score: 354
Period size: 134 Copynumber: 1.8 Consensus size: 130
34304717 TAAAAATATA
* *
34304727 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTT-AA-AACA-AATTTTTTTTTCCACTATTT
1 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAATAAAATAATTTTTTTTTCAACTATTT
* *
34304789 CAAAATAAAAGCTTTGATATTTAAGAAAAGTATTTTTTTTTTTGGAAAAAGAGAAAGTTTAGTTG
66 CAAAATAAAAGCTTTGATATTTAAGAAAAATAGTTTTTTTTTTGGAAAAAGAGAAAGTTTAGTTG
* *
34304854 TTTTTTTAGTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTAATTTTTTTTTCAATT
1 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTT-AAATAAAA---TAATTTTTTTTTCAACT
*
34304919 ATTTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTT
62 ATTTCAAAATAAAAGCTTTGATATTTAAGAAAAATAGTTTTTTTT
34304964 AAAAAAGAGA
Statistics
Matches: 96, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
127 35 0.36
129 2 0.02
130 3 0.03
134 56 0.58
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (130 bp):
TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAATAAAATAATTTTTTTTTCAACTATTT
CAAAATAAAAGCTTTGATATTTAAGAAAAATAGTTTTTTTTTTGGAAAAAGAGAAAGTTTAGTTG
Found at i:34304891 original size:20 final size:20
Alignment explanation
Indices: 34304866--34304909 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
34304856 TTTTTAGTTA
*
34304866 TTTTAAAGGAAAATTTAAAT
1 TTTTAAAAGAAAATTTAAAT
* *
34304886 TTTTAAAATAAAATTTTAAT
1 TTTTAAAAGAAAATTTAAAT
34304906 TTTT
1 TTTT
34304910 TTTTCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTAAAAGAAAATTTAAAT
Done.