Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3891333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 17
Found at i:2193053 original size:46 final size:46
Alignment explanation
Indices: 2192955--2193150 Score: 313
Period size: 46 Copynumber: 4.3 Consensus size: 46
2192945 TGCATTAAGA
* * * *
2192955 CATGAAAGGATGCATTAAGGCATG-AAGAATGTCATAATTAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
*
2193000 AATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
2193046 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
* *
2193092 CATGAACGAATGCATTAAGGCATGAAAGGATGACATAACTAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
*
2193138 CATGAAAGGATGC
1 CATGAACGGATGC
2193151 CATAATTAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
45 22 0.16
46 118 0.84
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (46 bp):
CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATG
Found at i:2193144 original size:72 final size:72
Alignment explanation
Indices: 2193065--2193222 Score: 271
Period size: 72 Copynumber: 2.2 Consensus size: 72
2193055 ATGCATTAAG
2193065 GCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGACATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGACATAA
2193130 CTAAAAT
66 CTAAAAT
* * * * *
2193137 GCATGAAAGGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGACATAA
2193202 CTAAAAT
66 CTAAAAT
2193209 GCATGAAAGGATGC
1 GCATGAAAGGATGC
2193223 ATTAAGGCAT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGACATAA
CTAAAAT
Found at i:2193187 original size:92 final size:87
Alignment explanation
Indices: 2193137--2193463 Score: 404
Period size: 91 Copynumber: 3.6 Consensus size: 87
2193127 TAACTAAAAT
* *
2193137 GCATGAAAGGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATG-AACGATGCCAT--
2193202 CTAAAATGCATGAAAGGATGCATTAAG
63 -T-AAATGCATGAAAGGATGCATTAAG
* ** *
2193229 GCATGAAAGGATG-CATAACTAAAATGCATGAACTGATGCATTAAGGCATGAAAGGATGCCATAT
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATG-AACGATGCC--AT
2193293 TAAAATGCATGAAAGGATGCATTAAG
63 T-AAATGCATGAAAGGATGCATTAAG
* * *
2193319 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATACATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATG-AACGATGCC---A
2193384 TTAAAATGCATGAAAGGATGCATTAAG
62 TT-AAATGCATGAAAGGATGCATTAAG
* * * *
2193411 GCATGAAAGGATGCCATGATTAAAATGCATGAACGGATGTATTAATGCATGAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAA
2193464 AAGAGACCAT
Statistics
Matches: 215, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
90 39 0.18
91 88 0.41
92 86 0.40
93 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.23
Consensus pattern (87 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAACGATGCCATTAA
ATGCATGAAAGGATGCATTAAG
Found at i:2193198 original size:164 final size:159
Alignment explanation
Indices: 2192924--2193312 Score: 588
Period size: 164 Copynumber: 2.4 Consensus size: 159
2192914 AATCGAACCC
* * * *
2192924 TAACTAAAATGCATGAAATGATGCATTAAGACATGAAAGGATGCAT-T--AAGGCATG-AAGAAT
1 TAACTAAAATGCATG-AACGATGCATTAAGGCATGAAAGGATGCATATAAAATGCATGAAAGGAT
*
2192985 GTCATAATTAAAATGAATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATG
65 GCCATAATTAAAATGAATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATG
*
2193050 AACGGATGCATTAAGGCATGAAAGGATGCCA
130 AAAGGATGCATTAAGGCATGAAAGGATG-CA
2193081 TAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGACATAACTAAAATGCATGAAAG
1 TAACTAAAATGCATGAACG-ATGCATTAAGGCATGAAAGGATG-CAT-A-TAAAATGCATGAAAG
* * *
2193146 GATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAATGATGCCATAACTAAAATGC
62 GATGCCATAATTAAAATGAATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGC
2193211 ATGAAAGGATGCATTAAGGCATGAAAGGATGCA
127 ATGAAAGGATGCATTAAGGCATGAAAGGATGCA
2193244 TAACTAAAATGCATGAACTGATGCATTAAGGCATGAAAGGATGCCATATTAAAATGCATGAAAGG
1 TAACTAAAATGCATGAAC-GATGCATTAAGGCATGAAAGGATG-CATA-TAAAATGCATGAAAGG
2193309 ATGC
63 ATGC
2193313 ATTAAGGCAT
Statistics
Matches: 212, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
156 3 0.01
157 37 0.17
158 3 0.01
161 1 0.00
162 21 0.10
163 53 0.25
164 94 0.44
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (159 bp):
TAACTAAAATGCATGAACGATGCATTAAGGCATGAAAGGATGCATATAAAATGCATGAAAGGATG
CCATAATTAAAATGAATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGA
AAGGATGCATTAAGGCATGAAAGGATGCA
Found at i:2193459 original size:20 final size:20
Alignment explanation
Indices: 2193206--2193464 Score: 113
Period size: 20 Copynumber: 11.6 Consensus size: 20
2193196 CCATAACTAA
*
2193206 AATGCATGAAAGGATGCATT
1 AATGCATGAAAGGATGTATT
* *
2193226 AAGGCATGAAAGGATGCATAACTAA
1 AATGCATGAAAGGATG--T-A-T-T
** *
2193251 AATGCATGAACTGATGCATT
1 AATGCATGAAAGGATGTATT
*
2193271 AAGGCATGAAAGGATGCCATATT
1 AATGCATGAAAGGATG---TATT
*
2193294 AAAATGCATGAAAGGATGCATT
1 --AATGCATGAAAGGATGTATT
* *
2193316 AAGGCATGAAAGGATGCCATAACTAA
1 AATGCATGAAAGGATG---T-A-T-T
**
2193342 AATGCATGAAAGGATACATT
1 AATGCATGAAAGGATGTATT
* *
2193362 AAGGCATGAAATGATGCCATAATT
1 AATGCATGAAAGGATG---T-ATT
*
2193386 AAAATGCATGAAAGGATGCATT
1 --AATGCATGAAAGGATGTATT
*
2193408 AAGGCATGAAAGGATGCCATGATT
1 AATGCATGAAAGGATG---T-ATT
*
2193432 AAAATGCATGAACGGATGTATT
1 --AATGCATGAAAGGATGTATT
2193454 AATGCATGAAA
1 AATGCATGAAA
2193465 AGAGACCATA
Statistics
Matches: 178, Mismatches: 33, Indels: 56
0.67 0.12 0.21
Matches are distributed among these distances:
20 81 0.46
21 2 0.01
22 11 0.06
23 5 0.03
24 8 0.04
25 29 0.16
26 42 0.24
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (20 bp):
AATGCATGAAAGGATGTATT
Found at i:2193489 original size:46 final size:46
Alignment explanation
Indices: 2193137--2193482 Score: 527
Period size: 46 Copynumber: 7.6 Consensus size: 46
2193127 TAACTAAAAT
* *
2193137 GCATGAAAGGATGCCATAATTAAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
*
2193183 GCATGAAATGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
**
2193229 GCATGAAAGGATG-CATAACTAAAATGCATGAACTGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
*
2193274 GCATGAAAGGATGCCAT-ATTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
*
2193319 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATACATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* *
2193365 GCATGAAATGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* * * * *
2193411 GCATGAAAGGATGCCATGATTAAAATGCATGAACGGATGTATTAAT
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
*
2193457 GCATGAAAAGA-GACCATAACTAAAAT
1 GCATGAAAGGATG-CCATAACTAAAAT
2193483 TAATGAATAA
Statistics
Matches: 275, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 86 0.31
46 189 0.69
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
Found at i:2193747 original size:19 final size:19
Alignment explanation
Indices: 2193723--2193760 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2193713 CCCATGCACC
2193723 AGTGACACCAAGACAATCT
1 AGTGACACCAAGACAATCT
2193742 AGTGACACCAAGACAATCT
1 AGTGACACCAAGACAATCT
2193761 GTTGTTTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (19 bp):
AGTGACACCAAGACAATCT
Found at i:2195128 original size:28 final size:28
Alignment explanation
Indices: 2195095--2195150 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2195085 CACTTCTCCC
2195095 ATTTATCATTTTAAAAACACACTTAAAA
1 ATTTATCATTTTAAAAACACACTTAAAA
2195123 ATTTATCATTTTAAAAACACACTTAAAA
1 ATTTATCATTTTAAAAACACACTTAAAA
2195151 CACACTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTTATCATTTTAAAAACACACTTAAAA
Found at i:2197454 original size:20 final size:21
Alignment explanation
Indices: 2197400--2197462 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
2197390 GATTCCCCTG
2197400 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
2197424 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
2197444 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
2197463 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:2201279 original size:22 final size:21
Alignment explanation
Indices: 2201238--2201277 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2201228 GAGTTTGTTT
*
2201238 TCATTTTTCAATTTTGAAACG
1 TCATTTTTCAATTTTAAAACG
2201259 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2201278 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACG
Found at i:2207106 original size:10 final size:10
Alignment explanation
Indices: 2207091--2207137 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
2207081 TATTTTTTTT
2207091 ACAAAAAAAA
1 ACAAAAAAAA
*
2207101 AC-AAAAAAG
1 ACAAAAAAAA
* *
2207110 GCAAAAAAAC
1 ACAAAAAAAA
2207120 ACAAAAAAAA
1 ACAAAAAAAA
2207130 ACAAAAAA
1 ACAAAAAA
2207138 GCCAAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:2207154 original size:29 final size:29
Alignment explanation
Indices: 2207087--2207155 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
2207077 TTGCTATTTT
*
2207087 TTTTACAAAAAAAAACAAAAAAGGCAAAA
1 TTTTACAAAAAAAAACAAAAAAGCCAAAA
****
2207116 AAACACAAAAAAAAACAAAAAAGCCAAAA
1 TTTTACAAAAAAAAACAAAAAAGCCAAAA
2207145 TTTTA-AAAAAA
1 TTTTACAAAAAA
2207156 TTGAAAACGA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.72, C:0.12, G:0.04, T:0.12
Consensus pattern (29 bp):
TTTTACAAAAAAAAACAAAAAAGCCAAAA
Found at i:2212651 original size:16 final size:17
Alignment explanation
Indices: 2212620--2212651 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2212610 AGTTTTCATT
2212620 TTTTATTTTATTTTAAG
1 TTTTATTTTATTTTAAG
2212637 TTTTATTTT-TTTTAA
1 TTTTATTTTATTTTAA
2212652 ATTCTAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATTTTATTTTAAG
Found at i:2212659 original size:23 final size:25
Alignment explanation
Indices: 2212609--2212660 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
2212599 ATCTCTTTTC
** *
2212609 AAGTTTTCATTTTTTATTTTATTTT
1 AAGTTTTCATTTTTTATTAAATTCT
2212634 AAGTTTT-ATTTTTT-TTAAATTCT
1 AAGTTTTCATTTTTTATTAAATTCT
2212657 AAGT
1 AAGT
2212661 GTCATAACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 7 0.29
25 7 0.29
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (25 bp):
AAGTTTTCATTTTTTATTAAATTCT
Found at i:2213694 original size:30 final size:30
Alignment explanation
Indices: 2213611--2213783 Score: 143
Period size: 30 Copynumber: 6.1 Consensus size: 30
2213601 AAATATGATT
*
2213611 AACAAAAATTTAAGAGG-CTAAAATAG---A
1 AACAAAAACTTAA-AGGACTAAAATAGCAAA
* *
2213638 AA-AAAAACTTAAGGGA--ATAATCAGCAAA
1 AACAAAAACTTAAAGGACTAAAAT-AGCAAA
* * *
2213666 AACAGAAACCTAAATGACTAAAATAGCAAA
1 AACAAAAACTTAAAGGACTAAAATAGCAAA
*
2213696 AACAAAAACTTAAAGGACT-AAACAGC--A
1 AACAAAAACTTAAAGGACTAAAATAGCAAA
* **
2213723 AA-AAAAACTTAAAGGACTAAAATGGCATG
1 AACAAAAACTTAAAGGACTAAAATAGCAAA
* *
2213752 AATAAAAACTTAAAGGACTAAAATAGAAAA
1 AACAAAAACTTAAAGGACTAAAATAGCAAA
2213782 AA
1 AA
2213784 TAGAAATTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
24 4 0.03
25 4 0.03
26 25 0.22
27 10 0.09
28 3 0.03
29 18 0.16
30 47 0.41
31 4 0.03
ACGTcount: A:0.61, C:0.12, G:0.13, T:0.15
Consensus pattern (30 bp):
AACAAAAACTTAAAGGACTAAAATAGCAAA
Found at i:2213764 original size:56 final size:59
Alignment explanation
Indices: 2213640--2213773 Score: 166
Period size: 56 Copynumber: 2.3 Consensus size: 59
2213630 AAAATAGAAA
* * * *
2213640 AAAAACTTAAGGGAATAATCAGCAAAAACAGAAACCTAAATGACTAAAATAGCAAAAAC
1 AAAAACTTAAAGGACTAAACAGCAAAAACAGAAACCTAAAGGACTAAAATAGCAAAAAC
* * ** *
2213699 AAAAACTTAAAGGACTAAACAGC-AAAA-A-AAACTTAAAGGACTAAAATGGCATGAAT
1 AAAAACTTAAAGGACTAAACAGCAAAAACAGAAACCTAAAGGACTAAAATAGCAAAAAC
2213755 AAAAACTTAAAGGACTAAA
1 AAAAACTTAAAGGACTAAA
2213774 ATAGAAAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
56 41 0.62
57 1 0.02
58 4 0.06
59 20 0.30
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (59 bp):
AAAAACTTAAAGGACTAAACAGCAAAAACAGAAACCTAAAGGACTAAAATAGCAAAAAC
Found at i:2213796 original size:23 final size:24
Alignment explanation
Indices: 2213770--2213816 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
2213760 CTTAAAGGAC
2213770 TAAAATAG-AAAAAATAGAAATTT
1 TAAAATAGAAAAAAATAGAAATTT
2213793 TAAAATAGAAAAAAATAGAAATTT
1 TAAAATAGAAAAAAATAGAAATTT
2213817 AAGGACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (24 bp):
TAAAATAGAAAAAAATAGAAATTT
Found at i:2214325 original size:2 final size:2
Alignment explanation
Indices: 2214318--2214348 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2214308 AAAATCAGAA
*
2214318 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2214349 AAAACTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2214335 original size:16 final size:16
Alignment explanation
Indices: 2214314--2214350 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2214304 GTTTAAAATC
2214314 AGAAAGAGAGAGAGAG
1 AGAAAGAGAGAGAGAG
2214330 AGAAAGAGAGAGAGAG
1 AGAAAGAGAGAGAGAG
2214346 AGAAA
1 AGAAA
2214351 AACTCTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (16 bp):
AGAAAGAGAGAGAGAG
Found at i:2215184 original size:3 final size:3
Alignment explanation
Indices: 2215171--2215207 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
2215161 AATAAATGTA
2215171 AAT AAT AAAT AAT AAT AA- AAT AAT AAT AAT AAT AAT A
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2215208 TATTATTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2215189 original size:17 final size:16
Alignment explanation
Indices: 2215171--2215207 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
2215161 AATAAATGTA
2215171 AATAATAAATAATAAT
1 AATAATAAATAATAAT
2215187 AA-AAT-AATAATAAT
1 AATAATAAATAATAAT
2215201 AATAATA
1 AATAATA
2215208 TATTATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.58
15 6 0.32
16 2 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:2215669 original size:132 final size:129
Alignment explanation
Indices: 2215481--2215718 Score: 341
Period size: 132 Copynumber: 1.8 Consensus size: 129
2215471 AAGAGTTATG
** * * *
2215481 GCCATCTTTAGGGATGATAACATGGTTCCTACGTAATGAGGATGATTGGTTATCAGGGGTGACAC
1 GCCATCTTTAGGGATGATAACACAGTTCCTACGCAATGAGGATGACTAGTTATCAGGGGTGACAC
* *
2215546 GGCTCCTACATGATGAGGAGGTCTAGTCGAGTGATGACACGGTTCCTACGCGATGAGGATGACA
66 GGCTCCTACATGAAGAGGAGGTCTAGTCGAGGGATGACACGGTTCCTACGCGATGAGGATGACA
*
2215610 GCCATCTTTAGGGAGGGTGATAACACAGTTCCTACGCGATGAGGATGACTAGTTATCAGGGGTGA
1 GCCATCTTTAGGGA---TGATAACACAGTTCCTACGCAATGAGGATGACTAGTTATCAGGGGTGA
* * * *
2215675 CACGGCTTCTACATGAAGAGGAGGTTTGGTCGGGGGATGACACG
63 CACGGCTCCTACATGAAGAGGAGGTCTAGTCGAGGGATGACACG
2215719 ACTTTTATGT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
129 14 0.15
132 80 0.85
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (129 bp):
GCCATCTTTAGGGATGATAACACAGTTCCTACGCAATGAGGATGACTAGTTATCAGGGGTGACAC
GGCTCCTACATGAAGAGGAGGTCTAGTCGAGGGATGACACGGTTCCTACGCGATGAGGATGACA
Found at i:2215733 original size:132 final size:130
Alignment explanation
Indices: 2215480--2215757 Score: 326
Period size: 132 Copynumber: 2.1 Consensus size: 130
2215470 GAAGAGTTAT
** * * *
2215480 GGCCATCTTTAGGGATGATAACATGGTTCCTACGTAATGAGGATGATTGGTTATCAGGGGTGACA
1 GGCCATCTTTAGGGATGATAACACAGTTCCTACGCAATGAGGATGACTAGTTATCAGGGGTGACA
* * * *
2215545 CGGCTCCTACATGATGAGGAGGTCTAGTCGAGTGATGACACGGTTCCTACGCGATGAGGATGACA
66 CGGCTCCTACATGAAGAGGAGGTCTAGTCGAGGGATGACACGCTTCCTACGCGATGAGGACGACA
*
2215610 -GCCATCTTTAGGGAGGGTGATAACACAGTTCCTACGCGATGAGGATGACTAGTTATCAGGGGTG
1 GGCCATCTTTAGGGA---TGATAACACAGTTCCTACGCAATGAGGATGACTAGTTATCAGGGGTG
* * * * * * * *
2215674 ACACGGCTTCTACATGAAGAGGAGGTTTGGTCGGGGGATGACACGACTT-TTATGTGATGATGAC
63 ACACGGCTCCTACATGAAGAGGAGGTCTAGTCGAGGGATGACACG-CTTCCTACGCGATGAGGAC
**
2215738 GGTA
127 GACA
2215742 GGCCATCTTTAGGGAT
1 GGCCATCTTTAGGGAT
2215758 AATGGTTTCA
Statistics
Matches: 123, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
129 14 0.11
130 1 0.01
132 92 0.75
133 16 0.13
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (130 bp):
GGCCATCTTTAGGGATGATAACACAGTTCCTACGCAATGAGGATGACTAGTTATCAGGGGTGACA
CGGCTCCTACATGAAGAGGAGGTCTAGTCGAGGGATGACACGCTTCCTACGCGATGAGGACGACA
Found at i:2216397 original size:22 final size:21
Alignment explanation
Indices: 2216336--2216400 Score: 58
Period size: 26 Copynumber: 2.9 Consensus size: 21
2216326 TGTTTTATTT
2216336 TCAAAAGTTTGAAAATATCAA
1 TCAAAAGTTTGAAAATATCAA
* * *
2216357 TTAAAAGGATGTTGAAAAATGTTTAA
1 TCAAAA-G-T-TTG-AAAAT-ATCAA
2216383 TCAAAAGTTTGAAAATAT
1 TCAAAAGTTTGAAAATAT
2216401 TACTCCTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
21 6 0.18
22 6 0.18
23 4 0.12
24 4 0.12
25 6 0.18
26 8 0.24
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (21 bp):
TCAAAAGTTTGAAAATATCAA
Found at i:2216753 original size:77 final size:79
Alignment explanation
Indices: 2216635--2216790 Score: 289
Period size: 77 Copynumber: 2.0 Consensus size: 79
2216625 ATGAAGTGGC
2216635 TTCTGTACTCATTTATTGGAAGTGTTCTCCGACTCCCAGCTCTCATGTTCTCATTCAAGTT-TTC
1 TTCTGTACTCATTTATTGGAAGTGTTCTCCGACTCCCAGCTCTCATGTTCTCATTCAAGTTGTTC
2216699 GATGCCTTATCAAG
66 GATGCCTTATCAAG
2216713 TTCTGTACTCATTTATT-GAAGTGTTCTCCGACTCCCAGCTCTCATGTTCTCATTCAAGTTGTTC
1 TTCTGTACTCATTTATTGGAAGTGTTCTCCGACTCCCAGCTCTCATGTTCTCATTCAAGTTGTTC
*
2216777 GATGCTTTATCAAG
66 GATGCCTTATCAAG
2216791 GGATTTGTGT
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 43 0.57
78 33 0.43
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.40
Consensus pattern (79 bp):
TTCTGTACTCATTTATTGGAAGTGTTCTCCGACTCCCAGCTCTCATGTTCTCATTCAAGTTGTTC
GATGCCTTATCAAG
Found at i:2217506 original size:2 final size:2
Alignment explanation
Indices: 2217499--2217526 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2217489 GCTTTATTGC
2217499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2217527 TAATTGCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2218723 original size:20 final size:20
Alignment explanation
Indices: 2218698--2218738 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2218688 TGATAAATGC
2218698 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
2218718 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
2218738 A
1 A
2218739 GAGGGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (20 bp):
AATGTTTCAAGGTCTCAAAG
Found at i:2219972 original size:210 final size:212
Alignment explanation
Indices: 2219588--2219978 Score: 524
Period size: 210 Copynumber: 1.8 Consensus size: 212
2219578 TCCTCAAAAA
* * *
2219588 TGATGCCCCTCAAGCGATCTGTAACCTAACTCCATTAATGCCTCGATGGTACTGAAGTCAGTGTG
1 TGATGCCCCTCAAGC-ATCTGTAAACTAACTCCATTAATGCCTCGACGGTACTGAAGCCAGTGT-
** * *
2219653 CCACTCACTCCTTGATGGTTAGTGATGGAATGATCGTAGATAAGACTCTACTACTGGATTACTCC
64 -CACTCACTCCTTGATGACTAGTGATGGAATGATCGTAGATAAGACTCCACTACTAGATTACTCC
* * * *
2219718 TCGGATTAGTGGATCTTCATTTCAGTCTCGAATGTTGCACGATCTTCGAGCTCACTGTTTTGTCT
128 TCGAATCAATGGATCATCATTTCAGTCTCGAATGTTGCACGATCTTCGAGCTCACTGTTTTGTCT
2219783 CAGATCTTTGTATTTGGAAC
193 CAGATCTTTGTATTTGGAAC
*
2219803 TGATGCCCCTCAATGC-TCTGTAAACTAACTCCATTAATGCCTC-AGCGGTGCTGAAGCCA-T-T
1 TGATGCCCCTCAA-GCATCTGTAAACTAACTCCATTAATGCCTCGA-CGGTACTGAAGCCAGTGT
* * *
2219864 -ACGTCACTCCTTGATGACTAGTGAT-GACATGATTGTAGATAAGATTCCACTGCTAGATTACTC
64 CAC-TCACTCCTTGATGACTAGTGATGGA-ATGATCGTAGATAAGACTCCACTACTAGATTACTC
* *
2219927 CTCGAATCAATGGATCATCATTTCAGTCTTGAATGTTGTACGATCTTCGAGC
127 CTCGAATCAATGGATCATCATTTCAGTCTCGAATGTTGCACGATCTTCGAGC
2219979 AAGTTTTATT
Statistics
Matches: 155, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
209 4 0.03
210 96 0.62
212 1 0.01
213 2 0.01
214 37 0.24
215 13 0.08
216 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (212 bp):
TGATGCCCCTCAAGCATCTGTAAACTAACTCCATTAATGCCTCGACGGTACTGAAGCCAGTGTCA
CTCACTCCTTGATGACTAGTGATGGAATGATCGTAGATAAGACTCCACTACTAGATTACTCCTCG
AATCAATGGATCATCATTTCAGTCTCGAATGTTGCACGATCTTCGAGCTCACTGTTTTGTCTCAG
ATCTTTGTATTTGGAAC
Found at i:2222156 original size:30 final size:30
Alignment explanation
Indices: 2222061--2222238 Score: 173
Period size: 30 Copynumber: 6.0 Consensus size: 30
2222051 AATATGATTG
*
2222061 ATAGAAATTTAAGAGG-CTAAAATAGCAAAAA
1 ATAGAAACTTAA-AGGACTAAAATAG-AAAAA
* * * * *
2222092 ATAGATACTTAAGGGACTAATA-AGCAATA
1 ATAGAAACTTAAAGGACTAAAATAGAAAAA
* *
2222121 ATAGAAACATAAAGGACTAAAATATAAAAA
1 ATAGAAACTTAAAGGACTAAAATAGAAAAA
* * *
2222151 ATAGAACCTTAAAGGA-TTAAATAGCAAAA
1 ATAGAAACTTAAAGGACTAAAATAGAAAAA
* * *
2222180 ATAGAAACTTAAAGGACTAAAATGGTACAA
1 ATAGAAACTTAAAGGACTAAAATAGAAAAA
* *
2222210 ACAAAAACTTAAAGGACTAAAATAGAAAA
1 ATAGAAACTTAAAGGACTAAAATAGAAAA
2222239 TAAAAAATTA
Statistics
Matches: 116, Mismatches: 28, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
29 46 0.40
30 55 0.47
31 15 0.13
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (30 bp):
ATAGAAACTTAAAGGACTAAAATAGAAAAA
Found at i:2222177 original size:59 final size:60
Alignment explanation
Indices: 2222077--2222202 Score: 168
Period size: 59 Copynumber: 2.1 Consensus size: 60
2222067 ATTTAAGAGG
* *
2222077 CTAAAATAGCAAAAAATAGATACTTAAGGGACTAATAAGCAATAATAGAAACATAAAGGA
1 CTAAAATAGCAAAAAATAGATACTTAAAGGACTAATAAGCAAAAATAGAAACATAAAGGA
* * *
2222137 CTAAAATA-TAAAAAATAGA-ACCTTAAAGGATTAA-ATAGCAAAAATAGAAACTTAAAGGA
1 CTAAAATAGCAAAAAATAGATA-CTTAAAGGACTAATA-AGCAAAAATAGAAACATAAAGGA
2222196 CTAAAAT
1 CTAAAAT
2222203 GGTACAAACA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
58 2 0.03
59 49 0.83
60 8 0.14
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.20
Consensus pattern (60 bp):
CTAAAATAGCAAAAAATAGATACTTAAAGGACTAATAAGCAAAAATAGAAACATAAAGGA
Found at i:2222221 original size:59 final size:59
Alignment explanation
Indices: 2222098--2222288 Score: 171
Period size: 59 Copynumber: 3.3 Consensus size: 59
2222088 AAAAATAGAT
* * * * *
2222098 ACTTAAGGGACTAATA-AGCAATAATAGAAACATAAAGGACTAAAAT-ATAAAA-AATAGA
1 ACTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATGGTAAAACAA-A-A
*
2222156 ACCTTAAAGGA-TTAAATAGCAAAAATAGAAACTTAAAGGACTAAAATGGTACAAACAAAA
1 A-CTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATGGTA-AAACAAAA
* * * * *
2222216 ACTTAAAGGACTAAAATAG--AAAATAAAAAATT-AAGGACAAAAATGGTATTAACAGAA
1 ACTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATGGTA-AAACAAAA
* *
2222273 ACTAAAAGGGCTAAAA
1 ACTTAAAGGACTAAAA
2222289 GTAATTACAA
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
57 35 0.31
58 15 0.13
59 45 0.40
60 11 0.10
61 4 0.04
62 2 0.02
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.18
Consensus pattern (59 bp):
ACTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATGGTAAAACAAAA
Found at i:2222261 original size:57 final size:59
Alignment explanation
Indices: 2222158--2222288 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 59
2222148 AAAATAGAAC
* * * *
2222158 CTTAAAGGA-TTAAATAGCAAAAATAGAAACTTAAAGGACTAAAATGGTACAAACAAAAA
1 CTTAAAGGACTAAAATAG-AAAAATAAAAAATTAAAGGACAAAAATGGTACAAACAAAAA
** *
2222217 CTTAAAGGACTAAAATAG-AAAATAAAAAATT-AAGGACAAAAATGGTATTAACAGAAA
1 CTTAAAGGACTAAAATAGAAAAATAAAAAATTAAAGGACAAAAATGGTACAAACAAAAA
* *
2222274 CTAAAAGGGCTAAAA
1 CTTAAAGGACTAAAA
2222289 GTAATTACAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 35 0.56
58 11 0.18
59 9 0.15
60 7 0.11
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (59 bp):
CTTAAAGGACTAAAATAGAAAAATAAAAAATTAAAGGACAAAAATGGTACAAACAAAAA
Found at i:2230011 original size:15 final size:15
Alignment explanation
Indices: 2229991--2230020 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2229981 AACTTTAAGC
2229991 ATTGTATAATTTATA
1 ATTGTATAATTTATA
2230006 ATTGTATAATTTATA
1 ATTGTATAATTTATA
2230021 TCATTGAACT
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:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTGTATAATTTATA
Found at i:2234530 original size:3 final size:3
Alignment explanation
Indices: 2234522--2234557 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2234512 AATAAATGTA
*
2234522 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2234558 TGTGGACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2236051 original size:14 final size:15
Alignment explanation
Indices: 2236028--2236081 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 15
2236018 TGCCATTGCA
2236028 ATAAACCCTAAACT-
1 ATAAACCCTAAACTC
*
2236042 ATAAATCCTAAA-TC
1 ATAAACCCTAAACTC
2236056 ATAAACCCTAAAC-C
1 ATAAACCCTAAACTC
* *
2236070 CTAAACACTAAA
1 ATAAACCCTAAA
2236082 TTATACTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 33 0.97
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAACCCTAAACTC
Found at i:2236053 original size:7 final size:7
Alignment explanation
Indices: 2236029--2236081 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
2236019 GCCATTGCAA
2236029 TAAACCC
1 TAAACCC
**
2236036 TAAACTA
1 TAAACCC
*
2236043 TAAATCC
1 TAAACCC
* *
2236050 TAAATCA
1 TAAACCC
2236057 TAAACCC
1 TAAACCC
2236064 TAAACCC
1 TAAACCC
*
2236071 TAAACAC
1 TAAACCC
2236078 TAAA
1 TAAA
2236082 TTATACTTAC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:2236074 original size:28 final size:28
Alignment explanation
Indices: 2236028--2236082 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2236018 TGCCATTGCA
*
2236028 ATAAACCCTAAACTATAAATC-CTAAATC
1 ATAAACCCTAAACCATAAA-CACTAAATC
*
2236056 ATAAACCCTAAACCCTAAACACTAAAT
1 ATAAACCCTAAACCATAAACACTAAAT
2236083 TATACTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (28 bp):
ATAAACCCTAAACCATAAACACTAAATC
Found at i:2236146 original size:7 final size:7
Alignment explanation
Indices: 2236134--2236200 Score: 116
Period size: 7 Copynumber: 9.6 Consensus size: 7
2236124 GTCTTTGCAA
2236134 TAAACCC
1 TAAACCC
2236141 TAAACCC
1 TAAACCC
2236148 TAAACCC
1 TAAACCC
* *
2236155 TAAATCT
1 TAAACCC
2236162 TAAACCC
1 TAAACCC
2236169 TAAACCC
1 TAAACCC
2236176 TAAACCC
1 TAAACCC
2236183 TAAACCC
1 TAAACCC
2236190 TAAACCC
1 TAAACCC
2236197 TAAA
1 TAAA
2236201 ATCTAAATCC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:2236206 original size:21 final size:21
Alignment explanation
Indices: 2236140--2236207 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
2236130 GCAATAAACC
2236140 CTAAACCCTAAACCCT-AAAT
1 CTAAACCCTAAACCCTAAAAT
**
2236160 CTTAAACCCTAAACCCTAAACC
1 C-TAAACCCTAAACCCTAAAAT
2236182 CTAAACCCTAAACCCTAAAAT
1 CTAAACCCTAAACCCTAAAAT
2236203 CTAAA
1 CTAAA
2236208 TCCGATTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.02
21 38 0.90
22 3 0.07
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAAACCCTAAACCCTAAAAT
Found at i:2237713 original size:11 final size:11
Alignment explanation
Indices: 2237687--2237738 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
2237677 TAACCCGTCT
*
2237687 TCGAGCTTCAA
1 TCGAGCTTGAA
* *
2237698 ACGAGATTGAA
1 TCGAGCTTGAA
**
2237709 TCGAGCTCAAA
1 TCGAGCTTGAA
2237720 GTCGAGCTTGAA
1 -TCGAGCTTGAA
2237732 TCGAGCT
1 TCGAGCT
2237739 CGAGTCTCGA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:2237730 original size:23 final size:21
Alignment explanation
Indices: 2237687--2237739 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
2237677 TAACCCGTCT
2237687 TCGAGCTTCAAACGAGATTGAA
1 TCGAGC-TCAAACGAGATTGAA
*
2237709 TCGAGCTCAAAGTCGAGCTTGAA
1 TCGAGCTCAAA--CGAGATTGAA
2237732 TCGAGCTC
1 TCGAGCTC
2237740 GAGTCTCGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.18
22 6 0.21
23 17 0.61
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGAGCTCAAACGAGATTGAA
Found at i:2242369 original size:4 final size:4
Alignment explanation
Indices: 2242349--2242381 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
2242339 TTTGGACCTA
2242349 AAAT AAA- AAAT -AAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2242382 ATGAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:2242475 original size:28 final size:29
Alignment explanation
Indices: 2242433--2242495 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
2242423 AATACTAATG
*
2242433 ATAATA-ATATGTATATAT-TAAAAACTAT
1 ATAATATATATGTATAT-TGTAAAAACAAT
*
2242461 ATAATATATAT-TATATTGTGAAAACAAT
1 ATAATATATATGTATATTGTAAAAACAAT
2242489 ATAATAT
1 ATAATAT
2242496 GTTTTCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.03
28 26 0.84
29 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (29 bp):
ATAATATATATGTATATTGTAAAAACAAT
Found at i:2242653 original size:23 final size:21
Alignment explanation
Indices: 2242629--2242668 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2242619 TTAAAAACTA
*
2242629 TATATTATATGTTTTCAAATT
1 TATATAATATGTTTTCAAATT
2242650 TATATAATATGTTTTCAAA
1 TATATAATATGTTTTCAAA
2242669 AACTATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATAATATGTTTTCAAATT
Found at i:2245598 original size:3 final size:3
Alignment explanation
Indices: 2245590--2245680 Score: 182
Period size: 3 Copynumber: 30.3 Consensus size: 3
2245580 AAACAAAAAT
2245590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2245638 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2245681 AGGTGGGACA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2245965 original size:140 final size:140
Alignment explanation
Indices: 2245709--2245978 Score: 355
Period size: 140 Copynumber: 1.9 Consensus size: 140
2245699 TGTCGACAGG
* * *
2245709 TGCCCCTCTTTGCCCAGTATTGTGTCAACAAGAATAGGGCAAAGATGAAGAGACAATGAGTTTTC
1 TGCCCCTCTTTGCCCAGTATTGTGTCAACAAGAATAAGGCAAAGACGAAGAGACAATGAGATTTC
* * * *
2245774 ATCCGGTCAACTCCATGTTTTGAAATCTGATAAGGGAGATGCTCTACTGTTTCTTGAGGGTAGAT
66 ATCCGGCCAACTCCATGCTTTGAAATCTAATAAGGGACATGCTCTACTGTTTCTTGAGGGTAGAT
2245839 CAGATCGAGC
131 CAGATCGAGC
* * * * * *
2245849 TGCCCCTCTTTTCCCATTCTTGTGTTAACAAGGATAAGGCAATGACGAAGAGACAATGAGATTTC
1 TGCCCCTCTTTGCCCAGTATTGTGTCAACAAGAATAAGGCAAAGACGAAGAGACAATGAGATTTC
* * * *
2245914 ATCTGGCCGAA-TCTATGCTTTGAAATCTAATAAGGGACATGCT-TCATTGTTTCTTTAGGGTAG
66 ATCCGGCC-AACTCCATGCTTTGAAATCTAATAAGGGACATGCTCT-ACTGTTTCTTGAGGGTAG
2245977 AT
129 AT
2245979 TGAATCAAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
139 1 0.01
140 108 0.97
141 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (140 bp):
TGCCCCTCTTTGCCCAGTATTGTGTCAACAAGAATAAGGCAAAGACGAAGAGACAATGAGATTTC
ATCCGGCCAACTCCATGCTTTGAAATCTAATAAGGGACATGCTCTACTGTTTCTTGAGGGTAGAT
CAGATCGAGC
Found at i:2246236 original size:136 final size:134
Alignment explanation
Indices: 2245964--2246392 Score: 477
Period size: 136 Copynumber: 3.2 Consensus size: 134
2245954 GCTTCATTGT
* * * * * *
2245964 TTCTTTAGGGTAGATTGAATCAAGGTAGACTTGTTCCACTATTCCTCAGGGAAGATCAAATCTGG
1 TTCTTCAGGGAAGATTGAATCGA-GAAGACTTGTTCCACTATTCCTCAAGGAATATCAAATCTGG
* * * * * *
2246029 AAAAA-GAGGGATCTATTCCACTGCTTCTTGAGGGAAAATTAGATCTGGAAATGTTGATTCATTC
65 AAAAATGAGGGATATGTTCCGCTTCTTATTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTC
2246093 CACTG
130 CACTG
* *
2246098 TTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTGTTCCTCAAAGAATATCAAATCTGG
1 TTCTTCAGGGAAGATTGAATCGAGA-AGACTTGTTCCACTATTCCTCAAGGAATATCAAATCTGG
* * * *
2246163 AGAAAATGAGGGATTTGTTCCGCTTTTTATTGAGGGAAAATCAAATCTGGAAATTTTGATTCATT
65 A-AAAATGAGGGATATGTTCCGCTTCTTATTGAGGGAAAATCAGATCTGGAAATGTTGATTCATT
*
2246228 CCAATG
129 CCACTG
* * * * * * * *
2246234 TTCTTCAGAGAAGATTGAATTGAGGAAAACTTGTTTCATTATTCCT-TAGGGATGATCGAATCTA
1 TTCTTCAGGGAAGATTGAATCGA-GAAGACTTGTTCCACTATTCCTCAAGGAAT-ATCAAATCT-
* * * * *
2246298 GAAAAAAT-AGAGATATGTTCCGCTTCTTATTAAGGGAAAATCAGATCCGAAAATGTTGATTCAT
63 GGAAAAATGAGGGATATGTTCCGCTTCTTATTGAGGGAAAATCAGATCTGGAAATGTTGATTCAT
2246362 TCCACTG
128 TCCACTG
* *
2246369 TTCTTTAGGGAATATTGAATCGAG
1 TTCTTCAGGGAAGATTGAATCGAG
2246393 CTCGATTCGC
Statistics
Matches: 247, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
133 1 0.00
134 57 0.23
135 81 0.33
136 104 0.42
137 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (134 bp):
TTCTTCAGGGAAGATTGAATCGAGAAGACTTGTTCCACTATTCCTCAAGGAATATCAAATCTGGA
AAAATGAGGGATATGTTCCGCTTCTTATTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCC
ACTG
Found at i:2248139 original size:15 final size:16
Alignment explanation
Indices: 2248113--2248142 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2248103 AACAGTGAAC
2248113 AAAACAATACTTAATG
1 AAAACAATACTTAATG
2248129 AAAAC-ATACTTAAT
1 AAAACAATACTTAAT
2248143 AATTCATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAACAATACTTAATG
Found at i:2260604 original size:22 final size:22
Alignment explanation
Indices: 2260546--2260634 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
2260536 AAAGAGAATC
**
2260546 AAGAAAAGAAAAAAGATA-AAA
1 AAGAAAAGTGAAAAGATAGAAA
2260567 AAG-AAA--GAAAAGATAGAAA
1 AAGAAAAGTGAAAAGATAGAAA
* *
2260586 AATAAAAG-GAAAAATATAGAAA
1 AAGAAAAGTG-AAAAGATAGAAA
2260608 AAGAAAAGTGAAAAGATAGAAA
1 AAGAAAAGTGAAAAGATAGAAA
2260630 AAGAA
1 AAGAA
2260635 GAAAAAGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
18 8 0.14
19 5 0.09
20 6 0.10
21 4 0.07
22 34 0.59
23 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (22 bp):
AAGAAAAGTGAAAAGATAGAAA
Found at i:2260631 original size:44 final size:40
Alignment explanation
Indices: 2260549--2260631 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 40
2260539 GAGAATCAAG
2260549 AAAAGAAAAAAGATAAAAAAGAAAGAAAAGATAGAAAAAT
1 AAAAGAAAAAAGATAAAAAAGAAAGAAAAGATAGAAAAAT
* *
2260589 AAAAGGAAAAATATAGAAAAAGAAAAGTGAAAAGATAGAAAAA
1 AAAAGAAAAAAGATA-AAAAAG-AAA--GAAAAGATAGAAAAA
2260632 GAAGAAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 13 0.35
41 6 0.16
42 3 0.08
44 15 0.41
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (40 bp):
AAAAGAAAAAAGATAAAAAAGAAAGAAAAGATAGAAAAAT
Found at i:2260675 original size:20 final size:19
Alignment explanation
Indices: 2260534--2260680 Score: 67
Period size: 20 Copynumber: 7.7 Consensus size: 19
2260524 GATAGAAGAA
**
2260534 AAAAAGAGAATCAAGAAAAG
1 AAAAAGAGAAAAAAG-AAAG
*
2260554 AAAAAAGATAAAAAAGAAAG
1 -AAAAAGAGAAAAAAGAAAG
*
2260574 AAAAGATAGAAAAATA-AAAG
1 AAAA-AGAGAAAAA-AGAAAG
* * * *
2260594 GAAAA-ATATAGAA-AAAG
1 AAAAAGAGAAAAAAGAAAG
* *
2260611 -AAAAGTG--AAAAGATAG
1 AAAAAGAGAAAAAAGAAAG
2260627 AAAAAGA-AGAAAAAGAAA-
1 AAAAAGAGA-AAAAAGAAAG
*
2260645 AAGAGAGGAGAAAAAAGAAAG
1 AA-A-AAGAGAAAAAAGAAAG
2260666 AAAAATGAGAAAAAA
1 AAAAA-GAGAAAAAA
2260681 TAAATCAAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
15 3 0.03
16 7 0.07
17 10 0.10
18 6 0.06
19 14 0.15
20 40 0.42
21 16 0.17
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (19 bp):
AAAAAGAGAAAAAAGAAAG
Found at i:2262794 original size:42 final size:42
Alignment explanation
Indices: 2262611--2262779 Score: 211
Period size: 42 Copynumber: 4.1 Consensus size: 42
2262601 GAAGCTTCAA
*
2262611 CTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
**
2262653 CTTGACTCCCTCGTGAAGAATAGTCAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* ** * **
2262695 CTTAACTTTCTCGTAAAGATAAGTCAATC-TT---TGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
**
2262733 CTTGACTCCCTCGTGAAGAGGAGTCAATCTCCCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
2262775 CTTGA
1 CTTGA
2262780 GTTCCTTGCG
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
38 30 0.28
41 2 0.02
42 74 0.70
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (42 bp):
CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
Found at i:2267494 original size:40 final size:40
Alignment explanation
Indices: 2267450--2267529 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
2267440 CAATTCAAGG
*
2267450 GCGTACGACATTTTCTCTCATATAAAGCCTCATAAGGAGC
1 GCGTACGACATTTTCTCCCATATAAAGCCTCATAAGGAGC
*
2267490 GCGTACGGCATTTTCTCCCATATAAAGCCTCATAAGGAGC
1 GCGTACGACATTTTCTCCCATATAAAGCCTCATAAGGAGC
2267530 CATCTTGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
GCGTACGACATTTTCTCCCATATAAAGCCTCATAAGGAGC
Found at i:2270925 original size:15 final size:15
Alignment explanation
Indices: 2270905--2270942 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2270895 ATGCACAGTG
2270905 TGATTCAATTGCTTC
1 TGATTCAATTGCTTC
2270920 TGATTCAATTGCTTC
1 TGATTCAATTGCTTC
*
2270935 AGATTCAA
1 TGATTCAA
2270943 AAATTCTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (15 bp):
TGATTCAATTGCTTC
Found at i:2272251 original size:21 final size:21
Alignment explanation
Indices: 2272196--2272258 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
2272186 ATATAAAATT
* *
2272196 TGTCCCAAAGGACATCATATA
1 TGTCCCAAAGGACCTCGTATA
2272217 TGTCCCAAAGGACCTCGTATA
1 TGTCCCAAAGGACCTCGTATA
*
2272238 TGTCCCAAAGGACCTTGTATA
1 TGTCCCAAAGGACCTCGTATA
2272259 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (21 bp):
TGTCCCAAAGGACCTCGTATA
Found at i:2273613 original size:15 final size:15
Alignment explanation
Indices: 2273593--2273630 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2273583 ATGCACAGTG
2273593 TGATTCAATTGCTTC
1 TGATTCAATTGCTTC
2273608 TGATTCAATTGCTTC
1 TGATTCAATTGCTTC
*
2273623 AGATTCAA
1 TGATTCAA
2273631 AAATTCTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (15 bp):
TGATTCAATTGCTTC
Found at i:2274940 original size:21 final size:21
Alignment explanation
Indices: 2274885--2274947 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
2274875 TATAAAAATT
* *
2274885 TGTCCCAAAGGACATCATATA
1 TGTCCCAAAGGACCTCGTATA
2274906 TGTCCCAAAGGACCTCGTATA
1 TGTCCCAAAGGACCTCGTATA
*
2274927 TGTCCCAAAGGACCTTGTATA
1 TGTCCCAAAGGACCTCGTATA
2274948 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (21 bp):
TGTCCCAAAGGACCTCGTATA
Found at i:2275163 original size:36 final size:35
Alignment explanation
Indices: 2275050--2275164 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 35
2275040 CACTAATTCA
2275050 TCACATGTTCATATACTCATATAGATCATATTATT
1 TCACATGTTCATATACTCATATAGATCATATTATT
* ** * *
2275085 TCTCATGTGATCAAATATA-TC-T-TACCTCATACCATATA
1 TCACATGT--TC--ATATACTCATATAGATCATA--TTATT
2275123 TCACATGTTCATATACTCATATAGATCATATTATGT
1 TCACATGTTCATATACTCATATAGATCATATTAT-T
2275159 TCACAT
1 TCACAT
2275165 AAACCATGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 19
0.67 0.11 0.21
Matches are distributed among these distances:
34 5 0.08
35 12 0.20
36 16 0.27
37 10 0.17
38 12 0.20
39 5 0.08
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (35 bp):
TCACATGTTCATATACTCATATAGATCATATTATT
Found at i:2277260 original size:13 final size:13
Alignment explanation
Indices: 2277230--2277263 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2277220 GACTTTTTGG
2277230 GTCAA-AGTCAAA
1 GTCAACAGTCAAA
2277242 GATCAACAGTCAAA
1 G-TCAACAGTCAAA
2277256 GTCAACAG
1 GTCAACAG
2277264 GTTGACTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 11 0.55
14 8 0.40
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.15
Consensus pattern (13 bp):
GTCAACAGTCAAA
Found at i:2277293 original size:14 final size:14
Alignment explanation
Indices: 2277264--2277328 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
2277254 AAGTCAACAG
* *
2277264 GTTGACTCAGATGA
1 GTTGGCTCAGACGA
*
2277278 GTTGGCTCGGACGA
1 GTTGGCTCAGACGA
*
2277292 GTT-GCTCAGATGA
1 GTTGGCTCAGACGA
* * *
2277305 GTTGACTCAGTCCGG
1 GTTGGCTCAG-ACGA
2277320 GTTGGCTCA
1 GTTGGCTCA
2277329 ATCGGGTTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
13 11 0.28
14 19 0.49
15 9 0.23
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (14 bp):
GTTGGCTCAGACGA
Found at i:2281970 original size:37 final size:37
Alignment explanation
Indices: 2281919--2281989 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
2281909 GTGGCGGCAT
* *
2281919 GTGCGGTAATGAAAAGGGTTGTTTTGATTGGCCGCCC
1 GTGCGGTAACGAAAAGGGTTATTTTGATTGGCCGCCC
2281956 GTGCGGTAACGAAAAGGGTTATTTTGATTGGCCG
1 GTGCGGTAACGAAAAGGGTTATTTTGATTGGCCG
2281990 ATTACTCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.14, G:0.35, T:0.30
Consensus pattern (37 bp):
GTGCGGTAACGAAAAGGGTTATTTTGATTGGCCGCCC
Found at i:2282690 original size:37 final size:38
Alignment explanation
Indices: 2282573--2283264 Score: 736
Period size: 37 Copynumber: 18.2 Consensus size: 38
2282563 AGTGTGACAA
2282573 AAGTCAATC-TTGTTATTCTTGACTTCCTCGTG-A-AG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282608 AAGTCAATCTTTGTTATTCTAGACTTTCTCGTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
*
2282646 AAGTCAATCTTTGTTATTCTTGACTTCCTC-AGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282683 AAGTCAATCTTTGTCATTCTTGACTCCCTCGTG-A-AG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282719 -AGTCTATCTTTCAGTGTTATTC-TGACTTCCTCTTGAAG-G
1 AAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282758 AAAGTCAATCTTTGTT-TTATTGAGTTCCTCGTGAAGAG
1 -AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * *
2282796 AAGTTAATCTTTGTTA-TCATAGAC-TCCTCATGAAGAG
1 AAGTCAATCTTTGTTATTC-TTGACTTCCTCGTGAAGAG
** *
2282833 AAGTCGTTCTTTGTTA-TCTAGACTTCCTCGTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282870 AAGTCGATCTCTGTTATTCTTGACTTCCTCGTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* **
2282908 AAGTCAATCTTTATTATTCTTGAC-TCCTATTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282945 GAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAATAG
1 AAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAG
*
2282987 AAGTCAATCTTT-TTCATTCTTGACTCCCTCGTGAAGAG
1 AAGTCAATCTTTGTT-ATTCTTGACTTCCTCGTGAAGAG
* * * *
2283025 GAGTCAATTATTTAATGTTATTCTTGATTTCCTCATGAAGAG
1 AAGTCAA-T-CTT--TGTTATTCTTGACTTCCTCGTGAAGAG
* *
2283067 AAGCCGATC-TTGTTATTCTTGACTTCCTCGTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * * *
2283104 AAATAAATC-TTGTTTTTCTTGACTCCCTCGT-AAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2283140 TAGTCAATCTTTCAATGTATTCTTGACTTCCTCGTGAAGAG
1 AAGTCAATCTTT--GT-TATTCTTGACTTCCTCGTGAAGAG
*
2283181 AAGTCAATCTATGTTATTCTTGACTTCCTCGTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * *
2283219 AAATCAATCTTTGTTATTCTTGACTTTCTTGTGAAGAG
1 AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
*
2283257 GAGTCAAT
1 AAGTCAAT
2283265 ATTTTAGTGT
Statistics
Matches: 550, Mismatches: 73, Indels: 65
0.80 0.11 0.09
Matches are distributed among these distances:
35 16 0.03
36 43 0.08
37 195 0.35
38 181 0.33
39 13 0.02
40 20 0.04
41 37 0.07
42 43 0.08
43 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (38 bp):
AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
Found at i:2283023 original size:117 final size:113
Alignment explanation
Indices: 2282573--2283264 Score: 682
Period size: 117 Copynumber: 6.1 Consensus size: 113
2282563 AGTGTGACAA
* * * *
2282573 AAGTCAATC-TTGTTATTCTTGACTTCCTCGTG-A-AGAAGTCAATCTTTGTTATTCTAGACTTT
1 AAGTCAATCTTTATTATTCTTGAC-TCCTAGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTC
*
2282635 CTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC-AGAAGAG
65 CTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * * *
2282683 AAGTCAATCTTTGTCATTCTTGACTCCCTCGTG-A-AG-AGTCTATCTTTCAGTGTTATTC-TGA
1 AAGTCAATCTTTATTATTCTTGACT-CCTAGTGAAGAGAAGTCAATC-TT---TGTTATTCTTGA
* * *
2282744 CTTCCTCTTGAAG-GAAAGTCAATCTTTGTT-TTATTGAGTTCCTCGTGAAGAG
61 CTTCCTCGTGAAGAG-AAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * * ** *
2282796 AAGTTAATCTTTGTTA-TCATAGACTCCTCA-TGAAGAGAAGTCGTTCTTTGTTA-TCTAGACTT
1 AAGTCAATCTTTATTATTC-TTGACTCCT-AGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* *
2282858 CCTCGTGAAGAGAAGTCGATCTCTGTTATTCTTGACTTCCTCGTGAAGAG
64 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
2282908 AAGTCAATCTTTATTATTCTTGACTCCTATTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGAC
1 AAGTCAATCTTTATTATTCTTGACTCCTAGTGAAGAGAAGTCAATC-TT---TGTTATTCTTGAC
* *
2282973 TTCCTCGTGAATAGAAGTCAATCTTT-TTCATTCTTGACTCCCTCGTGAAGAG
62 TTCCTCGTGAAGAGAAGTCAATCTTTGTT-ATTCTTGACTTCCTCGTGAAGAG
* * * * *
2283025 GAGTCAATTATTTAATGTTATTCTTGATTTCCTCA-TGAAGAGAAGCCGATC-TTGTTATTCTTG
1 AAGTCAA-TCTTT-A--TTATTCTTGA-CTCCT-AGTGAAGAGAAGTCAATCTTTGTTATTCTTG
* * * *
2283088 ACTTCCTCGTGAAGAGAAATAAATC-TTGTTTTTCTTGACTCCCTCGT-AAGAG
60 ACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * *
2283140 TAGTCAATCTTTCAATGTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTATGTTATTCTTGAC
1 AAGTCAATCTTT--AT-TATTCTTGAC-TCCTAGTGAAGAGAAGTCAATCTTTGTTATTCTTGAC
* * *
2283205 TTCCTCGTGAAGAGAAATCAATCTTTGTTATTCTTGACTTTCTTGTGAAGAG
62 TTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
*
2283257 GAGTCAAT
1 AAGTCAAT
2283265 ATTTTAGTGT
Statistics
Matches: 490, Mismatches: 54, Indels: 69
0.80 0.09 0.11
Matches are distributed among these distances:
110 19 0.04
111 58 0.12
112 76 0.16
113 59 0.12
114 43 0.09
115 54 0.11
116 43 0.09
117 104 0.21
118 4 0.01
119 1 0.00
120 1 0.00
121 10 0.02
122 17 0.03
123 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (113 bp):
AAGTCAATCTTTATTATTCTTGACTCCTAGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCC
TCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
Found at i:2283169 original size:77 final size:76
Alignment explanation
Indices: 2282578--2283256 Score: 490
Period size: 75 Copynumber: 8.9 Consensus size: 76
2282568 GACAAAAGTC
* * * * *
2282578 AATCT-TGTTATTCTTGACTTCCTCGTG-A-AGAAGTCAATCTTTGTTATTCTAGACTTTCTCGT
1 AATCTATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCTCGT
* *
2282640 GAAGAGAAGTC
66 GAAGAGAAATA
* * * * * * *
2282651 AATCTTTGTTATTCTTGACTTCCTC-AGAAGAGAAGTCAATCTTTGTCATTCTTGACTCCCTCGT
1 AATCTATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCTCGT
**
2282715 GAAGAG-TCTA
66 GAAGAGAAATA
** * * * * * *
2282725 TCTTTCAGTGTTATTC-TGACTTCCTCTTGAAG-GAAAGTCAATCTTTGTT-TTATTGAGTTCCT
1 AATCT-A-TGTTATTCTTGACTCCCTCGTGAAGAGAAA-TCAATCTTTATTATTCTTGACTTCCT
* *
2282787 CGTGAAGAGAAGTT
63 CGTGAAGAGAAATA
* * * * ** * *
2282801 AATCTTTGTTA-TCATAGACT-CCTCATGAAGAGAAGTCGTTCTTTGTTA-TCTAGACTTCCTCG
1 AATCTATGTTATTC-TTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCTCG
* *
2282863 TGAAGAGAAGTC
65 TGAAGAGAAATA
* * * * **
2282875 GATCTCTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATTCTTGAC-TCCTATT
1 AATCTATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCTCGT
* * *
2282939 GAAGAGGAGTC
66 GAAGAGAAATA
* * * *
2282950 AATCTTTCAATGTTATTCTTGACTTCCTCGTGAATAGAAGTCAATCTTT-TTCATTCTTGACTCC
1 AATC--T--ATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATT-ATTCTTGACTTC
* *
2283014 CTCGTGAAGAGGAGTCA
61 CTCGTGAAGAGAAAT-A
* * * * ** * *
2283031 ATTATTTAATGTTATTCTTGATTTCCTCATGAAGAGAAGCCGATC-TTGTTATTCTTGACTTCCT
1 A--ATCT-ATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCT
2283095 CGTGAAGAGAAATA
63 CGTGAAGAGAAATA
* * *
2283109 AATCT-TGTTTTTCTTGACTCCCTCGT-AAGAGTAGTCAATCTTTCAATGTATTCTTGACTTCCT
1 AATCTATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTT--AT-TATTCTTGACTTCCT
* *
2283172 CGTGAAGAGAAGTC
63 CGTGAAGAGAAATA
* * * *
2283186 AATCTATGTTATTCTTGACTTCCTCGTGAAGAGAAATCAATCTTTGTTATTCTTGACTTTCTTGT
1 AATCTATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCTCGT
2283251 GAAGAG
66 GAAGAG
2283257 GAGTCAATAT
Statistics
Matches: 496, Mismatches: 79, Indels: 59
0.78 0.12 0.09
Matches are distributed among these distances:
73 19 0.04
74 102 0.21
75 119 0.24
76 58 0.12
77 34 0.07
78 23 0.05
79 88 0.18
80 49 0.10
81 2 0.00
83 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (76 bp):
AATCTATGTTATTCTTGACTCCCTCGTGAAGAGAAATCAATCTTTATTATTCTTGACTTCCTCGT
GAAGAGAAATA
Found at i:2283290 original size:45 final size:43
Alignment explanation
Indices: 2283158--2283449 Score: 160
Period size: 38 Copynumber: 7.0 Consensus size: 43
2283148 CTTTCAATGT
* * * *
2283158 ATTCTTGACTTCCTCGTGAAGAGAAGTCAA--TCTA-TG-TT-
1 ATTCTCGACTTTCTCGTGAAGAGGAGTCAATTTTTAGTGTTTC
* * * * *
2283196 ATTCTTGACTTCCTCGTGAAGAGAAATCAA-TCTT--TG-TT-
1 ATTCTCGACTTTCTCGTGAAGAGGAGTCAATTTTTAGTGTTTC
* *
2283234 ATTCTTGACTTTCTTGTGAAGAGGAGTCAATATTTTAGTGTTTC
1 ATTCTCGACTTTCTCGTGAAGAGGAGTCAAT-TTTTAGTGTTTC
* * * *
2283278 ATTCATCGACTTTCTCGCGAAAAGAAGTCAATCTTTTAGTATTGTC
1 ATTC-TCGACTTTCTCGTGAAGAGGAGTCAAT-TTTTAGTGTT-TC
* * * *
2283324 ATTCTTGACTTTCTCGTGAAGATGATTCAATCTTTAGTGTTTC
1 ATTCTCGACTTTCTCGTGAAGAGGAGTCAATTTTTAGTGTTTC
* * ** * * * * * *
2283367 TTTCCTCGATTTTCTC-ACAAAAGAAGTTAATATTTCGTATGTT-
1 ATT-CTCGACTTTCTCGTGAAGAGGAGTCAATTTTTAGTGT-TTC
* *
2283410 ATTCTTGACTTTCTCGTG-AGAGGAGTCAATCTTTAGTGTT
1 ATTCTCGACTTTCTCGTGAAGAGGAGTCAATTTTTAGTGTT
2283450 GCCTTTCTTG
Statistics
Matches: 195, Mismatches: 47, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
38 59 0.30
39 1 0.01
40 3 0.02
41 1 0.01
42 27 0.14
43 22 0.11
44 24 0.12
45 52 0.27
46 6 0.03
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (43 bp):
ATTCTCGACTTTCTCGTGAAGAGGAGTCAATTTTTAGTGTTTC
Found at i:2283459 original size:43 final size:44
Alignment explanation
Indices: 2283159--2283576 Score: 194
Period size: 45 Copynumber: 9.8 Consensus size: 44
2283149 TTTCAATGTA
* * *
2283159 TTCTTGACTTCCTCGTGAAGAGAAGTCAATC--TA-TG-T-T-A
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGTTGTCT
* * * *
2283197 TTCTTGACTTCCTCGTGAAGAGAAATCAATC-TT--TG-T-T-A
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGTTGTCT
* * *
2283235 TTCTTGACTTTCTTGTGAAGAGGAGTCAATATTTTAGTGTT-TCA
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAAT-CTTTAGTGTTGTCT
* * * * * *
2283279 TTCATCGACTTTCTCGCGAAAAGAAGTCAATCTTTTAGTATTGTCA
1 TTC-TTGACTTTCTCGTGAAGAGGAGTCAATC-TTTAGTGTTGTCT
* *
2283325 TTCTTGACTTTCTCGTGAAGATGATTCAATCTTTAGTGTT-TCT
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGTTGTCT
* * ** * * * * * *
2283368 TTCCTCGATTTTCTC-ACAAAAGAAGTTAATATTTCGT-ATGT-T
1 TT-CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGTTGTCT
*
2283410 ATTCTTGACTTTCTCGTG-AGAGGAGTCAATCTTTAGTGTTGCCT
1 -TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGTTGTCT
* *** * * *
2283454 TTCTTGACTTTGTTACGAAGAGAAGTCAATATTT-TTGTAATGT-T
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGT--TGTCT
* * * * *
2283498 GTTCTTAACTTTCTCGTGAAGAGAATTCAACCTTTTAGTGATGT-T
1 -TTCTTGACTTTCTCGTGAAGAGGAGTCAATC-TTTAGTGTTGTCT
* * * *
2283543 ATTCCTGACTTTCTTGCGAAGAGGAGCCAATCTT
1 -TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTT
2283577 GTAGCGGGTG
Statistics
Matches: 287, Mismatches: 71, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
38 61 0.21
39 1 0.00
40 2 0.01
42 28 0.10
43 40 0.14
44 40 0.14
45 104 0.36
46 9 0.03
47 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (44 bp):
TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAGTGTTGTCT
Found at i:2284539 original size:132 final size:133
Alignment explanation
Indices: 2284383--2284731 Score: 358
Period size: 132 Copynumber: 2.7 Consensus size: 133
2284373 GGTCTGATTT
* *
2284383 CCCTAAAGAGTAG-TGAAGCAT-ATTCTTCTTC-TTT-CATTTCGTCTTCCTG-A-AGCAGCGAA
1 CCCTAAAGAGTAGAGGAA-CATAATTATTCTTCTTTTACATTTCGTCTTCCTGAAGAGCAGCGAA
* * *
2284442 GCAAATCAAGTTCGATTCAGCCTTCCTGAAGAGCAGCGAAGTGGATCAAAATTTTCTCGAGTCAA
65 GCAAATCAA-TTCGATTCAACCTTCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCAA
2284507 ACCTC
129 ACCTC
* * * * *
2284512 CTCTAAAGAGTAGTGGAACA-AATTATTCTTCTTTTAGATTTGGTCTTCCTGAAGAGCAGTGAAG
1 CCCTAAAGAGTAGAGGAACATAATTATTCTTCTTTTACATTTCGTCTTCCTGAAGAGCAGCGAAG
* * * * * ** *
2284576 CAAATCGATTCGATTTAATCTTCCTGAAGAGCAATGAAATTGATCAAAATTTTCTCGAGTCTGAT
66 CAAATCAATTCGATTCAACCTTCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCAAAC
2284641 CTC
131 CTC
* * * * * * *
2284644 CCCTAAAGAGTAGAGGAGCAT-A-T-TTATTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAG
1 CCCTAAAGAGTAGAGGAACATAATTATTCTTCTTTTACATTTCGTCTTCCTGAAGAGCAGCGAAG
* *
2284706 CAAATCGATTCTGATTCAATCTTCCT
66 CAAATCAATTC-GATTCAACCTTCCT
2284732 AGAGTCTTAT
Statistics
Matches: 188, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
129 23 0.12
130 53 0.28
131 27 0.14
132 69 0.37
133 16 0.09
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (133 bp):
CCCTAAAGAGTAGAGGAACATAATTATTCTTCTTTTACATTTCGTCTTCCTGAAGAGCAGCGAAG
CAAATCAATTCGATTCAACCTTCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCAAAC
CTC
Found at i:2284806 original size:100 final size:101
Alignment explanation
Indices: 2284632--2284830 Score: 319
Period size: 100 Copynumber: 2.0 Consensus size: 101
2284622 AAATTTTCTC
* *
2284632 GAGTCTGATCTCCCCTAAAGAGTAGAGGAGCATATTTATTCTTTCAGATTTGGTCTTCCTGAAGA
1 GAGTCTGATCTCCCCTAAAGAGTAGAGGAGCATAATTATTCTTTCAAATTTGGTCTTCCTGAAGA
2284697 GAAGTGAAGCAAATCGATTCTGATTCAATCTTCCTA
66 GAAGTGAAGCAAATCGATTCTGATTCAATCTTCCTA
* ** * *
2284733 GAGTCTTATCTCCCCTAAAGAGTATTGGAGCA-AATTCTTCTTTCAAATTTGGTCTTCCTGAAGC
1 GAGTCTGATCTCCCCTAAAGAGTAGAGGAGCATAATTATTCTTTCAAATTTGGTCTTCCTGAAGA
*
2284797 GCAGTGAAGCAAATCGATTCTGATTCAATCTTCC
66 GAAGTGAAGCAAATCGATTCTGATTCAATCTTCC
2284831 CTGAAGAGCA
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 61 0.68
101 29 0.32
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (101 bp):
GAGTCTGATCTCCCCTAAAGAGTAGAGGAGCATAATTATTCTTTCAAATTTGGTCTTCCTGAAGA
GAAGTGAAGCAAATCGATTCTGATTCAATCTTCCTA
Found at i:2284940 original size:232 final size:231
Alignment explanation
Indices: 2284509--2284948 Score: 593
Period size: 232 Copynumber: 1.9 Consensus size: 231
2284499 CGAGTCAAAC
* * *
2284509 CTCCTCTAAAGAGTAGTGGAACAAATTATTCTTCTTTTAGATTTGGTCTTCCTGAAGAGCAGTGA
1 CTCCCCTAAAGAGTAGTGGAACAAA-TATTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGTGA
* * *
2284574 AGCAAATCGATTCGATTTAATCTTCCTGAAGAGCAATGAAATTGATCAAAATTTTCTCGAGTCTG
65 AGCAAATCGATTCGATTCAATCTTCCTGAAGAGCAATGAAATGGATCAAAATTTTCACGAGTCTG
* * * *
2284639 ATCTCCCCTAAAGAGTAGAGGAGCATATTTATTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGA
130 ATCTCCCCTAAAGAGTAGAGCAGCATATTTATTCTTTCAAATTTGGTATT-CTCAAGAGAAGTGA
2284704 AGCAAATCGATTCTGATTCAATCTTCCTAGAGTCTTAT
194 AGCAAATCGATTCTGATTCAATCTTCCTAGAGTCTTAT
* * *
2284742 CTCCCCTAAAGAGTATTGGAGC-AA-ATTCTTCTTTCAAATTTGGTCTTCCTGAAGCGCAGTGAA
1 CTCCCCTAAAGAGTAGTGGAACAAATATTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGTGAA
* * *
2284805 GCAAATCGATTCTGATTCAATCTTCCCTGAAGAGCATTGAAGTGGATCAAAATTTTCACGAGTTT
66 GCAAATCGATTC-GATTCAATCTT-CCTGAAGAGCAATGAAATGGATCAAAATTTTCACGAGTCT
* * * *
2284870 GATCTCCTCTAAAGAGTAGTGCA-C-TAGGTGCTTCTTCTTTCAAATTTGGTATT-TCAAGAGCA
129 GATCTCCCCTAAAGAGTAGAGCAGCATA--T--TTATTCTTTCAAATTTGGTATTCTCAAGAGAA
2284932 GTGAAGCAAATCGATTC
190 GTGAAGCAAATCGATTC
2284949 ATTTGAATCA
Statistics
Matches: 181, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
230 50 0.28
231 11 0.06
232 82 0.45
233 19 0.10
234 19 0.10
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (231 bp):
CTCCCCTAAAGAGTAGTGGAACAAATATTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGTGAA
GCAAATCGATTCGATTCAATCTTCCTGAAGAGCAATGAAATGGATCAAAATTTTCACGAGTCTGA
TCTCCCCTAAAGAGTAGAGCAGCATATTTATTCTTTCAAATTTGGTATTCTCAAGAGAAGTGAAG
CAAATCGATTCTGATTCAATCTTCCTAGAGTCTTAT
Found at i:2285155 original size:14 final size:14
Alignment explanation
Indices: 2285133--2285163 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2285123 TGGACCGTCT
2285133 TTATATTATTATTA
1 TTATATTATTATTA
*
2285147 TTATTTTATTATTA
1 TTATATTATTATTA
2285161 TTA
1 TTA
2285164 ACTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:2285736 original size:15 final size:16
Alignment explanation
Indices: 2285704--2285736 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2285694 ATAGAACCAG
2285704 AAATGAAACAAAGCAA
1 AAATGAAACAAAGCAA
*
2285720 AAATGAAA-AAAGGAA
1 AAATGAAACAAAGCAA
2285735 AA
1 AA
2285737 GAAGAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (16 bp):
AAATGAAACAAAGCAA
Found at i:2286980 original size:22 final size:22
Alignment explanation
Indices: 2286922--2286981 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
2286912 GAATTGTTTG
2286922 AATA-AATAATATAT-TTTTAT
1 AATATAATAATATATATTTTAT
* * *
2286942 -ATTTGAATAA-ATTTATTTTTT
1 AATAT-AATAATATATATTTTAT
2286963 AATATAATAATATATATTT
1 AATATAATAATATATATTT
2286982 GGGCAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 15 0.50
22 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
AATATAATAATATATATTTTAT
Found at i:2289785 original size:83 final size:83
Alignment explanation
Indices: 2289646--2289811 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
2289636 GATATTTTTC
2289646 AACGTCCTGAGTCTGATTTGGCGATCCATTTTGCAAAATTCTGGCCCGAAAGCCCTAAATCGAGC
1 AACGTCCTGAGTCTGATTTGGCGATCCATTTTGCAAAATTCTGGCCCGAAAGCCCTAAATCGAGC
2289711 CCGTTAATATGAAAATGG
66 CCGTTAATATGAAAATGG
2289729 AACGTCCTGAGTCTGATTTGGCGATCCATTTTGCAAAATTCTGGCCCGAAAGCCCTAAATCGAGC
1 AACGTCCTGAGTCTGATTTGGCGATCCATTTTGCAAAATTCTGGCCCGAAAGCCCTAAATCGAGC
2289794 CCGTTAATATGAAAATGG
66 CCGTTAATATGAAAATGG
2289812 TTAGCATTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (83 bp):
AACGTCCTGAGTCTGATTTGGCGATCCATTTTGCAAAATTCTGGCCCGAAAGCCCTAAATCGAGC
CCGTTAATATGAAAATGG
Found at i:2290284 original size:24 final size:24
Alignment explanation
Indices: 2290235--2290298 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 24
2290225 ATTATTTATC
2290235 TGATATCTGATTACTGTATATCTT
1 TGATATCTGATTACTGTATATCTT
2290259 TGATGATCTCGATTACTGTAT-T-TT
1 TGAT-ATCT-GATTACTGTATATCTT
*
2290283 TG-TATCTGATTTCTGT
1 TGATATCTGATTACTGT
2290299 GGAACATTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 8 0.22
22 4 0.11
23 1 0.03
24 8 0.22
25 5 0.14
26 11 0.30
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (24 bp):
TGATATCTGATTACTGTATATCTT
Found at i:2290836 original size:45 final size:45
Alignment explanation
Indices: 2290772--2290901 Score: 242
Period size: 45 Copynumber: 2.9 Consensus size: 45
2290762 TTATGGTATT
* *
2290772 CTTTCATGCTTATAATGCACCCATATACATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
2290817 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
2290862 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTG
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTG
2290902 TTCATTCGTT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (45 bp):
CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
Found at i:2292732 original size:21 final size:22
Alignment explanation
Indices: 2292695--2292735 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2292685 ATATAAAATT
*
2292695 TGTCCCTAAGTACCTATGAATA
1 TGTCCCGAAGTACCTATGAATA
2292717 TGTCCCGAAG-ACCTATGAA
1 TGTCCCGAAGTACCTATGAA
2292736 ACCCTCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (22 bp):
TGTCCCGAAGTACCTATGAATA
Found at i:2297707 original size:23 final size:23
Alignment explanation
Indices: 2297680--2297731 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
2297670 TTGAGTGGCA
*
2297680 TATGAAATTTGTCCCCAAGGACC
1 TATGAAATATGTCCCCAAGGACC
*
2297703 TATG-AATATGTCCCGAAGGACC
1 TATGAAATATGTCCCCAAGGACC
2297725 TATGAAA
1 TATGAAA
2297732 CTCTTGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (23 bp):
TATGAAATATGTCCCCAAGGACC
Found at i:2298428 original size:36 final size:36
Alignment explanation
Indices: 2298386--2298455 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
2298376 TAGTTCAAGA
*
2298386 TGGTATCGATAC-ATTCCTTAAAGTATCGATACCCCT
1 TGGTATCAATACTATT-CTTAAAGTATCGATACCCCT
* *
2298422 TGGTATCAATACTATTCTTCAGGTATCGATACCC
1 TGGTATCAATACTATTCTTAAAGTATCGATACCC
2298456 TTTGAAGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 27 0.90
37 3 0.10
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (36 bp):
TGGTATCAATACTATTCTTAAAGTATCGATACCCCT
Found at i:2300540 original size:2 final size:2
Alignment explanation
Indices: 2300533--2300573 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2300523 CCATAAAAGT
2300533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2300574 CTTTCTGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2302985 original size:27 final size:27
Alignment explanation
Indices: 2302946--2303007 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
2302936 TGCCTTAATG
*
2302946 CATCCCTTCATGCATTTTTAGTTATGC
1 CATCCTTTCATGCATTTTTAGTTATGC
* *
2302973 CATCCTTTTATGCATTTTTAGTTATGT
1 CATCCTTTCATGCATTTTTAGTTATGC
2303000 C-TCCTTTC
1 CATCCTTTC
2303008 TTGCCTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.16, C:0.24, G:0.10, T:0.50
Consensus pattern (27 bp):
CATCCTTTCATGCATTTTTAGTTATGC
Found at i:2303040 original size:46 final size:46
Alignment explanation
Indices: 2302973--2303300 Score: 392
Period size: 46 Copynumber: 7.3 Consensus size: 46
2302963 TTAGTTATGC
* * *
2302973 CATCCTTTTATGCATTTTTAGTTATGTC-TCCTTTCTTGCCTTAATG
1 CATCC-TTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * * *
2303019 CATCCTATCATGCATTCTTAGTTATGACATTCTTTAATGCCTTAAT-
1 CATCCT-TCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
2303065 -A-CCGTTCA-GCA--TTTAGTTA-GGAATCCTTTC-TGCCTTAA-G
1 CATCC-TTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* *
2303104 CATCCTTCATGCAGTTTTAGTTATGGCATCCTTTAATGCCTTAATG
1 CATCCTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * *
2303150 CATTCGTTCATGCATTTTTAG-TGTGGCATCCTTTCTTGCCTTAATG
1 CA-TCCTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
2303196 CATCCTTTCATGCATTTTTAGTTATGGCATCCTTT-ATGCCTTAATG
1 CATCC-TTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
2303242 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATCC-TTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
2303289 CATCTTTCATGC
1 CATCCTTCATGC
2303301 TTAATGCATC
Statistics
Matches: 243, Mismatches: 23, Indels: 32
0.82 0.08 0.11
Matches are distributed among these distances:
39 8 0.03
40 12 0.05
41 12 0.05
43 11 0.05
44 14 0.06
45 13 0.05
46 116 0.48
47 57 0.23
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (46 bp):
CATCCTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
Found at i:2303246 original size:19 final size:20
Alignment explanation
Indices: 2303222--2303363 Score: 96
Period size: 20 Copynumber: 6.7 Consensus size: 20
2303212 TTTAGTTATG
2303222 GCATCCTTT-ATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
2303241 GCATCCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
2303267 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
2303288 GCAT-CTTTCATG-CTTAAT
1 GCATCCTTTCATGCCTTAAT
**
2303306 GCATCCTTTGCAT-TTTTAGTTAT
1 GCATCCTTT-CATGCCTTA---AT
2303329 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
2303350 GCAT-CTATTCATGC
1 GCATCCT-TTCATGC
2303364 ATTTTTAGTT
Statistics
Matches: 99, Mismatches: 7, Indels: 33
0.71 0.05 0.24
Matches are distributed among these distances:
18 10 0.10
19 22 0.22
20 25 0.25
21 4 0.04
23 8 0.08
24 15 0.15
26 2 0.02
27 13 0.13
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2303290 original size:35 final size:35
Alignment explanation
Indices: 2303251--2303353 Score: 96
Period size: 35 Copynumber: 3.2 Consensus size: 35
2303241 GCATCCGTTC
2303251 ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
1 ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
* * *** *
2303286 ATGCA-TCTT--TCAT-GC-TTAATGCAT-CCTT-
1 ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
2303314 -TGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
1 ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
2303348 ATGCAT
1 ATGCAT
2303354 CTATTCATGC
Statistics
Matches: 48, Mismatches: 12, Indels: 16
0.63 0.16 0.21
Matches are distributed among these distances:
27 4 0.08
28 3 0.06
29 4 0.08
30 8 0.17
31 4 0.08
32 8 0.17
33 4 0.08
34 3 0.06
35 10 0.21
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (35 bp):
ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
Found at i:2303312 original size:177 final size:172
Alignment explanation
Indices: 2302982--2303314 Score: 424
Period size: 177 Copynumber: 1.9 Consensus size: 172
2302972 CCATCCTTTT
*
2302982 ATGCATTTTTAGTTATGTCTCCTTTCTTGCCTTAATGCATCCTATCATGCATTCTTAGTTATGAC
1 ATGCATTTTTAGTTATGGCTCCTTTCTTGCCTTAATGCATCCTATCATGCATTCTTAGTTATGAC
*
2303047 ATTCTTTAATGCCTTAATACCGTTCAGCATTTAGTTAGGAATCCTTTCTGCCTTAAGCATCCTTC
66 ATCCTTTAATGCCTTAATACCGTTCAGCATTTAGTTAGGAATCCTTTCTGCCTTAAGCATCCTTC
2303112 ATGCAGTTTTAGTTATGGCATCCTTTAATGCCTTAATGCATTCGTTC
131 ATGC---TTTA--TATGGCATCCTTTAATGCCTTAATGCATTCGTTC
* * * *
2303159 ATGCATTTTTAG-TGTGGCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGG
1 ATGCATTTTTAGTTATGGC-TCCTTTCTTGCCTTAATGCATCCTATCATGCATTCTTAGTTATGA
*
2303223 CATCCTTT-ATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAA
65 CATCCTTTAATGCCTTAAT--A-CCGTTCA-GCA--TTTAGTTA-GGAATCCTTTC-TGCCTTAA
*
2303287 TGCATCTTTCATGC-TTA-AT-GCATCCTTT
122 -GCATCCTTCATGCTTTATATGGCATCCTTT
2303315 GCATTTTTAG
Statistics
Matches: 138, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
176 14 0.10
177 70 0.51
178 3 0.02
179 7 0.05
180 3 0.02
181 3 0.02
182 8 0.06
183 10 0.07
184 8 0.06
185 12 0.09
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (172 bp):
ATGCATTTTTAGTTATGGCTCCTTTCTTGCCTTAATGCATCCTATCATGCATTCTTAGTTATGAC
ATCCTTTAATGCCTTAATACCGTTCAGCATTTAGTTAGGAATCCTTTCTGCCTTAAGCATCCTTC
ATGCTTTATATGGCATCCTTTAATGCCTTAATGCATTCGTTC
Found at i:2303325 original size:62 final size:64
Alignment explanation
Indices: 2303222--2303363 Score: 227
Period size: 62 Copynumber: 2.2 Consensus size: 64
2303212 TTTAGTTATG
2303222 GCATCCTTT-ATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
1 GCAT-CTTTCATG-CTTAATGCATCCGTT-ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
2303286 AT
63 AT
2303288 GCATCTTTCATGCTTAATGCATCC-TT-TGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCTTTCATGCTTAATGCATCCGTTATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
2303350 GCATCTATTCATGC
1 GCATCT-TTCATGC
2303364 ATTTTTAGTT
Statistics
Matches: 74, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
62 42 0.57
63 7 0.09
64 2 0.03
65 16 0.22
66 7 0.09
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (64 bp):
GCATCTTTCATGCTTAATGCATCCGTTATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
Found at i:2303371 original size:47 final size:46
Alignment explanation
Indices: 2303288--2303439 Score: 206
Period size: 47 Copynumber: 3.3 Consensus size: 46
2303278 ATGCCTTAAT
*
2303288 GCAT-CTTTCATG-CTTAATGCATCCTT--TGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTTTAGTTATG
*
2303330 GCATCCTTTCATGCCTTAATGCATCTATTCATGCATTTTTAGTTA-C
1 GCATCCTTTCATGCCTTAATGCATCT-TTCATGCATTTTTAGTTATG
* *
2303376 ACATCCTTTAATGCCTTAAATGCATCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTT-AATGCAT-CTTTCATGCATTTTTAGTTATG
2303424 GCATCCTTTCATGCCT
1 GCATCCTTTCATGCCT
2303440 ATACACCAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
42 4 0.04
43 8 0.08
44 11 0.12
45 2 0.02
46 15 0.16
47 39 0.41
48 16 0.17
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTTTAGTTATG
Found at i:2303470 original size:156 final size:153
Alignment explanation
Indices: 2303160--2303439 Score: 438
Period size: 155 Copynumber: 1.8 Consensus size: 153
2303150 CATTCGTTCA
* * **
2303160 TGCATTTTTAGTGTGGCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGGCA
1 TGCATTTTTAGTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATCACA
*
2303225 TCCTTTATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGC
66 TCCTTTATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATCC
*
2303290 ATCTTTCATGCTTAATGCATCCTT
131 ATATTTCAT-CTTAATGCATCCTT
2303314 TGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCAT-CTATTCATGCATTTTTAGTTA-CA
1 TGCATTTTTAG-TATGGCATCCTTTCATGCCTTAATGCATCCT-TTCATGCATTTTTAGTTATCA
*
2303377 CATCCTTTAATGCCTTAAATGCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCT
64 CATCCTTT-ATGCCTT-AATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCT
2303440 ATACACCAAT
Statistics
Matches: 117, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
154 21 0.18
155 51 0.44
156 45 0.38
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.45
Consensus pattern (153 bp):
TGCATTTTTAGTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATCACA
TCCTTTATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATCC
ATATTTCATCTTAATGCATCCTT
Found at i:2303523 original size:39 final size:39
Alignment explanation
Indices: 2303407--2303655 Score: 127
Period size: 36 Copynumber: 6.4 Consensus size: 39
2303397 GCATCCTTTC
* * **
2303407 ATGCATTTTTAGTTATGGCATCCTTTCATGCCTATACACCA-
1 ATGCATTATTA-TTTTGGCAT-CTTTCATGCCTATA-TGCAT
* * *
2303448 AT--ATTATTATTTTAGCATCCTTTCATACCTAAATGCAT
1 ATGCATTATTATTTTGGCAT-CTTTCATGCCTATATGCAT
*
2303486 ATGCATTAATATTTTGGCATCTTTCATGCCTATATGCACCCAT
1 ATGCATTATTATTTTGGCATCTTTCATGCCTATATG----CAT
2303529 ATGCATTATTA-TTTGGCATC---CA----TA-ATGCCAT
1 ATGCATTATTATTTTGGCATCTTTCATGCCTATATG-CAT
* * **
2303560 ATGCA-TATTATTTTGGCATCCTATAATG-C---ACCCAT
1 ATGCATTATTATTTTGGCAT-CTTTCATGCCTATATGCAT
2303595 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCAT-CTTTCATGCCTAT-ATG----CAT
2303640 ATGCATTATTATTTTG
1 ATGCATTATTATTTTG
2303656 TTCATTCGTT
Statistics
Matches: 164, Mismatches: 19, Indels: 46
0.72 0.08 0.20
Matches are distributed among these distances:
30 5 0.03
31 17 0.10
32 1 0.01
34 3 0.02
35 11 0.07
36 22 0.13
37 3 0.02
38 22 0.13
39 22 0.13
40 14 0.09
41 3 0.02
42 9 0.05
43 13 0.08
45 19 0.12
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (39 bp):
ATGCATTATTATTTTGGCATCTTTCATGCCTATATGCAT
Found at i:2303610 original size:36 final size:36
Alignment explanation
Indices: 2303514--2303617 Score: 159
Period size: 31 Copynumber: 3.1 Consensus size: 36
2303504 ATCTTTCATG
2303514 CCTAT-ATGCACCCATATGCATTATTA-TTTGGCAT
1 CCTATAATGCACCCATATGCATTATTATTTTGGCAT
2303548 CC-ATAATG---CCATATGCA-TATTATTTTGGCAT
1 CCTATAATGCACCCATATGCATTATTATTTTGGCAT
2303579 CCTATAATGCACCCATATGCATTATTATTTTGGCAT
1 CCTATAATGCACCCATATGCATTATTATTTTGGCAT
2303615 CCT
1 CCT
2303618 TTCATGCCTA
Statistics
Matches: 63, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
30 5 0.08
31 19 0.30
32 6 0.10
33 2 0.03
34 5 0.08
35 9 0.14
36 17 0.27
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (36 bp):
CCTATAATGCACCCATATGCATTATTATTTTGGCAT
Found at i:2304195 original size:20 final size:21
Alignment explanation
Indices: 2304149--2304201 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2304139 TTCTGTTAAT
2304149 ATGGTATCGATA-CCATCCTC
1 ATGGTATCGATACCCATCCTC
* *
2304169 ATAGTATCGATACCCCT-CTC
1 ATGGTATCGATACCCATCCTC
*
2304189 TTGGTATCGATAC
1 ATGGTATCGATAC
2304202 TGCTTGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (21 bp):
ATGGTATCGATACCCATCCTC
Found at i:2305126 original size:14 final size:13
Alignment explanation
Indices: 2305106--2305154 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
2305096 CTTAATTAAA
2305106 TAAATAAATTATT
1 TAAATAAATTATT
*
2305119 TAAAATAAATTA-A
1 T-AAATAAATTATT
*
2305132 TAAGTAAATTATT
1 TAAATAAATTATT
2305145 TGAAATAAAT
1 T-AAATAAAT
2305155 AAATAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 9 0.31
13 3 0.10
14 17 0.59
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (13 bp):
TAAATAAATTATT
Found at i:2305127 original size:22 final size:21
Alignment explanation
Indices: 2305097--2305183 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 21
2305087 GTTCAACCCC
*
2305097 TTAATTAAATAAATAAATTAT
1 TTAAATAAATAAATAAATTAT
2305118 TTAAAATAAATTAATAAGTAAATTAT
1 TT-AAATAAA-T-A-AA-TAAATTAT
2305144 TTGAAATAAATAAATAAATTAT
1 TT-AAATAAATAAATAAATTAT
*
2305166 TCTAAATGAAT-AATAAAT
1 T-TAAATAAATAAATAAAT
2305184 GAAAATTATC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
21 9 0.16
22 22 0.39
23 4 0.07
24 2 0.04
25 3 0.05
26 17 0.30
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAAATAAATAAATAAATTAT
Found at i:2305139 original size:26 final size:26
Alignment explanation
Indices: 2305099--2305162 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
2305089 TCAACCCCTT
2305099 AATTAAATAAATAAATTATTTAAAATA
1 AATT-AATAAATAAATTATTTAAAATA
* *
2305126 AATTAATAAGTAAATTATTTGAAATA
1 AATTAATAAATAAATTATTTAAAATA
*
2305152 AATAAATAAAT
1 AATTAATAAAT
2305163 TATTCTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
AATTAATAAATAAATTATTTAAAATA
Found at i:2305177 original size:26 final size:24
Alignment explanation
Indices: 2305102--2305192 Score: 80
Period size: 26 Copynumber: 3.7 Consensus size: 24
2305092 ACCCCTTAAT
2305102 TAAATAAATAAATTATTTAAAATAAA
1 TAAATAAATAAATTATTT-AAAT-AA
* * *
2305128 TTAATAAGTAAATTATTT-GA-AA
1 TAAATAAATAAATTATTTAAATAA
2305150 TAAATAAATAAATTATTCTAAATGAA
1 TAAATAAATAAATTATT-TAAAT-AA
2305176 T-AATAAATGAAAATTAT
1 TAAATAAAT--AAATTAT
2305193 CCTCGGATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
22 17 0.32
23 1 0.02
24 2 0.04
25 7 0.13
26 19 0.36
27 7 0.13
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (24 bp):
TAAATAAATAAATTATTTAAATAA
Found at i:2306429 original size:23 final size:24
Alignment explanation
Indices: 2306384--2306434 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
2306374 TGATACCCGC
2306384 TATAAAGTCGTCTTAAATTGTTGG
1 TATAAAGTCGTCTTAAATTGTTGG
2306408 TATAAAGTCGTCTT-AATTGTTGG
1 TATAAAGTCGTCTTAAATTGTTGG
2306431 TATA
1 TATA
2306435 GACGTCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
TATAAAGTCGTCTTAAATTGTTGG
Found at i:2307844 original size:8 final size:8
Alignment explanation
Indices: 2307831--2307869 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
2307821 CCTCTCTCTC
2307831 TAAAAAAA
1 TAAAAAAA
2307839 TAAAAAAA
1 TAAAAAAA
**
2307847 CCAAAAAA
1 TAAAAAAA
2307855 TAAAAAATA
1 TAAAAAA-A
2307864 TAAAAA
1 TAAAAA
2307870 GAAGAAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:2308340 original size:24 final size:23
Alignment explanation
Indices: 2308288--2308340 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
2308278 ATCTAGTCCT
* * *
2308288 TATTCATGTTTATTTATTTTTTA
1 TATTTATGTTTATTTACTTTATA
2308311 TATTTATGTTTATTTTACTTTATA
1 TATTTATGTTTA-TTTACTTTATA
*
2308335 TTTTTA
1 TATTTA
2308341 CTATCTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (23 bp):
TATTTATGTTTATTTACTTTATA
Found at i:2310291 original size:29 final size:31
Alignment explanation
Indices: 2310254--2310311 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
2310244 TGACTAATCA
2310254 TTTCAACTAAC-TTGATTCTT-TTTGTCTTG
1 TTTCAACTAACATTGATTCTTATTTGTCTTG
* *
2310283 TTTCTACTAACATTGATTTTTATTTGTCT
1 TTTCAACTAACATTGATTCTTATTTGTCT
2310312 GGTCTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 8 0.32
31 7 0.28
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.57
Consensus pattern (31 bp):
TTTCAACTAACATTGATTCTTATTTGTCTTG
Found at i:2311847 original size:2 final size:2
Alignment explanation
Indices: 2311840--2311898 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
2311830 TTATCCTTTC
2311840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2311881 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2311899 GTGTATCCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2312202 original size:11 final size:12
Alignment explanation
Indices: 2312186--2312249 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 12
2312176 AGATAGAAAT
2312186 AAAAAAATG-AG
1 AAAAAAATGAAG
2312197 -AAAAAATGAAG
1 AAAAAAATGAAG
*
2312208 AAAGAAAAAAGAAAG
1 -AA-AAAAATG-AAG
2312223 AAAAAAA--AAG
1 AAAAAAATGAAG
2312233 AAAAAAA-GAA-
1 AAAAAAATGAAG
2312243 AAAAAAA
1 AAAAAAA
2312250 AAAAGAAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
10 25 0.54
11 4 0.09
13 6 0.13
14 8 0.17
15 3 0.07
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (12 bp):
AAAAAAATGAAG
Found at i:2312213 original size:15 final size:15
Alignment explanation
Indices: 2312195--2312257 Score: 78
Period size: 14 Copynumber: 4.3 Consensus size: 15
2312185 TAAAAAAATG
2312195 AGAAAAAATG-AAGAA
1 AGAAAAAA-GAAAGAA
2312210 AGAAAAAAGAAAGAA
1 AGAAAAAAGAAAGAA
*
2312225 A-AAAAAAGAAAAAA
1 AGAAAAAAGAAAGAA
*
2312239 AGAAAAAA-AAAAAA
1 AGAAAAAAGAAAGAA
2312253 AGAAA
1 AGAAA
2312258 GAAAACCGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
14 25 0.56
15 20 0.44
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (15 bp):
AGAAAAAAGAAAGAA
Found at i:2312214 original size:4 final size:4
Alignment explanation
Indices: 2312205--2312261 Score: 61
Period size: 4 Copynumber: 15.5 Consensus size: 4
2312195 AGAAAAAATG
*
2312205 AAGA AAGA AA-A AAGA AAGA AA-A AA-A AAGA AAAA AAGA AA-A AA-A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
2312248 AAAA AAGA AAGA AA
1 AAGA AAGA AAGA AA
2312262 ACCGATCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
3 15 0.32
4 32 0.68
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2312235 original size:36 final size:37
Alignment explanation
Indices: 2312180--2312262 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 37
2312170 CATAAAAGAT
* * * * *
2312180 AGAAATAAAAAAATGAGAAAAAATGAAGAAAGAAAAA
1 AGAAAGAAAAAAATAAGAAAAAAAGAAAAAAAAAAAA
2312217 AGAAAGAAAAAAA-AAGAAAAAAAGAAAAAAAAAAAA
1 AGAAAGAAAAAAATAAGAAAAAAAGAAAAAAAAAAAA
2312253 AGAAAGAAAA
1 AGAAAGAAAA
2312263 CCGATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 29 0.71
37 12 0.29
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (37 bp):
AGAAAGAAAAAAATAAGAAAAAAAGAAAAAAAAAAAA
Found at i:2312237 original size:22 final size:22
Alignment explanation
Indices: 2312208--2312262 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
2312198 AAAAATGAAG
*
2312208 AAAG-AAAAAAGAAAGAAAAAA
1 AAAGAAAAAAAGAAAAAAAAAA
2312229 AAAGAAAAAAAGAAAAAAAAAA
1 AAAGAAAAAAAGAAAAAAAAAA
2312251 AAAGAAAGAAAA
1 AAAGAAA-AAAA
2312263 CCGATCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 4 0.13
22 23 0.74
23 4 0.13
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAAAGAAAAAAAAAA
Found at i:2312262 original size:14 final size:14
Alignment explanation
Indices: 2312173--2312261 Score: 71
Period size: 13 Copynumber: 6.6 Consensus size: 14
2312163 AAAAATACAT
* *
2312173 AAAAGATAGAAATA
1 AAAAGAAAGAAAAA
* *
2312187 AAAA-AATGAGAAA
1 AAAAGAAAGAAAAA
*
2312200 AAATG-AAGAAAGAA
1 AAAAGAAAGAAA-AA
2312214 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
2312228 AAAAGAAA-AAAAGA
1 AAAAGAAAGAAAA-A
2312242 AAAA-AAA-AAAAA
1 AAAAGAAAGAAAAA
*
2312254 GAAAGAAA
1 AAAAGAAA
2312262 ACCGATCAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
12 4 0.07
13 26 0.43
14 25 0.41
15 6 0.10
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:2312262 original size:15 final size:15
Alignment explanation
Indices: 2312173--2312262 Score: 73
Period size: 15 Copynumber: 6.1 Consensus size: 15
2312163 AAAAATACAT
*
2312173 AAAAGATAGAAATAAA
1 AAAAGAAAGAAA-AAA
2312189 AAAATG--AGAAAAAA
1 AAAA-GAAAGAAAAAA
**
2312203 TGAAGAAAGAAAAAA
1 AAAAGAAAGAAAAAA
*
2312218 GAAAGAAA-AAAAAA
1 AAAAGAAAGAAAAAA
2312232 GAAAA-AAAGAAAAAA
1 -AAAAGAAAGAAAAAA
2312247 AAAA-AAAGAAAGAAA
1 AAAAGAAAGAAA-AAA
2312262 A
1 A
2312263 CCGATCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.02
14 25 0.40
15 32 0.51
16 4 0.06
17 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.04
Consensus pattern (15 bp):
AAAAGAAAGAAAAAA
Found at i:2312936 original size:28 final size:28
Alignment explanation
Indices: 2312876--2312939 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
2312866 CGCAATAAGC
2312876 CAACCTAAAACACATTACCTCCCCAAAT
1 CAACCTAAAACACATTACCTCCCCAAAT
* * * *
2312904 TAACCTGAAACACATTACCTTCCCAAGT
1 CAACCTAAAACACATTACCTCCCCAAAT
2312932 CAACCTAA
1 CAACCTAA
2312940 GCCTTATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.20
Consensus pattern (28 bp):
CAACCTAAAACACATTACCTCCCCAAAT
Found at i:2313120 original size:44 final size:44
Alignment explanation
Indices: 2313057--2313140 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
2313047 TGTCTTGATT
2313057 GTGAGGCTCATTCTAGCTCAGTTGGAGAAGAACAAATGAGGTTG
1 GTGAGGCTCATTCTAGCTCAGTTGGAGAAGAACAAATGAGGTTG
2313101 GTGAGGCTCATTCTAGCTCAGTTGGAGAAGAACAAATGAG
1 GTGAGGCTCATTCTAGCTCAGTTGGAGAAGAACAAATGAG
2313141 ACCAGAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (44 bp):
GTGAGGCTCATTCTAGCTCAGTTGGAGAAGAACAAATGAGGTTG
Found at i:2314210 original size:57 final size:55
Alignment explanation
Indices: 2314139--2314295 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 55
2314129 AAAAGATTTT
*
2314139 TTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTC-AATGAAT
1 TTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTCAAATG-AG
* *
2314194 TCTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG-T--TTTCAAATGAG
1 T-TT-AAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTCAAATGAG
2314248 TTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTC
1 TTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTC
2314296 CAAAAACTGT
Statistics
Matches: 91, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
52 35 0.38
53 3 0.03
54 6 0.07
55 9 0.10
56 3 0.03
57 35 0.38
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (55 bp):
TTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTCAAATGAG
Found at i:2314379 original size:97 final size:96
Alignment explanation
Indices: 2314214--2314396 Score: 278
Period size: 97 Copynumber: 1.9 Consensus size: 96
2314204 AGCTAAGCCT
* *
2314214 AATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTAAAGAAACTAAGCCTGATTTTTAGGGGT
1 AATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTAAAGAAACTAAGCCTCATTTTCAGGGGT
*
2314279 TTCTTGATGATGATTTCCAAAAACTGTTTTA
66 TTCTTGATGATAATTTCCAAAAACTGTTTTA
* **
2314310 AATTTTGTA-GGGTTTTTTGATGTTTTCAAAATGAGTTTTTAGAAACTAAGCCTCATTTTCAGGG
1 AATTTT-TAGGGGTTTCTTGATGTTTTC-AAATGAGTTTAAAGAAACTAAGCCTCATTTTCAGGG
*
2314374 GTTTCTTGATGATAATTTTCAAA
64 GTTTCTTGATGATAATTTCCAAA
2314397 GAATTTTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 23 0.29
97 55 0.71
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (96 bp):
AATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTAAAGAAACTAAGCCTCATTTTCAGGGGT
TTCTTGATGATAATTTCCAAAAACTGTTTTA
Found at i:2314426 original size:58 final size:57
Alignment explanation
Indices: 2314350--2314554 Score: 170
Period size: 58 Copynumber: 3.6 Consensus size: 57
2314340 ATGAGTTTTT
*
2314350 AGAAACTAAGCCTCATTTTCAGGGGTTTCTTGATGATAATTTTCAAAGAATTTTTAAA
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGAT-ATTTTCAAAGAATTTTTAAA
* * *
2314408 AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG---TTTTCAAAATGAGTTTTT---
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGATATTTTC-AAA-GAATTTTTAAA
* * ** * * * * * * *
2314461 AGAAACTATGCATGGTTTTCATGGGTTTCTTGACGATTATCTCCAAATAAATTTCAAA
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGA-TATTTTCAAAGAATTTTTAAA
* * *
2314519 TGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGA
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGA
2314555 CAACTGAAAA
Statistics
Matches: 111, Mismatches: 27, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
53 27 0.24
54 5 0.05
55 7 0.06
56 10 0.09
57 3 0.03
58 59 0.53
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (57 bp):
AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGATATTTTCAAAGAATTTTTAAA
Found at i:2314524 original size:111 final size:111
Alignment explanation
Indices: 2314310--2314553 Score: 346
Period size: 111 Copynumber: 2.2 Consensus size: 111
2314300 AACTGTTTTA
* *
2314310 AATTTTGTA-GGGTTTTTTGATGTTTTCAAAATGAGTTTTTAGAAACTAAGCCTCATTTTCAGGG
1 AATTTT-TAGGGGTTTCTTGATGTTTTCAAAATGAGTTTTTAGAAACTAAGCATCATTTTCAGGG
* * * * *
2314374 GTTTCTTGATGATAATTTTCAAAGAATTTTTAAAAGAAGCTAAGCCT
65 GTTTCTTGACGATAATCTCCAAAGAAATTTCAAAAGAAGCTAAGCCT
* ** *
2314421 AATTTTTAGGGGTTTCTTGATGTTTTCAAAATGAGTTTTTAGAAACTATGCATGGTTTTCATGGG
1 AATTTTTAGGGGTTTCTTGATGTTTTCAAAATGAGTTTTTAGAAACTAAGCATCATTTTCAGGGG
* * *
2314486 TTTCTTGACGATTATCTCCAAATAAATTTCAAATGAAGCTAAGCCT
66 TTTCTTGACGATAATCTCCAAAGAAATTTCAAAAGAAGCTAAGCCT
2314532 AATTTTTAGGGGTTTCTTGATG
1 AATTTTTAGGGGTTTCTTGATG
2314554 ACAACTGAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
110 2 0.02
111 116 0.98
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (111 bp):
AATTTTTAGGGGTTTCTTGATGTTTTCAAAATGAGTTTTTAGAAACTAAGCATCATTTTCAGGGG
TTTCTTGACGATAATCTCCAAAGAAATTTCAAAAGAAGCTAAGCCT
Found at i:2315364 original size:91 final size:91
Alignment explanation
Indices: 2315209--2315749 Score: 687
Period size: 91 Copynumber: 5.9 Consensus size: 91
2315199 AGATAAACCA
* * * * **
2315209 ATCAACATTTCCAATGGAGAGTTCAAAATGAGAAGAACTCATCCAACGAACGAGAAGAAGTTCAT
1 ATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
*
2315274 AATGAGAATAACTTGTTCAA-CTATGG
66 AATGAGAAGAACTTGTTCAACCT-TGG
**
2315300 ATCAA-AGTTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATTAAACGAGGGAGAAGAAGTTCA
1 ATCAACA-TTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
* *
2315364 TAATAAGAAGAACTTATTCAACCTTGG
65 TAATGAGAAGAACTTGTTCAACCTTGG
* * * * * * * * *
2315391 ATCAACGTTTCCAATGAGAAGTTAATAATGAGAAGAACTCATCCAGCGAGGGGGAAGATGTTCAT
1 ATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
2315456 AATGAGAAGAACTTGTTCAACCTT-G
66 AATGAGAAGAACTTGTTCAACCTTGG
* * * *
2315481 ACTCAATATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCGT-CAGATGAGGGAGAAGAAGTTC
1 A-TCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCA-ACGAGGGAGAAGAAGTTC
2315545 ATAATGAGAAGAACTTGTTCAACCTTGG
64 ATAATGAGAAGAACTTGTTCAACCTTGG
* * *
2315573 ATCAACATTTTTAGTGGGGAGTTCATAATGGGAAGAACTCATCCAATGAGGG-GAAAGAAGTTCA
1 ATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAG-AAGAAGTTCA
*
2315637 TAATAAGAAGAACTTGTTCAACCTTGG
65 TAATGAGAAGAACTTGTTCAACCTTGG
* * * * * *
2315664 CTCAACATTTCTAGTGGAGAGTTCATAATGAGTAGAACTCGTCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
*
2315729 AATGAGAAGAACTTTTTCAAC
66 AATGAGAAGAACTTGTTCAAC
2315750 TTTAGCTCAA
Statistics
Matches: 391, Mismatches: 50, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
90 6 0.02
91 378 0.97
92 7 0.02
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (91 bp):
ATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTGG
Found at i:2315564 original size:20 final size:20
Alignment explanation
Indices: 2315501--2315565 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
2315491 TCCAGTGGGG
2315501 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * * **
2315521 CG-TCA-GATGAGGGAGAAGA
1 AGTTCATAATGA-GAAGAACT
2315540 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
2315560 TGTTCA
1 AGTTCA
2315566 ACCTTGGATC
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
18 4 0.13
19 9 0.29
20 14 0.45
21 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:2315807 original size:76 final size:76
Alignment explanation
Indices: 2315722--2315895 Score: 219
Period size: 76 Copynumber: 2.3 Consensus size: 76
2315712 AGGGAGAAGA
* * *
2315722 AGTTCATAATGAGAAGAACTTTTTCAACTTTAGCTCAATTCCAT-CATA-GA-ATGAGGGATTAA
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAATT-CATCCATAGGAGATGA--GATCAA
2315784 CATTTCCAGTGGAG
63 CATTTCCAGTGGAG
* *
2315798 AGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAGATCAAC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAATTCATC-CATA-GGAGATGAGATCAAC
*
2315863 ATTTTCAGTGGAG
64 ATTTCCAGTGGAG
*
2315876 AGTTCATAATGAGAAAAACT
1 AGTTCATAATGAGAAGAACT
2315896 CATCCGATGA
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
75 3 0.03
76 37 0.43
77 4 0.05
78 37 0.43
79 2 0.02
80 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (76 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAATTCATCCATAGGAGATGAGATCAACAT
TTCCAGTGGAG
Found at i:2317446 original size:15 final size:14
Alignment explanation
Indices: 2317426--2317455 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2317416 TGCATAAAAT
2317426 AAAAATATTGTTTTA
1 AAAAATATT-TTTTA
2317441 AAAAATATTTTTTA
1 AAAAATATTTTTTA
2317455 A
1 A
2317456 CTCCTCCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
AAAAATATTTTTTA
Found at i:2324957 original size:14 final size:14
Alignment explanation
Indices: 2324938--2324965 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2324928 TATTCCACTG
2324938 AGCCTTTCGAAATA
1 AGCCTTTCGAAATA
2324952 AGCCTTTCGAAATA
1 AGCCTTTCGAAATA
2324966 CTTTGTCGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
AGCCTTTCGAAATA
Found at i:2334380 original size:45 final size:45
Alignment explanation
Indices: 2334304--2334602 Score: 368
Period size: 45 Copynumber: 6.6 Consensus size: 45
2334294 TTTTTTGCTG
* * * * * *
2334304 ATAATGCACCCATATACATT-TCAATTATGGCATACTCTCATGGCGT
1 ATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCAT-GCCT
* *
2334350 -TAATGCACCCATATGAATTACTATTTTGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
* *
2334394 ATAATGCGCCCATATGCATTATTATTTTGGCATCCTTTCATTCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
* ** ** * *
2334439 ATAATGTACTTATACACATTATTATTTTGGCATCCTTTCATACTT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
* *
2334484 ATAATGCACCTATATCCATTATTATTTTGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
* *
2334529 ATAATGCAACCATATGCATTATTAATTTGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
*
2334574 ATAATGCACACATATGCATTATTATTTTG
1 ATAATGCACCCATATGCATTATTATTTTG
2334603 TTCATTCATT
Statistics
Matches: 218, Mismatches: 33, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
44 3 0.01
45 215 0.99
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
Found at i:2334709 original size:17 final size:17
Alignment explanation
Indices: 2334656--2334711 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2334646 CTATCCTTTC
* *
2334656 CATACATGAAATAAAAA
1 CATACATAAAATTAAAA
2334673 CATAC-TAACTAATGTAAAA
1 CATACATAA--AAT-TAAAA
*
2334692 CATACATTAAATTAAAA
1 CATACATAAAATTAAAA
2334709 CAT
1 CAT
2334712 TCTAACTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 2 0.06
17 13 0.41
18 6 0.19
19 9 0.28
20 2 0.06
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.25
Consensus pattern (17 bp):
CATACATAAAATTAAAA
Found at i:2341499 original size:45 final size:45
Alignment explanation
Indices: 2341442--2341694 Score: 366
Period size: 45 Copynumber: 5.6 Consensus size: 45
2341432 TTTTTTGCTG
* * * * *
2341442 ATAATGCACCCATATGCATT-TCAATTATGGCATCCTCTCATGTCG
1 ATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCATGCCT
2341487 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
* * * *
2341532 ATAATGCACTCATATTCATTATTATTTTGGTATCCTTTCATGACT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
*
2341577 ATAATGCACCCATATGCCTTATTATTTTGGCAT-CTATTCATGCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCT-TTCATGCCT
* *
2341622 ATAATGCTCCCATAAGCATTATTATTTTGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
2341667 ATAATGCACCCATATGCATTATTATTTT
1 ATAATGCACCCATATGCATTATTATTTT
2341695 TGTTCATTCA
Statistics
Matches: 186, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
44 2 0.01
45 181 0.97
46 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCT
Done.