Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 2 of 37
Found at i:162339 original size:13 final size:13
Alignment explanation
Indices: 162321--162345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
162311 CATAAAGTGT
162321 TGTATCGATACAA
1 TGTATCGATACAA
162334 TGTATCGATACA
1 TGTATCGATACA
162346 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:162427 original size:13 final size:13
Alignment explanation
Indices: 162409--162433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
162399 ATTACTCAAA
162409 TGTATCGATACAT
1 TGTATCGATACAT
162422 TGTATCGATACA
1 TGTATCGATACA
162434 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:162501 original size:52 final size:52
Alignment explanation
Indices: 162442--162570 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
162432 CACTGATCTT
* *
162442 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGACACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGACACACTATAAAA
* * *
162494 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGACACACTATAAAA
*
162546 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
162571 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGACACACTATAAAA
Found at i:169426 original size:13 final size:13
Alignment explanation
Indices: 169410--169457 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
169400 GCTTTGTAGA
169410 GATACATTGTATC
1 GATACATTGTATC
169423 GATACACTTACGTATC
1 GATACA-TT--GTATC
169439 GATACATTGTATC
1 GATACATTGTATC
169452 GATACA
1 GATACA
169458 AAACTTATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 17 0.53
14 2 0.06
15 2 0.06
16 11 0.34
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:169446 original size:29 final size:30
Alignment explanation
Indices: 169410--169478 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
169400 GCTTTGTAGA
169410 GATACATTGTATCGATAC-ACTTACGTATC
1 GATACATTGTATCGATACAACTTACGTATC
*
169439 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATAC--AACTTACGTATC
169471 GATACATT
1 GATACATT
169479 TTCTGTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 18 0.50
32 18 0.50
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (30 bp):
GATACATTGTATCGATACAACTTACGTATC
Found at i:169993 original size:12 final size:12
Alignment explanation
Indices: 169976--170007 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
169966 CGAGTCAACT
169976 TCATCATTATCA
1 TCATCATTATCA
*
169988 TCATCATTATCT
1 TCATCATTATCA
170000 TCATCATT
1 TCATCATT
170008 TTTTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:171614 original size:19 final size:19
Alignment explanation
Indices: 171569--171624 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
171559 TTGCCAGTTT
* *
171569 CATGTATCAATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
171589 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
171608 CATGTATCGATACAATG
1 CATGTATCGATACAATG
171625 TATTAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:171652 original size:19 final size:18
Alignment explanation
Indices: 171570--171673 Score: 74
Period size: 20 Copynumber: 5.7 Consensus size: 18
171560 TGCCAGTTTC
*
171570 ATGTATCAATACAATTGAGT
1 ATGTATCGATACAA-TGA-T
*
171590 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATG-AT
171609 ATGTATCGATACAATG-T
1 ATGTATCGATACAATGAT
*
171626 AT-TA---ATACAAAGCAT
1 ATGTATCGATACAATG-AT
*
171641 ATGTATCGATACATCTGGAT
1 ATGTATCGATACA-AT-GAT
*
171661 ATGTATCAATACA
1 ATGTATCGATACA
171674 TTCTAAGGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 7 0.10
15 3 0.04
16 4 0.06
17 2 0.03
19 23 0.34
20 28 0.41
21 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (18 bp):
ATGTATCGATACAATGAT
Found at i:174970 original size:69 final size:69
Alignment explanation
Indices: 174861--175019 Score: 268
Period size: 69 Copynumber: 2.3 Consensus size: 69
174851 AATACAATTA
174861 ATGTTTGCCTTGATATTA--TTTATGAATGCATGGGAGAAAAGTATTTTATTGATTGGTATCATT
1 ATGTTTGCCTTGATATTATTTTTATGAATGCATGGGAGAAAAGTATTTTATTGATTGGTATCATT
174924 TTTT
66 TTTT
*
174928 ATGTTTGCCTTGATATTATTTTTATGAATGCATGGGGGAAAAGTATTTTATTGATTGGTATCATT
1 ATGTTTGCCTTGATATTATTTTTATGAATGCATGGGAGAAAAGTATTTTATTGATTGGTATCATT
174993 TTTT
66 TTTT
* * *
174997 ATGTTTCCCTTGATCTCATTTTT
1 ATGTTTGCCTTGATATTATTTTT
175020 GCTATAACAA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
67 18 0.21
69 68 0.79
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (69 bp):
ATGTTTGCCTTGATATTATTTTTATGAATGCATGGGAGAAAAGTATTTTATTGATTGGTATCATT
TTTT
Found at i:175287 original size:12 final size:13
Alignment explanation
Indices: 175267--175299 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
175257 TTAAACCTCT
175267 TAATAAAAATTTG
1 TAATAAAAATTTG
175280 TAATAAAAATTTG
1 TAATAAAAATTTG
175293 T-ATAAAA
1 TAATAAAA
175300 TGAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (13 bp):
TAATAAAAATTTG
Found at i:179474 original size:50 final size:50
Alignment explanation
Indices: 179417--179515 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
179407 GTATAAACAG
* *
179417 AAATAAATATAATTAATTATACAATATTTTTAATATTAAATTAAATTAAT
1 AAATAAATAAAATTAATTATACAATATTTTAAATATTAAATTAAATTAAT
* *
179467 AAATAAATAAAATTAATTATATAATATTTTAAATATTAAATTCAATTAA
1 AAATAAATAAAATTAATTATACAATATTTTAAATATTAAATTAAATTAA
179516 GTTAAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (50 bp):
AAATAAATAAAATTAATTATACAATATTTTAAATATTAAATTAAATTAAT
Found at i:179650 original size:21 final size:22
Alignment explanation
Indices: 179624--179664 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
179614 TTTTCATATG
*
179624 TTTATATAAAA-TTGATTGTAT
1 TTTATATAAAACTAGATTGTAT
179645 TTTATATAAAACTAGATTGT
1 TTTATATAAAACTAGATTGT
179665 TCCACATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (22 bp):
TTTATATAAAACTAGATTGTAT
Found at i:179890 original size:12 final size:12
Alignment explanation
Indices: 179837--179892 Score: 69
Period size: 12 Copynumber: 4.6 Consensus size: 12
179827 AATAGGGATA
179837 AAAAAAAAAGAAG
1 AAAAAAAAAG-AG
*
179850 AAAAGAAAAGAG
1 AAAAAAAAAGAG
*
179862 AAAAGAGAAAGA-
1 AAAA-AAAAAGAG
179874 AAAAAAAAAGAG
1 AAAAAAAAAGAG
179886 AAAAAAA
1 AAAAAAA
179893 TTTGTATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 6 0.16
12 17 0.46
13 14 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:179890 original size:13 final size:13
Alignment explanation
Indices: 179836--179892 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
179826 AAATAGGGAT
179836 AAAAAAAAAAGA-
1 AAAAAAAAAAGAG
*
179848 AGAAAAGAAAAGAG
1 A-AAAAAAAAAGAG
* *
179862 -AAAAGAGAA-AG
1 AAAAAAAAAAGAG
179873 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
179886 AAAAAAA
1 AAAAAAA
179893 TTTGTATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.05
12 16 0.43
13 19 0.51
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:181762 original size:6 final size:6
Alignment explanation
Indices: 181751--181777 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
181741 AGATTCTACA
181751 CAACGC CAACGC CAACGC CAACGC CAA
1 CAACGC CAACGC CAACGC CAACGC CAA
181778 ATCCGTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.48, G:0.15, T:0.00
Consensus pattern (6 bp):
CAACGC
Found at i:186026 original size:23 final size:24
Alignment explanation
Indices: 185984--186042 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
185974 TTTGCAAAAG
*
185984 TTAGATAAAAATGAATTTTTTTGT
1 TTAGAAAAAAATGAATTTTTTTGT
186008 TTAGAAAAAAATGAATTTTTTTGT
1 TTAGAAAAAAATGAATTTTTTTGT
*
186032 TTAAAAAAAAA
1 TTAGAAAAAAA
186043 GATGAAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (24 bp):
TTAGAAAAAAATGAATTTTTTTGT
Found at i:186270 original size:19 final size:19
Alignment explanation
Indices: 186226--186270 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
186216 AACGTTTGCT
*
186226 AAATATATCTATTTTTTAA
1 AAATATATCTATTTTTAAA
186245 AAA-ATAT-TATATTTTAAA
1 AAATATATCTAT-TTTTAAA
186263 AAATATAT
1 AAATATAT
186271 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATATCTATTTTTAAA
Found at i:186302 original size:14 final size:14
Alignment explanation
Indices: 186283--186309 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
186273 AAAAATAAAC
186283 TTTTTAATGAGTAG
1 TTTTTAATGAGTAG
186297 TTTTTAATGAGTA
1 TTTTTAATGAGTA
186310 ATTATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TTTTTAATGAGTAG
Found at i:190012 original size:21 final size:20
Alignment explanation
Indices: 189986--190036 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
189976 TTTTACAATT
*
189986 TGTATCGATACAAATAGGAAA
1 TGTATCGATAC-AATAAGAAA
* *
190007 TGTATCGATACATTAATAAA
1 TGTATCGATACAATAAGAAA
190027 TGTATCGATA
1 TGTATCGATA
190037 TATTTATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAATAAGAAA
Found at i:190029 original size:20 final size:20
Alignment explanation
Indices: 190004--190059 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
189994 TACAAATAGG
190004 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTAAT
* *
190024 AAATGTATCGATATATTTAT
1 AAATGTATCGATACATTAAT
***
190044 CTTTGTATCGATACAT
1 AAATGTATCGATACAT
190060 CTAGAGTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:191211 original size:33 final size:33
Alignment explanation
Indices: 191173--191239 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
191163 GTTACAAGCT
*
191173 ATGTATCGATACAATT-CATCATGTATCGATACA
1 ATGTATCGATAC-ATTGCACCATGTATCGATACA
* *
191206 ATGTATTGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
191239 A
1 A
191240 ACAGTGGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATACA
Found at i:191307 original size:13 final size:13
Alignment explanation
Indices: 191289--191315 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
191279 ACAATTGTCC
191289 ATGTATCGATACA
1 ATGTATCGATACA
191302 ATGTATCGATACA
1 ATGTATCGATACA
191315 A
1 A
191316 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:193631 original size:20 final size:23
Alignment explanation
Indices: 193606--193652 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
193596 TTCTGTTAAT
193606 GATTTTG-A-TGAAAAA-TGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
193626 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
193649 -ATTT
1 GATTT
193653 GTGGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 11 0.46
23 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (23 bp):
GATTTTGAAGTGAAAAAGTGAAA
Found at i:199922 original size:20 final size:20
Alignment explanation
Indices: 199897--199936 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
199887 GTTACAAGCT
*
199897 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATGTATC
199917 ATGTATCGATACAATGTATC
1 ATGTATCGATACAATGTATC
199937 GATACATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Found at i:199933 original size:13 final size:13
Alignment explanation
Indices: 199917--199947 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
199907 ACAATTTATC
199917 ATGTATCGATACA
1 ATGTATCGATACA
199930 ATGTATCGATACA
1 ATGTATCGATACA
*
199943 TTGTA
1 ATGTA
199948 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:199935 original size:33 final size:33
Alignment explanation
Indices: 199897--199963 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
199887 GTTACAAGCT
*
199897 ATGTATCGATACAATT-TATCATGTATCGATACA
1 ATGTATCGATAC-ATTGTACCATGTATCGATACA
199930 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
199963 A
1 A
199964 ACAGTGGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:200017 original size:20 final size:19
Alignment explanation
Indices: 199992--200046 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
199982 CTGCTAATCT
* **
199992 CATGTATCGATACAGTTGTC
1 CATGTATCGATACAATT-AA
*
200012 CATGTATCAATACAATTAA
1 CATGTATCGATACAATTAA
200031 CATGTATCGATACAAT
1 CATGTATCGATACAAT
200047 GTATCGATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACAATTAA
Found at i:200050 original size:13 final size:13
Alignment explanation
Indices: 200032--200058 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
200022 TACAATTAAC
200032 ATGTATCGATACA
1 ATGTATCGATACA
200045 ATGTATCGATACA
1 ATGTATCGATACA
200058 A
1 A
200059 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:200574 original size:13 final size:13
Alignment explanation
Indices: 200556--200580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
200546 CATAAAGTGT
200556 TGTATCGATACAA
1 TGTATCGATACAA
200569 TGTATCGATACA
1 TGTATCGATACA
200581 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:200596 original size:32 final size:33
Alignment explanation
Indices: 200536--200601 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
200526 TTCAACGATT
*
200536 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
200569 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
200601 T
1 T
200602 ATAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:200717 original size:52 final size:52
Alignment explanation
Indices: 200675--200805 Score: 244
Period size: 52 Copynumber: 2.5 Consensus size: 52
200665 CACTGATCTT
*
200675 TGTATCGACACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
*
200727 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
200779 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
200806 ATATTTCGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:210147 original size:30 final size:29
Alignment explanation
Indices: 210088--210163 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
210078 GTTTTTTTCC
*
210088 AAAAAAAGAAACAAAACAAAAAAGGAAAAA
1 AAAAAAAGAAACAAAACAAAAAA-AAAAAA
*
210118 AAAAGAAGAAAC-AAACAAACAAAAAAAAA
1 AAAAAAAGAAACAAAACAAA-AAAAAAAAA
*
210147 AGAAAAAAGGAA-AAAAC
1 A-AAAAAAGAAACAAAAC
210164 CCCTTTTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 13 0.33
30 26 0.67
ACGTcount: A:0.82, C:0.08, G:0.11, T:0.00
Consensus pattern (29 bp):
AAAAAAAGAAACAAAACAAAAAAAAAAAA
Found at i:210152 original size:8 final size:8
Alignment explanation
Indices: 210088--210162 Score: 50
Period size: 8 Copynumber: 9.8 Consensus size: 8
210078 GTTTTTTTCC
210088 AAAAAAAG
1 AAAAAAAG
210096 AAACAAAA-
1 AAA-AAAAG
*
210104 CAAAAAAG
1 AAAAAAAG
*
210112 -GAAAAA-
1 AAAAAAAG
*
210118 AAAAGAAG
1 AAAAAAAG
* *
210126 AAACAAAC
1 AAAAAAAG
*
210134 AAACAAA-
1 AAAAAAAG
210141 AAAAAAAG
1 AAAAAAAG
*
210149 AAAAAAGG
1 AAAAAAAG
210157 AAAAAA
1 AAAAAA
210163 CCCCTTTTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
7 19 0.36
8 30 0.57
9 4 0.08
ACGTcount: A:0.83, C:0.07, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:210153 original size:34 final size:34
Alignment explanation
Indices: 210089--210163 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
210079 TTTTTTTCCA
* **
210089 AAAAAAGAAACAAAACAAAAAAGGAAAAAAAAAG
1 AAAAAACAAACAAAACAAAAAAAAAAAAAAAAAG
* *
210123 AAGAAACAAAC-AAACAAAAAAAAAAGAAAAAAGG
1 AAAAAACAAACAAAACAAAAAAAAAA-AAAAAAAG
210157 AAAAAAC
1 AAAAAAC
210164 CCCTTTTCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 12 0.35
34 22 0.65
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (34 bp):
AAAAAACAAACAAAACAAAAAAAAAAAAAAAAAG
Found at i:211179 original size:61 final size:60
Alignment explanation
Indices: 211107--211346 Score: 248
Period size: 64 Copynumber: 3.9 Consensus size: 60
211097 AATACTTTCT
*
211107 TAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
1 TAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * *
211168 TAAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCTACGACTCAGTGGCATTTTGTCC
1 TAAAGTCCACGACTCAGTGGCA----TCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * * * *
211232 TAAAGTCCATGACTCAGTGGCATCCTCTTTTTCAAAGTCCATGACTCAATGGCATTTAGT-C
1 TAAAGTCCACGACTCAGTGGCAT-CTC-TTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * * * *
211293 TCAAAGTTCATGACTCAGTGGCATTTTTTCTTCAAAGTCCACGACTCCGTGGCA
1 T-AAAGTCCACGACTCAGTGGCATCTCTTC-TCAAAGCCCACGACTCAGTGGCA
211347 CCCTTTTAAG
Statistics
Matches: 151, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
60 4 0.03
61 44 0.29
62 47 0.31
64 56 0.37
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (60 bp):
TAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCC
Found at i:211216 original size:64 final size:63
Alignment explanation
Indices: 211132--211346 Score: 253
Period size: 64 Copynumber: 3.4 Consensus size: 63
211122 AATGGCAATC
* * *
211132 TCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTAAAGTCCACGACTCCGTGGCACCTTTT
1 TCTT-TCAAAGTCCACGACTCAGTGGCATTTTGTCCTAAAGTCCATGACTCAGTGGCACCTTTT
*
211196 TCTTCTCAAAG-CCTACGACTCAGTGGCATTTTGTCCTAAAGTCCATGACTCAGTGGCATCC-TC
1 TCTT-TCAAAGTCC-ACGACTCAGTGGCATTTTGTCCTAAAGTCCATGACTCAGTGGCA-CCTTT
211259 T
63 T
* * * * *
211260 T-TTTCAAAGTCCATGACTCAATGGCATTTAGT-CTCAAAGTTCATGACTCAGTGGCA-TTTTT
1 TCTTTCAAAGTCCACGACTCAGTGGCATTTTGTCCT-AAAGTCCATGACTCAGTGGCACCTTTT
*
211321 TC-TTCAAAGTCCACGACTCCGTGGCA
1 TCTTTCAAAGTCCACGACTCAGTGGCA
211347 CCCTTTTAAG
Statistics
Matches: 133, Mismatches: 12, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
61 26 0.20
62 43 0.32
63 6 0.05
64 56 0.42
65 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (63 bp):
TCTTTCAAAGTCCACGACTCAGTGGCATTTTGTCCTAAAGTCCATGACTCAGTGGCACCTTTT
Found at i:211339 original size:31 final size:31
Alignment explanation
Indices: 211102--211346 Score: 207
Period size: 30 Copynumber: 7.9 Consensus size: 31
211092 CTTCAAATAC
* *
211102 TTTCTT-AAAGTCCACGACTCAATGGCAATCT
1 TTTCTTCAAAGTCCACGACTCAGTGGC-ATTT
* *
211133 CTTC-TCAAAGCCCACGACTCAGTGGCATTT
1 TTTCTTCAAAGTCCACGACTCAGTGGCATTT
* * * *
211163 TGTCCT-AAAGTCCACGACTCCGTGGCACCTT
1 TTTCTTCAAAGTCCACGACTCAGTGGCA-TTT
211194 TTTCTTCTCAAAG-CCTACGACTCAGTGGCATTT
1 TTTC-T-TCAAAGTCC-ACGACTCAGTGGCATTT
* * * *
211227 TGTCCT-AAAGTCCATGACTCAGTGGCATCCTC
1 TTTCTTCAAAGTCCACGACTCAGTGGCAT--TT
* *
211259 TTT-TTCAAAGTCCATGACTCAATGGCATTT
1 TTTCTTCAAAGTCCACGACTCAGTGGCATTT
** * *
211289 AGTC-TCAAAGTTCATGACTCAGTGGCATTT
1 TTTCTTCAAAGTCCACGACTCAGTGGCATTT
*
211319 TTTCTTCAAAGTCCACGACTCCGTGGCA
1 TTTCTTCAAAGTCCACGACTCAGTGGCA
211347 CCCTTTTAAG
Statistics
Matches: 171, Mismatches: 30, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
30 71 0.42
31 51 0.30
32 24 0.14
33 8 0.05
34 17 0.10
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (31 bp):
TTTCTTCAAAGTCCACGACTCAGTGGCATTT
Found at i:211394 original size:34 final size:33
Alignment explanation
Indices: 211350--211545 Score: 181
Period size: 34 Copynumber: 5.9 Consensus size: 33
211340 CGTGGCACCC
211350 TTTTAAGCCCACAACTCCGTGGCACCTTTTCCT
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
211383 TTTTGGAGCCCAGAACTCCGTGGCACCTTTTTCT
1 TTTT-AAGCCCACAACTCCGTGGCACCTTTTCCT
*
211417 TTCTAAAGCCCACAACTCCGTGGCACTCTTTTTCC-
1 TT-TTAAGCCCACAACTCCGTGGCAC-C-TTTTCCT
* *
211452 TTCTAAGTCCACAACTCCGTGGCA-C----CC-
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTCCT
* * * *
211479 GTTTGAGCCCACAACTCTGTGGCATCTTTTTCCT
1 TTTTAAGCCCACAACTCCGTGGCA-CCTTTTCCT
*
211513 TTTTAAAGCCTACAACTCCGTGGCACTCTTTTC
1 TTTT-AAGCCCACAACTCCGTGGCAC-CTTTTC
211546 TAGTCCACTT
Statistics
Matches: 129, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
27 21 0.16
32 1 0.01
33 6 0.05
34 70 0.54
35 26 0.20
36 5 0.04
ACGTcount: A:0.18, C:0.34, G:0.15, T:0.33
Consensus pattern (33 bp):
TTTTAAGCCCACAACTCCGTGGCACCTTTTCCT
Found at i:211468 original size:68 final size:69
Alignment explanation
Indices: 211326--211624 Score: 206
Period size: 61 Copynumber: 4.4 Consensus size: 69
211316 TTTTTTCTTC
*
211326 AAAGTCCACGACTCCGTGGCACC-----CTTT-TAAGCCCACAACTCCGTGGCAC-C-TTTTCCT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
*
211383 TTTT
66 TTCT
** * *
211387 GGAGCCCAGAACTCCGTGGCACCTTTTTCTTTCTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTCC
211452 -TTCT
65 TTTCT
* * *
211456 -AAGTCCACAACTCCGTGGCACC-----CGTT-TGAGCCCACAACTCTGTGGCA-TCTTTTTCCT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
*
211513 TTTT
66 TTCT
211517 AAAG-CCTACAACTCCGTGGCACTCTTTTCTAGTCCACTTGCCTCGTAAGTCCCACAACTCCGTG
1 AAAGTCC-ACAACTCCGTGGCAC-C-TTT-T--T---CTT---TC-TAAG-CCCACAACTCCGTG
*
211581 GCACTCTTTCTCC-TTCT
52 GCACTCTTTTTCCTTTCT
* *
211598 -AAGTCCACAACTCTGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTT
211625 ACGTCCACAG
Statistics
Matches: 185, Mismatches: 20, Indels: 52
0.72 0.08 0.20
Matches are distributed among these distances:
60 9 0.05
61 41 0.22
62 19 0.10
63 4 0.02
66 4 0.02
67 1 0.01
68 40 0.22
69 4 0.02
70 6 0.03
75 3 0.02
77 1 0.01
78 3 0.02
79 1 0.01
80 20 0.11
81 21 0.11
82 8 0.04
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (69 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCTTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
TTCT
Found at i:211690 original size:32 final size:32
Alignment explanation
Indices: 211654--211942 Score: 339
Period size: 32 Copynumber: 8.9 Consensus size: 32
211644 ATCTTTCTCA
211654 TTTTTCAAAGCCCACACAAGTTGGTGGCAACC
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAACC
*
211686 TTTTTCCAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTT-CAAAGCCCACACAAGTTGGTGGCAACC
* *
211719 ATTCTCAAAGCCCACACAAGTTGGTGGCAACC
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAACC
* *
211751 TTTTTCTAAAGCCCACACAAGTCGGTGACAACC
1 TTTTTC-AAAGCCCACACAAGTTGGTGGCAACC
* *
211784 TTCTTCAAAGCCCACACAAGTTGGTGGCAACTT
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAAC-C
* * *
211817 TTTTTTAAAGCCCACAGAAGTCGGTGGCAATCC
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAA-CC
** *
211850 CCTCT-AAAGCCCACACAAGTTGGTGGCAATCC
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAA-CC
** * *
211882 CCTCT-AAAGCCCACACAAGTCGGTGGCAACC
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAACC
* *
211913 TTCTTCAAAACCCCACACAAGTTGGTGGCA
1 TTTTTC-AAAGCCCACACAAGTTGGTGGCA
211943 TCTTCCTTTA
Statistics
Matches: 222, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
31 3 0.01
32 111 0.50
33 107 0.48
34 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (32 bp):
TTTTTCAAAGCCCACACAAGTTGGTGGCAACC
Found at i:211727 original size:65 final size:65
Alignment explanation
Indices: 211657--211942 Score: 411
Period size: 65 Copynumber: 4.4 Consensus size: 65
211647 TTTCTCATTT
*
211657 TTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCCACACAAGTCGGTGGCAACCATT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC-TT
211722 C
65 C
*
211723 -TCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGACAACCTTC
1 TTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
* * *
211787 TTCAAAGCCCACACAAGTTGGTGGCAACTTTTTTTTAAAGCCCACAGAAGTCGGTGGCAATCC--
1 TTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
211850 C
65 C
* **
211851 CTCTAAAGCCCACACAAGTTGGTGGCAATCC--CCTCTAAAGCCCACACAAGTCGGTGGCAACCT
1 TTC-AAAGCCCACACAAGTTGGTGGCAA-CCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCT
211914 TC
64 TC
*
211916 TTCAAAACCCCACACAAGTTGGTGGCA
1 TTC-AAAGCCCACACAAGTTGGTGGCA
211943 TCTTCCTTTA
Statistics
Matches: 199, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
63 2 0.01
64 31 0.16
65 163 0.82
66 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (65 bp):
TTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
Found at i:212123 original size:92 final size:92
Alignment explanation
Indices: 211947--213366 Score: 2008
Period size: 92 Copynumber: 15.1 Consensus size: 92
211937 GTGGCATCTT
* * * *
211947 CCTTTAAGTCCAGTATAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C---AAGTCCAATGT
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
212006 AGCTGGCCTTAAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
212033 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTCATCTTTAAGTCCAATGT
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
212098 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
212125 -CTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
212189 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
212217 -CTTCCAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
212281 TAGCTGGCCTTGAATCAGCACATTGACA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
212309 TCCTTTTTCTCATCTTTAAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCT
1 --C-----CT--TC---AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCT
212373 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
53 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
212413 -CTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
212477 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
212505 -CTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
212569 TAGCTGGCCTTGAATCAGCACATTGACA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
212597 TCCTTTTTCTCATCTTTAAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCT
1 --C-----CT--TC---AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCT
212661 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
53 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
212701 -CTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
212765 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
212793 -CTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
212857 TAGCTGGCCTTGAATCAGCACATTGACA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
212885 TCCTTTTTCTCATCTTTAAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCT
1 --C-----CT--TC---AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCT
212949 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
53 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
212989 CCTCCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
213054 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
213081 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGT
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
213146 AGCTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
213173 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAG-CCTAAT
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TTTAAGTCC-AAT
* * *
213237 GTCGTTGGCCTTGAATCAGCACATTGGTA
64 GTAGCTGGCCTTGAATCAGCACATTGGCA
* *
213266 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* *
213331 TGTCGCCGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
213361 CCTTCA
1 CCTTCA
213367 TCTTTAACAT
Statistics
Matches: 1230, Mismatches: 44, Indels: 111
0.89 0.03 0.08
Matches are distributed among these distances:
86 40 0.03
87 2 0.00
89 1 0.00
91 3 0.00
92 778 0.63
93 81 0.07
94 2 0.00
95 43 0.03
96 11 0.01
97 2 0.00
100 6 0.00
101 3 0.00
102 4 0.00
103 6 0.00
104 248 0.20
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:212470 original size:196 final size:185
Alignment explanation
Indices: 212326--213361 Score: 1568
Period size: 196 Copynumber: 5.5 Consensus size: 185
212316 TCTCATCTTT
212326 AAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
212390 GGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGC
65 GGCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
212455 ACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACT-TCC
130 ACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCTCC
212510 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
*
212575 GCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGTCCAATATCGCTGG-CTCTGAAT
66 GCCTTGAATCAGCACATTGGCA--C----T-TC--C---AAGTCCAATATCGCTGGCCT-TGAAT
212639 CAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACT-
118 CAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTC
212703 TCC
183 TCC
*
212706 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
212771 GCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
212836 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATC
131 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C----TCTC--C
212899 TTTAAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 ---AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
212963 GCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCAATATCGTTGGCCTTGAATCAGCATATT
62 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
213028 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTCC
127 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCTCC
*
213086 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
*
213151 GCCTTGAATCAACACATTGGCAAC-TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GCCTTGAATCAGCACATTGGC-ACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * * **
213215 ACCCTCATCTTTTAAG-CCTAATGTCGTTGGCCTTGAATCAGCACATTGGTAC-CTTT
130 ACCTTCATC-TTTAAGTCC-AATGTAGCTGGCCTTGAATCAGCACATTGGCACTCTCC
* *
213271 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAATGTAG
*
213336 CCGGCCTTGAATCAGCACATTGGCAC
63 CTGGCCTTGAATCAGCACATTGGCAC
213362 CTTCATCTTT
Statistics
Matches: 794, Mismatches: 23, Indels: 67
0.90 0.03 0.08
Matches are distributed among these distances:
184 296 0.37
185 84 0.11
186 2 0.00
187 5 0.01
188 42 0.05
189 5 0.01
190 3 0.00
191 4 0.01
193 2 0.00
194 2 0.00
195 4 0.01
196 345 0.43
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (185 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
GCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCTCC
Found at i:212499 original size:288 final size:288
Alignment explanation
Indices: 212034--213361 Score: 2292
Period size: 288 Copynumber: 4.6 Consensus size: 288
212024 ACATTGGCAC
* *
212034 CTTTAAGTCCAATATCGCTGGC-CTTGAATCAGTATATTGGCACTTTCATCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATCGCTGGCTC-TGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
212098 AGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATAT
65 AGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATAT
212163 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCC
130 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCC
*
212228 AATATCGCTGGCCTTGAACCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
195 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
212293 AATCAGCACATTGACATCCTTTTTCTCAT
260 AATCAGCACATTGACATCCTTTTTCTCAT
212322 CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
212387 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
212452 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCA
131 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCA
212517 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
196 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
212582 ATCAGCACATTGACATCCTTTTTCTCAT
261 ATCAGCACATTGACATCCTTTTTCTCAT
212610 CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
212675 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
212740 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCA
131 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCA
212805 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
196 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
212870 ATCAGCACATTGACATCCTTTTTCTCAT
261 ATCAGCACATTGACATCCTTTTTCTCAT
212898 CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
212963 GCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCAATATCGTTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
*
213028 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCA
131 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCA
*
213093 ATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
196 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
* * *
213158 ATCAACACATTGGCA-------ACTC--
261 ATCAGCACATTGACATCCTTTTTCTCAT
*
213177 C---AAGTCCAATATCGCTGGC-CTTGAATCAGCATATTGGCACCCTCATCTTTTAAG-CCTAAT
1 CTTTAAGTCCAATATCGCTGGCTC-TGAATCAGCATATTGGCACCTTCATC-TTTAAGTCC-AAT
* * * * *
213237 GTCGTTGGCCTTGAATCAGCACATTGGTACCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCA
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCA
* * *
213301 TATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGCAC
127 TATTGGCACC--T-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
213362 CTTCATCTTT
Statistics
Matches: 1011, Mismatches: 21, Indels: 24
0.96 0.02 0.02
Matches are distributed among these distances:
275 1 0.00
276 45 0.04
277 73 0.07
278 2 0.00
279 2 0.00
280 45 0.04
281 3 0.00
288 839 0.83
289 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (288 bp):
CTTTAAGTCCAATATCGCTGGCTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCA
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
ATCAGCACATTGACATCCTTTTTCTCAT
Found at i:212718 original size:380 final size:370
Alignment explanation
Indices: 211952--213361 Score: 2071
Period size: 380 Copynumber: 3.7 Consensus size: 370
211942 ATCTTCCTTT
* * *
211952 AAGTCCAGTATAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C---AAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
* * *
212011 GCCTTAAATCAGCACATTGGCACCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGC
66 GCCTTGAATCAGCACATTGGCA-CTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* *
212075 ACTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCCAAGTCTAAT
130 ACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCCAAGTCCAAT
212139 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
195 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
*
212204 CAGCACATTGGCACT-TCCAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTCATC
260 CAGCACATTGGCACTCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
212268 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATC
325 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C----T-TC--C
212323 TTTAAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 ---AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
212387 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATT
62 GCTGGCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
212452 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCCAAGTCC
127 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCCAAGTCC
212516 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
192 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
212581 AATCAGCACATTGACATCCTTTTTCTCATCTTTAAGTCCAATATCGCTGG-CTCTGAATCAGCAT
257 AATCAGCACATTGGCA--C----TCTC--C---AAGTCCAATATCGCTGGCCT-TGAATCAGCAT
212645 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCC
310 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCC
*
212706 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
212771 GCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
212836 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
131 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TC--C--
212901 TAAGTCCAATATCGCTGG-CTCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
186 -AAGTCCAATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
212965 TGGCCTTGAATCAGCACATTGGCAC-CTCCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTG
249 TGGCCTTGAATCAGCACATTGGCACTCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
213029 GCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
314 GCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCC
*
213086 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
*
213151 GCCTTGAATCAACACATTGGCAAC-TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GCCTTGAATCAGCACATTGGC-ACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * * *
213215 ACCCTCATCTTTTAAG-CCTAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTT-TAAGTCCA
130 ACCTTCATC-TTTAAGTCC-AATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCCAAGTCCA
* * *
213278 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCCGGCCT
193 ATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAATGTAGCTGGCCT
213343 TGAATCAGCACATTGGCAC
255 TGAATCAGCACATTGGCAC
213362 CTTCATCTTT
Statistics
Matches: 963, Mismatches: 30, Indels: 88
0.89 0.03 0.08
Matches are distributed among these distances:
369 36 0.04
370 2 0.00
371 1 0.00
372 45 0.05
373 2 0.00
374 34 0.04
375 3 0.00
376 1 0.00
377 1 0.00
379 3 0.00
380 606 0.63
381 40 0.04
382 2 0.00
383 2 0.00
385 5 0.01
386 3 0.00
387 4 0.00
389 2 0.00
390 2 0.00
391 4 0.00
392 165 0.17
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (370 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTG
GCCTTGAATCAGCACATTGGCACTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCCAAGTCCAATA
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
AGCACATTGGCACTCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCC
Found at i:214227 original size:13 final size:13
Alignment explanation
Indices: 214209--214233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
214199 CATAAAGTGT
214209 TGTATCAATACAA
1 TGTATCAATACAA
214222 TGTATCAATACA
1 TGTATCAATACA
214234 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:214252 original size:32 final size:33
Alignment explanation
Indices: 214189--214254 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
214179 TTCAACGATT
*
214189 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCAATACATAAAGTGTTGTATCAATACAA
* *
214222 TGTATCAATACAT-AAGTTTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTGTATCAATACAA
214254 T
1 T
214255 ATAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCAATACATAAAGTGTTGTATCAATACAA
Found at i:214372 original size:52 final size:52
Alignment explanation
Indices: 214328--214456 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
214318 CACTGATCTT
214328 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
214380 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
214432 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
214457 TCATATTTTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:221098 original size:19 final size:20
Alignment explanation
Indices: 221055--221108 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 20
221045 CTGCCAGTTT
221055 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
221075 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
221094 CATGTATCGATACAA
1 CATGTATCGATACAA
221109 CGTATCGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:221115 original size:13 final size:13
Alignment explanation
Indices: 221097--221121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
221087 CAATGAGCAT
221097 GTATCGATACAAC
1 GTATCGATACAAC
221110 GTATCGATACAA
1 GTATCGATACAA
221122 AGCATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAC
Found at i:221692 original size:29 final size:29
Alignment explanation
Indices: 221660--221769 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 29
221650 AACTCCCCCT
*
221660 TAATAAAATTTTTCTCCCTCTTGATAACA
1 TAATAAAATTTTTCTCCCTCTTGATAAAA
*
221689 TAATAAAAATTTTCT-CC-C-T--T--AA
1 TAATAAAATTTTTCTCCCTCTTGATAAAA
*
221711 T-A-AA-ATTTTTCTCCCCCTTGATAAAA
1 TAATAAAATTTTTCTCCCTCTTGATAAAA
*
221737 TAATAAAATTTTTCTCTCTCTTGATAAAA
1 TAATAAAATTTTTCTCCCTCTTGATAAAA
221766 TAAT
1 TAAT
221770 TAAAGCTCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
19 7 0.11
20 4 0.06
21 2 0.03
22 3 0.05
24 2 0.03
26 4 0.06
27 2 0.03
28 4 0.06
29 38 0.58
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (29 bp):
TAATAAAATTTTTCTCCCTCTTGATAAAA
Found at i:221709 original size:48 final size:48
Alignment explanation
Indices: 221656--221766 Score: 168
Period size: 48 Copynumber: 2.3 Consensus size: 48
221646 ATAAAACTCC
* *
221656 CCCTTAATAAAATTTTTCTCCCTCTTGATAACATAATAAAAATTTTCT
1 CCCTTAATAAAATTTTTCTCCCCCTTGATAAAATAATAAAAATTTTCT
*
221704 CCCTTAATAAAATTTTTCTCCCCCTTGATAAAATAATAAAATTTTTCT
1 CCCTTAATAAAATTTTTCTCCCCCTTGATAAAATAATAAAAATTTTCT
*
221752 CTCTCTTGATAAAAT
1 C-C-CTTAATAAAAT
221767 AATTAAAGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 46 0.81
49 1 0.02
50 10 0.18
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (48 bp):
CCCTTAATAAAATTTTTCTCCCCCTTGATAAAATAATAAAAATTTTCT
Found at i:221737 original size:21 final size:19
Alignment explanation
Indices: 221689--221725 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
221679 CTTGATAACA
*
221689 TAATAAAAATTTTCTCCCT
1 TAATAAAATTTTTCTCCCT
221708 TAATAAAATTTTTCTCCC
1 TAATAAAATTTTTCTCCC
221726 CCTTGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAAAATTTTTCTCCCT
Found at i:223723 original size:20 final size:21
Alignment explanation
Indices: 223693--223732 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
223683 ATTTGGGTTT
223693 TTCAGATGTATCGATACATCA
1 TTCAGATGTATCGATACATCA
*
223714 TTCA-ATGTATTGATACATC
1 TTCAGATGTATCGATACATC
223733 CTGAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCA
Found at i:228207 original size:12 final size:12
Alignment explanation
Indices: 228190--228220 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
228180 TGAGTCAACT
228190 TCATCATTATCA
1 TCATCATTATCA
*
228202 TCATCATTATCT
1 TCATCATTATCA
228214 TCATCAT
1 TCATCAT
228221 CTTTGATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:229840 original size:17 final size:17
Alignment explanation
Indices: 229818--229850 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
229808 GATACTTTTG
229818 ACAATGTATCGATACAT
1 ACAATGTATCGATACAT
229835 ACAATGTATCGATACA
1 ACAATGTATCGATACA
229851 ATATCCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (17 bp):
ACAATGTATCGATACAT
Found at i:231879 original size:19 final size:20
Alignment explanation
Indices: 231832--231880 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
231822 CACCCAGATA
231832 TATCAATACATATTGCTAAG
1 TATCAATACATATTGCTAAG
* * **
231852 TATCGATACATGTT-CTTGG
1 TATCAATACATATTGCTAAG
231871 TATCAATACA
1 TATCAATACA
231881 CACTAAATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
TATCAATACATATTGCTAAG
Found at i:231948 original size:13 final size:14
Alignment explanation
Indices: 231929--231965 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
231919 AACTCACTCA
231929 GTATCGATACAGTT
1 GTATCGATACAGTT
231943 -TATCGATAC-GTT
1 GTATCGATACAGTT
*
231955 GTATGGATACA
1 GTATCGATACA
231966 TGGTCAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (14 bp):
GTATCGATACAGTT
Found at i:232412 original size:23 final size:23
Alignment explanation
Indices: 232382--232425 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
232372 GCATTCAACC
232382 TTGGGGTACAATCTCTT-AAGAAT
1 TTGGGGTACAAT-TCTTGAAGAAT
*
232405 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTACAATTCTTGAAGA
232426 GATTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (23 bp):
TTGGGGTACAATTCTTGAAGAAT
Found at i:233586 original size:15 final size:15
Alignment explanation
Indices: 233566--233596 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
233556 TCAACCATCA
*
233566 ATGATGATGATGTTG
1 ATGATGATGAAGTTG
233581 ATGATGATGAAGTTG
1 ATGATGATGAAGTTG
233596 A
1 A
233597 CTCGAATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (15 bp):
ATGATGATGAAGTTG
Found at i:239669 original size:21 final size:21
Alignment explanation
Indices: 239642--239691 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
239632 AGCATTAAAT
*
239642 ATTTTATTAAGGGGGAGAAAA
1 ATTTTATTAAAGGGGAGAAAA
* *
239663 GTTTTATAAAAGGGGAGAAAA
1 ATTTTATTAAAGGGGAGAAAA
239684 ATTTTATT
1 ATTTTATT
239692 GCAGAGGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (21 bp):
ATTTTATTAAAGGGGAGAAAA
Found at i:240336 original size:21 final size:20
Alignment explanation
Indices: 240312--240350 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
240302 AGGTCAAAAC
240312 CCTAGAAAGTATCAATACACA
1 CCTAGAAA-TATCAATACACA
*
240333 CCTAGATATATCAATACA
1 CCTAGAAATATCAATACA
240351 TATTGCCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (20 bp):
CCTAGAAATATCAATACACA
Found at i:240525 original size:12 final size:12
Alignment explanation
Indices: 240508--240546 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
240498 TAAATTTCAA
240508 ATACATGTATCG
1 ATACATGTATCG
240520 ATACAT-TAT-G
1 ATACATGTATCG
240530 A-A-ATGTATCG
1 ATACATGTATCG
240540 ATACATG
1 ATACATG
240547 GGAGCATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 2 0.09
9 4 0.17
10 4 0.17
11 4 0.17
12 9 0.39
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (12 bp):
ATACATGTATCG
Found at i:240907 original size:23 final size:23
Alignment explanation
Indices: 240877--240920 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
240867 GCATTCAACC
240877 TTGGGGTACAATCTCTT-AAGAAT
1 TTGGGGTACAAT-TCTTGAAGAAT
*
240900 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTACAATTCTTGAAGA
240921 GATTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (23 bp):
TTGGGGTACAATTCTTGAAGAAT
Found at i:244012 original size:52 final size:51
Alignment explanation
Indices: 243911--244015 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
243901 TATATTTTTC
* * * *
243911 CATTTTAGGTTTTAGCCCAAATGTATTGATGCAATTTTCATTGTATCGATA
1 CATTTTAGGTTTTAGCACAAATGTATCGATGCAATTTTCACTATATCGATA
* * *
243962 CATTTTAGGTTTTTGACATAAATGTATCGATGC-ATTCTTCACTATGTCGATA
1 CATTTTAGGTTTTAG-CACAAATGTATCGATGCAATT-TTCACTATATCGATA
244014 CA
1 CA
244016 AGCATGCTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 17 0.38
52 28 0.62
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (51 bp):
CATTTTAGGTTTTAGCACAAATGTATCGATGCAATTTTCACTATATCGATA
Found at i:246524 original size:79 final size:79
Alignment explanation
Indices: 246420--246744 Score: 322
Period size: 79 Copynumber: 4.1 Consensus size: 79
246410 TTTTCATTAA
* *
246420 GGGGATACTTCAA-CCTCGTTA-TTTCAGAAGGGATACTCCAAACCCTTTTTTATTTTCAAAATA
1 GGGGATAC-TCAACCCT-GTTATTTTCAGAAGGGATACTCCAACCCCATTTTTATTTTCAAAATA
*
246483 TTAAAAATTTCATCTC
64 TTAAAATTTTCATCTC
* * **
246499 GGGGATACTCAACCCTGTTATTTTCA-AAGAGATACTTCAACCCCATTTTTATTTTTGAAATATT
1 GGGGATACTCAACCCTGTTATTTTCAGAAGGGATACTCCAACCCCATTTTTATTTTCAAAATATT
246563 AAAATTTTCATCTC
66 AAAATTTTCATCTC
* ** * * **
246577 GGGGGTACTCTAACTCC-GTT-TTTTTTGAAGGGATACTCCAATCGCATTTTTATTTTTGAAATA
1 GGGGATACTC-AAC-CCTGTTATTTTCAGAAGGGATACTCCAACCCCATTTTTATTTTCAAAATA
246640 TTAAAATTTTCATCTC
64 TTAAAATTTTCATCTC
** * ** * * * *
246656 TAGGATACTTTAACCCCATTATTCTT--GAGGGGATACTCCGACCCCGTTCTTATTTTCAAAATA
1 GGGGATAC-TCAACCCTGTTATT-TTCAGAAGGGATACTCCAACCCCATTTTTATTTTCAAAATA
*
246719 TTAAAATTTTCATCTT
64 TTAAAATTTTCATCTC
*
246735 GGGGGTACTC
1 GGGGATACTC
246745 CAGTTCATTG
Statistics
Matches: 205, Mismatches: 32, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
78 69 0.34
79 129 0.63
80 5 0.02
81 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (79 bp):
GGGGATACTCAACCCTGTTATTTTCAGAAGGGATACTCCAACCCCATTTTTATTTTCAAAATATT
AAAATTTTCATCTC
Found at i:246733 original size:158 final size:157
Alignment explanation
Indices: 246446--246744 Score: 384
Period size: 158 Copynumber: 1.9 Consensus size: 157
246436 CGTTATTTCA
* *
246446 GAAGGGATACTCCAAACCCTTTTTTATTTTCAAAATATTAAAAATTTCATCTCGGGGATACTCAA
1 GAAGGGATACTCCAAACCCATTTTTATTTTCAAAATATTAAAAATTTCATCTCGAGGATACTCAA
** * * **
246511 CCCTGTTATTTTCAAAGAGATACTTCAACCCCATTTTTATTTTTGAAATATTAAAATTTTCATCT
66 CCCCATTATTTTCAAAGAGATACTCCAACCCCATTCTTATTTTCAAAATATTAAAATTTTCATCT
246576 CGGGGGTACTCTAACTCCGTTTTTTTT
131 CGGGGGTACTCTAACTCCGTTTTTTTT
* * ** * * *
246603 GAAGGGATACTCCAATCGCATTTTTATTTTTGAAATATTAAAATTTTCATCTCTAGGATACTTTA
1 GAAGGGATACTCCAAACCCATTTTTATTTTCAAAATATTAAAAATTTCATCTCGAGGATAC-TCA
* * * * *
246668 ACCCCATTATTCTT-GAGGGGATACTCCGACCCCGTTCTTATTTTCAAAATATTAAAATTTTCAT
65 ACCCCATTATT-TTCAAAGAGATACTCCAACCCCATTCTTATTTTCAAAATATTAAAATTTTCAT
*
246732 CTTGGGGGTACTC
129 CTCGGGGGTACTC
246745 CAGTTCATTG
Statistics
Matches: 119, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
157 53 0.45
158 64 0.54
159 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (157 bp):
GAAGGGATACTCCAAACCCATTTTTATTTTCAAAATATTAAAAATTTCATCTCGAGGATACTCAA
CCCCATTATTTTCAAAGAGATACTCCAACCCCATTCTTATTTTCAAAATATTAAAATTTTCATCT
CGGGGGTACTCTAACTCCGTTTTTTTT
Found at i:248055 original size:146 final size:146
Alignment explanation
Indices: 247719--248103 Score: 400
Period size: 146 Copynumber: 2.6 Consensus size: 146
247709 AAAGAGTCCA
* * * * *
247719 ACTCTTTGTAGACT-AAGGTAGATAGGTGCCACCAACTTATGTGGGCTTTGTGGTAGGTAA-AAA
1 ACTCTTTGAAGACTGGAGGTAAATAGATGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAA
* * ** * * *
247782 AAAGTCCAGCTCTTTGTGGACTAAGGTAGTTAGGTACCACTAGCTTGCGTGGCCTTTATGGTAGG
66 AAAGTCCAGCTCTTTATGGACTAAGGTAGATAAATACCACCAGCTTGCGTGGCCTTTACGGTAAG
* * *
247847 TAAGAAAAAGCATTCT
131 CAAGAAAAAACATCCT
* * * * * * ** *
247863 GCTCTTTGAAGATTGGAGGTAGATAGGTGCCACCAGCTTGTATGGGCTTTACGATAGGTAAGAAA
1 ACTCTTTGAAGACTGGAGGTAAATAGATGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAA
* * * * *
247928 AAAGTCCAACTCTTTATGGACTAAGGTAGATAAATGCCACCAGCTTGTGTGGGCTTTGCGGTAAG
66 AAAGTCCAGCTCTTTATGGACTAAGGTAGATAAATACCACCAGCTTGCGTGGCCTTTACGGTAAG
*
247993 CAAGAAAAAACGTCCT
131 CAAGAAAAAACATCCT
* * *
248009 ACTCTTTGAGGACTGGAGGTAAAT-GATGCCTACTAGTTTATGTGGGCTTTGTGGTAGGTAAGAA
1 ACTCTTTGAAGACTGGAGGTAAATAGATGCC-ACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAA
*
248073 AAAACGTCCTGCTCTTTGA-GGACTAGAGGTA
65 AAAA-GTCCAGCTCTTT-ATGGACTA-AGGTA
248104 AATGAATTTA
Statistics
Matches: 195, Mismatches: 40, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
144 11 0.06
145 44 0.23
146 118 0.61
147 16 0.08
148 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (146 bp):
ACTCTTTGAAGACTGGAGGTAAATAGATGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAA
AAAGTCCAGCTCTTTATGGACTAAGGTAGATAAATACCACCAGCTTGCGTGGCCTTTACGGTAAG
CAAGAAAAAACATCCT
Found at i:248073 original size:74 final size:72
Alignment explanation
Indices: 247672--248103 Score: 372
Period size: 74 Copynumber: 5.9 Consensus size: 72
247662 ATTAACATGG
* * * * *
247672 TGCCACAAGCTTATGTGGGTTTTGAGGTATGTAAGAAAAAGAGTCCAACTCTTTGTA-GACTAAG
1 TGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAA-AGTCCTACTCTTTG-AGGACTAAG
*
247736 GTAGATAGG
64 GTAGATAGA
* *
247745 TGCCACCAACTTATGTGGGCTTTGTGGTAGGTAA-AAAAAAGTCC-AGCTCTTTGTGGACTAAGG
1 TGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAAAGTCCTA-CTCTTTGAGGACTAAGG
* *
247808 TAGTTAGG
65 TAGATAGA
* * ** * * * * * * *
247816 TACCACTAGCTTGCGTGGCCTTTATGGTAGGTAAG-AAAAAGCATTCTGCTCTTTGAAGATTGGA
1 TGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAAAG--TCCTACTCTTTGAGGACT-AA
*
247880 GGTAGATAGG
63 GGTAGATAGA
* * ** * *
247890 TGCCACCAGCTTGTATGGGCTTTACGATAGGTAAGAAAAAAGTCCAACTCTTT-ATGGACTAAGG
1 TGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAAAGTCCTACTCTTTGA-GGACTAAGG
*
247954 TAGATAAA
65 TAGATAGA
* * * * *
247962 TGCCACCAGCTTGTGTGGGCTTTGCGGTAAGCAAGAAAAAACGTCCTACTCTTTGAGGACTGGAG
1 TGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAAA-GTCCTACTCTTTGAGGACT-AAG
*
248027 GTAAAT-GA
64 GTAGATAGA
* * *
248035 TGCCTACTAGTTTATGTGGGCTTTGTGGTAGGTAAGAAAAAACGTCCTGCTCTTTGAGGACTAGA
1 TGCC-ACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAAA-GTCCTACTCTTTGAGGACTA-A
248100 GGTA
63 GGTA
248104 AATGAATTTA
Statistics
Matches: 292, Mismatches: 53, Indels: 27
0.78 0.14 0.07
Matches are distributed among these distances:
70 1 0.00
71 60 0.21
72 51 0.17
73 73 0.25
74 101 0.35
75 6 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (72 bp):
TGCCACCAGCTTATGTGGGCTTTGTGGTAGGTAAGAAAAAAGTCCTACTCTTTGAGGACTAAGGT
AGATAGA
Found at i:258181 original size:312 final size:312
Alignment explanation
Indices: 257616--258239 Score: 1133
Period size: 312 Copynumber: 2.0 Consensus size: 312
257606 TGTTAGAGTC
257616 TCATTCTTAACCTGATTTGCCCTCAAACCATGAATTTGAGCTTCTAGCCATCCATTCTTCCTTCG
1 TCATTCTTAACCTGATTTGCCCTCAAACCATGAATTTGAGCTTCTAGCCATCCATTCTTCCTTCG
*
257681 ATAAGTTGATTCTAGGGCACGAGTTCTAACAAGTTTCTCTTTATTGGCCTTGGTCTTTTCTTTAC
66 ATAAGTTGATTCTAGGGCACGAGTTCTAACAAGTTTCTCTCTATTGGCCTTGGTCTTTTCTTTAC
*
257746 ATCAATGCAATTCCTTTTTAAGTGCTACAATTTTTGCTTCCCCTTCAATTAGTGACTTACCAAAG
131 ATCAATGCAATTCCCTTTTAAGTGCTACAATTTTTGCTTCCCCTTCAATTAGTGACTTACCAAAG
*
257811 CGTCGAGACTTGCTTGCTTTGCTAACAACCATATAGTCTTTCCTCAAACTTTTAAGATCCTTCTT
196 CGTCGAGACTTGCTTGCTTTGCTAACAACCATATAGTCTTTCCTCAAACTTTTAAGATCCTCCTT
*
257876 AAAGTGGTTTTTCTCTTTGACAACCTAGCTCACCTTGCTATCTCAAAGGTAG
261 AAACTGGTTTTTCTCTTTGACAACCTAGCTCACCTTGCTATCTCAAAGGTAG
*
257928 TCATTCTTAACCTGATTTGCCCTCAAACCATGAATTTGAGCTTCTATCCATCCATTCTTCCTTCG
1 TCATTCTTAACCTGATTTGCCCTCAAACCATGAATTTGAGCTTCTAGCCATCCATTCTTCCTTCG
257993 ATAAGTTGATTCTAGGGCACGAGTTCTAACAAGTTTCTCTCTATTGGCCTTGGTCTTTTCTTTAC
66 ATAAGTTGATTCTAGGGCACGAGTTCTAACAAGTTTCTCTCTATTGGCCTTGGTCTTTTCTTTAC
* * * *
258058 ATCGATGCAATTCCCTTTTAAGTGTTACAATTTCTT-CTTCCCCTTCAATTAGTGGCTTACCAAG
131 ATCAATGCAATTCCCTTTTAAGTGCTACAATTT-TTGCTTCCCCTTCAATTAGTGACTTACCAAA
*
258122 GTGTCGAGACTTGCTTGCTTTGCTAACAACCATATAGTCTTTCCTCAAACTTTTAAGATCCTCCT
195 GCGTCGAGACTTGCTTGCTTTGCTAACAACCATATAGTCTTTCCTCAAACTTTTAAGATCCTCCT
*
258187 TAAACTGGTTTTTCTCTTTGACAACCTAGCTCACCTTGCTATCTTAAAGGTAG
260 TAAACTGGTTTTTCTCTTTGACAACCTAGCTCACCTTGCTATCTCAAAGGTAG
258240 ATTCCATTTC
Statistics
Matches: 300, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
312 298 0.99
313 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (312 bp):
TCATTCTTAACCTGATTTGCCCTCAAACCATGAATTTGAGCTTCTAGCCATCCATTCTTCCTTCG
ATAAGTTGATTCTAGGGCACGAGTTCTAACAAGTTTCTCTCTATTGGCCTTGGTCTTTTCTTTAC
ATCAATGCAATTCCCTTTTAAGTGCTACAATTTTTGCTTCCCCTTCAATTAGTGACTTACCAAAG
CGTCGAGACTTGCTTGCTTTGCTAACAACCATATAGTCTTTCCTCAAACTTTTAAGATCCTCCTT
AAACTGGTTTTTCTCTTTGACAACCTAGCTCACCTTGCTATCTCAAAGGTAG
Found at i:265257 original size:10 final size:9
Alignment explanation
Indices: 265242--265290 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
265232 ACTAGACATC
265242 TCTCTTATTT
1 TCTCTT-TTT
265252 TCTCTTTTT
1 TCTCTTTTT
*
265261 TTTCTTTTT
1 TCTCTTTTT
*
265270 TCTTTTTTT
1 TCTCTTTTT
265279 TCCTCTTCTTT
1 T-CTCTT-TTT
265290 T
1 T
265291 AGTTGAGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 19 0.58
10 10 0.30
11 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (9 bp):
TCTCTTTTT
Found at i:265273 original size:16 final size:16
Alignment explanation
Indices: 265249--265280 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
265239 ATCTCTCTTA
265249 TTTTCTCTTTTTTTTC
1 TTTTCTCTTTTTTTTC
*
265265 TTTTTTCTTTTTTTTC
1 TTTTCTCTTTTTTTTC
265281 CTCTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTCTCTTTTTTTTC
Found at i:269147 original size:79 final size:79
Alignment explanation
Indices: 269015--269419 Score: 433
Period size: 79 Copynumber: 5.1 Consensus size: 79
269005 AAAAGAGGTC
* * * * * *
269015 GGAGT-TCCCCTCAGAAATAATGGGGTTGGGGTAT-CTTCGATGGT-GACAAATCAGTGTTTTGG
1 GGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCT-GATGGTGGA-AAATCAGTGTTTTAG
269077 AAATAAAATCGGGGTT
64 AAATAAAATCGGGGTT
* * * ** * * *
269093 GGAGTATCCCTTCAAAAATAACGAGATTGGAGTATCCCCGATTATGAAAAATCAGTATTTTGGAA
1 GGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGGTGGAAAATCAGTGTTTTAGAA
*
269158 ATAAAATCGAGGTT
66 ATAAAATCGGGGTT
* * ** * *
269172 GGAGTATCCCCTAAAAAATAACGGGGTTTAAGTATCCCTGATTGTGGAAAATC-GATGTTTTTGA
1 GGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGGTGGAAAATCAG-TGTTTTAGA
269236 AATAAAATCGGGGTT
65 AATAAAATCGGGGTT
* * * * * *
269251 CGAGTGTCCCCTCGAAAATAAC-AGGGTTTGAGTATCCTTGATGGTGGAAAATCAGTGTTTAAGA
1 GGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCTGATGGTGGAAAATCAGTGTTTTAGA
*
269315 AATAAAATCGGAGTT
65 AATAAAATCGGGGTT
** * * *
269330 AAAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCTGATGGTGGAACATCAGTGTTTTAGAA
1 GGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGGTGGAAAATCAGTGTTTTAGAA
*
269395 AAAAAATCGGGGTT
66 ATAAAATCGGGGTT
269409 GGAGTATCCCC
1 GGAGTATCCCC
269420 GAGTGTGGAA
Statistics
Matches: 271, Mismatches: 49, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
78 6 0.02
79 261 0.96
80 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
GGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGGTGGAAAATCAGTGTTTTAGAA
ATAAAATCGGGGTT
Found at i:269460 original size:51 final size:51
Alignment explanation
Indices: 269351--269468 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
269341 TCAGAAATAA
* * *
269351 CAAGGTTGGAGTATCCCTGATGGTGGAACATCAGTGTTTTAGAAAAAAAAT
1 CAAGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAAAAAAAC
** * ***
269402 CGGGGTTGGAGTATCCCCGA-GTGTGGAAAATCAGTGTTTTGGAAGTGAAAC
1 CAAGGTTGGAGTATCCCCGATG-GTGGAAAATCAGTGTTTTAGAAAAAAAAC
269453 CAAGGTTGGAGTATCC
1 CAAGGTTGGAGTATCC
269469 ACTCAAAAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 54 0.98
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (51 bp):
CAAGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAAAAAAAC
Found at i:269477 original size:79 final size:77
Alignment explanation
Indices: 269394--269971 Score: 406
Period size: 79 Copynumber: 7.3 Consensus size: 77
269384 GTGTTTTAGA
* * * * **
269394 AAAAAAATCGGGGTTGGAGTATCCCCGAGTGTGGAAAATC-AGTGTTTTGGAAGTGAAACCAAGG
1 AAAAAAA-CGGGGTTGGAGTATCCCCGATTGTGGAAAATCGA-TGTTTTAGAAATAAAACCGGGG
269458 TTGGAGTATCCACTC
64 TTGGAGTATCC-CTC
* * * * * **
269473 AAAAATAACAGTGTTTGAGTATCCTCGATTGTGGAAAATCGATGTTTTGGAAATAAAACTAGGGT
1 AAAAA-AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAACCGGGGT
*
269538 TGGAGTATCCTTTC
65 TGGAGTATCC-CTC
* * * * * * * * * *
269552 GGAAATAACGGGTTTTGAGGATCCCCGATTATGGAAATTTGATGTTTTAGAAATAAAATCGGGAT
1 -AAAAAAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAACCGGGGT
* *
269617 TCGAGTATCCCATA
65 TGGAGTATCCC-TC
* * * * * * * *
269631 AAAAATAACAGGGTTAGAGTATCCCTGATGGTAGAAAATCGATATTTAAGAAATAAAATCGGGGT
1 AAAAA-AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAACCGGGGT
*
269696 TGGAGTATCCCTTTG
65 TGGAGTATCCC--TC
* * * * * * *
269711 GAAATAACGGGGTTGGAGTATCCCTGATGGTGGAAGATCGATGTTTTAGAAATAAAATCGAGGTT
1 AAAAAAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAACCGGGGTT
**
269776 AAAGTATCCACTC
66 GGAGTATCC-CTC
* * * * * * * *
269789 GAAAATAACTGGGTTGGAGTATCCCCAAGTGTGAAAAATC-AGTGCTTTGGAAATAAAACTGGGG
1 -AAAAAAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGA-TGTTTTAGAAATAAAACCGGGG
269853 TTGGAGTATCCTCTC
64 TTGGAGTATCC-CTC
* * * * * * *
269868 AAAAATAACGGGGTTTGAGTATCCTCAATTATGGAAAATC-AGTGTTTTAAAAATAAAATCGAGG
1 AAAAA-AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGA-TGTTTTAGAAATAAAACCGGGG
*
269932 TTGGAGTATGCCTTC
64 TTGGAGTAT-CCCTC
* * *
269947 AGATATAACGGGGTTAGAGTATCCC
1 A-AAAAAACGGGGTTGGAGTATCCC
269972 TTTGGATATA
Statistics
Matches: 394, Mismatches: 93, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
78 9 0.02
79 370 0.94
80 15 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (77 bp):
AAAAAAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAACCGGGGTT
GGAGTATCCCTC
Found at i:269547 original size:209 final size:209
Alignment explanation
Indices: 269184--269627 Score: 468
Period size: 209 Copynumber: 2.1 Consensus size: 209
269174 AGTATCCCCT
** * * * * **
269184 AAAAAATAA-CGGGGTTTAAGTATCCCTGATTGTGGAAAATCGATGTTTTTGAAATAAAATCGGG
1 AAAAAA-AATCGGGGTTCGAGTATCCCCGAGTGTGGAAAATCGATGTTTTGGAAATAAAACCAAG
* * * *
269248 GTTCGAGTGTCCCCTCGAAAATAACAGGGTTTGAGTATCCTTGATGGTGGAAAATCAGTGTTTAA
65 GTTCGAGTATCCACTCAAAAATAACAGGGTTTGAGTATCCTCGATGGTGGAAAATCAGTGTTTAA
* * * *
269313 GAAATAAAATCGGAGTTAAAGTATCCCCTCAGAAATAACAAGG-TTGGAGTATCCCTGATGGTGG
130 GAAATAAAATAGGAGTTAAAGTATCCCCTCAGAAATAAC-AGGTTTGGAGGATCCCCGATGATGG
269377 AACATCAG-TGTTTTAG
194 AA-ATCAGATGTTTTAG
* * *
269393 AAAAAAAATCGGGGTTGGAGTATCCCCGAGTGTGGAAAATC-AGTGTTTTGGAAGTGAAACCAAG
1 AAAAAAAATCGGGGTTCGAGTATCCCCGAGTGTGGAAAATCGA-TGTTTTGGAAATAAAACCAAG
* * * *
269457 GTTGGAGTATCCACTCAAAAATAACAGTGTTTGAGTATCCTCGATTGTGGAAAATC-GATGTTTT
65 GTTCGAGTATCCACTCAAAAATAACAGGGTTTGAGTATCCTCGATGGTGGAAAATCAG-TGTTTA
* ** ** * * * *
269521 GGAAATAAAACTAGG-GTTGGAGTATCCTTTCGGAAATAACGGGTTTTGAGGATCCCCGATTATG
129 AGAAATAAAA-TAGGAGTTAAAGTATCCCCTCAGAAATAACAGGTTTGGAGGATCCCCGATGATG
**
269585 GAAATTTGATGTTTTAG
193 GAAATCAGATGTTTTAG
* *
269602 AAATAAAATCGGGATTCGAGTATCCC
1 AAAAAAAATCGGGGTTCGAGTATCCC
269628 ATAAAAAATA
Statistics
Matches: 193, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
208 9 0.05
209 181 0.94
210 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (209 bp):
AAAAAAAATCGGGGTTCGAGTATCCCCGAGTGTGGAAAATCGATGTTTTGGAAATAAAACCAAGG
TTCGAGTATCCACTCAAAAATAACAGGGTTTGAGTATCCTCGATGGTGGAAAATCAGTGTTTAAG
AAATAAAATAGGAGTTAAAGTATCCCCTCAGAAATAACAGGTTTGGAGGATCCCCGATGATGGAA
ATCAGATGTTTTAG
Found at i:269639 original size:288 final size:288
Alignment explanation
Indices: 269119--269706 Score: 720
Period size: 288 Copynumber: 2.0 Consensus size: 288
269109 AATAACGAGA
* * * *
269119 TTGGAGTATCCCCGATTATGAAAAATCAGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGAGTATGAAAAATCAGTATTTTGGAAATAAAACCAAGGTTGGAGTATCCACT
* * *
269184 AAAAAATAACGGGGTTTAAGTATCCCTGATTGTGGAAAATCGATGTTTTTGAAATAAAATCGGGG
66 AAAAAATAACAGGGTTTAAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAATCAGGG
* * ** *
269249 TTCGAGTGTCCCCTCGAAAATAACAGGGTTTGAGTATCCTTGATGGTGGAAAATCAGTGTTTAAG
131 TTCGAGTATCCCCTCGAAAATAACAGGGTTTGAGGATCCCCGATGATGGAAAATCAGTGTTTAAG
* * * * *
269314 AAATAAAATCGGAGTTAAAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCTGATGGTGGAA
196 AAATAAAATCGGAGTTAAAGTATCCCATAAAAAATAACAAGGTTAGAGTATCCCTGATGGTAGAA
* * *
269379 CATC-AGTGTTTTAGAAAAAAAATCGGGG
261 AATCGA-TATTTAAGAAAAAAAATCGGGG
* * * * *
269407 TTGGAGTATCCCCGAGTGTGGAAAATCAGTGTTTTGGAAGTGAAACCAAGGTTGGAGTATCCACT
1 TTGGAGTATCCCCGAGTATGAAAAATCAGTATTTTGGAAATAAAACCAAGGTTGGAGTATCCACT
* * *
269472 CAAAAATAACAGTGTTTGAGTAT-CCTCGATTGTGGAAAATCGATGTTTTGGAAATAAAA-CTAG
66 AAAAAATAACAGGGTTTAAGTATCCCT-GATTGTGGAAAATCGATGTTTTGGAAATAAAATC-AG
* ** * * **
269535 GGTTGGAGTATCCTTTCGGAAATAAC-GGGTTTTGAGGATCCCCGATTATGG-AAATTTGATGTT
129 GGTTCGAGTATCCCCTCGAAAATAACAGGG-TTTGAGGATCCCCGATGATGGAAAATCAG-TGTT
* ** *
269598 TTAGAAATAAAATCGG-GATTCGAGTATCCCATAAAAAATAACAGGGTTAGAGTATCCCTGATGG
192 TAAGAAATAAAATCGGAG-TTAAAGTATCCCATAAAAAATAACAAGGTTAGAGTATCCCTGATGG
*
269662 TAGAAAATCGATATTTAAGAAATAAAATCGGGG
256 TAGAAAATCGATATTTAAGAAAAAAAATCGGGG
269695 TTGGAGTATCCC
1 TTGGAGTATCCC
269707 TTTGGAAATA
Statistics
Matches: 254, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
287 13 0.05
288 240 0.94
289 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (288 bp):
TTGGAGTATCCCCGAGTATGAAAAATCAGTATTTTGGAAATAAAACCAAGGTTGGAGTATCCACT
AAAAAATAACAGGGTTTAAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAATCAGGG
TTCGAGTATCCCCTCGAAAATAACAGGGTTTGAGGATCCCCGATGATGGAAAATCAGTGTTTAAG
AAATAAAATCGGAGTTAAAGTATCCCATAAAAAATAACAAGGTTAGAGTATCCCTGATGGTAGAA
AATCGATATTTAAGAAAAAAAATCGGGG
Found at i:269702 original size:158 final size:154
Alignment explanation
Indices: 269402--269972 Score: 506
Period size: 158 Copynumber: 3.6 Consensus size: 154
269392 GAAAAAAAAT
* * * * * * * * * * *
269402 CGGGGTTGGAGTATCCCCGAGTGTGGAAAATCAGTGTTTTGGAAGTGAAACCAAGGTTGGAGTAT
1 CGGGGTTTGAGTATCCCCGATTATGGAAATTGA-TGTTTTAGAAATAAAATCGAGGTTAGAGTAT
* * * *
269467 CCACTCAAAAATAACAGTGTTTGAGTAT-CCTCGATTGTGGAAAATCGATGTTTTGGAAATAAAA
65 CCA-TCAAAAATAACAGGGTTAGAGTATCCCT-GATGGT-GAAAATCGAT-ATTTGGAAATAAAA
*
269531 CTAGGGTTGGAGTATCCTTTCGGAAATAA
126 CTGGGGTTGGAGTATCCTTTCGGAAATAA
* * *
269560 CGGGTTTTGAGGATCCCCGATTATGGAAATTTGATGTTTTAGAAATAAAATCG-GGATTCGAGTA
1 CGGGGTTTGAGTATCCCCGATTATGGAAA-TTGATGTTTTAGAAATAAAATCGAGG-TTAGAGTA
* *
269624 TCCCATAAAAAATAACAGGGTTAGAGTATCCCTGATGGTAGAAAATCGATATTTAAGAAATAAAA
64 T-CCATCAAAAATAACAGGGTTAGAGTATCCCTGATGGT-GAAAATCGATATTT-GGAAATAAAA
269689 -TCGGGGTTGGAGTATCCCTTT-GGAAATAA
126 CT-GGGGTTGGAGTAT-CCTTTCGGAAATAA
* * ** * *
269718 CGGGGTTGGAGTATCCCTGATGGTGGAAGATCGATGTTTTAGAAATAAAATCGAGGTTAAAGTAT
1 CGGGGTTTGAGTATCCCCGATTATGGAA-ATTGATGTTTTAGAAATAAAATCGAGGTTAGAGTAT
* * * * * *
269783 CCACTCGAAAATAACTGGGTTGGAGTATCCC-CAAGTGTGAAAAATC-AGTGCTTTGGAAATAAA
65 CCA-TCAAAAATAACAGGGTTAGAGTATCCCTGATG-GTG-AAAATCGA-T-ATTTGGAAATAAA
* **
269846 ACTGGGGTTGGAGTATCCTCTCAAAAATAA
125 ACTGGGGTTGGAGTATCCTTTCGGAAATAA
* * * * * *
269876 CGGGGTTTGAGTATCCTCAATTATGGAAAATCAGTGTTTTAAAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTTGAGTATCCCCGATTATGGAAATTGA-TGTTTTAGAAATAAAATCGAGGTTAGAGTAT
* * * *
269941 GCCTTCAGATATAACGGGGTTAGAGTATCCCT
65 -CCATCAAAAATAACAGGGTTAGAGTATCCCT
269973 TTGGATATAA
Statistics
Matches: 335, Mismatches: 59, Indels: 37
0.78 0.14 0.09
Matches are distributed among these distances:
157 19 0.06
158 294 0.88
159 22 0.07
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (154 bp):
CGGGGTTTGAGTATCCCCGATTATGGAAATTGATGTTTTAGAAATAAAATCGAGGTTAGAGTATC
CATCAAAAATAACAGGGTTAGAGTATCCCTGATGGTGAAAATCGATATTTGGAAATAAAACTGGG
GTTGGAGTATCCTTTCGGAAATAA
Found at i:269717 original size:367 final size:367
Alignment explanation
Indices: 269062--269784 Score: 927
Period size: 367 Copynumber: 2.0 Consensus size: 367
269052 CGATGGTGAC
* **
269062 AAATCAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGAGATTGGAGTA
1 AAATCAGTGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCTTCAAAAATAACGAGATTGGAGTA
*
269127 TCCCCGATTATGAAAAATCAGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTAAAAAATA
66 TCCCCGATTATGAAAAATCAGTATTTTGGAAATAAAATAGAGGTTGGAGTATCCCCTAAAAAATA
* * * * * *
269192 ACGGGGTTTAAGTATCCCTGATTGTGGAAAATCGATGTTTTTGAAATAAAATCGGGGTTCGAGTG
131 ACGGGGTTTAAGGATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTCGAGTA
* ** * * * *
269257 TCCCCTCGAAAATAACAGGGTTTGAGTATCCTTGATGGTGGAAAATCAGTGTTTAAGAAATAAAA
196 TCCCATAAAAAATAACAGGGTTAGAGTATCCCTGATGGTAGAAAATCAGTATTTAAGAAATAAAA
269322 TCGGAGTTAAAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCTGATGGTGGAACATC-AGT
261 TCGGAGTTAAAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCTGATGGTGGAACATCGA-T
* **
269386 GTTTTAGAAAAAAAATCGGGGTTGGAGTATCCCCGAGTGTGGA
325 GTTTTAGAAAAAAAATCGAGGTTAAAGTATCCCCGAGTGTGGA
* * * *
269429 AAATCAGTGTTTTGGAAGTGAAACCAAGGTTGGAGTATCCAC-TCAAAAATAAC-AGTGTTTGAG
1 AAATCAGTGTTTTGGAAATAAAACCAAGGTTGGAGTATCC-CTTCAAAAATAACGAG-ATTGGAG
* * * * ** ***
269492 TATCCTCGATTGTGGAAAATC-GATGTTTTGGAAATAAAACTAG-GGTTGGAGTATCCTTTCGGA
64 TATCCCCGATTATGAAAAATCAG-TATTTTGGAAATAAAA-TAGAGGTTGGAGTATCCCCTAAAA
* * * *
269555 AATAACGGGTTTTGAGGATCCCCGATTATGGAAATTTGATGTTTTAGAAATAAAATCGGGATTCG
127 AATAACGGGGTTTAAGGATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTCG
269620 AGTATCCCATAAAAAATAACAGGGTTAGAGTATCCCTGATGGTAGAAAATC-GATATTTAAGAAA
192 AGTATCCCATAAAAAATAACAGGGTTAGAGTATCCCTGATGGTAGAAAATCAG-TATTTAAGAAA
* ** * ** ** *
269684 TAAAATCGGGGTTGGAGTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCTGATGGTGGAAGAT
256 TAAAATCGGAGTTAAAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCTGATGGTGGAACAT
*
269749 CGATGTTTTAGAAATAAAATCGAGGTTAAAGTATCC
321 CGATGTTTTAGAAAAAAAATCGAGGTTAAAGTATCC
269785 ACTCGAAAAT
Statistics
Matches: 303, Mismatches: 47, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
366 4 0.01
367 295 0.97
368 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (367 bp):
AAATCAGTGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCTTCAAAAATAACGAGATTGGAGTA
TCCCCGATTATGAAAAATCAGTATTTTGGAAATAAAATAGAGGTTGGAGTATCCCCTAAAAAATA
ACGGGGTTTAAGGATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTCGAGTA
TCCCATAAAAAATAACAGGGTTAGAGTATCCCTGATGGTAGAAAATCAGTATTTAAGAAATAAAA
TCGGAGTTAAAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCTGATGGTGGAACATCGATG
TTTTAGAAAAAAAATCGAGGTTAAAGTATCCCCGAGTGTGGA
Found at i:269973 original size:28 final size:28
Alignment explanation
Indices: 269930--270000 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
269920 ATAAAATCGA
*
269930 GGTTGGAGTATGCCTTCAGATATAACGG
1 GGTTGGAGTATCCCTTCAGATATAACGG
* ** *
269958 GGTTAGAGTATCCCTTTGGATATAATGG
1 GGTTGGAGTATCCCTTCAGATATAACGG
269986 GGTTGGAGTATCCCT
1 GGTTGGAGTATCCCT
270001 GATGGTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (28 bp):
GGTTGGAGTATCCCTTCAGATATAACGG
Found at i:269993 original size:265 final size:264
Alignment explanation
Indices: 269690--270236 Score: 765
Period size: 265 Copynumber: 2.1 Consensus size: 264
269680 GAAATAAAAT
*
269690 CGGGGTTGGAGTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCTGATGGTGGAAGATCGATGT
1 CGGGGTTGGAGTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
*
269755 TTTAGAAATAAAATCGAGGTTAAAGTATCCACTCGAAAATAACTGGGTTGGAGTATCCCCAA-GT
66 TTTAGAAATAAAATCGAGGTTAAAGTATCCACTCGAAAATAACAGGGTTGGAGTATCCCCAATG-
* * * * *
269819 GTGAAAAATCAGTGCTTTGGAAATAAAA-CTGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTT
130 GTGAAAAATCAGTGCTTTAGAAATAAAATC-GAGATTGGAGTATCCCCTCAAAAATAACAGGGTT
* * * *
269883 TGAGTATCCTCAATTATGGAAAATCAGTGTTTTAAAAATAAAATCGAGGTTGGAGTATGCCTTCA
194 GGAGTATCC-CAAGTAAGGAAAATCAGTGTTTTAAAAATAAAATCGAGGTTGGAGTATGCCCTCA
*
269948 GATATAA
258 GAAATAA
* * *
269955 CGGGGTTAGAGTATCCCTTTGGATATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
1 CGGGGTTGGAGTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
* ** * **
270020 TTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTGGAGTATCCCTGATGG
66 TTTAGAAATAAAATCGAGGTTAAAGTATCCACTCGAAAATAACAGGGTTGGAGTATCCCCAATGG
* * * * * *
270085 TGAAACATCGGTGTTTTAGAAATAAAATCGAGATTTGAGTATCCCCTCGAAAATAATAGGGTTGG
131 TGAAAAATCAGTGCTTTAGAAATAAAATCGAGATTGGAGTATCCCCTCAAAAATAACAGGGTTGG
* ** *
270150 AGTATCCCAAGTAAGGAAAATTAGTGTTTTGGAAATAAAATCGAGGTTGGAGTATTCCCTCAGAA
196 AGTATCCCAAGTAAGGAAAATCAGTGTTTTAAAAATAAAATCGAGGTTGGAGTATGCCCTCAGAA
270215 ATAA
261 ATAA
*
270219 TGGGGTTGGAGTATCCCT
1 CGGGGTTGGAGTATCCCT
270237 GATTATGAAA
Statistics
Matches: 247, Mismatches: 33, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
264 70 0.28
265 175 0.71
266 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (264 bp):
CGGGGTTGGAGTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
TTTAGAAATAAAATCGAGGTTAAAGTATCCACTCGAAAATAACAGGGTTGGAGTATCCCCAATGG
TGAAAAATCAGTGCTTTAGAAATAAAATCGAGATTGGAGTATCCCCTCAAAAATAACAGGGTTGG
AGTATCCCAAGTAAGGAAAATCAGTGTTTTAAAAATAAAATCGAGGTTGGAGTATGCCCTCAGAA
ATAA
Found at i:270086 original size:79 final size:79
Alignment explanation
Indices: 269955--270613 Score: 599
Period size: 79 Copynumber: 8.4 Consensus size: 79
269945 TCAGATATAA
* * * * **
269955 CGGGGTTAGAGTATCCCTTTGGATATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
1 CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
270020 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* * *
270034 CGGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGT-GAAACATCGGTG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAA-ATCGATG
270098 TTTTAGAAATAAAAT
65 TTTTAGAAATAAAAT
* * * * * *
270113 CGAGATTTGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCC--A-AGTAAGGAAAAT-TAG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGT--GGAAAATCGA-
*
270174 TGTTTTGGAAATAAAAT
63 TGTTTTAGAAATAAAAT
* * * ** **
270191 CGAGGTTGGAGTATTCCCTC-AGAAATAATGGGGTTGGAGTATCCCTGATTAT-GAAAAGTCGAT
1 CGGGGTTAGAGTATCCCCTCGA-AAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAA-TCGAT
* *
270254 GTTTTTGAAATAAAAC
64 GTTTTAGAAATAAAAT
* * * * * * **
270270 CAGGGTTAGAGTATCCCCTTGAAAATAGCGGGGTTGGAGTA-CCTTTGTTTATGGAAAATCGATG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCC-CTGATGGTGGAAAATCGATG
*
270334 TTTTAGAAATTAAAAC
65 TTTTAGAAA-TAAAAT
* * * * * ** *
270350 CAGGGTTAGAGTATCACCTC-AGAAACAACAAGGATGGAGTAT-CCTCGATTATGAAAAATCGAT
1 CGGGGTTAGAGTATCCCCTCGA-AAATAACAGGGTTGGAGTATCCCT-GATGGTGGAAAATCGAT
270413 GTTTTAGAAATAAAA-
64 GTTTTAGAAATAAAAT
* ** * * *
270428 CTGGGTTAGTA-TATTTCCTCGAAAATAACAGGGTTGGAGTATCTCC-AATGGTAGAAAATCGGT
1 CGGGGTTAG-AGTATCCCCTCGAAAATAACAGGGTTGGAGTATC-CCTGATGGTGGAAAATCGAT
270491 GTTTTAGAAATAAAAT
64 GTTTTAGAAATAAAAT
* * * *
270507 TGGGGTTAGAGTATCCCCTC-AGAAATAACAGGGATGGAGTATCCCTGATGGGGGAACATCGATG
1 CGGGGTTAGAGTATCCCCTCGA-AAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATG
270571 TTTTAGAAATAAAAT
65 TTTTAGAAATAAAAT
* * * *
270586 CGAGGTTGGAGTATCCCTTCAAAAATAA
1 CGGGGTTAGAGTATCCCCTCGAAAATAA
270614 TGTGTTAGGA
Statistics
Matches: 480, Mismatches: 73, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
76 2 0.00
77 2 0.00
78 130 0.27
79 270 0.56
80 75 0.16
81 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGT
TTTAGAAATAAAAT
Found at i:270155 original size:186 final size:185
Alignment explanation
Indices: 269799--270157 Score: 433
Period size: 186 Copynumber: 1.9 Consensus size: 185
269789 GAAAATAACT
*
269799 GGGTTGGAGTATCCCCAAGTGTGAAAAATCAGTGCTTTGGAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAAGTGTGAAAAATCAGTGCTTTAGAAATAAAACTGGGGTTGGAGTATCC
* * *
269864 TCTCAAAAATAACGGGGTTTGAGTATCCTCAATTATGGAAAATCAGTGTTTTAAAAATAAAATCG
66 TCTCAAAAATAACAGGGTTGGAGTATCCTC-ATGATGGAAAATCAGTGTTTTAAAAATAAAATCG
* * * * *
269929 AGGTTGGAGTATGCCTTCAGATATAACGGGGTTAGAGTATCCCTTTGGATATAATG
130 AGATTGGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCTTTGGATATAATG
** * *
269985 GGGTTGGAGTATCCCTGA-TGGTGGAAAATC-GATGTTTTAGAAATAAAA-TCGGGGTTGGAGTA
1 GGGTTGGAGTATCCCCAAGT-GTGAAAAATCAG-TGCTTTAGAAATAAAACT-GGGGTTGGAGTA
* * *
270047 TCCTCTCGAAAATAACAGGGTTGGAGTATCC-C-TGATGGTGAAACATCGGTGTTTTAGAAATAA
63 TCCTCTCAAAAATAACAGGGTTGGAGTATCCTCATGAT-G-GAAA-ATCAGTGTTTTAAAAATAA
* * *
270110 AATCGAGATTTGAGTATCCCCTC-GAAAATAATAGGGTTGGAGTATCCC
125 AATCGAGATTGGAGTATCCCCTCAG-AAATAACAGGGTTAGAGTATCCC
270158 AAGTAAGGAA
Statistics
Matches: 147, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
183 3 0.02
184 1 0.01
185 9 0.06
186 134 0.91
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (185 bp):
GGGTTGGAGTATCCCCAAGTGTGAAAAATCAGTGCTTTAGAAATAAAACTGGGGTTGGAGTATCC
TCTCAAAAATAACAGGGTTGGAGTATCCTCATGATGGAAAATCAGTGTTTTAAAAATAAAATCGA
GATTGGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCTTTGGATATAATG
Found at i:270257 original size:157 final size:154
Alignment explanation
Indices: 270017--270613 Score: 564
Period size: 157 Copynumber: 3.8 Consensus size: 154
270007 GGAAAATCGA
* * *
270017 TGTTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTC-GAAAATAACAGGGTTGGAGTATCCCTG
1 TGTTTTAGAAATAAAATCGAGGTTAGAGTATCC-CTCAG-AAATAACAGGGATGGAGTATCCCTG
* * * * *
270081 ATGGTGAAACATCGGTGTTTTAGAAATAAAATCGAGATTTGAGTATCCCCTCGAAAATAATAGGG
64 ATGATGAAA-ATCGATGTTTTAGAAATAAAA-CGAGGTTAGAGTATCCCCTCGAAAATAACAGGG
270146 TTGGAGTATCCCAAGTAAGGAAAATTAG
127 TTGGAGTATCCCAAGTAAGGAAAATTAG
* * ** *
270174 TGTTTTGGAAATAAAATCGAGGTTGGAGTATTCCCTCAGAAATAATGGGGTTGGAGTATCCCTGA
1 TGTTTTAGAAATAAAATCGAGGTTAGAGTA-TCCCTCAGAAATAACAGGGATGGAGTATCCCTGA
* * * * * *
270239 TTATGAAAAGTCGATGTTTTTGAAATAAAACCAGGGTTAGAGTATCCCCTTGAAAATAGCGGGGT
65 TGATGAAAA-TCGATGTTTTAGAAATAAAACGA-GGTTAGAGTATCCCCTCGAAAATAACAGGGT
*** * *
270304 TGGAGTA-CCTTTGTTTATGGAAAA-TCG
128 TGGAGTATCCCAAG--TAAGGAAAATTAG
* * *
270331 ATGTTTTAGAAATTAAAA-CCAGGGTTAGAGTATCACCTCAGAAACAACAAGGATGGAGTAT-CC
1 -TGTTTTAGAAA-TAAAATCGA-GGTTAGAGTATC-CCTCAGAAATAACAGGGATGGAGTATCCC
* **
270394 TCGATTATGAAAAATCGATGTTTTAGAAATAAAACTG-GGTTAGTA-TATTTCCTCGAAAATAAC
62 T-GATGATG-AAAATCGATGTTTTAGAAATAAAAC-GAGGTTAG-AGTATCCCCTCGAAAATAAC
**
270457 AGGGTTGGAGTATCTCCAATGGT-A-GAAAATCGG
123 AGGGTTGGAGTATC-CCAA--GTAAGGAAAATTAG
* *
270490 TGTTTTAGAAATAAAATTGGGGTTAGAGTATCCCCTCAGAAATAACAGGGATGGAGTATCCCTGA
1 TGTTTTAGAAATAAAATCGAGGTTAGAGTAT-CCCTCAGAAATAACAGGGATGGAGTATCCCTGA
** * * * *
270555 TGGGGGAACATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTCAAAAATAA
65 T-GATGAAAATCGATGTTTTAGAAATAAAA-CGAGGTTAGAGTATCCCCTCGAAAATAA
270614 TGTGTTAGGA
Statistics
Matches: 359, Mismatches: 55, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
156 6 0.02
157 181 0.50
158 100 0.28
159 65 0.18
160 6 0.02
162 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (154 bp):
TGTTTTAGAAATAAAATCGAGGTTAGAGTATCCCTCAGAAATAACAGGGATGGAGTATCCCTGAT
GATGAAAATCGATGTTTTAGAAATAAAACGAGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGG
AGTATCCCAAGTAAGGAAAATTAG
Found at i:270571 original size:316 final size:314
Alignment explanation
Indices: 269957--270602 Score: 736
Period size: 316 Copynumber: 2.0 Consensus size: 314
269947 AGATATAACG
* * * * *
269957 GGGTTAGAGTATCCCTTTGGATATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTT
1 GGGTTAGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATGATGGAAAATCGATGTTT
* * * * * * *
270022 TAGAAATAAAATCGGGGTTGGAGTATCCTCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGTG
66 TAGAAATAAAACCAGGGTTAGAGTATCCTCTCGAAAACAACAAGGATGGAGTATCCCTGATGATG
* * * *
270087 AAACATCGGTGTTTTAGAAATAAAATCGAGATTTGAGTATCCCCTCGAAAATAATAGGGTTGGAG
131 AAAAATCGATGTTTTAGAAATAAAATCGAGATTAGAGTATCCCCTCGAAAATAACAGGGTTGGAG
* * * *
270152 TATCCCAAGTAAGGAAAATTAGTGTTTTGGAAATAAAATCGAGGTTGGAGTATTCCCTCAGAAAT
196 TATCCCAAGTAAGGAAAATCAGTGTTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCAGAAAT
** * * * *
270217 AATGGGGTTGGAGTATCCCTGATTATGAAAAGTCGATGTTTTTGAAATAAAACC
261 AACAGGGATGGAGTATCCCTGATGAGGAAAAGTCGATGTTTTAGAAATAAAACC
* * * *
270271 AGGGTTAGAGTATCCCCTTGAAAATAGCGGGGTTGGAGTA-CCTTTGTTTATGGAAAATCGATGT
1 -GGGTTAGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCC-CTGATGATGGAAAATCGATGT
270335 TTTAGAAATTAAAACCAGGGTTAGAGTATCAC-CTC-AGAAACAACAAGGATGGAGTAT-CCTCG
64 TTTAGAAA-TAAAACCAGGGTTAGAGTATC-CTCTCGA-AAACAACAAGGATGGAGTATCCCT-G
* * **
270397 ATTATGAAAAATCGATGTTTTAGAAATAAAA-CTG-GGTTAGTA-TATTTCCTCGAAAATAACAG
125 ATGATGAAAAATCGATGTTTTAGAAATAAAATC-GAGATTAG-AGTATCCCCTCGAAAATAACAG
* * *
270459 GGTTGGAGTATCTCCAATGGT-A-GAAAATCGGTGTTTTAGAAATAAAATTGGGGTTAGAGTATC
188 GGTTGGAGTATC-CCAA--GTAAGGAAAATCAGTGTTTTAGAAATAAAATCGAGGTTAGAGTATC
* * *
270522 CCCTCAGAAATAACAGGGATGGAGTATCCCTGATGGGGGAACA-TCGATGTTTTAGAAATAAAAT
250 CCCTCAGAAATAACAGGGATGGAGTATCCCTGAT-GAGGAAAAGTCGATGTTTTAGAAATAAAAC
270586 C
314 C
*
270587 GAGGTTGGAGTATCCC
1 G-GGTTAGAGTATCCC
270603 TTCAAAAATA
Statistics
Matches: 278, Mismatches: 41, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
314 2 0.01
315 98 0.35
316 170 0.61
317 6 0.02
318 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (314 bp):
GGGTTAGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATGATGGAAAATCGATGTTT
TAGAAATAAAACCAGGGTTAGAGTATCCTCTCGAAAACAACAAGGATGGAGTATCCCTGATGATG
AAAAATCGATGTTTTAGAAATAAAATCGAGATTAGAGTATCCCCTCGAAAATAACAGGGTTGGAG
TATCCCAAGTAAGGAAAATCAGTGTTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCAGAAAT
AACAGGGATGGAGTATCCCTGATGAGGAAAAGTCGATGTTTTAGAAATAAAACC
Found at i:270949 original size:13 final size:13
Alignment explanation
Indices: 270931--270955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
270921 ATAATGCACA
270931 GTATCGATACATT
1 GTATCGATACATT
270944 GTATCGATACAT
1 GTATCGATACAT
270956 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:270952 original size:33 final size:32
Alignment explanation
Indices: 270910--270972 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
270900 CACCTTCAGA
*
270910 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
270943 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
270973 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:271085 original size:33 final size:32
Alignment explanation
Indices: 271024--271091 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
271014 CCTTAACTGT
*
271024 TTGTATCGATACATAGAAGATGTATTGATACA
1 TTGTATCGATACATAGAAAATGTATTGATACA
271056 TTGTATCGATACAT-GACCAAATGTATTGATACA
1 TTGTATCGATACATAGA--AAATGTATTGATACA
271089 TTG
1 TTG
271092 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 2 0.06
32 14 0.42
33 17 0.52
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATAGAAAATGTATTGATACA
Found at i:279714 original size:13 final size:13
Alignment explanation
Indices: 279696--279720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
279686 ATAATGCACA
279696 GTATCGATACATT
1 GTATCGATACATT
279709 GTATCGATACAT
1 GTATCGATACAT
279721 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:279717 original size:33 final size:32
Alignment explanation
Indices: 279675--279737 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
279665 AATCCTCAAA
*
279675 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
279708 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
279738 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:279826 original size:13 final size:13
Alignment explanation
Indices: 279808--279833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
279798 ACATACAAGA
279808 TGTATCGATACAT
1 TGTATCGATACAT
279821 TGTATCGATACAT
1 TGTATCGATACAT
279834 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:279849 original size:33 final size:32
Alignment explanation
Indices: 279788--279855 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
279778 CCTTAACTGT
279788 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
279820 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
279853 TTG
1 TTG
279856 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:280741 original size:79 final size:77
Alignment explanation
Indices: 280625--281042 Score: 333
Period size: 79 Copynumber: 5.3 Consensus size: 77
280615 CCGATTATGG
* * * * * *
280625 AAAATCGGTGTTTTGGAAATAAAACCGAGGTTGGAGTATACCCTCAAAAATAACAGGGTTAGAGT
1 AAAATCGATGTTTTAGAAATAAAATCGGGGTT-GAGTAT-CCCTCGAAAATAACAGGGTTGGAGT
* *
280690 ATCCCCGATTGTGA
64 ATCCCCAATGGTGA
* *
280704 AAAATCGATGTTTTAGAAATAAAATTGGGGTTAGAGTATCCCTTCGAAAATAACAGGGTTGAAGT
1 AAAATCGATGTTTTAGAAATAAAATCGGGGTT-GAGTATCCC-TCGAAAATAACAGGGTTGGAGT
* **
280769 ATCCTCGCTGGTGA
64 ATCCCCAATGGTGA
* * * * * *
280783 AAAATTGGTGTTTTAGAAATAAAATAGGGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGTGT
1 AAAATCGATGTTTTAGAAATAAAATCGGGGTTG-AGTAT-CCCTCGAAAATAACAGGGTTGGAGT
* * *
280848 ATTCCTAATGGTGG
64 ATCCCCAATGGTGA
* * * * * * *
280862 AACATCGGTGTTTTAAAAATAAAA-CTGGGTTGAAGTATCTCATCAAAAATAA-TGGGATTGGAG
1 AAAATCGATGTTTTAGAAATAAAATCGGGGTTG-AGTATC-CCTCGAAAATAACAGGG-TTGGAG
*
280925 TATCCCCAATTGT-A
63 TATCCCCAATGGTGA
* * * * *
280939 GAAAATCAATGTTTT-GAAAAGAAAATCGAGGTTAGAGTATCCTTTCGAAAATAA-TGGAGTTGG
1 -AAAATCGATGTTTTAG-AAATAAAATCGGGGTT-GAGTATCC-CTCGAAAATAACAGG-GTTGG
*
281002 AGTATCCCCAATGGTGG
61 AGTATCCCCAATGGTGA
* *
281019 AAAATCAATATTTTAGAAATAAAA
1 AAAATCGATGTTTTAGAAATAAAA
281043 ACATCAATGA
Statistics
Matches: 274, Mismatches: 52, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
77 4 0.01
78 59 0.22
79 205 0.75
80 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (77 bp):
AAAATCGATGTTTTAGAAATAAAATCGGGGTTGAGTATCCCTCGAAAATAACAGGGTTGGAGTAT
CCCCAATGGTGA
Found at i:280943 original size:158 final size:158
Alignment explanation
Indices: 280595--281042 Score: 356
Period size: 157 Copynumber: 2.8 Consensus size: 158
280585 TTGAGCTTTC
* * * * * * *
280595 ATAATGGGATTAGAGTATCTCCGATTATGGAAAATCGGTGTTTTGGAAATAAAACCGAGGTTGGA
1 ATAATGGGATTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAACAGAGGTTGAA
* * *
280660 GTATACCCTCAAAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATA
66 GTATACCCTCAAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTAAAAATA
* * *
280725 AAATTGGGGTTAGAGTATCCCTTCGAAA
131 AAACTGGGGTTAGAGTATCCCATCAAAA
* * * * * * * *
280753 ATAACAGGG-TTGAAGTATCCTCGCTGGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGA
1 ATAA-TGGGATTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAACAGAGGTTGA
* ** * * * * * * * *
280817 AGTATCCCCTCGGAAATAACGGGGTTGGTGTATTCCTAATGGTGGAACATCGGTGTTTTAAAAAT
65 AGTATACCCTCAAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTAAAAAT
*
280882 AAAACT-GGGTT-GAAGTATCTCATCAAAA
130 AAAACTGGGGTTAG-AGTATCCCATCAAAA
* ** *
280910 ATAATGGGATTGGAGTATCCCCAATTGT-AGAAAATCAATGTTTT-GAAAAGAAAATC-GAGGTT
1 ATAATGGGATTGGAGTATCCCCGATTGTGA-AAAATCGGTGTTTTAG-AAATAAAA-CAGAGGTT
* * * * * * *
280972 -AGAGTAT-CCTTTCGAAAATAA-TGGAGTTGGAGTATCCCCAATGGTGGAAAATCAATATTTTA
63 GA-AGTATACC-CTCAAAAATAACAGG-GTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTA
*
281034 GAAATAAAA
125 AAAATAAAA
281043 ACATCAATGA
Statistics
Matches: 225, Mismatches: 56, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
156 11 0.05
157 110 0.49
158 101 0.45
159 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (158 bp):
ATAATGGGATTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAACAGAGGTTGAA
GTATACCCTCAAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTAAAAATA
AAACTGGGGTTAGAGTATCCCATCAAAA
Found at i:283521 original size:33 final size:34
Alignment explanation
Indices: 283484--283547 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
283474 AGGGTAGTTT
*
283484 TGTATTGATACATTTA-TGCATGTATCGATAGAA
1 TGTATCGATACATTTACTGCATGTATCGATAGAA
**
283517 TGTATCGATACATTTACTGTGTGTATCGATA
1 TGTATCGATACATTTACTGCATGTATCGATA
283548 TAAATTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (34 bp):
TGTATCGATACATTTACTGCATGTATCGATAGAA
Found at i:284418 original size:42 final size:42
Alignment explanation
Indices: 284359--284555 Score: 129
Period size: 43 Copynumber: 4.7 Consensus size: 42
284349 AAAAGAGTAC
* * * * **
284359 GTCCTACT-CTTCAAGGACAATGGAAAAAGGAGAATGAAATGG
1 GTCCTACTCCTT-GAGGACAAAGGAAAAAGGAAAAAGAAAAAG
* * *
284401 GTCCTACTCCTTGAGGACAAAAGAAAAAATGAAAAAGAAAAAT
1 GTCCTACTCCTTGAGGAC-AAAGGAAAAAGGAAAAAGAAAAAG
*
284444 GTCCTACTCCTTGAGGACAAAGGAAAAA--AAAAACG-GAAAG
1 GTCCTACTCCTTGAGGACAAAGGAAAAAGGAAAAA-GAAAAAG
* * * * *
284484 TGTCCTACTCCTTCAGGATAAAAGAAAAAAAAGAAAAAG-GAAAG
1 -GTCCTACTCCTTGAGGA-CAAAG-GAAAAAGGAAAAAGAAAAAG
* *
284528 TGT-CTGCT-CTTGAGGACAAAGGGAAAAG
1 -GTCCTACTCCTTGAGGACAAAGGAAAAAG
284556 AAGTACGCCC
Statistics
Matches: 126, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
40 12 0.10
41 21 0.17
42 33 0.26
43 46 0.37
44 9 0.07
45 5 0.04
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (42 bp):
GTCCTACTCCTTGAGGACAAAGGAAAAAGGAAAAAGAAAAAG
Found at i:284429 original size:77 final size:77
Alignment explanation
Indices: 284283--284429 Score: 222
Period size: 77 Copynumber: 1.9 Consensus size: 77
284273 AAAGGATGCA
* ** * *
284283 TCCTACTCTTCGAGAACAACGAAAAAAGGAGAATGAAATGGGTTTTACTCCTTGAGGACAAAGGG
1 TCCTACTCTTCAAGAACAACGAAAAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACAAAAGA
284348 AAAAAGAGTACG
66 AAAAAGAGTACG
* * *
284360 TCCTACTCTTCAAGGACAATGGAAAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACAAAAGA
1 TCCTACTCTTCAAGAACAACGAAAAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACAAAAGA
284425 AAAAA
66 AAAAA
284430 TGAAAAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.19
Consensus pattern (77 bp):
TCCTACTCTTCAAGAACAACGAAAAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACAAAAGA
AAAAAGAGTACG
Found at i:284507 original size:84 final size:83
Alignment explanation
Indices: 284401--284554 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 83
284391 AATGAAATGG
* *
284401 GTCCTACTCCTTGAGGACAAAAG-AAAAAATGAAAAAGAAAAATGTCCTACTCCTTGAGGACAAA
1 GTCCTACTCCTTCAGGACAAAAGAAAAAAAAGAAAAAGAAAAATGT-CTACT-CTTGAGGACAAA
284465 GGAAAAAAAAAACGGAAAGT
64 GGAAAAAAAAAACGGAAAGT
* * * *
284485 GTCCTACTCCTTCAGGATAAAAGAAAAAAAAGAAAAAGGAAAGTGTCTGCTCTTGAGGACAAAGG
1 GTCCTACTCCTTCAGGACAAAAGAAAAAAAAGAAAAAGAAAAATGTCTACTCTTGAGGACAAAGG
*
284550 GAAAA
66 AAAAA
284555 GAAGTACGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 18 0.29
84 25 0.40
85 19 0.31
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (83 bp):
GTCCTACTCCTTCAGGACAAAAGAAAAAAAAGAAAAAGAAAAATGTCTACTCTTGAGGACAAAGG
AAAAAAAAAACGGAAAGT
Found at i:284511 original size:41 final size:41
Alignment explanation
Indices: 284401--284515 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
284391 AATGAAATGG
284401 GTCCTACTCCTTGAGGACAAAAGAAAAAATGAAAAAGAAAAAT
1 GTCCTACTCCTTGAGGACAAAAGAAAAAA--AAAAAGAAAAAT
* * * *
284444 GTCCTACTCCTTGAGGACAAAGGAAAAAAAAAACGGAAAGT
1 GTCCTACTCCTTGAGGACAAAAGAAAAAAAAAAAGAAAAAT
* *
284485 GTCCTACTCCTTCAGGATAAAAGAAAAAAAA
1 GTCCTACTCCTTGAGGACAAAAGAAAAAAAA
284516 GAAAAAGGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 37 0.57
43 28 0.43
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (41 bp):
GTCCTACTCCTTGAGGACAAAAGAAAAAAAAAAAGAAAAAT
Found at i:284554 original size:43 final size:43
Alignment explanation
Indices: 284401--284547 Score: 185
Period size: 43 Copynumber: 3.5 Consensus size: 43
284391 AATGAAATGG
* * *
284401 GTCCTACTCCTTGAGGACAAAAGAAAAAATGAAAAAGAAAAAT
1 GTCCTACTCCTTGAGGACAAAAGAAAAAAAGAAAAAGGAAAGT
* *
284444 GTCCTACTCCTTGAGGAC-AAAGGAAAAAA-AAAACGGAAAGT
1 GTCCTACTCCTTGAGGACAAAAGAAAAAAAGAAAAAGGAAAGT
* *
284485 GTCCTACTCCTTCAGGATAAAAGAAAAAAAAGAAAAAGGAAAGT
1 GTCCTACTCCTTGAGGACAAAAG-AAAAAAAGAAAAAGGAAAGT
*
284529 GT-CTGCT-CTTGAGGACAAA
1 GTCCTACTCCTTGAGGACAAA
284548 GGGAAAAGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
41 25 0.28
42 23 0.26
43 28 0.31
44 13 0.15
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.17
Consensus pattern (43 bp):
GTCCTACTCCTTGAGGACAAAAGAAAAAAAGAAAAAGGAAAGT
Found at i:284614 original size:42 final size:42
Alignment explanation
Indices: 284576--284768 Score: 212
Period size: 42 Copynumber: 4.5 Consensus size: 42
284566 TACTCTTCGG
284576 GGACAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGA
1 GGACAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGA
*
284618 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTCGA
1 GGACAAA-GGAAAA-AAGGAAATGAAGTGCATCCTGCTCTTT-GA
* * * *
284663 GGATAGAA-GAGAAAAA-GAAATAAAATGCATCCTGCTTTTTGA
1 GGACA-AAGGA-AAAAAGGAAATGAAGTGCATCCTGCTCTTTGA
* * ** *
284705 GGACAAAGGAGAAAAGGAAATAAAGTGTGTCATGCTCTTTGA
1 GGACAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGA
*
284747 GGACAAGGGAGAAAAA-GAAATG
1 GGACAAAGGA-AAAAAGGAAATG
284769 CATCCTACCC
Statistics
Matches: 127, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
41 6 0.05
42 50 0.39
43 30 0.24
44 30 0.24
45 9 0.07
46 2 0.02
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (42 bp):
GGACAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGA
Found at i:284853 original size:62 final size:61
Alignment explanation
Indices: 284768--285584 Score: 798
Period size: 62 Copynumber: 13.4 Consensus size: 61
284758 AAAAAGAAAT
* * ** *
284768 GCATCCTACCCTTTGAGGACTAAAGGGCACCAGCAACTCGTGTGGGCTTTAAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
** * * *
284830 GTGTCCTGCTCTTTAAGGACTAAAGGGTGCCACTAACTCGTGTAGGCTTTAAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
* * *
284892 G--TGCCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGCGGGTTTTGAAAAGAAAAAG
1 GCAT-CC-TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
* * * *
284954 GCATCATTCTCTTTGAGGACTAAGGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
* * ** * *
285016 ACGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTATGTAGGCTTTAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
*** * * * * * * * * *
285077 ATGTCCTACTCTTTGAGGATTAAAAGATACCACCAACTTGTGTGGCCTTTGAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
** * **
285138 GTGTCCTGCTCTTTGAGGACAAAAGAATGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
*
285200 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA-T--T-T--G----AAAAGAAAAAT
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
** * * * *
285251 GTGTCCTGCTCTTTGAGGACTAGAGGATGCCAGCAACTTGTGTGGGCTTTGAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
* ** * *
285313 GCATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGGGTGGGCTTTAAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
* *
285375 GCATCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* * * * *
285436 ACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* * * * * * * * * *
285497 TCCTCCTGCTCTTTAAGGGCAAAAAGATGTCACCAACGCGTGTGGGCGTTGAAAAGAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGC-TTTAAAAGAAAAAG
*
285559 GCATCCTACTCTTTGAGGACTAAAGG
1 GCATCCTGCTCTTTGAGGACTAAAGG
285585 TTTAAAAGGG
Statistics
Matches: 633, Mismatches: 101, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
51 41 0.06
52 1 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 5 0.01
61 207 0.33
62 368 0.58
63 4 0.01
64 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
Found at i:285244 original size:51 final size:51
Alignment explanation
Indices: 285185--285282 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
285175 TCGTGTGGGC
*
285185 TTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
1 TTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGATGCCACCAA
* ** *
285236 TTTGAAAAGAAAAATGTGTCCTGCTCTTTGAGGACTAGAGGATGCCA
1 TTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGATGCCA
285283 GCAACTTGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (51 bp):
TTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGATGCCACCAA
Found at i:285336 original size:113 final size:114
Alignment explanation
Indices: 285124--285582 Score: 426
Period size: 113 Copynumber: 3.9 Consensus size: 114
285114 TTGTGTGGCC
* * * * *
285124 TTTG-AAAGGAAAAGGTGTCCTGCTCTTTGAGGACAAAAGAATGCCACCAACTCGTGTGGGCTTT
1 TTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAGGATGCCACCAACTTGTGTGGGCTTT
*
285188 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA-
66 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAAG
* *
285236 TTTGAAAAGAAAAATGTGTCCTGCTCTTTGAGGACTAGAGGATGCCAGCAACTTGTGTGGGCTTT
1 TTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAGGATGCCACCAACTTGTGTGGGCTTT
* * *
285301 GAAAAGAAAAAGGCATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGGGTGGG
66 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA---------G
* **
285359 CTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAGAAGG-TGCCACCAACTTGTGTGGGCT
1 -TTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAG-AGGATGCCACCAACTTGTGTGGGCT
* *
285423 TT-AAAAGGAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG
64 TTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA---------G
* * * * * * * * ** *
285482 CTTTG-AAAGGAAAA-GTCCTCCTGCTCTTTAAGGGCAAAAAGATGTCACCAACGCGTGTGGGCG
1 -TTTGAAAAGAAAAAGGT-GTCCTGCTCTTTGAGGACTAGAGGATGCCACCAACTTGTGTGGGCT
*
285545 TTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAA
64 TTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
285583 GGTTTAAAAG
Statistics
Matches: 292, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
112 4 0.01
113 97 0.33
121 3 0.01
122 43 0.15
123 86 0.29
124 56 0.19
125 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (114 bp):
TTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAGGATGCCACCAACTTGTGTGGGCTTT
GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAAG
Found at i:285450 original size:359 final size:364
Alignment explanation
Indices: 284801--285584 Score: 1062
Period size: 359 Copynumber: 2.2 Consensus size: 364
284791 AGGGCACCAG
* ** * *
284801 CAACTCGTGTGGGCTTTAAAAAGAAAAAGGTGTCCTGCTCTTTAAGGACTAAAGGGTGCCACTAA
1 CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
*
284866 CTCGTGTAGGCTTTAAAAAGAAAAAGGTGCCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTC
66 CTC-TGTA-G---T-AAAAGAAAAAGGTGCCATGCTCTTTGAGGACTAAAGGATGCCACCAACTC
* * * *** *
284931 ATGCGGGTTTTGAAAAGAAAAAGGCATCATTCTCTTTGAGGACTAAGGGGTGCCACCAACTCATG
125 ATGCGGGCTTTGAAAAGAAAAAGGCATCATGCTCTTCGAGGACTAAAAAGTGCCACCAACTCAGG
* *
284996 TGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTAG
190 TGGGCTTTAAAAAGAAAAAGACATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTAG
** *
285061 GCTTTAAAAGGAAAAGATGTCCTACTCTTTGAGGATTAAAAGATACCACCAACTTGTGTGGCCTT
255 GCTTTAAAAGGAAAAGACATCCTACTCTTTGAGGACTAAAAGATACCACCAACTTGTGTGGCCTT
* *
285126 TGAAAGGAAAAGGT-GTCCTGCTCTTTGAGGAC-AAAAGAATGCCAC
320 TGAAAGGAAAA-GTCCTCCTGCTCTTTAAGGACAAAAAG-ATGCCAC
285171 CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
1 CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
* * * ** *
285236 -T-T-T-G-AAAAGAAAAATGTGTCC-TGCTCTTTGAGGACTAGAGGATGCCAGCAACTTGTGTG
66 CTCTGTAGTAAAAGAAAAAGGTG-CCATGCTCTTTGAGGACTAAAGGATGCCACCAACTCATGCG
* * *
285295 GGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGGGTGGGC
130 GGCTTTGAAAAGAAAAAGGCATCATGCTCTTCGAGGACTAAAAAGTGCCACCAACTCAGGTGGGC
* * *
285360 TTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
195 TTTAAAAAGAAAAAGACATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTAGGCTTT
* * * *
285425 AAAAGGAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
260 AAAAGGAAAAGACATCCTACTCTTTGAGGACTAAAAGATACCACCAACTTGTGTGGCCTTTGAAA
* *
285490 GGAAAAGTCCTCCTGCTCTTTAAGGGCAAAAAGATGTCAC
325 GGAAAAGTCCTCCTGCTCTTTAAGGACAAAAAGATGCCAC
* * *
285530 CAACGCGTGTGGGCGTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAGG
1 CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGG
285585 TTTAAAAGGG
Statistics
Matches: 370, Mismatches: 41, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
358 2 0.01
359 297 0.80
360 7 0.02
364 1 0.00
366 1 0.00
367 1 0.00
369 1 0.00
370 60 0.16
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (364 bp):
CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
CTCTGTAGTAAAAGAAAAAGGTGCCATGCTCTTTGAGGACTAAAGGATGCCACCAACTCATGCGG
GCTTTGAAAAGAAAAAGGCATCATGCTCTTCGAGGACTAAAAAGTGCCACCAACTCAGGTGGGCT
TTAAAAAGAAAAAGACATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTAGGCTTTA
AAAGGAAAAGACATCCTACTCTTTGAGGACTAAAAGATACCACCAACTTGTGTGGCCTTTGAAAG
GAAAAGTCCTCCTGCTCTTTAAGGACAAAAAGATGCCAC
Found at i:285552 original size:123 final size:123
Alignment explanation
Indices: 285240--285582 Score: 382
Period size: 123 Copynumber: 2.8 Consensus size: 123
285230 CACCAATTTG
* ** * * * * * **
285240 AAAAGAAAAATGTGTCCTGCTCTTTGAGGACTAGAGGATGCCAGCAACTTGTGTGGGCTTTGAAA
1 AAAAGAAAAAGGCATCCTGCTCTTTAAGGACAAAAAGATGCCACCAACGCGTGTGGGC-TTGAAA
* *
285305 AGAAAAAGGCATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGGGTGGGCTTTA
65 AGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGGGTGGGCTTTA
* * * * ** *
285364 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGAAAAAGGCATCCTGCTCTTTAAGGACAAAAAGATGCCACCAACGCGTGTGGGCTTGAAAA
* * * * *
285429 GGAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-
66 GAAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGGGTGGGCTTTA
* * * * * *
285486 GAAAGGAAAAGTCCTCCTGCTCTTTAAGGGCAAAAAGATGTCACCAACGCGTGTGGGCGTTGAAA
1 AAAAGAAAAAGGCATCCTGCTCTTTAAGGACAAAAAGATGCCACCAACGCGTGTGGGC-TTGAAA
*
285551 AGAAAAAGGCATCCTACTCTTTGAGGACTAAA
65 AGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
285583 GGTTTAAAAG
Statistics
Matches: 188, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
122 46 0.24
123 90 0.48
124 52 0.28
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (123 bp):
AAAAGAAAAAGGCATCCTGCTCTTTAAGGACAAAAAGATGCCACCAACGCGTGTGGGCTTGAAAA
GAAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGGGTGGGCTTTA
Found at i:287832 original size:14 final size:15
Alignment explanation
Indices: 287805--287865 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
287795 CTTAAGCAGG
*
287805 TTCTTTTCTTTTCTT
1 TTCTTTTATTTTCTT
*
287820 TTCTTTTTTTTCTCTT
1 TTCTTTTATTT-TCTT
* *
287836 TTTTTTTA-TTTATT
1 TTCTTTTATTTTCTT
*
287850 TTATTTTATTTT-TT
1 TTCTTTTATTTTCTT
287864 TT
1 TT
287866 AGAAAAAGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 14 0.36
15 15 0.38
16 10 0.26
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.84
Consensus pattern (15 bp):
TTCTTTTATTTTCTT
Found at i:287835 original size:11 final size:10
Alignment explanation
Indices: 287808--287864 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
287798 AAGCAGGTTC
*
287808 TTTTCTTTTC
1 TTTTCTTTTT
287818 TTTTCTTTTT
1 TTTTCTTTTT
287828 TTTCTCTTTTT
1 TTT-TCTTTTT
*
287839 TTTTATTTATT
1 TTTTCTTT-TT
287850 TTATT-TTATTT
1 TT-TTCTT-TTT
287861 TTTT
1 TTTT
287865 TAGAAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 18 0.44
11 20 0.49
12 3 0.07
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:287837 original size:21 final size:21
Alignment explanation
Indices: 287811--287851 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
287801 CAGGTTCTTT
* *
287811 TCTTTTCTTTTCTTTTTTTTC
1 TCTTTTCTTTTATTTATTTTC
*
287832 TCTTTTTTTTTATTTATTTT
1 TCTTTTCTTTTATTTATTTT
287852 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (21 bp):
TCTTTTCTTTTATTTATTTTC
Found at i:287866 original size:14 final size:14
Alignment explanation
Indices: 287834--287866 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
287824 TTTTTTTCTC
287834 TTTTT-TTTTATTT
1 TTTTTATTTTATTT
*
287847 ATTTTATTTTATTT
1 TTTTTATTTTATTT
287861 TTTTTA
1 TTTTTA
287867 GAAAAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:297977 original size:4 final size:4
Alignment explanation
Indices: 297968--298019 Score: 77
Period size: 4 Copynumber: 13.0 Consensus size: 4
297958 AAACAAAACA
* * *
297968 AAAT AAAT AAAT AAAT AAAT GAAT AAAT GAAT AAAT GAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
298016 AAAT
1 AAAT
298020 TGAAAGCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:297992 original size:16 final size:16
Alignment explanation
Indices: 297968--298019 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
297958 AAACAAAACA
*
297968 AAATAAATAAATAAAT
1 AAATGAATAAATAAAT
*
297984 AAATGAATAAATGAAT
1 AAATGAATAAATAAAT
298000 AAATGAATAAATAAAT
1 AAATGAATAAATAAAT
298016 AAAT
1 AAAT
298020 TGAAAGCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
AAATGAATAAATAAAT
Found at i:298801 original size:13 final size:13
Alignment explanation
Indices: 298783--298808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
298773 AATTTTTTTG
298783 TGTATCGATACAT
1 TGTATCGATACAT
298796 TGTATCGATACAT
1 TGTATCGATACAT
298809 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:298824 original size:33 final size:34
Alignment explanation
Indices: 298762--298827 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
298752 TACAAGCCAA
** *
298762 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGGTGTATCGATACAT
298796 TGTATCGATAC-ATACTTTGGTGTATCGATACA
1 TGTATCGATACAATACTTTGGTGTATCGATACA
298828 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTGTATCGATACAT
Found at i:303470 original size:15 final size:15
Alignment explanation
Indices: 303450--303480 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
303440 ATTTCGTTTG
*
303450 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
303465 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
303480 G
1 G
303481 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:306990 original size:13 final size:13
Alignment explanation
Indices: 306972--306997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306962 AATTTTTTTG
306972 TGTATCGATACAT
1 TGTATCGATACAT
306985 TGTATCGATACAT
1 TGTATCGATACAT
306998 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:307013 original size:33 final size:34
Alignment explanation
Indices: 306951--307016 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
306941 TACAAGCCAA
** *
306951 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGGTGTATCGATACAT
306985 TGTATCGATAC-ATACTTTGGTGTATCGATACA
1 TGTATCGATACAATACTTTGGTGTATCGATACA
307017 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTGTATCGATACAT
Found at i:309433 original size:79 final size:78
Alignment explanation
Indices: 309345--309511 Score: 174
Period size: 78 Copynumber: 2.1 Consensus size: 78
309335 CGGGGTACGC
* * * * *
309345 GGTTCGAGTACATCTCCTGATGAAAAATTTAATATTTTGGAGATAAAAATG-GAGTTGGAGTATC
1 GGTTGGAGTACACCTCATGATGAAAAA-GTAATATTTTGGAAATAAAAATGAG-GTTGGAGTATC
309409 CCCTCAAAATAACAG
64 CCCTCAAAATAACAG
* * * * *
309424 GGTTGGAGTATACCTGATGGTGAAAAAGTAATGTTTTGGAAATAAAACTGAGGTTGGAGTATCCC
1 GGTTGGAGTACACCTCATGATGAAAAAGTAATATTTTGGAAATAAAAATGAGGTTGGAGTATCCC
* ** **
309489 TTGGAAATAATGG
66 CTCAAAATAACAG
309502 GGTTGGAGTA
1 GGTTGGAGTA
309512 TCCCTAATTG
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
78 50 0.69
79 22 0.31
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (78 bp):
GGTTGGAGTACACCTCATGATGAAAAAGTAATATTTTGGAAATAAAAATGAGGTTGGAGTATCCC
CTCAAAATAACAG
Found at i:309461 original size:78 final size:79
Alignment explanation
Indices: 309365--309512 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 79
309355 CATCTCCTGA
* *
309365 TGAAAAATTTAATATTTTGGAGATAAAAATG-GAGTTGGAGTATCCCCTCAAAATAACAGGGTTG
1 TGAAAAATGTAATATTTTGGAAATAAAAATGAG-GTTGGAGTATCCCCTCAAAATAACAGGGTTG
309429 GAGTATACCTGATGG
65 GAGTATACCTGATGG
* * * ** **
309444 TGAAAAA-GTAATGTTTTGGAAATAAAACTGAGGTTGGAGTATCCCTTGGAAATAATGGGGTTGG
1 TGAAAAATGTAATATTTTGGAAATAAAAATGAGGTTGGAGTATCCCCTCAAAATAACAGGGTTGG
309508 AGTAT
66 AGTAT
309513 CCCTAATTGT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
78 51 0.86
79 8 0.14
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (79 bp):
TGAAAAATGTAATATTTTGGAAATAAAAATGAGGTTGGAGTATCCCCTCAAAATAACAGGGTTGG
AGTATACCTGATGG
Found at i:311935 original size:50 final size:50
Alignment explanation
Indices: 311822--311916 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
311812 AAAATGCCTG
* *
311822 AATGTATCGATACATTTGGGAAAAACCCAGAATGTATCGATACAATAAAA
1 AATGTATCGATACATTTAGGAAAAACCCAGAATGTATCAATACAATAAAA
* *
311872 AATGTATCGATACATTTAGGTAAAACCTAGAATGTATCAATACAA
1 AATGTATCGATACATTTAGGAAAAACCCAGAATGTATCAATACAA
311917 AGAAGGATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (50 bp):
AATGTATCGATACATTTAGGAAAAACCCAGAATGTATCAATACAATAAAA
Done.