Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009388.1 Hibiscus syriacus cultivar Beakdansim tig00113282_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 266421
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:8416 original size:128 final size:127
Alignment explanation
Indices: 8188--8443 Score: 451
Period size: 128 Copynumber: 2.0 Consensus size: 127
8178 GAAGATATCA
* *
8188 AAGCTATGACGGATATATTTTCCACGATGTCAATGGTCTCAAATCATATGGAGAGATCATTTCAA
1 AAGCTATGACGGATAAATTTTCCACGATGTCAATGGTCTCAAATCATATGGAGAGATCATTCCAA
*
8253 ACGAGAAGCTTGTGAGGAAGTTAGTTTACTTTCTTCCAAAATCTTGGCAATCAAAGAAGACG
66 ACGAGAAGCTTGTGAGGAAGTTAATTTACTTTCTTCCAAAATCTTGGCAATCAAAGAAGACG
8315 AAGCTATGACGGATAAATTTTCCACGATTGTCAATGGTCTCAAATCATATGGAGAGATCATTCCA
1 AAGCTATGACGGATAAATTTTCCACGA-TGTCAATGGTCTCAAATCATATGGAGAGATCATTCCA
*
8380 AACGGGAAGCTTGTGAGGAAGTTAATTTA-TTCTCTTCCAAAATCTTGGCAATCAAAGAAGACG
65 AACGAGAAGCTTGTGAGGAAGTTAATTTACTT-TCTTCCAAAATCTTGGCAATCAAAGAAGACG
8443 A
1 A
8444 CGATCATCGA
Statistics
Matches: 123, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
127 28 0.23
128 95 0.77
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (127 bp):
AAGCTATGACGGATAAATTTTCCACGATGTCAATGGTCTCAAATCATATGGAGAGATCATTCCAA
ACGAGAAGCTTGTGAGGAAGTTAATTTACTTTCTTCCAAAATCTTGGCAATCAAAGAAGACG
Found at i:12645 original size:19 final size:19
Alignment explanation
Indices: 12621--12671 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
12611 ATAAGACTTA
*
12621 GTGCATCAGTACACTAGGG
1 GTGCATCGGTACACTAGGG
12640 GTGCATCGGTACACTAGGG
1 GTGCATCGGTACACTAGGG
*
12659 GTACATCGGTACA
1 GTGCATCGGTACA
12672 TTAATTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (19 bp):
GTGCATCGGTACACTAGGG
Found at i:18416 original size:75 final size:77
Alignment explanation
Indices: 18292--18450 Score: 268
Period size: 76 Copynumber: 2.1 Consensus size: 77
18282 AGCTGGAAGC
*
18292 AATATTTCTCAAAAAAAAAAACTTTCGTGAAAAATATAAATATTATGACTA-TTTATTACAATGA
1 AATATTTCTCAAAAAAAAAAACTTTCGTGAAAAATATAAATATTATGACTATTTTATGACAATGA
18356 ATAAATTTAATA
66 ATAAATTTAATA
* *
18368 AATATTTCTCAATAAAAAAAGC-TTCGTGAAAAATATAAATATTATGACTATTTTATGACAATGA
1 AATATTTCTCAAAAAAAAAAACTTTCGTGAAAAATATAAATATTATGACTATTTTATGACAATGA
18432 ATAAATTTAATA
66 ATAAATTTAATA
*
18444 ATTATTT
1 AATATTT
18451 TATAGTAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
75 28 0.36
76 50 0.64
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (77 bp):
AATATTTCTCAAAAAAAAAAACTTTCGTGAAAAATATAAATATTATGACTATTTTATGACAATGA
ATAAATTTAATA
Found at i:18511 original size:31 final size:31
Alignment explanation
Indices: 18416--18513 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 31
18406 ATATTATGAC
* *
18416 TATTTTATGA-CAATGAATAAATTTAATAAT
1 TATTTTATAATCAATTAATAAATTTAATAAT
* * * *
18446 TATTTTATAGT-AATTTAATAAGTATGATAAT
1 TATTTTATAATCAA-TTAATAAATTTAATAAT
*
18477 TATTTTATAATCAATTAATAAATTTAATACT
1 TATTTTATAATCAATTAATAAATTTAATAAT
18508 TATTTT
1 TATTTT
18514 TATTTTTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
30 10 0.19
31 42 0.78
32 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (31 bp):
TATTTTATAATCAATTAATAAATTTAATAAT
Found at i:23405 original size:29 final size:29
Alignment explanation
Indices: 23354--23439 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
23344 GGTGACATTT
** *
23354 TGGGAATTAATTCAAAATGGGTGGTATTG
1 TGGGAATTAATTCAAAAAAGGTGCTATTG
*
23383 TGGGAATTTAATT-AAAAAAGGTGCTATTT
1 TGGGAA-TTAATTCAAAAAAGGTGCTATTG
* * * * *
23412 TAGTAATTATTTTAAAAAGGGTGCTATT
1 TGGGAATTAATTCAAAAAAGGTGCTATT
23440 TCTGTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 5 0.11
29 36 0.77
30 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
TGGGAATTAATTCAAAAAAGGTGCTATTG
Found at i:24498 original size:13 final size:14
Alignment explanation
Indices: 24482--24523 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
24472 CATGTTTTCA
24482 AAACATATTTTA-T
1 AAACATATTTTATT
*
24495 AAACAAATTTTATT
1 AAACATATTTTATT
*
24509 AAA-ATATTTTGTT
1 AAACATATTTTATT
24522 AA
1 AA
24524 TATGTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (14 bp):
AAACATATTTTATT
Found at i:28342 original size:20 final size:20
Alignment explanation
Indices: 28311--28379 Score: 90
Period size: 19 Copynumber: 3.5 Consensus size: 20
28301 TTAACCGGTT
28311 TTTAACCGGTTCTG-ACCGG
1 TTTAACCGGTTCTGAACCGG
*
28330 TTTCAATCGGTTC-GAACCGG
1 TTT-AACCGGTTCTGAACCGG
28350 TTTAACCGG-TCTGAACCGG
1 TTTAACCGGTTCTGAACCGG
*
28369 TTTGACCGGTT
1 TTTAACCGGTT
28380 TGACCTGACA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.05
19 24 0.56
20 17 0.40
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (20 bp):
TTTAACCGGTTCTGAACCGG
Found at i:28381 original size:9 final size:9
Alignment explanation
Indices: 28315--28384 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
28305 CCGGTTTTTA
28315 ACCGGTTCTG
1 ACCGGTT-TG
*
28325 ACCGGTTTCA
1 ACCGGTTT-G
* *
28335 ATCGGTTCG
1 ACCGGTTTG
*
28344 AACCGGTTTA
1 -ACCGGTTTG
*
28354 ACCGGTCTG
1 ACCGGTTTG
28363 AACCGGTTTG
1 -ACCGGTTTG
28373 ACCGGTTTG
1 ACCGGTTTG
28382 ACC
1 ACC
28385 TGACAGTTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
9 20 0.43
10 27 0.57
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:35671 original size:9 final size:9
Alignment explanation
Indices: 35645--35723 Score: 59
Period size: 9 Copynumber: 8.3 Consensus size: 9
35635 TCGGTTTTCA
35645 ACCGGTTCTG
1 ACCGGTT-TG
35655 ACCGGTTTG
1 ACCGGTTTG
* *
35664 ATCGGTTTCA
1 ACCGGTTT-G
* *
35674 ACCGATTCG
1 ACCGGTTTG
35683 AACCGGTTTG
1 -ACCGGTTTG
* *
35693 ACCGATCTG
1 ACCGGTTTG
35702 AACCGGTTTG
1 -ACCGGTTTG
*
35712 ACCGGTCTG
1 ACCGGTTTG
35721 ACC
1 ACC
35724 CGACCCGACC
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
9 27 0.51
10 26 0.49
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:35677 original size:29 final size:29
Alignment explanation
Indices: 35629--35717 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
35619 CTGGAAATCA
*
35629 GTTTAATCGGTTTTCAACCGGTTCTGACCG
1 GTTTGATCGG-TTTCAACCGGTTCTGACCG
*
35659 GTTTGATCGGTTTCAACCGATTC-GAACCG
1 GTTTGATCGGTTTCAACCGGTTCTG-ACCG
* * * *
35688 GTTTGACCGATCTGAACCGGTT-TGACCG
1 GTTTGATCGGTTTCAACCGGTTCTGACCG
35716 GT
1 GT
35718 CTGACCCGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 7 0.14
29 34 0.68
30 9 0.18
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.33
Consensus pattern (29 bp):
GTTTGATCGGTTTCAACCGGTTCTGACCG
Found at i:35696 original size:19 final size:19
Alignment explanation
Indices: 35682--35721 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
35672 CAACCGATTC
35682 GAACCGGTTTGACCGATCT
1 GAACCGGTTTGACCGATCT
*
35701 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGATCT
35720 GA
1 GA
35722 CCCGACCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (19 bp):
GAACCGGTTTGACCGATCT
Found at i:35741 original size:17 final size:17
Alignment explanation
Indices: 35719--35791 Score: 146
Period size: 17 Copynumber: 4.3 Consensus size: 17
35709 TTGACCGGTC
35719 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
35736 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
35753 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
35770 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
35787 TGACC
1 TGACC
35792 GTTGACAGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 56 1.00
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.12
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:46022 original size:154 final size:154
Alignment explanation
Indices: 45742--46051 Score: 584
Period size: 154 Copynumber: 2.0 Consensus size: 154
45732 ATTCACATAC
45742 TACTGGCACGGATGTGTTATGGGCTGGTCTACCTATGGTGACACTACCTCTTGAGAAAATGGCTG
1 TACTGGCACGGATGTGTTATGGGCTGGTCTACCTATGGTGACACTACCTCTTGAGAAAATGGCTG
*
45807 CAAGGGTTGCTGGTTCACTTTGTCTAGCAACTGGCTTGGGGGAGGAGATGATTGTGAACAGGTAG
66 CAAGGGTTGCTGGTTCACTTTGTCTAGAAACTGGCTTGGGGGAGGAGATGATTGTGAACAGGTAG
*
45872 CTGTTTAACGTTGTTCTTGGCGAT
131 CTGTTTAACGTTGTCCTTGGCGAT
*
45896 TACTGGCACGGATGTGTTATGGGTTGGTCTACCTATGGTGACACTACCTCTTGAGAAAATGGCTG
1 TACTGGCACGGATGTGTTATGGGCTGGTCTACCTATGGTGACACTACCTCTTGAGAAAATGGCTG
45961 CAAGGGTTGCTGGTTCACTTTGTCTAGAAACTGGCTTGGGGGAGGAGATGATTGTGAACAGGTAG
66 CAAGGGTTGCTGGTTCACTTTGTCTAGAAACTGGCTTGGGGGAGGAGATGATTGTGAACAGGTAG
*
46026 GTGTTTAACGTTGTCCTTGGCGAT
131 CTGTTTAACGTTGTCCTTGGCGAT
46050 TA
1 TA
46052 TGTAAATATT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 152 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (154 bp):
TACTGGCACGGATGTGTTATGGGCTGGTCTACCTATGGTGACACTACCTCTTGAGAAAATGGCTG
CAAGGGTTGCTGGTTCACTTTGTCTAGAAACTGGCTTGGGGGAGGAGATGATTGTGAACAGGTAG
CTGTTTAACGTTGTCCTTGGCGAT
Found at i:48614 original size:258 final size:258
Alignment explanation
Indices: 48157--48622 Score: 860
Period size: 258 Copynumber: 1.8 Consensus size: 258
48147 AACACTTCGA
** * *
48157 CGTCTAGGACCCTAGGCGTTTTAGGGCGCTTTATGCTTTTTAAAACCAAGATTTAGCTGAATCAG
1 CGTCTAGGACCCTAGGCACTTTAGGACGCTTTACGCTTTTTAAAACCAAGATTTAGCTGAATCAG
48222 ATGTTGGTTCAATGAATTGCAAGCATGTGGATGGTTTCTTTCTCATGAACACATTGACCACATAT
66 ATGTTGGTTCAATGAATTGCAAGCATGTGGATGGTTTCTTTCTCATGAACACATTGACCACATAT
* *
48287 TTTGGATGGTGATAGGCTTTGACACCTCACTGTACTAACCCAATATCATAAAAGGTATTTTCTAC
131 TTTGGATGGTGATAGGCTTTGACACCTCACTGTACCAACCCAATATCATAAAAGGTATTTTATAC
48352 TCTCTCCCTCTCTCTCCCTCTCTAGTTTTGTTGAAAGTTGAAACTACCTTTAGTGCAACAAGG
196 TCTCTCCCTCTCTCTCCCTCTCTAGTTTTGTTGAAAGTTGAAACTACCTTTAGTGCAACAAGG
* *
48415 CGTCTAGGACCCTAGGCACTTTAGGACGCTTTACGCTTTTTAAAATCAAGATTTAGCTGAATCGG
1 CGTCTAGGACCCTAGGCACTTTAGGACGCTTTACGCTTTTTAAAACCAAGATTTAGCTGAATCAG
48480 ATGTTGGTTCAATGAATTGCAAGCATGTGGATGGTTTCTTTCTCATGAACACATTGACCACATAT
66 ATGTTGGTTCAATGAATTGCAAGCATGTGGATGGTTTCTTTCTCATGAACACATTGACCACATAT
48545 TTTGGATGGTGATAGGCTTTGACACCTCACTGTACCAACCCAATATCATAAAAGGTATTTTATAC
131 TTTGGATGGTGATAGGCTTTGACACCTCACTGTACCAACCCAATATCATAAAAGGTATTTTATAC
48610 TCTCTCCCTCTCT
196 TCTCTCCCTCTCT
48623 AGTTTTGTTG
Statistics
Matches: 200, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
258 200 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (258 bp):
CGTCTAGGACCCTAGGCACTTTAGGACGCTTTACGCTTTTTAAAACCAAGATTTAGCTGAATCAG
ATGTTGGTTCAATGAATTGCAAGCATGTGGATGGTTTCTTTCTCATGAACACATTGACCACATAT
TTTGGATGGTGATAGGCTTTGACACCTCACTGTACCAACCCAATATCATAAAAGGTATTTTATAC
TCTCTCCCTCTCTCTCCCTCTCTAGTTTTGTTGAAAGTTGAAACTACCTTTAGTGCAACAAGG
Found at i:50803 original size:21 final size:19
Alignment explanation
Indices: 50779--50823 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
50769 ATTATATATC
50779 TAAAAATAAAATTTAAAAAGA
1 TAAAAATAAAA--TAAAAAGA
*
50800 TAAAAATAAAATAAAAATA
1 TAAAAATAAAATAAAAAGA
50819 TAAAA
1 TAAAA
50824 GTACAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
21 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
TAAAAATAAAATAAAAAGA
Found at i:52121 original size:19 final size:19
Alignment explanation
Indices: 52097--52138 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
52087 GTCCTTGGAA
52097 ATTCTTCTCGGATTTGTTC
1 ATTCTTCTCGGATTTGTTC
52116 ATTCTTCTCGGATTTGTTC
1 ATTCTTCTCGGATTTGTTC
52135 ATTC
1 ATTC
52139 ATACTCCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.14, T:0.52
Consensus pattern (19 bp):
ATTCTTCTCGGATTTGTTC
Found at i:60813 original size:12 final size:12
Alignment explanation
Indices: 60796--60821 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60786 AATTGGAATA
60796 GGAGGAGGATTT
1 GGAGGAGGATTT
60808 GGAGGAGGATTT
1 GGAGGAGGATTT
60820 GG
1 GG
60822 TTGACGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.54, T:0.23
Consensus pattern (12 bp):
GGAGGAGGATTT
Found at i:69027 original size:20 final size:20
Alignment explanation
Indices: 69002--69083 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
68992 TTTGGTGTAG
*
69002 AGGGAATCGATACCCCCATA
1 AGGGAACCGATACCCCCATA
* *
69022 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATACCCCC-AT-A
* **
69044 ATGGGAACCGATTCCCCTGTA
1 A-GGGAACCGATACCCCCATA
* *
69065 GGGGAATCGATACCCCCAT
1 AGGGAACCGATACCCCCAT
69084 GGGGTTCTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
20 29 0.59
21 2 0.04
22 3 0.06
23 15 0.31
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (20 bp):
AGGGAACCGATACCCCCATA
Found at i:84655 original size:16 final size:15
Alignment explanation
Indices: 84630--84659 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
84620 ATTAGAATCA
84630 AATATATTTAAATTG
1 AATATATTTAAATTG
84645 AATATTATTTAAATT
1 AATA-TATTTAAATT
84660 TTAATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
AATATATTTAAATTG
Found at i:89291 original size:41 final size:41
Alignment explanation
Indices: 89230--89372 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 41
89220 TTTTTCTTCA
* * *
89230 ACAAACGCCGCAACATAGTTGAACTATAGAGTTGTTTTCGT
1 ACAAACGCCGCTATAGAGTTGAACTATAGAGTTGTTTTCGT
* * *
89271 ACAAACGCCGCTATAGAGTTGAAC-ATTGTGGCATT-TTTTAGT
1 ACAAACGCCGCTATAGAGTTGAACTATAG-AG--TTGTTTTCGT
* * **
89313 --AAACGCCACGATAGAGTT-ACACTATAGAGGCGTTTTCGT
1 ACAAACGCCGCTATAGAGTTGA-ACTATAGAGTTGTTTTCGT
89352 ACAAACGCCGCTATAGAGTTG
1 ACAAACGCCGCTATAGAGTTG
89373 GACAGTAATG
Statistics
Matches: 78, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
39 7 0.09
40 22 0.28
41 41 0.53
42 6 0.08
43 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (41 bp):
ACAAACGCCGCTATAGAGTTGAACTATAGAGTTGTTTTCGT
Found at i:89386 original size:41 final size:40
Alignment explanation
Indices: 89263--89459 Score: 123
Period size: 41 Copynumber: 4.8 Consensus size: 40
89253 CTATAGAGTT
* **
89263 GTTTTCGTACAAACGCCGCTATAGAGTTGAACATTGTGGC
1 GTTTTCGTACAAACGCCGCTATAGAGTTGGACATAATGGC
* * * * * **
89303 ATTTT-TTAGTAAACGCCACGATAGAGTTACACTATAGA-GGC
1 GTTTTCGTA-CAAACGCCGCTATAGAGTTGGAC-ATA-ATGGC
89344 GTTTTCGTACAAACGCCGCTATAGAGTTGGACAGTAATGGC
1 GTTTTCGTACAAACGCCGCTATAGAGTTGGACA-TAATGGC
* * ** * *
89385 GTTTT-TTAAGTAAACGTTGCGATAGAGTTGCACTATAGA-GGC
1 GTTTTCGT-A-CAAACGCCGCTATAGAGTTGGAC-ATA-ATGGC
* * *
89427 ATTTTCGTACAAACGTCGCTATACAGTTGGACA
1 GTTTTCGTACAAACGCCGCTATAGAGTTGGACA
89460 GTAGTGGTGT
Statistics
Matches: 117, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
39 2 0.02
40 26 0.22
41 56 0.48
42 30 0.26
43 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (40 bp):
GTTTTCGTACAAACGCCGCTATAGAGTTGGACATAATGGC
Found at i:89425 original size:83 final size:83
Alignment explanation
Indices: 89232--89526 Score: 355
Period size: 83 Copynumber: 3.6 Consensus size: 83
89222 TTTCTTCAAC
* * * * ** *
89232 AAACGCCGCAACATAGTTGAACTATAGAGTTGTTTTCGTACAAACGCCGCTATAGAGTTGAACA-
1 AAACGCCGCGATAGAGTTGCACTATAGAGGCGTTTTCGTACAAACGCCGCTATAGAGTTGGACAG
* *
89296 TTGTGGCATTTTTT-AGT
66 TAGTGGCGTTTTTTAAGT
* *
89313 AAACGCCACGATAGAGTTACACTATAGAGGCGTTTTCGTACAAACGCCGCTATAGAGTTGGACAG
1 AAACGCCGCGATAGAGTTGCACTATAGAGGCGTTTTCGTACAAACGCCGCTATAGAGTTGGACAG
*
89378 TAATGGCGTTTTTTAAGT
66 TAGTGGCGTTTTTTAAGT
** * * *
89396 AAACGTTGCGATAGAGTTGCACTATAGAGGCATTTTCGTACAAACGTCGCTATACAGTTGGACAG
1 AAACGCCGCGATAGAGTTGCACTATAGAGGCGTTTTCGTACAAACGCCGCTATAGAGTTGGACAG
*
89461 TAGTGGTGTTTTTTAAGT
66 TAGTGGCGTTTTTTAAGT
* **
89479 -AACGCCGCGATATA-TTAGCACTATAGTAGGCGTTTTTTTACAAACGCC
1 AAACGCCGCGATAGAGTT-GCACTATAG-AGGCGTTTTCGTACAAACGCC
89527 TCAAACTTAT
Statistics
Matches: 182, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
81 57 0.31
82 31 0.17
83 94 0.52
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (83 bp):
AAACGCCGCGATAGAGTTGCACTATAGAGGCGTTTTCGTACAAACGCCGCTATAGAGTTGGACAG
TAGTGGCGTTTTTTAAGT
Found at i:92569 original size:32 final size:32
Alignment explanation
Indices: 92528--92592 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
92518 AATGAACTTG
92528 GTTTTAAGTTCTTCCTCCCTCTCTTTAACTAT
1 GTTTTAAGTTCTTCCTCCCTCTCTTTAACTAT
*
92560 GTTTTAAGTTCTTCCTTCCTCTCTTTAACTAT
1 GTTTTAAGTTCTTCCTCCCTCTCTTTAACTAT
92592 G
1 G
92593 AAACATGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.26, G:0.08, T:0.51
Consensus pattern (32 bp):
GTTTTAAGTTCTTCCTCCCTCTCTTTAACTAT
Found at i:98032 original size:206 final size:207
Alignment explanation
Indices: 97653--98065 Score: 783
Period size: 206 Copynumber: 2.0 Consensus size: 207
97643 TTATAAATCC
97653 TCATTATAAGTGGTTGTCTGAAATCGTAGGACCGAGGGCATGTTGGTGTTGCTAGCAGGCAATGA
1 TCATTATAAGTGGTTGTCTGAAATCGTAGGACCGAGGGCATGTTGGTGTTGCTAGCAGGCAATGA
*
97718 CAAAAGTTTACTCACACGGTTGTATCAAAGAACTTTGCTTGTATAGCTAATGAAGAGGTATTATA
66 CAAAAGTTTACTCACACGGTAGTATCAAAGAACTTTGCTTGTATAGCTAATGAAGAGGTATTATA
97783 GACTATTCACATTGTTATTTGTATTTCATGTACATACTAACTCAAACTAATTATATTATGGTACA
131 GACTATTCACATTGTTATTTGTATTTCATGTACATACTAACTCAAACTAATTATATTATGGTACA
97848 TTGTAGGAAAAT
196 TTGTAGGAAAAT
*
97860 TCATTATAAGTGGTTGTTTGAAATCGTAGGACCGAGGGCATGTTGGTGTTGCTAGCAGGCAATGA
1 TCATTATAAGTGGTTGTCTGAAATCGTAGGACCGAGGGCATGTTGGTGTTGCTAGCAGGCAATGA
*
97925 CAAAAGTTTACTCACACGGTAG-ATCAAAGATCTTTGCTTGTATAGCTAATGAAGAGGTATTATA
66 CAAAAGTTTACTCACACGGTAGTATCAAAGAACTTTGCTTGTATAGCTAATGAAGAGGTATTATA
*
97989 GATTATTCACATTGTTATTTGTATTTCATGTACATACTAACTCAAACTAATTATATTATGGTACA
131 GACTATTCACATTGTTATTTGTATTTCATGTACATACTAACTCAAACTAATTATATTATGGTACA
98054 TTGTAGGAAAAT
196 TTGTAGGAAAAT
98066 ATATCTGGTT
Statistics
Matches: 202, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
206 117 0.58
207 85 0.42
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (207 bp):
TCATTATAAGTGGTTGTCTGAAATCGTAGGACCGAGGGCATGTTGGTGTTGCTAGCAGGCAATGA
CAAAAGTTTACTCACACGGTAGTATCAAAGAACTTTGCTTGTATAGCTAATGAAGAGGTATTATA
GACTATTCACATTGTTATTTGTATTTCATGTACATACTAACTCAAACTAATTATATTATGGTACA
TTGTAGGAAAAT
Found at i:98954 original size:44 final size:43
Alignment explanation
Indices: 98905--99031 Score: 164
Period size: 45 Copynumber: 2.9 Consensus size: 43
98895 AAAAACGCCA
* * *
98905 CTATATACCAGACCTTTTGTGGCATTTGTATCCGAAAATCACCG
1 CTATATACTAGACCTTTTGCGGCGTTTGTATCCGAAAAT-ACCG
* * *
98949 CTATATACTAGACCTTTTACGACGTTTGTATCCGAAAAAATGCCG
1 CTATATACTAGACCTTTTGCGGCGTTTGTATCCG--AAAATACCG
*
98994 CTATATACTAGACCTTTTGCAGCGTTTGTATCCGAAAA
1 CTATATACTAGACCTTTTGCGGCGTTTGTATCCGAAAA
99032 ATGCCAATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 4 0.06
44 29 0.40
45 34 0.47
46 5 0.07
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (43 bp):
CTATATACTAGACCTTTTGCGGCGTTTGTATCCGAAAATACCG
Found at i:99010 original size:45 final size:44
Alignment explanation
Indices: 98895--99036 Score: 171
Period size: 44 Copynumber: 3.2 Consensus size: 44
98885 TGTTTGTAAC
* * * * * *
98895 AAAAACGCCACTATATACCAGACCTTTTGTGGCATTTGTATCCG
1 AAAAATGCCGCTATATACTAGACCTTTTGCGACGTTTGTATCCG
* *
98939 -AAAATCACCGCTATATACTAGACCTTTTACGACGTTTGTATCCG
1 AAAAAT-GCCGCTATATACTAGACCTTTTGCGACGTTTGTATCCG
98983 AAAAAATGCCGCTATATACTAGACCTTTTGC-AGCGTTTGTATCCG
1 -AAAAATGCCGCTATATACTAGACCTTTTGCGA-CGTTTGTATCCG
99028 AAAAATGCC
1 AAAAATGCC
99037 AATTTACCAG
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
43 4 0.05
44 41 0.49
45 34 0.40
46 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
AAAAATGCCGCTATATACTAGACCTTTTGCGACGTTTGTATCCG
Found at i:100673 original size:14 final size:14
Alignment explanation
Indices: 100654--100680 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100644 AAAATAATAA
100654 AACATAAAAAACAC
1 AACATAAAAAACAC
100668 AACATAAAAAACA
1 AACATAAAAAACA
100681 AAATAAGCAT
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:0.74, C:0.19, G:0.00, T:0.07
Consensus pattern (14 bp):
AACATAAAAAACAC
Found at i:102581 original size:136 final size:136
Alignment explanation
Indices: 102310--102960 Score: 919
Period size: 136 Copynumber: 4.8 Consensus size: 136
102300 AAAGATACTG
* * * * * * * ** *
102310 GTTCTTTTCATCATGATCT-TCCTATTGGAAATGTTGATCCTTGAAGTGAGGTGTTGCTGATTCG
1 GTTCTTCTCATTATGAACTCTCC-ATTGGAAATGTTAATCCCTCAAGCGAGACGTTGATGATTCG
* * *
102374 AAAAGCCATGAATCGTGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGT
65 AAATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGT
102439 CGGATGA
130 CGGATGA
* * * * *
102446 GTTATTCTCATTATGAACTCTCCATTAGAAATGTTAATCCCTCAAGCCAGATGTTTATGATTCGA
1 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGACGTTGATGATTCGA
* ** *
102511 AATACCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAGTTTCTTCTTCCTCTGTC
66 AATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTC
102576 GGATGA
131 GGATGA
* *
102582 GTT-TTCTCATTATGAACTCTCAATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGATGATTCGA
1 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGACGTTGATGATTCGA
* * * *
102646 AATGTCGTGAATCGAGCAATAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCTCTCTGTC
66 AATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTC
102711 GGATGA
131 GGATGA
* *
102717 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTCGA
1 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGACGTTGATGATTCGA
* * *
102782 AATGCCGTGAATTGAGAAATAGGTCAAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTC
66 AATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTC
102847 GGATGA
131 GGATGA
* * * * * * *
102853 GTTCTTCTCATTATGAACTCTCCATTGGAAATTTTTATCCCTCGAGCAAGGCATTGTTGATTCGA
1 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGACGTTGATGATTCGA
102918 AATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATT
66 AATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATT
102961 TTAAGAAGGT
Statistics
Matches: 461, Mismatches: 52, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
135 121 0.26
136 337 0.73
137 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (136 bp):
GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGACGTTGATGATTCGA
AATGCCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTC
GGATGA
Found at i:102816 original size:271 final size:272
Alignment explanation
Indices: 102333--102960 Score: 943
Period size: 271 Copynumber: 2.3 Consensus size: 272
102323 TGATCTTCCT
* * * * * * * * *
102333 ATTGGAAATGTTGATCCTTGAAGTGAGGTGTTGCTGATTCGAAAAGCCATGAATCGTGCAATAGG
1 ATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGATGATTCGAAATGCCGTGAATCGAGCAATAGG
102398 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCATTATGAA
66 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCATTATGAA
* * *
102463 CTCTCCATTAGAAATGTTAATCCCTCAAGCCAGATGTTTATGATTCGAAATACCGTGAATCGAGC
131 CTCTCCATTAGAAATGTTAATCCCTCAAGCCAGACGTTGATGATTCGAAATACCGTGAATCGAGA
* ** *
102528 AATAGGTCGAACAAGTTCTTCTCATTATGAGTTTCTTCTTCCTCTGTCGGATGAGTT-TTCTCAT
196 AATAGGTCAAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCAT
102592 TATGAACTCTCA
261 TATGAACTCTCA
*
102604 ATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGATGATTCGAAATGTCGTGAATCGAGCAATAGG
1 ATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGATGATTCGAAATGCCGTGAATCGAGCAATAGG
* * * *
102669 TTGAACAAGTTCTTCTCATTATGAACTTTTTCTCTCTCTGTCGGATGAGTTCTTCTCATTATGAA
66 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCATTATGAA
* * * * * *
102734 CTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTCGAAATGCCGTGAATTGAGA
131 CTCTCCATTAGAAATGTTAATCCCTCAAGCCAGACGTTGATGATTCGAAATACCGTGAATCGAGA
102799 AATAGGTCAAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCAT
196 AATAGGTCAAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCAT
*
102864 TATGAACTCTCC
261 TATGAACTCTCA
* * * * * *
102876 ATTGGAAATTTTTATCCCTCGAGCAAGGCATTGTTGATTCGAAATGCCGTGAATCGAGCAATAGG
1 ATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGATGATTCGAAATGCCGTGAATCGAGCAATAGG
102941 TCGAACAAGTTCTTCTCATT
66 TCGAACAAGTTCTTCTCATT
102961 TTAAGAAGGT
Statistics
Matches: 320, Mismatches: 36, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
271 225 0.70
272 95 0.30
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (272 bp):
ATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGATGATTCGAAATGCCGTGAATCGAGCAATAGG
TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCATTATGAA
CTCTCCATTAGAAATGTTAATCCCTCAAGCCAGACGTTGATGATTCGAAATACCGTGAATCGAGA
AATAGGTCAAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCAT
TATGAACTCTCA
Found at i:106799 original size:18 final size:19
Alignment explanation
Indices: 106776--106811 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
106766 TTCGGTTAAT
*
106776 ATTTAT-TTTATTTTTTTA
1 ATTTATATTAATTTTTTTA
106794 ATTTATATTAATTTTTTT
1 ATTTATATTAATTTTTTT
106812 TAAAAATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTATATTAATTTTTTTA
Found at i:106923 original size:21 final size:20
Alignment explanation
Indices: 106899--106945 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
106889 TTATATAATC
*
106899 TAAAAATAAAATTTAAAAACA
1 TAAAAATAAAA-ATAAAAACA
*
106920 TAAAAAATAAAAATAAAAATA
1 T-AAAAATAAAAATAAAAACA
106941 TAAAA
1 TAAAA
106946 TTACAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 9 0.39
22 10 0.43
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAACA
Found at i:107683 original size:22 final size:22
Alignment explanation
Indices: 107651--107699 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
107641 GTGTTTTTTT
107651 GCTTTCCAATA-GAAATATAATA
1 GCTTTCCAATAGGAAA-ATAATA
*
107673 GCTTTCGAATAGGAAAATAATA
1 GCTTTCCAATAGGAAAATAATA
107695 GCTTT
1 GCTTT
107700 TGAAAACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
GCTTTCCAATAGGAAAATAATA
Found at i:109289 original size:43 final size:43
Alignment explanation
Indices: 109224--109403 Score: 270
Period size: 43 Copynumber: 4.1 Consensus size: 43
109214 CTTCAGTAAA
*
109224 TCGCGCCTTCAGTCGCCACCATTCACTCCGTCGGTTCCTTGCG
1 TCGCGCCTTCAGTCACCACCATTCACTCCGTCGGTTCCTTGCG
*
109267 TCGCGCCTTCAGTCACCGCCATTCACTCCGTCGGTTCCTTGCGTCGCG
1 TCGCGCCTTCAGTCACCACCATTCACTCCGTCGGTTCC-T---T-GCG
* * *
109315 TCGCGCCTTCAGTCGCCACCATTCACTGCGTTGGTTCCTTGCG
1 TCGCGCCTTCAGTCACCACCATTCACTCCGTCGGTTCCTTGCG
109358 TCGCGCCTTCAGTCACCACCATTCACTCCGTCGGTTCCTTGCG
1 TCGCGCCTTCAGTCACCACCATTCACTCCGTCGGTTCCTTGCG
109401 TCG
1 TCG
109404 GTTCCTTGTA
Statistics
Matches: 123, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
43 82 0.67
44 2 0.02
47 2 0.02
48 37 0.30
ACGTcount: A:0.09, C:0.41, G:0.22, T:0.28
Consensus pattern (43 bp):
TCGCGCCTTCAGTCACCACCATTCACTCCGTCGGTTCCTTGCG
Found at i:109380 original size:91 final size:91
Alignment explanation
Indices: 109224--109403 Score: 333
Period size: 91 Copynumber: 2.0 Consensus size: 91
109214 CTTCAGTAAA
*
109224 TCGCGCCTTCAGTCGCCACCATTCACTCCGTCGGTTCCTTGCGTCGCGCCTTCAGTCACCGCCAT
1 TCGCGCCTTCAGTCGCCACCATTCACTCCGTCGGTTCCTTGCGTCGCGCCTTCAGTCACCACCAT
109289 TCACTCCGTCGGTTCCTTGCGTCGCG
66 TCACTCCGTCGGTTCCTTGCGTCGCG
* *
109315 TCGCGCCTTCAGTCGCCACCATTCACTGCGTTGGTTCCTTGCGTCGCGCCTTCAGTCACCACCAT
1 TCGCGCCTTCAGTCGCCACCATTCACTCCGTCGGTTCCTTGCGTCGCGCCTTCAGTCACCACCAT
109380 TCACTCCGTCGGTTCCTTGCGTCG
66 TCACTCCGTCGGTTCCTTGCGTCG
109404 GTTCCTTGTA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.09, C:0.41, G:0.22, T:0.28
Consensus pattern (91 bp):
TCGCGCCTTCAGTCGCCACCATTCACTCCGTCGGTTCCTTGCGTCGCGCCTTCAGTCACCACCAT
TCACTCCGTCGGTTCCTTGCGTCGCG
Found at i:109404 original size:13 final size:13
Alignment explanation
Indices: 109386--109411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109376 CCATTCACTC
109386 CGTCGGTTCCTTG
1 CGTCGGTTCCTTG
109399 CGTCGGTTCCTTG
1 CGTCGGTTCCTTG
109412 TATTAAATTG
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:0.00, C:0.31, G:0.31, T:0.38
Consensus pattern (13 bp):
CGTCGGTTCCTTG
Found at i:110952 original size:16 final size:16
Alignment explanation
Indices: 110931--110961 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110921 ATTTATCTTC
110931 CACATTTTACTTTGCA
1 CACATTTTACTTTGCA
110947 CACATTTTACTTTGC
1 CACATTTTACTTTGC
110962 CTGATAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (16 bp):
CACATTTTACTTTGCA
Found at i:120773 original size:15 final size:14
Alignment explanation
Indices: 120753--120803 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
120743 ATTAAATCAT
120753 AATTAAATAGAAAAA
1 AATTAAAT-GAAAAA
*
120768 AATTAAATTAAAAA
1 AATTAAATGAAAAA
* *
120782 AATTAAATTGGAAAT
1 AATTAAA-TGAAAAA
120797 AATTAAA
1 AATTAAA
120804 AGTCAAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (14 bp):
AATTAAATGAAAAA
Found at i:122134 original size:25 final size:26
Alignment explanation
Indices: 122100--122158 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
122090 AAAAAAACCA
*
122100 AAAATAAAATAAATAATGAT-ATAAT
1 AAAATAAAATAAATAATAATAATAAT
122125 AAAATAAAATAAATAATAATAATAAT
1 AAAATAAAATAAATAATAATAATAAT
122151 AATAATAA
1 AA-AATAA
122159 TATACTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 19 0.61
26 7 0.23
27 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATAAAATAAATAATAATAATAAT
Found at i:122142 original size:3 final size:3
Alignment explanation
Indices: 122102--122160 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
122092 AAAAACCAAA
*
122102 AAT AA- AAT AAAT AAT GAT -AT AAT AA- AAT AA- AAT AAAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
122145 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
122161 TACTTTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
2 8 0.16
3 35 0.71
4 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:122197 original size:27 final size:26
Alignment explanation
Indices: 122145--122205 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
122135 AAATAATAAT
122145 AATA-ATAATAATAATATACTTTTAA
1 AATATATAATAATAATATACTTTTAA
*
122170 AATATATAATATATATTATA-TTATTAA
1 AATATATAATA-ATAATATACTT-TTAA
122197 AATCATATA
1 AAT-ATATA
122206 TATGTTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 4 0.13
26 8 0.26
27 14 0.45
28 5 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATATAATAATAATATACTTTTAA
Found at i:122223 original size:19 final size:19
Alignment explanation
Indices: 122177--122227 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
122167 TAAAATATAT
122177 AATATATATTATATTATTAA
1 AATATATA-TATATTATTAA
*
122197 AATCATATATATGTT-TTCAA
1 AAT-ATATATATATTATT-AA
122217 AATATATATAT
1 AATATATATAT
122228 TACATATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 10 0.36
20 13 0.46
21 5 0.18
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
AATATATATATATTATTAA
Found at i:122257 original size:22 final size:22
Alignment explanation
Indices: 122204--122390 Score: 148
Period size: 22 Copynumber: 8.2 Consensus size: 22
122194 TAAAATCATA
* *
122204 TATATGTTTTCAAAATATATATAT
1 TATATGTTTTCAAAA-A-CTATAC
122228 TACATATGTTTTTCAAAAACTATA-
1 T--ATATG-TTTTCAAAAACTATAC
* *
122252 TATATGTTTTCAAAACCATATAA
1 TATATGTTTTCAAAAAC-TATAC
122275 TAATATGTTTT-AAAAACTATAC
1 T-ATATGTTTTCAAAAACTATAC
* *
122297 TATATATTTTCAAAAACTATATAT
1 TATATGTTTTCAAAAAC--TATAC
** *
122321 TATATGTTTTTTAAAACAATA-
1 TATATGTTTTCAAAAACTATAC
*
122342 TAATATGTTTTCAAAAACTACAC
1 T-ATATGTTTTCAAAAACTATAC
* *
122365 CATATGTTTT-TAAAACTATAC
1 TATATGTTTTCAAAAACTATAC
122386 TATAT
1 TATAT
122391 ATTTAATACC
Statistics
Matches: 134, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
21 32 0.24
22 48 0.36
23 6 0.04
24 29 0.22
25 4 0.03
26 6 0.04
27 9 0.07
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (22 bp):
TATATGTTTTCAAAAACTATAC
Found at i:122282 original size:46 final size:45
Alignment explanation
Indices: 122178--122390 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 45
122168 AAAATATATA
* * * * *
122178 ATATATATTATATTATTAAAATC-ATATATATGTTTTCAAAATAT
1 ATATATAATATGTTTTTAAAAACTATATATATGTTTTCAAAACAT
122222 ATATATTACATATGTTTTTCAAAAACTATATATATGTTTTCAAAACCAT
1 ATATA-TA-ATATGTTTTT-AAAAACTATATATATGTTTTCAAAA-CAT
*
122271 ATA-ATAATATG-TTTTAAAAACTATACTATATATTTTCAAAA-ACT
1 ATATATAATATGTTTTTAAAAACTATA-TATATGTTTTCAAAACA-T
* * *
122315 ATATATTATATGTTTTTTAAAACAATATAATATGTTTTCAAAA-A-
1 ATATATAATATGTTTTTAAAAACTATAT-ATATGTTTTCAAAACAT
* * **
122359 CTACACCATATGTTTTT-AAAACTATACTATAT
1 ATATATAATATGTTTTTAAAAACTATA-TATAT
122391 ATTTAATACC
Statistics
Matches: 143, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
43 13 0.09
44 33 0.23
45 28 0.20
46 38 0.27
47 7 0.05
48 19 0.13
49 5 0.03
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (45 bp):
ATATATAATATGTTTTTAAAAACTATATATATGTTTTCAAAACAT
Found at i:124106 original size:97 final size:97
Alignment explanation
Indices: 123811--124091 Score: 474
Period size: 97 Copynumber: 2.9 Consensus size: 97
123801 CACTGATTTC
123811 CTGG-TTTATGAACTATGGTTACCTGAAATGTGTTATCGGGTTTCCTGTTTTCACTGGAAATTAT
1 CTGGTTTTATGAACTATGGTTACCTGAAATGTGTTATCGGGTTTCCTGTTTTCACTGGAAATTAT
*
123875 GATCGTTCCTGGTTTATGGATCATGGAACGTA
66 GATCGTTCCTGATTTATGGATCATGGAACGTA
123907 CTGGTTTTATGAACTATGGTTACCTGAAATGTGTTATCGGGTTTCCTGTTTTCACTGGAAATTAT
1 CTGGTTTTATGAACTATGGTTACCTGAAATGTGTTATCGGGTTTCCTGTTTTCACTGGAAATTAT
*
123972 GATCGTTCCTGATTTATGGATCATGGAACGCA
66 GATCGTTCCTGATTTATGGATCATGGAACGTA
* * *
124004 CTGGTTTTATGAACTATGGTTGCCTGAAATATGTTATCGGGTTTCCTGTTTTCACTGGAAAATAT
1 CTGGTTTTATGAACTATGGTTACCTGAAATGTGTTATCGGGTTTCCTGTTTTCACTGGAAATTAT
* * **
124069 TATCATTATTGATTTATGGATCA
66 GATCGTTCCTGATTTATGGATCA
124092 CGAAATCTAC
Statistics
Matches: 175, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
96 4 0.02
97 171 0.98
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (97 bp):
CTGGTTTTATGAACTATGGTTACCTGAAATGTGTTATCGGGTTTCCTGTTTTCACTGGAAATTAT
GATCGTTCCTGATTTATGGATCATGGAACGTA
Found at i:126604 original size:17 final size:17
Alignment explanation
Indices: 126582--126615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
126572 TTAATTATCA
126582 TATATTTTTATTGATAT
1 TATATTTTTATTGATAT
126599 TATATTTTTATTGATAT
1 TATATTTTTATTGATAT
126616 AAAGTGTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATATTTTTATTGATAT
Found at i:133587 original size:135 final size:136
Alignment explanation
Indices: 133358--134053 Score: 662
Period size: 135 Copynumber: 5.2 Consensus size: 136
133348 TTAAAGCTAC
* * * * ** * * **
133358 GAGTTCTTCTCATCATGATCTTTCTACAGGAAATGTTGATCCCTCAAGTGATCCGTTGCTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTC
* ** * * * *
133423 GAAATGCCATGAATCGTA-CAATAGGTCGAACAAGTTCTTCTCATTATAAACTTGTTCTCCCTCT
66 AAAATATCGTGAATCG-AGCAATAGGTCGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTCT
133487 GTCGGAT
130 GTCGGAT
* ** * *
133494 GTGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAAT-CCTCAAGCGAGATGTTTCTAATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTC
* * * *
133558 AAAATATCGTGAATCGAGCAATAGTTCGAACAAGTTCTTCTCATTATGAGCTTCTTATCACTATG
66 AAAATATCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTCTG
133623 TCGGAT
131 TCGGAT
* *
133629 GAGTTATTCTCATTATAAACTCT-CATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTC
* * ** *
133693 GAAATGTCGTGAATAAAGCAATAGGTCGAACAAGTTCTTTTCATTATGAGCTTCTTCTCCCTCTG
66 AAAATATCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTCTG
*
133758 TTGGAT
131 TCGGAT
* * * * * * * *
133764 GAGTTCTTCTCATCATG-A-TTTTCATACAGGAAACGTTGATCCCTCAAGTGAGCCGTTGCTGAT
1 GAGTTCTTCTCATTATGAACTCTCCAT--TGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGAT
* ** * * * *
133827 TCGAAATGCCATGAATTGTGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC
64 TCAAAATATCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTC
*
133892 TATC----
129 TGTCGGAT
* * *
133896 G-G-----------ATGAACTCTCCATTGGAAATGTTAATCCCTCAAGAGAGGCATTACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTC
* *
133949 AAAATGA-CGTGAATCGAGCAATAGGTCGAACAAGTTTTTCTCATTATGAGCTTCTTCTCCCTTT
66 AAAAT-ATCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTCT
*
134013 GTCAGAT
130 GTCGGAT
* * **
134020 GAGTACTTCTCATTATGAACACTTAATTGGAAAT
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
134054 TTTGATTGAC
Statistics
Matches: 455, Mismatches: 81, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
120 91 0.20
121 1 0.00
122 5 0.01
124 1 0.00
125 1 0.00
131 1 0.00
132 1 0.00
133 2 0.00
134 21 0.05
135 191 0.42
136 140 0.31
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (136 bp):
GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCGTTGCTGATTC
AAAATATCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTCTG
TCGGAT
Found at i:134005 original size:120 final size:120
Alignment explanation
Indices: 133792--134010 Score: 321
Period size: 120 Copynumber: 1.8 Consensus size: 120
133782 TTTTCATACA
* * * * * * * *
133792 GGAAACGTTGATCCCTCAAGTGAGCCGTTGCTGATTCGAAATGCCATGAATTGTGCAATAGGTCG
1 GGAAACGTTAATCCCTCAAGAGAGCCATTACTGATTCAAAATGACATGAATCGAGCAATAGGTCG
133857 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAACTCTCCATT
66 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAACTCTCCATT
* * *
133912 GGAAATGTTAATCCCTCAAGAGAGGCATTACTGATTCAAAATGACGTGAATCGAGCAATAGGTCG
1 GGAAACGTTAATCCCTCAAGAGAGCCATTACTGATTCAAAATGACATGAATCGAGCAATAGGTCG
* *
133977 AACAAGTTTTTCTCATTATGAGCTTCTTCTCCCT
66 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCT
134011 TTGTCAGATG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 86 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (120 bp):
GGAAACGTTAATCCCTCAAGAGAGCCATTACTGATTCAAAATGACATGAATCGAGCAATAGGTCG
AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAACTCTCCATT
Found at i:135096 original size:10 final size:9
Alignment explanation
Indices: 135083--135124 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
135073 CTCTCATTTC
135083 TTCTCTTTTT
1 TTCT-TTTTT
135093 TTC-TTTTT
1 TTCTTTTTT
135101 TTCTTTTCTT
1 TTCTTTT-TT
*
135111 TTCTTTTGT
1 TTCTTTTTT
135120 TTCTT
1 TTCTT
135125 AGGAGTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 8 0.28
9 9 0.31
10 12 0.41
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:135099 original size:8 final size:8
Alignment explanation
Indices: 135086--135124 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 8
135076 TCATTTCTTC
135086 TCTTTTTT
1 TCTTTTTT
135094 TCTTTTTT
1 TCTTTTTT
135102 TCTTTTCTTT
1 TC-TTT-TTT
135112 TCTTTTGTT
1 TCTTTT-TT
135121 TCTT
1 TCTT
135125 AGGAGTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 11 0.39
9 12 0.43
10 5 0.18
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (8 bp):
TCTTTTTT
Found at i:144438 original size:25 final size:25
Alignment explanation
Indices: 144409--144481 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
144399 AACCAACTCG
*
144409 TTGACCTGACCCGACCCAACCTGAT
1 TTGACCTGACCCGACCCAACCCGAT
* *
144434 TTGACCTGACCCAACCCAACCCGGT
1 TTGACCTGACCCGACCCAACCCGAT
*
144459 TTGACCTGACCCGACCCGACCCG
1 TTGACCTGACCCGACCCAACCCG
144482 TTGACCATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.22, C:0.44, G:0.18, T:0.16
Consensus pattern (25 bp):
TTGACCTGACCCGACCCAACCCGAT
Found at i:144494 original size:25 final size:24
Alignment explanation
Indices: 144401--144487 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 24
144391 TTAAAGTCAA
*
144401 CCAACTCG-TTGACCTGACCCGAC
1 CCAACCCGTTTGACCTGACCCGAC
* *
144424 CCAACCTGATTTGACCTGACCCAAC
1 CCAACCCG-TTTGACCTGACCCGAC
144449 CCAACCCGGTTTGACCTGACCCGAC
1 CCAACCC-GTTTGACCTGACCCGAC
*
144474 CCGACCCG-TTGACC
1 CCAACCCGTTTGACC
144488 ATTGACCGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.22
24 1 0.02
25 41 0.75
26 1 0.02
ACGTcount: A:0.22, C:0.44, G:0.17, T:0.17
Consensus pattern (24 bp):
CCAACCCGTTTGACCTGACCCGAC
Found at i:157661 original size:160 final size:170
Alignment explanation
Indices: 157490--157826 Score: 581
Period size: 160 Copynumber: 2.1 Consensus size: 170
157480 GTAAAAAGCC
157490 TAATCTTAAATTTAATACTGCCAAAAAGGATGAAAATAACAAATAATGAAGTTAGG-TACCAACA
1 TAATCTTAAATTTAATACTGCCAAAAAGGATGAAAATAACAAATAATGAAGTTAGGCTACCAACA
157554 TGTAAATTGAATAGTACCTTAATT-AACATG-TATGTAA-TAAATCATAAAGTAAC-AAG-TACA
66 TGTAAATTGAATAGTACCTTAATTAAACATGTTATGTAATTAAATCATAAAGTAACAAAGTTACA
157614 GAAC-AA-ATAAGAACAATCATAAAATG-A-AAAACCATA
131 GAACAAATATAAGAACAATCATAAAATGAACAAAACCATA
157650 TAATCTTAAATTTAATACTGCCAAAAAGGATGAAAATAACAAATAATGAAGTTAGGCTACCAACA
1 TAATCTTAAATTTAATACTGCCAAAAAGGATGAAAATAACAAATAATGAAGTTAGGCTACCAACA
157715 TGTAAATTGAATAGTACCTTAATTAAACATGTTATGTAATTAAATCATAAAGTAACAAAGTTACA
66 TGTAAATTGAATAGTACCTTAATTAAACATGTTATGTAATTAAATCATAAAGTAACAAAGTTACA
*
157780 GAACAAATATAAGAACAATTATAAAATGAACAAAACCATA
131 GAACAAATATAAGAACAATCATAAAATGAACAAAACCATA
157820 -AA-CTTAA
1 TAATCTTAA
157827 GATTAGAAAG
Statistics
Matches: 166, Mismatches: 1, Indels: 12
0.93 0.01 0.07
Matches are distributed among these distances:
160 56 0.34
161 32 0.19
162 6 0.04
163 7 0.04
164 16 0.10
165 3 0.02
166 8 0.05
167 2 0.01
168 24 0.14
169 3 0.02
170 9 0.05
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.26
Consensus pattern (170 bp):
TAATCTTAAATTTAATACTGCCAAAAAGGATGAAAATAACAAATAATGAAGTTAGGCTACCAACA
TGTAAATTGAATAGTACCTTAATTAAACATGTTATGTAATTAAATCATAAAGTAACAAAGTTACA
GAACAAATATAAGAACAATCATAAAATGAACAAAACCATA
Found at i:159035 original size:3 final size:3
Alignment explanation
Indices: 159027--159076 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
159017 TAATTTGTAT
159027 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
159075 TA
1 TA
159077 TTTATAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:159418 original size:55 final size:55
Alignment explanation
Indices: 159355--159689 Score: 487
Period size: 55 Copynumber: 6.1 Consensus size: 55
159345 TATAGGACTA
* * *
159355 AATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGC
1 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
159410 AATCTTCAACAATAGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
159465 AATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAAC
1 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
159520 AATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGTGTATAAGACTCGAAC
1 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
159575 AATCTTCAACAATCGTGTCTGCTCTCTATTTCTTTAGAGAGTATATGAATCGAAC
1 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
159630 AA---TCAACAATCATGTGTGCTCCCTATTTCTTAAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
159682 AATCTTCA
1 AATCTTCA
159690 TTTGCTTCAC
Statistics
Matches: 252, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
52 46 0.18
55 206 0.82
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (55 bp):
AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:168690 original size:50 final size:50
Alignment explanation
Indices: 168632--168736 Score: 210
Period size: 50 Copynumber: 2.1 Consensus size: 50
168622 TTTGCTTTTT
168632 ACTTTTCCTTAAAAGTATCCTATGTGTTGTTATCTTCTCCTTCTCCATTC
1 ACTTTTCCTTAAAAGTATCCTATGTGTTGTTATCTTCTCCTTCTCCATTC
168682 ACTTTTCCTTAAAAGTATCCTATGTGTTGTTATCTTCTCCTTCTCCATTC
1 ACTTTTCCTTAAAAGTATCCTATGTGTTGTTATCTTCTCCTTCTCCATTC
168732 ACTTT
1 ACTTT
168737 CTTTTTTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.18, C:0.26, G:0.08, T:0.49
Consensus pattern (50 bp):
ACTTTTCCTTAAAAGTATCCTATGTGTTGTTATCTTCTCCTTCTCCATTC
Found at i:169903 original size:55 final size:55
Alignment explanation
Indices: 169828--170540 Score: 655
Period size: 55 Copynumber: 13.6 Consensus size: 55
169818 ACCGGCGGTT
* * * * * * * *
169828 TGCTCCCTCTTGCTTTAGAGAGTGTAAAACTCAAACAATCTTCATA-AAACGGGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGTGTC
* * * *
169883 TGTTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTTAACAAACGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * *
169934 TGCTCCCTATTCATTTAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGT-
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * * * *
169984 TCGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAACCTTCAACATTTGTGTC
1 T-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
170040 TTCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
** * *
170095 CACTCCCTATTCCTTTAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTA
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * *
170150 TGCTCCCTATTTCTTCAGAAAATATAAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
170205 TGCTCCCTATTCCTTCAGAGAGTATATGACTCGAACAATTTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * *
170260 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTTAACAATCGTGTT
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
*
170315 TGCTCCCTATTCCTTTAGAGAGTATAAGACTCG----------AACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
*
170360 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA---T---C-A---TGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
170405 TGCTCCCTATTTCTTCAAAGAGTATAAGACTCG----------AACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * * * *
170450 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCCACAAACGGGTT
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
170505 TGCTCCATCT-TTCTTTCAG-GAAGTATAAAACTCGAA
1 TGCTCC--CTATTCCTTCAGAG-AGTATAAGACTCGAA
170541 TAATGTTCTG
Statistics
Matches: 560, Mismatches: 66, Indels: 63
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
45 113 0.20
48 1 0.00
49 1 0.00
50 2 0.00
51 88 0.16
55 330 0.59
56 21 0.04
57 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
Found at i:170367 original size:45 final size:45
Alignment explanation
Indices: 170303--170489 Score: 320
Period size: 45 Copynumber: 4.2 Consensus size: 45
170293 AACAATCTTT
* * *
170303 AACAATCGTGTTTGCTCCCTATTCCTTTAGAGAGTATAAGACTCG
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
170348 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
* *
170393 AACAATCATGTCTGCTCCCTATTTCTTCAAAGAGTATAAGACTCG
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
*
170438 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCA
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
170483 AACAATC
1 AACAATC
170490 TTCCACAAAC
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (45 bp):
AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
Found at i:170667 original size:112 final size:110
Alignment explanation
Indices: 170451--170794 Score: 378
Period size: 112 Copynumber: 3.1 Consensus size: 110
170441 AATCGTGTCT
* * * * *
170451 GCTCCCTATTTC-TTC-AGAGAGTATAAGACTCAAACAATCTTCCACAAACGGGTTTGCTCCATC
1 GCTCCCTCTTTCTTTCAAGA-AGTATAA-ACTCGAA-AATCTTCTACAAACGGGTTCGCTCCCTC
* *
170514 TTTCTTTCAGGAAGTATAAAACTCGAATAATGTTCTGCAAACGGGTTC
63 TTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
170562 GCTCCCTCTTTCTTTCAAGAAGTATATAACTCGAATAATCTTCTACAAACGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTCAAGAAGTATA-AACTCGAA-AATCTTCTACAAACGGGTTCGCTCCCTCT
* *
170627 TTTTTTCAGGAAGTATAGAGCTCGAATAATCTTCTGCAAACGGGTTC
64 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
* * * * * * **
170674 GCTCCCTCTTTCTCT-AGGGAGTATGAAACTTGAACATCTTCTTCTTACGGGTTCGCTCCCTCTT
1 GCTCCCTCTTTCTTTCAAGAAGTAT-AAACTCGAAAATCTTCTACAAACGGGTTCGCTCCCTCTT
* * * *
170738 TCTCT-AGGGAGTAT-GCAACTAGAA-CATCTTCTG-AAGACGGGTTC
65 TCTTTCAGGAAGTATAG-AACTCGAATAATCTTCTGCAA-ACGGGTTC
170782 GCTCCCTCTTTCT
1 GCTCCCTCTTTCT
170795 CTAGGGAGTA
Statistics
Matches: 203, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
107 2 0.01
108 30 0.15
109 14 0.07
110 29 0.14
111 25 0.12
112 99 0.49
113 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (110 bp):
GCTCCCTCTTTCTTTCAAGAAGTATAAACTCGAAAATCTTCTACAAACGGGTTCGCTCCCTCTTT
CTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
Found at i:170734 original size:54 final size:54
Alignment explanation
Indices: 170451--170823 Score: 333
Period size: 56 Copynumber: 6.8 Consensus size: 54
170441 AATCGTGTCT
* * * ** *
170451 GCTCCCTATTTCT-TCAGAGAGTAT-AAGACTCAAACAATCTTCCACAAACGGGTTT
1 GCTCCCTCTTTCTCT-AGGGAGTATGAA-ACTCGAAC-ATCTTCTGCAAACGGGTTC
* * * * * *
170506 GCTCCATCTTTCTTTCAGGAAGTATAAAACTCGAATAATGTTCTGCAAACGGGTTC
1 GCTCCCTCTTTCTCT-AGGGAGTATGAAACTCGAA-CATCTTCTGCAAACGGGTTC
* * * * *
170562 GCTCCCTCTTTCTTTCAAGAAGTAT-ATAACTCGAATAATCTTCTACAAACGGGTTC
1 GCTCCCTCTTTCTCT-AGGGAGTATGA-AACTCGAA-CATCTTCTGCAAACGGGTTC
* * * * *
170618 GCTCCCTCTTTTTTTCAGGAAGTAT-AGAGCTCGAATAATCTTCTGCAAACGGGTTC
1 GCTCCCTCTTTCTCT-AGGGAGTATGA-AACTCGAA-CATCTTCTGCAAACGGGTTC
* * **
170674 GCTCCCTCTTTCTCTAGGGAGTATGAAACTTGAACATCTTCTTCTTACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGAAACTCGAACATCTTCTGCAAACGGGTTC
* *
170728 GCTCCCTCTTTCTCTAGGGAGTATGCAACTAGAACATCTTCTG-AAGACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGAAACTCGAACATCTTCTGCAA-ACGGGTTC
* *
170782 GCTCCCTCTTTCTCTAGGGAGTATGGAACTTGAACATCTTCT
1 GCTCCCTCTTTCTCTAGGGAGTATGAAACTCGAACATCTTCT
170824 CTTGCTTCAC
Statistics
Matches: 277, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
54 104 0.38
55 26 0.09
56 145 0.52
57 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (54 bp):
GCTCCCTCTTTCTCTAGGGAGTATGAAACTCGAACATCTTCTGCAAACGGGTTC
Found at i:170788 original size:108 final size:110
Alignment explanation
Indices: 170487--170823 Score: 396
Period size: 112 Copynumber: 3.1 Consensus size: 110
170477 GACTCAAACA
* * * * * * *
170487 ATCTTCCACAAACGGGTTTGCTCCATCTTTCTTTCAGGAAGTATAAAACTCGAATAATGTTCTGC
1 ATCTTCTACAAACGGGTTCGCTCCCTCTTTCTCTCAGGAAGTATAGAACTAGAATAATCTTCTGC
* * * * *
170552 AAACGGGTTCGCTCCCTCTTTCTTTCAAGAAGTAT-ATAACTCGAATA
66 AAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGA-AACTTGAA-C
* * * *
170599 ATCTTCTACAAACGGGTTCGCTCCCTCTTTTTTTCAGGAAGTATAGAGCTCGAATAATCTTCTGC
1 ATCTTCTACAAACGGGTTCGCTCCCTCTTTCTCTCAGGAAGTATAGAACTAGAATAATCTTCTGC
170664 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGAAACTTGAAC
66 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGAAACTTGAAC
* ** * *
170709 ATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTAT-GCAACTAGAA-CATCTTCTG
1 ATCTTCTACAAACGGGTTCGCTCCCTCTTTCTCTCAGGAAGTATAG-AACTAGAATAATCTTCTG
*
170771 -AAGACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTTGAAC
65 CAA-ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGAAACTTGAAC
170817 ATCTTCT
1 ATCTTCT
170824 CTTGCTTCAC
Statistics
Matches: 200, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
107 2 0.01
108 58 0.29
109 14 0.07
110 29 0.14
111 14 0.07
112 83 0.41
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
ATCTTCTACAAACGGGTTCGCTCCCTCTTTCTCTCAGGAAGTATAGAACTAGAATAATCTTCTGC
AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGAAACTTGAAC
Found at i:170885 original size:37 final size:37
Alignment explanation
Indices: 170825--170905 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
170815 ACATCTTCTC
*
170825 TTGCTTCACTACTTCTTTATGAAGGCTTATAG-ATGAT
1 TTGCTTCACTACTACTTTATGAAGGCTTA-AGTATGAT
* *
170862 TTGCTTCACTAC-ACTTTCGTGAAGGCTTAAGTTTGAT
1 TTGCTTCACTACTACTTT-ATGAAGGCTTAAGTATGAT
170899 TTGCTTC
1 TTGCTTC
170906 GAAGGTCGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 6 0.15
37 33 0.85
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (37 bp):
TTGCTTCACTACTACTTTATGAAGGCTTAAGTATGAT
Found at i:171260 original size:37 final size:36
Alignment explanation
Indices: 171219--171297 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
171209 TTGCTCCAAC
*
171219 ACTCTTCTGA-GAAGGCTTAAAATGAATTTGCTTCACT
1 ACTCTTC-GATGAAGACTTAAAATG-ATTTGCTTCACT
* *
171256 ACTCTTCGATGAAGACTTAAGATGGTTTGCTTCACT
1 ACTCTTCGATGAAGACTTAAAATGATTTGCTTCACT
171292 ACTCTT
1 ACTCTT
171298 TGGTAAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 19 0.50
37 19 0.50
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (36 bp):
ACTCTTCGATGAAGACTTAAAATGATTTGCTTCACT
Found at i:171292 original size:36 final size:36
Alignment explanation
Indices: 171203--171348 Score: 120
Period size: 37 Copynumber: 4.0 Consensus size: 36
171193 CTTATAATCT
* *
171203 GATGGTTTGCTCCAAC-ACTCTTCTGA-GAAGGCTTAA
1 GATGGTTTGCTTC-ACTACTCTTC-GATGAAGACTTAA
* *
171239 AATGAATTTGCTTCACTACTCTTCGATGAAGACTTAA
1 GATG-GTTTGCTTCACTACTCTTCGATGAAGACTTAA
* * *
171276 GATGGTTTGCTTCACTACTCTTTGGTAAAAGA-TTAA
1 GATGGTTTGCTTCACTACTCTTCGAT-GAAGACTTAA
* * *
171312 GATGGATTTACTTTACTACTCTTC-AGTGAAGGCTTAA
1 GATGG-TTTGCTTCACTACTCTTCGA-TGAAGACTTAA
171349 CAAGTCACTT
Statistics
Matches: 88, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
36 38 0.43
37 50 0.57
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (36 bp):
GATGGTTTGCTTCACTACTCTTCGATGAAGACTTAA
Found at i:172819 original size:125 final size:125
Alignment explanation
Indices: 172621--172848 Score: 366
Period size: 125 Copynumber: 1.8 Consensus size: 125
172611 GTACACACCT
* * * * *
172621 TCAAAATGCCCCATCACCTCAAATTGTAAGGCTCGTTCTTTATGCCTCCTTGGTCTGAATCTTAT
1 TCAAAATGCCCCATCACCTCAAATTATAAGGCTCATTCTTCATGCCTCATTGGCCTGAATCTTAT
*
172686 CATCTCAACATGATATGGGTTCAGTCGTGGCCCAACATTATCTTATACCGGTATGGGCCC
66 CATCTCAACATGATATGGGTTCAGTCGTGCCCCAACATTATCTTATACCGGTATGGGCCC
* *
172746 TCAAAATGCCTCATCACCTCAAATTATAAGGCTCATTCTTCATGCCTCATTGGCCTGAATCTTTT
1 TCAAAATGCCCCATCACCTCAAATTATAAGGCTCATTCTTCATGCCTCATTGGCCTGAATCTTAT
* *
172811 CATCTCAACATGATGTGGTTTCAGTCGTGCCCCAACAT
66 CATCTCAACATGATATGGGTTCAGTCGTGCCCCAACAT
172849 ATCCTAACTT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 93 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (125 bp):
TCAAAATGCCCCATCACCTCAAATTATAAGGCTCATTCTTCATGCCTCATTGGCCTGAATCTTAT
CATCTCAACATGATATGGGTTCAGTCGTGCCCCAACATTATCTTATACCGGTATGGGCCC
Found at i:182232 original size:3 final size:3
Alignment explanation
Indices: 182218--182280 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
182208 TATGTAACAT
* * * *
182218 TAA TAG TAA TAA TAA TAA TAA TAA TAA TGTA TTA TAA T-A TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
182263 TTA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA T
182281 TTTAATATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:182290 original size:36 final size:38
Alignment explanation
Indices: 182218--182293 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
182208 TATGTAACAT
*
182218 TAATAGTAATAATAATAATAATAATAATGTATTATAATA
1 TAATAGTAATAATAATAATAATAAT-ATGTAATATAATA
* *
182257 TAATAGTTATAATAATAAT-ATAAT-TTTAATATAATA
1 TAATAGTAATAATAATAATAATAATATGTAATATAATA
182293 T
1 T
182294 TTAAAATTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 11 0.32
38 5 0.15
39 18 0.53
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (38 bp):
TAATAGTAATAATAATAATAATAATATGTAATATAATA
Found at i:188989 original size:36 final size:36
Alignment explanation
Indices: 188948--189023 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
188938 ATTTTCGGGA
*
188948 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
188984 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
189020 TTTT
1 TTTT
189024 TTTGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:189422 original size:17 final size:17
Alignment explanation
Indices: 189400--189436 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
189390 ATTAATTATC
189400 TTATATTTTTATTGATA
1 TTATATTTTTATTGATA
189417 TTATATTTTTATTGATA
1 TTATATTTTTATTGATA
189434 TTA
1 TTA
189437 AAGTGTCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (17 bp):
TTATATTTTTATTGATA
Found at i:194678 original size:136 final size:136
Alignment explanation
Indices: 194459--195146 Score: 860
Period size: 136 Copynumber: 5.1 Consensus size: 136
194449 ATCTTCTGAC
* * *** * * * * **
194459 TGGAAATGTTGATCCCTCAAGTGAGGCATTGCTGATTGGAAATGCCATGAATCGTCCAATAGGTC
1 TGGAAATGTTAATCCCTCAAGCGAGATGTTTCTAATTCGAAATGCCGTGAATCGAGCAATAGGTC
* * * *
194524 GAACAAGTTCTTATCATTATGAACTTGTTATCCCTCTGTCGAATGAGTTCTTCTCATTATGAACT
66 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
*
194589 ATCCAT
131 CTCCAT
* * *
194595 TGGAAATGTTAATCCCTCGAGCGAGATGTTTCTAATTCGAAATACCATGAATCGAGCAATAGGTC
1 TGGAAATGTTAATCCCTCAAGCGAGATGTTTCTAATTCGAAATGCCGTGAATCGAGCAATAGGTC
* *
194660 GAACAAGTTCTTCTCATTATGAGCTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
66 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
194725 CTCCAT
131 CTCCAT
* * * * * *
194731 TGGAAATATTAATCCCTCAAGCGAGGTGTTGCTGATTTGAAATGTCGTGAATCGAGCAATAGGTC
1 TGGAAATGTTAATCCCTCAAGCGAGATGTTTCTAATTCGAAATGCCGTGAATCGAGCAATAGGTC
* *
194796 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGATTTCTTCTCATTATGAACT
66 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
194861 CTCCAT
131 CTCCAT
* ** ** * ** *
194867 TGGAAATGCTAATCCCTCAAGCGAGGCGTTAATGATTCGAAATATCGTGAATCGAGAAATAGG-C
1 TGGAAATGTTAATCCCTCAAGCGAGATGTTTCTAATTCGAAATGCCGTGAATCGAGCAATAGGTC
* * *
194931 TAACAAGTTCTTCTCGTTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
66 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
194996 CTCCAT
131 CTCCAT
* ** ** * *
195002 TGGAAATGTTAATCCCTCAAGAGAGA-CATTGGATATTTGAAATGCTGTGAATCGAGCAATAGGT
1 TGGAAATGTTAATCCCTCAAGCGAGATGTTTCTA-ATTCGAAATGCCGTGAATCGAGCAATAGGT
** * * *
195066 CGAACAAGTTCTTCTCATTATGAGTTTCTTCTCCCTTTATTGGATGAGTAT-TTCTCATTATGAA
65 CGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGT-TCTTCTCATTATGAA
195130 CTCTCCAT
129 CTCTCCAT
195138 TGGAAATGT
1 TGGAAATGT
195147 GGATCGATTT
Statistics
Matches: 485, Mismatches: 64, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
134 1 0.00
135 114 0.24
136 369 0.76
137 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (136 bp):
TGGAAATGTTAATCCCTCAAGCGAGATGTTTCTAATTCGAAATGCCGTGAATCGAGCAATAGGTC
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCAT
Found at i:195060 original size:271 final size:272
Alignment explanation
Indices: 194459--195145 Score: 959
Period size: 271 Copynumber: 2.5 Consensus size: 272
194449 ATCTTCTGAC
* * * ** **
194459 TGGAAATGTTGATCCCTCAAGTGAGGCATTGCTGATTGGAAATGCCATGAATCGTCCAATAGGTC
1 TGGAAATGTTAATCCCTCAAGAGAGGCATTGCTGATTTGAAATGCTGTGAATCGAGCAATAGGTC
* * * * * *
194524 GAACAAGTTCTTATCATTATGAACTTGTTATCCCTCTGTCGAATGAGTTCTTCTCATTATGAACT
66 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGATTTCTTCTCATTATGAACT
* * * * ** *
194589 ATCCATTGGAAATGTTAATCCCTCGAGCGAGATGTTTCTAATTCGAAATACCATGAATCGAGCAA
131 CTCCATTGGAAATGCTAATCCCTCAAGCGAGACGTTAATAATTCGAAATACCATGAATCGAGAAA
*
194654 TAGGTCGAACAAGTTCTTCTCATTATGAGCTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTA
196 TAGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTA
194719 TGAACTCTCCAT
261 TGAACTCTCCAT
* * **
194731 TGGAAATATTAATCCCTCAAGCGAGGTGTTGCTGATTTGAAATG-TCGTGAATCGAGCAATAGGT
1 TGGAAATGTTAATCCCTCAAGAGAGGCATTGCTGATTTGAAATGCT-GTGAATCGAGCAATAGGT
194795 CGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGATTTCTTCTCATTATGAAC
65 CGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGATTTCTTCTCATTATGAAC
* * * *
194860 TCTCCATTGGAAATGCTAATCCCTCAAGCGAGGCGTTAATGATTCGAAATATCGTGAATCGAGAA
130 TCTCCATTGGAAATGCTAATCCCTCAAGCGAGACGTTAATAATTCGAAATACCATGAATCGAGAA
* * * *
194925 ATAGG-CTAACAAGTTCTTCTCGTTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATT
195 ATAGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATT
194989 ATGAACTCTCCAT
260 ATGAACTCTCCAT
* *
195002 TGGAAATGTTAATCCCTCAAGAGAGACATTGGAT-ATTTGAAATGCTGTGAATCGAGCAATAGGT
1 TGGAAATGTTAATCCCTCAAGAGAGGCATT-GCTGATTTGAAATGCTGTGAATCGAGCAATAGGT
** * * *
195066 CGAACAAGTTCTTCTCATTATGAGTTTCTTCTCCCTTTATTGGATGAGTAT-TTCTCATTATGAA
65 CGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGA-TTTCTTCTCATTATGAA
195130 CTCTCCATTGGAAATG
129 CTCTCCATTGGAAATG
195146 TGGATCGATT
Statistics
Matches: 368, Mismatches: 43, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
271 192 0.52
272 176 0.48
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (272 bp):
TGGAAATGTTAATCCCTCAAGAGAGGCATTGCTGATTTGAAATGCTGTGAATCGAGCAATAGGTC
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGATTTCTTCTCATTATGAACT
CTCCATTGGAAATGCTAATCCCTCAAGCGAGACGTTAATAATTCGAAATACCATGAATCGAGAAA
TAGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTA
TGAACTCTCCAT
Found at i:215358 original size:30 final size:29
Alignment explanation
Indices: 215278--215415 Score: 165
Period size: 30 Copynumber: 4.8 Consensus size: 29
215268 AATAATTTTT
* *
215278 AGAATGTCACATTTTT-CAAATATTTCTC
1 AGAATGTCACATTTTTAAAAATATTTCCC
*
215306 AGAATGTCAC-TTTTTCAAAATATTTCCC
1 AGAATGTCACATTTTTAAAAATATTTCCC
*
215334 AGAATGTCACTTTTTTAAAAAATATTTCCC
1 AGAATGTCACATTTTT-AAAAATATTTCCC
* *
215364 AGAATGTCACATTTTCACAAAAAATTT-CC
1 AGAATGTCACATTTTTA-AAAATATTTCCC
*
215393 AGAATGTCACCTTTTTCAAAAAT
1 AGAATGTCACATTTTT-AAAAAT
215416 TCCTGAATGT
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.05
28 30 0.31
29 26 0.27
30 35 0.36
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (29 bp):
AGAATGTCACATTTTTAAAAATATTTCCC
Found at i:215395 original size:29 final size:28
Alignment explanation
Indices: 215278--215428 Score: 166
Period size: 28 Copynumber: 5.4 Consensus size: 28
215268 AATAATTTTT
*
215278 AGAATGTCACATTTTTC-AAATATTTCTC
1 AGAATGTCACATTTTTCAAAAAATTTC-C
*
215306 AGAATGTCAC-TTTTTCAAAATATTTCCC
1 AGAATGTCACATTTTTCAAAAAATTT-CC
* *
215334 AGAATGTCACTTTTTTAAAAAATATTTCCC
1 AGAATGTCACATTTTTCAAAAA-ATTT-CC
*
215364 AGAATGTCACATTTTCACAAAAAATTTCC
1 AGAATGTCACATTTT-TCAAAAAATTTCC
*
215393 AGAATGTCACCTTTTTC-AAAAA-TTCC
1 AGAATGTCACATTTTTCAAAAAATTTCC
*
215419 TGAATGTCAC
1 AGAATGTCAC
215429 TAGGTCGAGT
Statistics
Matches: 110, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.12
27 11 0.10
28 30 0.27
29 26 0.24
30 25 0.23
31 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (28 bp):
AGAATGTCACATTTTTCAAAAAATTTCC
Found at i:222436 original size:29 final size:29
Alignment explanation
Indices: 222394--222554 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
222384 CACATTCGAA
*
222394 AATTCCCAAAATGTCACCTTTTTAAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
**
222423 AATTCCCATCATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
222452 AATTCCCAAAATGTTA-CTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* * *
222480 ATTTCTCAAAATATCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* * * *
222509 -ATATCCCAGAATATTACCTTTTTTAAAAT
1 AAT-TCCCAAAATGTCACCTTTTTCAAAAT
* *
222538 ATTTCCCAGAATGTCAC
1 AATTCCCAAAATGTCAC
222555 TGGGTCGGGT
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 25 0.23
29 85 0.77
30 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:222497 original size:57 final size:58
Alignment explanation
Indices: 222394--222554 Score: 191
Period size: 57 Copynumber: 2.8 Consensus size: 58
222384 CACATTCGAA
* * ** *
222394 AATTCCCAAAATGTCACCTTTTTAAAAATAATTCCCATCATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCACCTTTTTCAAAAT
* *
222452 AATTCCCAAAATGTTA-CTTTTTCAAAATATTTCTCAAAATATCACCTTTTTCAAAAT
1 AATTCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCACCTTTTTCAAAAT
* * * * *
222509 -ATATCCCAGAATATTACCTTTTTTAAAATATTTCCCAGAATGTCAC
1 AAT-TCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCAC
222555 TGGGTCGGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 2 0.02
57 46 0.52
58 40 0.45
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (58 bp):
AATTCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCACCTTTTTCAAAAT
Found at i:222576 original size:17 final size:17
Alignment explanation
Indices: 222556--222599 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
222546 GAATGTCACT
222556 GGGTCGGGTCGGTCAAC
1 GGGTCGGGTCGGTCAAC
*
222573 GGGTCGGATCGGTCAAC
1 GGGTCGGGTCGGTCAAC
*
222590 GGATCGGGTC
1 GGGTCGGGTC
222600 AAACCGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGGTCGGGTCGGTCAAC
Found at i:223732 original size:139 final size:139
Alignment explanation
Indices: 223557--223951 Score: 390
Period size: 139 Copynumber: 2.8 Consensus size: 139
223547 ATAAGAGAAC
* * * *
223557 ACCAAATAAAAAATTCTCCTAGATTAAAGGACTAAGTTTGGAATTAAACCTAAAATGGAGGCTCT
1 ACCAAATAAAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACCTAAAATGGAGGCTCT
* * * * * *
223622 AAATATTAACCTATTTAATTGTAATCAATTA-CTGACTCA-AATAATTAAATTGGAACTTAGAAT
66 AAATATTAACCTAATCAATTGTAACCAATTATCTGA-TCAGAATAATTAAAATGGAACCTAGAAC
*
223685 AAAAGTGAGA
130 AAAAGCGAGA
* * *
223695 ACCAAATAAAAAAATTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAACCTACAATGGA-GCTT
1 ACCAAAT-AAAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACCTAAAATGGAGGC-T
* * * * * * * *
223759 CTAATTATTAGCCTAATCAATTTTAACCAATTATTTGATTAGAATGATTAAAATGGAACCTCGAG
64 CTAAATATTAACCTAATCAATTGTAACCAATTATCTGATCAGAATAATTAAAATGGAACCTAGAA
*
223824 CAAAAGCGAGG
129 CAAAAGCGAGA
* * * *
223835 ACCAAATTAAAAATTAC-CCTAAATTTAAGGACTAAATGTGAAATTAAGCCTAAAATAGAAGGCT
1 ACCAAATAAAAAATT-CTCCTAAATTTAAGGACTAAGTGTGAAATTAAACCTAAAAT-GGAGGCT
* * * * *
223899 CT-AATATTAGTCCAAAT-AATTTTAAACAATTATTTGATTC-GAATAATTAAAAT
64 CTAAATATTA-ACCTAATCAATTGTAACCAATTATCTGA-TCAGAATAATTAAAAT
223952 ACAACCTCTA
Statistics
Matches: 212, Mismatches: 36, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
138 9 0.04
139 153 0.72
140 48 0.23
141 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (139 bp):
ACCAAATAAAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACCTAAAATGGAGGCTCT
AAATATTAACCTAATCAATTGTAACCAATTATCTGATCAGAATAATTAAAATGGAACCTAGAACA
AAAGCGAGA
Found at i:226152 original size:19 final size:20
Alignment explanation
Indices: 226101--226141 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
226091 AATGCATATC
226101 CCAGATATTATAAGCATAGT
1 CCAGATATTATAAGCATAGT
226121 CCAGATATTATAAGCATAGT
1 CCAGATATTATAAGCATAGT
226141 C
1 C
226142 AATCATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
CCAGATATTATAAGCATAGT
Found at i:227793 original size:136 final size:136
Alignment explanation
Indices: 227600--227988 Score: 363
Period size: 136 Copynumber: 2.8 Consensus size: 136
227590 CAAAAAGTGT
* * *** * ** * *
227600 AGGCTCTAATATTAATCCTAATCATTTTTAGTGAATTAT-TGAATTGAATAGTCAAAATGGAACC
1 AGGCTCTAATATTAA-CCTAATCAATTGTAACCAATTATCTGACTCAAATAATTAAAATGGAACC
* * * * * * *
227664 TCGAGGATAAGCGAGCACCAAATCAAAAATTCTCCTAGATTAAAGGACTAAGTTTGGAATTAAAC
65 TCGAGCAAAAGTGAG-ACCAAAT-AAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAAC
227729 CTAAAACGG
128 CTAAAACGG
* * *
227738 AGGCTCTAA-ATTAACCTATTTAATTGTAATCAATTA-CTGACTCAAATAATTAAAATGGAACCT
1 AGGCTCTAATATTAACCTAATCAATTGTAACCAATTATCTGACTCAAATAATTAAAATGGAACCT
** * * *
227801 CGAATAAAATTGAGAACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAACC
66 CGAGCAAAAGTGAG-ACCAAATAAAAA-TTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACC
*
227866 TAAAATGG
129 TAAAACGG
** * * * * * *
227874 AGTTTCTAATTATTAGCCTAATCAATTTTAACCAATTATTTGATTCGAATGATTAAAATGGAACC
1 AGGCTCTAA-TATTAACCTAATCAATTGTAACCAATTATCTGACTCAAATAATTAAAATGGAACC
227939 TCGAGCAAAAGTGATGACCAAATTAAAAATTAC-CCTAAATTTAAGGACTA
65 TCGAGCAAAAGTGA-GACCAAA-TAAAAATT-CTCCTAAATTTAAGGACTA
227989 TGTAACAACC
Statistics
Matches: 203, Mismatches: 40, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
135 5 0.02
136 98 0.48
137 5 0.02
138 31 0.15
139 56 0.28
140 8 0.04
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (136 bp):
AGGCTCTAATATTAACCTAATCAATTGTAACCAATTATCTGACTCAAATAATTAAAATGGAACCT
CGAGCAAAAGTGAGACCAAATAAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACCTA
AAACGG
Found at i:228826 original size:29 final size:29
Alignment explanation
Indices: 228782--228863 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
228772 CCCGACACGA
*
228782 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
228811 TGACATTCTGGAAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
228840 TGACATTCTGGGAAATATTTTGAA
1 TGACATTCTGGGAAATATTTTGAA
228864 CAAATGACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAGG
Found at i:228880 original size:28 final size:29
Alignment explanation
Indices: 228780--228881 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
228770 GACCCGACAC
*
228780 GATGACATTTTGGGAAATATTTTGAAATA
1 GATGACATTCTGGGAAATATTTTGAAATA
* *
228809 GGTGACATTCTGGAAAATATTTTGAAATA
1 GATGACATTCTGGGAAATATTTTGAAATA
*
228838 GGTGACATTCTGGGAAATATTTTGAACA-A
1 GATGACATTCTGGGAAATATTTTGAA-ATA
*
228867 -ATGACATTTTGGGAA
1 GATGACATTCTGGGAA
228882 TTTTCGAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 13 0.20
29 52 0.79
30 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (29 bp):
GATGACATTCTGGGAAATATTTTGAAATA
Found at i:234611 original size:710 final size:709
Alignment explanation
Indices: 232649--235059 Score: 3920
Period size: 710 Copynumber: 3.4 Consensus size: 709
232639 TTTCGTAATA
* *
232649 AATGACAATTATATTTTTTCAGATGGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATT
1 AATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATT
* * * *
232714 CACGGTTCGAAAATCATGAAGTTAAGTGAGTTAGCAATGTTATTCATTTTTTAAGATGAATCCAA
66 CAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCA-TTTTTAAGATGAATCCAA
* *
232779 TAGGGATAAAGTTTTAAAGAACAATATATGCTCGCTGGAAAAATGGTTTGACGAGGTGGAGGTTT
130 TAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAAATGGTTTGACAAGGTGGAGGTTT
* * *
232844 GGTCGGATGAGATTGTGTGTCGAAGCCACCGTACATGGTTGTCTTATAAAGGTATTATAGTTGGG
195 GGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGG
* * * * *
232909 AGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGAAAACACCTAGGGGCTGTCTGTTGAGGG
260 AGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGGG
* * * *
232974 AAATTGAGATCAGGATAGATTCTCATTGAGGTGACATAGTCTGAGTCGAGTTTTTCCAGATCAAT
325 AAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTAT
* ** * *
233039 AAAACAGGTTAGTGCTAATGAAGATAGTCGTAGCAAGTCCCCGTAAGTGATTGATTTCCAAAAAT
390 AAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAAT
* *
233104 AGATTTTGGTTTATCAGTTCACAAGACAGAAAACCAAGTTACAGGTGTTGGGCCCTGTAGACTAT
455 AGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTACAGGGGTTGGGCCCTGTAGACTAT
233169 AATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAA
520 AATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAA
* * *
233234 GCCTTGATCAAGCTTGAATGTATAAAACAATTTAGTCTTCACATTAGTAACGTTATCATAAGTGT
585 GCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGT
* * * *
233299 CAACTTTACTTACACTTGTATCACCATGGGCAATATAATAATTAACTTGATCCTAGTAATC
650 CAACTTTACTTACAATTGTATCACCATGGGCAATATCATAATTAACTTGATCCT-CTTATC
* *
233360 AATGACAATTATAT-TGTTTCAGATAGTGTAAGATTTTCTTGAAGA-AAAAGACCTTGCAAGTGT
1 AATGACAATTATATCT-TTTCAGATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTAT
* * *
233423 TCAAGGTCCGAAAATAATGAAG-T---TGAGTTAGAAATGTTAATCATTTTTTATGATGCATCCA
65 TCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCA-TTTTTAAGATGAATCCA
* *
233484 AGAGGGATAAAGTTTTAAACAACAATATATGCTTGCTGGAAAAATGGTTTGACAAGGTGGAGGTT
129 ATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAAATGGTTTGACAAGGTGGAGGTT
* *
233549 TGGTCGGATGAGATTGAGTGTCGAAGCCGCAGTATATGGTTGTCTTGTAAAGGTATTATAGTTGG
194 TGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGG
* * **
233614 GAGAGAGAATCGGTTGGTACCAAGTTCGATATCCTGTGGAAACACTTAGCGACACACTGCTGAGG
259 GAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGG
233679 GAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTA
324 GAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTA
* * * * *
233744 TAAAACATGTTATTACTAATGATGATAATCGTAGTTAGTCTCCGTAAATGATTGATTTCTAAAAA
389 TAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAA
* *
233809 TAGATTTTGGTTTATCAGTTCACAAGATAGAAAAACAAGTTACAAGGGTTGGGCCCTGTAGACTA
454 TAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTACAGGGGTTGGGCCCTGTAGACTA
* *
233874 TAATCGGCAAATAACCGAAGCAAAAATTTATTTCGATGATCACCAATGATTCTCAATCGGGTCCA
519 TAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCA
*
233939 AGCCTTGACCAAGCTTGAATGTACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTG
584 AGCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTG
*
234004 TCAACTTTACTTACAATTGTATCAACATGGGCAATATCATAATTAACTTGATCCTCCTTATC
649 TCAACTTTACTTACAATTGTATCACCATGGGCAATATCATAATTAACTTGATCCT-CTTATC
234066 AATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATT
1 AATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATT
*
234131 CAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCATATTTAATGATGAATCCAA
66 CAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCATTTTTAA-GATGAATCCAA
*
234196 TAGGGATAAAGTTTTAAACAACAATATATGCTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTT
130 TAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAAATGGTTTGACAAGGTGGAGGTTT
*
234261 GTTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGG
195 GGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGG
*
234326 AGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTACT-AGGG
260 AGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGGG
*
234390 AAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAAATCTAT
325 AAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTAT
*
234455 AAAACATGTTAGTGCTAATGACGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAAT
390 AAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAAT
* *
234520 AGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTACAGGGGTTGGGCCATGTATACTAT
455 AGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTACAGGGGTTGGGCCCTGTAGACTAT
* *
234585 AATCGGAAAATAACCGAAGCAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGATCCAA
520 AATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAA
* * *
234650 GCCTTGATCAAGCTGGAATGTTCAAGACAATTTAGTCTTCACATTAGCAAGGTTATCATAAGTGT
585 GCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGT
* *
234715 TAACTTTACTTACAATTGTATCACCATGGGCAATATCATAATTAACTTGATCCTCGTAGTC
650 CAACTTTACTTACAATTGTATCACCATGGGCAATATCATAATTAACTTGATCCTCTTA-TC
* *
234776 AATGACAATTATATCTTTTCAGATAGTGTAATATTTTCATGAAGACAAAAGACCTTTCAAGTATT
1 AATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATT
* *
234841 CAAGGTCCAAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCATTTTTGAAGATGGATCCAA
66 CAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCATTTTT-AAGATGAATCCAA
* ** *
234906 TAGGGATAAAGTTTTAAAGAACAATATACACTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTT
130 TAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAAATGGTTTGACAAGGTGGAGGTTT
* * *
234971 GGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATTGTTGTCTTGTAAAGGTATTACAGTTGAG
195 GGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGG
* *
235036 AGAGATAATC-ATTGGTACCAAGTT
260 AGAGAGAATCGGTTGGTACCAAGTT
235060 GGTGAAGAGA
Statistics
Matches: 1580, Mismatches: 110, Indels: 22
0.92 0.06 0.01
Matches are distributed among these distances:
706 610 0.39
707 40 0.03
708 1 0.00
709 17 0.01
710 661 0.42
711 251 0.16
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (709 bp):
AATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATT
CAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTAATCATTTTTAAGATGAATCCAAT
AGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAAATGGTTTGACAAGGTGGAGGTTTG
GTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGGA
GAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGGGA
AATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTATA
AAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAATA
GATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTACAGGGGTTGGGCCCTGTAGACTATA
ATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAAG
CCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGTC
AACTTTACTTACAATTGTATCACCATGGGCAATATCATAATTAACTTGATCCTCTTATC
Found at i:237701 original size:36 final size:36
Alignment explanation
Indices: 237654--237726 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
237644 AGTTCTGGAA
237654 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
*
237690 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
237726 T
1 T
237727 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
Found at i:239526 original size:12 final size:12
Alignment explanation
Indices: 239506--239575 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
239496 GATACATGAC
*
239506 CTGAATTCTGTT
1 CTGATTTCTGTT
*
239518 CTGATTTCTGAT
1 CTGATTTCTGTT
*
239530 ATGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
239542 TTGATATCTGTT
1 CTGATTTCTGTT
*
239554 CTGAATTCTGTT
1 CTGATTTCTGTT
*
239566 TTGATTTCTG
1 CTGATTTCTG
239576 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.53
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:239537 original size:24 final size:24
Alignment explanation
Indices: 239507--239579 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
239497 ATACATGACC
*
239507 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * * *
239531 TGGATTCTGTTTTGATATCTGTTC
1 TGAATTCTGTTTTGATTTCTGATA
239555 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
239579 T
1 T
239580 CTCCGTTTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:239540 original size:48 final size:48
Alignment explanation
Indices: 239469--239579 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 48
239459 AAATATTTTA
239469 TCTGATTTCTGACT-TAAATTCTGTTATGATA-CATGACCTGAATTCTGT
1 TCTGATTTCTGA-TATAAATTCTGTTATGATATC-TGACCTGAATTCTGT
** * **
239517 TCTGATTTCTGATATGGATTCTGTTTTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATAAATTCTGTTATGATATCTGACCTGAATTCTGT
*
239565 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
239580 CTCCGTTTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 53 0.96
49 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATATAAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:239555 original size:17 final size:19
Alignment explanation
Indices: 239512--239563 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
239502 TGACCTGAAT
239512 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGATTTCTGATA
*
239531 T-GGATTCTG-TTT-TGATA
1 TCTG-TTCTGATTTCTGATA
*
239548 TCTGTTCTGAATTCTG
1 TCTGTTCTGATTTCTG
239564 TTTTGATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.52
Consensus pattern (19 bp):
TCTGTTCTGATTTCTGATA
Found at i:239742 original size:2 final size:2
Alignment explanation
Indices: 239735--239777 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
239725 AGGATGGGGG
239735 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
239777 T
1 T
239778 GTTTTAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:241173 original size:139 final size:139
Alignment explanation
Indices: 241023--241410 Score: 351
Period size: 138 Copynumber: 2.8 Consensus size: 139
241013 CAAAAAGTGT
* * * *
241023 AGGCTCT-AATATTAATCCTAATCATTTTTAGTGAATTATTGAATTGAATAGTCAAAATGGAACC
1 AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
* * * * * * *
241087 TCGAGGATAAGCGAGCACCAAATCAAAAA-TTCTCCTAGATTAAAGGACTAAGTTTGGAATTAAA
66 TCGAGGAAAAGCGAGAACCAAAT-AAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAA
241151 CCTAAAACGG
130 CCTAAAACGG
* * * * * ** *
241161 AGGCTCTAAATATTAA-CCTATTTAATTGTAATCAATTACTGACTCAAATAATTAAAATGGAACC
1 AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
** ** *
241225 TCGAATAAAATTGAGAACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAAC
66 TCGAGGAAAAGCGAGAACCAAATAAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAAC
*
241290 CTAAAATGG
131 CTAAAACGG
** * * *
241299 AGTTTCTAATTATTAGT-CTAATCAATTTTAACCAATTATTTG-ATTCGAAT-GATTAAAATGGA
1 AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTA-TTGAATT-GAATAG-TTAAAATGGA
* * * *
241361 ACCTCGAGCAAAAGTGATG-ATCAAATTAAAAATTAC-CCTAAATTTAAAGA
63 ACCTCGAGGAAAAGCGA-GAACCAAA-TAAAAATTTCTCCTAAA-TTAAAGA
241411 CTATGTAACA
Statistics
Matches: 197, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
137 5 0.03
138 128 0.65
139 48 0.24
140 16 0.08
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (139 bp):
AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
TCGAGGAAAAGCGAGAACCAAATAAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAAC
CTAAAACGG
Found at i:242200 original size:22 final size:22
Alignment explanation
Indices: 242175--242229 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
242165 GACCGGTCTA
*
242175 ACCCGACCCGACCCGTAGACCG
1 ACCCGACCCGACCCATAGACCG
*
242197 ACCCGACCCGACCCATTGACCG
1 ACCCGACCCGACCCATAGACCG
242219 ACCCGACCCGA
1 ACCCGACCCGA
242230 TGACATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.51, G:0.20, T:0.05
Consensus pattern (22 bp):
ACCCGACCCGACCCATAGACCG
Found at i:242272 original size:29 final size:29
Alignment explanation
Indices: 242230--242338 Score: 191
Period size: 29 Copynumber: 3.8 Consensus size: 29
242220 CCCGACCCGA
*
242230 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
242259 TGACATTCTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
242288 TGACATTCTGGGAAATATTTTAAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
242317 TGACATTCTAGGAAATATTTTG
1 TGACATTCTGGGAAATATTTTG
242339 GAAAAAATGA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAGG
Found at i:242349 original size:29 final size:29
Alignment explanation
Indices: 242230--242359 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
242220 CCCGACCCGA
* *
242230 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAAG
*
242259 TGACATTCTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAAG
* *
242288 TGACATTCTGGGAAATATTTTAAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAAG
* *
242317 TGACATTCTAGGAAATATTTTGGAAA-AAA
1 TGACATTCTGGGAAATATTTT-GAAATAAG
*
242346 TGACATTTTGGGAA
1 TGACATTCTGGGAA
242360 TTTTCGAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
29 89 0.97
30 3 0.03
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAAG
Found at i:242350 original size:58 final size:58
Alignment explanation
Indices: 242229--242359 Score: 201
Period size: 58 Copynumber: 2.3 Consensus size: 58
242219 ACCCGACCCG
* * *
242229 ATGACATTTTGGGAAATATTTTGAAATAGGTGACATTCTGGGAAATATTTTGAAATAG
1 ATGACATTTTGGGAAATATTTTAAAATAGGTGACATTCTAGGAAATATTTTGAAATAA
* *
242287 GTGACATTCTGGGAAATATTTTAAAATAGGTGACATTCTAGGAAATATTTTGGAAA-AA
1 ATGACATTTTGGGAAATATTTTAAAATAGGTGACATTCTAGGAAATATTTT-GAAATAA
242345 ATGACATTTTGGGAA
1 ATGACATTTTGGGAA
242360 TTTTCGAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 61 0.94
59 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.34
Consensus pattern (58 bp):
ATGACATTTTGGGAAATATTTTAAAATAGGTGACATTCTAGGAAATATTTTGAAATAA
Found at i:243311 original size:63 final size:63
Alignment explanation
Indices: 243239--243362 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
243229 CTAATGTCAC
* ** * *
243239 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCT-ACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCTCA-GGCCCTAAGATGTGT
* *
243302 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
243363 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:243313 original size:32 final size:31
Alignment explanation
Indices: 243222--243323 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
243212 TGGAAAATTT
* * *
243222 TACGGACCTAATG-TCACTCTTAGGTAGGCTC
1 TACGGCCCTAA-GATCATTCTTAGGTAGGCCC
* * **
243253 TGCGGCCCTGAGATCATTCTCGGGTAGGCCC
1 TACGGCCCTAAGATCATTCTTAGGTAGGCCC
**
243284 TACGGCCCTAAGATGTGTTCTTAGGTAGGCCC
1 TACGGCCCTAAGAT-CATTCTTAGGTAGGCCC
*
243316 CACGGCCC
1 TACGGCCC
243324 CGAAATCTAT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
30 1 0.02
31 34 0.62
32 20 0.36
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (31 bp):
TACGGCCCTAAGATCATTCTTAGGTAGGCCC
Found at i:243432 original size:26 final size:26
Alignment explanation
Indices: 243379--243432 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
243369 AGGGTAACTC
*
243379 TTTTATGAGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
243405 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
243431 TT
1 TT
243433 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:254406 original size:43 final size:42
Alignment explanation
Indices: 254353--254507 Score: 204
Period size: 44 Copynumber: 3.6 Consensus size: 42
254343 TTAGGGACAT
254353 ATAGGCACCTCTAGTAATTTTTTTCTCTTTTTTACTAGAGCCAG
1 ATAGGCACCTCTAGTAATTTTTTTCTCTTTTTT--TAGAGCCAG
* * *
254397 ATAGG-ACCTCTAGTAATTTTTTCCCTTTTTTTTGTAGAGCCTG
1 ATAGGCACCTCTAGTAATTTTTT-TCTCTTTTTT-TAGAGCCAG
254440 ATAGGCACCTCTAGTAATTTTTTATTCTCTTTTTTTAGAGCCAG
1 ATAGGCACCTCTAGTAA-TTTTT-TTCTCTTTTTTTAGAGCCAG
* *
254484 ATAGGCACCTCTAGCATTTTTTTT
1 ATAGGCACCTCTAGTAATTTTTTT
254508 ATGGGAGTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
42 2 0.02
43 35 0.36
44 47 0.48
45 13 0.13
46 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (42 bp):
ATAGGCACCTCTAGTAATTTTTTTCTCTTTTTTTAGAGCCAG
Found at i:258441 original size:22 final size:22
Alignment explanation
Indices: 258415--258461 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
258405 TCTCTTTCAA
*
258415 TTATTTATT-TAATTATTTTATT
1 TTATTAATTCTAA-TATTTTATT
*
258437 TTATTAATTCTTATATTTTATT
1 TTATTAATTCTAATATTTTATT
258459 TTA
1 TTA
258462 AAAACCACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TTATTAATTCTAATATTTTATT
Found at i:260441 original size:139 final size:138
Alignment explanation
Indices: 260044--260585 Score: 494
Period size: 139 Copynumber: 3.9 Consensus size: 138
260034 CAAAAAGTGT
* * * * * *
260044 AGGCTCT-AATATTAATCCTAATCATTTTTAGTGAATTA-TTGAATT-GAATAGTCAAAATGGAA
1 AGGCTCTAAATATT-AGCCTAAT-AATTTTAATCAATTATTTG-ATTCGAATAATTAAAATGGAA
* * * * * * * * *
260106 CCTCGAGGATAAGCGAGCACCAAATCAAAAATTCTCCTAGATTAAAGGACTAAGTTTGGAATTAA
63 CCTCGAGTAAAAGCGAGAACCAAATTAAAAATTCTCCTAAATTTAAGGACTAAATGTGAAATTAA
*
260171 ACCTAAAA-CG
128 ACCTAAAATAG
* * * * * * *
260181 AGGCTCTAAAAATTAACCTATTTAATTGTAATCAATTA-CTGACTCAAATAATTAAAATGGAACC
1 AGGCTCTAAATATTAGCCTA-ATAATTTTAATCAATTATTTGATTCGAATAATTAAAATGGAACC
* * * * * *
260245 TCGAATAAAAGTGAGAACCAAATAAAAAAATTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAA
65 TCGAGTAAAAGCGAGAACCAAAT-TAAAAATTCTCCTAAATTTAAGGACTAAATGTGAAATTAAA
*
260310 CCTAAAATGG
129 CCTAAAATAG
* *
260320 A-GCTTCTAATTATTAGCCTAATCAATTTTAATCAATTATTTGATTCGAATGATTAAAATGGAAC
1 AGGC-TCTAAATATTAGCCTAAT-AATTTTAATCAATTATTTGATTCGAATAATTAAAATGGAAC
*
260384 CTCGAGCAAAAGCGAGAACCAAATTAAAAATTAC-CCTAAATTTAAGGACTAAATGTGAAATTAA
64 CTCGAGTAAAAGCGAGAACCAAATTAAAAATT-CTCCTAAATTTAAGGACTAAATGTGAAATTAA
*
260448 GCCTAAAATAG
128 ACCTAAAATAG
* * * * *
260459 AGGCTCT-ACTATTAGTTCCAAATATTTTTAAACAATTATTTGATTCGAATAATTAAAATGCAAC
1 AGGCTCTAAATATTAG--CCTAATAATTTTAATCAATTATTTGATTCGAATAATTAAAATGGAAC
* ** * *
260523 CTCCAGTAAAAGTC-ATG-ACTGAATTAAGAATT-TACCTAAATTTAAGGACTAAATTTGAAATT
64 CTCGAGTAAAAG-CGA-GAACCAAATTAAAAATTCT-CCTAAATTTAAGGACTAAATGTGAAATT
260585 A
126 A
260586 GGCCTAAAGT
Statistics
Matches: 334, Mismatches: 55, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
136 2 0.01
137 59 0.18
138 57 0.17
139 164 0.49
140 52 0.16
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (138 bp):
AGGCTCTAAATATTAGCCTAATAATTTTAATCAATTATTTGATTCGAATAATTAAAATGGAACCT
CGAGTAAAAGCGAGAACCAAATTAAAAATTCTCCTAAATTTAAGGACTAAATGTGAAATTAAACC
TAAAATAG
Found at i:260934 original size:22 final size:21
Alignment explanation
Indices: 260899--260940 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
260889 CATAATTATT
260899 TAAAAAATTAAATAAAAATAC
1 TAAAAAATTAAATAAAAATAC
*
260920 TAAAAATATTTAATAAAAATA
1 TAAAAA-ATTAAATAAAAATA
260941 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAATTAAATAAAAATAC
Found at i:262114 original size:21 final size:21
Alignment explanation
Indices: 262090--262134 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
262080 ATTCTAACTA
*
262090 TCGTATTGTGATTTCCCAAAT
1 TCGTATTGCGATTTCCCAAAT
* * *
262111 TCGTGTTGCGATTTTCCTAAT
1 TCGTATTGCGATTTCCCAAAT
262132 TCG
1 TCG
262135 CAATGCGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (21 bp):
TCGTATTGCGATTTCCCAAAT
Found at i:262157 original size:20 final size:20
Alignment explanation
Indices: 262132--262239 Score: 119
Period size: 20 Copynumber: 5.3 Consensus size: 20
262122 TTTTCCTAAT
262132 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
262152 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
262173 TCACAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
262193 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
262213 TCGCAATGCAAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
262233 TCGCAAT
1 TCGCAAT
262240 AAGATTCTGA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 57 0.80
21 14 0.20
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:263126 original size:24 final size:24
Alignment explanation
Indices: 263099--263152 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
263089 GTATTCGAAA
263099 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
263123 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
263147 TTTGAT
1 TTTGAT
263153 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:265663 original size:20 final size:20
Alignment explanation
Indices: 265575--265661 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
265565 CAACGTGGAA
265575 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
265595 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
265615 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
265635 ATCGCAATGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
265655 ATTGCAA
1 ATCGCAA
265662 TGAGAGAATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:265689 original size:19 final size:19
Alignment explanation
Indices: 265668--265728 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
265658 GCAATGAGAG
*
265668 AATCGCAATGCGAAATGAG
1 AATCGCAATGCGAAATGAA
265687 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
265706 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
265725 AATC
1 AATC
265729 ACAACGAGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Done.