Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007981.1 Hibiscus syriacus cultivar Beakdansim tig00110422_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: 1405786
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:6741 original size:20 final size:20
Alignment explanation
Indices: 6700--6743 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6690 CCTTATATCA
* *
6700 TCTTGCAACTGCAGTTGTGT
1 TCTTGCAACTGCAATTGAGT
*
6720 TCTTGCAACTGTAATTGAGT
1 TCTTGCAACTGCAATTGAGT
6740 TCTT
1 TCTT
6744 TCTATTTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (20 bp):
TCTTGCAACTGCAATTGAGT
Found at i:15495 original size:19 final size:19
Alignment explanation
Indices: 15471--15508 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15461 TTTATTTTCT
15471 ATCCAATCAAGAGGTGATA
1 ATCCAATCAAGAGGTGATA
* *
15490 ATCCAATCATGTGGTGATA
1 ATCCAATCAAGAGGTGATA
15509 TTAGTGTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
ATCCAATCAAGAGGTGATA
Found at i:21001 original size:54 final size:54
Alignment explanation
Indices: 20815--21115 Score: 311
Period size: 54 Copynumber: 5.5 Consensus size: 54
20805 TAGAATTAAC
*
20815 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAA-T
* **
20870 GATTGAGCACCTCTGTGCTT-AATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAG-----CCAAAAT
* ** * * * *
20928 GACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
*
20982 GATTGAGCACCTCTGTGCTTCAATCGAG-GACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGCAGCCAA-AAT
* * * * * * **
21037 GACTGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCA-TCGGAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGA-GCTGACACCTCTGTGCAGCCAAAAT
*
21091 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
21116 TAAAATCAAG
Statistics
Matches: 205, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.00
54 96 0.47
55 48 0.23
56 15 0.07
58 20 0.10
59 25 0.12
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
Found at i:21016 original size:113 final size:113
Alignment explanation
Indices: 20818--21028 Score: 352
Period size: 113 Copynumber: 1.9 Consensus size: 113
20808 AATTAACGAT
*
20818 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
20883 TGTGCTTAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAATGAC
66 TGTGCTTAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAATGAC
* * * *
20931 TGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGA-TGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
*
20995 TGTGCTTCAATCGAGGACTGACACCTCTGTGCAG
66 TGTGCTT-AATCGAGAACTGACACCTCTGTGCAG
21029 CCAACTATGA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 21 0.23
113 70 0.77
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (113 bp):
TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
TGTGCTTAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAATGAC
Found at i:26793 original size:16 final size:16
Alignment explanation
Indices: 26759--26801 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
26749 ATGCGAGGGC
*
26759 TTGTTATTATGTTATTG
1 TTGTTATT-TGTTACTG
26776 TTGTTATTTGTTACTG
1 TTGTTATTTGTTACTG
26792 TTGTTATTTG
1 TTGTTATTTG
26802 ATAAGCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.14, C:0.02, G:0.19, T:0.65
Consensus pattern (16 bp):
TTGTTATTTGTTACTG
Found at i:28407 original size:22 final size:23
Alignment explanation
Indices: 28379--28438 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
28369 ATAATTTATA
28379 TATATTAACTTAAAAATAT-TTT
1 TATATTAACTTAAAAATATATTT
*
28401 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA-AAAATATATTT
28425 TATTATTAACTTAA
1 TA-TATTAACTTAA
28439 TTTAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 12 0.36
23 6 0.18
24 5 0.15
25 10 0.30
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTAACTTAAAAATATATTT
Found at i:28443 original size:27 final size:26
Alignment explanation
Indices: 28368--28459 Score: 99
Period size: 25 Copynumber: 3.7 Consensus size: 26
28358 TTAAAGTCAT
28368 AATA-ATTTATATATATTAACTTAA--A
1 AATATATTT-TAT-TATTAACTTAATTA
28393 AATAT-TTTTA-TATTAACTT-ATTA
1 AATATATTTTATTATTAACTTAATTA
28416 AATATATTTTATTATTAACTTAATTTA
1 AATATATTTTATTATTAACTTAA-TTA
*
28443 AAAATATTTTATT-TTAA
1 AATATATTTTATTATTAA
28460 TTTTATTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
21 1 0.02
22 9 0.15
23 6 0.10
24 7 0.12
25 16 0.27
26 5 0.08
27 15 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (26 bp):
AATATATTTTATTATTAACTTAATTA
Found at i:31069 original size:20 final size:22
Alignment explanation
Indices: 31036--31095 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
31026 GTAATTTGCA
31036 CCGAAGTG-CCACATA-ATTATC
1 CCGAAG-GACCACATAGATTATC
* *
31057 CCG-AGGACCACATAGGTTTGTC
1 CCGAAGGACCACATA-GATTATC
31079 CCGAAGGACCACATAGA
1 CCGAAGGACCACATAGA
31096 ACCCTCGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.28
21 3 0.09
22 8 0.25
23 11 0.34
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (22 bp):
CCGAAGGACCACATAGATTATC
Found at i:32808 original size:156 final size:157
Alignment explanation
Indices: 32516--32849 Score: 519
Period size: 156 Copynumber: 2.1 Consensus size: 157
32506 GAATGTTACA
*
32516 TCCTAAACCATAGAAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAATTTTTTTATTT
1 TCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAATTTTTTTATTT
* *
32581 TTCAATTTAGTCCTTTAATTTTTCATAATCTCCTTATTTCTTCAATTTATCATTTATTTTAAGTC
66 TTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCCTTCAATTTATCATTTATTTTAAGTC
*
32646 TCTTTTTTACCAAATTTGAGCCACATGC
131 -CTTTTTTACCAAATTTGAACCACATGC
* *
32674 TCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCTC-TTTTGATAA-TATTTTTTTGTTT
1 TCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAATTTTTTTATTT
* *
32737 TTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCCTTCAATTTGTGATTTATTTTAAGTC
66 TTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCCTTCAATTTATCATTTATTTTAAGTC
* *
32802 ATTTTTTACCAAATTTGAACCACTTGC
131 CTTTTTTACCAAATTTGAACCACATGC
* * * *
32829 TCATATACCACAATAGAATAC
1 TCCTAAACCATAGTAGAATAC
32850 CTATTTAAAT
Statistics
Matches: 162, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
155 41 0.25
156 72 0.44
157 9 0.06
158 40 0.25
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (157 bp):
TCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAATTTTTTTATTT
TTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCCTTCAATTTATCATTTATTTTAAGTC
CTTTTTTACCAAATTTGAACCACATGC
Found at i:33757 original size:17 final size:17
Alignment explanation
Indices: 33735--33768 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33725 ACTTCCAAAG
33735 ACACTTGTATCTTAAAA
1 ACACTTGTATCTTAAAA
* *
33752 ACACTTTTATTTTAAAA
1 ACACTTGTATCTTAAAA
33769 TCAAACAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (17 bp):
ACACTTGTATCTTAAAA
Found at i:41041 original size:26 final size:26
Alignment explanation
Indices: 41011--41062 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
41001 CTTTCCTATT
41011 TGGCCCATCTCTCGCTGAATTTTCTG
1 TGGCCCATCTCTCGCTGAATTTTCTG
* *
41037 TGGCCCATTTCTCGCTGAGTTTTCTG
1 TGGCCCATCTCTCGCTGAATTTTCTG
41063 AGGCTTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (26 bp):
TGGCCCATCTCTCGCTGAATTTTCTG
Found at i:46704 original size:251 final size:258
Alignment explanation
Indices: 46194--46716 Score: 715
Period size: 251 Copynumber: 2.0 Consensus size: 258
46184 CACCCGACTT
*
46194 GACCCGACCCGAATATATGAATTAGAAACTCGACCCGACTCGAAATAATAAAAAAATTATTTTTA
1 GACCCGACCCGAATATATGAATTAGAAACTCGACCCGACCCGAAATAATAAAAAAA-TA--TTTA
* * * * *
46259 TTCAATAAAAATAGTAACTTAATTGAACAAATATATATATATATAGAGATATTATTATAATTATT
63 TTCAATAAAAACAATAACTTAATTGAACAAAAATATATATATAGAGAGACATTATTATAATTATT
*
46324 CCTAAATATATAAGGTAAAATTATATATTTATTGGGCCAGGTCGGGTATTTTTCACCCTAACCCC
128 CCTAAATATATAAGATAAAATTATATATTTATT--G-CAGGTCGGGTATTTTTCACCCTAACCCC
* ** *
46389 AACCCGACCCGACCCGAATATCACACTTAAAAAAAATTGGCCCGACCCGATCAAAATAAAGTTTC
190 AACCCGACCCGACCCGAATATCACACTTAAAAAAAACTAACCCGACCCGACCAAAATAAAGTTTC
46454 ACCC
255 ACCC
*
46458 GACCCGACCCGGATATATGAATTAGAAA-TCCGACCCGACCCGAAAT-A-AAAAAAA-A-TTATT
1 GACCCGACCCGAATATATGAATTAGAAACT-CGACCCGACCCGAAATAATAAAAAAATATTTATT
* * * * *
46518 CAATAAAAACAATGACTTAATTGAA-AAAAAT-TATATATAGAGGGGCATTATTGTAATTATTTC
65 CAATAAAAACAATAACTTAATTGAACAAAAATATATATATAGAGAGACATTATTATAATTATTCC
* *
46581 TAAATATATAAGATAAAATTATATATATT-TT-CGGGTCGGGTATTTTTCACCCTAAACCCGAAC
130 TAAATATATAAGATAAAATTATATAT-TTATTGCAGGTCGGGTATTTTTCACCCT-AACCCCAAC
*
46644 TCGACCCGACCCGAATATCACACTT-AAAAAAACTAACCCGACCCGACCAAAATAAAGTTTCACC
193 CCGACCCGACCCGAATATCACACTTAAAAAAAACTAACCCGACCCGACCAAAATAAAGTTTCACC
46708 C
258 C
46709 GACCCGAC
1 GACCCGAC
46717 TCAACTAAAA
Statistics
Matches: 236, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
251 65 0.28
252 32 0.14
255 53 0.22
256 7 0.03
257 27 0.11
260 1 0.00
262 7 0.03
263 2 0.01
264 42 0.18
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (258 bp):
GACCCGACCCGAATATATGAATTAGAAACTCGACCCGACCCGAAATAATAAAAAAATATTTATTC
AATAAAAACAATAACTTAATTGAACAAAAATATATATATAGAGAGACATTATTATAATTATTCCT
AAATATATAAGATAAAATTATATATTTATTGCAGGTCGGGTATTTTTCACCCTAACCCCAACCCG
ACCCGACCCGAATATCACACTTAAAAAAAACTAACCCGACCCGACCAAAATAAAGTTTCACCC
Found at i:46710 original size:26 final size:27
Alignment explanation
Indices: 46679--46748 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 27
46669 AAAAAAACTA
46679 ACCCGACCCGACC-AAAATAAAGTTTC
1 ACCCGACCCGACCTAAAATAAAGTTTC
46705 ACCCGACCCGACTCAACTAAAATAAAGTTTC
1 ACCCGACCCGA--C--CTAAAATAAAGTTTC
46736 ACCCGACCCGACC
1 ACCCGACCCGACC
46749 CGAATAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
26 11 0.28
27 1 0.03
28 1 0.03
29 1 0.03
30 1 0.03
31 24 0.62
ACGTcount: A:0.36, C:0.39, G:0.11, T:0.14
Consensus pattern (27 bp):
ACCCGACCCGACCTAAAATAAAGTTTC
Found at i:46754 original size:26 final size:26
Alignment explanation
Indices: 46679--46756 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 26
46669 AAAAAAACTA
*
46679 ACCCGACCCGACCAAAATAAAGTTTC
1 ACCCGACCCGACCCAAATAAAGTTTC
46705 ACCCGACCCGACTCAACTAAAATAAAGTTTC
1 ACCCGACCCGAC-C--C--AAATAAAGTTTC
*
46736 ACCCGACCCGACCCGAATAAA
1 ACCCGACCCGACCCAAATAAA
46757 TGAATTAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 18 0.40
27 1 0.02
28 1 0.02
30 1 0.02
31 24 0.53
ACGTcount: A:0.38, C:0.36, G:0.12, T:0.14
Consensus pattern (26 bp):
ACCCGACCCGACCCAAATAAAGTTTC
Found at i:49547 original size:20 final size:20
Alignment explanation
Indices: 49453--49821 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
49443 GATTTTCCAT
* ** *
49453 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
49473 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
49493 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49513 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
49533 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
49553 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49573 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49593 AATCGCAACGCGTATCCTTA
1 AATCGCAACGCGTATCCGTA
* *
49613 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
49633 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49653 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
49673 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49693 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
49713 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49733 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
49753 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
49773 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
49793 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
49813 AATCACAAC
1 AATCGCAAC
49822 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:50534 original size:24 final size:24
Alignment explanation
Indices: 50495--50541 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50485 AAATTTGGTC
50495 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
50519 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
50542 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:50733 original size:12 final size:12
Alignment explanation
Indices: 50716--50740 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50706 ATATAATCCT
50716 GAAGAAGAAAAA
1 GAAGAAGAAAAA
50728 GAAGAAGAAAAA
1 GAAGAAGAAAAA
50740 G
1 G
50741 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:53068 original size:19 final size:19
Alignment explanation
Indices: 53046--53371 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
53036 CGGAAAATAC
*
53046 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
53065 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
53079 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
53099 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
53113 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
53132 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
53151 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
53165 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
53184 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
53203 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
53217 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
53236 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
53255 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
53274 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
53293 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
53312 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
53326 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
53345 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
53364 AATCGCAA
1 AATCGCAA
53372 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:53133 original size:33 final size:34
Alignment explanation
Indices: 53046--53371 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
53036 CGGAAAATAC
* *
53046 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
53079 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
53113 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
53151 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
53184 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
53217 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
53255 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
53293 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
53325 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
53364 AATCGCAA
1 AATCGCAA
53372 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:53307 original size:161 final size:157
Alignment explanation
Indices: 53074--53393 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
53064 AAATCCCAAC
*
53074 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
53139 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
53204 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
53231 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
53295 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
53360 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
53392 AT
1 AT
53394 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 120 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:53409 original size:52 final size:52
Alignment explanation
Indices: 53074--53393 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
53064 AAATCCCAAC
53074 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
53127 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
53179 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
53231 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
53288 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
53340 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
53392 AT
1 AT
53394 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 184 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:53509 original size:19 final size:19
Alignment explanation
Indices: 53400--53501 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
53390 AAATTATAAA
53400 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
53419 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
53439 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
53455 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
53472 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
53491 CGCATTGCGAT
1 CGCATTGCGAT
53502 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:53627 original size:14 final size:14
Alignment explanation
Indices: 53608--53644 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
53598 CATCAATTAC
53608 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
53622 ACAAATCATCTTTT
1 ACAAATCAACTTTT
53636 ACAAATCAA
1 ACAAATCAA
53645 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:53656 original size:12 final size:12
Alignment explanation
Indices: 53639--53711 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
53629 ATCTTTTACA
53639 AATCAATTAAAC
1 AATCAATTAAAC
*
53651 AATCAA--AAATTG
1 AATCAATTAAA--C
**
53663 AATCAACTTTTAC
1 AATCAA-TTAAAC
53676 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
53689 AATCAA-AAAAC
1 AATCAATTAAAC
53700 AATCAATTAAAC
1 AATCAATTAAAC
53712 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:53673 original size:38 final size:38
Alignment explanation
Indices: 53625--53697 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
53615 AACTTTTACA
*
53625 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
53663 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
53698 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:55580 original size:14 final size:14
Alignment explanation
Indices: 55561--55617 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
55551 GCGAAATGAA
*
55561 AATCGCAACGACAG
1 AATCGCAACGAAAG
55575 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
55592 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
55608 AATCGCAACG
1 AATCGCAACG
55618 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:55588 original size:33 final size:33
Alignment explanation
Indices: 55542--55634 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
55532 GAGAAACCAA
*
55542 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
55575 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
55608 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
55635 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:55599 original size:19 final size:19
Alignment explanation
Indices: 55505--55639 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
55495 TAGTTTACTT
* *
55505 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
55525 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
55544 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
55563 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
55577 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
55596 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
55610 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
55629 TCGCAATGCGA
1 TCGCAACGCGA
55640 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:55657 original size:19 final size:19
Alignment explanation
Indices: 55635--55763 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
55625 AAAATCGCAA
55635 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
55654 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
55668 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
55687 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
55701 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
55720 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
55739 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
55759 TGCGA
1 TGCGA
55764 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:55677 original size:33 final size:33
Alignment explanation
Indices: 55635--55726 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
55625 AAAATCGCAA
55635 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
55668 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
55701 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
55727 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:55966 original size:93 final size:93
Alignment explanation
Indices: 55807--56186 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
55797 TTGAATGGAT
55807 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
55872 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
55900 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
55965 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
55993 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
56057 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
56085 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
56150 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
56178 AAATTTACT
1 AAATTTACT
56187 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:56120 original size:185 final size:186
Alignment explanation
Indices: 55807--56186 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
55797 TTGAATGGAT
55807 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
55872 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
55937 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
55993 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
56057 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
56122 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
56178 AAATTTACT
1 AAATTTACT
56187 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:57910 original size:14 final size:14
Alignment explanation
Indices: 57891--57980 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
57881 TTGAAATGAA
57891 AATCGCAACGAGAG
1 AATCGCAACGAGAG
57905 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
57922 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
57938 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
57957 AATCGCAACGAGAG
1 AATCGCAACGAGAG
57971 AATCGCAACG
1 AATCGCAACG
57981 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:57928 original size:33 final size:33
Alignment explanation
Indices: 57883--57997 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
57873 TCTTTTGGTT
57883 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
57916 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
57949 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
57982 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
57998 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:57929 original size:19 final size:18
Alignment explanation
Indices: 57890--58002 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
57880 GTTGAAATGA
57890 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
57905 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
57922 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
57938 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
57955 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
57971 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
57988 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
58003 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:58033 original size:14 final size:14
Alignment explanation
Indices: 58014--58068 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
58004 TTTGGTTTCG
58014 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
58028 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
58047 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
58061 CGTTGCGA
1 CGTTGCGA
58069 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:58046 original size:33 final size:33
Alignment explanation
Indices: 57998--58068 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
57988 AAAATCGCAA
**
57998 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
58031 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
58064 TGCGA
1 TGCGA
58069 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:58076 original size:33 final size:33
Alignment explanation
Indices: 58009--58090 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
57999 GCGATTTTGG
***
58009 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
58042 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
58075 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
58091 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:58095 original size:20 final size:20
Alignment explanation
Indices: 58021--58109 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
58011 TCGCGTTGCG
58021 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
58041 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
58054 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
58074 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
58094 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
58110 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:58231 original size:33 final size:33
Alignment explanation
Indices: 58189--58259 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
58179 AATACTAACT
*
58189 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
58222 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
58255 TGAAA
1 TGAAA
58260 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:58493 original size:22 final size:22
Alignment explanation
Indices: 58441--58495 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
58431 TGGTTGTGAG
**
58441 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
58463 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
58485 GGATTTCTTCG
1 GGATTTCTTCG
58496 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:58666 original size:20 final size:20
Alignment explanation
Indices: 58641--58834 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
58631 CTTTAAATAT
58641 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
58661 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
58683 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
58702 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
58722 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
58742 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
58762 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
58782 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
58802 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
58822 CGCGTTGCGATTT
1 CGCGTTGCGATTT
58835 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:58828 original size:60 final size:60
Alignment explanation
Indices: 58641--58834 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
58631 CTTTAAATAT
**
58641 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
58702 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
58762 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
58822 CGCGTTGCGATTT
1 CGCGTTGCGATTT
58835 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:58851 original size:21 final size:20
Alignment explanation
Indices: 58827--58903 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
58817 ATATTCGCGT
58827 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
58848 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
58868 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
58890 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
58904 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:58914 original size:20 final size:20
Alignment explanation
Indices: 58889--58940 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
58879 AAGAATCGCG
*
58889 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
58909 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
58929 TTGCGATTCTGG
1 TTGCGATTCTGG
58941 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:63986 original size:2 final size:2
Alignment explanation
Indices: 63975--64007 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
63965 TTTGTCAATC
63975 TA TA -A 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
64008 ATTTACGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:64189 original size:13 final size:13
Alignment explanation
Indices: 64173--64216 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
64163 GTAATGAACA
64173 TCATAAATGCGCG
1 TCATAAATGCGCG
*
64186 TCATAAATGCGTG
1 TCATAAATGCGCG
64199 TCATAAATGCGCG
1 TCATAAATGCGCG
64212 TCATA
1 TCATA
64217 TATTTATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (13 bp):
TCATAAATGCGCG
Found at i:64194 original size:26 final size:26
Alignment explanation
Indices: 64165--64216 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
64155 AATGACGCGT
64165 AATGAACATCATAAATGCGCGTCATA
1 AATGAACATCATAAATGCGCGTCATA
****
64191 AATGCGTGTCATAAATGCGCGTCATA
1 AATGAACATCATAAATGCGCGTCATA
64217 TATTTATGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (26 bp):
AATGAACATCATAAATGCGCGTCATA
Found at i:65960 original size:9 final size:9
Alignment explanation
Indices: 65920--65963 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
65910 AAAAAATATG
65920 AATATATAA
1 AATATATAA
*
65929 AACATATTAA
1 AATATA-TAA
65939 AATAATAATAA
1 AAT-AT-ATAA
65950 AATATATAA
1 AATATATAA
65959 AATAT
1 AATAT
65964 TTTAAGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 14 0.47
10 7 0.23
11 8 0.27
12 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AATATATAA
Found at i:65988 original size:13 final size:14
Alignment explanation
Indices: 65972--66001 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
65962 ATTTTAAGTT
65972 AATATATTT-TAAA
1 AATATATTTCTAAA
65985 AATATATTTCTAAA
1 AATATATTTCTAAA
65999 AAT
1 AAT
66002 TAAGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATTTCTAAA
Found at i:66047 original size:60 final size:61
Alignment explanation
Indices: 65983--66115 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 61
65973 ATATATTTTA
* * * *
65983 AAAATATATTTCTAAAAATTAAGATAAAAATAAAAAATATTT-TTAAGTGAAGATAAAGAT
1 AAAATATATTTCTAAAAATTAAAATAAAAATAAAAAATATTTAATAAGTGAAGACAAAAAT
** * * * *
66043 AAAATATATATT-TTTACATTAAAATAAAAATAAAATATATTTAATAGGTTAAGACAAAAAT
1 AAAATATAT-TTCTAAAAATTAAAATAAAAATAAAAAATATTTAATAAGTGAAGACAAAAAT
66104 AAAATATATTTC
1 AAAATATATTTC
66116 ATAAGTGAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
60 36 0.60
61 24 0.40
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (61 bp):
AAAATATATTTCTAAAAATTAAAATAAAAATAAAAAATATTTAATAAGTGAAGACAAAAAT
Found at i:66104 original size:30 final size:29
Alignment explanation
Indices: 65983--66135 Score: 128
Period size: 30 Copynumber: 5.1 Consensus size: 29
65973 ATATATTTTA
* *
65983 AAAATATATTTCTAAAAATTAAGATAAAAAT
1 AAAATATA-TT-TATAAGTTAAGATAAAAAT
* * * *
66014 AAAAAATATTTTTAAGTGAAGATAAAGAT
1 AAAATATATTTATAAGTTAAGATAAAAAT
* *
66043 AAAATATATATTTTTACA-TTAAAATAAAAAT
1 -AAA-ATATATTTATA-AGTTAAGATAAAAAT
* *
66074 AAAATATATTTAATAGGTTAAGACAAAAAT
1 AAAATATATTT-ATAAGTTAAGATAAAAAT
* *
66104 AAAATATATTTCATAAGTGAAGACAAAAAT
1 AAAATATATTT-ATAAGTTAAGATAAAAAT
66134 AA
1 AA
66136 TAAAAATTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
29 22 0.22
30 50 0.50
31 27 0.27
32 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAATATATTTATAAGTTAAGATAAAAAT
Found at i:67395 original size:23 final size:23
Alignment explanation
Indices: 67364--67407 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
67354 TAAGAATAAT
* * *
67364 TATGTCTTTGTGACATGTTTATA
1 TATGCCTTTATGACACGTTTATA
67387 TATGCCTTTATGACACGTTTA
1 TATGCCTTTATGACACGTTTA
67408 ACTTTGGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.48
Consensus pattern (23 bp):
TATGCCTTTATGACACGTTTATA
Found at i:73020 original size:43 final size:43
Alignment explanation
Indices: 72964--73265 Score: 292
Period size: 43 Copynumber: 7.3 Consensus size: 43
72954 TGAGAACAAA
*
72964 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * *
73007 AAATGCCGCAAAAGATCGATATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
** * *
73050 AAACATCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
73093 AACCGTCGCAAAAGGTC-AGATCTATATCGGCGTTTTT-----
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
73130 -------GCAAAAGGTCGAGATCTATAGCGGTGTTTTTGGAAT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
73166 AAATGCCACAAAAGGTC-AGATCTATAGCGGCGTTTTTGTAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * **
73208 AAACGCCACAAAAGGT-TAGATCTATAGCGATGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-AC
*
73251 AAACGCTGCAAAAGG
1 AAACGCCGCAAAAGG
73266 GCTCGTGATA
Statistics
Matches: 218, Mismatches: 26, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
30 10 0.05
31 18 0.08
42 75 0.34
43 115 0.53
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:73136 original size:30 final size:31
Alignment explanation
Indices: 73100--73161 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
73090 AACAACCGTC
*
73100 GCAAAAGGTC-AGATCTATATCGGCGTTTTT
1 GCAAAAGGTCGAGATCTATAGCGGCGTTTTT
*
73130 GCAAAAGGTCGAGATCTATAGCGGTGTTTTT
1 GCAAAAGGTCGAGATCTATAGCGGCGTTTTT
73161 G
1 G
73162 GAATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (31 bp):
GCAAAAGGTCGAGATCTATAGCGGCGTTTTT
Found at i:73178 original size:73 final size:73
Alignment explanation
Indices: 73057--73203 Score: 213
Period size: 73 Copynumber: 2.0 Consensus size: 73
73047 AACAAACATC
* * * * * *
73057 GCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAACCGTCGCAAAAGGTCAGATCTATATCG
1 GCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTCAGATCTATAGCG
73122 GCGTTTTT
66 GCGTTTTT
* * *
73130 GCAAAAGGTCGAGATCTATAGCGGTGTTTTTGGAATAAATGCCACAAAAGGTCAGATCTATAGCG
1 GCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTCAGATCTATAGCG
73195 GCGTTTTT
66 GCGTTTTT
73203 G
1 G
73204 TAACAAACGC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (73 bp):
GCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTCAGATCTATAGCG
GCGTTTTT
Found at i:80543 original size:3 final size:3
Alignment explanation
Indices: 80535--80653 Score: 220
Period size: 3 Copynumber: 39.7 Consensus size: 3
80525 ATGAACTCTA
80535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
80583 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
80631 CAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
80654 ATACAACATG
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 112 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:81551 original size:41 final size:41
Alignment explanation
Indices: 81506--81769 Score: 287
Period size: 41 Copynumber: 6.4 Consensus size: 41
81496 TAAACGCCGC
* * * *
81506 AAACGCAACTAAAGTACGAGTCTATAGCGGTGTTTGTATAT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* *
81547 AAACGCCACTAAAGTACAAGTGTATAGTGGCGTTTGTAT-A
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
81587 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* * * * *
81628 AAACGCCACTAAAATACGAGTCTTTAGCGGCGTTTGCAAACA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATA-A
* ** * * *
81670 TAAACACTGCTAAACTACAAGTGTATAGCGGCATTTGTATAA
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
** ** * *
81712 AAATACCACTAAAGTATGAGTCTTTAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
*
81753 AAATGCCACTAAAGTAC
1 AAACGCCACTAAAGTAC
81770 TACTCTGTTG
Statistics
Matches: 185, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
40 37 0.20
41 116 0.63
42 2 0.01
43 30 0.16
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
Found at i:81660 original size:81 final size:81
Alignment explanation
Indices: 81506--81769 Score: 294
Period size: 81 Copynumber: 3.2 Consensus size: 81
81496 TAAACGCCGC
* * * * * * *
81506 AAACGCAACTAAAGTACGAGTCTATAGCGGTGTTTGTATATAAACGCCACTAAAGTACAAGTGTA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
*
81571 TAGTGGCGTTTGTATA
66 TAGCGGCGTTTGTATA
*
81587 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAATACGAGTCTT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* *
81652 TAGCGGCGTTTGCAAACA
66 TAGCGGCGTTTG--TATA
* ** * * * ** *
81670 TAAACACTGCTAAACTACAAGTGTATAGCGGCATTTGTATAAAAATACCACTAAAGTATGAGTCT
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCT
*
81735 TTAGCGGTGTTTGTATAA
65 TTAGCGGCGTTTGTAT-A
*
81753 AAATGCCACTAAAGTAC
1 AAACGCCACTAAAGTAC
81770 TACTCTGTTG
Statistics
Matches: 150, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
81 68 0.45
82 13 0.09
83 3 0.02
84 66 0.44
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (81 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
TAGCGGCGTTTGTATA
Found at i:81786 original size:125 final size:124
Alignment explanation
Indices: 81555--81788 Score: 308
Period size: 125 Copynumber: 1.9 Consensus size: 124
81545 ATAAACGCCA
* * * *
81555 CTAAAGTACAAGTGTATAGTGGCGTTTGTATAAAACGCCACTAAAGTACAAGTCTATAGCGGCGT
1 CTAAACTACAAGTGTATAGCGGCATTTGTATAAAACACCACTAAAGTACAAGTCTATAGCGGCGT
* *
81620 TTGTATAAAAACGCCACTAAAATACGAGTCTTTAGCGGCGTTTGCAAACATAAACACTG
66 TTGTATAAAAACGCCACTAAAATACGACTCTTTAGCAGCGTTTGCAAACATAAACACTG
* ** * *
81679 CTAAACTACAAGTGTATAGCGGCATTTGTATAAAAATACCACTAAAGTATGAGTCTTTAGCGGTG
1 CTAAACTACAAGTGTATAGCGGCATTTGTAT-AAAACACCACTAAAGTACAAGTCTATAGCGGCG
* * * *
81744 TTTGTATAAAAATGCCACTAAAGTACTACTCTGTT-GTAGCGTTTG
65 TTTGTATAAAAACGCCACTAAAATACGACTCT-TTAGCAGCGTTTG
81789 TTGAAAAAAC
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
124 28 0.30
125 63 0.68
126 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (124 bp):
CTAAACTACAAGTGTATAGCGGCATTTGTATAAAACACCACTAAAGTACAAGTCTATAGCGGCGT
TTGTATAAAAACGCCACTAAAATACGACTCTTTAGCAGCGTTTGCAAACATAAACACTG
Found at i:81788 original size:41 final size:41
Alignment explanation
Indices: 81703--81789 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
81693 TATAGCGGCA
* * *
81703 TTTGTATAAAAATACCACTAAAGTATGAGTCTTTAGCGGTG
1 TTTGTATAAAAATACCACTAAAGTATGACTCTTTAGCAGCG
* *
81744 TTTGTATAAAAATGCCACTAAAGTACT-ACTCTGTT-GTAGCG
1 TTTGTATAAAAATACCACTAAAGTA-TGACTCT-TTAGCAGCG
81785 TTTGT
1 TTTGT
81790 TGAAAAAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
41 36 0.92
42 3 0.08
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (41 bp):
TTTGTATAAAAATACCACTAAAGTATGACTCTTTAGCAGCG
Found at i:85534 original size:17 final size:16
Alignment explanation
Indices: 85510--85549 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
85500 TCTATTAAAG
85510 TAATTATTTATAATAA
1 TAATTATTTATAATAA
*
85526 TAATCTATTTTTAATAA
1 TAAT-TATTTATAATAA
85543 TTAATTA
1 -TAATTA
85550 GAAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTATTTATAATAA
Found at i:89575 original size:18 final size:19
Alignment explanation
Indices: 89549--89586 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
89539 GTTATTTTGT
*
89549 TTTTTTATATATAT-TTTA
1 TTTTATATATATATATTTA
*
89567 TTTTATATATGTATATTTA
1 TTTTATATATATATATTTA
89586 T
1 T
89587 ATAGTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATATATATATATTTA
Found at i:89589 original size:16 final size:15
Alignment explanation
Indices: 89552--89589 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
89542 ATTTTGTTTT
*
89552 TTTATATATATTTTA
1 TTTATATATATTATA
89567 TTT-TATATATGTATA
1 TTTATATATAT-TATA
89582 TTTATATA
1 TTTATATA
89590 GTAATATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 9 0.45
16 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTTATATATATTATA
Found at i:89697 original size:11 final size:11
Alignment explanation
Indices: 89683--89707 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
89673 TAATATATAG
89683 TTTTGAAAACA
1 TTTTGAAAACA
89694 TTTTGAAAACA
1 TTTTGAAAACA
89705 TTT
1 TTT
89708 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:89719 original size:38 final size:37
Alignment explanation
Indices: 89632--89953 Score: 262
Period size: 38 Copynumber: 8.5 Consensus size: 37
89622 TTCAAAAAAC
* * *
89632 TATATATTATATATATTTTAAAAACGTTTT-TAAAATA
1 TATATATTATATA-GTTTTAAAAACATTTTGAAAAATA
* * *
89669 TATATAATATATAGTTTTGAAAACATTTTGAAAACATT
1 TATATATTATATAGTTTTAAAAACATTTTGAAAA-ATA
* *
89707 TATATATTATATAGTTTTTAAAAAACTTTTTG-AAAGTA
1 TATATATTATATAG-TTTT-AAAAACATTTTGAAAAATA
* * *
89745 TATATAATATATAGTTTTGAAAACCTTTTG-AAAATA
1 TATATATTATATAGTTTTAAAAACATTTTGAAAAATA
89781 TTCATATATTATATAGTTTTTAAAAAATCATTTTG-AAAATA
1 -T-ATATATTATATAG-TTTT-AAAAA-CATTTTGAAAAATA
* *
89822 TATATAATATATAATTTTTAAAAACATTTTGAAAAATA
1 TATATATTATAT-AGTTTTAAAAACATTTTGAAAAATA
* * **
89860 TATATTTTATATAATTTTTTAAAAATGTTTTTG-AAAATA
1 TATATATTATAT-A-GTTTTAAAAA-CATTTTGAAAAATA
** * * *
89899 CGTATAATATATGGTTTTTAAAAAACATTTTG-AAAATT
1 TATATATTATATAG-TTTT-AAAAACATTTTGAAAAATA
89937 TATATATTATAT-GTTTT
1 TATATATTATATAGTTTT
89954 TAGAAATATT
Statistics
Matches: 234, Mismatches: 36, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
36 32 0.14
37 28 0.12
38 87 0.37
39 54 0.23
40 21 0.09
41 12 0.05
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATATTATATAGTTTTAAAAACATTTTGAAAAATA
Found at i:89870 original size:77 final size:75
Alignment explanation
Indices: 89632--89955 Score: 372
Period size: 77 Copynumber: 4.3 Consensus size: 75
89622 TTCAAAAAAC
* *
89632 TATATATTATATA-TATTTT-AAAAA-CGTTTTT-AAAATATATATAATATATAGTTTTGAAAAC
1 TATATATTATATAGT-TTTTAAAAAATC-TTTTTGAAAATATATATAATATATATTTTTAAAAAC
*
89693 ATTTTGAAAACATT
64 ATTTTG-AAA-ATA
* * * *
89707 TATATATTATATAGTTTTTAAAAAA-CTTTTTGAAAGTATATATAATATATAGTTTTGAAAACCT
1 TATATATTATATAGTTTTTAAAAAATCTTTTTGAAAATATATATAATATATATTTTTAAAAACAT
89771 TTTGAAAATA
66 TTTGAAAATA
*
89781 TTCATATATTATATAGTTTTTAAAAAATCATTTTGAAAATATATATAATATATAATTTTTAAAAA
1 -T-ATATATTATATAGTTTTTAAAAAATCTTTTTGAAAATATATATAATATAT-ATTTTTAAAAA
89846 CATTTTGAAAAATA
63 CATTTTG-AAAATA
* * * * ** *
89860 TATATTTTATATAATTTTTTAAAAATGTTTTTGAAAATACGTATAATATATGGTTTTTAAAAAAC
1 TATATATTATATAGTTTTTAAAAAATCTTTTTGAAAATATATATAATATAT-ATTTTT-AAAAAC
*
89925 ATTTTGAAAATT
64 ATTTTGAAAATA
89937 TATATATTATAT-GTTTTTA
1 TATATATTATATAGTTTTTA
89956 GAAATATTTT
Statistics
Matches: 219, Mismatches: 21, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
74 2 0.01
75 26 0.12
76 70 0.32
77 87 0.40
78 28 0.13
79 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (75 bp):
TATATATTATATAGTTTTTAAAAAATCTTTTTGAAAATATATATAATATATATTTTTAAAAACAT
TTTGAAAATA
Found at i:91384 original size:4 final size:4
Alignment explanation
Indices: 91375--91404 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
91365 CTTTATAGAC
91375 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
91405 CTAACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:93041 original size:2 final size:2
Alignment explanation
Indices: 92990--93021 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
92980 ACCATATAAC
92990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93022 CATGTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94662 original size:50 final size:50
Alignment explanation
Indices: 94568--94663 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
94558 CTTTAACATG
*
94568 TGCATCGATGCACTACTCATGCATCGATACACAAATTACCTTCGATGTGA
1 TGCATCGATGCACTACTCATGCATCGATACACAAATTACATTCGATGTGA
* * * * * *
94618 TGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTCGAT
1 TGCATCGATGCACTACTCATGCATCGATACACAAATTACATTCGAT
94664 ATTTCTTCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (50 bp):
TGCATCGATGCACTACTCATGCATCGATACACAAATTACATTCGATGTGA
Found at i:96946 original size:2 final size:2
Alignment explanation
Indices: 96939--96964 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96929 ACCATATACC
96939 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
96965 CATGTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97334 original size:30 final size:29
Alignment explanation
Indices: 97270--97334 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
97260 GACCTATTAT
*
97270 GAGGTCATAAAGACCCCGACAACTATCCA
1 GAGGTCATAAAGACCCAGACAACTATCCA
*
97299 GAGGTCATAAAGAACCTCAG-CAACTGTCCA
1 GAGGTCATAAAG-ACC-CAGACAACTATCCA
*
97329 TAGGTC
1 GAGGTC
97335 CCGAAGAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.39
30 17 0.55
31 2 0.06
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (29 bp):
GAGGTCATAAAGACCCAGACAACTATCCA
Found at i:98605 original size:50 final size:50
Alignment explanation
Indices: 98511--98606 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
98501 CTTTAACATG
*
98511 TGCATCGATGCACTACTCATGCATCGATACACAAATTACCTTCGATGTGA
1 TGCATCGATGCACTACTCATGCATCGATACACAAATTACATTCGATGTGA
* * * * * *
98561 TGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTCGAT
1 TGCATCGATGCACTACTCATGCATCGATACACAAATTACATTCGAT
98607 ATTTCTTCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (50 bp):
TGCATCGATGCACTACTCATGCATCGATACACAAATTACATTCGATGTGA
Found at i:99835 original size:12 final size:12
Alignment explanation
Indices: 99818--99854 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
99808 ATCACTATTC
99818 ACTATTACAGTA
1 ACTATTACAGTA
99830 ACTATTACAGTA
1 ACTATTACAGTA
**
99842 ACTGCTACAGTA
1 ACTATTACAGTA
99854 A
1 A
99855 TTTCAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (12 bp):
ACTATTACAGTA
Found at i:100463 original size:17 final size:16
Alignment explanation
Indices: 100437--100474 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
100427 GTGCCCACCA
*
100437 TATAACCGAAGTGTAT
1 TATAACCGAACTGTAT
100453 TATACACCGAACTGTAT
1 TATA-ACCGAACTGTAT
100470 TATAA
1 TATAA
100475 ACCTGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (16 bp):
TATAACCGAACTGTAT
Found at i:106168 original size:30 final size:31
Alignment explanation
Indices: 106128--106193 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
106118 AACCTATCAA
* * *
106128 TTTTCCAAAAATGCCAAATTGATCCCC-AAT
1 TTTTCAAAAAATGACAAAATGATCCCCTAAT
*
106158 TTTTCAAAAAATTACAAAATGATCCCCTAAT
1 TTTTCAAAAAATGACAAAATGATCCCCTAAT
106189 TTTTC
1 TTTTC
106194 TAAGGCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (31 bp):
TTTTCAAAAAATGACAAAATGATCCCCTAAT
Found at i:113434 original size:95 final size:94
Alignment explanation
Indices: 113262--113446 Score: 248
Period size: 95 Copynumber: 2.0 Consensus size: 94
113252 ATTATAATTA
* * *
113262 TATATATACAATAAAGCTTGAGTTGTCCCTTTAGAGCAATTGGTTAAACACCCCAGCTTTATGGA
1 TATATATACAATAAAGCTTGAGCTGCCCCTTAAGAGCAATTGGTTAAACACCCCAGCTTTATGGA
*
113327 TAATATTCAGCTAGCCTGATAAAGGCGAT
66 TAATATTCAGCTAACCTGATAAAGGCGAT
* ** *
113356 TATACTATACAATAAAGCTTGAGCTGCCCCTCTAAGA-TAATTGGTTAAATGCCCCGGCTTTATG
1 TATA-TATACAATAAAGCTTGAGCTGCCCCT-TAAGAGCAATTGGTTAAACACCCCAGCTTTATG
*
113420 GAT-ATGATTTAGCTAACCTGATAAAGG
64 GATAAT-ATTCAGCTAACCTGATAAAGG
113447 TGTTTACATA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 6 0.08
95 69 0.87
96 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGCTGCCCCTTAAGAGCAATTGGTTAAACACCCCAGCTTTATGGA
TAATATTCAGCTAACCTGATAAAGGCGAT
Found at i:114763 original size:84 final size:84
Alignment explanation
Indices: 114620--115526 Score: 1193
Period size: 84 Copynumber: 10.9 Consensus size: 84
114610 TAAAGAAACT
*
114620 ATTTGCAGCATAACTCAAGGC-AGAAGGGTTATCTGCCAA--AAAGACCTTCCAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
114682 CTCAGCTCCTAGGCACATT
66 CTCAGCTCCAAGGCACATC
* * ** * * * * *
114701 ATTTGCAACATAGCTCAAGGAAAGAAGGGCTATTTGCCAACAAAAGACCTTAGAGTTTGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
114766 CTCAGATCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * *
114785 ATTTGCAGCATAACTCAAGGCTAGAAGGTTTATATGTCAACAAAAGAACTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
114850 CTCAGCTCCAAGGCGCATT
66 CTCAGCTCCAAGGCACATC
*
114869 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTAT-TGCC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
*
114932 GCTAAGCTCTC-AGGCACATC
65 GCTCAGCTC-CAAGGCACATC
** * *
114952 ATTTATAGCATAACTCAAGGGTAAAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
115017 CTCAGCTCCAAGGCGCATC
66 CTCAGCTCCAAGGCACATC
* * * * *
115036 ATTTGCAGCATAACTTAAGGCTAGAAGAGCTATCTACC-ACCAAATACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
115100 CTCAGCTCCCAGGAACATC
66 CTCAGCTCCAAGGCACATC
* * *
115119 ATTTGCAGCATAACCCAAGGCGAGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
115184 CTCAGCTCCCAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * **
115203 ATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTATA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
115268 CTCAGCTCCAAGGCGCATC
66 CTCAGCTCCAAGGCACATC
* * *
115287 ATTTACA-CATAGCTTAAGGCTAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* * *
115350 GCTAAGCTCCCAGGCATATC
65 GCTCAGCTCCAAGGCACATC
*
115370 ATTTGCAGCATAACTAAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
115435 CTAAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
115454 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
115519 CTCAGCTC
66 CTCAGCTC
115527 AGAGGTAAAT
Statistics
Matches: 720, Mismatches: 94, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
81 18 0.03
82 21 0.03
83 210 0.29
84 465 0.65
85 6 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:114964 original size:167 final size:167
Alignment explanation
Indices: 114620--115526 Score: 1169
Period size: 167 Copynumber: 5.4 Consensus size: 167
114610 TAAAGAAACT
*
114620 ATTTGCAGCATAACTCAAGGC-AGAAGGGTTATCTGCC-A-AAAAGACCTTCCAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * * * ** * * *
114682 CTCAGCTCCTAGGCACATTATTTGCAACATAGCTCAAGGAAAGAAGGGCTATTTGCCAACAAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAG
* * *
114747 ACCTTAGAGTTTGACTACGCTCAGATCCAAGGCACATC
130 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
114785 ATTTGCAGCATAACTCAAGGCTAGAAGGTTTATATGTCAACAAAAGAACTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
114850 CTCAGCTCCAAGGCGCATTATTTGCAGCATAACTTAAGGCTAGAAGGGTTAT-TGCCACCAAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAG
*
114914 ACCTTCGAGTTCGACTACGCTAAGCTCTC-AGGCACATC
130 ACCTTCGAGTTCGACTACGCTCAGCTC-CAAGGCACATC
** * * *
114952 ATTTATAGCATAACTCAAGGGTAAAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * * * * *
115017 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCTAGAAGAGCTATCTACCACCAAATA
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGA
* *
115082 CCTTCGAGTTCGACTACGCTCAGCTCCCAGGAACATC
131 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
115119 ATTTGCAGCATAACCCAAGGCGAGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
115184 CTCAGCTCCCAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAG
* ** *
115249 ACCTTCGAGTTCGATTATACTCAGCTCCAAGGCGCATC
130 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
115287 ATTTACA-CATAGCTTAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * * *
115351 CTAAGCTCCCAGGCATATCATTTGCAGCATAACTAAAGGCTAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAG
*
115416 ACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCACATC
130 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * * * *
115454 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
115519 CTCAGCTC
66 CTCAGCTC
115527 AGAGGTAAAT
Statistics
Matches: 652, Mismatches: 81, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
165 21 0.03
166 16 0.02
167 442 0.68
168 173 0.27
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (167 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGA
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:115167 original size:251 final size:249
Alignment explanation
Indices: 114620--115526 Score: 1180
Period size: 251 Copynumber: 3.6 Consensus size: 249
114610 TAAAGAAACT
* *
114620 ATTTGCAGCATAACTCAAGGC-AGAAGGGTTATCTGCCA-AAAAGACCTTCCAGTTCGACTACGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * *
114683 TCAGCTCCTAGGCACATTATTTGCAACATAGCTCAA-GGAAAGAAGGGCTATTTGCCAACAAAAG
66 TAAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGGTAA-AAGGGCTATCTGCCAACCAAAG
* * * * * *
114747 ACCTTAGAGTTTGACTACGCTCAGATCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
130 ACCTTCGAGTTCGACTACACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCTAGAAG
* * * * * * * *
114812 GTTTATATGTCAACAAAAGAACTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATT
195 G-TTATCT-ACCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATC
*
114869 ATTTGCAGCATAACTTAAGGCTAGAAGGGTTAT-TGCCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACG
** * *
114933 CTAAGCTCTC-AGGCACATCATTTATAGCATAACTCAAGGGTAAAAGGGTTATCTGCCAACCAAA
65 CTAAGCTC-CAAGGCACATCATTTGCAACATAACTCAAGGGTAAAAGGGCTATCTGCCAACCAAA
*
114997 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCTAGAA
129 GACCTTCGAGTTCGACTACACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCTAGAA
* * *
115062 GAGCTATCTACCACCAAATACCTTCGAGTTCGACTACGCTCAGCTCCCAGGAACATC
194 G-GTTATCTACCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATC
* *
115119 ATTTGCAGCATAACCCAAGGCGAGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CCAAAGACCTTCGAGTTCGACTACG
* * * * *
115184 CTCAGCTCCCAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAG
65 CTAAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGGTAAAAGGGCTATCTGCCAACCAAAG
* * * *
115249 ACCTTCGAGTTCGATTATACTCAGCTCCAAGGCGCATCATTTACA-CATAGCTTAAGGCTAGAAG
130 ACCTTCGAGTTCGACTACACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCTAGAA-
* * *
115313 GGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTAAGCTCCCAGGCATATC
194 GGTTATCTACCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATC
*
115370 ATTTGCAGCATAACTAAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
* * * * *
115435 CTAAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG-AGAAGGGCTATCTGCCAACCAAA
65 CTAAGCTCCAAGGCACATCATTTGCAACATAACTCAAG-GGTAAAAGGGCTATCTGCCAACCAAA
* *
115499 GACCTTCGAGTTTGATTACACTCAGCTC
129 GACCTTCGAGTTCGACTACACTCAGCTC
115527 AGAGGTAAAT
Statistics
Matches: 583, Mismatches: 62, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
249 25 0.04
250 109 0.19
251 440 0.75
252 9 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (249 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
TAAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGGTAAAAGGGCTATCTGCCAACCAAAGA
CCTTCGAGTTCGACTACACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCTAGAAGG
TTATCTACCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGGCACATC
Found at i:116251 original size:38 final size:38
Alignment explanation
Indices: 116181--116549 Score: 296
Period size: 38 Copynumber: 9.7 Consensus size: 38
116171 TTATATAGTA
* * *
116181 ATATAATATATAATTTTTGAAAA-ATGGTTTTAAAAAAAT
1 ATATAATATATAGTTTTTAAAAACAT--TTTTAAAAATAT
*
116220 ATATATTATATAGTTTTTAAAAACATTTTTAAAATATAT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAA-ATAT
* *
116259 ATATAATATATAG-TTTTAAAAACATTTTGAAAACATTT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAA-ATAT
* * *
116297 ATATATTATATAGTTTTTAAAAA-ACTTTTGAAAATAT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAAATAT
* * *
116334 ATATAATATATAG-TTTTGAAAATATTTTGAAAACAT-T
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAA-ATAT
* *
116371 CATATATTATATAGTTTTTCAAAAA-ATCATTTTGAAAATAT
1 -ATATAATATATAGTTTTT-AAAAACAT--TTTTAAAAATAT
* *
116412 ATATAATATATAATTTTTTAAAAACA-TTTTGAAAATAT
1 ATATAATATAT-AGTTTTTAAAAACATTTTTAAAAATAT
* * *
116450 ATAT--TATATAGTTTTTAAAAACGTTTTTGAAAATGT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAAATAT
* * ** *
116486 AT-T-ATATATGGTTTTAAAAAAAACA-TTTTGGAAATTT
1 ATATAATATATAGTTTT--TAAAAACATTTTTAAAAATAT
* * *
116523 ATATATTATAT-GTTTTTAGAAATATTT
1 ATATAATATATAGTTTTTAAAAACATTT
116550 ATATATATAT
Statistics
Matches: 274, Mismatches: 36, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
35 13 0.05
36 41 0.15
37 37 0.14
38 91 0.33
39 55 0.20
40 23 0.08
41 14 0.05
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATAATATATAGTTTTTAAAAACATTTTTAAAAATAT
Found at i:116350 original size:75 final size:74
Alignment explanation
Indices: 116219--116540 Score: 381
Period size: 75 Copynumber: 4.3 Consensus size: 74
116209 TTTAAAAAAA
*
116219 TATATATTATATAGTTTTT-AAAAACATTTTTAAAATATATATATAATATATAGTTTTAAAAACA
1 TATATATTATATAGTTTTTAAAAAACA-TTTTGAAA-ATATATATAATATATAGTTTTAAAAACA
116283 TTTTGAAAACATT
64 TTTTG-AAA-ATT
* *
116296 TATATATTATATAGTTTTTAAAAAAC-TTTTGAAAATATATATAATATATAGTTTTGAAAATATT
1 TATATATTATATAGTTTTTAAAAAACATTTTGAAAATATATATAATATATAGTTTTAAAAACATT
116360 TTGAAAACATT
66 TTG-AAA-ATT
* *
116371 CATATATTATATAGTTTTTCAAAAAATCATTTTGAAAATATATATAATATATAATTTTTTAAAAA
1 TATATATTATATAGTTTTT-AAAAAA-CATTTTGAAAATATATATAATATAT-A-GTTTTAAAAA
116436 CATTTTGAAAA--
62 CATTTTGAAAATT
* * *
116447 TATATATTATATAGTTTTT-AAAAACGTTTTTGAAAATGTAT-T-ATATATGGTTTTAAAAAAAA
1 TATATATTATATAGTTTTTAAAAAAC-ATTTTGAAAATATATATAATATATAGTTTT---AAAAA
*
116509 CATTTTGGAAATT
62 CATTTTGAAAATT
116522 TATATATTATAT-GTTTTTA
1 TATATATTATATAGTTTTTA
116541 GAAATATTTA
Statistics
Matches: 219, Mismatches: 13, Indels: 28
0.84 0.05 0.11
Matches are distributed among these distances:
70 4 0.02
72 6 0.03
73 17 0.08
74 24 0.11
75 69 0.32
76 31 0.14
77 20 0.09
78 30 0.14
79 4 0.02
80 14 0.06
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (74 bp):
TATATATTATATAGTTTTTAAAAAACATTTTGAAAATATATATAATATATAGTTTTAAAAACATT
TTGAAAATT
Found at i:121148 original size:2 final size:2
Alignment explanation
Indices: 121108--121132 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
121098 TAATTGAAAT
121108 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
121133 TAACTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125278 original size:20 final size:19
Alignment explanation
Indices: 125212--125353 Score: 106
Period size: 20 Copynumber: 7.1 Consensus size: 19
125202 AAATAACCAA
* *
125212 CGAATTCGCAACTCAGTTT
1 CGAATTCGCAACACAATTT
**
125231 CGAATTCGCAACACAAACT
1 CGAATTCGCAACACAATTT
*
125250 CCAATTTCGCAACACAATTT
1 CGAA-TTCGCAACACAATTT
*
125270 CCGAATTCGCAACTCGAATTT
1 -CGAATTCGCAACAC-AATTT
* **
125291 GGAATTCGCAACACAGAAGT
1 CGAATTCGCAACACA-ATTT
*
125311 CGAATTCGCAACTCGAATTT
1 CGAATTCGCAACAC-AATTT
125331 -GACAATTTCGCAACACGAATTT
1 CG--AA-TTCGCAACAC-AATTT
125353 C
1 C
125354 TTTTTCGCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
19 20 0.21
20 50 0.52
21 11 0.11
22 15 0.16
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (19 bp):
CGAATTCGCAACACAATTT
Found at i:125299 original size:40 final size:42
Alignment explanation
Indices: 125251--125353 Score: 140
Period size: 40 Copynumber: 2.5 Consensus size: 42
125241 ACACAAACTC
125251 CAATTTCGCAACACAATTTCCGAATTCGCAACTCGAATTTG-
1 CAATTTCGCAACACAATTTCCGAATTCGCAACTCGAATTTGA
* **
125292 GAA-TTCGCAACACAGAAGT-CGAATTCGCAACTCGAATTTGA
1 CAATTTCGCAACACA-ATTTCCGAATTCGCAACTCGAATTTGA
125333 CAATTTCGCAACACGAATTTC
1 CAATTTCGCAACAC-AATTTC
125354 TTTTTCGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
40 32 0.63
41 6 0.12
42 12 0.24
43 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
CAATTTCGCAACACAATTTCCGAATTCGCAACTCGAATTTGA
Found at i:125361 original size:20 final size:20
Alignment explanation
Indices: 125336--125464 Score: 75
Period size: 20 Copynumber: 6.5 Consensus size: 20
125326 AATTTGACAA
125336 TTTCGCAACACGAATTTCTT
1 TTTCGCAACACGAATTTCTT
**
125356 TTTCGCAACTTG-ATTT-TT
1 TTTCGCAACACGAATTTCTT
* * *
125374 AAATTCGCAACACGAGTTTCCT
1 --TTTCGCAACACGAATTTCTT
* * *
125396 TTTCGCAACAAGATTTTCTA
1 TTTCGCAACACGAATTTCTT
* * * * *
125416 ATTCGTAACGCGAGTTTCAAT
1 TTTCGCAACACGAATTTC-TT
* *
125437 TTT-GCAACAGGAATTTCGT
1 TTTCGCAACACGAATTTCTT
125456 TTTCGCAAC
1 TTTCGCAAC
125465 TCGATTTTTA
Statistics
Matches: 78, Mismatches: 25, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
18 2 0.03
19 8 0.10
20 62 0.79
21 5 0.06
22 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCTT
Found at i:125411 original size:40 final size:40
Alignment explanation
Indices: 125337--125433 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
125327 ATTTGACAAT
* * **
125337 TTCGCAACACGAATTTCTTTTTCGCAACTTGATTTT-TAAA
1 TTCGCAACACGAGTTTCCTTTTCGCAACAAGATTTTCT-AA
125377 TTCGCAACACGAGTTTCCTTTTCGCAACAAGATTTTCTAA
1 TTCGCAACACGAGTTTCCTTTTCGCAACAAGATTTTCTAA
* *
125417 TTCGTAACGCGAGTTTC
1 TTCGCAACACGAGTTTC
125434 AATTTTGCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (40 bp):
TTCGCAACACGAGTTTCCTTTTCGCAACAAGATTTTCTAA
Found at i:125444 original size:40 final size:40
Alignment explanation
Indices: 125337--125445 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
125327 ATTTGACAAT
* * **
125337 TTCGCAACACGAATTTCTTTTTCGCAACTTGATTTTTAAA
1 TTCGCAACACGAGTTTCATTTTCGCAACAAGATTTTTAAA
*
125377 TTCGCAACACGAGTTTCCTTTTCGCAACAAGATTTTCT-AA
1 TTCGCAACACGAGTTTCATTTTCGCAACAAGATTTT-TAAA
* *
125417 TTCGTAACGCGAGTTTCAATTTT-GCAACA
1 TTCGCAACACGAGTTTC-ATTTTCGCAACA
125446 GGAATTTCGT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
40 55 0.92
41 5 0.08
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (40 bp):
TTCGCAACACGAGTTTCATTTTCGCAACAAGATTTTTAAA
Found at i:125444 original size:60 final size:60
Alignment explanation
Indices: 125377--125506 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
125367 GATTTTTAAA
* * * *
125377 TTCGCAACACGAGTTTCCTTTTCGCAACAAGATTTTCT-AATTCGTAACGCGAGTTTCAAT
1 TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTT-TAAATTCGCAACGCGAATTTCAAC
* * * ** *
125437 TTTGCAACAGGAATTTCGTTTTCGCAACTCGATTTTTAAATTCGCAACGCGAATTTTAAC
1 TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTTTAAATTCGCAACGCGAATTTCAAC
125497 TTCGCAACAC
1 TTCGCAACAC
125507 AACTTTTAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 1 0.02
60 56 0.98
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (60 bp):
TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTTTAAATTCGCAACGCGAATTTCAAC
Found at i:125480 original size:20 final size:20
Alignment explanation
Indices: 125457--125526 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
125447 GAATTTCGTT
* *
125457 TTCGCAACTCGATTTTTAAA
1 TTCGCAACACGAATTTTAAA
* *
125477 TTCGCAACGCGAATTTTAAC
1 TTCGCAACACGAATTTTAAA
*
125497 TTCGCAACAC-AACTTTTAAT
1 TTCGCAACACGAA-TTTTAAA
125517 TTCGCAACAC
1 TTCGCAACAC
125527 AAATGTTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 2 0.05
20 42 0.95
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAA
Found at i:126298 original size:12 final size:12
Alignment explanation
Indices: 126277--126310 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
126267 ACCATATTTC
*
126277 CAATACCAAACA
1 CAATATCAAACA
126289 CAATATCAAACA
1 CAATATCAAACA
126301 CAATATCAAA
1 CAATATCAAA
126311 ATCCACAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:126458 original size:24 final size:24
Alignment explanation
Indices: 126431--126477 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
126421 AGTCAGTATT
*
126431 CGAAATTTGAACTTGGTCAATACC
1 CGAAATTTGAACTTAGTCAATACC
* *
126455 CGAACTTTGATCTTAGTCAATAC
1 CGAAATTTGAACTTAGTCAATAC
126478 TCGGATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (24 bp):
CGAAATTTGAACTTAGTCAATACC
Found at i:128838 original size:18 final size:18
Alignment explanation
Indices: 128815--128849 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
128805 AAGTAAAGGG
*
128815 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
128833 AAATCAAAATCCCAATC
1 AAATCAAAATCCCAATC
128850 GCCTTCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:129438 original size:27 final size:27
Alignment explanation
Indices: 129406--129478 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
129396 CTCAAAAATT
* *
129406 AAATTCGCAACTCGAAAATTGAATTCG
1 AAATTCGCAACACGAAAATTAAATTCG
*
129433 CAATTCGCAACACGAAAATTAAATTCG
1 AAATTCGCAACACGAAAATTAAATTCG
129460 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
129479 CGCAACTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (27 bp):
AAATTCGCAACACGAAAATTAAATTCG
Found at i:129547 original size:20 final size:20
Alignment explanation
Indices: 129386--129548 Score: 103
Period size: 20 Copynumber: 7.8 Consensus size: 20
129376 TGCCTAGTGA
* *
129386 AAATTCGCAACTCAAAAATT
1 AAATTCGCAACTCGAAAATG
129406 AAATTCGCAACTCGAAAATTG
1 AAATTCGCAACTCGAAAA-TG
* *
129427 AATTCGCAATTCGCAACACGAAAATT
1 -A-----AATTCGCAACTCGAAAATG
* * * *
129453 AAATTCGAAATTCGCAACACG
1 AAATTCGCAACTCG-AAAATG
* * * *
129474 AAAATCGCAACTCGATATTA
1 AAATTCGCAACTCGAAAATG
** *
129494 AAATTTTCAACTCAAAAATCG
1 AAATTCGCAACTCGAAAAT-G
129515 -AATTCGCAACTCGAAAATG
1 AAATTCGCAACTCGAAAATG
129534 AAATTCGCAACTCGA
1 AAATTCGCAACTCGA
129549 TTAATATCAA
Statistics
Matches: 105, Mismatches: 28, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
19 1 0.01
20 70 0.67
21 15 0.14
22 1 0.01
25 1 0.01
26 1 0.01
27 16 0.15
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (20 bp):
AAATTCGCAACTCGAAAATG
Found at i:129850 original size:24 final size:24
Alignment explanation
Indices: 129818--129879 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
129808 CCTTGAATAC
129818 ATATTCAACTAGTTTAGATGATGG
1 ATATTCAACTAGTTTAGATGATGG
*
129842 ATATTCAACTAGTTTAGATTATGG
1 ATATTCAACTAGTTTAGATGATGG
129866 ATATTCAACTAGTT
1 ATATTCAACTAGTT
129880 GAAAAATCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (24 bp):
ATATTCAACTAGTTTAGATGATGG
Found at i:131738 original size:21 final size:21
Alignment explanation
Indices: 131712--131807 Score: 97
Period size: 21 Copynumber: 4.6 Consensus size: 21
131702 AGTATAGAAT
*
131712 GTGGATTCTGAACGATGCGAG
1 GTGGATTCTGAACGATGAGAG
131733 GTGGA-TCATGAACGATGAGAG
1 GTGGATTC-TGAACGATGAGAG
* *
131754 GTGGATCCTGAACGATGGGAG
1 GTGGATTCTGAACGATGAGAG
**
131775 G-GGCCTCTTGAACGATGAGAG
1 GTGGATTC-TGAACGATGAGAG
* *
131796 GTGAATCCTGAA
1 GTGGATTCTGAA
131808 AATTGGGAGG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 5 0.08
21 52 0.87
22 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.38, T:0.21
Consensus pattern (21 bp):
GTGGATTCTGAACGATGAGAG
Found at i:131787 original size:42 final size:42
Alignment explanation
Indices: 131712--131807 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
131702 AGTATAGAAT
*
131712 GTGGATTCTGAACGATGCGAGGTGGATCATGAACGATGAGAG
1 GTGGATCCTGAACGATGCGAGGTGGATCATGAACGATGAGAG
* * *
131754 GTGGATCCTGAACGATGGGAGG-GGCCTCTTGAACGATGAGAG
1 GTGGATCCTGAACGATGCGAGGTGG-ATCATGAACGATGAGAG
*
131796 GTGAATCCTGAA
1 GTGGATCCTGAA
131808 AATTGGGAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.27, C:0.15, G:0.38, T:0.21
Consensus pattern (42 bp):
GTGGATCCTGAACGATGCGAGGTGGATCATGAACGATGAGAG
Found at i:131827 original size:42 final size:42
Alignment explanation
Indices: 131719--131828 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
131709 AATGTGGATT
* * * * *
131719 CTGAACGATGCGAGGTGGATCATGAACGATGAGAGGTGGATC
1 CTGAACAATGGGAGGTGGACCTTGAACGATGAGAGGTGAATC
* *
131761 CTGAACGATGGGAGG-GGCCTCTTGAACGATGAGAGGTGAATC
1 CTGAACAATGGGAGGTGGAC-CTTGAACGATGAGAGGTGAATC
131803 CTGAA-AATTGGGAGGTGGACCTTGAA
1 CTGAACAA-TGGGAGGTGGACCTTGAA
131829 TAATGGTAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.05
42 52 0.90
43 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.37, T:0.20
Consensus pattern (42 bp):
CTGAACAATGGGAGGTGGACCTTGAACGATGAGAGGTGAATC
Found at i:132213 original size:21 final size:21
Alignment explanation
Indices: 132181--132364 Score: 180
Period size: 21 Copynumber: 8.8 Consensus size: 21
132171 TGAAACAATC
*
132181 TCACGTAGAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* **
132202 TCATGTAAAGCACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
*
132223 TCACGTAAAACACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* *
132244 TCATGTAACA-CACC-ATTCTCA
1 TCACGTAA-AGCACCTA-CCTCA
* *
132265 TTACGTAAAGCAGCTACCTCA
1 TCACGTAAAGCACCTACCTCA
*
132286 CCACGTAAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
**
132307 TCACGTAAAGCA-CTATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
132328 TCACGTAAAGCA-CTGACCTCA
1 TCACGTAAAGCACCT-ACCTCA
132349 TCACGTAAAGCACCTA
1 TCACGTAAAGCACCTA
132365 ACTTATCTCG
Statistics
Matches: 132, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.05
21 120 0.91
22 6 0.05
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:132571 original size:42 final size:42
Alignment explanation
Indices: 132475--132678 Score: 243
Period size: 42 Copynumber: 4.9 Consensus size: 42
132465 TGGAATAGGC
* * * * *
132475 GATGGATCTCGGTGTCGAGGTGTAGAGTCTGCT--A-GATAT
1 GATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATGAGAT
* **
132514 GATGGATCTCGGTGTCGAGGTATAGAATCGGCTCGATGAGAT
1 GATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATGAGAT
* *
132556 GATGGATCTCGGTGTCGAAGTGGAGAATCGACTCGATGAGGT
1 GATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATGAGAT
* * *
132598 AATGGATCTCAGTGTCGAAGTGGAGAATCGGCTCGATGAGGT
1 GATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATGAGAT
* * *
132640 GATGGATCTCGGTGTCGAAGTAGAGAATCGACTTGATGA
1 GATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATGA
132679 AAAAGTGGGG
Statistics
Matches: 145, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 30 0.21
41 1 0.01
42 114 0.79
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.26
Consensus pattern (42 bp):
GATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATGAGAT
Found at i:134209 original size:20 final size:20
Alignment explanation
Indices: 134190--134244 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
134180 TACAACATGA
134190 AAATT-GCAACTCGAAAATG
1 AAATTCGCAACTCGAAAATG
**
134209 AAATTCGCAACTCGAATTTTG
1 AAATTCGCAACTCGAA-AATG
134230 -AATTCGCAACTCGAA
1 AAATTCGCAACTCGAA
134245 TTTCATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 25 0.78
21 2 0.06
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
AAATTCGCAACTCGAAAATG
Found at i:134245 original size:20 final size:20
Alignment explanation
Indices: 134210--134247 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
134200 TCGAAAATGA
134210 AATTCGCAACTCGAATTTTG
1 AATTCGCAACTCGAATTTTG
134230 AATTCGCAACTCGAATTT
1 AATTCGCAACTCGAATTT
134248 CATTTTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
AATTCGCAACTCGAATTTTG
Found at i:134708 original size:22 final size:22
Alignment explanation
Indices: 134678--134724 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
134668 GATGGAGGGG
* *
134678 GTCGTCGGAGATGGGGACGGAT
1 GTCGCCGGAGATGAGGACGGAT
134700 GTCGCCGGAGATGAGGACGGAT
1 GTCGCCGGAGATGAGGACGGAT
134722 GTC
1 GTC
134725 ATCGGAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.47, T:0.17
Consensus pattern (22 bp):
GTCGCCGGAGATGAGGACGGAT
Found at i:134730 original size:22 final size:22
Alignment explanation
Indices: 134682--134732 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
134672 GAGGGGGTCG
* *
134682 TCGGAGATGGGGACGGATGTCG
1 TCGGAGATGAGGACGGATGTCA
*
134704 CCGGAGATGAGGACGGATGTCA
1 TCGGAGATGAGGACGGATGTCA
134726 TCGGAGA
1 TCGGAGA
134733 GAGTGAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.45, T:0.16
Consensus pattern (22 bp):
TCGGAGATGAGGACGGATGTCA
Found at i:134866 original size:20 final size:20
Alignment explanation
Indices: 134843--135028 Score: 110
Period size: 20 Copynumber: 9.2 Consensus size: 20
134833 AGTTGATTTA
* *
134843 CGAAATTTAAATTCGCGTTG
1 CGAAATTGAAATTCGAGTTG
*
134863 CG-AATTCGAAAATCGAGTTG
1 CGAAATT-GAAATTCGAGTTG
* *
134883 CGAAAATGAAATTC-ACATTG
1 CGAAATTGAAATTCGA-GTTG
**
134903 CGAAATTGAAACTT-GCTTTG
1 CGAAATTGAAA-TTCGAGTTG
* *
134923 C-TAATTAGAAAATCGAGTTG
1 CGAAATT-GAAATTCGAGTTG
* * *
134943 CGAAAATGAAACTCGTGTTG
1 CGAAATTGAAATTCGAGTTG
* * *
134963 CGAATTTAAAAATCGAGTTG
1 CGAAATTGAAATTCGAGTTG
** *
134983 CGAAAAAGAAATTCGTGTTG
1 CGAAATTGAAATTCGAGTTG
* *
135003 CAAAATTGTCAAATTTGAGTTG
1 CGAAATTG--AAATTCGAGTTG
135025 CGAA
1 CGAA
135029 TTCGACTTCT
Statistics
Matches: 122, Mismatches: 34, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
19 10 0.08
20 91 0.75
21 8 0.07
22 13 0.11
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (20 bp):
CGAAATTGAAATTCGAGTTG
Found at i:134944 original size:40 final size:40
Alignment explanation
Indices: 134900--135003 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
134890 GAAATTCACA
* * *
134900 TTGCGAAATTGAAACTTGCT-TTGCTAA-TTAGAAAATCGAG
1 TTGCGAAAATGAAACTCG-TGTTGCGAATTTA-AAAATCGAG
134940 TTGCGAAAATGAAACTCGTGTTGCGAATTTAAAAATCGAG
1 TTGCGAAAATGAAACTCGTGTTGCGAATTTAAAAATCGAG
* *
134980 TTGCGAAAAAGAAATTCGTGTTGC
1 TTGCGAAAATGAAACTCGTGTTGC
135004 AAAATTGTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 53 0.93
41 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (40 bp):
TTGCGAAAATGAAACTCGTGTTGCGAATTTAAAAATCGAG
Found at i:134966 original size:60 final size:60
Alignment explanation
Indices: 134843--134956 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
134833 AGTTGATTTA
* * *
134843 CGAAATTTAAATTCGCGTTGCGAATTCGAAAATCGAGTTGCGAAAATGAAATTCACATTG
1 CGAAATTGAAATTCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAATGAAACTCACATTG
* *
134903 CGAAATTGAAACTT-GCTTTGCTAATTAGAAAATCGAGTTGCGAAAATGAAACTC
1 CGAAATTGAAA-TTCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAATGAAACTC
134957 GTGTTGCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (60 bp):
CGAAATTGAAATTCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAATGAAACTCACATTG
Found at i:134993 original size:60 final size:60
Alignment explanation
Indices: 134843--135008 Score: 136
Period size: 60 Copynumber: 2.8 Consensus size: 60
134833 AGTTGATTTA
* * * *** *
134843 CGAAATTTAAATTCGCGTTGCGAATTCGAAAATCGAGTTGCGAAAATGAAATTCACATTG
1 CGAAATTAAAAATCGAGTTGCGAAAAAGAAAATCGAGTTGCGAAAATGAAACTCACATTG
* * * ** * ** ***
134903 CGAAATTGAAACTTGCTTTGCTAATTAGAAAATCGAGTTGCGAAAATGAAACTCGTGTTG
1 CGAAATTAAAAATCGAGTTGCGAAAAAGAAAATCGAGTTGCGAAAATGAAACTCACATTG
* * *
134963 CGAATTTAAAAATCGAGTTGCGAAAAAGAAATTCGTGTTGC-AAAAT
1 CGAAATTAAAAATCGAGTTGCGAAAAAGAAAATCGAGTTGCGAAAAT
135009 TGTCAAATTT
Statistics
Matches: 85, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
59 5 0.06
60 80 0.94
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (60 bp):
CGAAATTAAAAATCGAGTTGCGAAAAAGAAAATCGAGTTGCGAAAATGAAACTCACATTG
Found at i:135079 original size:20 final size:21
Alignment explanation
Indices: 135037--135088 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
135027 AATTCGACTT
135037 CTGTG-TGCGAATTCCAAATA
1 CTGTGTTGCGAATTCCAAATA
**
135057 CTGTGTTGCGAATTCGGAA-A
1 CTGTGTTGCGAATTCCAAATA
135077 CTGTGTTGCGAA
1 CTGTGTTGCGAA
135089 ATTGGCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (21 bp):
CTGTGTTGCGAATTCCAAATA
Found at i:137526 original size:20 final size:20
Alignment explanation
Indices: 137498--137535 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
137488 TTGATTGTCC
*
137498 ATCTTTTTAATATAATCTAT
1 ATCTATTTAATATAATCTAT
137518 ATCTATTTAATATAATCT
1 ATCTATTTAATATAATCT
137536 TAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
ATCTATTTAATATAATCTAT
Found at i:142502 original size:18 final size:18
Alignment explanation
Indices: 142475--142524 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
142465 ATTTCTGAGG
*
142475 GAATTGGAATCTGTGAAT
1 GAATTAGAATCTGTGAAT
142493 GAATTAGAATCTGTGAAT
1 GAATTAGAATCTGTGAAT
142511 GAATTAGAATCTGT
1 GAATTAGAATCTGT
142525 CAGGAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (18 bp):
GAATTAGAATCTGTGAAT
Found at i:143383 original size:233 final size:230
Alignment explanation
Indices: 142948--143429 Score: 614
Period size: 233 Copynumber: 2.1 Consensus size: 230
142938 TGAATTAGAA
* * *
142948 ACCTAACCCGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAA
1 ACCTGACCTGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGGGACTTAATTGAA
*
143013 AAAAAATTATATATAGAGAGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATAT
66 AAAAAATTATATATAGAGAGGTATTATTGTAATTATTCCTAAATATATAAGAGAAAATTATATAT
* * * * * * *
143078 TTTTGGGTCGAGTCAGGTCGGGTATTTTTCACCCTAAACCCGAACCCTACTCAAATATCACACTT
131 ATTT--GTCGAGTCAGATCAGATATTTTTCACCCTAAACCCAAACCCGACCCAAATATCACACTT
* * *
143143 AAAAAAAACTGACCCAATCTGACCAAAATAAAGTTTC
194 AAAAAAAACCGACCCAACCCGACCAAAATAAAGTTTC
* *
143180 ACCTGACCTGACCCGAAATAAT-AAAAAATTATTTTTATTTAATAAAAGCAGGGACTTAATTGAA
1 ACCTGACCTGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGGGACTTAATTG-A
* *
143244 GAAAAAAATTATATATAGAGGGGTATTATTGTAATTATTTCTAAATATATAAG-GAAAATTATAT
65 -AAAAAAATTATATATAGAGAGGTATTATTGTAATTATTCCTAAATATATAAGAGAAAATTATAT
* * *
143308 ATATTT-TCGATTCGAGAT-AGATATTTTTCACCCTAAACCCAAACTCGACCCGACCCGAATATT
129 ATATTTGTCGAGTC-AGATCAGATATTTTTCACCCTAAACCC-AA----ACCCGACCCAAATATC
* *
143371 ACACTT-AAAAAAACCGATCCGACCCGACCAAAATAAAGTTTC
188 ACACTTAAAAAAAACCGACCCAACCCGACCAAAATAAAGTTTC
* *
143413 ACCCGACCTGACTCGAA
1 ACCTGACCTGACCCGAA
143430 TATATGAATT
Statistics
Matches: 217, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
229 26 0.12
230 4 0.02
231 37 0.17
232 36 0.17
233 96 0.44
234 18 0.08
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (230 bp):
ACCTGACCTGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGGGACTTAATTGAA
AAAAAATTATATATAGAGAGGTATTATTGTAATTATTCCTAAATATATAAGAGAAAATTATATAT
ATTTGTCGAGTCAGATCAGATATTTTTCACCCTAAACCCAAACCCGACCCAAATATCACACTTAA
AAAAAACCGACCCAACCCGACCAAAATAAAGTTTC
Found at i:151176 original size:17 final size:18
Alignment explanation
Indices: 151144--151179 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
151134 ACGGTCGACT
151144 GTTGACCGCTGCGTTGACC
1 GTTGACCGC-GCGTTGACC
151163 GTTGACCG-GCGTTGACC
1 GTTGACCGCGCGTTGACC
151180 ACTATTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.11, C:0.31, G:0.33, T:0.25
Consensus pattern (18 bp):
GTTGACCGCGCGTTGACC
Found at i:153607 original size:12 final size:12
Alignment explanation
Indices: 153569--153651 Score: 64
Period size: 12 Copynumber: 6.9 Consensus size: 12
153559 ATTTTCAACT
153569 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
153581 TGAA-ACATGACC
1 TGAATTC-TGTTC
153593 TGAATTCTGTTC
1 TGAATTCTGTTC
* *
153605 TGATTTCTG-AC
1 TGAATTCTGTTC
*
153616 ATGGATTCTGTTC
1 -TGAATTCTGTTC
153629 TGATATT-TGTTC
1 TGA-ATTCTGTTC
153641 TGAATTCTGTT
1 TGAATTCTGTT
153652 TTGATTTATG
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
11 5 0.09
12 43 0.81
13 5 0.09
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:153615 original size:24 final size:24
Alignment explanation
Indices: 153569--153658 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
153559 ATTTTCAACT
**
153569 TGAATTCTGTTCTGA-AACATGACC
1 TGAATTCTGTTCTGATTTC-TGACC
*
153593 TGAATTCTGTTCTGATTTCTGACA
1 TGAATTCTGTTCTGATTTCTGACC
* **
153617 TGGATTCTGTTCTGATATT-TGTTC
1 TGAATTCTGTTCTGAT-TTCTGACC
*
153641 TGAATTCTGTTTTGATTT
1 TGAATTCTGTTCTGATTT
153659 ATGATATATC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.04
24 50 0.91
25 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGACC
Found at i:158993 original size:2 final size:2
Alignment explanation
Indices: 158986--159069 Score: 61
Period size: 2 Copynumber: 44.5 Consensus size: 2
158976 ATCGGGCGGG
* * *
158986 AT AT AT AT AT AT AT AT AA AT -T AA AT AT AT AA AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
159026 TT TT AT TT AA AT -T AA AT AT -T A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
159065 AT AT A
1 AT AT A
159070 ATTATTTTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
1 5 0.08
2 59 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:162866 original size:185 final size:186
Alignment explanation
Indices: 162567--162947 Score: 674
Period size: 185 Copynumber: 2.1 Consensus size: 186
162557 ATAAAAAATA
**
162567 AATATTTTATAATTCAAAAAAACAGTTTATTATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
162632 ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATT
66 ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATT
* *
162697 ATTAATTGGGTTTTAAATGGTTTGGGTTGAGAGCATATGTCATATATAATATATTT
131 ATTAATTGGATTTTAAATGGTTTGGGTTGAGACCATATGTCATATATAATATATTT
162753 AATATTTT-TAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
* *
162817 ATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATT
66 ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATT
* *
162882 ATTAATTGGATTTTAAATGGTTTGGGTTGAGCCCATATGTTATATATAATATATTT
131 ATTAATTGGATTTTAAATGGTTTGGGTTGAGACCATATGTCATATATAATATATTT
*
162938 AAAATTTTAT
1 AATATTTTAT
162948 TTCGATTAAT
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 176 0.95
186 9 0.05
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (186 bp):
AATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATT
ATTAATTGGATTTTAAATGGTTTGGGTTGAGACCATATGTCATATATAATATATTT
Found at i:163702 original size:14 final size:15
Alignment explanation
Indices: 163675--163710 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
163665 GAATAAAAAA
163675 TATTTTTTACATAAAG
1 TATTTTTTA-ATAAAG
163691 TATTTTTT-ATAAAG
1 TATTTTTTAATAAAG
163705 TATTTT
1 TATTTT
163711 CTGTCTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
16 8 0.40
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TATTTTTTAATAAAG
Found at i:170291 original size:37 final size:36
Alignment explanation
Indices: 170229--170348 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 36
170219 ATCCCATTAT
* * *
170229 CATTTTTC-AACAAACATCTATCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
170264 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
170301 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
170336 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
170349 TTGGTTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 35 0.46
36 8 0.11
37 33 0.43
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Done.