Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009290.1 Hibiscus syriacus cultivar Beakdansim tig00112989_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: 385540
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:8632 original size:2 final size:2
Alignment explanation
Indices: 8620--8666 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
8610 ACTAAATACT
*
8620 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8662 TA TA T
1 TA TA T
8667 TAAAAGATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9331 original size:2 final size:2
Alignment explanation
Indices: 9324--9348 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9314 TTCTTGTTCT
9324 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
9349 TAATTCTATT
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:9588 original size:12 final size:13
Alignment explanation
Indices: 9564--9596 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9554 ACTATAACAA
9564 TATT-TTATGAAT
1 TATTATTATGAAT
9576 TATTATTAT-AAT
1 TATTATTATGAAT
9588 TATTATTAT
1 TATTATTAT
9597 TAGAGTGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTATTATGAAT
Found at i:10084 original size:5 final size:5
Alignment explanation
Indices: 10074--10099 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10064 TGACTTAGAA
10074 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
10100 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:16451 original size:27 final size:27
Alignment explanation
Indices: 16420--16487 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16410 TCTATTTACA
16420 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
16447 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
16474 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
16488 ATTCCTACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:20217 original size:27 final size:27
Alignment explanation
Indices: 20185--20237 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
20175 TTTACAAAAT
20185 CATATCTCTATAGGAATGGTAACAAAC
1 CATATCTCTATAGGAATGGTAACAAAC
20212 CATATCTCTATAGGAATGGTAACAAA
1 CATATCTCTATAGGAATGGTAACAAA
20238 TCATCTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
CATATCTCTATAGGAATGGTAACAAAC
Found at i:22742 original size:4 final size:4
Alignment explanation
Indices: 22735--22760 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22725 TTATTGCTTC
22735 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
22761 TTCTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:23277 original size:28 final size:29
Alignment explanation
Indices: 23235--23290 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
23225 ATAATATATA
* *
23235 GTTTTGAAAATATTTTT-GAAAACGTATG
1 GTTTTGAAAACATTTTTAAAAAACGTATG
23263 GTTTTGAAAACATTTTTAAAAAACGTAT
1 GTTTTGAAAACATTTTTAAAAAACGTAT
23291 ATAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.41
Consensus pattern (29 bp):
GTTTTGAAAACATTTTTAAAAAACGTATG
Found at i:23340 original size:35 final size:35
Alignment explanation
Indices: 23259--23362 Score: 154
Period size: 35 Copynumber: 2.9 Consensus size: 35
23249 TTTGAAAACG
*
23259 TATGGTTTTGAAAACATTTTTAAAAAACGTATATAATA
1 TATGGTTTTGAAAACATTTTT-GAAAACG--TATAATA
*
23297 TATAGTTTTGAAAACATTTTTGAAAACGTATAATA
1 TATGGTTTTGAAAACATTTTTGAAAACGTATAATA
*
23332 TATGGTTTTGAAAACATTTTTGAAAATGTAT
1 TATGGTTTTGAAAACATTTTTGAAAACGTAT
23363 GGTTTTGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 36 0.58
37 6 0.10
38 20 0.32
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (35 bp):
TATGGTTTTGAAAACATTTTTGAAAACGTATAATA
Found at i:23404 original size:22 final size:24
Alignment explanation
Indices: 23377--23421 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
23367 TTGAAAATGT
23377 TTTTG-AAACATATATA-ATATAG
1 TTTTGAAAACATATATATATATAG
*
23399 TTTTGAAAACGTATATATATATA
1 TTTTGAAAACATATATATATATA
23422 TATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (24 bp):
TTTTGAAAACATATATATATATAG
Found at i:23465 original size:7 final size:7
Alignment explanation
Indices: 23453--23597 Score: 117
Period size: 7 Copynumber: 21.0 Consensus size: 7
23443 GAAAACATAA
23453 TATATAT
1 TATATAT
23460 TATATAGT
1 TATATA-T
23468 TATATAT
1 TATATAT
23475 TATATAGT
1 TATATA-T
*
23483 TATTTAT
1 TATATAT
*
23490 T-TATTT
1 TATATAT
*
23496 TCATTACAT
1 T-A-TATAT
23505 TATATAT
1 TATATAT
23512 TATATA-
1 TATATAT
23518 T-TATAT
1 TATATAT
23524 T-TATAT
1 TATATAT
*
23530 TATTTAT
1 TATATAT
*
23537 TATTTAT
1 TATATAT
*
23544 TATTTAT
1 TATATAT
*
23551 TATTTAT
1 TATATAT
23558 TAT-TAT
1 TATATAT
23564 TAT-TAT
1 TATATAT
23570 TAT-TAT
1 TATATAT
23576 TAT-TAT
1 TATATAT
23582 TATTATACT
1 TA-TATA-T
23591 TATATAT
1 TATATAT
23598 ATTATATTTA
Statistics
Matches: 121, Mismatches: 7, Indels: 20
0.82 0.05 0.14
Matches are distributed among these distances:
5 4 0.03
6 35 0.29
7 55 0.45
8 20 0.17
9 7 0.06
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (7 bp):
TATATAT
Found at i:23473 original size:15 final size:14
Alignment explanation
Indices: 23453--23597 Score: 117
Period size: 15 Copynumber: 10.5 Consensus size: 14
23443 GAAAACATAA
23453 TATATATTATATAGT
1 TATATATTATATA-T
23468 TATATATTATATAGT
1 TATATATTATATA-T
* *
23483 TATTTATT-TATTT
1 TATATATTATATAT
*
23496 TCATTACATTATATAT
1 T-A-TATATTATATAT
23512 TATATA-T-TATAT
1 TATATATTATATAT
*
23524 T-TATATTATTTAT
1 TATATATTATATAT
* *
23537 TATTTATTATTTAT
1 TATATATTATATAT
*
23551 TATTTATTAT-TAT
1 TATATATTATATAT
23564 TAT-TATTAT-TAT
1 TATATATTATATAT
23576 TAT-TATTATTATACT
1 TATATATTA-TATA-T
23591 TATATAT
1 TATATAT
23598 ATTATATTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
11 4 0.04
12 24 0.21
13 15 0.13
14 30 0.27
15 31 0.28
16 8 0.07
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (14 bp):
TATATATTATATAT
Found at i:23480 original size:9 final size:9
Alignment explanation
Indices: 23452--23609 Score: 51
Period size: 9 Copynumber: 18.0 Consensus size: 9
23442 TGAAAACATA
23452 ATATATA-T
1 ATATATATT
*
23460 -TATATAGT
1 ATATATATT
23468 -TATATATT
1 ATATATATT
23476 ATATAGTTATT
1 ATATA--TATT
*
23487 -TATTTATT
1 ATATATATT
* *
23495 TTCATTACATT
1 AT-A-TATATT
23506 ATATAT-TAT
1 ATATATAT-T
23515 ATATTATATT
1 ATA-TATATT
23525 -TATATTATT
1 ATATA-TATT
23534 -TAT-TATT
1 ATATATATT
23541 -TAT-TATT
1 ATATATATT
23548 -TAT-TATT
1 ATATATATT
23555 -TAT-TATT
1 ATATATATT
23562 AT-TATTATT
1 ATATA-TATT
23571 AT-TATTATT
1 ATATA-TATT
23580 ATTATTATACTT
1 A-TA-TATA-TT
23592 ATATATATT
1 ATATATATT
*
23601 ATATTTATT
1 ATATATATT
23610 TTTTTCATGT
Statistics
Matches: 125, Mismatches: 7, Indels: 35
0.75 0.04 0.21
Matches are distributed among these distances:
7 32 0.26
8 16 0.13
9 44 0.35
10 14 0.11
11 14 0.11
12 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
ATATATATT
Found at i:23491 original size:4 final size:4
Alignment explanation
Indices: 23482--23558 Score: 52
Period size: 4 Copynumber: 18.2 Consensus size: 4
23472 TATTATATAG
* *
23482 TTAT TTAT TTATT TTCAT TACAT TATAT ATTAT ATAT TATAT TTAT ATTAT
1 TTAT TTAT TTA-T TT-AT T-TAT T-TAT -TTAT TTAT T-TAT TTAT -TTAT
23533 TTA- TTAT TTA- TTAT TTA- TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
23559 ATTATTATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
3 9 0.15
4 27 0.45
5 22 0.37
6 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:23514 original size:25 final size:25
Alignment explanation
Indices: 23486--23546 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
23476 ATATAGTTAT
*
23486 TTATTTATTTTCA-TTACATTATATA
1 TTATTTATTAT-ATTTACATTATATA
* * *
23511 TTATATATTATATTTATATTATTTA
1 TTATTTATTATATTTACATTATATA
23536 TTATTTATTAT
1 TTATTTATTAT
23547 TTATTATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTATTATATTTACATTATATA
Found at i:23533 original size:39 final size:38
Alignment explanation
Indices: 23462--23617 Score: 135
Period size: 39 Copynumber: 4.0 Consensus size: 38
23452 ATATATATTA
*
23462 TATAGTTATATATTATATAGT-TATTTATTTATTTTCAT
1 TATA-TTATATATTATATATTATATTTATTTATTTTCAT
* *
23500 TACATTATATATTATATATTATATTTATATTATTTATTAT
1 TATATTATATATTATATATTATATTTAT-TTATTT-TCAT
* *
23540 T-TATTATTTATTATTTATTAT-TATTA-TTATTATT-AT
1 TATATTATATATTATATATTATAT-TTATTTATT-TTCAT
23576 TATTATTATTATACTTATATATATTATATTTATTT-TTTTCAT
1 TA-TATTA-TATA--T-TATATATTATATTTATTTATTTTCAT
23618 GTCCAAAGGG
Statistics
Matches: 96, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
36 3 0.03
37 21 0.22
38 17 0.18
39 29 0.30
40 4 0.04
41 3 0.03
42 16 0.17
43 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (38 bp):
TATATTATATATTATATATTATATTTATTTATTTTCAT
Found at i:23539 original size:3 final size:3
Alignment explanation
Indices: 23503--23587 Score: 93
Period size: 3 Copynumber: 26.7 Consensus size: 3
23493 TTTTCATTAC
23503 ATT ATAT ATT ATAT ATT A-T ATT -TAT ATT ATTT ATT ATTT ATT ATTT
1 ATT AT-T ATT AT-T ATT ATT ATT AT-T ATT A-TT ATT A-TT ATT A-TT
23549 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23588 ACTTATATAT
Statistics
Matches: 73, Mismatches: 0, Indels: 18
0.80 0.00 0.20
Matches are distributed among these distances:
2 3 0.04
3 51 0.70
4 19 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24976 original size:16 final size:14
Alignment explanation
Indices: 24949--24984 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
24939 TTAAATTTAA
24949 TATTTTCTTTATTT
1 TATTTTCTTTATTT
24963 TATTTTCGTCTTATTT
1 TATTTTC-T-TTATTT
24979 TATTTT
1 TATTTT
24985 TTAAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.35
15 1 0.05
16 12 0.60
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (14 bp):
TATTTTCTTTATTT
Found at i:25004 original size:9 final size:10
Alignment explanation
Indices: 24981--25006 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24971 TCTTATTTTA
24981 TTTTTTAAAC
1 TTTTTTAAAC
24991 TTTTTTAAAC
1 TTTTTTAAAC
25001 TTTTTT
1 TTTTTT
25007 CTTCTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTAAAC
Found at i:28323 original size:2 final size:2
Alignment explanation
Indices: 28316--28352 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
28306 TTAAAGAAAC
28316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28353 ATAATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28408 original size:2 final size:2
Alignment explanation
Indices: 28401--28425 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28391 ATAATTTAAA
28401 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
28426 CGTATAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29879 original size:106 final size:106
Alignment explanation
Indices: 29688--30420 Score: 910
Period size: 106 Copynumber: 6.9 Consensus size: 106
29678 GTATTGTTCC
* * * *
29688 GAGTCCAATATCCTCCG-TCGTGAAGTTAAAATTGGCTC-CAGAACTGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCTTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AACTGGGAAATTGTTTGTTGAC
* * * * * *
29751 AGCC-GACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTG
64 AACCAG-CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* *
29794 GAGTTCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
* *
29859 CCAGCCGTCCCTTCGTTGTGAATTTGAACTTGTGTCGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* * * *
29900 GAGTCCAATATCCTTT-GTTGTGAAGTTGAAATTGGCTATG-AATTGGGAAATTGTTTGCTGACA
1 GAGTCCAATAT-CTTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
*
29963 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* * * ** *
30005 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAACT-AAAAAGTGGTTTGTTGACA
1 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA-TTGTTTGTTGACA
*
30069 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
*
30111 GAGTCCAATATCCTTT-GCTGTGAAGTTGAAATTGGCTCTGAAACTAGGAAATTGTTTTGTTGAC
1 GAGTCCAATAT-CTTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTG-TTTGTTGAC
* * *
30175 AACCAGTCATCACTTCGTTGT-AATGTTGAACTTGTGTTGTCTT
64 AACCAGCCGTCCCTTCGTTGTGAA-GTTGAACTTGTGTTGTCTT
* * * *
30218 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTGGTTTGTT
1 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAA-TTGTTTGTT
* *
30282 GACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* * *
30328 GAGTCCAATAT-TCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAATGGTTTGTTGACA
1 GAGTCCAATATCT-TTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
*
30392 ACTAGCCGTCCCTTCGTTGTGAAGTTGAA
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAA
30421 TTTGACTCTG
Statistics
Matches: 555, Mismatches: 52, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
104 3 0.01
105 98 0.18
106 263 0.47
107 95 0.17
110 85 0.15
111 11 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
Found at i:29989 original size:211 final size:212
Alignment explanation
Indices: 29688--30420 Score: 967
Period size: 211 Copynumber: 3.4 Consensus size: 212
29678 GTATTGTTCC
* *
29688 GAGTCCAATATCCTCCG-TCGTGAAGTTAAAATTGGCTCCA-G-AACTGGGAAATTGTTTGTTGA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCT--ATGAAACTGGGAAATTGTTTGTTGA
* * * * * * * *
29750 CAGCC-GACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTGGAGTTCAATATCTTTCGCTG
63 CAACCAG-CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTG
* * *
29814 TGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
127 TGAAGTTGAAATTGGCTCTGAAACT-GAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
* *
29878 GAATTTGAACTTGTGTCGTCTT
191 GAAGTTGAACTTGTGTTGTCTT
* * * *
29900 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTATG-AATTGGGAAATTGTTTGCTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
* *
29964 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
* * *
30029 GTTGAAATTGGCTTTGAAACTAAAAAGTGGTTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGT
131 GTTGAAATTGGCTCTGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
30094 TGAACTTGTGTTGTCTT
196 TGAACTTGTGTTGTCTT
* * *
30111 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAACTAGGAAATTGTTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTG-TTTGTTGACA
* * *
30176 ACCAGTCATCACTTCGTTGT-AATGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTG
65 ACCAGCCGTCCCTTCGTTGTGAA-GTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTG
* *
30240 AAGTTGAAATTGACTCTGAATGAAACTGAAAAGTGGTTTGTTGACAACCAGTCGTCCCTTCGTTG
129 AAGTTGAAATTGGCTC----TGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCGTTG
*
30305 TGAAGTTGAACTTGTGTTGTCTC
190 TGAAGTTGAACTTGTGTTGTCTT
* * * * *
30328 GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAATGGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
*
30393 CTAGCCGTCCCTTCGTTGTGAAGTTGAA
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAA
30421 TTTGACTCTG
Statistics
Matches: 462, Mismatches: 47, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
210 4 0.01
211 184 0.40
212 46 0.10
213 82 0.18
216 32 0.07
217 114 0.25
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (212 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
TGAACTTGTGTTGTCTT
Found at i:30385 original size:323 final size:316
Alignment explanation
Indices: 29687--30420 Score: 994
Period size: 323 Copynumber: 2.3 Consensus size: 316
29677 AGTATTGTTC
* * * *
29687 CGAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTC-CAGAACTGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGT-GTGAAGTTGAAATTGGCTCTGA-AACTGGGAAATGGTTTGTTGAC
* * * * *
29751 AGCC-GACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTGGAGTTCAATATCTTTCGCTGT
64 AACCAG-CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCTTTCGCTGT
* * * *
29815 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
128 GAAGTTGAAATTGGCTCTGAAACTAGGAAATTGTTTGTTGACAACCAGCCATCACTTCGTTGTGA
* * *
29880 ATTTGAACTTGTGTCGTCTTGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTATGAATTG
193 ATTTGAACTTGTGTCGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAACTG
* *
29945 GGAAATTGTTTGCTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
258 GAAAATGGTTTGCTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * **
30004 TGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAACT-AAAAAGTGGTTTGTTGAC
1 CGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA-TGGTTTGTTGAC
* * *
30068 AACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTT-GCTGT
64 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATAT-CTTTCGCTGT
*
30132 GAAGTTGAAATTGGCTCTGAAACTAGGAAATTGTTTTGTTGACAACCAGTCATCACTTCGTTGT-
128 GAAGTTGAAATTGGCTCTGAAACTAGGAAATTG-TTTGTTGACAACCAGCCATCACTTCGTTGTG
* *
30196 AATGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAT
192 AAT-TTGAACTTGTGTCGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG--GCT--AT
*
30261 GAAACT-GAAAAGTGGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT
252 G-AACTGGAAAA-TGGTTTGCTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT
30325 CT
315 CT
* * *
30327 CGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAATGGTTTGTTGACA
1 CGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATGGTTTGTTGACA
*
30392 ACTAGCCGTCCCTTCGTTGTGAAGTTGAA
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAA
30421 TTTGACTCTG
Statistics
Matches: 364, Mismatches: 39, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
316 3 0.01
317 131 0.36
318 83 0.23
320 2 0.01
322 7 0.02
323 136 0.37
324 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (316 bp):
CGAGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATGGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCTTTCGCTGTGAA
GTTGAAATTGGCTCTGAAACTAGGAAATTGTTTGTTGACAACCAGCCATCACTTCGTTGTGAATT
TGAACTTGTGTCGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAACTGGAA
AATGGTTTGCTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:30420 original size:63 final size:64
Alignment explanation
Indices: 30340--30487 Score: 174
Period size: 67 Copynumber: 2.3 Consensus size: 64
30330 GTCCAATATT
* * * ** * *
30340 CTTCGCTGTGAAGTTGAAATTGGCTC-TGAAATTGGGTAA-TGGTTTGTTGACAACTAGCCGTCC
1 CTTCGTTGTGAAGTTGAAATTGACTCATGAAACT-GAAAAGTGGTTTATTGACAACCAGCCGTCC
*
30403 CTTCGTTGTGAAGTTGAATTTGACTCTGAATGAAACTGAAAAGTGGTTTATTGACAACCAGCCGT
1 CTTCGTTGTGAAGTTGAAATTGACTC---ATGAAACTGAAAAGTGGTTTATTGACAACCAGCCGT
30468 CC
63 CC
30470 CTTCGTTGTGAAGTTGAA
1 CTTCGTTGTGAAGTTGAA
30488 CTTGTGTTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
63 23 0.32
66 3 0.04
67 46 0.64
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (64 bp):
CTTCGTTGTGAAGTTGAAATTGACTCATGAAACTGAAAAGTGGTTTATTGACAACCAGCCGTCC
Found at i:37651 original size:38 final size:38
Alignment explanation
Indices: 37562--37661 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 38
37552 TATATATAGT
*
37562 AATATTTGAAAAATGAAAT-A--TATATATATATACATCA
1 AATATTT-AAAAAT-AAATAAGCTATATATATATACAACA
*
37599 AAGTATTAATAAAATAAATAAGCTATATATATATACAACA
1 AA-TATTTA-AAAATAAATAAGCTATATATATATACAACA
37639 AATATTTAAAAATAGAA-AAGCTA
1 AATATTTAAAAATA-AATAAGCTA
37662 CCATCTCACT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
37 7 0.13
38 22 0.41
39 7 0.13
40 18 0.33
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (38 bp):
AATATTTAAAAATAAATAAGCTATATATATATACAACA
Found at i:42953 original size:21 final size:21
Alignment explanation
Indices: 42927--42967 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42917 AAAATTTTAG
*
42927 TGCATCGGTGCACTGTAGCAA
1 TGCATCGATGCACTGTAGCAA
*
42948 TGCATCGATGCATTGTAGCA
1 TGCATCGATGCACTGTAGCA
42968 CTGTTTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCACTGTAGCAA
Found at i:45381 original size:16 final size:16
Alignment explanation
Indices: 45356--45389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45346 TGGACGAATT
*
45356 ATCAAGATACAACCAG
1 ATCAAAATACAACCAG
*
45372 ATCAAAATACATCCAG
1 ATCAAAATACAACCAG
45388 AT
1 AT
45390 GATATGGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.18
Consensus pattern (16 bp):
ATCAAAATACAACCAG
Found at i:49304 original size:73 final size:73
Alignment explanation
Indices: 49175--49336 Score: 263
Period size: 73 Copynumber: 2.2 Consensus size: 73
49165 ATTCAATTGA
* *
49175 GACTCAACTTCACGACGAATGAGTCACCCACGATTTTAACTTCACAACGAAAGATATCATGCCCA
1 GACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAAGATATCATGCCCA
49240 ACAGTTTC
66 ACAGTTTC
* * *
49248 GACTTAACTTCACGACGAA-GAAGTCACCCATGATTTCAACTTCACAATGAAGGATATCATGCCC
1 GACTTAACTTCACGACGAATG-AGTCACCCACGATTTCAACTTCACAACGAAAGATATCATGCCC
49312 AACAGTTTC
65 AACAGTTTC
49321 GACTTAACTTCACGAC
1 GACTTAACTTCACGAC
49337 ACTTAACTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 1 0.01
73 82 0.99
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (73 bp):
GACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAAGATATCATGCCCA
ACAGTTTC
Found at i:49342 original size:15 final size:15
Alignment explanation
Indices: 49322--49351 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49312 AACAGTTTCG
49322 ACTTAACTTCACGAC
1 ACTTAACTTCACGAC
49337 ACTTAACTTCACGAC
1 ACTTAACTTCACGAC
49352 GAATGAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
ACTTAACTTCACGAC
Found at i:49399 original size:88 final size:88
Alignment explanation
Indices: 49249--49420 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 88
49239 AACAGTTTCG
* *
49249 ACTTAACTTCACGACGAAGAAGTCACCCATGATTTCAACTTCACAATGAAGGATATCATGCCCAA
1 ACTTAACTTCACGACGAAGAAGTCACCCACGATTTCAACTTCACAACGAAGGATATCATGCCCAA
* *
49314 CAGTTTCGACTTAACTTCACGAC
66 AAGTTTCAACTTAACTTCACGAC
* *
49337 ACTTAACTTCACGACGAATG-AGTCACCCACGATTTCAACTTCACAACGAATGATATCGTGCCCA
1 ACTTAACTTCACGACGAA-GAAGTCACCCACGATTTCAACTTCACAACGAAGGATATCATGCCCA
49401 AAAGTTTCAACTTAACTTCA
65 AAAGTTTCAACTTAACTTCA
49421 TGACGAATGA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 76 0.99
89 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (88 bp):
ACTTAACTTCACGACGAAGAAGTCACCCACGATTTCAACTTCACAACGAAGGATATCATGCCCAA
AAGTTTCAACTTAACTTCACGAC
Found at i:49412 original size:36 final size:35
Alignment explanation
Indices: 49368--49559 Score: 106
Period size: 36 Copynumber: 5.3 Consensus size: 35
49358 GTCACCCACG
49368 ATTTCAACTTCACAACGAATGATATCGTGCCCAAA
1 ATTTCAACTTCACAACGAATGATATCGTGCCCAAA
* * * **
49403 AGTTTCAACTTAACTTCATGACGAATGA-GTCAT--CCACG
1 A-TTTCAACTT--C-ACA--ACGAATGATATCGTGCCCAAA
* *
49441 ATTTCAACTTCACAATGAAGGATATCGTGCCCAACA
1 ATTTCAACTTCACAACGAATGATATCGTGCCCAA-A
* * * * * * **
49477 CTTTCTACTTAACTTCACG-ATGA-ATGAGTCACCCATG
1 ATTTCAACTTCAC--AACGAATGATAT-CGT-GCCCAAA
49514 ATTTCAACTTCACAACGAATGATATCGTGCCCAAA
1 ATTTCAACTTCACAACGAATGATATCGTGCCCAAA
49549 AGTTTCAACTT
1 A-TTTCAACTT
49560 AGCTTCACAA
Statistics
Matches: 110, Mismatches: 30, Indels: 33
0.64 0.17 0.19
Matches are distributed among these distances:
32 6 0.05
33 3 0.03
34 2 0.02
35 13 0.12
36 36 0.33
37 26 0.24
38 11 0.10
39 2 0.02
40 3 0.03
41 8 0.07
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (35 bp):
ATTTCAACTTCACAACGAATGATATCGTGCCCAAA
Found at i:49465 original size:73 final size:73
Alignment explanation
Indices: 49337--49619 Score: 440
Period size: 73 Copynumber: 3.9 Consensus size: 73
49327 ACTTCACGAC
*
49337 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAATGATATCGTGCCCAA
1 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAA
49402 AAGTTTCA
66 AAGTTTCA
* * *
49410 ACTTAACTTCATGACGAATGAGTCATCCACGATTTCAACTTCACAATGAAGGATATCGTGCCCAA
1 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAA
* * *
49475 CACTTTCT
66 AAGTTTCA
* * *
49483 ACTTAACTTCACGATGAATGAGTCACCCATGATTTCAACTTCACAACGAATGATATCGTGCCCAA
1 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAA
49548 AAGTTTCA
66 AAGTTTCA
* * * *
49556 ACTTAGCTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCA
1 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCA
49620 GAAGATTGAC
Statistics
Matches: 187, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 187 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (73 bp):
ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTGCCCAA
AAGTTTCA
Found at i:49607 original size:146 final size:146
Alignment explanation
Indices: 49337--49619 Score: 485
Period size: 146 Copynumber: 1.9 Consensus size: 146
49327 ACTTCACGAC
49337 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAATGATATCGTGCCCAA
1 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAATGATATCGTGCCCAA
** * * *
49402 AAGTTTCAACTTAACTTCATGACGAATGAGTCATCCACGATTTCAACTTCACAATGAAGGATATC
66 AAGTTTCAACTTAACTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATC
49467 GTGCCCAACACTTTCT
131 GTGCCCAACACTTTCT
* *
49483 ACTTAACTTCACGATGAATGAGTCACCCATGATTTCAACTTCACAACGAATGATATCGTGCCCAA
1 ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAATGATATCGTGCCCAA
* *
49548 AAGTTTCAACTTAGCTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACGACGAAGGATATC
66 AAGTTTCAACTTAACTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATC
49613 GTGCCCA
131 GTGCCCA
49620 GAAGATTGAC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 128 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (146 bp):
ACTTAACTTCACGACGAATGAGTCACCCACGATTTCAACTTCACAACGAATGATATCGTGCCCAA
AAGTTTCAACTTAACTTCACAACGAAGGAGTCACCCACGATTTCAACTTCACAACGAAGGATATC
GTGCCCAACACTTTCT
Found at i:50193 original size:35 final size:34
Alignment explanation
Indices: 50154--50407 Score: 184
Period size: 35 Copynumber: 7.3 Consensus size: 34
50144 TTAGTACAAA
*
50154 TATAATATATAGTTTTGAAAATATTTTTGAAAATG
1 TATAATATATAGTTTTGAAAACATTTTTGAAAA-G
* *
50189 TATAATATATGGTTTTGAAAACATGTTTGAAAAG
1 TATAATATATAGTTTTGAAAACATTTTTGAAAAG
* *
50223 GATTAATATATGGTTTTGAAAACATTTTTG---A-
1 TA-TAATATATAGTTTTGAAAACATTTTTGAAAAG
* * * *
50254 -A-AACATATGGTTTTGAAAACGTTTTTAAACAAATG
1 TATAATATATAGTTTTGAAAACATTTTT-GA-AAA-G
* *
50289 TATATAATATACAGTTTTAAAAACATTTTTGAAAACG
1 --TATAATATATAGTTTTGAAAACATTTTTGAAAA-G
50326 TA-AATAATATAGTTTTGAAAACATATTTTGAAAA-
1 TATAAT-ATATAGTTTTGAAAACAT-TTTTGAAAAG
* * *
50360 CATATATATATGATTTTTTTAAAACGATTTTTGAAAA-
1 TATA-ATATAT-A-GTTTTGAAAAC-ATTTTTGAAAAG
*
50397 CATAATATATA
1 TATAATATATA
50408 TATTATTTAG
Statistics
Matches: 180, Mismatches: 20, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
28 23 0.13
30 1 0.01
32 1 0.01
33 1 0.01
34 6 0.03
35 80 0.44
36 18 0.10
37 26 0.14
38 4 0.02
39 20 0.11
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (34 bp):
TATAATATATAGTTTTGAAAACATTTTTGAAAAG
Found at i:50306 original size:39 final size:35
Alignment explanation
Indices: 50258--50360 Score: 98
Period size: 37 Copynumber: 2.8 Consensus size: 35
50248 TTTTGAAAAC
* * * *
50258 ATATGGTTTTGAAAACGTTTTTAAACAAATGTATATA
1 ATATAGTTTTGAAAACATTTTT-AA-AAACGTAAATA
* *
50295 ATATACAGTTTTAAAAACATTTTTGAAAACGTAAATA
1 ATAT--AGTTTTGAAAACATTTTTAAAAACGTAAATA
*
50332 ATATAGTTTTGAAAACATATTTTGAAAAC
1 ATATAGTTTTGAAAACAT-TTTTAAAAAC
50361 ATATATATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
35 13 0.23
36 10 0.18
37 17 0.30
38 1 0.02
39 15 0.27
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (35 bp):
ATATAGTTTTGAAAACATTTTTAAAAACGTAAATA
Found at i:50356 original size:13 final size:13
Alignment explanation
Indices: 50338--50364 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50328 AATAATATAG
50338 TTTTGAAAACATA
1 TTTTGAAAACATA
50351 TTTTGAAAACATA
1 TTTTGAAAACATA
50364 T
1 T
50365 ATATATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTGAAAACATA
Found at i:50384 original size:37 final size:36
Alignment explanation
Indices: 50289--50410 Score: 131
Period size: 37 Copynumber: 3.3 Consensus size: 36
50279 TAAACAAATG
* *
50289 TATATAATATACAGTTTTAAAAACATTTTTGAAAACG
1 TATAT-ATATATAGTTTTAAAAACATTTTTGAAAACA
* *
50326 TAAATA-ATATAGTTTTGAAAACATATTTTGAAAACA
1 TATATATATATAGTTTTAAAAACAT-TTTTGAAAACA
* *
50362 TATATATATGAT-TTTTTTAAAACGATTTTTGAAAACA
1 TATATATAT-ATAGTTTTAAAAAC-ATTTTTGAAAACA
50399 TAATATATATAT
1 T-ATATATATAT
50411 TATTTAGTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
35 16 0.22
36 16 0.22
37 29 0.40
38 12 0.16
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (36 bp):
TATATATATATAGTTTTAAAAACATTTTTGAAAACA
Found at i:50439 original size:30 final size:28
Alignment explanation
Indices: 50404--50536 Score: 105
Period size: 30 Copynumber: 4.5 Consensus size: 28
50394 AAACATAATA
50404 TATATATTATTTAGTTATATAGTTATATAT
1 TATATATTATTTA-TTATATA-TTATATAT
* *
50434 TATATATTATATATTATATATTTTCATTACAT
1 TATATATTATTTATTATATA--TT-A-TATAT
50466 TATATATTATATTATTAT-TATT-TATAT
1 TATATATTAT-TTATTATATATTATATAT
*
50493 T-TTTATTA-TTATTATTATACTTATATA-
1 TATATATTATTTATTA-TATA-TTATATAT
50520 TATTATATTTATTTATT
1 TA-TATA-TTATTTATT
50537 TTTTTCAGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
24 6 0.07
25 1 0.01
26 8 0.10
27 8 0.10
28 4 0.05
29 10 0.12
30 19 0.23
31 6 0.07
32 16 0.19
33 6 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TATATATTATTTATTATATATTATATAT
Found at i:53262 original size:12 final size:12
Alignment explanation
Indices: 53245--53269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53235 AACTGTTCTA
53245 TAGCGGCGTTTT
1 TAGCGGCGTTTT
53257 TAGCGGCGTTTT
1 TAGCGGCGTTTT
53269 T
1 T
53270 TGATAAAACG
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:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TAGCGGCGTTTT
Found at i:55064 original size:42 final size:42
Alignment explanation
Indices: 54992--55090 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
54982 GCGGTTTTTT
*
54992 ACAAACGCCGCAATAGGTGTATTATATAGTGGCATTTTTATA
1 ACAAACGCCGCAATAGGTGTATTATATAGTGGCATTTGTATA
** * *
55034 ACAAACGCCGCAAAATATTTGTATT-T-TAGTGGCGTTTGTATG
1 ACAAACGCCGC--AATAGGTGTATTATATAGTGGCATTTGTATA
*
55076 A-AAACGCCGCTATAG
1 ACAAACGCCGCAATAG
55091 ACTTATACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
39 3 0.06
41 9 0.19
42 25 0.52
43 1 0.02
44 10 0.21
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
ACAAACGCCGCAATAGGTGTATTATATAGTGGCATTTGTATA
Found at i:55164 original size:41 final size:41
Alignment explanation
Indices: 55058--55152 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
55048 ATATTTGTAT
*
55058 TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTTATAC
1 TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTCATAC
* * *
55099 TTTAGTGGTGTTCGTATGAAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTCATAC
55140 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
55153 TTGTTAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTCATAC
Found at i:59002 original size:39 final size:39
Alignment explanation
Indices: 58948--59026 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
58938 CCAAGACTGC
58948 TGAGTCTATGAGGTGGCATCATGATGGCAGAACCGATGA
1 TGAGTCTATGAGGTGGCATCATGATGGCAGAACCGATGA
58987 TGAGTCTATGAGGTGGCATCATGATGGCAGAACCGATGA
1 TGAGTCTATGAGGTGGCATCATGATGGCAGAACCGATGA
59026 T
1 T
59027 AGATTATTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (39 bp):
TGAGTCTATGAGGTGGCATCATGATGGCAGAACCGATGA
Found at i:63409 original size:21 final size:21
Alignment explanation
Indices: 63391--63481 Score: 101
Period size: 21 Copynumber: 4.3 Consensus size: 21
63381 ATGAAGCAAG
* *
63391 GGAAGCAGAGAGAGCAGCAAC
1 GGAAGCAGACAGAGCAGCAGC
*
63412 GGAAGCAGCCAGAGCAGCAGC
1 GGAAGCAGACAGAGCAGCAGC
* *
63433 AGAAGCAGCCAGAGCAGCAGC
1 GGAAGCAGACAGAGCAGCAGC
* * *
63454 GGAAGCAGAGAAAGAAGCAGC
1 GGAAGCAGACAGAGCAGCAGC
*
63475 GGCAGCA
1 GGAAGCA
63482 CAGAGAGAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.40, C:0.23, G:0.37, T:0.00
Consensus pattern (21 bp):
GGAAGCAGACAGAGCAGCAGC
Found at i:63430 original size:12 final size:12
Alignment explanation
Indices: 63415--63453 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
63405 CAGCAACGGA
63415 AGCAGCCAGAGC
1 AGCAGCCAGAGC
63427 AGCAG-CAGA--
1 AGCAGCCAGAGC
63436 AGCAGCCAGAGC
1 AGCAGCCAGAGC
63448 AGCAGC
1 AGCAGC
63454 GGAAGCAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 5 0.21
10 4 0.17
11 4 0.17
12 11 0.46
ACGTcount: A:0.36, C:0.31, G:0.33, T:0.00
Consensus pattern (12 bp):
AGCAGCCAGAGC
Found at i:63490 original size:21 final size:21
Alignment explanation
Indices: 63383--63514 Score: 99
Period size: 21 Copynumber: 6.3 Consensus size: 21
63373 AGCGGAAAAT
*
63383 GAAGCAAG-GGAAGCAGAGAGA
1 GAAGC-AGCGGAAGCACAGAGA
* * *
63404 GCAGCAACGGAAGCAGC-CAGA
1 GAAGCAGCGGAAGCA-CAGAGA
* * *
63425 GCAGCAGCAGAAGCAGC-CAGA
1 GAAGCAGCGGAAGCA-CAGAGA
* * *
63446 GCAGCAGCGGAAGCAGAGAAA
1 GAAGCAGCGGAAGCACAGAGA
*
63467 GAAGCAGCGGCAGCACAGAGA
1 GAAGCAGCGGAAGCACAGAGA
* *
63488 GAAGCAGTGGTAGCACAGAGA
1 GAAGCAGCGGAAGCACAGAGA
63509 GAAGCA
1 GAAGCA
63515 ACATATCAGC
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.01
21 91 0.99
ACGTcount: A:0.41, C:0.20, G:0.37, T:0.02
Consensus pattern (21 bp):
GAAGCAGCGGAAGCACAGAGA
Found at i:63995 original size:43 final size:44
Alignment explanation
Indices: 63917--64013 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
63907 CCGAACTTTA
63917 GCGGCGTTTTTATAAAAAAACGCCACTAAAGCTCAACACC-TATT
1 GCGGCGTTTTTATAAAAAAACGCCACTAAAGCTCAAC-CCTTATT
* * * **
63961 GCGGCGTTTTTA-ATAGAAACGCCGCTAATTCTCAACCCTTATT
1 GCGGCGTTTTTATAAAAAAACGCCACTAAAGCTCAACCCTTATT
* *
64004 ACGTCGTTTT
1 GCGGCGTTTT
64014 CTCCCACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.04
43 31 0.69
44 12 0.27
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GCGGCGTTTTTATAAAAAAACGCCACTAAAGCTCAACCCTTATT
Found at i:64225 original size:43 final size:42
Alignment explanation
Indices: 64113--64237 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
64103 GAAAAAACAA
* * *
64113 AAAACGCCGCAAAATATCAACACCTACTGCGGCGTTTGTAGGG
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT-TTGGG
* * *
64156 AAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTG
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTGGG
* * * *
64198 ACAAACTCCGCTAAATAACAACACCTATTACGGCATTTTT
1 A-AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTT
64238 TGTTAAAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTGGG
Found at i:64272 original size:15 final size:15
Alignment explanation
Indices: 64247--64297 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
64237 TTGTTAAAAA
*
64247 AACGCCGCTATTTTC
1 AACGACGCTATTTTC
*
64262 AGCGACGCTATTTTC
1 AACGACGCTATTTTC
*
64277 AACGGCGCTATTTTC
1 AACGACGCTATTTTC
64292 AACGAC
1 AACGAC
64298 CTTTTTTGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (15 bp):
AACGACGCTATTTTC
Found at i:66532 original size:2 final size:2
Alignment explanation
Indices: 66522--66557 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
66512 TCTCTAATTG
66522 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66558 TATTCTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:74598 original size:59 final size:59
Alignment explanation
Indices: 74489--74601 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
74479 ATAGTTGGGT
* ***
74489 GACCATTTTATAACATTTAATAGTCGAGGACTCAACAAACTATTGTCCTATAGTCAGAG
1 GACCATTTCATAACATTTAATAGTCGAGGACTCAACAAACTATACACCTATAGTCAGAG
* *
74548 GACCATTTCATAACTTTTAATAGTCGGATGACTCAAC-AACGTA-ACACCTATAGT
1 GACCATTTCATAACATTTAATAGTC-GAGGACTCAACAAAC-TATACACCTATAGT
74602 TGGAGTATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 34 0.74
60 12 0.26
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (59 bp):
GACCATTTCATAACATTTAATAGTCGAGGACTCAACAAACTATACACCTATAGTCAGAG
Found at i:76552 original size:18 final size:20
Alignment explanation
Indices: 76529--76569 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
76519 AGTTAATTAT
76529 TTTAAAAT-TATAAAAAA-A
1 TTTAAAATGTATAAAAAATA
*
76547 TTTAAAATGTTTAAAAAATA
1 TTTAAAATGTATAAAAAATA
76567 TTT
1 TTT
76570 TTTTCATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAAAATGTATAAAAAATA
Found at i:77078 original size:41 final size:40
Alignment explanation
Indices: 76979--77285 Score: 111
Period size: 41 Copynumber: 7.5 Consensus size: 40
76969 TAACATTAAC
*
76979 GGCGTTTCTCAAAAAACGCCGCTAAAACTCGTACTTTAGT
1 GGCGTTTCTAAAAAAACGCCGCTAAAACTCGTACTTTAGT
* * ** * *
77019 GGCATTTATTTGACAAACGCCGCTAACGA-TCAGTACTTTAGT
1 GGCGTTT-CTAAAAAAACGCCGCTAA-AACTC-GTACTTTAGT
* * * *
77061 GGCGTTTGTAAAAAAACGCCGCCATAGAA-TAGTTCTTTAGT
1 GGCGTTTCTAAAAAAACGCCG-C-TAAAACTCGTACTTTAGT
** * * * * * * * *
77102 CTCGTTTTTAGAAAAATGTCAC-AATA-TGGTACATATATCGT
1 GGCGTTTCTAAAAAAACGCCGCTAAAACTCGTAC-T-T-TAGT
* * * * ** *
77143 GGCGTTTTTAGAAAAACGTCGCTGAAACCTAATACTTTATT
1 GGCGTTTCTAAAAAAACGCCGCT-AAAACTCGTACTTTAGT
* * * * ** *
77184 GGCGTTTTTCAATAAACGCCGCTAAAATGTAATACTTTAAT
1 GGCGTTTCTAAAAAAACGCCGCTAAAA-CTCGTACTTTAGT
* *
77225 GGCGTTT-TAAGGAAAAACGCCGCTAAATACTCGTATTTTAAT
1 GGCGTTTCTAA--AAAAACGCCGCTAAA-ACTCGTACTTTAGT
* *
77267 GGCGTTTCTCAACAAACGC
1 GGCGTTTCTAAAAAAACGC
77286 TAAAACGTAG
Statistics
Matches: 199, Mismatches: 52, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
38 6 0.03
39 1 0.01
40 13 0.07
41 116 0.58
42 51 0.26
43 8 0.04
44 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (40 bp):
GGCGTTTCTAAAAAAACGCCGCTAAAACTCGTACTTTAGT
Found at i:80684 original size:44 final size:43
Alignment explanation
Indices: 80598--80695 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 43
80588 GAGGTAATTA
* *
80598 GCGGCGTTTGTATCTTAAAACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGACCTTTT
* *
80641 GCGGCGTTTGT-TCTAAAAAAACGCCGCTATATACCA-GATCTTTT
1 GCGGCGTTTGTATCT--AAAAACGCCGCTATAGA-CATGACCTTTT
*
80685 GCGGTGTTTGT
1 GCGGCGTTTGT
80696 GGGGAAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.06
43 11 0.23
44 32 0.68
45 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (43 bp):
GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGACCTTTT
Found at i:80738 original size:43 final size:43
Alignment explanation
Indices: 80683--80861 Score: 207
Period size: 43 Copynumber: 4.2 Consensus size: 43
80673 ACCAGATCTT
* *
80683 TTGCGGTGTTTGTGGGGA-AAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGT-GGGACAAACGCCGCTAAATATCAACACCTA
* *
80726 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGACAAACGCCGCTAAATATCAACACCTA
* * * ***
80769 TTGCGGCATTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTGGGACAAACGCCGCTAAATATCAACACCTA
* * ***
80812 TTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTGGGACAAACGCCGCTAAATATCAACACCTA
80855 TTGCGGC
1 TTGCGGC
80862 ATTTTTTGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
42 3 0.02
43 122 0.98
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGACAAACGCCGCTAAATATCAACACCTA
Found at i:80746 original size:87 final size:86
Alignment explanation
Indices: 80634--80865 Score: 243
Period size: 86 Copynumber: 2.7 Consensus size: 86
80624 TATAGATATG
* ** * * * * **
80634 ACCTTTTGCGGCGTTTGTTCTAAAAAAACGCCGCTATATA-CCAGATCTTTTGCGGTGTTTGTGG
1 ACCTATTGCGGCGTTTG-T-TGGAAAAACGCCGCTATATATCAACACCTATTGCGGCATTTGT-G
*
80698 GGA-AAACGCCGCTAAATCTCAAC
63 GGACAAACGCCGCTAAATATCAAC
* *
80721 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTTGGA
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTATATATCAACACCTATTGCGGCATTTGTGGGA
* ***
80786 CAAACGCCGCTATATATCGTT
66 CAAACGCCGCTAAATATCAAC
* ***
80807 ACCTATTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTATTGCGGCATTT
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTATATATCAACACCTATTGCGGCATTT
80866 TTTGTTACCA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
85 20 0.16
86 86 0.70
87 16 0.13
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (86 bp):
ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTATATATCAACACCTATTGCGGCATTTGTGGGA
CAAACGCCGCTAAATATCAAC
Found at i:80880 original size:45 final size:43
Alignment explanation
Indices: 80721--80883 Score: 227
Period size: 43 Copynumber: 3.7 Consensus size: 43
80711 AAATCTCAAC
* * * ***
80721 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
1 ACCTATTGCGGCATTTGTTGGACAAACGCCGCTATATATCGTT
80764 ACCTATTGCGGCATTTGTTGGACAAACGCCGCTATATATCGTT
1 ACCTATTGCGGCATTTGTTGGACAAACGCCGCTATATATCGTT
*
80807 ACCTATTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTT
1 ACCTATTGCGGCATTTGTTGGACAAACGCCGCTATATATCGTT
* *
80850 ACCTATTGCGGCATTTTTTGTTACCAAACGCCGC
1 ACCTATTGCGGCATTTGTTG-GA-CAAACGCCGC
80884 GAACTTTAGC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 97 0.90
44 1 0.01
45 10 0.09
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (43 bp):
ACCTATTGCGGCATTTGTTGGACAAACGCCGCTATATATCGTT
Found at i:92619 original size:4 final size:4
Alignment explanation
Indices: 92588--92656 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
92578 AACAAAATTA
* *
92588 AAAT AAAAT AAGT AAA- ATAT ATAAT AAAT AAAT AACA- AAAGGT AAAT
1 AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AA-AT AAA--T AAAT
92635 AAAT AAAT AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
92657 ACATTTTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
3 6 0.11
4 36 0.68
5 8 0.15
6 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:92857 original size:81 final size:82
Alignment explanation
Indices: 92750--92901 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 82
92740 TATAGTTTTT
* * * *
92750 AAAATGTTTTTTTTTTTAAAATTATATATTATAAGT-TTTT-GAAATGATTTAAAAACTATATAA
1 AAAATATTTTTTTTTTAAAAACTATATATTATAAGTATTTTCAAAATG-TTTAAAAACTATATAA
92813 TATATATATGTTCTTCAA
65 TATATATATGTTCTTCAA
**
92831 AAAATATTTTTTTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTAAAAACTATATAAT
1 AAAATATTTTTTTTTTAAAAACTATATATTATAAGTATTTTCAAAATGTTTAAAAACTATATAAT
92896 ATATAT
66 ATATAT
92902 TTTTTTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 31 0.49
82 27 0.43
83 5 0.08
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (82 bp):
AAAATATTTTTTTTTTAAAAACTATATATTATAAGTATTTTCAAAATGTTTAAAAACTATATAAT
ATATATATGTTCTTCAA
Found at i:92927 original size:13 final size:13
Alignment explanation
Indices: 92909--92940 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92899 TATTTTTTTA
92909 AAAATTATATATT
1 AAAATTATATATT
92922 AAAATTATATATT
1 AAAATTATATATT
*
92935 ATAATT
1 AAAATT
92941 TTTGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAAATTATATATT
Found at i:92979 original size:30 final size:30
Alignment explanation
Indices: 92940--93034 Score: 111
Period size: 33 Copynumber: 3.0 Consensus size: 30
92930 ATATTATAAT
*
92940 TTTTGAAAATACTTTAAACTATATAATATA
1 TTTTCAAAATACTTTAAACTATATAATATA
* *
92970 TTTTCAAAATA-TTAAAAACGATATATATATTTA
1 TTTTCAAAATACTT-TAAAC--TATATA-ATATA
93003 TTTTCAAAATACTTTAAAACTATATAATATA
1 TTTTCAAAATACTTT-AAACTATATAATATA
93034 T
1 T
93035 AATATTTCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
29 2 0.04
30 14 0.26
31 5 0.09
32 12 0.22
33 15 0.28
34 6 0.11
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.43
Consensus pattern (30 bp):
TTTTCAAAATACTTTAAACTATATAATATA
Found at i:93034 original size:71 final size:73
Alignment explanation
Indices: 92959--93108 Score: 168
Period size: 71 Copynumber: 2.1 Consensus size: 73
92949 TACTTTAAAC
* *
92959 TATATAATATATTTTCAAA-AT-ATTAAAAACGATATATATATTTA-TTTTCAAAATACTTTAAA
1 TATATAA-ATA-TTTCAAACATGATTAAAAACGATATAT-TATATAGTTTTAAAAATACTTTAAA
93021 ACTAT-ATA-A
63 ACTATAATATA
** * *
93030 TATAT-AATATTTCAAACATGATTTCAAACTATATATTATATAGGTTTTAAAAATATTTTAAAAC
1 TATATAAATATTTCAAACATGATTAAAAACGATATATTATATA-GTTTTAAAAATACTTTAAAAC
93094 TATAATATA
65 TATAATATA
93103 TATATA
1 TATATA
93109 TCTATATATA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
68 7 0.11
69 10 0.15
70 14 0.21
71 26 0.39
72 3 0.05
73 6 0.09
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (73 bp):
TATATAAATATTTCAAACATGATTAAAAACGATATATTATATAGTTTTAAAAATACTTTAAAACT
ATAATATA
Found at i:93094 original size:135 final size:138
Alignment explanation
Indices: 92845--93107 Score: 333
Period size: 135 Copynumber: 1.9 Consensus size: 138
92835 TATTTTTTTT
* * * * *
92845 TTAAAAACTATATATTATATTTATTTTCAAAATGTTTAAAAACTATATAATATATATTTTTTTAA
1 TTAAAAACGATATATTATATTTATTTTCAAAATCTTTAAAAACTATATAATATATAATATTTCAA
* * * *
92910 AAATTATATATTAAAATTATATATTATAATTTTTGAAAATACTTTAAACTAT-ATA-ATATATTT
66 AAATTAGATATTAAAACTATATATTATAAGTTTTAAAAATACTTTAAACTATAATATATATATTT
92973 TCAAAATA
131 TCAAAATA
92981 TTAAAAACGATATA-TATATTTATTTTCAAAATACTTT-AAAACTATATAATATATAATATTTCA
1 TTAAAAACGATATATTATATTTATTTTCAAAAT-CTTTAAAAACTATATAATATATAATATTTCA
* * *
93044 AACA-T-GAT-TTCAAACTATATATTATATAGGTTTTAAAAATATTTTAAAACTATAATATATAT
65 AAAATTAGATATTAAAACTATATATTATA-A-GTTTTAAAAATACTTT-AAACTATAATATATAT
93106 AT
127 AT
93108 ATCTATATAT
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
132 16 0.15
133 3 0.03
134 14 0.13
135 51 0.47
136 19 0.17
137 6 0.06
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (138 bp):
TTAAAAACGATATATTATATTTATTTTCAAAATCTTTAAAAACTATATAATATATAATATTTCAA
AAATTAGATATTAAAACTATATATTATAAGTTTTAAAAATACTTTAAACTATAATATATATATTT
TCAAAATA
Found at i:94089 original size:15 final size:17
Alignment explanation
Indices: 94055--94095 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
94045 GTGTCTCGTT
94055 AAAATCTTACTAAGATA
1 AAAATCTTACTAAGATA
94072 AAAATCTTACT-A-ATA
1 AAAATCTTACTAAGATA
94087 AAAATCTTA
1 AAAATCTTA
94096 TGGAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 12 0.50
16 1 0.04
17 11 0.46
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATCTTACTAAGATA
Found at i:102413 original size:16 final size:17
Alignment explanation
Indices: 102380--102420 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
102370 AGAGCTGGAC
*
102380 CTCGAGTTGTCTACGTG
1 CTCGAGTTGTCCACGTG
102397 CTCGAGTTG-CCACGTG
1 CTCGAGTTGTCCACGTG
*
102413 CTCAAGTT
1 CTCGAGTT
102421 TGCAAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.32
Consensus pattern (17 bp):
CTCGAGTTGTCCACGTG
Found at i:114837 original size:17 final size:18
Alignment explanation
Indices: 114792--114838 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
114782 ATGTTTATAA
114792 AAAATTTTAAAAAAAATT
1 AAAATTTTAAAAAAAATT
114810 AAATCATATTTTAAAAAAAATT
1 -AA--A-ATTTTAAAAAAAATT
114832 -AAATTTT
1 AAAATTTT
114839 TCTAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.20
18 1 0.04
19 2 0.08
20 1 0.04
21 1 0.04
22 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTTAAAAAAAATT
Found at i:115069 original size:15 final size:16
Alignment explanation
Indices: 115039--115069 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
115029 GTAGGAATAA
115039 AAGATTACTAGAGAAT
1 AAGATTACTAGAGAAT
115055 AAGATTACT-GAGAAT
1 AAGATTACTAGAGAAT
115070 GTTGTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
AAGATTACTAGAGAAT
Found at i:115113 original size:29 final size:29
Alignment explanation
Indices: 115079--115135 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
115069 TGTTGTATTT
* **
115079 TGTGTTTGGTTAAAGGAATGTAAGATTAC
1 TGTGTTTGGTTAAAAGAATAAAAGATTAC
115108 TGTGTTTGGTTAAAAGAATAAAAGATTA
1 TGTGTTTGGTTAAAAGAATAAAAGATTA
115136 TTGGAATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
TGTGTTTGGTTAAAAGAATAAAAGATTAC
Found at i:117118 original size:24 final size:24
Alignment explanation
Indices: 117091--117157 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
117081 AGCTCGTATA
*
117091 AATTTGTACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
* *
117115 AATTTGCACGGAAGTGTCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
* *
117139 AA-ATGCACCGTAGTGCCAC
1 AATTTGCACCGAAGTGCCAC
117158 ATAAGATTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 13 0.36
24 23 0.64
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:118854 original size:21 final size:21
Alignment explanation
Indices: 118828--118904 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
118818 TTGACCACTA
118828 TGTCCCGAAGGACCACTGATT
1 TGTCCCGAAGGACCACTGATT
*
118849 TGTCCCAAAGGACCACTGATT
1 TGTCCCGAAGGACCACTGATT
*
118870 TGTCCCGAAAGACCAC---TT
1 TGTCCCGAAGGACCACTGATT
118888 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
118905 CCTTAAGAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.33
21 34 0.67
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGATT
Found at i:118856 original size:39 final size:41
Alignment explanation
Indices: 118807--118904 Score: 116
Period size: 39 Copynumber: 2.5 Consensus size: 41
118797 GGCACTGTAT
** *
118807 ATTTGTCCCAATTGACCACT-A-TGTCCCGAAGGACCACTG
1 ATTTGTCCCAAAGGACCACTGATTGTCCCGAAAGACCACTG
118846 ATTTGTCCCAAAGGACCACTGATTTGTCCCGAAAGACCAC--
1 ATTTGTCCCAAAGGACCACTGA-TTGTCCCGAAAGACCACTG
*
118886 -TTTGTCCCGAAGGACCACT
1 ATTTGTCCCAAAGGACCACT
118905 CCTTAAGAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
39 36 0.69
40 1 0.02
42 15 0.29
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (41 bp):
ATTTGTCCCAAAGGACCACTGATTGTCCCGAAAGACCACTG
Found at i:120463 original size:18 final size:17
Alignment explanation
Indices: 120409--120457 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
120399 TTGTACTCCT
* *
120409 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
120427 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
120445 AGTGCATTCGATG
1 AGTGCA-TCGATG
120458 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:120541 original size:64 final size:64
Alignment explanation
Indices: 120469--120629 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 64
120459 TTGAAAAATA
* *
120469 GCAT-GATGCATGGATTGTGCATCGATGCATCAAATACATTCGATGTTTTAATTAAATCA-GAGT
1 GCATCGATGCATGGATTGTGCATCGGTGCATCAAATACATTCGATGTTTCAATTAAATCATGA-T
** ** * * *
120532 GCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAATTTATTCATTGAT
1 GCATCGATGCATGGATTGTGCATCGGTGCATCAAATACATTCGATGTTTCAATTAAATCA-TGAT
120597 GCATCGATGCATGGTATTGATGCATCGGTGCAT
1 GCATCGATGCATGG-ATTG-TGCATCGGTGCAT
120630 GCCTTTGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 4 0.05
64 46 0.56
65 15 0.18
66 4 0.05
67 13 0.16
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (64 bp):
GCATCGATGCATGGATTGTGCATCGGTGCATCAAATACATTCGATGTTTCAATTAAATCATGAT
Found at i:120551 original size:19 final size:19
Alignment explanation
Indices: 120527--120577 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
120517 TAATTAAATC
120527 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
120546 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
120565 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
120578 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:120615 original size:21 final size:21
Alignment explanation
Indices: 120591--120630 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
120581 CAATTTATTC
120591 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
120612 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
120631 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:123253 original size:24 final size:23
Alignment explanation
Indices: 123182--123261 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
123172 CATGGTCTTG
*
123182 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
123205 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
123226 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
123250 TGCATCGATGCA
1 TGCATCGATGCA
123262 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.23
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:123274 original size:44 final size:42
Alignment explanation
Indices: 123159--123275 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 42
123149 AAAACCCGAC
* *
123159 GGATGCATCGATGCATGGTCTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGT-TAGTGCATCGATGCACATTCAAG
* * **
123202 GCATGCATCGGTGCATCATG-CGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAG
123247 GGATGCATCGATGCATTGTTAAGTGCATC
1 GGATGCATCGATGCATTGTT-AGTGCATC
123276 AAGCACAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
43 17 0.29
44 23 0.39
45 19 0.32
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (42 bp):
GGATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAG
Found at i:129162 original size:64 final size:64
Alignment explanation
Indices: 129089--129245 Score: 190
Period size: 64 Copynumber: 2.4 Consensus size: 64
129079 AAAATAGCCT
* *
129089 GATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-GAGTGCATC
1 GATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGA-TGCATC
** * ** * *
129153 GATGCATGGAGAGTGCATCGGCGCATGGAATGCATTCGATGTTTCAATTTATTCATTGATGCATC
1 GATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCA-TGATGCATC
129218 GATGCATGGTATTGATGCATCGGTGCAT
1 GATGCATGG-ATTG-TGCATCGGTGCAT
129246 GCCTTTGAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 46 0.60
65 15 0.19
66 4 0.05
67 12 0.16
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (64 bp):
GATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGATGCATC
Found at i:129167 original size:19 final size:19
Alignment explanation
Indices: 129143--129193 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
129133 TAATTAAATC
129143 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
**
129162 AGAGTGCATCGGCGCATGG
1 AGAGTGCATCGATGCATGG
129181 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
129194 TTTCAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 18 0.67
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:129231 original size:21 final size:21
Alignment explanation
Indices: 129207--129246 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
129197 CAATTTATTC
129207 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
129228 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
129247 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:130624 original size:16 final size:17
Alignment explanation
Indices: 130603--130634 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
130593 TTATTTACCA
130603 TCACATA-ATCATTTAC
1 TCACATATATCATTTAC
130619 TCACATATATCATTTA
1 TCACATATATCATTTA
130635 ACATATACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATATATCATTTAC
Found at i:132299 original size:21 final size:21
Alignment explanation
Indices: 132270--132316 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
132260 ATTCTGACTA
*
132270 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCAATTTCCCAAAT
* * *
132291 TCGCGTTGCAATTTTCCTAAT
1 TCGCATTGCAATTTCCCAAAT
132312 TCGCA
1 TCGCA
132317 ATGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCAATTTCCCAAAT
Found at i:132337 original size:20 final size:20
Alignment explanation
Indices: 132312--132417 Score: 194
Period size: 20 Copynumber: 5.3 Consensus size: 20
132302 TTTTCCTAAT
132312 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
132332 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
132352 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
132372 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
132392 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
132412 TCGCAA
1 TCGCAA
132418 CGAGATTCTA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:135794 original size:20 final size:21
Alignment explanation
Indices: 135762--135850 Score: 123
Period size: 20 Copynumber: 4.4 Consensus size: 21
135752 CAACGCGGAA
135762 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
* * *
135782 ATCACAACAC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
135802 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
135822 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
135842 ATCGCAACG
1 ATCGCAACG
135851 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:135879 original size:19 final size:19
Alignment explanation
Indices: 135855--135999 Score: 219
Period size: 19 Copynumber: 7.8 Consensus size: 19
135845 GCAACGAGAG
*
135855 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
135874 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
135893 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
135912 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
135931 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
135950 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
135964 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
135984 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
136000 TTTTGCGTTG
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
14 8 0.07
16 5 0.04
17 2 0.02
18 3 0.03
19 87 0.75
20 11 0.09
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:135926 original size:57 final size:52
Alignment explanation
Indices: 135822--135999 Score: 223
Period size: 57 Copynumber: 3.3 Consensus size: 52
135812 GGAATTGACT
* ** *
135822 ATCGCAACGCGGAAATGACTATCGCAACGAGA-GAATCGCAATACGAAATGAAA
1 ATCGCAATGC-GAAATGAAAATCGCAACGA-ATGAATCGCAATGCGAAATGAAA
135875 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG-AATG--AATCGCAATGCGAAATGAAA
*
135932 ATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAATGAATCGCAATGCG-AAATGAAA
*
135985 ATCGCAACGCGAAAT
1 ATCGCAATGCGAAAT
136000 TTTTGCGTTG
Statistics
Matches: 112, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
52 26 0.23
53 31 0.28
54 6 0.05
55 4 0.04
57 45 0.40
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAATGAATCGCAATGCGAAATGAAA
Found at i:138245 original size:20 final size:20
Alignment explanation
Indices: 138220--138308 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
138210 CAACAACAAA
138220 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
138240 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
138260 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
138280 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
138300 ATCGCAACG
1 ATCGCAACG
138309 AGAGAATCGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:138374 original size:34 final size:37
Alignment explanation
Indices: 138335--138493 Score: 111
Period size: 40 Copynumber: 4.3 Consensus size: 37
138325 ATTTTCATTT
138335 GCATTGCGAT-TC-TTTCG-TTGCGATAGTCAAATTC
1 GCATTGCGATATCATTTCGATTGCGATAGTCAAATTC
**
138369 GCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTC
1 GCATTGCGATA-TCA-TTTCG-ATTGCGATAGTCAAATTC
*
138409 GCATTGCGATAGTCATTTTCACATTGCGAT--TC----TC
1 GCATTGCGATA-TCA-TTTC-GATTGCGATAGTCAAATTC
* * **
138443 TCATTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTC
1 GCATTGCGATA-TCA-TTTCG-ATTGCGATAGTCAAATTC
138483 GCATTGCGATA
1 GCATTGCGATA
138494 GTAAACTATT
Statistics
Matches: 104, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
34 38 0.37
36 4 0.04
38 7 0.07
40 55 0.53
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (37 bp):
GCATTGCGATATCATTTCGATTGCGATAGTCAAATTC
Found at i:138377 original size:20 final size:20
Alignment explanation
Indices: 138352--138495 Score: 201
Period size: 20 Copynumber: 7.5 Consensus size: 20
138342 GATTCTTTCG
**
138352 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
138372 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
138392 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
138412 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
*
138432 TTGCGAT--TC----TCTCA
1 TTGCGATAGTCATTTTCGCA
*
138446 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
138466 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
138486 TTGCGATAGT
1 TTGCGATAGT
138496 AAACTATTCT
Statistics
Matches: 111, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
14 11 0.10
16 2 0.02
18 2 0.02
20 96 0.86
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:138448 original size:54 final size:54
Alignment explanation
Indices: 138390--138492 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
138380 GTCATTTTCG
138390 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGATTCTCT
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGATTCTCT
* *
138444 CATTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGAT
138493 AGTAAACTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (54 bp):
CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGATTCTCT
Found at i:140391 original size:20 final size:20
Alignment explanation
Indices: 140368--140437 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
140358 CTGAAACTTT
140368 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
*
140388 AAATCGTAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
* *
140408 AAATCGCAACGCGAAATTGA
1 AAATCGCAACACGAAAATGA
**
140428 CTATCGCAAC
1 AAATCGCAAC
140438 GCAAGAATCG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.14
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:140478 original size:33 final size:34
Alignment explanation
Indices: 140409--140482 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
140399 CGAAAATGAA
**
140409 AATCGCAACGCGAAATTGACTATCGCAACGCAAG
1 AATCGCAACGCGAAATTGAAAATCGCAACGCAAG
140443 AATCGCAACGCGAAA-TGAAAATCGCAACG-ACAG
1 AATCGCAACGCGAAATTGAAAATCGCAACGCA-AG
140476 AATCGCA
1 AATCGCA
140483 TTGCGATAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 1 0.03
33 21 0.57
34 15 0.41
ACGTcount: A:0.42, C:0.26, G:0.20, T:0.12
Consensus pattern (34 bp):
AATCGCAACGCGAAATTGAAAATCGCAACGCAAG
Found at i:140856 original size:22 final size:22
Alignment explanation
Indices: 140795--140856 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 22
140785 TGACCGTGAA
* *
140795 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
140817 TAATATCGTC---G-TGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
140835 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
140857 GGATGTCGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
18 14 0.47
19 1 0.03
21 1 0.03
22 14 0.47
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:141082 original size:20 final size:20
Alignment explanation
Indices: 141059--141206 Score: 224
Period size: 20 Copynumber: 7.3 Consensus size: 20
141049 TCAGATTCGT
141059 ATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGTAATCGC
141079 ATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGTAATCGC
141099 ATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGTAATCGC
*
141119 ATTGCGATTTACGTATTCGC
1 ATTGCGATTTACGTAATCGC
141139 ATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGTAATCGC
* **
141159 ATTGCGATTTTCCAAATTCGC
1 ATTGCGATTTACGTAA-TCGC
* **
141180 GTTGCGATTTACGTGTTCGC
1 ATTGCGATTTACGTAATCGC
141200 ATTGCGA
1 ATTGCGA
141207 ATTAGGAAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
20 101 0.88
21 14 0.12
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
ATTGCGATTTACGTAATCGC
Found at i:141227 original size:21 final size:21
Alignment explanation
Indices: 141203--141243 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
141193 TGTTCGCATT
141203 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
141224 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
141244 TGCAATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:141689 original size:25 final size:24
Alignment explanation
Indices: 141661--141707 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
141651 AAATTATTAT
*
141661 TATTTTTCTATTTTTTTAAAATATG
1 TATTTTT-TATTTTTTAAAAATATG
141686 TATTTTTTATTTTTTAAAAATA
1 TATTTTTTATTTTTTAAAAATA
141708 AATATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTTTTTATTTTTTAAAAATATG
Found at i:141713 original size:24 final size:25
Alignment explanation
Indices: 141661--141713 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
141651 AAATTATTAT
* **
141661 TATTTTTCTATTTTTTTAAAATATG
1 TATTTTTCTATTTTTTAAAAATAAA
141686 TATTTTT-TATTTTTTAAAAATAAA
1 TATTTTTCTATTTTTTAAAAATAAA
141710 TATT
1 TATT
141714 AAAAAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TATTTTTCTATTTTTTAAAAATAAA
Found at i:161461 original size:21 final size:21
Alignment explanation
Indices: 161435--161508 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
161425 GTTTCCAGAT
* *
161435 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
161456 TCGCAATGGGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
161477 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
161498 TCGCAATGCGA
1 TCGCAATGCGA
161509 TATGTAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:162270 original size:6 final size:6
Alignment explanation
Indices: 162261--162285 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
162251 GTCGTGGTCG
162261 TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA T
162286 ACGTGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGTAA
Found at i:177308 original size:3 final size:3
Alignment explanation
Indices: 177300--177325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
177290 AACAGCAAGG
177300 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
177326 GGGGACGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:178233 original size:60 final size:61
Alignment explanation
Indices: 178116--178234 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
178106 ATAAATAATC
* * * *
178116 GAATGATCATTTTGTAATTTTTAATAGTTAGGAAACTCAACAAAATAATATTCTATAGTTA
1 GAATGATCATTTTATAATTTTTAATAGTTAGGAAACACAACAAAATAACACTCTATAGTTA
**
178177 GAAT-ATCATTTTATAATTTTTAATAGTTAGGGGACACAACAAAATAACAC-CTTATAGT
1 GAATGATCATTTTATAATTTTTAATAGTTAGGAAACACAACAAAATAACACTC-TATAGT
178235 GGACCATTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 1 0.02
60 46 0.90
61 4 0.08
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (61 bp):
GAATGATCATTTTATAATTTTTAATAGTTAGGAAACACAACAAAATAACACTCTATAGTTA
Found at i:183182 original size:21 final size:21
Alignment explanation
Indices: 183156--183203 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
183146 GTTTCCAGAT
183156 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
183177 TCGCAATGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
183198 TCGCAA
1 TCGCAA
183204 TACGAATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:183204 original size:21 final size:20
Alignment explanation
Indices: 183156--183250 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 20
183146 GTTTCCAGAT
*
183156 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTT-GACTA
183177 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTT-GACTA
* *
183198 TCGCAATACGAA-TATGTA-AA
1 TCGCAATGCGAACT-TG-ACTA
* *
183218 TCGCAATGCAATAATTGACTA
1 TCGCAATGCGA-ACTTGACTA
183239 TCGCAATGCGAA
1 TCGCAATGCGAA
183251 TATGTAAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
20 14 0.23
21 47 0.76
22 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAACTTGACTA
Found at i:183221 original size:41 final size:41
Alignment explanation
Indices: 183176--183271 Score: 149
Period size: 41 Copynumber: 2.3 Consensus size: 41
183166 AACTTCGACT
*
183176 ATCGCAATGCGA-ACTTCGACTATCGCAATACGAATATGTAA
1 ATCGCAATGCGATAATT-GACTATCGCAATACGAATATGTAA
* *
183217 ATCGCAATGCAATAATTGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAATTGACTATCGCAATACGAATATGTAA
183258 ATCGCAATGCGATA
1 ATCGCAATGCGATA
183272 GTCGAAGTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 47 0.94
42 3 0.06
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (41 bp):
ATCGCAATGCGATAATTGACTATCGCAATACGAATATGTAA
Found at i:183222 original size:20 final size:20
Alignment explanation
Indices: 183197--183269 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
183187 AACTTCGACT
*
183197 ATCGCAATACGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
183217 ATCGCAATGC-AATAAT-TGACT
1 ATCGCAATGCGAAT-ATGT-A-A
183238 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
183258 ATCGCAATGCGA
1 ATCGCAATGCGA
183270 TAGTCGAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 4 0.09
20 24 0.53
21 13 0.29
22 4 0.09
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:183289 original size:21 final size:21
Alignment explanation
Indices: 183259--183353 Score: 72
Period size: 21 Copynumber: 4.6 Consensus size: 21
183249 AATATGTAAA
*
183259 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* * *
183280 TCGCGTTGCGATAGTAG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
183300 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
183321 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
183342 TCGCGTTGCGAT
1 TCGCATTGCGAT
183354 TTATTCCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
20 17 0.29
21 40 0.69
22 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:183300 original size:62 final size:62
Alignment explanation
Indices: 183234--183353 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 62
183224 TGCAATAATT
*
183234 GACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTA
1 GACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCGTTGCGATAGTA
* *
183296 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGAT
1 GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCGTTGCGAT
183354 TTATTCCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 3 0.06
62 45 0.87
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (62 bp):
GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCGTTGCGATAGTA
Found at i:183351 original size:41 final size:40
Alignment explanation
Indices: 183301--183381 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 40
183291 TAGTAGACTA
*
183301 TCGCATTGCGATTTA-CATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTATCAAATTCG--TTGCGATAGTCCAAGT
*
183342 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TCGCATTGCGATTTA-T-CAAATTCGTTGCGATAGTCCAA
183382 AATCGCAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 14 0.40
42 14 0.40
44 7 0.20
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (40 bp):
TCGCATTGCGATTTATCAAATTCGTTGCGATAGTCCAAGT
Found at i:183367 original size:23 final size:22
Alignment explanation
Indices: 183319--183387 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
183309 CGATTTACAT
*
183319 ATTCGCATTGCGA-TAGTCCAA
1 ATTCGCGTTGCGATTAGTCCAA
* *
183340 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA-TTAGTCCAA
183363 ATT--CGTTGCGA-TAGTCCAA
1 ATTCGCGTTGCGATTAGTCCAA
*
183382 AATCGC
1 ATTCGC
183388 AACGACTGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.24
21 20 0.53
23 9 0.24
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (22 bp):
ATTCGCGTTGCGATTAGTCCAA
Found at i:183504 original size:5 final size:5
Alignment explanation
Indices: 183476--183526 Score: 75
Period size: 5 Copynumber: 9.6 Consensus size: 5
183466 ACGTATTACA
183476 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGACC
183524 CGA
1 CGA
183527 GACGAGACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 28 0.62
6 17 0.38
ACGTcount: A:0.25, C:0.55, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:184215 original size:21 final size:21
Alignment explanation
Indices: 184171--184368 Score: 233
Period size: 21 Copynumber: 9.5 Consensus size: 21
184161 ACTTCGACTA
* * *
184171 TCGCATTGCGAT-TTACATGT
1 TCGCATTGCGATAGTCCAAGT
184191 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
184212 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
184233 TCACGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
184254 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
184274 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
184295 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
184316 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
184337 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
184358 TCGCGTTGCGA
1 TCGCATTGCGA
184369 ATCTGGAAAC
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
20 29 0.19
21 125 0.81
22 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:184298 original size:104 final size:104
Alignment explanation
Indices: 184164--184368 Score: 365
Period size: 104 Copynumber: 2.0 Consensus size: 104
184154 AATGCGAACT
*
184164 TCGACTATCGCATTGCGATTTACATGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
*
184229 AAGTTCACGTTGCGATAGTCCAAGTTCGCATTGCGATAG
66 AAGTTCACATTGCGATAGTCCAAGTTCGCATTGCGATAG
184268 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
* * *
184333 AAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
66 AAGTTCACATTGCGATAGTCCAAGTTCGCATTGCGA
184369 ATCTGGAAAC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (104 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
AAGTTCACATTGCGATAGTCCAAGTTCGCATTGCGATAG
Found at i:184420 original size:19 final size:19
Alignment explanation
Indices: 184396--184446 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
184386 ATATACCGGA
*
184396 GATCGCGTTGCGAATTATC
1 GATCGCATTGCGAATTATC
184415 GATCGCATTGCGAATTATC
1 GATCGCATTGCGAATTATC
184434 GATCGCATTGCGA
1 GATCGCATTGCGA
184447 TTTAGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Found at i:185429 original size:31 final size:31
Alignment explanation
Indices: 185358--185430 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
185348 CGATGAATTT
* * *
185358 AACATTAGGCATATAAAAGTGTAACGTCAGA
1 AACATTAGACACATAAAAGTGTAACATCAGA
* *
185389 AATGA-TAGACACATAAAAGTGTAATATCAGA
1 AA-CATTAGACACATAAAAGTGTAACATCAGA
185420 AACATTAGACA
1 AACATTAGACA
185431 GATATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 1 0.03
31 32 0.94
32 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (31 bp):
AACATTAGACACATAAAAGTGTAACATCAGA
Found at i:198418 original size:44 final size:43
Alignment explanation
Indices: 198363--198610 Score: 216
Period size: 44 Copynumber: 6.1 Consensus size: 43
198353 GTAAGCATGC
* *
198363 AAATAAACTTACGAGCTTATGGGATAAATGGCAAGTATATTGTA
1 AAATAAGCTTACGAGCTTATGGGAT-AATGGTAAGTATATTGTA
*
198407 AAATAAGCTTACGAGCTTA---G-----GG--AGTA-ATGGTA
1 AAATAAGCTTACGAGCTTATGGGATAATGGTAAGTATATTGTA
*
198439 AAATAAGCTTACGAGCTTATGTGATAAATGGTAAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGGGAT-AATGGTAAGTATATT-GTA
* *
198484 AAATAAGCTTAAGAGC---T----T-ATGG--AGTA-ATGGTA
1 AAATAAGCTTACGAGCTTATGGGATAATGGTAAGTATATTGTA
198516 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGGAT-AATGGTAAGTATATTG-TA
* *
198561 AAATAAGCTTACGAGCTAATGGAATAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAATGGTAAGTATATT-GTA
198605 AAATAA
1 AAATAA
198611 ATGTTCACTA
Statistics
Matches: 168, Mismatches: 9, Indels: 54
0.73 0.04 0.23
Matches are distributed among these distances:
32 42 0.25
33 6 0.04
34 4 0.02
35 4 0.02
36 4 0.02
38 1 0.01
39 1 0.01
41 7 0.04
42 1 0.01
43 8 0.05
44 46 0.27
45 44 0.26
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (43 bp):
AAATAAGCTTACGAGCTTATGGGATAATGGTAAGTATATTGTA
Found at i:198500 original size:45 final size:44
Alignment explanation
Indices: 198436--198610 Score: 180
Period size: 45 Copynumber: 4.2 Consensus size: 44
198426 GGGAGTAATG
198436 GTAAAATAAGCTTACGAGCTTATGTGATAAATGGTAAGTATATTA
1 GTAAAATAAGCTTACGAGCTTATG-GATAAATGGTAAGTATATTA
* *
198481 GTAAAATAAGCTTAAGAGC---T---T--ATGG--AGTA-A-TG
1 GTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTA
198513 GTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATT-
1 GTAAAATAAGCTTACGAGCTTAT-GGATAAATGGTAAGTATATTA
* *
198557 GATAAAATAAGCTTACGAGCTAATGGA-ATAATGGTAAGTATATTG
1 G-TAAAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTA
198602 GTAAAATAA
1 GTAAAATAA
198611 ATGTTCACTA
Statistics
Matches: 110, Mismatches: 4, Indels: 33
0.75 0.03 0.22
Matches are distributed among these distances:
32 19 0.17
33 1 0.01
34 4 0.04
35 1 0.01
36 4 0.04
38 1 0.01
39 1 0.01
41 4 0.04
42 1 0.01
43 5 0.05
44 28 0.25
45 41 0.37
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (44 bp):
GTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTA
Found at i:198520 original size:77 final size:76
Alignment explanation
Indices: 198363--198593 Score: 381
Period size: 77 Copynumber: 3.0 Consensus size: 76
198353 GTAAGCATGC
* * *
198363 AAATAAACTTACGAGCTTATGGGATAAATGGCAAGTATATTGTAAAATAAGCTTACGAGCTTAGG
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATG
198428 GAGTAATGGTA
66 GAGTAATGGTA
* *
198439 AAATAAGCTTACGAGCTTATGTGATAAATGGTAAGTATATTAGTAAAATAAGCTTAAGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTAT
198504 GGAGTAATGGTA
65 GGAGTAATGGTA
*
198516 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTAAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTG-TAAAATAAGCTTACGAGCTTAT
*
198581 GGAATAATGGTA
65 GGAGTAATGGTA
198593 A
1 A
198594 GTATATTGGT
Statistics
Matches: 144, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
76 39 0.27
77 105 0.73
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (76 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATG
GAGTAATGGTA
Found at i:201605 original size:13 final size:13
Alignment explanation
Indices: 201580--201607 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
201570 AATGGTGAGA
201580 CTCCTTGGTAAGC
1 CTCCTTGGTAAGC
201593 CTCCTTGGTAAGC
1 CTCCTTGGTAAGC
201606 CT
1 CT
201608 TCAGGCGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.21, T:0.32
Consensus pattern (13 bp):
CTCCTTGGTAAGC
Found at i:206597 original size:3 final size:3
Alignment explanation
Indices: 206589--206683 Score: 99
Period size: 3 Copynumber: 32.0 Consensus size: 3
206579 GCATGAAATG
**
206589 TAA TAA TAA T-A TTT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
**
206637 TAA -AA GT-A TAAA TAA T-A TAA TAA TAA TAA TTT TAA TAA TAA TAA
1 TAA TAA -TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
206681 TAA
1 TAA
206684 CAAATGAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
2 7 0.09
3 66 0.85
4 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:206977 original size:16 final size:16
Alignment explanation
Indices: 206929--206986 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
206919 TTGAACAAGC
206929 TCTTCTCATTATGAAT
1 TCTTCTCATTATGAAT
* *
206945 TGCTTCTCCTTCATATGAGT
1 T-CTTCT-CAT--TATGAAT
206965 TCTTCTCATTATGAAT
1 TCTTCTCATTATGAAT
206981 TCTTCT
1 TCTTCT
206987 GGAAATATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.38
17 5 0.15
18 4 0.12
19 5 0.15
20 7 0.21
ACGTcount: A:0.19, C:0.22, G:0.09, T:0.50
Consensus pattern (16 bp):
TCTTCTCATTATGAAT
Done.