Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003665.1 Hibiscus syriacus cultivar Beakdansim tig00007830_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: 61510
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:4295 original size:21 final size:21
Alignment explanation
Indices: 4269--4320 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4259 CCTCTATCAT
*
4269 GGGTTGTAAGTATT-GTCGTAG
1 GGGTTGTAAGTATTACT-GTAG
4290 GGGTTGTAAGTATTACTGTAG
1 GGGTTGTAAGTATTACTGTAG
*
4311 GGGTTATAAG
1 GGGTTGTAAG
4321 ATCATTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.37, T:0.37
Consensus pattern (21 bp):
GGGTTGTAAGTATTACTGTAG
Found at i:11596 original size:18 final size:18
Alignment explanation
Indices: 11573--11608 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11563 TCCTGTAGGA
*
11573 CTTCAACGCCTCCAATAG
1 CTTCAACCCCTCCAATAG
11591 CTTCAACCCCTCCAATAG
1 CTTCAACCCCTCCAATAG
11609 GACCAGCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.42, G:0.08, T:0.22
Consensus pattern (18 bp):
CTTCAACCCCTCCAATAG
Found at i:14147 original size:33 final size:31
Alignment explanation
Indices: 14107--14183 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 31
14097 AATAAATTAT
*
14107 ATATACATACATATCATACATTCGATTGAAC
1 ATATACATACATATCATACATTCGATCGAAC
*
14138 ATGAATACATACATATCATACATTCGGTCGAAC
1 AT--ATACATACATATCATACATTCGATCGAAC
14171 ATAT-CATACATAT
1 ATATACATACATAT
14184 ATGATGCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 9 0.21
31 4 0.10
33 29 0.69
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (31 bp):
ATATACATACATATCATACATTCGATCGAAC
Found at i:14220 original size:19 final size:19
Alignment explanation
Indices: 14169--14220 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
14159 ATTCGGTCGA
*
14169 ACATATCATACATATATGAT
1 ACATA-CATACATAAATGAT
* * * *
14189 GCATGCATTCATAAATTAT
1 ACATACATACATAAATGAT
14208 ACATACATACATA
1 ACATACATACATA
14221 CATACGTATC
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (19 bp):
ACATACATACATAAATGAT
Found at i:16786 original size:19 final size:19
Alignment explanation
Indices: 16762--16812 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
16752 TTCCCAATTT
*
16762 TATTCCCCCATTTGCTGTG
1 TATTCCCCCATTTACTGTG
16781 TATTCCCCCCATTTACTGTG
1 TATT-CCCCCATTTACTGTG
16801 TATTCCCCCATT
1 TATTCCCCCATT
16813 CTTCTCACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.14, C:0.35, G:0.10, T:0.41
Consensus pattern (19 bp):
TATTCCCCCATTTACTGTG
Found at i:20151 original size:65 final size:64
Alignment explanation
Indices: 20079--20224 Score: 161
Period size: 65 Copynumber: 2.3 Consensus size: 64
20069 TACACTTGGG
* * * * * *
20079 GTGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGCCAAGAG-TGTATCGATTCATGGT
1 GTGCATCGGTACACAAAGTACATTCAATGTTTCAATAA-AACCAAG-GCTGCATCGATGCATGGT
20142 CT
64 -T
* * *
20144 GTGCATCGATACACAAAGTGCATTCAATGTTTCAATAAAATCAAGGCTGCATCGATGCATGGTT
1 GTGCATCGGTACACAAAGTACATTCAATGTTTCAATAAAACCAAGGCTGCATCGATGCATGGTT
*
20208 GTGCATCGGTGCACAAA
1 GTGCATCGGTACACAAA
20225 ATGCAATCGA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 17 0.25
65 49 0.72
66 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (64 bp):
GTGCATCGGTACACAAAGTACATTCAATGTTTCAATAAAACCAAGGCTGCATCGATGCATGGTT
Found at i:20771 original size:31 final size:31
Alignment explanation
Indices: 20749--20808 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
20739 TTTGTGATGG
20749 AATATGTGGACCCATCACAAATTTATGACGA
1 AATATGTGGACCCATCACAAATTTATGACGA
* * *
20780 AATATGTGGATCCGTCACAAATTTCTGAC
1 AATATGTGGACCCATCACAAATTTATGAC
20809 AGATTCATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (31 bp):
AATATGTGGACCCATCACAAATTTATGACGA
Found at i:22808 original size:37 final size:37
Alignment explanation
Indices: 22765--22869 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
22755 CAAACGTTAT
* * *
22765 AGTTTTAGTATGATTCAAACTCTTAAAAATAGGATAG
1 AGTTTTACTATGATTAAAACTCCTAAAAATAGGATAG
* *
22802 AGTTTTACTAAGATTAAAACTCCTAAAAATATGATAG
1 AGTTTTACTATGATTAAAACTCCTAAAAATAGGATAG
*
22839 AGTTTTACTATGATTTAAACTCCTAAAAATA
1 AGTTTTACTATGATTAAAACTCCTAAAAATA
22870 AGTTCCACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.35
Consensus pattern (37 bp):
AGTTTTACTATGATTAAAACTCCTAAAAATAGGATAG
Found at i:23404 original size:22 final size:22
Alignment explanation
Indices: 23362--23405 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
23352 ATGTAATTTG
*
23362 TTTTTTACTTTTTATGCATTTTC
1 TTTTTTACTTTGTAT-CATTTTC
23385 TTTTTTACTTTAGTAT-ATTTT
1 TTTTTTACTTT-GTATCATTTT
23406 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 11 0.58
24 3 0.16
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTTTACTTTGTATCATTTTC
Found at i:23457 original size:74 final size:73
Alignment explanation
Indices: 23379--23556 Score: 184
Period size: 76 Copynumber: 2.4 Consensus size: 73
23369 CTTTTTATGC
* *
23379 ATTTTCTTTTTTACTTTA-GTATATTTTTTTAAT-TTTTTATATTA-CATATATATATATGTTAT
1 ATTTT-TTTTTTA-TTTATTTATATTTTTTT-ATGTTTTTAT-TTATCATATATATATATATTAT
23441 TTCTTA-TTATTT
62 TT-TTACTTATTT
* * *
23453 ATTTTATTAATTTATATATTTACTATTTTTTTATGTTTTTATTTATTATATATATATATATTATT
1 ATTTT-TT-TTTTATTTATTTA-TATTTTTTTATGTTTTTATTTATCATATATATATATATTATT
*
23518 TTTACTTTTTT
63 TTTACTTATTT
* *
23529 ATTATTATTTTATTTATTTATATTTTTT
1 ATTTTTTTTTTATTTATTTATATTTTTT
23557 CTTCTTTTTC
Statistics
Matches: 87, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
73 8 0.09
74 21 0.24
75 15 0.17
76 43 0.49
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (73 bp):
ATTTTTTTTTTATTTATTTATATTTTTTTATGTTTTTATTTATCATATATATATATATTATTTTT
ACTTATTT
Found at i:23469 original size:36 final size:36
Alignment explanation
Indices: 23398--23604 Score: 130
Period size: 36 Copynumber: 5.7 Consensus size: 36
23388 TTTACTTTAG
* *
23398 TATATT-TTTTTAATTTTTTATATTA-CATATATATA
1 TATATTATTTTT-ATTTTTTATTTTATTATATATATA
* * *
23433 TATGTTATTTCTTATTATTTATTTTATTAATTTATATATT
1 TATATTATTT-TTATTTTTTATTTTATT-A--TATATATA
23473 TACTATT-TTTTTATGTTTTTA-TTTATTATATATATA
1 TA-TATTATTTTTAT-TTTTTATTTTATTATATATATA
* * *
23509 TATATTATTTTTACTTTTTTATTATTATTTTATTTATT
1 TATATTATTTTTA-TTTTTTATT-TTATTATATATATA
*
23547 TATATT-TTTTCT-TCTTTTT-CTTTATT-T-T-TATA
1 TATATTATTTT-TAT-TTTTTATTTTATTATATATATA
*
23579 TTTATT-TTTATATATTTTTTATTTTA
1 TATATTATTT-T-TATTTTTTATTTTA
23605 CTTACTATTT
Statistics
Matches: 139, Mismatches: 16, Indels: 35
0.73 0.08 0.18
Matches are distributed among these distances:
32 11 0.08
33 8 0.06
34 6 0.04
35 14 0.10
36 37 0.27
37 13 0.09
38 20 0.14
39 10 0.07
40 17 0.12
41 3 0.02
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (36 bp):
TATATTATTTTTATTTTTTATTTTATTATATATATA
Found at i:23469 original size:38 final size:38
Alignment explanation
Indices: 23410--23559 Score: 112
Period size: 38 Copynumber: 3.9 Consensus size: 38
23400 TATTTTTTTA
*
23410 ATTT-TTTATATTACATATATATATATGTTATTTCTTATT
1 ATTTATTT-TATTA-ATATATATATATATTATTTCTTATT
* * * *
23449 ATTTATTTTATTAATTTATATATTTACTATTTTTTTATGT
1 ATTTATTTTATTAATATATATATATATTA-TTTCTTAT-T
*
23489 TTTTA-TTTATT-ATATATATATATATTATTT-TTACTT
1 ATTTATTTTATTAATATATATATATATTATTTCTTA-TT
* * * * *
23525 TTTTATTATTATT-TTATTTATTTATATTTTTTCTT
1 ATTTATT-TTATTAATATATATATATATTATTTCTT
23560 CTTTTTCTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
36 9 0.10
37 5 0.05
38 45 0.49
39 24 0.26
40 8 0.09
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (38 bp):
ATTTATTTTATTAATATATATATATATTATTTCTTATT
Found at i:23513 original size:44 final size:46
Alignment explanation
Indices: 23447--23551 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 46
23437 TTATTTCTTA
*
23447 TTATTTATTT-TATTAATTTATA-TA-TTTACTATTTTT-TTATGT-TT
1 TTATTTATTTATA-TAATATATATTATTTTACT-TTTTTATTAT-TATT
23491 TTATTTA-TTATATATATATATATTATTTTTACTTTTTTATTATTATT
1 TTATTTATTTATATA-ATATATATTA-TTTTACTTTTTTATTATTATT
23538 TTATTTATTTATAT
1 TTATTTATTTATAT
23552 TTTTTCTTCT
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
43 4 0.08
44 15 0.29
45 2 0.04
46 6 0.12
47 19 0.37
48 6 0.12
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.70
Consensus pattern (46 bp):
TTATTTATTTATATAATATATATTATTTTACTTTTTTATTATTATT
Found at i:23545 original size:29 final size:31
Alignment explanation
Indices: 23494--23556 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
23484 TATGTTTTTA
*
23494 TTTATTATATATATATATATTATTTTTACTTT
1 TTTATTATATATATATATATTATTTATA-TTT
*
23526 TTTATTAT-TAT-TTTAT-TTATTTATATTT
1 TTTATTATATATATATATATTATTTATATTT
23554 TTT
1 TTT
23557 CTTCTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
29 8 0.28
30 4 0.14
31 3 0.10
32 8 0.28
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (31 bp):
TTTATTATATATATATATATTATTTATATTT
Found at i:23564 original size:38 final size:37
Alignment explanation
Indices: 23456--23630 Score: 111
Period size: 36 Copynumber: 4.9 Consensus size: 37
23446 ATTATTTATT
* *
23456 TTATTAATTTATATATTTACTATTTTTTTAT-GTTTTTA
1 TTATTATTTTATATATTTA-TATTTTTTT-TCTTTTTTA
* * *
23494 -T-TTATTATATATATATATATTATTTTTACTTTTTTA
1 TTATTATTTTATATATTTATATT-TTTTTTCTTTTTTA
*
23530 TTATTATTTTATTTATTTATATTTTTTCTTC-TTTTT-
1 TTATTATTTTATATATTTATATTTTTT-TTCTTTTTTA
* * * *
23566 CT-TTATTTT-TATATTTAT-TTTTATATATTTTTTA
1 TTATTATTTTATATATTTATATTTTTTTTCTTTTTTA
* * *
23600 TT-TTA-CTTACTAT-TTTATCTTTGTTTTCTTT
1 TTATTATTTTA-TATATTTATATTTTTTTTCTTT
23631 ATCTTATCTT
Statistics
Matches: 107, Mismatches: 20, Indels: 23
0.71 0.13 0.15
Matches are distributed among these distances:
32 1 0.01
33 12 0.11
34 17 0.16
35 22 0.21
36 25 0.23
37 11 0.10
38 19 0.18
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.71
Consensus pattern (37 bp):
TTATTATTTTATATATTTATATTTTTTTTCTTTTTTA
Found at i:23579 original size:74 final size:76
Alignment explanation
Indices: 23400--23572 Score: 198
Period size: 76 Copynumber: 2.3 Consensus size: 76
23390 TACTTTAGTA
* * *
23400 TATTTTTTTAAT-TTTTTATATTA-CATATATATATATGTTATTTCTTATTATTTATTTTATTAA
1 TATTTTTTT-ATCTTTTTAT-TTATTATATATATATATATTATTTCTTATTATTTATATTATTAA
23463 TTTATATATTTAC
64 TTTATATATTTAC
* *
23476 TATTTTTTTATGTTTTTATTTATTATATATATATATATTATTT-TTACTT-TTT-TATTATTATT
1 TATTTTTTTATCTTTTTATTTATTATATATATATATATTATTTCTTA-TTATTTATATTATTAAT
*
23538 TTATTTATTTA-
65 TTATATATTTAC
*
23549 TATTTTTTCT-TCTTTTTCTTTATT
1 TATTTTTT-TATCTTTTTATTTATT
23573 TTTATATTTA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
73 20 0.23
74 19 0.22
75 11 0.13
76 36 0.42
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (76 bp):
TATTTTTTTATCTTTTTATTTATTATATATATATATATTATTTCTTATTATTTATATTATTAATT
TATATATTTAC
Found at i:23594 original size:14 final size:12
Alignment explanation
Indices: 23431--23604 Score: 57
Period size: 12 Copynumber: 14.7 Consensus size: 12
23421 TACATATATA
23431 TATATGTTATTTCT
1 TATAT-TTATTT-T
23445 TATTATTTA--TT
1 TA-TATTTATTTT
* *
23456 T-TATTAATTTA
1 TATATTTATTTT
*
23467 TATATTTACTATT
1 TATATTTA-TTTT
23480 T-T-TTTATGTTT
1 TATATTTAT-TTT
*
23491 T-TATTTA-TTA
1 TATATTTATTTT
* *
23501 TATATATATATAT
1 TATATTTAT-TTT
*
23514 TATTTTTACTTTT
1 TATATTTA-TTTT
23527 T-TA-TTATTATT
1 TATATTTATT-TT
*
23538 T-TATTTATTTA
1 TATATTTATTTT
* *
23549 TATTTTTTCTTCTT
1 TA-TATTTATT-TT
* *
23563 TTTCTTTATTTT
1 TATATTTATTTT
23575 TATATTTATTTT
1 TATATTTATTTT
*
23587 TATATAT-TTTT
1 TATATTTATTTT
23598 TAT-TTTA
1 TATATTTA
23605 CTTACTATTT
Statistics
Matches: 118, Mismatches: 25, Indels: 37
0.66 0.14 0.21
Matches are distributed among these distances:
9 5 0.04
10 8 0.07
11 34 0.29
12 35 0.30
13 25 0.21
14 8 0.07
15 3 0.03
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (12 bp):
TATATTTATTTT
Found at i:23644 original size:61 final size:59
Alignment explanation
Indices: 23524--23646 Score: 144
Period size: 61 Copynumber: 2.1 Consensus size: 59
23514 TATTTTTACT
* * *
23524 TTTTTATTATTATTTTATTTATTTATATTTTTTCTTCTTTTTCTTTATTTTTATATTTA
1 TTTTTATTATTATTTTATTTACTTATATTTTATCTTCTTTTTCTTTATTCTTATATTTA
*
23583 TTTTTATATATT-TTTTATTTTACTTACTATTTTATCTT-TGTTTTCTTTA-TCTTATCTTTTA
1 TTTTTAT-TATTATTTTA-TTTACTTA-TATTTTATCTTCT-TTTTCTTTATTCTTAT-ATTTA
23644 TTT
1 TTT
23647 AATTTGTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
59 12 0.22
60 17 0.31
61 26 0.47
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (59 bp):
TTTTTATTATTATTTTATTTACTTATATTTTATCTTCTTTTTCTTTATTCTTATATTTA
Found at i:28841 original size:84 final size:83
Alignment explanation
Indices: 28574--29297 Score: 694
Period size: 84 Copynumber: 8.7 Consensus size: 83
28564 TTAAAGACAA
* * * *
28574 CATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
*
28639 GCTCAGTTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * *
28658 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
28720 CTCATCTTCAAGGGCACAT
66 CTCAGCTCCAA-GGCACAT
* * * *
28739 CATTTACAACATAACTTAAGGCTATAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
28804 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * * *
28823 CATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTG---CCAAATACCCTCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
28885 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * *
28904 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTTGACTACG
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
*
28969 CTCAGCTCTAAGGCACAT
66 CTCAGCTCCAAGGCACAT
* * * * * * *
28987 GATTTGCAGCATAGCTTAAAGTTGATAAGGGCTATCT-T--CCAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGGCT-AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTAC
* * * *
29049 ACTCAGCTCAAATGCACCAA
65 GCTCAGCTCCAAGGCA-CAT
* * ** * *
29069 CATTTGTC-GCATAACTCAAGGCTAAAAGGGTTATCTACCAACCAAAGACATTCGAGTTAGACTA
1 CATTTG-CAGCATAACTTAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTA
* * *
29133 CGCTCAGCTTCGAGGGTACAT
64 CGCTCAGC-TCCAAGGCACAT
* * ** ** *
29154 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCCATCACCAAAAGACCTTTAAATTCGACTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
29219 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * *
29238 CATTAGCAGTATAACATAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGA
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGA
29298 TTACACACAA
Statistics
Matches: 513, Mismatches: 108, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
80 54 0.11
81 124 0.24
82 18 0.04
83 44 0.09
84 154 0.30
85 114 0.22
86 5 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:28857 original size:165 final size:165
Alignment explanation
Indices: 28581--29297 Score: 820
Period size: 165 Copynumber: 4.3 Consensus size: 165
28571 CAACATTTGT
* * * *
28581 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGT
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
28646 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGT
66 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGT
*
28711 TCGATTACACTCATCTTCAAGGGCACATCATTTAC
131 TCGATTACACTCAGCTTCAAGGGCACATCATTTAC
* * * * *
28746 AACATAACTTAAGGCTATAAGGGTTATCTGTC-ACCAAAAGACCTTCAAGTTCGACTACGCTCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAG
* *
28810 CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAATACCCTCGAG
65 CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
*
28875 TTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
130 TTCGATTACACTCAGCTTCAAGGGCACATCATTTAC
* * *
28911 AGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTTGAGTTTGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * *
28975 TCTAAGGCACATGATTTGCAGCATAGCTTAAAGTTGATAAGGGCTATCTTCCAAAGACCTTCGAG
66 TCCAAGGCACATCATTTGCAGCATAGCTT-AAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
** * *
29040 TTCGATTACACTCAGC-TCAAATGCACCAACATTTGTC
130 TTCGATTACACTCAGCTTCAAGGGCA-CATCATTT-AC
* * * *
29077 -GCATAACTCAAGGCTAAAAGGGTTATCTACCAACCAAAGACATTCGAGTTAGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * * * * * * *
29141 TTCGAGGGTACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCCATCACCAAAAGACCTT
66 -TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-C-T-GCC-AAAGACCCT
** * * * *
29206 TAAATTCGACTACGCTCAGCTCCAA-GGCACATCA-TTAGC
126 CGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTA-C
* * * *
29245 AGTATAACAT-AAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGA
1 AGCATAAC-TCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
29298 TTACACACAA
Statistics
Matches: 472, Mismatches: 66, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
164 62 0.13
165 262 0.56
166 42 0.09
167 23 0.05
168 23 0.05
169 29 0.06
170 28 0.06
171 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (165 bp):
AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGT
TCGATTACACTCAGCTTCAAGGGCACATCATTTAC
Found at i:29991 original size:37 final size:37
Alignment explanation
Indices: 29950--30022 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
29940 AAACAAACGT
*
29950 TAGAGTTTTAGTAGAATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGGA
*
29987 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGG
1 TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGG
30023 TTCCACAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGGA
Found at i:30673 original size:33 final size:34
Alignment explanation
Indices: 30548--30718 Score: 93
Period size: 33 Copynumber: 4.7 Consensus size: 34
30538 TTTACTTTAG
* * * *
30548 TATATATATTTTTTTTTATTTTTT-TAGATTACATA
1 TATATATATTATTTTTTATTTTTTAT-TATTA-TTT
30583 TATATATATTATTTCTTATTATCTGTTTTATTAATTTATATAT
1 TATATATATTA-TT-TT-TTAT-T-TTTTATT-A-TTAT-T-T
* *
30626 ATATATTTACTATTTTTTATGTTTTTA-T-TTATTT
1 -TATATATATTATTTTTTAT-TTTTTATTATTATTT
30660 TATATATATTA-TTTTTACTTTTTTATTATTATTT
1 TATATATATTATTTTTTA-TTTTTTATTATTATTT
*
30694 TTTA-ATATT-TTTTCTATATTTTTTA
1 TATATATATTATTTT-T-TATTTTTTA
30719 ATTTACTTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 35
0.71 0.06 0.23
Matches are distributed among these distances:
32 12 0.11
33 19 0.17
34 18 0.17
35 13 0.12
36 6 0.06
37 2 0.02
38 4 0.04
39 2 0.02
40 9 0.08
41 7 0.06
42 6 0.06
43 2 0.02
44 9 0.08
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (34 bp):
TATATATATTATTTTTTATTTTTTATTATTATTT
Found at i:30684 original size:40 final size:39
Alignment explanation
Indices: 30608--30685 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 39
30598 TTATTATCTG
30608 TTTTATTAATTTATATATATATATTTACTATTTTTTATGT
1 TTTTATTAATTTATATATATATATTTAC-ATTTTTTATGT
* *
30648 TTTTATTTATTTTATATATATTATTTTTAC-TTTTTTAT
1 TTTTA-TTAATTTATATATA-TATATTTACATTTTTTAT
30686 TATTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 13 0.38
41 13 0.38
42 8 0.24
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (39 bp):
TTTTATTAATTTATATATATATATTTACATTTTTTATGT
Found at i:30689 original size:20 final size:20
Alignment explanation
Indices: 30617--30695 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
30607 GTTTTATTAA
*
30617 TTTATATATATATATTTACTAT
1 TTTATATATAT-TATTT-TTAT
* *
30639 TTT-T-TATGTTTTTATTTAT
1 TTTATATATATTATT-TTTAT
30658 TTTATATATATTATTTTTACT
1 TTTATATATATTATTTTTA-T
*
30679 TTTTTAT-TATTATTTTT
1 TTTATATATATTATTTTT
30696 TAATATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
19 9 0.19
20 20 0.43
21 15 0.32
22 3 0.06
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (20 bp):
TTTATATATATTATTTTTAT
Found at i:30692 original size:23 final size:23
Alignment explanation
Indices: 30608--30717 Score: 60
Period size: 22 Copynumber: 5.1 Consensus size: 23
30598 TTATTATCTG
* *
30608 TTTTA-TTAATTTATATATATAT
1 TTTTACTTATTTTATATATATTT
* *
30630 ATTTAC-TA-TTT-T-T-TATGT
1 TTTTACTTATTTTATATATATTT
*
30648 TTTTATTTATTTTATATATATTAT
1 TTTTACTTATTTTATATATATT-T
30672 TTTTACTT-TTTTAT-TAT-TATT
1 TTTTACTTATTTTATATATAT-TT
* * *
30693 TTTTA-ATATTTTTTCTATATTT
1 TTTTACTTATTTTATATATATTT
30715 TTT
1 TTT
30718 AATTTACTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
18 8 0.12
19 3 0.04
20 5 0.07
21 16 0.23
22 19 0.28
23 10 0.14
24 8 0.12
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (23 bp):
TTTTACTTATTTTATATATATTT
Found at i:30695 original size:21 final size:22
Alignment explanation
Indices: 30666--30720 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
30656 ATTTTATATA
*
30666 TATTA-TTTTTACT-TTTTTAT-
1 TATTATTTTTTAATATTTTT-TC
30686 TATTATTTTTTAATATTTTTTC
1 TATTATTTTTTAATATTTTTTC
30708 TA-TATTTTTTAAT
1 TATTATTTTTTAAT
30721 TTACTTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 5 0.16
21 19 0.61
22 7 0.23
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTATTTTTTAATATTTTTTC
Found at i:30731 original size:21 final size:21
Alignment explanation
Indices: 30689--30731 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
30679 TTTTTATTAT
* *
30689 TATTTTTTAATATTTTTTCTA
1 TATTTTTTAATATTCTTACTA
30710 TATTTTTTAAT-TTACTTACTA
1 TATTTTTTAATATT-CTTACTA
30731 T
1 T
30732 TTTATCTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTTTAATATTCTTACTA
Found at i:30780 original size:26 final size:26
Alignment explanation
Indices: 30751--30817 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
30741 GTTTTCTTTA
*
30751 TCTTATTTTTTATTTAATTTGTTT-TT
1 TCTTA-TTTTTATTTAATTTATTTATT
*
30777 TCTTCATTTTAATTTAATTTATTTATT
1 TCTT-ATTTTTATTTAATTTATTTATT
30804 TCTTACCTTTTTAT
1 TCTTA--TTTTTAT
30818 CTAACATGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 21 0.62
27 7 0.21
28 6 0.18
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.70
Consensus pattern (26 bp):
TCTTATTTTTATTTAATTTATTTATT
Found at i:31735 original size:27 final size:27
Alignment explanation
Indices: 31705--31770 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
31695 ATATAAAAAA
*
31705 TAAATTTATTAATCTAATTATCATAAT
1 TAAATTTATTAATCTAATGATCATAAT
*
31732 TAAATTTATTAATCTGATGATCATAAT
1 TAAATTTATTAATCTAATGATCATAAT
31759 TAATAATTTATT
1 T-A-AATTTATT
31771 TTAAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 26 0.74
28 1 0.03
29 8 0.23
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (27 bp):
TAAATTTATTAATCTAATGATCATAAT
Found at i:34008 original size:50 final size:50
Alignment explanation
Indices: 33953--34086 Score: 128
Period size: 50 Copynumber: 2.7 Consensus size: 50
33943 AAATTATGGT
* **
33953 TTTTAAACATTTAAAATATTTTTTATTAAAATAATAATT-ATTTATAATTA
1 TTTTAAATATTTAAAATATTTTTTATTAAAATAATAATTAAACTAT-ATTA
* * * * * *
34003 TTTTAAGTATTTAAACTA-TTTTAATTAAACTAAATATTTAAACTATATTT
1 TTTTAAATATTTAAAATATTTTTTATTAAAAT-AATAATTAAACTATATTA
* * *
34053 TTTTAAATATATAAATTATTTTTTATGAAAATAA
1 TTTTAAATATTTAAAATATTTTTTATTAAAATAA
34087 ATATTTAATT
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
49 11 0.17
50 41 0.62
51 14 0.21
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (50 bp):
TTTTAAATATTTAAAATATTTTTTATTAAAATAATAATTAAACTATATTA
Found at i:34024 original size:18 final size:19
Alignment explanation
Indices: 33991--34026 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33981 AAATAATAAT
*
33991 TATTTATAATTATTTTAAG
1 TATTTATAACTATTTTAAG
34010 TATTTA-AACTATTTTAA
1 TATTTATAACTATTTTAA
34027 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TATTTATAACTATTTTAAG
Found at i:34027 original size:27 final size:28
Alignment explanation
Indices: 33991--34048 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
33981 AAATAATAAT
*** *
33991 TATTTATAATTATTTTAAGTATTTAAAC
1 TATTTATAATTAAACTAAATATTTAAAC
34019 TATTT-TAATTAAACTAAATATTTAAAC
1 TATTTATAATTAAACTAAATATTTAAAC
34046 TAT
1 TAT
34049 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
TATTTATAATTAAACTAAATATTTAAAC
Found at i:34067 original size:23 final size:21
Alignment explanation
Indices: 34033--34076 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
34023 TTAATTAAAC
*
34033 TAAATATTTAAACTATATTTTTT
1 TAAATATATAAA-T-TATTTTTT
34056 TAAATATATAAATTATTTTTT
1 TAAATATATAAATTATTTTTT
34077 ATGAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAATATATAAATTATTTTTT
Found at i:39952 original size:39 final size:39
Alignment explanation
Indices: 39909--40211 Score: 162
Period size: 39 Copynumber: 7.7 Consensus size: 39
39899 AATAAATTCA
* * *
39909 ATCCAATAATTTATTTTCTTTTA-AAAATTAGGAAAATAT
1 ATCCAACAATTTATTTCCTTTTACAAAA-TAAGAAAATAT
* *
39948 ATCCAACGATTTATTTCCTTTTACAAAATAAGAAAATAA
1 ATCCAACAATTTATTTCCTTTTACAAAATAAGAAAATAT
* ** ** * * * * *
39987 ATCAAACGCTTTATTTAATTTAACACAACAACAAAAAAT
1 ATCCAACAATTTATTTCCTTTTACAAAATAAGAAAATAT
* * * ** * *
40026 GAATTCTACGATTTATTTCCTTTTACAAAATTCGAGAATAA
1 --ATCCAACAATTTATTTCCTTTTACAAAATAAGAAAATAT
* ** ** * *
40067 ATCTAATGATTTATTTCCTCCTAAAAAATACA-AAAATAA
1 ATCCAACAATTTATTTCCTTTTACAAAATA-AGAAAATAT
* * * *
40106 ATCCAATTAATTTATTTCCTTTTACACAATAGGAAAATAA
1 ATCCAA-CAATTTATTTCCTTTTACAAAATAAGAAAATAT
* ** * * *
40146 ATCAAATGATTTATTTCCGTTTACAAAA-ATGGAAAATAA
1 ATCCAACAATTTATTTCCTTTTACAAAATA-AGAAAATAT
* *
40185 ATTCTACAATTTATTTCCTTTTACAAA
1 ATCCAACAATTTATTTCCTTTTACAAA
40212 CCAAAATCAT
Statistics
Matches: 200, Mismatches: 57, Indels: 14
0.74 0.21 0.05
Matches are distributed among these distances:
38 1 0.00
39 140 0.70
40 35 0.17
41 24 0.12
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (39 bp):
ATCCAACAATTTATTTCCTTTTACAAAATAAGAAAATAT
Found at i:40182 original size:79 final size:78
Alignment explanation
Indices: 39941--40211 Score: 244
Period size: 79 Copynumber: 3.4 Consensus size: 78
39931 AAAAATTAGG
* * * * * **
39941 AAAATATATCCAACGATTTATTTCCTTTTACAAAATAAGAAAATAAATCAAACGCTTTATTTAAT
1 AAAATAAATCCAACAATTTATTTCCTTTTACAAAATACGAAAATAAATCAAATGATTTATTTCCT
*
40006 -TTAACACAACA-ACAA
66 CCTAA-A-AA-ATAC-A
* * * * * * *
40021 AAAATGAATTCTACGATTTATTTCCTTTTACAAAATTCGAGAATAAATCTAATGATTTATTTCCT
1 AAAATAAATCCAACAATTTATTTCCTTTTACAAAATACGAAAATAAATCAAATGATTTATTTCCT
40086 CCTAAAAAATACA
66 CCTAAAAAATACA
* * *
40099 AAAATAAATCCAATTAATTTATTTCCTTTTACACAATAGGAAAATAAATCAAATGATTTATTTCC
1 AAAATAAATCCAA-CAATTTATTTCCTTTTACAAAATACGAAAATAAATCAAATGATTTATTTCC
* **
40164 GT-TTACAAAAAT-GG
65 -TCCTA-AAAAATACA
* *
40178 AAAATAAATTCTACAATTTATTTCCTTTTACAAA
1 AAAATAAATCCAACAATTTATTTCCTTTTACAAA
40212 CCAAAATCAT
Statistics
Matches: 156, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
78 31 0.20
79 61 0.39
80 61 0.39
81 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (78 bp):
AAAATAAATCCAACAATTTATTTCCTTTTACAAAATACGAAAATAAATCAAATGATTTATTTCCT
CCTAAAAAATACA
Found at i:40293 original size:39 final size:39
Alignment explanation
Indices: 40234--40359 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
40224 AGGATTCTCG
* *
40234 GGAAAATAAATTCAATGATTTATTTCTTTTTACAAAATA
1 GGAAAATAAATTCAAAGATTTATTTCTTTTTACGAAATA
40273 GGAAAATAAATTCAAAGATTTATTTCTTTTTACGAAATA
1 GGAAAATAAATTCAAAGATTTATTTCTTTTTACGAAATA
* * * *
40312 -GAAATTAAATCCAACA-ATTTATTTCCTTTTACGAAACA
1 GGAAAATAAATTCAA-AGATTTATTTCTTTTTACGAAATA
40350 GGAAAATAAA
1 GGAAAATAAA
40360 AAAATTTACC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 32 0.41
39 46 0.59
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (39 bp):
GGAAAATAAATTCAAAGATTTATTTCTTTTTACGAAATA
Found at i:40514 original size:39 final size:39
Alignment explanation
Indices: 40420--40520 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
40410 ATTTGTTTCT
* * *
40420 ATTTATTTCTTTTTATAAAATAAGAAACTAAATCCAACG
1 ATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAACG
* * * *
40459 ATGTATTCCCTTTTACAAAATAAGAAAATAAATTC-TCTG
1 ATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAAC-G
* *
40498 ATTTATTTCCTCTTACATAATAA
1 ATTTATTTCCTTTTACAAAATAA
40521 TATCCTTCAA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
38 1 0.02
39 49 0.98
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.40
Consensus pattern (39 bp):
ATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAACG
Found at i:40589 original size:59 final size:56
Alignment explanation
Indices: 40480--40739 Score: 213
Period size: 59 Copynumber: 4.4 Consensus size: 56
40470 TTTACAAAAT
** * * *
40480 AAGAAAATAAATTCTCTGATTTATTTCCTCTTACATAATA-ATATCCTTCAAGATTC-C
1 AAGAAAATAAATTAAC-AATTTATTT-CTCTTACAAAATAGA-ATCATTCAAGATTCTC
*
40537 TAAGAAAATAAATTAACCAAATTTATTTACTTTTACAAAATAGAATCATTCAAGATTCTC
1 -AAGAAAATAAATTAA-C-AATTTATTT-CTCTTACAAAATAGAATCATTCAAGATTCTC
* * * *
40597 AATG-AAATAAATTCAACTATTTATTT-TCCTTACAAAAATTAGAATCATTAAAAATTTTC
1 AA-GAAAATAAATT-AACAATTTATTTCT-CTTAC-AAAA-TAGAATCATTCAAGATTCTC
* * * *
40656 AAGGAAATAAATTTAACAATTTATTTTTCTTACAAAGTTAGAATCATGCAAGATTCTC
1 AAGAAAATAAA-TTAACAATTTATTTCTCTTACAAA-ATAGAATCATTCAAGATTCTC
**
40714 AAGAAAATAAATCTAACTTTTTATTT
1 AAGAAAATAAAT-TAACAATTTATTT
40740 TCCTTATGAA
Statistics
Matches: 167, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
56 1 0.01
57 5 0.03
58 66 0.40
59 87 0.52
60 8 0.05
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (56 bp):
AAGAAAATAAATTAACAATTTATTTCTCTTACAAAATAGAATCATTCAAGATTCTC
Found at i:40725 original size:58 final size:57
Alignment explanation
Indices: 40528--40771 Score: 215
Period size: 59 Copynumber: 4.2 Consensus size: 57
40518 TAATATCCTT
* * * *
40528 CAAGATTC-CTAAGAAAATAAA-TTAACCAAATTTATTTACTTTTACAAAATAGAATCATT
1 CAAGATTCTC-AAGAAAATAAATTTAA-C-AATTTATTTTC-CTTACAAATTAGAATCATG
* * *
40587 CAAGATTCTCAATG-AAATAAATTCAACTATTTATTTTCCTTACAAAAATTAGAATCATT
1 CAAGATTCTCAA-GAAAATAAATTTAACAATTTATTTTCCTTAC--AAATTAGAATCATG
* * * * *
40646 AAAAATTTTCAAGGAAATAAATTTAACAATTTATTTTTCTTACAAAGTTAGAATCATG
1 CAAGATTCTCAAGAAAATAAATTTAACAATTTATTTTCCTTACAAA-TTAGAATCATG
* ** * * *
40704 CAAGATTCTCAAGAAAATAAATCTAACTTTTTATTTTCCTTATGAAACTAGAATCAACG
1 CAAGATTCTCAAGAAAATAAATTTAACAATTTATTTTCCTTA-CAAATTAGAATC-ATG
40763 CAAGATTCT
1 CAAGATTCT
40772 AACAATGGAA
Statistics
Matches: 153, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
57 7 0.05
58 61 0.40
59 80 0.52
60 5 0.03
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (57 bp):
CAAGATTCTCAAGAAAATAAATTTAACAATTTATTTTCCTTACAAATTAGAATCATG
Found at i:40966 original size:45 final size:45
Alignment explanation
Indices: 40902--41014 Score: 158
Period size: 45 Copynumber: 2.5 Consensus size: 45
40892 GAATTGAACC
40902 TTTAATTTTAC-CAACCCAATAATC-ACAAGGAACTAATCATTTGAT
1 TTTAATTTT-CGCAACCCAATAATCGA-AAGGAACTAATCATTTGAT
* *
40947 TTTAATTTTCGCAATCCAATAATCGAAAGGAACTAATCCTTTGAT
1 TTTAATTTTCGCAACCCAATAATCGAAAGGAACTAATCATTTGAT
* *
40992 TTTACTTTTGGCAACCCAATAAT
1 TTTAATTTTCGCAACCCAATAAT
41015 TAGAAGTCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.02
45 59 0.97
46 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (45 bp):
TTTAATTTTCGCAACCCAATAATCGAAAGGAACTAATCATTTGAT
Found at i:43232 original size:20 final size:20
Alignment explanation
Indices: 43209--43257 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
43199 GACAAGTCTT
* *
43209 CATACCGAAGGGCTG-GTATC
1 CATACCGAA-GACTGAGTACC
*
43229 CATAGCGAAGACTGAGTACC
1 CATACCGAAGACTGAGTACC
43249 CATACCGAA
1 CATACCGAA
43258 AGCTTCATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (20 bp):
CATACCGAAGACTGAGTACC
Found at i:50219 original size:13 final size:13
Alignment explanation
Indices: 50201--50227 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50191 TCATAGGACC
50201 CTTATTATTATTT
1 CTTATTATTATTT
50214 CTTATTATTATTT
1 CTTATTATTATTT
50227 C
1 C
50228 AAAGAGTTGT
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:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (13 bp):
CTTATTATTATTT
Found at i:51234 original size:23 final size:23
Alignment explanation
Indices: 51208--51273 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
51198 TATAAATACT
51208 AAAATAGAAAAAATAAAAATAAA
1 AAAATAGAAAAAATAAAAATAAA
* ** **
51231 AAAAAAGAAAAAGGAAAAAGGAA
1 AAAATAGAAAAAATAAAAATAAA
* *
51254 AAAAT-GCAATAATAAAAATA
1 AAAATAGAAAAAATAAAAATA
51274 CTGAATGAGA
Statistics
Matches: 31, Mismatches: 12, Indels: 1
0.70 0.27 0.02
Matches are distributed among these distances:
22 9 0.29
23 22 0.71
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAATAGAAAAAATAAAAATAAA
Found at i:57060 original size:188 final size:183
Alignment explanation
Indices: 56744--57102 Score: 477
Period size: 188 Copynumber: 1.9 Consensus size: 183
56734 ATTTAACTTA
* * * * * *
56744 ATTTCTTATAGATATTCATAACGTTTTTAGCTTTTAATTTATTTTGTTACCGTTAAAATGTCTAA
1 ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATAA
* * * * *
56809 GGCAACAACTAAACTCCGGTAACATTTTAAGAGCAACCAAATTTATTATAGAGAAGTTTAACATT
66 GCCAACAACTAAACTCCGATAACATTTTAAGAGCAACCAAATTTATTACACAGAAATTTAACATT
* * * * *
56874 CTATATCGCAACATACTTTCTTAGCGACTGATAATATTCTTGGGCGCTACAGG
131 CTAGACCGCAACATAATTTCTTAGCCACCGATAATATTCTTGGGCGCTACAGG
56927 ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATAT
1 ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATA-
* *
56992 ATGACCCTATCAACTAAACTCCGATAACATTTT-AGACGCAACCAAATTTATTACACATAAATTT
65 A-G--CC-AACAACTAAACTCCGATAACATTTTAAGA-GCAACCAAATTTATTACACAGAAATTT
* *
57056 AACATTCTAGACCGTAACCTAATTTCTTAGCCACCGATAATATTCTT
125 AACATTCTAGACCGCAACATAATTTCTTAGCCACCGATAATATTCTT
57103 AGGTGCAACC
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
183 58 0.39
184 1 0.01
185 1 0.01
187 4 0.03
188 86 0.57
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (183 bp):
ATTTCTTATAGATATTCATAACATTTTTAACTTTTAACTTATTTTGTTAACGTGAAAATGTATAA
GCCAACAACTAAACTCCGATAACATTTTAAGAGCAACCAAATTTATTACACAGAAATTTAACATT
CTAGACCGCAACATAATTTCTTAGCCACCGATAATATTCTTGGGCGCTACAGG
Found at i:57127 original size:78 final size:78
Alignment explanation
Indices: 57012--57189 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 78
57002 CAACTAAACT
* * **
57012 CCGATAACATT-TTAGACGCAACCAAATTTATTACACATAAATTTAACATTCTAGACCGTAACCT
1 CCGATAACATTCTTAGACGCAACCAAATCTATTACACATAAATTTAACATTCCAGACCACAACCT
*
57076 AATTTCTTAGCCA
66 AATTTCTTAGCAA
* ** * * *
57089 CCGATAATATTCTTAGGTGCAACCGAATCTATTACACATACATTTAACATTCCAGATCACAACCT
1 CCGATAACATTCTTAGACGCAACCAAATCTATTACACATAAATTTAACATTCCAGACCACAACCT
57154 AATTTCTTAGCAA
66 AATTTCTTAGCAA
57167 CCGATAACATTCTT-GATCGCAAC
1 CCGATAACATTCTTAGA-CGCAAC
57190 TGGATTTCTT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
77 11 0.13
78 74 0.87
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (78 bp):
CCGATAACATTCTTAGACGCAACCAAATCTATTACACATAAATTTAACATTCCAGACCACAACCT
AATTTCTTAGCAA
Found at i:58349 original size:21 final size:20
Alignment explanation
Indices: 58263--58420 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
58253 AAATGACCAA
**
58263 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
58282 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
58302 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
58322 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
58343 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
58364 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
58384 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
58405 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
58421 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:58411 original size:20 final size:20
Alignment explanation
Indices: 58387--58580 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
58377 CGATTTTCCA
** *
58387 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
58407 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
58427 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
58447 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
58467 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
58487 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
58507 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
58527 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
58547 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
58567 AAATCGCAACGCGA
1 AAATCGCAACGCGA
58581 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 148 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:58975 original size:33 final size:32
Alignment explanation
Indices: 58931--59000 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 32
58921 TTCACTTAGA
*
58931 TTTCATTCGCGTTACGATTCTGTCGTTACGAT
1 TTTCATTCGCGTTACGATTCTCTCGTTACGAT
* * *
58963 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCA-TTCGCGTTACGATTCTCTCGTTACGAT
58996 TTTCA
1 TTTCA
59001 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.13, C:0.24, G:0.16, T:0.47
Consensus pattern (32 bp):
TTTCATTCGCGTTACGATTCTCTCGTTACGAT
Found at i:59106 original size:21 final size:20
Alignment explanation
Indices: 59080--59184 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 20
59070 TGCAGAAGAG
59080 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
59101 TCGCAACGAGAGAA-GACTG
1 TCGCAACGAGAAAATGAAAA
59120 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
59141 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
59155 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
59174 TCGCAACGAGA
1 TCGCAACGAGA
59185 GAATCGCAAC
Statistics
Matches: 64, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
14 10 0.16
16 2 0.03
17 2 0.03
19 24 0.38
20 4 0.06
21 22 0.34
ACGTcount: A:0.46, C:0.19, G:0.26, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:59126 original size:40 final size:36
Alignment explanation
Indices: 59073--59200 Score: 140
Period size: 33 Copynumber: 3.5 Consensus size: 36
59063 TTCAATTTGC
59073 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAA-AGTCGCAACGAGA-AAATGAAAATCGCAACGAG
*
59111 AGAAGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAA-A--GTCGCAACGAGA-AAATGAAAATCGCAACGAG
*
59151 AG-AA-TCGCAACGCG-AAATGAAAATCGCAACGAG
1 AGAAAGTCGCAACGAGAAAATGAAAATCGCAACGAG
*
59184 AG-AA-TCGCAACGCGAAA
1 AGAAAGTCGCAACGAGAAA
59201 CCAAAATCGC
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
33 32 0.39
34 2 0.02
35 9 0.11
38 7 0.08
39 1 0.01
40 32 0.39
ACGTcount: A:0.46, C:0.19, G:0.27, T:0.09
Consensus pattern (36 bp):
AGAAAGTCGCAACGAGAAAATGAAAATCGCAACGAG
Found at i:59161 original size:14 final size:14
Alignment explanation
Indices: 59142--59195 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
59132 AAATGAAAAG
59142 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
59156 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
59175 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
59189 CGCAACG
1 CGCAACG
59196 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:59207 original size:33 final size:33
Alignment explanation
Indices: 59137--59211 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
59127 GAGAGAAATG
* **
59137 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
59170 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
59203 AAAATCGCA
1 AAAATCGCA
59212 TTTTTATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:59346 original size:32 final size:32
Alignment explanation
Indices: 59308--59376 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
59298 ATTTCACTTA
*
59308 GATTTCATTTCGCGTTACGATTCTGTCGTTAC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTAC
* * *
59340 GATTTCATTTCGCGTTGCTATTCTCTCGTTCC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTAC
59372 GATTT
1 GATTT
59377 TCAAGTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCGTTAC
Found at i:59484 original size:21 final size:20
Alignment explanation
Indices: 59458--59529 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
59448 TGCAGAAGAG
59458 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
59479 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
59499 TCGC-ACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
59519 GCGCAACGAGA
1 TCGCAACGAGA
59530 GAATCGCAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 6 0.15
20 17 0.43
21 17 0.43
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:59502 original size:20 final size:21
Alignment explanation
Indices: 59456--59533 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
59446 TTTGCAGAAG
*
59456 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
59478 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
59497 TGTCGC-ACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
59518 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
59534 CGCAACGCGA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 8 0.17
20 18 0.38
21 20 0.43
22 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.27, T:0.12
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:59514 original size:40 final size:41
Alignment explanation
Indices: 59457--59533 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
59447 TTGCAGAAGA
* *
59457 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
59498 GTCGC-ACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
59534 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 29 0.85
41 5 0.15
ACGTcount: A:0.44, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:59570 original size:29 final size:32
Alignment explanation
Indices: 59509--59574 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 32
59499 TCGCACGAGA
59509 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAAC-AGAGAATCGCAACGC
*
59542 GAAATG-AAATCGCAAC-GAG-ATCGCAACGC
1 GAAATGAAAAGCGCAACAGAGAATCGCAACGC
59571 GAAA
1 GAAA
59575 CCAAAATCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.44
30 3 0.09
32 9 0.28
33 6 0.19
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.08
Consensus pattern (32 bp):
GAAATGAAAAGCGCAACAGAGAATCGCAACGC
Found at i:59619 original size:14 final size:14
Alignment explanation
Indices: 59600--59687 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
59590 ATTCATTTCG
59600 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
59614 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
59633 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
59647 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
59664 CGCGTTGCGA-T-TCT
1 --CGTTGCGATTCTCT
59678 CGTTGCGATT
1 CGTTGCGATT
59688 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
12 8 0.13
13 1 0.02
14 21 0.34
15 2 0.03
16 5 0.08
17 5 0.08
18 1 0.02
19 18 0.30
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:59631 original size:33 final size:33
Alignment explanation
Indices: 59592--59695 Score: 176
Period size: 33 Copynumber: 3.2 Consensus size: 33
59582 CGCATGCGAT
59592 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTG
59625 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTG
* *
59658 TCATCTCGCGTTGCGA-T-TCTCGTTGCGATTT
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTG
59689 TCATTTC
1 TCATTTC
59696 AACCAAAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
31 19 0.28
32 1 0.01
33 48 0.71
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGCGATTG
Found at i:59638 original size:19 final size:18
Alignment explanation
Indices: 59614--59675 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
59604 GCGATTCTCT
59614 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTGTCA-TTCG
*
59633 CGTTGCGA-T-TC--TCT
1 CGTTGCGATTGTCATTCG
59647 CGTTGCGATTGTCATCTCG
1 CGTTGCGATTGTCAT-TCG
59666 CGTTGCGATT
1 CGTTGCGATT
59676 CTCGTTGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 10 0.28
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 20 0.56
ACGTcount: A:0.10, C:0.24, G:0.26, T:0.40
Consensus pattern (18 bp):
CGTTGCGATTGTCATTCG
Done.