Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003639.1 Hibiscus syriacus cultivar Beakdansim tig00007711_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: 104663
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:8317 original size:16 final size:16
Alignment explanation
Indices: 8296--8326 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8286 ATAAATAAAT
8296 GAACATAAACGAACAC
1 GAACATAAACGAACAC
8312 GAACATAAACGAACA
1 GAACATAAACGAACA
8327 AAATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:8415 original size:16 final size:16
Alignment explanation
Indices: 8394--8458 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
8384 TTAATAAATA
8394 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
8410 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
8426 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
8442 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
8458 A
1 A
8459 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:8441 original size:26 final size:26
Alignment explanation
Indices: 8412--8462 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8402 AAACGAACAC
*
8412 GAACATAAACA-AACACGAACATAAAT
1 GAACACAAACATAA-ACGAACATAAAT
*
8438 GAACACGAACATAAACGAACATAAA
1 GAACACAAACATAAACGAACATAAA
8463 CGTTGGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (26 bp):
GAACACAAACATAAACGAACATAAAT
Found at i:9569 original size:14 final size:14
Alignment explanation
Indices: 9552--9604 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
9542 GGACATAAAT
9552 GAACATAACCGAAC
1 GAACATAACCGAAC
9566 GAACAT-A---AAC
1 GAACATAACCGAAC
9576 GAACATAACCGAAC
1 GAACATAACCGAAC
9590 GAACATAACCGAAC
1 GAACATAACCGAAC
9604 G
1 G
9605 TTCACGAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 24 0.69
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:9614 original size:24 final size:24
Alignment explanation
Indices: 9544--9603 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
9534 AAATGAATGG
*
9544 ACATAAATGAACATAACCGAACGA
1 ACATAAACGAACATAACCGAACGA
9568 ACATAAACGAACATAACCGAACGA
1 ACATAAACGAACATAACCGAACGA
*
9592 ACATAACCGAAC
1 ACATAAACGAAC
9604 GTTCACGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.53, C:0.25, G:0.12, T:0.10
Consensus pattern (24 bp):
ACATAAACGAACATAACCGAACGA
Found at i:12954 original size:33 final size:33
Alignment explanation
Indices: 12911--12984 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
12901 TCTCACAAAC
*
12911 AAATACAACAACCCGATTGCTAAAAGAGAACAA
1 AAATCCAACAACCCGATTGCTAAAAGAGAACAA
12944 AAATCCAACAACCCGATTGCTAAAAGAGAACAA
1 AAATCCAACAACCCGATTGCTAAAAGAGAACAA
12977 AAATCCAA
1 AAATCCAA
12985 TCGGTGAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.54, C:0.23, G:0.11, T:0.12
Consensus pattern (33 bp):
AAATCCAACAACCCGATTGCTAAAAGAGAACAA
Found at i:14441 original size:84 final size:84
Alignment explanation
Indices: 14298--14460 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
14288 AAGCAAGGAG
* * * *
14298 AGACCGAGTGAGACTCGACAACAACTCACGGATTTTCCGAGAAAAACGAAAGAGAAAATCGGGGA
1 AGACCGAGTGAGACTCAACAACAACGCACGAATTTTCCGAGAAAAACGAAAGAGAAAATCGAGGA
*
14363 AACTGCAAAACCAAGGGAA
66 AACTCCAAAACCAAGGGAA
* * ** *
14382 AGACCGAGTGAGACTCAACAACGAGGCGA-GAATTTTCCGAGAAAAAAC-AGCGAGGAAATCGAG
1 AGACCGAGTGAGACTCAACAACAACGC-ACGAATTTTCCGAG-AAAAACGAAAGAGAAAATCGAG
* *
14445 GAGACTCCAAAGCCAA
64 GAAACTCCAAAACCAA
14461 TTGGAGATGG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
84 58 0.89
85 7 0.11
ACGTcount: A:0.43, C:0.21, G:0.26, T:0.10
Consensus pattern (84 bp):
AGACCGAGTGAGACTCAACAACAACGCACGAATTTTCCGAGAAAAACGAAAGAGAAAATCGAGGA
AACTCCAAAACCAAGGGAA
Found at i:18673 original size:15 final size:15
Alignment explanation
Indices: 18618--18673 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
18608 AAATAAATCA
18618 GATT-ATAATATAAT
1 GATTAATAATATAAT
18632 GATTAA-ATATATAATT
1 GATTAATA-ATATAA-T
* **
18648 TATGCATAATATAAT
1 GATTAATAATATAAT
18663 GATTAATAATA
1 GATTAATAATA
18674 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
14 5 0.16
15 16 0.50
16 10 0.31
17 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (15 bp):
GATTAATAATATAAT
Found at i:21895 original size:24 final size:24
Alignment explanation
Indices: 21863--21914 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
21853 GCTACTCTCA
21863 ACCTGGCGTTAGATACCATCTACT
1 ACCTGGCGTTAGATACCATCTACT
21887 ACCTGGCGTTAGATACCATCTACT
1 ACCTGGCGTTAGATACCATCTACT
21911 ACCT
1 ACCT
21915 TACTTCCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (24 bp):
ACCTGGCGTTAGATACCATCTACT
Found at i:22470 original size:3 final size:3
Alignment explanation
Indices: 22462--22499 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
22452 TTTTAATAAA
22462 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A
22500 GTGTTCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:22665 original size:17 final size:18
Alignment explanation
Indices: 22630--22667 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
22620 AAATTATAAT
*
22630 TTAAAATTTAAATTCATC
1 TTAAAATTTAAAATCATC
*
22648 TTAAATTTTAAAAT-ATC
1 TTAAAATTTAAAATCATC
22665 TTA
1 TTA
22668 GTTAAGTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATTTAAAATCATC
Found at i:23069 original size:2 final size:2
Alignment explanation
Indices: 23062--23109 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
23052 AAAATTATGA
23062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
23104 GT AT AT
1 AT AT AT
23110 GATTATCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24581 original size:25 final size:26
Alignment explanation
Indices: 24539--24588 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
24529 ATATTTTGAG
24539 TTCAAGTTTTTAACTCGAG-TCGAGC
1 TTCAAGTTTTTAACTCGAGTTCGAGC
* **
24564 TTCAATTTTTTATTTCGAGTTCGAG
1 TTCAAGTTTTTAACTCGAGTTCGAG
24589 TCGAGCTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (26 bp):
TTCAAGTTTTTAACTCGAGTTCGAGC
Found at i:45347 original size:16 final size:16
Alignment explanation
Indices: 45326--45368 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
45316 AGAATTAATA
45326 TAAAACCTAAATAAAC
1 TAAAACCTAAATAAAC
*
45342 TAAAACCTAAATAAGC
1 TAAAACCTAAATAAAC
45358 TAAAACCTAAA
1 TAAAACCTAAA
45369 CTAATTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (16 bp):
TAAAACCTAAATAAAC
Found at i:46538 original size:55 final size:54
Alignment explanation
Indices: 46481--46830 Score: 259
Period size: 51 Copynumber: 6.6 Consensus size: 54
46471 TGACGAGCCT
*
46481 GCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATAAAACGTGTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCATAAAACG-GTCC
* * * *
46536 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATC-TTCATAAAAC-GGTCC
* *
46592 GCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAAAATCTTCA-ATAAACAGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCATA-AAAC-GGTCC
* * * * *
46647 GCTCCCTATTCTTTCAGGGAGTATAGGACT----CAATCTTCA-ACGAACTAGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGTCC
* * * *
46698 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGTCC
* * * *
46749 GCTCCCTATTCATTCAGAGAGTATATGACT----CAATCTTCA-ACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGTCC
* *
46800 GCTCCCTATTCATTCAGAGAGTATAGGACTC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTC
46831 AATCTTCAAC
Statistics
Matches: 264, Mismatches: 24, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
51 143 0.54
54 1 0.00
55 72 0.27
56 47 0.18
57 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (54 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGGTCC
Found at i:46656 original size:111 final size:106
Alignment explanation
Indices: 46461--46830 Score: 337
Period size: 102 Copynumber: 3.5 Consensus size: 106
46451 ATACTTGAAA
**
46461 AATCTTCAAATGACGAG-CCTGCTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTTC
1 AATCTTCAAAAAACGAGTCC-GCTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAA-AATCTTC
* *
46523 -ATAAA-ACGTGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAAC
62 AATAAACA-G-GTCCGCTCCCTATTCATTCAGAGAGTATAAGACTT---C
* * *
46571 AATCTTTAATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAA
1 AATCTTCAA-AAAACGAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG-AAAATCTTCAA
* * *
46636 TAAACAGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGAC-TC
64 TAAACAGGTCCGCTCCCTATTCATTCAGAGAGTATAAGACTTC
** * * * **
46678 AATCTTCAACGAACTAGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC---AATCTTCAACG
1 AATCTTCAAAAAACGAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCAATA
** *
46740 AACTTGTCCGCTCCCTATTCATTCAGAGAGTATATGAC-TC
66 AACAGGTCCGCTCCCTATTCATTCAGAGAGTATAAGACTTC
** ** * *
46780 AATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC
1 AATCTTCAAAAAACGAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC
46831 AATCTTCAAC
Statistics
Matches: 227, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
102 94 0.41
106 35 0.15
107 9 0.04
110 9 0.04
111 67 0.30
112 12 0.05
113 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (106 bp):
AATCTTCAAAAAACGAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCAATA
AACAGGTCCGCTCCCTATTCATTCAGAGAGTATAAGACTTC
Found at i:46846 original size:51 final size:51
Alignment explanation
Indices: 46588--46846 Score: 383
Period size: 51 Copynumber: 5.0 Consensus size: 51
46578 AATAAAACGG
* * * ** **
46588 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAG
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCAACGAACTT
* * *
46643 GTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAATCTTCAACGAACTA
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
46694 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
46745 GTCCGCTCCCTATTCATTCAGAGAGTATATGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
46796 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
46847 ATTTGCTTCA
Statistics
Matches: 191, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
51 160 0.84
55 31 0.16
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:47999 original size:17 final size:17
Alignment explanation
Indices: 47977--48096 Score: 90
Period size: 17 Copynumber: 7.1 Consensus size: 17
47967 CCTCCTTTTA
47977 TTTCTCTTTTTTTCATT
1 TTTCTCTTTTTTTCATT
47994 TTTCTCTTTTTTTCATT
1 TTTCTCTTTTTTTCATT
* *
48011 TTTATTTTTTTTTCTTATT
1 TTTCTCTTTTTTTC--ATT
*
48030 TCTTTTCTTCTTTTTC-TT
1 T-TTCTCTT-TTTTTCATT
*
48048 TTTCTC-ATTTTT-A-T
1 TTTCTCTTTTTTTCATT
* *
48062 TAT-TATTTTTTTCATT
1 TTTCTCTTTTTTTCATT
*
48078 TTTCGTTTTTTTTTC-TT
1 TTTC-TCTTTTTTTCATT
48095 TT
1 TT
48097 ATTTCTTCTT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
13 1 0.01
14 8 0.10
15 6 0.07
16 3 0.04
17 37 0.45
18 12 0.15
19 4 0.05
20 5 0.06
21 6 0.07
ACGTcount: A:0.07, C:0.13, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTCTCTTTTTTTCATT
Found at i:48078 original size:9 final size:9
Alignment explanation
Indices: 47983--48080 Score: 62
Period size: 9 Copynumber: 10.6 Consensus size: 9
47973 TTTATTTCTC
47983 TTTTTTTCA
1 TTTTTTTCA
*
47992 TTTTTCTC-
1 TTTTTTTCA
48000 TTTTTTTCA
1 TTTTTTTCA
48009 TTTTTATT--
1 TTTTT-TTCA
48017 TTTTTTTCTTA
1 TTTTTTTC--A
48028 TTTCTTTTC-
1 TTT-TTTTCA
48037 TTCTTTTTC-
1 TT-TTTTTCA
*
48046 TTTTTCTCA
1 TTTTTTTCA
*
48055 TTTTTATTATTA
1 -TTTT-TT-TCA
48067 TTTTTTTCA
1 TTTTTTTCA
48076 TTTTT
1 TTTTT
48081 CGTTTTTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
7 2 0.03
8 17 0.24
9 28 0.39
10 9 0.13
11 8 0.11
12 7 0.10
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:48090 original size:46 final size:46
Alignment explanation
Indices: 47992--48096 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
47982 CTTTTTTTCA
* *
47992 TTTTTCTCTTTTTTTCATTTTTATTTTTTTTTCTTATTTCTTTTC-T
1 TTTTTTTCTTTTTCTCATTTTTATTTTTTTTTCTTA-TTCTTTTCTT
*
48038 TCTTTTTCTTTTTCTCATTTTTATTATTATTTTT-TTCA-T-TTTTCGTT
1 TTTTTTTCTTTTTCTCATTTTTATT-TT-TTTTTCTT-ATTCTTTTC-TT
48085 TTTTTTTCTTTT
1 TTTTTTTCTTTT
48097 ATTTCTTCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
45 5 0.10
46 23 0.46
47 16 0.32
48 6 0.12
ACGTcount: A:0.08, C:0.12, G:0.01, T:0.79
Consensus pattern (46 bp):
TTTTTTTCTTTTTCTCATTTTTATTTTTTTTTCTTATTCTTTTCTT
Found at i:48096 original size:8 final size:8
Alignment explanation
Indices: 47981--48044 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
47971 CTTTTATTTC
47981 TCTTTTTT
1 TCTTTTTT
*
47989 TCATTTTTC
1 TC-TTTTTT
47998 TCTTTTTT
1 TCTTTTTT
48006 TCATTTTTAT
1 TC-TTTTT-T
48016 T-TTTTTT
1 TCTTTTTT
*
48023 TC-TTATT
1 TCTTTTTT
*
48030 TCTTTTCT
1 TCTTTTTT
48038 TCTTTTT
1 TCTTTTT
48045 CTTTTTCTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 8 0.18
8 23 0.51
9 12 0.27
10 2 0.04
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (8 bp):
TCTTTTTT
Found at i:48096 original size:9 final size:9
Alignment explanation
Indices: 47971--48103 Score: 60
Period size: 9 Copynumber: 14.3 Consensus size: 9
47961 ATGAACCCTC
*
47971 CTTTTATTT
1 CTTTTTTTT
47980 CTCTTTTTTT
1 CT-TTTTTTT
* *
47990 CATTTTTCT
1 CTTTTTTTT
47999 C-TTTTTTT
1 CTTTTTTTT
48007 CATTTTTATTT
1 C-TTTTT-TTT
48018 -TTTTTTCTT
1 CTTTTTT-TT
* *
48027 ATTTCTTTT
1 CTTTTTTTT
*
48036 CTTCTTTTT
1 CTTTTTTTT
*
48045 C-TTTTTCT
1 CTTTTTTTT
48053 CATTTTTATTAT
1 C-TTTTT-TT-T
48065 -TATTTTTTT
1 CT-TTTTTTT
**
48074 CATTTTTCGT
1 C-TTTTTTTT
48084 -TTTTTTTT
1 CTTTTTTTT
*
48092 CTTTTATTT
1 CTTTTTTTT
48101 CTT
1 CTT
48104 CTTCAAGCGA
Statistics
Matches: 94, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
8 20 0.21
9 36 0.38
10 28 0.30
11 9 0.10
12 1 0.01
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:57736 original size:45 final size:47
Alignment explanation
Indices: 57668--57756 Score: 146
Period size: 45 Copynumber: 1.9 Consensus size: 47
57658 TGCTTTATTA
*
57668 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
1 TTCACAAAAATAAATCATAACCGCATGATATCTAATTCGCATGCTTG
*
57715 TTCA-AAAAATAAA-CATAACCGCATGATATCTAGTTCGCATGC
1 TTCACAAAAATAAATCATAACCGCATGATATCTAATTCGCATGC
57757 ATTTATTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 27 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.28
Consensus pattern (47 bp):
TTCACAAAAATAAATCATAACCGCATGATATCTAATTCGCATGCTTG
Found at i:59765 original size:16 final size:16
Alignment explanation
Indices: 59744--59786 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
59734 AGAATTAATA
59744 TAAAACCTAAATAAAC
1 TAAAACCTAAATAAAC
*
59760 TAAAACCTAAATAAGC
1 TAAAACCTAAATAAAC
59776 TAAAACCTAAA
1 TAAAACCTAAA
59787 CTAATTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (16 bp):
TAAAACCTAAATAAAC
Found at i:68091 original size:20 final size:20
Alignment explanation
Indices: 68068--68131 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
68058 TAGTATTTAG
68068 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
68088 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
68108 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
68127 TTAAA
1 ATAAA
68132 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:68101 original size:19 final size:20
Alignment explanation
Indices: 68077--68126 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
68067 GATAAATTTA
*
68077 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
68096 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
68117 TT-ATAATTTT
1 TTAATAATTTT
68127 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:68129 original size:31 final size:30
Alignment explanation
Indices: 68044--68130 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
68034 TTCGATAATA
* *
68044 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
68075 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
68106 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
68131 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:68340 original size:11 final size:10
Alignment explanation
Indices: 68320--68399 Score: 56
Period size: 11 Copynumber: 7.7 Consensus size: 10
68310 AGTTTAAAAA
*
68320 ATTATAAAAT
1 ATTATTAAAT
68330 ACTTATTAAAT
1 A-TTATTAAAT
68341 -TTATTAAAAT
1 ATTATT-AAAT
*
68351 ATTATAAAATT
1 ATTATTAAA-T
*
68362 ATTAATAAAT
1 ATTATTAAAT
68372 -TTATCTAAAT
1 ATTAT-TAAAT
* *
68382 ACTATAAAAT
1 ATTATTAAAT
68392 AATTATTA
1 -ATTATTA
68400 TATTATCGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
9 8 0.15
10 18 0.33
11 28 0.52
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATTAAAT
Found at i:68348 original size:31 final size:30
Alignment explanation
Indices: 68313--68399 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 30
68303 TCAATAAAGT
*
68313 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAATATTATAAAATA-TTATTAAATTTA
*
68344 TTAAAATATTATAAAATTATTAATAAATTTA
1 TTAAAATATTATAAAA-TATTATTAAATTTA
*
68375 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAATATTATAAAAT-ATTATTA
68400 TATTATCGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.02
31 45 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
TTAAAATATTATAAAATATTATTAAATTTA
Found at i:68358 original size:19 final size:21
Alignment explanation
Indices: 68317--68366 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
68307 TAAAGTTTAA
68317 AAAATTA-TAAAATACTTATT
1 AAAATTATTAAAATACTTATT
*
68337 AAATTTATTAAAATA-TTA-T
1 AAAATTATTAAAATACTTATT
68356 AAAATTATTAA
1 AAAATTATTAA
68367 TAAATTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 9 0.33
21 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTATTAAAATACTTATT
Found at i:69452 original size:31 final size:31
Alignment explanation
Indices: 69424--69591 Score: 309
Period size: 31 Copynumber: 5.4 Consensus size: 31
69414 ACGACATACC
* *
69424 TGAGATCTTACATCTGAACATATAACATAGA
1 TGAGATCTCACATATGAACATATAACATAGA
69455 TGAGATCTCACATATGAACATATAACATAGA
1 TGAGATCTCACATATGAACATATAACATAGA
69486 TGAGATCTCACATATGAACATATAACATAGA
1 TGAGATCTCACATATGAACATATAACATAGA
*
69517 TGAGATCTCATATATGAACATATAACATAGA
1 TGAGATCTCACATATGAACATATAACATAGA
69548 TGAGATCTCACATATGAACATATAACATAGA
1 TGAGATCTCACATATGAACATATAACATAGA
69579 TGAGATCTCACAT
1 TGAGATCTCACAT
69592 CAGTAAATCC
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 133 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.27
Consensus pattern (31 bp):
TGAGATCTCACATATGAACATATAACATAGA
Found at i:74108 original size:23 final size:23
Alignment explanation
Indices: 74082--74125 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
74072 ATCGGCTTCA
74082 TATTAATAAATAAATAAATAATT
1 TATTAATAAATAAATAAATAATT
* * *
74105 TATTAATGATTAATTAAATAA
1 TATTAATAAATAAATAAATAA
74126 ATATAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TATTAATAAATAAATAAATAATT
Found at i:78903 original size:161 final size:160
Alignment explanation
Indices: 78721--79044 Score: 621
Period size: 161 Copynumber: 2.0 Consensus size: 160
78711 ATGGTGAGGC
*
78721 ATATAATCAAAAATATATAATTAGTTTATACTAAATATCTTAATAAACTAAATGTTTTTAGTGGA
1 ATATAATCAAAAATATATAATTAATTTATACTAAATATCTTAATAAACTAAATGTTTTTAGTGGA
78786 TATACAATTTGATCCCGAAACATTTCAAAAAAAATATTTAACCATTAAATTAAACTAAAAATTTA
66 TATACAATTTGATCCCGAAACATTTC-AAAAAAATATTTAACCATTAAATTAAACTAAAAATTTA
78851 TTTATATTCTATCAAAATTATTATTTAACTT
130 TTTATATTCTATCAAAATTATTATTTAACTT
*
78882 ATATAGTCAAAAATATATAATTAATTTATACTAAATATCTTAATAAACTAAATGTTTTTAGTGGA
1 ATATAATCAAAAATATATAATTAATTTATACTAAATATCTTAATAAACTAAATGTTTTTAGTGGA
78947 TATACAATTTGATCCCGAAACATTTCAAAAAAATATTTAACCATTAAATTAAACTAAAAATTTAT
66 TATACAATTTGATCCCGAAACATTTCAAAAAAATATTTAACCATTAAATTAAACTAAAAATTTAT
79012 TTATATTCTATCAAAATTATTATTTAACTT
131 TTATATTCTATCAAAATTATTATTTAACTT
79042 ATA
1 ATA
79045 CAACTATTAA
Statistics
Matches: 161, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
160 72 0.45
161 89 0.55
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (160 bp):
ATATAATCAAAAATATATAATTAATTTATACTAAATATCTTAATAAACTAAATGTTTTTAGTGGA
TATACAATTTGATCCCGAAACATTTCAAAAAAATATTTAACCATTAAATTAAACTAAAAATTTAT
TTATATTCTATCAAAATTATTATTTAACTT
Found at i:79317 original size:18 final size:19
Alignment explanation
Indices: 79294--79336 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
79284 CAATAATCCT
79294 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
79312 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
79332 ATTCC
1 ATTCC
79337 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:79324 original size:20 final size:20
Alignment explanation
Indices: 79299--79336 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
79289 ATCCTATTCC
79299 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
79319 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
79337 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:80129 original size:25 final size:25
Alignment explanation
Indices: 80076--80129 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
80066 TTTTTTTAGT
*
80076 TAAAATATATTAAATTATAAGATAGA
1 TAAAATATATTAAA-TATAAGATAAA
*
80102 TAAAAGTATATTAAA-ATTAGATAAA
1 TAAAA-TATATTAAATATAAGATAAA
80127 TAA
1 TAA
80130 TCATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 5 0.20
27 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (25 bp):
TAAAATATATTAAATATAAGATAAA
Found at i:80172 original size:18 final size:18
Alignment explanation
Indices: 80141--80188 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
80131 CATATTAATT
*
80141 TTTTTTGTAATTTTTCGGA
1 TTTTTTG-ATTTTTTCGGA
*
80160 TTTTTTGATTTTTTCTGA
1 TTTTTTGATTTTTTCGGA
*
80178 TTTTTTTATTT
1 TTTTTTGATTT
80189 GTAAAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.73
Consensus pattern (18 bp):
TTTTTTGATTTTTTCGGA
Found at i:80414 original size:16 final size:16
Alignment explanation
Indices: 80393--80424 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
80383 CCATTTTCGA
80393 TGATTGGGAAGGGAAT
1 TGATTGGGAAGGGAAT
80409 TGATTGGGAAGGGAAT
1 TGATTGGGAAGGGAAT
80425 CATGACTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (16 bp):
TGATTGGGAAGGGAAT
Found at i:80578 original size:15 final size:16
Alignment explanation
Indices: 80558--80593 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
80548 AAAAGTAAAA
*
80558 TTTATCGGATAT-TTT
1 TTTATCAGATATATTT
80573 TTTATCAGATATATTT
1 TTTATCAGATATATTT
80589 TTTAT
1 TTTAT
80594 TTATGTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (16 bp):
TTTATCAGATATATTT
Found at i:80739 original size:84 final size:84
Alignment explanation
Indices: 80593--80757 Score: 276
Period size: 84 Copynumber: 2.0 Consensus size: 84
80583 ATATTTTTTA
*
80593 TTTATGTCACATGTTTCATTTATCGGACAAAAACTGTTTGTCTTTTTCGTCTTTGTCATATCCTT
1 TTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATATCCTT
80658 ATTAACACAAGAATGTTTG
66 ATTAACACAAGAATGTTTG
* * * *
80677 TTTATGTTACATGTTTCATTTATCGGACAAAAATTGGTTGTCTTTTTCTTCTTTGTCTTATCCTT
1 TTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATATCCTT
*
80742 GTTAACACAAGAATGT
66 ATTAACACAAGAATGT
80758 GCAAAGAGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (84 bp):
TTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATATCCTT
ATTAACACAAGAATGTTTG
Found at i:80831 original size:21 final size:21
Alignment explanation
Indices: 80805--80852 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
80795 GGTCGAAAAA
*
80805 AATATTTTAAATATTATTATT
1 AATATTTTAAATATTAATATT
* * *
80826 AGTATTTTTATTATTAATATT
1 AATATTTTAAATATTAATATT
80847 AATATT
1 AATATT
80853 AATATTTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AATATTTTAAATATTAATATT
Found at i:80910 original size:18 final size:20
Alignment explanation
Indices: 80866--80910 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
80856 ATTTCTTTAT
*
80866 TAATTATTACCTAACTTAAA
1 TAATCATTACCTAACTTAAA
80886 -AACTCATTACCT-A-TTAAA
1 TAA-TCATTACCTAACTTAAA
80904 TAATCAT
1 TAATCAT
80911 CCACTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATCATTACCTAACTTAAA
Found at i:81070 original size:15 final size:15
Alignment explanation
Indices: 81045--81089 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
81035 ATGCATGCAT
*
81045 ATTAC-TAAACCCAC
1 ATTACATAAACCAAC
81059 ATTACATAAACCAAC
1 ATTACATAAACCAAC
81074 ATTACATAAACCAAC
1 ATTACATAAACCAAC
81089 A
1 A
81090 GTATTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (15 bp):
ATTACATAAACCAAC
Found at i:83001 original size:22 final size:22
Alignment explanation
Indices: 82975--83075 Score: 82
Period size: 22 Copynumber: 4.5 Consensus size: 22
82965 TAATAAATTA
82975 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
82997 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** *
83020 AATAAATTATTTAAAAT-AAT--TTAT
1 TTTAAA--A--T-AAATCAATCCATAT
83044 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
83066 TTTATAATAA
1 TTTAAAATAA
83076 TTTATTTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
19 4 0.06
20 4 0.06
22 33 0.53
23 5 0.08
24 5 0.08
25 3 0.05
27 4 0.06
28 4 0.06
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:83049 original size:15 final size:15
Alignment explanation
Indices: 83020--83105 Score: 75
Period size: 15 Copynumber: 5.3 Consensus size: 15
83010 AATTCATACT
*
83020 AATAAATTA-TTTAA
1 AATAATTTATTTTAA
83034 AATAATTTATTTTAA
1 AATAATTTATTTTAA
*
83049 AATAAATCAATCCATATTTTAT
1 AAT-AAT---T---TATTTTAA
*
83071 AATAATTTATTTTAT
1 AATAATTTATTTTAA
83086 AATAATTTATTTTAA
1 AATAATTTATTTTAA
83101 AATAA
1 AATAA
83106 ATAACCTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
14 8 0.13
15 35 0.57
16 3 0.05
18 1 0.02
19 1 0.02
21 3 0.05
22 10 0.16
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAATTTATTTTAA
Found at i:83079 original size:47 final size:49
Alignment explanation
Indices: 82994--83107 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 49
82984 AATCAATCCA
* *
82994 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTA-A-AATAATT
1 TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATATAATAATT
**
83041 TATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTATAATAATT
1 TATTTTAAAATAAATCAATCCATACTAATA-AATAATTTA---TATAATAATT
83093 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
83108 AACCTTATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
46 3 0.05
47 31 0.54
51 1 0.02
52 22 0.39
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (49 bp):
TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATATAATAATT
Found at i:83106 original size:52 final size:47
Alignment explanation
Indices: 82994--83135 Score: 150
Period size: 52 Copynumber: 3.0 Consensus size: 47
82984 AATCAATCCA
* *
82994 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAATT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAATT
* *
83041 TATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTATAATAATT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAATTA-TTTAAAATAATT
* *
83093 TATTTTAAAATAAAT-AA-CC-T--TATTAAATTATTTAAAATTATT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAATT
83135 T
1 T
83136 TAATAAATAA
Statistics
Matches: 82, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
42 11 0.13
43 8 0.10
47 23 0.28
49 1 0.01
50 2 0.02
51 11 0.13
52 26 0.32
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (47 bp):
TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAATT
Found at i:89427 original size:59 final size:58
Alignment explanation
Indices: 89350--89487 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 58
89340 ACCAAAATAG
* * *
89350 AATAATATTGATAATTTAAGGATCAATATAAAACGTTTTAAAATTTAAGAAAT-AATTAA
1 AATAAAATT-ATAATTTAAAGATCAATATAAAACATTTTAAAATTTAAG-AATCAATTAA
** * *
89409 AATGAAAATTATAATTTAAAGATTGATATAAAATATTTTAAAATTTAAGAATCGATTTAA
1 AAT-AAAATTATAATTTAAAGATCAATATAAAACATTTTAAAATTTAAGAATC-AATTAA
89469 AATAAAATTATAATTTAAA
1 AATAAAATTATAATTTAAA
89488 AACATCCTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 3 0.04
59 53 0.77
60 13 0.19
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (58 bp):
AATAAAATTATAATTTAAAGATCAATATAAAACATTTTAAAATTTAAGAATCAATTAA
Found at i:90680 original size:3 final size:3
Alignment explanation
Indices: 90672--90696 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
90662 AAAATTGTAT
90672 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
90697 ATATCTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:98418 original size:50 final size:51
Alignment explanation
Indices: 98337--98438 Score: 197
Period size: 50 Copynumber: 2.0 Consensus size: 51
98327 ATTAATTTGT
98337 ATCAATGGTCAGATATTATCCTTAATTGAAATTCTTCTGTTTCCCAGATGG
1 ATCAATGGTCAGATATTATCCTTAATTGAAATTCTTCTGTTTCCCAGATGG
98388 ATCAATGGTCAGATA-TATCCTTAATTGAAATTCTTCTGTTTCCCAGATGG
1 ATCAATGGTCAGATATTATCCTTAATTGAAATTCTTCTGTTTCCCAGATGG
98438 A
1 A
98439 AAAGTTGGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 36 0.71
51 15 0.29
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (51 bp):
ATCAATGGTCAGATATTATCCTTAATTGAAATTCTTCTGTTTCCCAGATGG
Found at i:99880 original size:18 final size:19
Alignment explanation
Indices: 99842--99881 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
99832 CCTTAATTCA
*
99842 AATAATCTTAGATTACTAT
1 AATAATCTTAAATTACTAT
*
99861 AATAATC-TAAATTTCTAT
1 AATAATCTTAAATTACTAT
99879 AAT
1 AAT
99882 GAGATTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (19 bp):
AATAATCTTAAATTACTAT
Done.