Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 1 of 52
Found at i:834 original size:12 final size:12
Alignment explanation
Indices: 817--841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
807 GCGTTTACAA
817 TTATTTTAATAT
1 TTATTTTAATAT
829 TTATTTTAATAT
1 TTATTTTAATAT
841 T
1 T
842 ATTACTTAAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTAATAT
Found at i:4249 original size:16 final size:16
Alignment explanation
Indices: 4228--4261 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4218 GTTTTCGGTT
4228 TTTGCTTGTTTTGATA
1 TTTGCTTGTTTTGATA
4244 TTTGCTTGTTTTGATA
1 TTTGCTTGTTTTGATA
4260 TT
1 TT
4262 ATTTTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.65
Consensus pattern (16 bp):
TTTGCTTGTTTTGATA
Found at i:7669 original size:19 final size:18
Alignment explanation
Indices: 7644--7708 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
7634 GTTTCAATGA
7644 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
7662 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
7678 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
7694 TTTTGTATCGATACA
1 -TTTGTATCGATACA
7709 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:7683 original size:13 final size:13
Alignment explanation
Indices: 7665--7689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7655 ACATAAGTGT
7665 TGTATCGATACAA
1 TGTATCGATACAA
7678 TGTATCGATACA
1 TGTATCGATACA
7690 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7687 original size:32 final size:32
Alignment explanation
Indices: 7646--7716 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
7636 TTCAATGATT
7646 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
7678 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
7710 TGTATCG
1 TGTATCG
7717 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:7779 original size:13 final size:13
Alignment explanation
Indices: 7761--7785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7751 ATTACTCAAA
7761 TGTATCGATACAT
1 TGTATCGATACAT
7774 TGTATCGATACA
1 TGTATCGATACA
7786 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16113 original size:30 final size:31
Alignment explanation
Indices: 16077--16151 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 31
16067 ATACCTTCTT
16077 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCC
* *
16107 AAAGTCCATGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCC
*
16138 AAAGTCCACAACTC
1 AAAGTCCACGACTC
16152 CATGGCACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 26 0.65
31 14 0.35
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTCC
Found at i:16177 original size:27 final size:27
Alignment explanation
Indices: 16139--16388 Score: 347
Period size: 27 Copynumber: 9.0 Consensus size: 27
16129 TTTTTCTCCA
*
16139 AAGTCCACAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
16166 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
16193 AAGCCCACAACTCCGTGGCATTCTTTTTTCTTCT
1 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
*
16227 AAGTCCACAACTTCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
16254 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
16281 AAGTCCACAACTCCGTGGCACTCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTTT
16308 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
16335 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
16362 AAGCCCATAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
16389 TCCTTCTAAG
Statistics
Matches: 200, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
27 176 0.88
29 1 0.00
32 1 0.00
34 22 0.11
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:16438 original size:34 final size:34
Alignment explanation
Indices: 16362--16438 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
16352 GCACCCTTTT
* * *
16362 AAGCCCATAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCATGGCACTCTTTTTCCTTCA
*
16396 AAGTCCACAACTCCATGGCAC-C-TTTTCCTTTTCA
1 AAGCCCACAACTCCATGGCACTCTTTTTCC--TTCA
16430 AAGCCCACA
1 AAGCCCACA
16439 TAAGTCGGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 6 0.17
33 1 0.03
34 29 0.81
ACGTcount: A:0.23, C:0.36, G:0.10, T:0.30
Consensus pattern (34 bp):
AAGCCCACAACTCCATGGCACTCTTTTTCCTTCA
Found at i:16458 original size:32 final size:32
Alignment explanation
Indices: 16422--16775 Score: 480
Period size: 32 Copynumber: 10.9 Consensus size: 32
16412 GGCACCTTTT
*
16422 CCTTTTCAAAGCCCACATAAGTCGGTGGCAAC
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
16454 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
16486 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
*
16518 CTTCTTTCAAAGCCCACACAAGTCGGTGGCAA-
1 CCT-TTTCAAAGCCCACACAAGTCGGTGGCAAC
16550 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTT-TT-CAAAGCCCACACAAGTCGGTGGCAAC
* * *
16584 CCTTTTCAAAGCCCACATAAGTCGGTGGTAAT
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
16616 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
16648 CTTTTTCTAAAGCCCACACAAGTTGGTGGAAATC
1 CCTTTTC-AAAGCCCACACAAGTCGGTGGCAA-C
* * *
16682 CCCTCT-AAAGCCCACACAAGTTGGTGGCAATC
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAA-C
* *
16714 CCCTCT-AAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
16745 CATTCTCAAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTC-AAAGCCCACACAAGTCGGTGGCA
16776 TCTTCTTTTA
Statistics
Matches: 294, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
31 6 0.02
32 181 0.62
33 99 0.34
34 8 0.03
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (32 bp):
CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:16532 original size:97 final size:98
Alignment explanation
Indices: 16421--16775 Score: 490
Period size: 97 Copynumber: 3.7 Consensus size: 98
16411 TGGCACCTTT
*
16421 TCCT-TTTCAAAGCCCACATAAGTCGGTGGCAACCCTTTTC-AAAGCCCACACAAGTCGGTGGCA
1 TCCTCTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAAGCCCACACAAGTCGGTGGCA
16484 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCAA
66 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCAA
*
16517 -CCTTCTTTCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCCAAAGCCCACACAAGTCGGTGG
1 TCC-TCTTTCAAAGCCCACACAAGTCGGTGGCAACCCTT-TTCAAAAGCCCACACAAGTCGGTGG
* *
16580 CAACCCTTTTCAAAGCCCACATAAGTCGGTGGTAA
64 CAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAA
* * * *
16615 TCCT-TTTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTTGGTGGAA
1 TCCTCTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAAGCCCACACAAGTCGGTGGCA
* * *
16679 ATCCCCTCT-AAAGCCCACACAAGTTGGTGGCAA
66 A-CCCTTTTCAAAGCCCACACAAGTCGGTGGCAA
* * * * *
16712 TCCCCTCT-AAAGCCCACACAAGTCGGTGGCAACCATTCTCAAAAGCCCACACAAGTTGGTGGCA
1 TCCTCTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAAGCCCACACAAGTCGGTGGCA
16776 TCTTCTTTTA
Statistics
Matches: 233, Mismatches: 18, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
95 2 0.01
96 5 0.02
97 159 0.68
98 65 0.28
99 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (98 bp):
TCCTCTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAAGCCCACACAAGTCGGTGGCA
ACCCTTTTCAAAGCCCACACAAGTCGGTGGCAA
Found at i:16562 original size:130 final size:130
Alignment explanation
Indices: 16428--16783 Score: 506
Period size: 130 Copynumber: 2.7 Consensus size: 130
16418 TTTTCCTTTT
*
16428 CAAAGCCCACATAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTC
* *
16493 AAAGCCCACACAAGTCGGTGGCAACCTTCTTTC-AAAGCCCACACAAGTCGGTGGCAA-CCTTCT
66 AAAGCCCACACAAGTCGGTGGCAACCTTCTTTCTAAAGCCCACACAAGTCGGTGGAAATCC--CC
16556 TC
129 TC
* * *
16558 CAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACATAAGTCGGTGGTAATCCTTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTC
*
16623 AAAGCCCACACAAGTCGGTGGCAACCTT-TTTCTAAAGCCCACACAAGTTGGTGGAAATCCCCTC
66 AAAGCCCACACAAGTCGGTGGCAACCTTCTTTCTAAAGCCCACACAAGTCGGTGGAAATCCCCTC
* * * * * *
16687 TAAAGCCCACACAAGTTGGTGGCAATCCCCTCT-AAAGCCCACACAAGTCGGTGGCAACCATTCT
1 CAAAGCCCACACAAGTCGGTGGCAA-CCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTT
* *
16751 CAAAAGCCCACACAAGTTGGTGGC-ATCTTCTTT
65 C-AAAGCCCACACAAGTCGGTGGCAACCTTCTTT
16784 TAAGTCCAAT
Statistics
Matches: 203, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
129 61 0.30
130 140 0.69
131 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (130 bp):
CAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTC
AAAGCCCACACAAGTCGGTGGCAACCTTCTTTCTAAAGCCCACACAAGTCGGTGGAAATCCCCTC
Found at i:16835 original size:49 final size:49
Alignment explanation
Indices: 16782--17878 Score: 1306
Period size: 49 Copynumber: 21.9 Consensus size: 49
16772 GGCATCTTCT
* * *
16782 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
*
16831 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
16874 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
16923 TTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCACCTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
16972 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * * *
17021 TTTAAGTCCAATATCGCTGGCCTTGAATGAACATATTAGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC
* *
17073 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
17122 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-AT-C
*
17175 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
17224 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCATTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTT-T-ATC
* *
17276 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
17325 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC
*
17377 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
17426 TTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
17475 TTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC
* * * * *
17527 TTTAAGTCCAATGTTGCTAGCCTTGAATTAGCACATTGACACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
17576 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-AT-C
* *
17629 TTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
17678 TTTAAGTCCAGTATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC
* * * *
17730 TTTAAGTCCAATGTTGCTAGCCTTAAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * **
17779 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC
** * *
17831 TTTTAAGTCCAATGTCGCTAACCGTGAATCAGCACATTGACATCCTTT
1 -TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
17879 TTCTCATCTT
Statistics
Matches: 892, Mismatches: 122, Indels: 65
0.83 0.11 0.06
Matches are distributed among these distances:
43 39 0.04
44 1 0.00
48 1 0.00
49 493 0.55
50 21 0.02
51 10 0.01
52 210 0.24
53 115 0.13
54 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
Found at i:17114 original size:101 final size:99
Alignment explanation
Indices: 16782--17878 Score: 1345
Period size: 101 Copynumber: 11.0 Consensus size: 99
16772 GGCATCTTCT
* * ** *
16782 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
16847 CTGGCCTTGAATCAGCACATTGGCA-----C--C
66 CTGGCCTTGAATCAGCACATTGGCACCTTTCATC
* * * *
16874 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
*
16939 CTGGCCTTGAATTAGCACATTGGCACCTTT-ATC
66 CTGGCCTTGAATCAGCACATTGGCACCTTTCATC
* *
16972 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
* * * * *
17037 CTGGCCTTGAATGAACATATTAGCGCCTTTGTCATC
66 CTGGCCTTGAATCAGCACATTGGCACC-TT-TCATC
* *
17073 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
* *
17138 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCC
66 CTGGCCTTGAATCAGCACATTGGCACC-TT-TCAT-C
*
17175 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
* * * *
17240 CTGGCCTTGAATCAACATATTGGCGCATTTGTCATC
66 CTGGCCTTGAATCAGCACATTGGCAC-CTT-TCATC
* *
17276 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
* *
17341 CTGGCCTTGAATCAGCATATTGGCGCCTTTATCATC
66 CTGGCCTTGAATCAGCACATTGGCACC-TT-TCATC
* * *
17377 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCA
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
17442 CTGGCCTTGAATCAGCACATTGGCACC-TTCATC
66 CTGGCCTTGAATCAGCACATTGGCACCTTTCATC
* * * *
17475 TTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATG
* * * *
17540 TTGCTAGCCTTGAATTAGCACATTGACACC-TTCATC
63 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATC
* * *
17576 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTTAAGTCCAAT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCAT-CTTTAAGTCCAAT
*
17641 GTCACTGGCCTTGAATCAGCACATTGGCACC-TTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATC
* * * *
17678 TTTAAGTCCAGTATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATG
* * *
17743 TTGCTAGCCTTAAATCAGCACATTGGCACC-TTCATC
63 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATC
* * * **
17779 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-TTTAAGTCCAAT
** * *
17844 GTCGCTAACCGTGAATCAGCACATTGACATCCTTT
62 GTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
17879 TTCTCATCTT
Statistics
Matches: 916, Mismatches: 69, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
92 84 0.09
98 125 0.14
99 3 0.00
100 2 0.00
101 472 0.52
102 226 0.25
103 2 0.00
104 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (99 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTTCATC
Found at i:17767 original size:454 final size:453
Alignment explanation
Indices: 16782--17878 Score: 1820
Period size: 454 Copynumber: 2.4 Consensus size: 453
16772 GGCATCTTCT
* *
16782 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATG
* * *
16844 TCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATC
66 TTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
* *
16903 AGCATATTGGCACC-TTT-ATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCACC
131 AGCATATTGGCGCCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
**
16966 TTTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
196 TTTATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* *
17031 ATATCGCTGGCCTTGAATGAACATATTAGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCT
261 ATATCGCTGGCCTTGAATCAACATATTAGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTAGCCT
*
17096 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
326 TGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
17161 CGCCTTTGTCATCCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
391 CGCCTTTGTCATCCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
17224 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCATTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATG
17289 TTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
66 TTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
17354 AGCATATTGGCGCCTTTATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
131 AGCATATTGGCGCCTTT-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
17419 CTTTATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
195 CTTTATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
17484 AATATCGCTGGCTTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTAGCC
260 AATATCGCTGGCCTTGAATCAACATATTAGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTAGCC
*
17549 TTGAATTAGCACATTGACACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
325 TTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
17614 GCGCCTTTGTCATCCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATC
390 GCGCCTTTGTCATCCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
17678 TTTAAGTCCAGTATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATG
* * *
17743 TTGCTAGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATC
66 TTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
* * ** * *
17808 AGCATATTGGTGCCTTTGTCATCTTTTAAGTCCAATGTCGCTAACCGTGAATCAGCACATTGACA
131 AGCATATTGGCGCCTTT-TCATC-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
17873 TCCTTT
194 -CCTTT
17879 TTCTCATCTT
Statistics
Matches: 609, Mismatches: 32, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
442 44 0.07
445 41 0.07
449 1 0.00
451 41 0.07
452 2 0.00
453 1 0.00
454 438 0.72
455 36 0.06
456 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (453 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATG
TTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGGCGCCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
TTTATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
ATATCGCTGGCCTTGAATCAACATATTAGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTAGCCT
TGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
CGCCTTTGTCATCCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:18746 original size:52 final size:52
Alignment explanation
Indices: 18690--18818 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
18680 CACTGATCTT
* *
18690 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTAACGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACAATATGAAA
* *
18742 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACAATATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACAATATGAAA
*
18794 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
18819 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACAATATGAAA
Found at i:28510 original size:56 final size:56
Alignment explanation
Indices: 28432--28539 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
28422 TGCATTAGGT
* * *
28432 GACCAACCATTTTGGCGATTAGAGAGATTTGATGGTCAG-GAGTATAACAATTACGC
1 GACCAACCATTCTCGCGATTAGAGAGATTTGATGATCAGAG-GTATAACAATTACGC
* * * *
28488 GACCAACCATTCTCGTGGTTAGAGAGGTTTGATGATTAGAGGTATAACAATT
1 GACCAACCATTCTCGCGATTAGAGAGATTTGATGATCAGAGGTATAACAATT
28540 GTGCGCTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 43 0.98
57 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (56 bp):
GACCAACCATTCTCGCGATTAGAGAGATTTGATGATCAGAGGTATAACAATTACGC
Found at i:28599 original size:2 final size:2
Alignment explanation
Indices: 28592--28623 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
28582 GGATATAACA
28592 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
28624 CGCAGAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31026 original size:19 final size:19
Alignment explanation
Indices: 30990--31028 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30980 ATATTAATTT
*
30990 AATTTTAAATGTTAATAAA
1 AATTTTAAATATTAATAAA
* *
31009 AATTTTAATTATTTATAAA
1 AATTTTAAATATTAATAAA
31028 A
1 A
31029 CATATAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTTTAAATATTAATAAA
Found at i:35265 original size:16 final size:16
Alignment explanation
Indices: 35244--35277 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35234 AATATAAAAA
35244 TACTAAATTTAAATAT
1 TACTAAATTTAAATAT
35260 TACTAAATTTAAATAT
1 TACTAAATTTAAATAT
35276 TA
1 TA
35278 TATGCTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TACTAAATTTAAATAT
Found at i:35957 original size:13 final size:13
Alignment explanation
Indices: 35939--35966 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35929 TTTATAATTG
35939 CTTTTAAGGTAGT
1 CTTTTAAGGTAGT
35952 CTTTTAAGGTAGT
1 CTTTTAAGGTAGT
35965 CT
1 CT
35967 AAAACTAAAA
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:0.21, C:0.11, G:0.21, T:0.46
Consensus pattern (13 bp):
CTTTTAAGGTAGT
Found at i:37617 original size:16 final size:16
Alignment explanation
Indices: 37567--37610 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
37557 AAGGTTTTAG
*
37567 GTTTTCGATTTTTGCTT
1 GTTTT-GATATTTGCTT
37584 GTTTTGATATTTGCTT
1 GTTTTGATATTTGCTT
37600 GTTTTGATATT
1 GTTTTGATATT
37611 ATTTTGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.11, C:0.07, G:0.18, T:0.64
Consensus pattern (16 bp):
GTTTTGATATTTGCTT
Found at i:40604 original size:50 final size:50
Alignment explanation
Indices: 40543--40714 Score: 166
Period size: 50 Copynumber: 3.3 Consensus size: 50
40533 ATTTGGTAAG
* * *
40543 GGTGACTTGGTGTCACTTAATAGTTATGCTATGGTAGCGATTAGAGTTTA
1 GGTGACTTGGAGTCACTTAATAGTTATGCTATGGTGGCGATTAGAATTTA
* ** * * * *
40593 GGTGACTTGGTGTCAAATAAT-GATGATGCTATGGTGGCAATCAAGATTTGGTAA
1 GGTGACTTGGAGTCACTTAATAG-TTATGCTATGGTGGCGAT-TAGAATT--T-A
* * *
40647 GGGTGACTTGGAGTCACTTAATAGTTATGCCATTGTGGCGATTAAAATTTA
1 -GGTGACTTGGAGTCACTTAATAGTTATGCTATGGTGGCGATTAGAATTTA
40698 GGTGACTTGGAGTCACT
1 GGTGACTTGGAGTCACT
40715 GATAATGATG
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
49 1 0.01
50 51 0.52
51 6 0.06
52 1 0.01
53 1 0.01
54 5 0.05
55 32 0.33
56 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (50 bp):
GGTGACTTGGAGTCACTTAATAGTTATGCTATGGTGGCGATTAGAATTTA
Found at i:40630 original size:105 final size:106
Alignment explanation
Indices: 40505--40726 Score: 340
Period size: 105 Copynumber: 2.1 Consensus size: 106
40495 TTAGCGTCAC
*
40505 TAATGATGATGCTATGGTGGCAATCATA-ATTTGGTAAGGGTGACTTGGTGTCACTTAATAGTTA
1 TAATGATGATGCTATGGTGGCAATCA-AGATTTGGTAAGGGTGACTTGGAGTCACTTAATAGTTA
* * * *
40569 TGCTATGGTAGCGATTAGAGTTTAGGTGACTTGGTGTCA-AA
65 TGCCATGGTAGCGATTAAAATTTAGGTGACTTGGAGTCACAA
40610 TAATGATGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGAGTCACTTAATAGTTAT
1 TAATGATGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGAGTCACTTAATAGTTAT
* * *
40675 GCCATTGTGGCGATTAAAATTTAGGTGACTTGGAGTCACTGA
66 GCCATGGTAGCGATTAAAATTTAGGTGACTTGGAGTCAC-AA
40717 TAATGATGAT
1 TAATGATGAT
40727 ATCATAGTGG
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
104 1 0.01
105 94 0.89
107 11 0.10
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (106 bp):
TAATGATGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGAGTCACTTAATAGTTAT
GCCATGGTAGCGATTAAAATTTAGGTGACTTGGAGTCACAA
Found at i:40657 original size:55 final size:55
Alignment explanation
Indices: 40505--40662 Score: 177
Period size: 50 Copynumber: 3.0 Consensus size: 55
40495 TTAGCGTCAC
**
40505 TAATGATGATGCTATGGTGGCAATCATA-ATTTGGTAAGGGTGACTTGGTGTCACT
1 TAATGATGATGCTATGGTGGCAATCA-AGATTTGGTAAGGGTGACTTGGTGTCAAA
* * * * *
40560 TAAT-AGTTATGCTATGGTAGCGAT-TAGAGTT--T-A-GGTGACTTGGTGTCAAA
1 TAATGA-TGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGTGTCAAA
*
40610 TAATGATGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGAGTCA
1 TAATGATGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGTGTCA
40663 CTTAATAGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
50 34 0.41
51 7 0.09
52 1 0.01
53 2 0.02
54 5 0.06
55 33 0.40
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.34
Consensus pattern (55 bp):
TAATGATGATGCTATGGTGGCAATCAAGATTTGGTAAGGGTGACTTGGTGTCAAA
Found at i:44105 original size:19 final size:19
Alignment explanation
Indices: 44069--44107 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44059 ATATTAATTT
*
44069 AATTTTAAATGTTAATAAA
1 AATTTTAAATATTAATAAA
* *
44088 AATTTTAATTATTTATAAA
1 AATTTTAAATATTAATAAA
44107 A
1 A
44108 CATATAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTTTAAATATTAATAAA
Found at i:47597 original size:24 final size:24
Alignment explanation
Indices: 47570--47618 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47560 TTCATTTGTC
*
47570 TTAATGATTTCTTTGCAATAAATT
1 TTAAAGATTTCTTTGCAATAAATT
* * *
47594 TTAAAGTTTTCTTTTCAATCAATT
1 TTAAAGATTTCTTTGCAATAAATT
47618 T
1 T
47619 CACGTTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (24 bp):
TTAAAGATTTCTTTGCAATAAATT
Found at i:50122 original size:16 final size:18
Alignment explanation
Indices: 50102--50154 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
50092 AAAAATATAA
50102 ATATTTAATATAAAA-AT
1 ATATTTAATATAAAATAT
50119 -TATTTAATA-AAAATAT
1 ATATTTAATATAAAATAT
*
50135 ATATTTAAT-TAAATTAT
1 ATATTTAATATAAAATAT
50152 ATA
1 ATA
50155 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 17 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTTAATATAAAATAT
Found at i:50289 original size:20 final size:20
Alignment explanation
Indices: 50246--50289 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
50236 TGTTTTTATT
* ** *
50246 TTTTTTATTGGTTCAATTAG
1 TTTTTTATTGATTCAAAAAA
50266 TTTTTTATTGATTCAAAAAA
1 TTTTTTATTGATTCAAAAAA
50286 TTTT
1 TTTT
50290 CGATTTTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTTTTATTGATTCAAAAAA
Found at i:50830 original size:33 final size:33
Alignment explanation
Indices: 50720--50832 Score: 96
Period size: 33 Copynumber: 3.5 Consensus size: 33
50710 CTAATGATAT
* *
50720 AAGTATTTATTTATTCATATCATATTTATATTTA
1 AAGTA-TTATATATTTATATCATATTTATATTTA
* **
50754 AAGTATTATATA--TCTA-CA-ATAAAT-TTTGA
1 AAGTATTATATATTTATATCATATTTATATTT-A
*
50783 TA-TATT-TACTATTTATATCATATTTATATTTA
1 AAGTATTATA-TATTTATATCATATTTATATTTA
50815 AAGTATTATATATTTATA
1 AAGTATTATATATTTATA
50833 ATAAATTTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 19
0.67 0.11 0.21
Matches are distributed among these distances:
27 2 0.03
28 9 0.15
29 6 0.10
30 5 0.08
31 4 0.07
32 6 0.10
33 21 0.35
34 7 0.12
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (33 bp):
AAGTATTATATATTTATATCATATTTATATTTA
Found at i:51236 original size:24 final size:24
Alignment explanation
Indices: 51209--51257 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
51199 AAATAGATGA
*
51209 AAAATTTGATAAAATTAAAAAAAT
1 AAAATTTAATAAAATTAAAAAAAT
* **
51233 AAAATTTAATTAAATTTGAAAAAT
1 AAAATTTAATAAAATTAAAAAAAT
51257 A
1 A
51258 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATTTAATAAAATTAAAAAAAT
Found at i:51618 original size:26 final size:25
Alignment explanation
Indices: 51581--51652 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 25
51571 TAATTATATG
51581 AGTTTAATTTATTTTTATTTGTAAA
1 AGTTTAATTTATTTTTATTTGTAAA
*
51606 AGTTTAAATTTA-TATTATTT-T-AA
1 AGTTT-AATTTATTTTTATTTGTAAA
* *
51629 AGTATGATTTATTTTTATTTGTAA
1 AGTTTAATTTATTTTTATTTGTAA
51653 GATTAATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 5 0.13
23 13 0.33
24 2 0.05
25 13 0.33
26 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
AGTTTAATTTATTTTTATTTGTAAA
Found at i:58786 original size:14 final size:16
Alignment explanation
Indices: 58757--58791 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
58747 AAATCTCCAC
58757 TAATTTGGATTTTTTT
1 TAATTTGGATTTTTTT
58773 TAATTT-GA-TTTTTT
1 TAATTTGGATTTTTTT
58787 TAATT
1 TAATT
58792 AATTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 2 0.11
16 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (16 bp):
TAATTTGGATTTTTTT
Found at i:58842 original size:17 final size:17
Alignment explanation
Indices: 58816--58850 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58806 TTGATTATTT
* *
58816 TTATTTTTTTCATTTTA
1 TTATTATTTTAATTTTA
58833 TTATTATTTTAATTTTA
1 TTATTATTTTAATTTTA
58850 T
1 T
58851 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATTTTAATTTTA
Found at i:59478 original size:43 final size:43
Alignment explanation
Indices: 59422--59984 Score: 490
Period size: 43 Copynumber: 13.0 Consensus size: 43
59412 AGTCATCAAA
*
59422 GGAAAGGATGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * * *
59465 GGAAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * **
59508 GCAAAGGAAGTCTCCAAAGTCAAAGCCGACAAGCAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* ** * *
59551 GATAAAGGAAGTCTCCCGAGTCAAAGCCAACAAGCAGACTTAAAG
1 G-GAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTT-AAG
** *
59596 ATAAAGGAA-TCTCTAGGGTCAAAGCTGACAAGCAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * * *
59638 GG-AATGAAGTCT-TCAAGGTCAAAGCCGACAGGCAGATTTAAG
1 GGAAAGGAAGTCTCT-AGGGTCAAAGCCGACAAGCAGACTTAAG
* ** * * * * *
59680 GGTAATAAAGTCTCCAGGATCAAAACCGATAGGCAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * * *
59723 GATAAAGGAAGTCTCTAGGGTCAAAGCCAACAAGTAAACTTAAG
1 G-GAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * *
59767 GGTAAA-GAAGTCTCCAAGGTCAAAGTCGAC-AGACAGACTTAAAG
1 GG-AAAGGAAGTCTCTAGGGTCAAAGCCGACAAG-CAGACTT-AAG
* * * * * *
59811 GATAAAGGACGTCTTTAGGGTCAAAACTGACAAGCAAACTTAAG
1 G-GAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * *
59855 GGTAAGGAAATCTCTAGGGTCAAAGCCGACAGGCAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
* * * * * *
59898 GATAAAGAAAGTCTC-CGAGGTCAAAGCCGACAGGTAAACTTAAG
1 G-GAAAGGAAGTCTCTAG-GGTCAAAGCCGACAAGCAGACTTAAG
* * * * *
59942 GGTAAGGAAGTCTCTAAGGTCAAAGTCGACAGGAAGACTTAAG
1 GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
59985 AATAAAGGAA
Statistics
Matches: 419, Mismatches: 85, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
41 6 0.01
42 34 0.08
43 229 0.55
44 122 0.29
45 26 0.06
46 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (43 bp):
GGAAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAG
Found at i:59617 original size:87 final size:88
Alignment explanation
Indices: 59424--59994 Score: 558
Period size: 87 Copynumber: 6.6 Consensus size: 88
59414 TCATCAAAGG
* * * *
59424 AAAGGATGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGG-GAAAGAAAGTCTCCAAGGTCAA
1 AAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCTCCGAGGTCAA
* * *
59488 AGCCGACAGGCAGACTTAA-GGC
66 AGCCGACAAGCAAACTTAAGGGT
* **
59510 AAAGGAAGTCTCCAAAGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCTCCCGA-GTCA
1 AAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCT-CCGAGGTCA
* * * *
59574 AAGCCAACAAGCAGACTTAAAGAT
65 AAGCCGACAAGCAAACTTAAGGGT
* * * * *
59598 AAAGGAA-TCTCTAGGGTCAAAGCTGACAAGCAGACTTAAGG--GAATGAAGTCTTCAAGGTCAA
1 AAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCTCCGAGGTCAA
* * *
59660 AGCCGACAGGCAGATTTAAGGGT
66 AGCCGACAAGCAAACTTAAGGGT
* * * * * *
59683 AATA--AAGTCTCCAGGATCAAAACCGATAGGCAGACTTAAGGATAAAGGAAGTCT-CTAGGGTC
1 AA-AGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCTCCGA-GGTC
* *
59745 AAAGCCAACAAGTAAACTTAAGGGT
64 AAAGCCGACAAGCAAACTTAAGGGT
* * * * **
59770 AAA-GAAGTCTCCAAGGTCAAAGTCGAC-AGACAGACTTAAAGGATAAAGGACGTCT-TTAGGGT
1 AAAGGAAGTCTCTAGGGTCAAAGCCGACAAG-CAGACTT-AAGGATAAAGGAAGTCTCCGA-GGT
* *
59832 CAAAACTGACAAGCAAACTTAAGGGT
63 CAAAGCCGACAAGCAAACTTAAGGGT
* * *
59858 -AAGGAAATCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGATAAAGAAAGTCTCCGAGGTCAA
1 AAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCTCCGAGGTCAA
* *
59922 AGCCGACAGGTAAACTTAAGGGT
66 AGCCGACAAGCAAACTTAAGGGT
* * * * *
59945 -AAGGAAGTCTCTAAGGTCAAAGTCGACAGGAAGACTTAAGAATAAAGGAA
1 AAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAA
59995 ATTTTTTAAA
Statistics
Matches: 401, Mismatches: 69, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
84 4 0.01
85 62 0.15
86 43 0.11
87 208 0.52
88 83 0.21
89 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (88 bp):
AAAGGAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTAAGGATAAAGGAAGTCTCCGAGGTCAA
AGCCGACAAGCAAACTTAAGGGT
Found at i:59912 original size:175 final size:173
Alignment explanation
Indices: 59431--59994 Score: 597
Period size: 175 Copynumber: 3.3 Consensus size: 173
59421 AGGAAAGGAT
* * * * * *
59431 GTCTCTAGGGTCAAAGCCGACA-AGCAGACTTAAGG-GAAAGAAAGTCTCCAAGGTCAAAGCCGA
1 GTCTCTAAGGTCAAAGTCGACAGA-CAGACTTAAGGATAAAGGAAGTCTTCAAGGTCAAAACCGA
* * ** * ** *
59494 CAGGCAGACTTAAGGCAAAGGAAGTCTCCAAAGTCAAAGCCGACAAGCAGACTTAAGGATAAAGG
65 CAAGCAAACTTAAGGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAAAGG
* * * * *
59559 AAGTCTCCCGAGTCAAAGCCAACAAGCAGACTTAAAGATAAAGGAA
130 AAGTCT-CCGGGTCAAAGCCAACAAGTAAACTTAAGGGTAAA-GAA
* * * *
59605 -TCTCTAGGGTCAAAG-CTGACA-AGCAGACTTAAGG--GAATGAAGTCTTCAAGGTCAAAGCCG
1 GTCTCTAAGGTCAAAGTC-GACAGA-CAGACTTAAGGATAAAGGAAGTCTTCAAGGTCAAAACCG
* * * * * * *
59665 ACAGGCAGATTTAAGGGTAATAAAGTCTCCAGGATCAAAACCGATAGGCAGACTTAAGGATAAAG
64 ACAAGCAAACTTAAGGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAAAG
*
59730 GAAGTCTCTAGGGTCAAAGCCAACAAGTAAACTTAAGGGTAAAGAA
129 GAAGTCTC-CGGGTCAAAGCCAACAAGTAAACTTAAGGGTAAAGAA
* * * * *
59776 GTCTCCAAGGTCAAAGTCGACAGACAGACTTAAAGGATAAAGGACGTCTTTAGGGTCAAAACTGA
1 GTCTCTAAGGTCAAAGTCGACAGACAGACTT-AAGGATAAAGGAAGTCTTCAAGGTCAAAACCGA
*
59841 CAAGCAAACTTAAGGGTAAGGAAA-TCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGATAAAG
65 CAAGCAAACTTAAGGGTAA-GAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAAAG
* * * *
59905 AAAGTCTCCGAGGTCAAAGCCGACAGGTAAACTTAAGGGTAAGGAA
129 GAAGTCTCCG-GGTCAAAGCCAACAAGTAAACTTAAGGGTAAAGAA
*
59951 GTCTCTAAGGTCAAAGTCGACAGGA-AGACTTAAGAATAAAGGAA
1 GTCTCTAAGGTCAAAGTCGACA-GACAGACTTAAGGATAAAGGAA
59995 ATTTTTTAAA
Statistics
Matches: 333, Mismatches: 46, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
171 4 0.01
172 136 0.41
173 38 0.11
174 12 0.04
175 138 0.41
176 5 0.02
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (173 bp):
GTCTCTAAGGTCAAAGTCGACAGACAGACTTAAGGATAAAGGAAGTCTTCAAGGTCAAAACCGAC
AAGCAAACTTAAGGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAAAGGA
AGTCTCCGGGTCAAAGCCAACAAGTAAACTTAAGGGTAAAGAA
Found at i:61157 original size:11 final size:11
Alignment explanation
Indices: 61143--61178 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
61133 TTTCATCCGA
61143 TTTTTTCTTTT
1 TTTTTTCTTTT
*
61154 TTTTTTCTTCT
1 TTTTTTCTTTT
*
61165 TTTTTTATTTT
1 TTTTTTCTTTT
61176 TTT
1 TTT
61179 AAGTATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:61166 original size:14 final size:13
Alignment explanation
Indices: 61143--61176 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
61133 TTTCATCCGA
61143 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
61156 TTTTCTTCTTTTTT
1 TTTT-TTCTTTTTT
61170 TATTTTT
1 T-TTTTT
61177 TTAAGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 12 0.63
15 3 0.16
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:71704 original size:21 final size:21
Alignment explanation
Indices: 71678--71718 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71668 TTGCTTATCC
*
71678 AATTTCATACATGAATGCATA
1 AATTTCACACATGAATGCATA
*
71699 AATTTCACGCATGAATGCAT
1 AATTTCACACATGAATGCAT
71719 GCATTGCCAC
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:0.12, T:0.32
Consensus pattern (21 bp):
AATTTCACACATGAATGCATA
Found at i:71848 original size:17 final size:18
Alignment explanation
Indices: 71823--71856 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71813 TCTCCTTTTT
*
71823 TTAATTTAATTTTTTTAA
1 TTAATTTAAATTTTTTAA
71841 TTAA-TTAAATTTTTTA
1 TTAATTTAAATTTTTTA
71857 TTGATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATTTAAATTTTTTAA
Found at i:71889 original size:23 final size:23
Alignment explanation
Indices: 71852--71895 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
71842 TAATTAAATT
*
71852 TTTTATTGATTTTTTATTTTTTG
1 TTTTATTGATTTTTTAATTTTTG
71875 TTTTATT-ATTATTTTAATTTT
1 TTTTATTGATT-TTTTAATTTT
71896 ATATCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTATTGATTTTTTAATTTTTG
Found at i:72373 original size:92 final size:92
Alignment explanation
Indices: 72212--72402 Score: 221
Period size: 92 Copynumber: 2.1 Consensus size: 92
72202 TTGTTATATC
* * * * * *
72212 TATAATCAATCTTCTTTTCTCTTTTTTCTAGCAAAAGGAATCTGATTCTCAAATATAATCTATGT
1 TATAATCAATCATCTTTTCTCTTCTTTCTAGCAAAAGGAATCCGATGCTCAAATACAATCTATGC
*
72277 ATTAGTCTAATCGTTACAATTTGAC-ATT
66 ATTAGTCTAATCCTTAC-A-TTGACAATT
*
72305 TATAATCAATCAAT-TTTTCT-TTCTTTCTA-CTAAAAGGAATCCGATGCTCAAATACAGT-TCA
1 TATAATCAATC-ATCTTTTCTCTTCTTTCTAGC-AAAAGGAATCCGATGCTCAAATACAATCT-A
72366 TGCATTAGTCTAATCCTTACATTGACAATT
63 TGCATTAGTCTAATCCTTACATTGACAATT
*
72396 TACAATC
1 TATAATC
72403 TATGTATTAG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
90 5 0.06
91 12 0.14
92 50 0.59
93 17 0.20
94 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.41
Consensus pattern (92 bp):
TATAATCAATCATCTTTTCTCTTCTTTCTAGCAAAAGGAATCCGATGCTCAAATACAATCTATGC
ATTAGTCTAATCCTTACATTGACAATT
Found at i:73384 original size:19 final size:19
Alignment explanation
Indices: 73360--73406 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
73350 ACATTGTAAT
73360 ATACATGATC-ATTGTATCG
1 ATACATGA-CAATTGTATCG
73379 ATACATGGACAATTGTATCG
1 ATACAT-GACAATTGTATCG
73399 ATACATGA
1 ATACATGA
73407 AACTGGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (19 bp):
ATACATGACAATTGTATCG
Found at i:75141 original size:20 final size:20
Alignment explanation
Indices: 75118--75243 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
75108 AAGTACCCAG
75118 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
75138 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
* *
75168 GATGTATCAATACATTTTTTA
1 -ATGTATCGATACATTTTTCA
* * *
75189 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
75209 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
75229 ATGTATCGATACATT
1 ATGTATCGATACATT
75244 CTATCTTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 22
0.73 0.09 0.19
Matches are distributed among these distances:
20 60 0.71
21 1 0.01
24 5 0.06
27 5 0.06
30 2 0.02
31 12 0.14
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:75192 original size:51 final size:51
Alignment explanation
Indices: 75111--75290 Score: 220
Period size: 51 Copynumber: 3.7 Consensus size: 51
75101 TATGGAAAAG
75111 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTT
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTT
* *
75162 TACCCAGATGTATCAATACATTTTTTAATGTATCGATACA---TG------
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTT
** * *
75204 TA-TGA-ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTT
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTT
*
75253 TACCCAGATGTATCGATACATTTTTTAATGTATCGATA
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATA
75291 TATCTAGTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
40 30 0.28
41 1 0.01
42 2 0.02
43 1 0.01
48 2 0.02
49 2 0.02
50 1 0.01
51 67 0.63
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (51 bp):
TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTT
Found at i:75273 original size:91 final size:91
Alignment explanation
Indices: 75118--75290 Score: 319
Period size: 91 Copynumber: 1.9 Consensus size: 91
75108 AAGTACCCAG
* *
75118 ATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCAATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCAATACAT
75183 TTTTTAATGTATCGATACATGTATGA
66 TTTTTAATGTATCGATACATGTATGA
*
75209 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCAATACAT
75274 TTTTTAATGTATCGATA
66 TTTTTAATGTATCGATA
75291 TATCTAGTTA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (91 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCAATACAT
TTTTTAATGTATCGATACATGTATGA
Found at i:80090 original size:32 final size:33
Alignment explanation
Indices: 80035--80098 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
80025 TTCAACGATT
80035 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*
80068 TGTATCGATACAT-AAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCAATACA
80099 TAAGTGTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:80092 original size:19 final size:19
Alignment explanation
Indices: 80034--80117 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
80024 TTTCAACGAT
80034 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
80054 TTGTATCAATAC--AA---
1 TTGTATCGATACATAAGTG
80068 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
80086 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
80105 TTGTATCGATACA
1 TTGTATCGATACA
80118 ATGTATCGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.18
15 2 0.04
17 2 0.04
19 31 0.55
20 11 0.20
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:80188 original size:13 final size:13
Alignment explanation
Indices: 80170--80194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80160 ATTACTCAAA
80170 TGTATCGATACAT
1 TGTATCGATACAT
80183 TGTATCGATACA
1 TGTATCGATACA
80195 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:90695 original size:32 final size:30
Alignment explanation
Indices: 90659--90717 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
90649 TCCTTCATAC
90659 CCAAAAAAACGGAAAAAAAAAAAAAAAAAAAA
1 CCAAAAAAA--GAAAAAAAAAAAAAAAAAAAA
* *
90691 CCAAAAAAATAAAAAAAACAAAAAAAA
1 CCAAAAAAAGAAAAAAAAAAAAAAAAA
90718 CCAAGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.64
32 9 0.36
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (30 bp):
CCAAAAAAAGAAAAAAAAAAAAAAAAAAAA
Found at i:90696 original size:18 final size:17
Alignment explanation
Indices: 90671--90717 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
90661 AAAAAAACGG
90671 AAAAA-AAAAAAAAAAA
1 AAAAACAAAAAAAAAAA
* *
90687 AAAACCAAAAAAATAAA
1 AAAAACAAAAAAAAAAA
90704 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
90718 CCAAGGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAA
Found at i:90728 original size:30 final size:27
Alignment explanation
Indices: 90671--90740 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
90661 AAAAAAACGG
90671 AAAAAAAAAAAAAAAAAAAACCAAAAA
1 AAAAAAAAAAAAAAAAAAAACCAAAAA
* * **
90698 AATAAAAAAAACAAAAAAAACCAAGGA
1 AAAAAAAAAAAAAAAAAAAACCAAAAA
* *
90725 AAAAATAACAAAAAAA
1 AAAAAAAAAAAAAAAA
90741 CAGAAATGGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAAAAAACCAAAAA
Found at i:90729 original size:1 final size:1
Alignment explanation
Indices: 90671--90717 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
90661 AAAAAAACGG
** * *
90671 AAAAAAAAAAAAAAAAAAAACCAAAAAAATAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
90718 CCAAGGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:90738 original size:10 final size:9
Alignment explanation
Indices: 90671--90718 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
90661 AAAAAAACGG
90671 AAAA-AAAA
1 AAAACAAAA
90679 AAAA-AAAA
1 AAAACAAAA
*
90687 AAAACCAAA
1 AAAACAAAA
*
90696 AAAATAAAA
1 AAAACAAAA
90705 AAAACAAAA
1 AAAACAAAA
90714 AAAAC
1 AAAAC
90719 CAAGGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
8 12 0.34
9 23 0.66
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAACAAAA
Found at i:92111 original size:89 final size:89
Alignment explanation
Indices: 91960--92677 Score: 867
Period size: 89 Copynumber: 8.0 Consensus size: 89
91950 TGCTCATCTC
* * *
91960 TTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTGTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
92025 CCACACGAGTCGGTTGAAACTCTT
66 CCACACGAGTCGGTGGCAACTCTT
*
92049 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
**
92114 CCACACGAGTTAGTGGCAACTCTT
66 CCACACGAGTCGGTGGCAACTCTT
* * *
92138 TTCAAAGCCCACAAGTCAGCGGCACTCTTTCAAAGCCCACAAGTCAGCGGCACTC-TTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
*
92202 CTACACGAGTCGGTGGCAACTCTT
66 CCACACGAGTCGGTGGCAACTCTT
* * * * * * *
92226 TTTAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAATCAATAGCA-TCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
92290 CCACA--AGTCAGTGGC-ACCCTT
66 CCACACGAGTCGGTGGCAACTCTT
** * * *
92311 TTCAAAGCCCACAAGTCAGTGGCACATTTTTTTTAAGGCCCACACGAGTCAGTGGCATTCTTTTC
1 TTCAAAGCCCACAAGTCAGTGGCAC---CCTTTCAAAGCCCACA--AGTCAGTGGCACTCTTTTC
* * *
92376 AAAACCCACACGAGTCGGTGGTAACTTTT
61 AAAGCCCACACGAGTCGGTGGCAACTCTT
** * * **
92405 TTCAAAGCCCACACGAGTTGGTTGCATCCTTTCAAAGCCCACACAAGTGGGTGGCAACTCTTTTC
1 TTCAAAGCCCACA--AGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTC
* * *
92470 AAAGCCTACA--AGTCAGTGGC-ACCCTT
61 AAAGCCCACACGAGTCGGTGGCAACTCTT
* *
92496 TTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
*
92561 CCCACACGAGTCGGTGTCAACTCTT
65 CCCACACGAGTCGGTGGCAACTCTT
* * *
92586 TTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAAC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
92651 TCACACAAGTCGGTGGCAACTCTT
66 CCACACGAGTCGGTGGCAACTCTT
92675 TTC
1 TTC
92678 TAGCATTGAA
Statistics
Matches: 534, Mismatches: 76, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
85 28 0.05
86 9 0.02
87 19 0.04
88 111 0.21
89 213 0.40
90 45 0.08
91 32 0.06
92 8 0.01
93 22 0.04
94 35 0.07
95 4 0.01
96 8 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (89 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
CCACACGAGTCGGTGGCAACTCTT
Found at i:92118 original size:29 final size:29
Alignment explanation
Indices: 91960--92677 Score: 716
Period size: 28 Copynumber: 24.1 Consensus size: 29
91950 TGCTCATCTC
* *
91960 TTCAAAGCCCACAAGTCAATGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
91988 TTCAAAGCCCACAAGTCAGTAGCACTCTG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* **
92017 TTCAAAGCCCACACGAGTCGGTTGAAACTCTT
1 TTCAAAGCCCACA--AGTCAG-TGGCACTCTT
*
92049 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
92077 TTCAAAACCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
92106 TTCAAAGCCCACACGAGTTAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
92138 TTCAAAGCCCACAAGTCAGCGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
92166 TTCAAAGCCCACAAGTCAGCGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
92194 TTCAAAGCCTACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGC-ACTCTT
*
92226 TTTAAAGCCCACAAGTCAGTGGCA-TCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CTT
* * * *
92255 TT-AAAGCCCACAAATCAATAGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
92282 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
92311 TTCAAAGCCCACAAGTCAGTGGCACATTTTT
1 TTCAAAGCCCACAAGTCAGTGGCAC--TCTT
* * *
92342 TTTAAGGCCCACACGAGTCAGTGGCATTCTT
1 TTCAAAGCCCACA--AGTCAGTGGCACTCTT
* * * *
92373 TTCAAAACCCACACGAGTCGGTGGTAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGG-CACTCTT
** * *
92405 TTCAAAGCCCACACGAGTTGGTTGCA-TCCT
1 TTCAAAGCCCACA--AGTCAGTGGCACTCTT
**
92435 TTCAAAGCCCACACAAGTGGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
* *
92467 TTCAAAGCCTACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
92496 TTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
92525 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
92554 TTCAAAGCCCACACGAGTCGGTGTCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
* *
92586 TTCAAAGCCCACAAGTCAGTGACA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
92614 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
92643 TTCAAAACTCACACAAGTCGGTGGCAACTCTT
1 TTCAAAGC-C-CACAAGTCAGTGGC-ACTCTT
92675 TTC
1 TTC
92678 TAGCATTGAA
Statistics
Matches: 584, Mismatches: 75, Indels: 58
0.81 0.10 0.08
Matches are distributed among these distances:
27 4 0.01
28 151 0.26
29 151 0.26
30 73 0.12
31 81 0.14
32 113 0.19
33 11 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:92363 original size:33 final size:32
Alignment explanation
Indices: 91987--92666 Score: 239
Period size: 29 Copynumber: 22.8 Consensus size: 32
91977 AATGGCACCC
* * *
91987 TTTCAAAGCCCACA--AGTCAGTAG-CACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * * * * *
92016 GTTCAAAGCCCACACGAGTCGGTTGAAACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
***
92048 TTTCAAAGCCCACA--AGTCAGTGG-CA-CCC
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * *
92076 TTTCAAAACCCACA--AGTCAGTGG-CACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * *
92105 TTTCAAAGCCCACACGAGTTAGTGG-CAACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGAC-ATTTT
* * *
92137 TTTCAAAGCCCACA--AGTCAGCGG-CA-CTC
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * *
92165 TTTCAAAGCCCACA--AGTCAGCGG-CA-CTC
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * *
92193 TTTCAAAGCCTACACGAGTCGGTGG-CAACTCTT
1 TTTCAAAGCCCACACGAGTCAGTGGAC-A-TTTT
**
92226 TTT-AAAGCCCACA--AGTCAGTGG-CATCCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * * **
92254 TTT-AAAGCCCACA--AATCAATAG-CA-TCC
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
***
92281 TTTCAAAGCCCACA--AGTCAGTGG-CACCCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
92310 TTTCAAAGCCCACA--AGTCAGTGGCACATTTT
1 TTTCAAAGCCCACACGAGTCAGTGG-ACATTTT
* * *
92341 TTTTAAGGCCCACACGAGTCAGTGG-CATTCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * *
92372 TTTCAAAACCCACACGAGTCGGTGGTA-ACTTT
1 TTTCAAAGCCCACACGAGTCAGTGG-ACATTTT
** * **
92404 TTTCAAAGCCCACACGAGTTGGTTG-CA-TCC
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* ** * *
92434 TTTCAAAGCCCACACAAGTGGGTGG-CAACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGAC-ATTTT
* ***
92466 TTTCAAAGCCTACA--AGTCAGTGG-CACCCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* ***
92495 TTTCAAAGCCCACA--AGTTAGTGG-CACCCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
*
92524 TTTCAAAGCCCACA--AGTCAGTGG-CATTCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * * *
92553 TTTCAAAGCCCACACGAGTCGGT-GTCAACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGAC-ATTTT
**
92585 TTTCAAAGCCCACA--AGTCAGT-GACA-TCC
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* *
92613 TTTCAAAGCCCACA--AGTCAGTGG-CACTCT
1 TTTCAAAGCCCACACGAGTCAGTGGACATTTT
* * * *
92642 TTTCAAAACTCACACAAGTCGGTGG
1 TTTCAAAGCCCACACGAGTCAGTGG
92667 CAACTCTTTT
Statistics
Matches: 544, Mismatches: 76, Indels: 60
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.01
28 133 0.24
29 141 0.26
30 73 0.13
31 75 0.14
32 104 0.19
33 14 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (32 bp):
TTTCAAAGCCCACACGAGTCAGTGGACATTTT
Found at i:92744 original size:45 final size:46
Alignment explanation
Indices: 92677--92796 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 46
92667 CAACTCTTTT
* *
92677 CTAGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATGTCG
1 CTAGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCG
* * *
92722 CTAGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCTAATGTCG
1 CTAGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATGTCG
* * **
92771 CTGGCCTTAAATTGGCACATTGGCAC
1 CTAGCCTTGAATCAGCACATTGGCAC
92797 TCCTCTAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 21 0.34
47 9 0.15
49 32 0.52
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
CTAGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCG
Found at i:96520 original size:16 final size:16
Alignment explanation
Indices: 96477--96565 Score: 54
Period size: 16 Copynumber: 5.6 Consensus size: 16
96467 CATTTTTACG
* *
96477 TTTAGATCATTTTGAT
1 TTTAAATCATTTTAAT
* * *
96493 TTTCACTTATTTTAAT
1 TTTAAATCATTTTAAT
* *
96509 TTTAAATCATTTAAGAA
1 TTTAAATCATTTTA-AT
* **
96526 TTTGAATCATTTCGAT
1 TTTAAATCATTTTAAT
* *
96542 TTCAAATCATTTTTA-
1 TTTAAATCATTTTAAT
96557 TTTAAATCA
1 TTTAAATCA
96566 ATCAAGTTTA
Statistics
Matches: 53, Mismatches: 19, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
15 8 0.15
16 33 0.62
17 12 0.23
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTAAATCATTTTAAT
Found at i:97325 original size:23 final size:23
Alignment explanation
Indices: 97295--97340 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
97285 TATATATTTT
97295 GTTACAATCCAAAATGATAATTA
1 GTTACAATCCAAAATGATAATTA
* *
97318 GTTACAATGCAAAATGATTATTA
1 GTTACAATCCAAAATGATAATTA
97341 TAACTTATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (23 bp):
GTTACAATCCAAAATGATAATTA
Found at i:97527 original size:18 final size:18
Alignment explanation
Indices: 97506--97540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
97496 ATTTTAAATA
*
97506 ATTTTTATTATTAATAAG
1 ATTTATATTATTAATAAG
*
97524 ATTTATATTATTTATAA
1 ATTTATATTATTAATAA
97541 ATAAAAATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTATATTATTAATAAG
Found at i:97790 original size:19 final size:19
Alignment explanation
Indices: 97757--97813 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
97747 GAAAATGTTG
*
97757 TATTAATCT-AATTTTAAA
1 TATTAATATAAATTTTAAA
*
97775 TATTAATATAAATTTTAAT
1 TATTAATATAAATTTTAAA
*
97794 TATTTATATAACA-TTTAAA
1 TATTAATATAA-ATTTTAAA
97813 T
1 T
97814 TTACATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.24
19 24 0.73
20 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATATAAATTTTAAA
Found at i:100849 original size:2 final size:2
Alignment explanation
Indices: 100842--100877 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
100832 TTCAATATCT
100842 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
100878 ATTAAGCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113279 original size:25 final size:25
Alignment explanation
Indices: 113251--113298 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
113241 AAAATTAAAG
113251 TAAATAAAAA-AATTATAAATAATAT
1 TAAATAAAAATAATT-TAAATAATAT
*
113276 TAAATAAAAATTATTTAAATAAT
1 TAAATAAAAATAATTTAAATAAT
113299 GATATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATAAAAATAATTTAAATAATAT
Found at i:123255 original size:27 final size:26
Alignment explanation
Indices: 123224--123301 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 26
123214 CAAAAGCTAC
*
123224 CCTTTATGTTTGTCAAAAATGATGGTT
1 CCTTT-TGTTTGTCAAAAATGGTGGTT
*
123251 CCTTTTTGTTTATCAAAAATGGTGGTT
1 CC-TTTTGTTTGTCAAAAATGGTGGTT
* *
123278 --TGTTGTTTGTCAAAATTGGTGGTT
1 CCTTTTGTTTGTCAAAAATGGTGGTT
123302 AATTTTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 21 0.47
27 21 0.47
28 3 0.07
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (26 bp):
CCTTTTGTTTGTCAAAAATGGTGGTT
Found at i:124169 original size:35 final size:35
Alignment explanation
Indices: 124122--124193 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
124112 TCAAGCTCTC
* *
124122 TTGTTTTTTGTTCTGTTTTTCTGGTTCTTCCTTCT
1 TTGTTTTCTGTTCTGTTTTTCTAGTTCTTCCTTCT
124157 TTGTTTTCTGTTCTGTTTTTCTAGTTCTTCCTTCT
1 TTGTTTTCTGTTCTGTTTTTCTAGTTCTTCCTTCT
124192 TT
1 TT
124194 CAGCTGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.01, C:0.18, G:0.12, T:0.68
Consensus pattern (35 bp):
TTGTTTTCTGTTCTGTTTTTCTAGTTCTTCCTTCT
Found at i:125018 original size:41 final size:41
Alignment explanation
Indices: 124931--125021 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 41
124921 AGATCAGATT
*
124931 TATATAAAAATATTTTTTTTAATTCAAATTAATTTGAATTAC
1 TATATAAAAATA-TTTTTTTAATTCAAATTAATTTGAAATAC
*
124973 TATATAATAAATA-TTTTTTAATTTAAATTTAATTAT-AAATA-
1 TATATAA-AAATATTTTTTTAATTCAAA-TTAATT-TGAAATAC
125014 TATATAAA
1 TATATAAA
125022 TATTAATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
40 1 0.02
41 20 0.45
42 17 0.39
43 6 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (41 bp):
TATATAAAAATATTTTTTTAATTCAAATTAATTTGAAATAC
Found at i:125283 original size:11 final size:12
Alignment explanation
Indices: 125267--125314 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
125257 AAATATTTTT
125267 TAATTA-AAATA
1 TAATTATAAATA
125278 TAATTATAAA-A
1 TAATTATAAATA
125289 T-A-TATAAATA
1 TAATTATAAATA
125299 TTAATT-TAAATA
1 -TAATTATAAATA
125311 TAAT
1 TAAT
125315 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 13 0.41
12 10 0.31
13 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATTATAAATA
Found at i:125296 original size:22 final size:20
Alignment explanation
Indices: 125273--125312 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
125263 TTTTTAATTA
125273 AAATA-TAATTATAAAATATAT
1 AAATATTAATT-T-AAATATAT
125294 AAATATTAATTTAAATATA
1 AAATATTAATTTAAATATA
125313 ATATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATTAATTTAAATATAT
Found at i:125382 original size:274 final size:279
Alignment explanation
Indices: 124884--125388 Score: 783
Period size: 274 Copynumber: 1.8 Consensus size: 279
124874 TTTTTGGGTA
* * * *
124884 TTTGACAGATTTATTTAAAAGTTGATCGATTTGAATTAGATCAGATTTATATAAAAATATTTTTT
1 TTTGACAGATTTATCTAAAAGTTGATCGAATTAAATTAAATCAGA-TTATAT-AAAATATTTTTT
* *
124949 TTAATTCAAATTAATTTGAATTACTATATAATAAATATTTTTTAATTTAAATTTAATTATAAATA
64 TTAATTCAAATTAATTTGAATTACTATATAATAAATATTTTTTAATTAAAATATAATTATAAATA
* *
125014 TATATAAATATTAATTTAAATAAATTTTTTTTATTATTTTAACATTTATTCAATAATAATATGAA
129 TATATAAATATTAATTTAAATAAA-TTATTTTATTATTTTAACATTTATTCAATAATAATATAAA
125079 TTTTTAAATAAATTCAAACTTGAATAAAAAAATAAATAGGACAAAGTGAATGATATAATGTGCGG
193 TTTTTAAATAAATTCAAACTTGAATAAAAAAATAAATAGGACAAAGTGAATGATATAATGTGCGG
125144 AGTTACTACAATATTCTTGATC
258 AGTTACTACAATATTCTTGATC
125166 TTTGACAGATTTATCTAAAAGTTGATC-AATTAAATTAAATCAGA-T-T-T-AAATATTTTTTTT
1 TTTGACAGATTTATCTAAAAGTTGATCGAATTAAATTAAATCAGATTATATAAAATATTTTTTTT
*
125226 CAATTCAAATTTATTTGAATTACTATATAATAAATATTTTTTAATTAAAATATAATTATAAA-AT
66 -AATTCAAATTAATTTGAATTACTATATAATAAATATTTTTTAATTAAAATATAATTATAAATAT
* *
125290 ATATAAATATTAATTTAAATATAA-TATTTTATTATTTTAATATTTATTTAATAATAATATAAAT
130 ATATAAATATTAATTTAAATA-AATTATTTTATTATTTTAACATTTATTCAATAATAATATAAAT
* *
125354 TTTTAAATAAATTCACACTT-ATATAAAAATATAAA
194 TTTTAAATAAATTCAAACTTGA-ATAAAAAAATAAA
125389 AATATTTAAA
Statistics
Matches: 207, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
273 1 0.00
274 67 0.32
275 36 0.17
276 60 0.29
277 1 0.00
278 1 0.00
279 1 0.00
281 14 0.07
282 26 0.13
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (279 bp):
TTTGACAGATTTATCTAAAAGTTGATCGAATTAAATTAAATCAGATTATATAAAATATTTTTTTT
AATTCAAATTAATTTGAATTACTATATAATAAATATTTTTTAATTAAAATATAATTATAAATATA
TATAAATATTAATTTAAATAAATTATTTTATTATTTTAACATTTATTCAATAATAATATAAATTT
TTAAATAAATTCAAACTTGAATAAAAAAATAAATAGGACAAAGTGAATGATATAATGTGCGGAGT
TACTACAATATTCTTGATC
Found at i:125815 original size:24 final size:24
Alignment explanation
Indices: 125788--125861 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
125778 TTTTTGTTTA
*
125788 ATATAATAAATAAATTTATATAAT
1 ATATAATAAATAAATTAATATAAT
* *
125812 ATATAA-AAATTAATTAATTTAAAT
1 ATATAATAAATAAATTAATAT-AAT
* *
125836 ATTTCAATAAATACA-TAATATAAT
1 ATAT-AATAAATAAATTAATATAAT
125860 AT
1 AT
125862 TTATTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
23 11 0.28
24 17 0.43
25 7 0.17
26 5 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATAATAAATAAATTAATATAAT
Found at i:128267 original size:34 final size:34
Alignment explanation
Indices: 128224--128406 Score: 188
Period size: 34 Copynumber: 5.4 Consensus size: 34
128214 AAGATAGTAG
* * **
128224 TGTTGATTAAATGGGTGATTTGGTGGTTTGTCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
128258 TGTTGATTAAATGAGAGATTTGGTAACTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * **
128292 TATTGATTAAATGAGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
128326 TATTGATTAAATGGGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * * * *
128360 TGTTGACTAAAT-GATAGATTTGGTAGGTTGCTAT
1 TGTTGATTAAATGGGT-GATTTGGTAGCTTACCAT
128394 TGTTGATTAAATG
1 TGTTGATTAAATG
128407 ATGGTTTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
33 2 0.02
34 124 0.98
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (34 bp):
TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
Found at i:131142 original size:34 final size:34
Alignment explanation
Indices: 131080--131168 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
131070 TGAGTCTGAA
*
131080 GCTTACCA-TATTGATTAAATGGGTGATTTGGT-G
1 GCTTACCATTGTTGATTAAAT-GGTGATTTGGTAG
*
131113 GCTTACCATTGTTGACTAAATGGTAGATTTGGTAG
1 GCTTACCATTGTTGATTAAATGGT-GATTTGGTAG
*
131148 G-TTGCCATTGTTGATTAAATG
1 GCTTACCATTGTTGATTAAATG
131169 ATGGTTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 11 0.22
34 36 0.73
35 2 0.04
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (34 bp):
GCTTACCATTGTTGATTAAATGGTGATTTGGTAG
Found at i:132386 original size:13 final size:13
Alignment explanation
Indices: 132351--132379 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
132341 TAATTCTTAG
132351 AAAAATGAAAACA
1 AAAAATGAAAACA
132364 AAAAATGAAAA-A
1 AAAAATGAAAACA
132376 AAAA
1 AAAA
132380 TTGGAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAATGAAAACA
Found at i:133123 original size:28 final size:28
Alignment explanation
Indices: 133076--133142 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
133066 GTTTATATCG
133076 TATTTTTAT-TTATATATATA-TTTAAAT
1 TATTTTTATGTTATATATATACTTT-AAT
*
133103 TAATTTTTATGTTATGT-TATACTTTAAT
1 T-ATTTTTATGTTATATATATACTTTAAT
*
133131 TTTTTTTATGTT
1 TATTTTTATGTT
133143 GTGCTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 11 0.31
28 16 0.46
29 8 0.23
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (28 bp):
TATTTTTATGTTATATATATACTTTAAT
Found at i:133142 original size:22 final size:22
Alignment explanation
Indices: 133102--133161 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
133092 TATATTTAAA
133102 TTAATTTTTATGTTATGTTATACT
1 TTAATTTTT-T-TTATGTTATACT
* *
133126 TTAATTTTTTTTATGTTGTGCT
1 TTAATTTTTTTTATGTTATACT
* *
133148 TCAATTTATTTTAT
1 TTAATTTTTTTTAT
133162 ATTTTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 22 0.69
23 1 0.03
24 9 0.28
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (22 bp):
TTAATTTTTTTTATGTTATACT
Found at i:133272 original size:19 final size:20
Alignment explanation
Indices: 133248--133289 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
133238 CATTAATATA
*
133248 AATATAA-TGTTTAAATTTT
1 AATATAATTCTTTAAATTTT
*
133267 AATATAATTCTTTCAATTTT
1 AATATAATTCTTTAAATTTT
133287 AAT
1 AAT
133290 TTTAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (20 bp):
AATATAATTCTTTAAATTTT
Found at i:133371 original size:5 final size:5
Alignment explanation
Indices: 133347--133425 Score: 51
Period size: 5 Copynumber: 16.0 Consensus size: 5
133337 GACATATTAA
* *
133347 TATATT TATAT TATGTT TATAT TAT-T T-T-T TATAT TATAT TATAT TTTAT
1 TATA-T TATAT TAT-AT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* *
133396 T-TAT T-TAT CAATAT TATAT TCATAT AATAT
1 TATAT TATAT -TATAT TATAT T-ATAT TATAT
133426 CTTACTTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.05
4 10 0.16
5 33 0.54
6 15 0.25
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:133379 original size:23 final size:25
Alignment explanation
Indices: 133340--133403 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
133330 AATTTTTGAC
* *
133340 ATATTAATATATTTATATTATGTT-T
1 ATATT-ATTTATTTATATTATATTAT
133365 ATATTATTT-TTTATATTATATTAT
1 ATATTATTTATTTATATTATATTAT
*
133389 ATTTTATTTATTTAT
1 ATATTATTTATTTAT
133404 CAATATTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.35
24 12 0.35
25 10 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (25 bp):
ATATTATTTATTTATATTATATTAT
Found at i:133864 original size:13 final size:13
Alignment explanation
Indices: 133786--133865 Score: 63
Period size: 13 Copynumber: 6.1 Consensus size: 13
133776 TTTTCGCATT
133786 ATATTTATTATAA
1 ATATTTATTATAA
** *
133799 TTATAAATATAATAA
1 --ATATTTATTATAA
*
133814 ATA-ATATTATAA
1 ATATTTATTATAA
* *
133826 TTAATTATTATAA
1 ATATTTATTATAA
*
133839 ATATTAATTATAA
1 ATATTTATTATAA
*
133852 ATATTTATAATAA
1 ATATTTATTATAA
133865 A
1 A
133866 AAATTAAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
12 10 0.19
13 33 0.62
15 10 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTATTATAA
Found at i:134148 original size:40 final size:41
Alignment explanation
Indices: 134104--134197 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
134094 GTATTATTAT
*
134104 TTTTTTAAATTTAA-A-AATAATTTATTTATCTCTTTAAAA-A
1 TTTTTTAAATTTAATATAA-AATATATTTAT-TCTTTAAAATA
*
134144 TTTTTTAAATTTAATATAAAATATATTTATTTTTTAAAATA
1 TTTTTTAAATTTAATATAAAATATATTTATTCTTTAAAATA
134185 TTATTTATAAATT
1 TT-TTT-TAAATT
134198 AATTTTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
40 22 0.47
41 14 0.30
42 5 0.11
43 6 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (41 bp):
TTTTTTAAATTTAATATAAAATATATTTATTCTTTAAAATA
Found at i:135279 original size:2 final size:2
Alignment explanation
Indices: 135272--135326 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
135262 ACGTGAGTAC
135272 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
135314 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
135327 GTCTGAAGGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:136375 original size:27 final size:28
Alignment explanation
Indices: 136336--136395 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
136326 AAAAAATGAA
*
136336 AAAAAATTGTAAAAAAAT-T-TAAAATT
1 AAAAAATTATAAAAAAATCTATAAAATT
136362 CAAAAAATTATAAAAAAATCTATAAAATT
1 -AAAAAATTATAAAAAAATCTATAAAATT
136391 AAAAA
1 AAAAA
136396 TAAATTCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 17 0.57
28 6 0.20
29 7 0.23
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAAAATTATAAAAAAATCTATAAAATT
Found at i:136468 original size:10 final size:10
Alignment explanation
Indices: 136440--136494 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
136430 ATTCAAAAAT
*
136440 TAAAATTATT
1 TAAAATTATA
136450 TAAAA-TATA
1 TAAAATTATA
136459 TAAAATTATA
1 TAAAATTATA
*
136469 AAAAATT-TA
1 TAAAATTATA
*
136478 -AAAATATAAA
1 TAAAAT-TATA
136488 TAAAATT
1 TAAAATT
136495 CAAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 5 0.13
9 11 0.29
10 17 0.45
11 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAATTATA
Found at i:136470 original size:17 final size:17
Alignment explanation
Indices: 136434--136487 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
136424 TAAAAAATTC
136434 AAAAAT-TAAAATTATTTA
1 AAAAATATAAAATTA--TA
*
136452 AAATATATAAAATTATA
1 AAAAATATAAAATTATA
* *
136469 AAAAATTTAAAAATATA
1 AAAAATATAAAATTATA
136486 AA
1 AA
136488 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 18 0.58
18 5 0.16
19 8 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATATAAAATTATA
Found at i:136492 original size:21 final size:21
Alignment explanation
Indices: 136466--136509 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
136456 ATATAAAATT
* *
136466 ATAAAAAATTTAAAAATATAA
1 ATAAAAAATTCAAAAAAATAA
136487 AT--AAAATTCAAAAAAATAA
1 ATAAAAAATTCAAAAAAATAA
136506 ATAA
1 ATAA
136510 TCTATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
19 17 0.89
21 2 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAAAAATTCAAAAAAATAA
Found at i:136502 original size:64 final size:61
Alignment explanation
Indices: 136378--136542 Score: 149
Period size: 64 Copynumber: 2.6 Consensus size: 61
136368 ATTATAAAAA
* *
136378 AATCTA-TAAAATTAAAAATAAATTCTAAAAGTTTTAAAAATAAAAATAAAAAATTCAAAAATTA
1 AATCTATTAAAA-T-AAAA-AAATT-TAAAA-ATTTAAAAATAAAAAT-AAAAATTCAAAAATAA
136442 A-
60 AT
* *
136443 AAT-TATTTAAAATATATAAAATTATAAAAAATTTAAAAATATAAAT-AAAATTCAAAAAAATAA
1 AATCTA-TTAAAATA-AAAAAATT-T-AAAAATTTAAAAATAAAAATAAAAATTC--AAAAATAA
136506 AT
60 AT
*
136508 AATCTATTAAATTAAAAAAATTTAAAAATTTAAAA
1 AATCTATTAAAATAAAAAAATTTAAAAATTTAAAA
136543 TTTTATAGAT
Statistics
Matches: 85, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
62 19 0.22
63 1 0.01
64 38 0.45
65 20 0.24
66 7 0.08
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.32
Consensus pattern (61 bp):
AATCTATTAAAATAAAAAAATTTAAAAATTTAAAAATAAAAATAAAAATTCAAAAATAAAT
Found at i:136563 original size:19 final size:18
Alignment explanation
Indices: 136536--136603 Score: 84
Period size: 19 Copynumber: 3.7 Consensus size: 18
136526 AATTTAAAAA
* *
136536 TTTAAAATTTTATAGATTT
1 TTTATAATTTT-TTGATTT
136555 TTTATAATTTTTTGATTT
1 TTTATAATTTTTTGATTT
*
136573 TTT-GAATTTTTTGAATTT
1 TTTATAATTTTTTG-ATTT
136591 TTTATAATTTTTT
1 TTTATAATTTTTT
136604 AAATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.21
18 16 0.37
19 18 0.42
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTATAATTTTTTGATTT
Found at i:136608 original size:9 final size:9
Alignment explanation
Indices: 136540--136609 Score: 70
Period size: 9 Copynumber: 7.7 Consensus size: 9
136530 TAAAAATTTA
*
136540 AAATTTTAT
1 AAATTTTTT
*
136549 AGATTTTTT
1 AAATTTTTT
136558 ATAATTTTTT
1 A-AATTTTTT
*
136568 -GATTTTTT
1 AAATTTTTT
*
136576 GAATTTTTT
1 AAATTTTTT
*
136585 GAATTTTTT
1 AAATTTTTT
136594 ATAATTTTTT
1 A-AATTTTTT
136604 AAATTT
1 AAATTT
136610 AAAAATTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
8 7 0.13
9 29 0.56
10 16 0.31
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (9 bp):
AAATTTTTT
Found at i:138586 original size:13 final size:14
Alignment explanation
Indices: 138568--138596 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
138558 TAATAAAATG
138568 ATTCAT-AACAATT
1 ATTCATCAACAATT
138581 ATTCATCAACAATT
1 ATTCATCAACAATT
138595 AT
1 AT
138597 GTATTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTCATCAACAATT
Found at i:143089 original size:2 final size:2
Alignment explanation
Indices: 143084--143115 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
143074 AATCTCTATT
143084 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
143116 ATTCTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:144483 original size:26 final size:26
Alignment explanation
Indices: 144454--144518 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
144444 TCTATTGGGT
144454 TTTTAAATTTAGTTATCT-AATTTAAA
1 TTTTAAATTTA-TTATCTAAATTTAAA
**
144480 TTTTAAAAAATATTATCTAAAATTTAAA
1 TTTT-AAATTTATTATCT-AAATTTAAA
144508 TTTTAAATTTA
1 TTTTAAATTTA
144519 AATTATGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 10 0.31
27 10 0.31
28 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTTAAATTTATTATCTAAATTTAAA
Found at i:145657 original size:19 final size:19
Alignment explanation
Indices: 145629--145665 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
145619 TCTTTAATCT
*
145629 TTGTTAATATGTATATATA
1 TTGTTAATATATATATATA
*
145648 TTGTTTATATATATATAT
1 TTGTTAATATATATATAT
145666 TTACATATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TTGTTAATATATATATATA
Found at i:147733 original size:19 final size:20
Alignment explanation
Indices: 147682--147733 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
147672 ATTAAACCAG
147682 TTTTGAAAATTTTCATTTAT
1 TTTTGAAAATTTTCATTTAT
* *
147702 TTTCGAAATTTTTCATTT-T
1 TTTTGAAAATTTTCATTTAT
*
147721 TTTTAAAAATTTT
1 TTTTGAAAATTTT
147734 TTTGTTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTGAAAATTTTCATTTAT
Found at i:147750 original size:164 final size:165
Alignment explanation
Indices: 147580--147889 Score: 377
Period size: 165 Copynumber: 1.9 Consensus size: 165
147570 TTCGATAGAG
147580 AAATAC-GAGCTTTTCT-TTACT-TGTAAAACTTTTG-GTAGGATTTTT-TTGAATTTTA-AA-T
1 AAATACGGAG-TTTTCTATT-CTGTG-AAAACTTTTGAG-AGGATTTTTCTTG--TTTTATAATT
* * **
147638 ATTAAAATTATTCAAATATTATTATTTAATTAATATTAAACCAGTTTTGAAAATTTTCATTTATT
60 ATTAAAATTATTCAAATATTATCATTTAATTAATAGTAAACCA-TTTTGAAAAAATTCATTTATT
147703 TTCGA-AA-TTTTTCATTTTTTTTAAAAATTTTTTTGTTTTCA
124 TT-GATAATTTTTTCATTTTTTTTAAAAATTTTTTTGTTTTCA
* * * *
147744 AAATACGGAGTTTTCTATTCTGTGAATATTTTTGAGGGGATTTTTCTTGTTTTATAATTTTTAAA
1 AAATACGGAGTTTTCTATTCTGTGAAAACTTTTGAGAGGATTTTTCTTGTTTTATAATTATTAAA
* * * *
147809 ATTCTTCAAATATTATCATTTAATTAATAGTAAATCATTTTTAAAAAATTCATTTATTTTTATAA
66 ATTATTCAAATATTATCATTTAATTAATAGTAAACCATTTTGAAAAAATTCATTTATTTTGATAA
147874 TTTTTTCATTTTTTTT
131 TTTTTTCATTTTTTTT
147890 GAAATTCTCC
Statistics
Matches: 125, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
163 6 0.05
164 54 0.43
165 65 0.52
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (165 bp):
AAATACGGAGTTTTCTATTCTGTGAAAACTTTTGAGAGGATTTTTCTTGTTTTATAATTATTAAA
ATTATTCAAATATTATCATTTAATTAATAGTAAACCATTTTGAAAAAATTCATTTATTTTGATAA
TTTTTTCATTTTTTTTAAAAATTTTTTTGTTTTCA
Found at i:147973 original size:164 final size:164
Alignment explanation
Indices: 147616--147976 Score: 397
Period size: 164 Copynumber: 2.2 Consensus size: 164
147606 AACTTTTGGT
* * * * * * *
147616 AGGATTTTTTTGAATTTTAAATATTAAAATTATTCAAATATTATTATTTAATTAATATTAAACCA
1 AGGATTTTTCTCAATTTAAAATTTTAAAATTCTTCAAATATTATCATTTAATTAATAGTAAACCA
** * ** *
147681 GTTTTGAAAATTTTCATTTATTTTCGAAATTTTTCATTTTTTTTAAAAATTTTTTTGTTTTCAAA
66 GTTTTGAAAAAATTCATTTATTTTCGAAATTTTTCATTTTTTTTAAAAATTCTCCTATTTTCAAA
* * ** *
147746 ATACGGAGTTTTCTATTCTGTGAATATTTTTGAG
131 AAACGAAGTTTTCTATTCCATAAATATTTTTGAG
* *** * *
147780 GGGATTTTTCTTGTTTTATAATTTTTAAAATTCTTCAAATATTATCATTTAATTAATAGTAAATC
1 AGGATTTTTCTCAATTTA-AAATTTTAAAATTCTTCAAATATTATCATTTAATTAATAGTAAACC
* * *
147845 A-TTTTTAAAAAATTCATTTATTTT-TATAATTTTTTCATTTTTTTT-GAAATTCTCCTA-TTTC
65 AGTTTTGAAAAAATTCATTTATTTTCGA-AA-TTTTTCATTTTTTTTAAAAATTCTCCTATTTTC
*
147906 TAAAAAACTAAGTTTTCTATTCCATAAATATTTTTGAG
128 -AAAAAACGAAGTTTTCTATTCCATAAATATTTTTGAG
147944 AGGATTTTTCTCAATTTAAAATCTTTAAAATTC
1 AGGATTTTTCTCAATTTAAAAT-TTTAAAATTC
147977 ATCTAACATT
Statistics
Matches: 160, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
163 8 0.05
164 96 0.60
165 56 0.35
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (164 bp):
AGGATTTTTCTCAATTTAAAATTTTAAAATTCTTCAAATATTATCATTTAATTAATAGTAAACCA
GTTTTGAAAAAATTCATTTATTTTCGAAATTTTTCATTTTTTTTAAAAATTCTCCTATTTTCAAA
AAACGAAGTTTTCTATTCCATAAATATTTTTGAG
Found at i:148523 original size:12 final size:11
Alignment explanation
Indices: 148500--148532 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
148490 TTAATTTAAC
148500 TCAAAT-AAAA
1 TCAAATAAAAA
148510 TCAAATTAAAAA
1 TCAAA-TAAAAA
148522 TCAAATAAAAA
1 TCAAATAAAAA
148533 AATCATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 7 0.33
12 9 0.43
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (11 bp):
TCAAATAAAAA
Found at i:150391 original size:148 final size:147
Alignment explanation
Indices: 150082--150504 Score: 485
Period size: 148 Copynumber: 2.9 Consensus size: 147
150072 GGTTACTGAG
** *
150082 GGTACGTATTAGGCATAGGTTCATTTTTCCTTTTCAAGTCTTTTA-GGTTACTGAGATATTTTCA
1 GGTACGTATTAGGTGTAGGTTCACTTTTCCTTTTCAAGTCTTTTAGGGTTACTGAGATATTTTCA
* * * * *
150146 TGTCAAAGGTATACCCATAGGGGCA-TTTCGTATTTTTTTTGAACTGAGTCCTAATTTGTCACTA
66 TGTCGAAGGTATACCCATAAGGGCATTTTCGTAATTTTTTAGAACTGAGTCCTAGTTTGTCACTA
* *
150210 GGTTACTTCTATGCCGA
131 GGTCACTTCTATGCCAA
* * *
150227 GAGTACATATTAGGTGTAGGTTCACTTTTCCTTTTCAATTCTTTTAGGGTTACCGAGATATTTTC
1 G-GTACGTATTAGGTGTAGGTTCACTTTTCCTTTTCAAGTCTTTTAGGGTTACTGAGATATTTTC
* * * * *
150292 ATGTTGAAGGTATACCCATAAGGGTATTTTTGTAATTATTTAGAATTGAGTCCTAGTTTGTCA-T
65 ATGTCGAAGGTATACCCATAAGGGCATTTTCGTAATTTTTTAGAACTGAGTCCTAGTTTGTCACT
* * *
150356 CGGGTCGCTTCTATGCTAA
130 -AGGTCACTTCTATGCCAA
** * * *
150375 TGGTACGTATTAGGTGTAGGTTTGCTTTTCCTTCTT-AAGTCTTTTAGAGTTACTAAGATACTTT
1 -GGTACGTATTAGGTGTAGGTTCACTTTTCCTT-TTCAAGTCTTTTAGGGTTACTGAGATATTTT
* * * * * *
150439 CATATCGAAGTTATATCCATAAGGGCATTTTCATAATTTTGTTAGAACTGAGTCTTAGTTTCTCA
64 CATGTCGAAGGTATACCCATAAGGGCATTTTCGTAATTTT-TTAGAACTGAGTCCTAGTTTGTCA
150504 C
128 C
150505 CAAGTTAATT
Statistics
Matches: 230, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
145 1 0.00
146 39 0.17
147 40 0.17
148 126 0.55
149 24 0.10
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (147 bp):
GGTACGTATTAGGTGTAGGTTCACTTTTCCTTTTCAAGTCTTTTAGGGTTACTGAGATATTTTCA
TGTCGAAGGTATACCCATAAGGGCATTTTCGTAATTTTTTAGAACTGAGTCCTAGTTTGTCACTA
GGTCACTTCTATGCCAA
Found at i:152557 original size:38 final size:39
Alignment explanation
Indices: 152515--152602 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
152505 CTGAACGGCA
*
152515 TATTTTCTT-TCGAAATCATGGATATCTCCTGTTTTGTT
1 TATTTTCTTGTCGAAATCATGGATATCTCCAGTTTTGTT
* *
152553 TATTTTTTTGTCTAAATCATGGATATCTCCAGTTTTGTT
1 TATTTTCTTGTCGAAATCATGGATATCTCCAGTTTTGTT
*
152592 T-TTTTTTTGTC
1 TATTTTCTTGTC
152603 CAATAATCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 18 0.39
39 28 0.61
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.57
Consensus pattern (39 bp):
TATTTTCTTGTCGAAATCATGGATATCTCCAGTTTTGTT
Found at i:152571 original size:39 final size:38
Alignment explanation
Indices: 152527--152602 Score: 134
Period size: 39 Copynumber: 2.0 Consensus size: 38
152517 TTTTCTTTCG
*
152527 AAATCATGGATATCTCCTGTTTTGTTTATTTTTTTGTCT
1 AAATCATGGATATCTCCAGTTTTGTTT-TTTTTTTGTCT
152566 AAATCATGGATATCTCCAGTTTTGTTTTTTTTTTGTC
1 AAATCATGGATATCTCCAGTTTTGTTTTTTTTTTGTC
152603 CAATAATCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 10 0.28
39 26 0.72
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.55
Consensus pattern (38 bp):
AAATCATGGATATCTCCAGTTTTGTTTTTTTTTTGTCT
Found at i:153018 original size:2 final size:2
Alignment explanation
Indices: 153011--153037 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
153001 ATGCTCAATG
153011 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 A
153038 ACACCTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:155153 original size:19 final size:19
Alignment explanation
Indices: 155129--155182 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
155119 TCATTATTTC
155129 AAAATCATTTATCTTTTAT
1 AAAATCATTTATCTTTTAT
*
155148 AAAATCA-TTA---TTT-C
1 AAAATCATTTATCTTTTAT
155162 AAAATCATTTATCTTTTAT
1 AAAATCATTTATCTTTTAT
155181 AA
1 AA
155183 GCCATGTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 7 0.25
15 6 0.21
18 6 0.21
19 9 0.32
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATCATTTATCTTTTAT
Found at i:155161 original size:33 final size:33
Alignment explanation
Indices: 155119--155182 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
155109 TGAATAAGCT
155119 TCATTATTTCAAAATCATTTATCTTTTATAAAA
1 TCATTATTTCAAAATCATTTATCTTTTATAAAA
155152 TCATTATTTCAAAATCATTTATCTTTTATAA
1 TCATTATTTCAAAATCATTTATCTTTTATAA
155183 GCCATGTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (33 bp):
TCATTATTTCAAAATCATTTATCTTTTATAAAA
Found at i:155167 original size:14 final size:14
Alignment explanation
Indices: 155119--155170 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
155109 TGAATAAGCT
155119 TCATTATTTCAAAA
1 TCATTATTTCAAAA
*
155133 TCATTTATCTTTTATAAAA
1 TCA-TTA---TTT-CAAAA
155152 TCATTATTTCAAAA
1 TCATTATTTCAAAA
155166 TCATT
1 TCATT
155171 TATCTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 12 0.39
15 6 0.19
18 6 0.19
19 7 0.23
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.48
Consensus pattern (14 bp):
TCATTATTTCAAAA
Found at i:156953 original size:19 final size:19
Alignment explanation
Indices: 156929--156977 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
156919 ATTGTGCATA
*
156929 TATCGATACAATGA-ACATG
1 TATCGATACAATCATA-ATG
156948 TATCGATACAAATCATAATG
1 TATCGATAC-AATCATAATG
156968 TATCGATACA
1 TATCGATACA
156978 TCTGGATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (19 bp):
TATCGATACAATCATAATG
Found at i:163109 original size:3 final size:3
Alignment explanation
Indices: 163101--163134 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
163091 TCTGAGTCAA
* *
163101 CAT CAT CAT CAT CAT CAT TAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
163135 GTCTTTGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:167376 original size:52 final size:52
Alignment explanation
Indices: 167306--167426 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
167296 GAAAATTTAT
*
167306 CTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGC
167358 CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
*
167410 GTGCATGTATCGATACA
1 CTGCATGTATCGATACA
167427 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 63 0.95
53 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
Found at i:167439 original size:52 final size:50
Alignment explanation
Indices: 167306--167446 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 50
167296 GAAAATTTAT
*
167306 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGC
*
167358 CTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGCAAATTTGC
*
167410 GTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
167447 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 76 0.94
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (50 bp):
CTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:167453 original size:13 final size:13
Alignment explanation
Indices: 167435--167459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167425 CAAAGATCAG
167435 TGTATCGATACAA
1 TGTATCGATACAA
167448 TGTATCGATACA
1 TGTATCGATACA
167460 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:168272 original size:20 final size:19
Alignment explanation
Indices: 168243--168280 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
168233 TTGCCAGTTT
168243 CATGTATCGATACAATTGTG
1 CATGTATCGATAC-ATTGTG
*
168263 CATGTCTCGATACATTGT
1 CATGTATCGATACATTGT
168281 ATCGATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (19 bp):
CATGTATCGATACATTGTG
Found at i:168990 original size:149 final size:146
Alignment explanation
Indices: 168816--169360 Score: 540
Period size: 149 Copynumber: 3.7 Consensus size: 146
168806 CTAAGGGACA
* * * * *
168816 TAAAAAAGAAAAGCT-AACCTATGCCTAATACGTACCCTCAGTATAGAAGCGACTCGGTGACAAA
1 TAAAAAGGAAAAG-TGAACCTACGCCTAATACATACCCTCAGCATAGAAGTGACTCGGTGACAAA
* *
168880 TTAAGACTTAATTCTAAAATAATTACGAAAATATCC-CTATAGATATACCTTTGACATGAAAATA
65 TTAAGACTTGATTCTAAAA-AATTACAAAAATA-CCTCTATAGATATA-CTTTGACATGAAAATA
*
168944 TCCCGTTAACCCTAAAAGACT
127 TCCCG-TAATCCTAAAAGACT
* ** * * *
168965 TAAAAAGAAAAAGTGAACCTGTGCCTAATACATACCCTTAGCATAGAAATGACTCGGTGATAAAT
1 TAAAAAGGAAAAGTGAACCTACGCCTAATACATACCCTCAGCATAGAAGTGACTCGGTGACAAAT
* * * ** *
169030 T-AGAACTCGGTTCTAAAAAAGTTACAAAAATACCTTTATA-ATTATATCTTCAACATAAAAATA
66 TAAG-ACTTGATTCTAAAAAA-TTACAAAAATACCTCTATAGA-TATA-CTTTGACATGAAAATA
* *
169093 TCCTAGTAATCCTAAAAGAAT
127 TCC-CGTAATCCTAAAAGACT
* ** * *
169114 TGACGAGGAAAAGTGAACCTACGCCTAATACATACCCTCGGCATAGAAGTGACTCAGTGACAAAT
1 TAAAAAGGAAAAGTGAACCTACGCCTAATACATACCCTCAGCATAGAAGTGACTCGGTGACAAAT
* * * * * * *
169179 TAGGACTTGATTCTAATAAAATTACTAAAATACCTTTATGGGTATACTTTCGATATGAAAGTATC
66 TAAGACTTGATTCTAA-AAAATTACAAAAATACCTCTATAGATATACTTT-GACATGAAAATATC
* *
169244 TCGATAATCCTAAAAAACT
129 CCG-TAATCCTAAAAGACT
* * * * * * * *
169263 TGAAAAGGAAACGTGAACGTACACCTAATACGTACCCTCAGCATATAAGTGACCCGATGACAAAT
1 TAAAAAGGAAAAGTGAACCTACGCCTAATACATACCCTCAGCATAGAAGTGACTCGGTGACAAAT
*
169328 TAGGACTTGATTCTAAAAAATTACAAAAATACC
66 TAAGACTTGATTCTAAAAAATTACAAAAATACC
169361 CTTAAGATGT
Statistics
Matches: 326, Mismatches: 59, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
148 28 0.09
149 292 0.90
150 6 0.02
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (146 bp):
TAAAAAGGAAAAGTGAACCTACGCCTAATACATACCCTCAGCATAGAAGTGACTCGGTGACAAAT
TAAGACTTGATTCTAAAAAATTACAAAAATACCTCTATAGATATACTTTGACATGAAAATATCCC
GTAATCCTAAAAGACT
Found at i:169666 original size:21 final size:21
Alignment explanation
Indices: 169641--169683 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
169631 AAGTTTATAT
169641 TTATTCATTTT-ATTTTGATTA
1 TTATTCATTTTCATTTT-ATTA
*
169662 TTATTTATTTTCATTTTATTA
1 TTATTCATTTTCATTTTATTA
169683 T
1 T
169684 AAAAAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTCATTTTCATTTTATTA
Found at i:170473 original size:22 final size:25
Alignment explanation
Indices: 170427--170483 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
170417 TCTAGTAATG
*
170427 AACATAAATCACCATAATAAAAATC
1 AACATAAATCACCATAAAAAAAATC
170452 AACATAAAT-A-CA-AAAAAAAATC
1 AACATAAATCACCATAAAAAAAATC
*
170474 AA-GTAAATCA
1 AACATAAATCA
170484 TCAAAATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 5 0.17
22 12 0.41
23 2 0.07
24 1 0.03
25 9 0.31
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.18
Consensus pattern (25 bp):
AACATAAATCACCATAAAAAAAATC
Found at i:170873 original size:22 final size:23
Alignment explanation
Indices: 170846--170895 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
170836 TCATGATTTT
170846 TTTGATTTGACTT-TTAATTAAA
1 TTTGATTTGACTTATTAATTAAA
*
170868 TTTGATTTGAGTTAAATTAATTAAA
1 TTTGATTTGACTT--ATTAATTAAA
170893 TTT
1 TTT
170896 ATCTTTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
25 12 0.50
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (23 bp):
TTTGATTTGACTTATTAATTAAA
Found at i:171558 original size:164 final size:166
Alignment explanation
Indices: 171386--171707 Score: 361
Period size: 164 Copynumber: 2.0 Consensus size: 166
171376 ATGTTAGATG
* * * * * *
171386 AATTTTAAAAATTTTAAATCGAGAAAAATCCCCTCAAAAATATTTATAGAATAGAAAA-GTCGGT
1 AATTTTAAAAAATATAAACCAAGAAAAATCCCCTCAAAAACATTTACAGAATAGAAAATGTC-GT
* ** *
171450 -TTTTCAAAAATAG-GGAATTTCAAAGAAAAA-A-GAAAAAATT-ATGAAA-ATAAATGAATTTT
65 ATTTT-AAAAACAGAAAAATTTCAAA-AAAAATATG-AAAAATTCATGAAATA-AAAGGAATTTT
*
171509 TCAAAACTGATTTACTATGAATTAAATGATAATGTTTGAAT
126 TCAAAACTGATTTAATATGAATTAAATGATAATGTTTGAAT
* ** * * *
171550 AATTTTAAAAAATATAAACCAAGAAAAATTCCCTTGAAAACATTTACGGAGTAGAAAATTTCGTA
1 AATTTTAAAAAATATAAACCAAGAAAAATCCCCTCAAAAACATTTACAGAATAGAAAATGTCGTA
*
171615 TTTTGAAAACAGAAAAATTTCAAAAAAAATATGAAAAATTCATGAAATAAAAGGAATTTTTCAAA
66 TTTTAAAAACAGAAAAATTTCAAAAAAAATATGAAAAATTCATGAAATAAAAGGAATTTTTCAAA
* * *
171680 ACTGGTTTAATGTGAGTTAAATGATAAT
131 ACTGATTTAATATGAATTAAATGATAAT
171708 ATCTGAAGAG
Statistics
Matches: 130, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
164 60 0.46
165 23 0.18
166 46 0.35
167 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (166 bp):
AATTTTAAAAAATATAAACCAAGAAAAATCCCCTCAAAAACATTTACAGAATAGAAAATGTCGTA
TTTTAAAAACAGAAAAATTTCAAAAAAAATATGAAAAATTCATGAAATAAAAGGAATTTTTCAAA
ACTGATTTAATATGAATTAAATGATAATGTTTGAAT
Found at i:173467 original size:20 final size:20
Alignment explanation
Indices: 173442--173490 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
173432 ACCTTTTTAT
*
173442 TTTTAAAAATTA-CTCACTTA
1 TTTTAAAAACTATC-CACTTA
*
173462 TTTTAAAAACTATCCATTTA
1 TTTTAAAAACTATCCACTTA
173482 TTTTAAAAA
1 TTTTAAAAA
173491 ATTCACCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAAACTATCCACTTA
Found at i:174717 original size:2 final size:2
Alignment explanation
Indices: 174704--174739 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
174694 AAAGACATAA
*
174704 AT AT AA 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
174740 TAGTAACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:177892 original size:19 final size:18
Alignment explanation
Indices: 177851--177886 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
177841 CGACACAAAT
*
177851 TTAAAATAATTTTTTTAA
1 TTAAAATAATTATTTTAA
177869 TTAAAATAATATATTTTA
1 TTAAAATAAT-TATTTTA
177887 TATAAATTTA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAATAATTATTTTAA
Found at i:177902 original size:21 final size:22
Alignment explanation
Indices: 177885--177926 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
177875 TAATATATTT
177885 TATATAAAT-TTAATTATAAAA
1 TATATAAATATTAATTATAAAA
177906 TATATAAATATTAA-TATAAAA
1 TATATAAATATTAATTATAAAA
177927 ATAATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATATAAATATTAATTATAAAA
Done.