Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001187.1 Kokia drynarioides strain JFW-HI SEQ_112522, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 74489
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Warning! 33 characters in sequence are not A, C, G, or T
Found at i:3667 original size:17 final size:16
Alignment explanation
Indices: 3640--3674 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3630 CTTTTAATTA
*
3640 TTAACTAAATCAATAT
1 TTAACTAAATCAACAT
3656 TTAACATAAATCAACAT
1 TTAAC-TAAATCAACAT
3673 TT
1 TT
3675 TCATTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAACTAAATCAACAT
Found at i:8618 original size:14 final size:14
Alignment explanation
Indices: 8599--8626 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8589 TATACAAAAA
8599 ATATTAATGATAAT
1 ATATTAATGATAAT
8613 ATATTAATGATAAT
1 ATATTAATGATAAT
8627 GATGAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
ATATTAATGATAAT
Found at i:10527 original size:13 final size:14
Alignment explanation
Indices: 10503--10535 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10493 TCTTAAACAA
10503 AATTTTTCAAAAAT
1 AATTTTTCAAAAAT
10517 AATTTTT-AAAAAT
1 AATTTTTCAAAAAT
10530 ATATTT
1 A-ATTT
10536 CTACAACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTTTCAAAAAT
Found at i:11210 original size:28 final size:29
Alignment explanation
Indices: 11166--11221 Score: 96
Period size: 28 Copynumber: 1.9 Consensus size: 29
11156 TTCATTACAC
11166 TATTAAAGTAAAATTTAAATATCAAATTTA
1 TATTAAAG-AAAATTTAAATATCAAATTTA
11196 TATTAAA-AAAATTTAAATATCAAATT
1 TATTAAAGAAAATTTAAATATCAAATT
11222 AGAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.73
30 7 0.27
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (29 bp):
TATTAAAGAAAATTTAAATATCAAATTTA
Found at i:11230 original size:27 final size:28
Alignment explanation
Indices: 11175--11233 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
11165 CTATTAAAGT
* **
11175 AAAATTTAAATATCAAATTTATATTAAA
1 AAAATTTAAATATCAAATTTAGAAAAAA
11203 AAAATTTAAATATCAAA-TTAGAAAAAA
1 AAAATTTAAATATCAAATTTAGAAAAAA
11230 AAAA
1 AAAA
11234 AGTACCAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAATTTAAATATCAAATTTAGAAAAAA
Found at i:23138 original size:16 final size:15
Alignment explanation
Indices: 23091--23145 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
23081 AAAATAAAAT
23091 TTAAAAAATTATTATA
1 TTAAAAAATT-TTATA
*
23107 -TAATAAATTTTA-A
1 TTAAAAAATTTTATA
23120 TTAAAATAATTTTATA
1 TTAAAA-AATTTTATA
*
23136 TTAATAAATT
1 TTAAAAAATT
23146 AAAAATCCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 7 0.21
15 19 0.58
16 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAAAATTTTATA
Found at i:25943 original size:43 final size:43
Alignment explanation
Indices: 25875--26100 Score: 328
Period size: 43 Copynumber: 5.3 Consensus size: 43
25865 TTTTGCGGAA
*
25875 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * * *
25918 AAACGCCGCTAAA-AACCATGATCTTTAGCAGCACTTTTACAAC
1 AAACGCCGCTAAAGAA-CATGGTCTTTAGCGGCGCTTTTCCCAC
*
25961 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * *
26004 AAACGCCGCTAAAGAACATGGTCTTTAGCGGTGCTTCTCCCCC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* *
26047 AAACGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
26090 AAACGCCGCTA
1 AAACGCCGCTA
26101 CCATTAACAA
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 2 0.01
43 157 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:29717 original size:123 final size:123
Alignment explanation
Indices: 29525--29758 Score: 333
Period size: 123 Copynumber: 1.9 Consensus size: 123
29515 TAAACGCCGC
* * * *
29525 TAATGCTTTGACCTTTAGCGGTGCTTTCTCATAAGCGCCGCTAATATTCTGACCTTTAGCGGTGA
1 TAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTAATACTCTGACCTTTAGCGGCGA
* * * **
29590 TTTCTTATAAGTGTCGCTAATGCTCTGACTTTTAGTGGCGCTTTCTTATATACGTAGG
66 TTTCTCATAAGCGCCGCTAATGCTCTGACTTTTAACGGCGCTTTCTTATATACGTAGG
* * * * *
29648 TAATGCTCTGACCTTTAGTGGCGCTTTCTCATAAGTGCCGCTAATGCTCTGACTTTTAGCGGCGC
1 TAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTAATACTCTGACCTTTAGCGGCGA
*
29713 TTTCTCATAGGCGCCGCTAATGCTCTGACTTTTAACGGCGCTTTCT
66 TTTCTCATAAGCGCCGCTAATGCTCTGACTTTTAACGGCGCTTTCT
29759 CATAGGTGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
123 96 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (123 bp):
TAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTAATACTCTGACCTTTAGCGGCGA
TTTCTCATAAGCGCCGCTAATGCTCTGACTTTTAACGGCGCTTTCTTATATACGTAGG
Found at i:29764 original size:41 final size:41
Alignment explanation
Indices: 29519--29762 Score: 283
Period size: 41 Copynumber: 6.0 Consensus size: 41
29509 TTTTCGTAAA
* *
29519 CGCCGCTAATGCTTTGACCTTTAGCGGTGCTTTCTCATAAG
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAG
** * * *
29560 CGCCGCTAATATTCTGACCTTTAGCGGTGATTTCTTATAAG
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAG
* * * * *
29601 TGTCGCTAATGCTCTGACTTTTAGTGGCGCTTTCTTATATA-
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATA-AG
** * *
29642 CGTAGGTAATGCTCTGACCTTTAGTGGCGCTTTCTCATAAG
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAG
* * *
29683 TGCCGCTAATGCTCTGACTTTTAGCGGCGCTTTCTCATAGG
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAG
* *
29724 CGCCGCTAATGCTCTGACTTTTAACGGCGCTTTCTCATA
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATA
29763 GGTGCTTAGC
Statistics
Matches: 174, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.01
41 172 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (41 bp):
CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATAAG
Found at i:31549 original size:57 final size:59
Alignment explanation
Indices: 31469--31595 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 59
31459 AGTTTACTTT
*
31469 AATCCTTTTAATGTTTTGCTTC-TTTT-AAAT-TTCCCCCTTTTATTCTGTTTTTTAAAATTA
1 AATCCTTTT-ATGTTTTGATTCTTTTTAAAATCTT--CCCTTTTATTCTGTTTTTT-AAATTA
* *
31529 AATCCTTTTAT-TTTT-ATTCTTTTTAAAATCTTCCTTTTTATTCTGTTTTTTAAATTT
1 AATCCTTTTATGTTTTGATTCTTTTTAAAATCTTCCCTTTTATTCTGTTTTTTAAATTA
31586 AATCCTTTTA
1 AATCCTTTTA
31596 CTATTATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
57 18 0.30
58 26 0.43
59 6 0.10
60 11 0.18
ACGTcount: A:0.22, C:0.15, G:0.03, T:0.60
Consensus pattern (59 bp):
AATCCTTTTATGTTTTGATTCTTTTTAAAATCTTCCCTTTTATTCTGTTTTTTAAATTA
Found at i:47660 original size:24 final size:24
Alignment explanation
Indices: 47633--47681 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
47623 TATTGCAAGG
*
47633 TATATTAATATATATATATATACA
1 TATACTAATATATATATATATACA
**
47657 TATACTCGTATATATATATATACA
1 TATACTAATATATATATATATACA
47681 T
1 T
47682 GTTTATCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (24 bp):
TATACTAATATATATATATATACA
Found at i:47714 original size:2 final size:2
Alignment explanation
Indices: 47709--47734 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47699 TTTTATTTTC
47709 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
47735 CACACACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48520 original size:30 final size:29
Alignment explanation
Indices: 48486--48577 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 29
48476 CGAGCTTCCC
*
48486 AAAAATTTAAATTTCACCCCTAAACTTTCA
1 AAAAATTTAAATTTGA-CCCTAAACTTTCA
** * *
48516 AAAAATGCATATTTGACCCTCAAACTTCCA
1 AAAAATTTAAATTTGACCCT-AAACTTTCA
* **
48546 AAAAATTTAGATTTGACCCTAAAAATTCA
1 AAAAATTTAAATTTGACCCTAAACTTTCA
48575 AAA
1 AAA
48578 TTTACCCTCA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 13 0.26
30 37 0.74
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAAATTTAAATTTGACCCTAAACTTTCA
Found at i:50807 original size:21 final size:21
Alignment explanation
Indices: 50781--50835 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
50771 CAGACTTCTT
* *
50781 AGTAAGATCAAAGCTTTAGGC
1 AGTAAGAGCAAAGCCTTAGGC
50802 AGTAAG-GCAAAGCCTTAGGC
1 AGTAAGAGCAAAGCCTTAGGC
50822 AGTAA-AGCAAAGCC
1 AGTAAGAGCAAAGCC
50836 ATTTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 25 0.81
21 6 0.19
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AGTAAGAGCAAAGCCTTAGGC
Found at i:54099 original size:11 final size:11
Alignment explanation
Indices: 54083--54147 Score: 85
Period size: 11 Copynumber: 5.8 Consensus size: 11
54073 AATTTCACCT
54083 AAAAAAAAGAA
1 AAAAAAAAGAA
54094 AAAAAAAAGAA
1 AAAAAAAAGAA
*
54105 AGAAAAAAGAA
1 AAAAAAAAGAA
* *
54116 AAAAGAAGGAA
1 AAAAAAAAGAA
*
54127 AAATGAAAAGAA
1 AAA-AAAAAGAA
54139 AAAAAAAAG
1 AAAAAAAAG
54148 GAGAGGTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
11 37 0.82
12 8 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:54119 original size:18 final size:18
Alignment explanation
Indices: 54092--54147 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
54082 TAAAAAAAAG
54092 AAAA-AAAAAAGAAAGAA
1 AAAAGAAAAAAGAAAGAA
*
54109 AAAAGAAAAAAGAAGGAA
1 AAAAGAAAAAAGAAAGAA
* *
54127 AAATG--AAAAGAAAAAA
1 AAAAGAAAAAAGAAAGAA
54143 AAAAG
1 AAAAG
54148 GAGAGGTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 13 0.39
17 4 0.12
18 16 0.48
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAGAA
Found at i:54128 original size:29 final size:29
Alignment explanation
Indices: 54083--54146 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
54073 AATTTCACCT
54083 AAAAAAAAGAAAAAAAAAAG-AAAGAAAA
1 AAAAAAAAGAAAAAAAAAAGAAAAGAAAA
** *
54111 AAGAAAAAAGAAGGAAAAATGAAAAGAAAA
1 AA-AAAAAAGAAAAAAAAAAGAAAAGAAAA
54141 AAAAAA
1 AAAAAA
54147 GGAGAGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 19 0.61
30 10 0.32
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (29 bp):
AAAAAAAAGAAAAAAAAAAGAAAAGAAAA
Found at i:54142 original size:7 final size:7
Alignment explanation
Indices: 54085--54122 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
54075 TTTCACCTAA
54085 AAAAAAG
1 AAAAAAG
*
54092 AAAAAAA
1 AAAAAAG
54099 AAAGAAAG
1 AAA-AAAG
54107 AAAAAAG
1 AAAAAAG
54114 AAAAAAG
1 AAAAAAG
54121 AA
1 AA
54123 GGAAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:55246 original size:49 final size:49
Alignment explanation
Indices: 55137--55269 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
55127 GGGAAAGATT
* * * *
55137 GAAGCCACAATGAGGAATCTTATACCCTAAAGATGAAGACGGAAATGTG
1 GAAGCCACAATGACGAACCTTATACCCTAAAGATGAAGAAGGAAATGTC
* *
55186 GAAGCCACAATGACGAACCTTATACCCTAGAGATG-TGAAGGAAATGGTC
1 GAAGCCACAATGACGAACCTTATACCCTAAAGATGAAGAAGGAAAT-GTC
* * * * *
55235 GAAGTCGCAATGATG-ACTTTTATACCCTGAAGATG
1 GAAGCCACAATGACGAAC-CTTATACCCTAAAGATG
55270 TAGAGAAGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 10 0.14
49 60 0.86
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (49 bp):
GAAGCCACAATGACGAACCTTATACCCTAAAGATGAAGAAGGAAATGTC
Found at i:55649 original size:46 final size:46
Alignment explanation
Indices: 55545--55689 Score: 163
Period size: 45 Copynumber: 3.2 Consensus size: 46
55535 CCCTGACTAT
* *
55545 GGGGCAGATTGAAGCCATCAT-CCAGT-TATTTACCCC-AAGTAAAGA
1 GGGGCAGATTGAAGCCA-CATACCAATCT-TTTACCCCTAAGTCAAGA
* * **
55590 GAGGCAAATTGAAGCTGCATACCAATCTTTTACCCCTAAGTCAAGA
1 GGGGCAGATTGAAGCCACATACCAATCTTTTACCCCTAAGTCAAGA
* **
55636 GGGGCAGATTGAAGCCACATTCTGATCTTTTACCCCT-AGTCAAGA
1 GGGGCAGATTGAAGCCACATACCAATCTTTTACCCCTAAGTCAAGA
55681 GGGGCAGAT
1 GGGGCAGAT
55690 CAAACCCCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
44 3 0.04
45 42 0.50
46 39 0.46
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (46 bp):
GGGGCAGATTGAAGCCACATACCAATCTTTTACCCCTAAGTCAAGA
Found at i:55798 original size:37 final size:37
Alignment explanation
Indices: 55748--55846 Score: 157
Period size: 37 Copynumber: 2.7 Consensus size: 37
55738 AAACAGTCAT
*
55748 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGC
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
*
55785 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGT
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
*
55822 CTTCCTAATGAG--ACAGAGAAGTGGA
1 CTTCCTGATGAGATACAGAGAAGTGGA
55847 TTAAATCAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 13 0.22
37 46 0.78
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
Found at i:56087 original size:85 final size:85
Alignment explanation
Indices: 55943--56354 Score: 305
Period size: 85 Copynumber: 5.0 Consensus size: 85
55933 CAAACCCCAT
* * * ** *
55943 CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGACCATCTTCCTTATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATAAAGCGGTCATCTTCCTGATGAGATACA
56008 GAGAAGTGGACCAAATCTGC
66 GAGAAGTGGACCAAATCTGC
* * * * *
56028 CTTCCTGATGAGATACAGAGAAATGAATTAAATTAATAAAGCGGTCATCTTCCTGATGAGATACG
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATAAAGCGGTCATCTTCCTGATGAGATACA
*
56093 GAGAAGTAGACCAAATCAATG-
66 GAGAAGTGGACCAAATC--TGC
*** * * * * * *
56114 -AAGC-GA--AGCT-CAATACAAATGAGA-C--TTC---AAA-C-CTCCATCTTCCTGATGAGAT
1 CTTCCTGATGAGATAC-AGAGAAGTG-GATCAAATCAATAAAGCGGT-CATCTTCCTGATGAGAT
* * * * *
56166 ATAGAGAAGTGGAGCGAATCCGT
63 ACAGAGAAGTGGACCAAATCTGC
* * * *** *
56189 CTTCCTGATGAGATATAG-GAAGTGGGTCAAAGCAATAAAATAGTCATCTTCCTAATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATAAAGCGGTCATCTTCCTGATGAGATACA
*
56253 GAGAAATGGACCAAATCTGC
66 GAGAAGTGGACCAAATCTGC
* * * * * *
56273 GTTCCTGATGAGACACAGAGAAGTGTATTAAATCAATGAAGCGTTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATAAAGCGGTCATCTTCCTGATGAGATACA
*
56338 GAGAAGTAGACCAAATC
66 GAGAAGTGGACCAAATC
56355 AATGAAACGA
Statistics
Matches: 243, Mismatches: 64, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
74 1 0.00
75 1 0.00
76 34 0.14
77 6 0.02
78 5 0.02
79 4 0.02
80 2 0.01
81 1 0.00
82 10 0.04
83 4 0.02
84 50 0.21
85 123 0.51
87 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATAAAGCGGTCATCTTCCTGATGAGATACA
GAGAAGTGGACCAAATCTGC
Found at i:56265 original size:245 final size:246
Alignment explanation
Indices: 55942--56423 Score: 779
Period size: 245 Copynumber: 2.0 Consensus size: 246
55932 TCAAACCCCA
* *
55942 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGACCATCTTCCTTATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAATGACCATCTTCCTAATGAGATAC
* * *
56007 AGAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAATGAATTAAATTAATAAAGCGG
66 AGAGAAATGGACCAAATCTGCCTTCCTGATGAGACACAGAGAAATGAATTAAATCAATAAAGCGG
* *
56072 TCATCTTCCTGATGAGATACGGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAG
131 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACAAATGAG
*
56137 ACTTCAAACCTCCATCTTCCTGATGAGATATAGAGAAGTGGAGCGAATCCG
196 ACTTCAAACCTCCATCTTCCTGATGAGATACAGAGAAGTGGAGCGAATCCG
* *
56188 TCTTCCTGATGAGATATAG-GAAGTGGGTCAAAGCAATAAAAT-AGTCATCTTCCTAATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAATGA-CCATCTTCCTAATGAGATA
* * * *
56251 CAGAGAAATGGACCAAATCTGCGTTCCTGATGAGACACAGAGAAGTGTATTAAATCAATGAAGCG
65 CAGAGAAATGGACCAAATCTGCCTTCCTGATGAGACACAGAGAAATGAATTAAATCAATAAAGCG
* * *
56316 TTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATTA
130 GTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACAAATGA
*
56381 GACTTCAAACCTCCATCTTCTTGATGAGATACAGAGAAGTGGA
195 GACTTCAAACCTCCATCTTCCTGATGAGATACAGAGAAGTGGA
56424 TGAAAGCAAT
Statistics
Matches: 217, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
244 1 0.00
245 198 0.91
246 18 0.08
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (246 bp):
TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAATGACCATCTTCCTAATGAGATAC
AGAGAAATGGACCAAATCTGCCTTCCTGATGAGACACAGAGAAATGAATTAAATCAATAAAGCGG
TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACAAATGAG
ACTTCAAACCTCCATCTTCCTGATGAGATACAGAGAAGTGGAGCGAATCCG
Found at i:56458 original size:209 final size:208
Alignment explanation
Indices: 56188--56563 Score: 560
Period size: 209 Copynumber: 1.8 Consensus size: 208
56178 AGCGAATCCG
* *
56188 TCTTCCTGATGAGATATAGGAAGTGGGTCAAAGCAATAAAATAGTCATCTTCCTAATGAGATACA
1 TCTTCCTGATGAGATACAGGAAGTGGATCAAAGCAATAAAATAGTCATCTTCCTAATGAGATACA
* * *
56253 GAGAAATGGACCAAATCTG-CGTTCCTGATGAGACACAGAGAAGTGTATTAAATCAATGAAGC-G
66 GAGAAATGGACCAAATCCGTC-TTCCTGATGAGACACAAAGAAGTGGATTAAATCAATGAAGCAG
*
56316 TTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATTA
130 -TCATCTTCCTGATAAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATTA
56381 GACTTCAAACCTCCA
194 GACTTCAAACCTCCA
* * *
56396 TCTTCTTGATGAGATACAGAGAAGTGGATGAAAGCAATAAAAT-GATCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAG-GAAGTGGATCAAAGCAATAAAATAG-TCATCTTCCTAATGAGATA
* * * *
56460 CAGAGAAGTGGATCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAGTGAAGCA
64 CAGAGAAATGGACCAAATCCGTCTTCCTGATGAGACACAAAGAAGTGGATTAAATCAATGAAGCA
* *
56525 GTCATCTTCCTGATAAGATACAGAGAAGTGGATCAAATC
129 GTCATCTTCCTGATAAGATACAGAGAAGTAGACCAAATC
56564 TGTCTTCCTG
Statistics
Matches: 149, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
208 18 0.12
209 129 0.87
210 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (208 bp):
TCTTCCTGATGAGATACAGGAAGTGGATCAAAGCAATAAAATAGTCATCTTCCTAATGAGATACA
GAGAAATGGACCAAATCCGTCTTCCTGATGAGACACAAAGAAGTGGATTAAATCAATGAAGCAGT
CATCTTCCTGATAAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATTAGA
CTTCAAACCTCCA
Found at i:56494 original size:37 final size:37
Alignment explanation
Indices: 56444--56600 Score: 152
Period size: 37 Copynumber: 3.9 Consensus size: 37
56434 AAAATGATCA
*
56444 TCTTCCTGATGAGATACAGAGAAGTGGATCAAATCCG
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCCG
*
56481 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAGTGAAGCAG
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATC-------C-G
* * *
56526 TCATCTTCCTGATAAGATACAGAGAAGTGGATCAAATCTG
1 ---TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCCG
* *
56566 TCTTCCTGATGAGATTCAAAGAAGTGGATTAAATC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATC
56601 AATGCAGCGG
Statistics
Matches: 99, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
37 64 0.65
40 1 0.01
44 1 0.01
45 1 0.01
48 32 0.32
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (37 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCCG
Found at i:56544 original size:85 final size:85
Alignment explanation
Indices: 56396--56638 Score: 337
Period size: 85 Copynumber: 2.9 Consensus size: 85
56386 CAAACCTCCA
* * * * *
56396 TCTTCTTGATGAGATACAGAGAAGTGGATGAAAGCAAT-AA-AATGATCATCTTCCTGATGAGAT
1 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCA-G-TCATCTTCCTGATGAGAT
56459 ACAGAGAAGTGGATCAAATCCG
64 ACAGAGAAGTGGATCAAATCCG
* *
56481 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAGTGAAGCAGTCATCTTCCTGATAAGATAC
1 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCAGTCATCTTCCTGATGAGATAC
*
56546 AGAGAAGTGGATCAAATCTG
66 AGAGAAGTGGATCAAATCCG
* * * * *
56566 TCTTCCTGATGAGATTCAAAGAAGTGGATTAAATCAATGCAGCGGTCATCTTCTTAATGAGATAC
1 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCAGTCATCTTCCTGATGAGATAC
56631 AGAGAAGT
66 AGAGAAGT
56639 AGACTGAATC
Statistics
Matches: 141, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
85 137 0.97
86 3 0.02
87 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCAGTCATCTTCCTGATGAGATAC
AGAGAAGTGGATCAAATCCG
Found at i:56617 original size:294 final size:293
Alignment explanation
Indices: 56149--56762 Score: 829
Period size: 294 Copynumber: 2.1 Consensus size: 293
56139 TTCAAACCTC
* * * *
56149 CATCTTCCTGATGAGATATAGAGAAGTGGAGCGAATCCGTCTTCCTGATGAGATATAGGAAGTGG
1 CATCTTCCTGATGAGATACAGAGAAGTGGAGCAAATCCGTCTTCCTGATGAGATAAAAGAAGTGG
* * *
56214 GTCAAAGCAATAAAATAGTCATCTTCCTAATGAGATACAGAGAAATGGACCAAATCTGCGTTCCT
66 ATCAAAGCAATAAAACAGTCATCTTCCTAATAAGATACAGAGAAATGGACCAAATCTGCGTTCCT
* * * *
56279 GATGAGACACAGAGAAGTGTATTAAATCAATGAAGCGTTCATCTTCCTGATGAGATACAGAGAAG
131 GATGAGACACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTAATGAGATACAGAGAAG
* *
56344 TAGACCAAATCAATGAAACGAAGCTCAATACGAATTAGACTTCAAACCTCC-ATCTTCTTGATGA
196 TAGACCAAATCAATGAAACGAAGCTCAATACGAATAAGACTTCAAACC-CCTATCTTCCTGATGA
* * *
56408 GATACAGAGAAGTGGAT-GAAAGCAATAAAATGAT
260 GATACAAAGAAATGGATCG-AAGCAATAAAACGAT
*
56442 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAATCCGTCTTCCTGATGAGATACAAAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGAGCAAATCCGTCTTCCTGATGAGATA-AAAGAAGTG
* * * * * * * *
56507 GATTAAATCAGTGAAGCAGTCATCTTCCTGATAAGATACAGAGAAGTGGATCAAATCTGTC-TTC
65 GATCAAAGCAATAAAACAGTCATCTTCCTAATAAGATACAGAGAAATGGACCAAATCTG-CGTTC
** * *
56571 CTGATGAGATTCAAAGAAGTGGATTAAATCAATGCAGCGGTCATCTTCTTAATGAGATACAGAGA
129 CTGATGAGACACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTAATGAGATACAGAGA
** * ** *
56636 AGTAGACTGAATCGATGAAGTGAAGCTTAATACGAATAAGACTTCAAACCCCTATCTTCCTGATG
194 AGTAGACCAAATCAATGAAACGAAGCTCAATACGAATAAGACTTCAAACCCCTATCTTCCTGATG
* * *
56701 AGATACAAAGAAATGGGTCGAAGTAATAAAGCGAT
259 AGATACAAAGAAATGGATCGAAGCAATAAAACGAT
56736 CATCTTCCTGATGAGATACAGAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
56763 AGACCTAGAA
Statistics
Matches: 279, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
293 54 0.19
294 223 0.80
295 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (293 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGAGCAAATCCGTCTTCCTGATGAGATAAAAGAAGTGG
ATCAAAGCAATAAAACAGTCATCTTCCTAATAAGATACAGAGAAATGGACCAAATCTGCGTTCCT
GATGAGACACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTAATGAGATACAGAGAAG
TAGACCAAATCAATGAAACGAAGCTCAATACGAATAAGACTTCAAACCCCTATCTTCCTGATGAG
ATACAAAGAAATGGATCGAAGCAATAAAACGAT
Found at i:57563 original size:18 final size:18
Alignment explanation
Indices: 57542--57585 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
57532 TATTGCAAGG
**
57542 TATATATATACGGGTATA
1 TATATATATACCCGTATA
*
57560 TATATAAATACCCGTATA
1 TATATATATACCCGTATA
57578 TATATATA
1 TATATATA
57586 CATATACATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (18 bp):
TATATATATACCCGTATA
Found at i:58488 original size:59 final size:60
Alignment explanation
Indices: 58423--58586 Score: 215
Period size: 60 Copynumber: 2.8 Consensus size: 60
58413 TGAGCTTCCC
* * * *
58423 AAAAATTTAGATTTGACCCCCAAACTTTCCAAAAATACAAATTTGAC-CTCGAAC-TTCTA
1 AAAAATTTAGATTTGACCCCAAAACTTCCCAAAAATTCAAATTTGACACTCAAACTTTC-A
* * *
58482 AAAAATTTAAATTTGACCCCAAAACTTCCCAAAAATTCAGATTTGACACTCAAACTTTCC
1 AAAAATTTAGATTTGACCCCAAAACTTCCCAAAAATTCAAATTTGACACTCAAACTTTCA
* * *
58542 AAAAATTTAGAATTAACCCCTAAACTTCCCAAAAATTCAAATTTG
1 AAAAATTTAGATTTGACCCCAAAACTTCCCAAAAATTCAAATTTG
58587 GCCCCAAAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 42 0.46
60 46 0.51
61 3 0.03
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (60 bp):
AAAAATTTAGATTTGACCCCAAAACTTCCCAAAAATTCAAATTTGACACTCAAACTTTCA
Found at i:58567 original size:60 final size:58
Alignment explanation
Indices: 58421--58610 Score: 211
Period size: 59 Copynumber: 3.2 Consensus size: 58
58411 CTTGAGCTTC
* * * * *
58421 CCAAAAATTTAGATTTGACCCCCAAACTTTCCAAAAATACAAATTTGACCTCGAACTT
1 CCAAAAATTTAGAATTGACCCCAAAACTTCCCAAAAATTCAAATTTGACCTCAAACTT
* *
58479 CTAAAAAATTTA-AATTTGACCCCAAAACTTCCCAAAAATTCAGATTTGACACTCAAACTTT
1 C-CAAAAATTTAGAA-TTGACCCCAAAACTTCCCAAAAATTCAAATTTGAC-CTCAAAC-TT
* * * * *
58540 CCAAAAATTTAGAATTAACCCCTAAACTTCCCAAAAATTCAAATTTGGCCCCAAAATT
1 CCAAAAATTTAGAATTGACCCCAAAACTTCCCAAAAATTCAAATTTGACCTCAAACTT
58598 CTCAAAAACTTTA
1 C-CAAAAA-TTTA
58611 TTTTGACCCT
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
58 5 0.05
59 51 0.46
60 50 0.45
61 5 0.05
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (58 bp):
CCAAAAATTTAGAATTGACCCCAAAACTTCCCAAAAATTCAAATTTGACCTCAAACTT
Found at i:58603 original size:29 final size:29
Alignment explanation
Indices: 58417--58605 Score: 150
Period size: 30 Copynumber: 6.4 Consensus size: 29
58407 AACTCTTGAG
* * *
58417 CTTCCCAAAAATTTAGATTTGACCCCCAAA
1 CTTCTCAAAAATTCAAATTTGA-CCCCAAA
* * *
58447 CTT-TCCAAAAATACAAATTTGACCTCGAA
1 CTTCT-CAAAAATTCAAATTTGACCCCAAA
* *
58476 CTTCTAAAAAATTTAAATTTGACCCCAAAA
1 CTTCTCAAAAATTCAAATTTGACCCC-AAA
* * *
58506 CTTCCCAAAAATTCAGATTTGACACTCAAA
1 CTTCTCAAAAATTCAAATTTGAC-CCCAAA
* *
58536 CTT-TCCAAAAATTTAGAA-TTAACCCCTAAA
1 CTTCT-CAAAAATTCA-AATTTGACCCC-AAA
* *
58566 CTTCCCAAAAATTCAAATTTGGCCCCAAA
1 CTTCTCAAAAATTCAAATTTGACCCCAAA
*
58595 ATTCTCAAAAA
1 CTTCTCAAAAA
58606 CTTTATTTTG
Statistics
Matches: 123, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
29 41 0.33
30 79 0.64
31 3 0.02
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (29 bp):
CTTCTCAAAAATTCAAATTTGACCCCAAA
Found at i:61615 original size:3 final size:3
Alignment explanation
Indices: 61607--61653 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
61597 ATCAAAGATT
61607 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61654 GCTGAATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62420 original size:33 final size:32
Alignment explanation
Indices: 62347--62421 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
62337 AATAGAGGGA
*
62347 GATTTTTTTTTTTTTTGAATAAAATTGAGAAG
1 GATTTTTTTTTTTTTTGAAGAAAATTGAGAAG
* * *
62379 GAGGTTTTTTTCTTTTTGAAGAAGATTGAG-AG
1 GA-TTTTTTTTTTTTTTGAAGAAAATTGAGAAG
*
62411 GCTTTTTTTTT
1 GATTTTTTTTT
62422 ATTTAGAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
31 7 0.20
32 5 0.14
33 23 0.66
ACGTcount: A:0.24, C:0.03, G:0.20, T:0.53
Consensus pattern (32 bp):
GATTTTTTTTTTTTTTGAAGAAAATTGAGAAG
Found at i:63135 original size:17 final size:17
Alignment explanation
Indices: 63115--63148 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63105 AATATTTGTT
* *
63115 TTTATTTTTTTTATGTA
1 TTTATTATTTATATGTA
63132 TTTATTATTTATATGTA
1 TTTATTATTTATATGTA
63149 AGTTGTTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATTATTTATATGTA
Found at i:63330 original size:21 final size:22
Alignment explanation
Indices: 63284--63330 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
63274 AATATTTTGT
* *
63284 TTTTATTTAATTTTATTGATAT
1 TTTTATTTAATTTCATTGATAA
63306 TTTTATTT-ATTTCATT-ATACA
1 TTTTATTTAATTTCATTGATA-A
63327 TTTT
1 TTTT
63331 CTTAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTATTTAATTTCATTGATAA
Found at i:64283 original size:72 final size:70
Alignment explanation
Indices: 64141--64284 Score: 166
Period size: 72 Copynumber: 2.0 Consensus size: 70
64131 TTACTGTATT
** * *
64141 TTGAACTTTTGCTTATGTTTTTTTATAATCTTGTTGTGTTATTGTTGTTAGTTGGATTTATGTTG
1 TTGAACTTTTGCTTATGTTTTTTTATAATCTTGTTGTGTTATCATTGTTACTTGGATTTATGTTA
*
64206 TTTAC
66 CTTAC
* * *
64211 TTGAACTTTTGCTTTTTTTTATTATTATAATCTTGTTGTGTTGTCATTGTTTACTTGGATTT-T-
1 TTGAACTTTTGCTTATGTTT-TT-TTATAATCTTGTTGTGTTATCATTG-TTACTTGGATTTATG
64274 TTCACTTAC
63 TT-ACTTAC
64283 TT
1 TT
64285 ATTTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
70 18 0.29
71 4 0.06
72 29 0.47
73 11 0.18
ACGTcount: A:0.16, C:0.08, G:0.15, T:0.60
Consensus pattern (70 bp):
TTGAACTTTTGCTTATGTTTTTTTATAATCTTGTTGTGTTATCATTGTTACTTGGATTTATGTTA
CTTAC
Found at i:72038 original size:43 final size:43
Alignment explanation
Indices: 71977--72073 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
71967 ATACTTCGCT
* * *
71977 TAAAAAAATGTTTAAGTTGAAAACCTAAAAAGACGGCTCAAAC
1 TAAAAAAAAGTTCAAGTTGAAAACCTAAAAAGACAGCTCAAAC
* * * *
72020 TAAAAAAAAGTTCGAGTTGAAAACCTGAAAGGGCAGCTCAAAC
1 TAAAAAAAAGTTCAAGTTGAAAACCTAAAAAGACAGCTCAAAC
72063 TAGNAAAAAAA
1 TA--AAAAAAA
72074 AAAAAAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 38 0.84
45 7 0.16
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.18
Consensus pattern (43 bp):
TAAAAAAAAGTTCAAGTTGAAAACCTAAAAAGACAGCTCAAAC
Found at i:72112 original size:1 final size:1
Alignment explanation
Indices: 72067--72092 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
72057 TCAAACTAGN
72067 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
72093 GAGAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:73099 original size:49 final size:49
Alignment explanation
Indices: 73023--73413 Score: 315
Period size: 49 Copynumber: 8.0 Consensus size: 49
73013 TCATAAAGTT
* *
73023 TGAAGAAGGATAGGTTGAAGCCGCAACGATGAACCTTACACCTTAAAAC
1 TGAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
* * * * * *
73072 TGAAGAGGGATAGGTTAAAGTCACAACGGTGGACC-TAGCACC-CAAAAA
1 TGAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTA-CACCTTAAAAC
* * * * * * * * *
73120 TAGAAAAGGGAAAGATTGAAGTCACAATGACGGATCTTACACCCTAAAAC
1 T-GAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
** * * * *
73170 CAAATAGGGATAGGTTGAAGTCGCAAC-ATGAACCTAACACCTTAAAAC
1 TGAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
* * * * * * *
73218 TAAAGAGGGATAGATTGAAGCCGCAACGATGGATCTAACACCCTAAAAC
1 TGAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
** * * *
73267 CAAAGAGGGAAAGGTTGAAGCCACAATGA-CAGACCTTACACCTTAAAAC
1 TGAAGAGGGATAGGTTGAAGCCACAACGATGA-ACCTTACACCTTAAAAC
* * * *
73316 -CAAGGAGGGAAAGGTTGAAGCCACAACGATGGACCTTACACCTTAAAAT
1 TGAA-GAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
* ** * *
73365 TGAAGAGGGATAGGTTGAACCCACAACGGCGAACCTAACACCCTAAAAC
1 TGAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
73414 ACGACGAGGG
Statistics
Matches: 272, Mismatches: 61, Indels: 18
0.77 0.17 0.05
Matches are distributed among these distances:
48 48 0.18
49 216 0.79
50 8 0.03
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (49 bp):
TGAAGAGGGATAGGTTGAAGCCACAACGATGAACCTTACACCTTAAAAC
Found at i:74262 original size:13 final size:13
Alignment explanation
Indices: 74244--74271 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74234 GTTATTCATA
74244 ATTAATATGAATT
1 ATTAATATGAATT
74257 ATTAATATGAATT
1 ATTAATATGAATT
74270 AT
1 AT
74272 AGACTCGAAT
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:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Done.