Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012537.1 Kokia drynarioides strain JFW-HI SEQ_127546, 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: 145975
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 55 characters in sequence are not A, C, G, or T
Found at i:2595 original size:25 final size:25
Alignment explanation
Indices: 2549--2596 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
2539 AATCAGTGAG
* * *
2549 TTTATTATCTTAGATATGATTTGGA
1 TTTATTATCTCAAATATAATTTGGA
*
2574 TTTATTATCTCAAATGTAATTTG
1 TTTATTATCTCAAATATAATTTG
2597 AATTCAAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (25 bp):
TTTATTATCTCAAATATAATTTGGA
Found at i:16148 original size:31 final size:31
Alignment explanation
Indices: 16089--16148 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
16079 ATTACTCATT
* * *
16089 TTATTATAAAATGAATCAATTTAGTTTTTTA
1 TTATTATAAAATGAATAAAATTAATTTTTTA
16120 TTATTA-AAAATTGAATAAAATTAATTTTT
1 TTATTATAAAA-TGAATAAAATTAATTTTT
16149 AAAAATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (31 bp):
TTATTATAAAATGAATAAAATTAATTTTTTA
Found at i:23124 original size:14 final size:14
Alignment explanation
Indices: 23105--23135 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23095 TTCCTTATTT
23105 TCTCTCTCTTTCTC
1 TCTCTCTCTTTCTC
23119 TCTCTCTCTTTCTC
1 TCTCTCTCTTTCTC
23133 TCT
1 TCT
23136 TCCATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (14 bp):
TCTCTCTCTTTCTC
Found at i:25518 original size:36 final size:36
Alignment explanation
Indices: 25464--25683 Score: 352
Period size: 36 Copynumber: 6.1 Consensus size: 36
25454 GATATAAAAA
* *
25464 ATGGTACTACAAATGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
25500 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
* *
25536 ATGGTGCAACGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
25572 ATGGTACTATGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
25608 ATGGTAC-AGCAAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTA-CGAACGAAGTGGTTTCATCTGATGTTG
* *
25644 ATGGTACTACGAACAAAGTGGTTCCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
25680 ATGG
1 ATGG
25684 GGGTAATAGG
Statistics
Matches: 170, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
35 1 0.01
36 168 0.99
37 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (36 bp):
ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
Found at i:43725 original size:23 final size:23
Alignment explanation
Indices: 43681--43725 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43671 TATAAAATAC
* **
43681 ATAATATATAAAAATAGCATAGT
1 ATAATATATAAAAAAAAAATAGT
43704 ATAATATATAAAAAAAAAATAG
1 ATAATATATAAAAAAAAAATAG
43726 AAAACAGGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (23 bp):
ATAATATATAAAAAAAAAATAGT
Found at i:46687 original size:30 final size:30
Alignment explanation
Indices: 46613--46690 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
46603 TTAGAGCGTC
46613 TAATTAAAATTTTTAAAGTTTTTGGAAAGCA
1 TAATT-AAATTTTTAAAGTTTTTGGAAAGCA
* * ** *
46644 TAGTTAGAATTTTTAAA-TTTTTTGAGGGCT
1 TAATTA-AATTTTTAAAGTTTTTGGAAAGCA
46674 TAATTAAAGTTTTTAAA
1 TAATTAAA-TTTTTAAA
46691 AATTTTGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.05
30 23 0.59
31 14 0.36
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (30 bp):
TAATTAAATTTTTAAAGTTTTTGGAAAGCA
Found at i:48156 original size:25 final size:25
Alignment explanation
Indices: 48127--48174 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
48117 GAATTTATCC
48127 ATCTATTTTTAGAATTTAAAAATAG
1 ATCTATTTTTAGAATTTAAAAATAG
48152 ATCTATTTTTAGAATTTAAAAAT
1 ATCTATTTTTAGAATTTAAAAAT
48175 TAAGTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (25 bp):
ATCTATTTTTAGAATTTAAAAATAG
Found at i:54320 original size:28 final size:25
Alignment explanation
Indices: 54288--54362 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 25
54278 AAAATATTGA
54288 AATATTAATATAAAATAATATAATTTTT
1 AATATT-ATATAAAATAATATAA--TTT
54316 AATATTAT-TAAACATAA-AT-ATTT
1 AATATTATATAAA-ATAATATAATTT
*
54339 AATTATTTATATTAAATAATATAA
1 AA-TA-TTATATAAAATAATATAA
54363 CAATTATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
23 5 0.12
24 2 0.05
25 9 0.22
26 11 0.28
27 7 0.17
28 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
AATATTATATAAAATAATATAATTT
Found at i:54865 original size:11 final size:10
Alignment explanation
Indices: 54851--54885 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
54841 AAAAATAATT
54851 AAAAATTATAA
1 AAAAATT-TAA
*
54862 AAAAATTCAA
1 AAAAATTTAA
54872 AAAAATTTAA
1 AAAAATTTAA
54882 AAAA
1 AAAA
54886 TATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:60697 original size:6 final size:6
Alignment explanation
Indices: 60686--60776 Score: 57
Period size: 6 Copynumber: 15.3 Consensus size: 6
60676 CTGGGCCCAA
* * * *
60686 TAAATT TAAATTT TTATTT TAAAAT TAAGTT T--ATT CTAAATT TAAATT
1 TAAATT TAAA-TT TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT
* *
60734 T-AGTT GAAATT TAAATT T--ATT ATAAATT TAAATT TAAAATT TA
1 TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT T-AAATT TA
60777 TTTTAAATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
4 5 0.08
5 5 0.08
6 38 0.59
7 16 0.25
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:60720 original size:17 final size:17
Alignment explanation
Indices: 60686--60769 Score: 96
Period size: 17 Copynumber: 4.8 Consensus size: 17
60676 CTGGGCCCAA
60686 TAAATTTAAATTTTTATTT
1 TAAATTTAAA--TTTATTT
* * *
60705 TAAAATTAAGTTTATTC
1 TAAATTTAAATTTATTT
*
60722 TAAATTTAAATTTAGTT
1 TAAATTTAAATTTATTT
* *
60739 GAAATTTAAATTTATTA
1 TAAATTTAAATTTATTT
60756 TAAATTTAAATTTA
1 TAAATTTAAATTTA
60770 AAATTTATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
17 46 0.85
19 8 0.15
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:60760 original size:34 final size:34
Alignment explanation
Indices: 60685--60769 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 34
60675 TCTGGGCCCA
* * *
60685 ATAAATTTAAATTTTTATTTTAAAATTAAGTTTATT
1 ATAAATTTAAA--TTTAGTTGAAAATTAAATTTATT
* *
60721 CTAAATTTAAATTTAGTTGAAATTTAAATTTATT
1 ATAAATTTAAATTTAGTTGAAAATTAAATTTATT
60755 ATAAATTTAAATTTA
1 ATAAATTTAAATTTA
60770 AAATTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 33 0.77
36 10 0.23
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (34 bp):
ATAAATTTAAATTTAGTTGAAAATTAAATTTATT
Found at i:60778 original size:24 final size:23
Alignment explanation
Indices: 60740--60784 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
60730 AATTTAGTTG
60740 AAATTTAAATTTATTATAAATTT
1 AAATTTAAATTTATTATAAATTT
*
60763 AAATTTAAAATTTATTTTAAAT
1 AAATTT-AAATTTATTATAAAT
60785 ATCTAAGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAATTTAAATTTATTATAAATTT
Found at i:61867 original size:30 final size:30
Alignment explanation
Indices: 61833--61912 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 30
61823 CAGTGGCGCA
* *
61833 TGCACCGAAGGACTGTGGGACGGCAGCACG
1 TGCACCGAAGGACTGCGGGACAGCAGCACG
* * * ** *
61863 TGCACTGGAGGACTACGGGACAGTGGCGCG
1 TGCACCGAAGGACTGCGGGACAGCAGCACG
*
61893 TGCACCAAAGGACTGCGGGA
1 TGCACCGAAGGACTGCGGGA
61913 TGACAGCGCG
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.40, T:0.11
Consensus pattern (30 bp):
TGCACCGAAGGACTGCGGGACAGCAGCACG
Found at i:62605 original size:30 final size:30
Alignment explanation
Indices: 62558--63012 Score: 361
Period size: 30 Copynumber: 15.5 Consensus size: 30
62548 AAGAATCCCG
62558 TTTTTAACCTC-AAACTTCCAAAAATTCCA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* *
62587 TTTTTAACCTCGAAACTTCTAAAAATTCAA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* * * *
62617 TTGTTACCCCCG-AACTTCCAAAAATCCCA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* * *
62646 TTTTTAACCTCGAAATTTCTAAAAATTCAA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* * * *
62676 ATTTTACCCCCG-AACTTCCAAAAA-TCTTA
1 TTTTTAACCTCGAAACTTCCAAAAATTC-CA
* *
62705 TTTTTAACCTCGAAACTTCTAAAAATTCTA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* * *
62735 TTTTTTACCCCG-AACTTCTAAAAA-TCTCA
1 TTTTTAACCTCGAAACTTCCAAAAATTC-CA
* *
62764 TTTTTACCCTCG-AACTTCCAAAATTTCCA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* * *
62793 TTTTTTA-CTCCAAAACTTCTAAAAATT-CA
1 TTTTTAACCT-CGAAACTTCCAAAAATTCCA
* *
62822 TTTTTACCCTC-AAACTTCCAAAAATCCCA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* *
62851 TTTTTGACC-CTAAAACTTCCAAAAATTCCA
1 TTTTTAACCTC-GAAACTTCCAAAAATTCCA
* * *
62881 TTTAT-ACCCCTAAAACTTCCAAATAA-TCACA
1 TTTTTAACCTC-GAAACTTCCAAA-AATTC-CA
* * *
62912 TTTTTACCCTCG-AAC-TCTTAAATAATCCCA
1 TTTTTAACCTCGAAACTTC-CAAA-AATTCCA
*
62942 TTTTTACCCTCG-AACTTCCAAAAATTCCA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
* * *
62971 -TTTTAGCCTCG-AACTTCTAAAAATTCTA
1 TTTTTAACCTCGAAACTTCCAAAAATTCCA
*
62999 TTTTTAACCCCGAA
1 TTTTTAACCTCGAA
63013 TTTTCCCAAA
Statistics
Matches: 345, Mismatches: 59, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
28 45 0.13
29 131 0.38
30 153 0.44
31 13 0.04
32 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (30 bp):
TTTTTAACCTCGAAACTTCCAAAAATTCCA
Found at i:62666 original size:59 final size:59
Alignment explanation
Indices: 62570--63012 Score: 391
Period size: 59 Copynumber: 7.5 Consensus size: 59
62560 TTTAACCTCA
* * *
62570 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCTAAAAATTCAATTGTTACCCCCG
1 AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTCAATTTTTACCCCCG
* * *
62629 AACTTCCAAAAATCCCATTTTTAACCTCGAAATTTCTAAAAATTCAAATTTTACCCCCG
1 AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTCAATTTTTACCCCCG
** * *
62688 AACTTCCAAAAATCTTATTTTTAACCTCGAAACTTCTAAAAATTCTATTTTTTA-CCCCG
1 AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTC-AATTTTTACCCCCG
* * * * * * **
62747 AACTTCTAAAAATCTCATTTTTACCCTCG-AACTTCCAAAATTTCCATTTTTTACTCCAA
1 AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATT-CAATTTTTACCCCCG
* * * * * ***
62806 AACTTCTAAAAAT-TCATTTTTACCCTC-AAACTTCCAAAAATCCCATTTTTGACCCTAA
1 AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTCAATTTTT-ACCCCCG
* * * * *
62864 AACTTCCAAAAATTCCATTTAT-ACCCCTAAAACTTCCAAATAA-TCACATTTTTACCCTCG
1 AACTTCCAAAAATCCCATTTTTAACCTC-GAAACTTCCAAA-AATTCA-ATTTTTACCCCCG
* * * * *
62924 AAC-TCTTAAATAATCCCATTTTTACCCTCG-AACTTCCAAAAATTCCA-TTTTAGCCTCG
1 AACTTC-CAAA-AATCCCATTTTTAACCTCGAAACTTCCAAAAATTCAATTTTTACCCCCG
* * * *
62982 AACTTCTAAAAATTCTATTTTTAACCCCGAA
1 AACTTCCAAAAATCCCATTTTTAACCTCGAA
63013 TTTTCCCAAA
Statistics
Matches: 324, Mismatches: 44, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
57 21 0.06
58 84 0.26
59 157 0.48
60 41 0.13
61 18 0.06
62 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (59 bp):
AACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATTCAATTTTTACCCCCG
Found at i:67246 original size:33 final size:33
Alignment explanation
Indices: 67204--67267 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
67194 CATTCGAACG
* *
67204 CACATCCTCCTACATTGGCAATAATGCCTATGC
1 CACATCCTCCTACATTGACAATAATACCTATGC
67237 CACATCCTCCTACATTGACAATAATACCTAT
1 CACATCCTCCTACATTGACAATAATACCTAT
67268 ACCAATCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (33 bp):
CACATCCTCCTACATTGACAATAATACCTATGC
Found at i:70695 original size:20 final size:21
Alignment explanation
Indices: 70670--70709 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70660 TGTTAGCAAG
70670 AATTAATA-TAAATAATTTAT
1 AATTAATATTAAATAATTTAT
*
70690 AATTAATATTATATAATTTA
1 AATTAATATTAAATAATTTA
70710 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTAATATTAAATAATTTAT
Found at i:71211 original size:21 final size:21
Alignment explanation
Indices: 71154--71217 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
71144 ATTTTTTTTT
* * * *
71154 ACCCTGAATCACAAACCCAAT
1 ACCCTAAATCTCAAACTCAAA
* * *
71175 ACCCCAAACCTTAAACTCAAA
1 ACCCTAAATCTCAAACTCAAA
71196 ACCCTAAATCTCAAACTTCAAA
1 ACCCTAAATCTCAAAC-TCAAA
71218 CCTAAACCTT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (21 bp):
ACCCTAAATCTCAAACTCAAA
Found at i:73488 original size:28 final size:29
Alignment explanation
Indices: 73432--73490 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
73422 TCACCATTTT
*
73432 AAATATAAAATATTTTATTTATATCATAA
1 AAATATAAAATATTTTATTTATATAATAA
73461 AAAT-TAAAAT-TATTTATTTAT-TAAATAA
1 AAATATAAAATAT-TTTATTTATAT-AATAA
73489 AA
1 AA
73491 GATAGAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.07
28 21 0.78
29 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATATAAAATATTTTATTTATATAATAA
Found at i:75904 original size:30 final size:31
Alignment explanation
Indices: 75863--75926 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
75853 TACATTTCAG
75863 TCCCTCAAC-TTTGAAAATATGACAAAACAA
1 TCCCTCAACTTTTGAAAATATGACAAAACAA
*
75893 TCCCTCGACTTTTGAAAATATGACAAAACAA
1 TCCCTCAACTTTTGAAAATATGACAAAACAA
75924 TCC
1 TCC
75927 TTTTCCGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (31 bp):
TCCCTCAACTTTTGAAAATATGACAAAACAA
Found at i:79428 original size:10 final size:11
Alignment explanation
Indices: 79407--79437 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
79397 TTCTGACTTT
79407 GAAAAATCATA
1 GAAAAATCATA
79418 GAAAAAT-ATA
1 GAAAAATCATA
79428 GAAAAATCAT
1 GAAAAATCAT
79438 TAGAGACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (11 bp):
GAAAAATCATA
Found at i:79928 original size:25 final size:24
Alignment explanation
Indices: 79891--79948 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
79881 ACACTAGCGC
79891 GCTCTCTG-TTTAGCAC-GTCTCAT
1 GCTCTCTGTTTTAGCACTGTCT-AT
* *
79914 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGTT-TTAGCACTGTCTAT
79939 GCTCTCTGTT
1 GCTCTCTGTT
79949 GCCCAGCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 8 0.27
24 1 0.03
25 18 0.60
26 3 0.10
ACGTcount: A:0.10, C:0.26, G:0.21, T:0.43
Consensus pattern (24 bp):
GCTCTCTGTTTTAGCACTGTCTAT
Found at i:81569 original size:36 final size:36
Alignment explanation
Indices: 81522--81606 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
81512 AAATTAATCT
81522 CCATATCAAGATTCAAACAAATAATTAAGATTATTA
1 CCATATCAAGATTCAAACAAATAATTAAGATTATTA
*
81558 CCATATCAAGATTCAAACAAATAATTAATATTATTA
1 CCATATCAAGATTCAAACAAATAATTAAGATTATTA
81594 CCATATCAAGATT
1 CCATATCAAGATT
81607 AAAAAAGGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (36 bp):
CCATATCAAGATTCAAACAAATAATTAAGATTATTA
Found at i:81570 original size:17 final size:17
Alignment explanation
Indices: 81548--81607 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
81538 ACAAATAATT
81548 AAGATTATTACCATATC
1 AAGATTATTACCATATC
* * *
81565 AAGATTCA-AACAAATAATT
1 AAGATT-ATTAC-CAT-ATC
*
81584 AATATTATTACCATATC
1 AAGATTATTACCATATC
81601 AAGATTA
1 AAGATTA
81608 AAAAAGGAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 16 0.52
18 6 0.19
19 9 0.29
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (17 bp):
AAGATTATTACCATATC
Found at i:84887 original size:3 final size:3
Alignment explanation
Indices: 84879--84911 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
84869 GGTATATATT
84879 ATA ATA ATA ATA ATA ATA AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
84912 TGGCCAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:96513 original size:35 final size:36
Alignment explanation
Indices: 96462--96531 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 36
96452 ATATATATAC
* *
96462 ATATATGTATGTATGTGAACATGGGTGAATGTGGGG
1 ATATATATATGTATGTGAACATGGATGAATGTGGGG
96498 ATATATATAT-TATGTGAACATGGATGAATGTGGG
1 ATATATATATGTATGTGAACATGGATGAATGTGGG
96532 CACAAAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 23 0.72
36 9 0.28
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (36 bp):
ATATATATATGTATGTGAACATGGATGAATGTGGGG
Found at i:107851 original size:29 final size:30
Alignment explanation
Indices: 107819--107876 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
107809 TTTAACAAAT
*
107819 TAAAAAGTTAAATACTGAAAA-TTAAATAG
1 TAAAAAATTAAATACTGAAAATTTAAATAG
* **
107848 TAAAAAATTAAGTTTTGAAAATTTAAATA
1 TAAAAAATTAAATACTGAAAATTTAAATA
107877 CTCAACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (30 bp):
TAAAAAATTAAATACTGAAAATTTAAATAG
Found at i:109913 original size:7 final size:6
Alignment explanation
Indices: 109886--109950 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
109876 CTAAATTCAT
** * *
109886 TTTAAA TTTAAA TTT-GC TTTAGAA TTTAAA TTT-AA TCTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA
*
109933 TTTATA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
109951 ATTATTCTAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
5 7 0.15
6 35 0.76
7 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:109950 original size:18 final size:17
Alignment explanation
Indices: 109877--109968 Score: 85
Period size: 17 Copynumber: 5.3 Consensus size: 17
109867 GAGCCCAAAC
*
109877 TAAATTCATTTTAAATT
1 TAAATTTATTTTAAATT
**
109894 TAAATTTGCTTTAGAATT
1 TAAATTTATTTTA-AATT
* * *
109912 TAAATTTAATCTAAGTT
1 TAAATTTATTTTAAATT
109929 TAAATTTATATTTAAATT
1 TAAATTTAT-TTTAAATT
* * *
109947 TAAAATTATTCTACATT
1 TAAATTTATTTTAAATT
109964 TAAAT
1 TAAAT
109969 GAATAAAAGT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
17 31 0.53
18 28 0.47
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:111796 original size:29 final size:29
Alignment explanation
Indices: 111764--111984 Score: 146
Period size: 29 Copynumber: 7.6 Consensus size: 29
111754 ATATTATGAT
**
111764 CCTCAAACTTTCCAAAATTCCATTTTTGG
1 CCTCAAACTTTCCAAAATTCCATTTTTCA
* * * * * *
111793 CCTCGAATTTTCCAAAAAATACATTTTACC
1 CCTCAAACTTTCC-AAAATTCCATTTTTCA
*
111823 CCT-AAACTTTCCAAAATTCCATTTTTTAA
1 CCTCAAACTTTCCAAAATTCCA-TTTTTCA
* * * *
111852 CCTCAAATTTTCTAAAAATTACATTTTACA
1 CCTCAAACTTTC-CAAAATTCCATTTTTCA
* * *
111882 CCT-AAACTTTCTAAAATTCTATTTTTGA
1 CCTCAAACTTTCCAAAATTCCATTTTTCA
* * * * *
111910 CC-CTAAATTTTTCAAAAATTACATTTTACC
1 CCTC-AAA-CTTTCCAAAATTCCATTTTTCA
*
111940 CCT-AAACTTTCCAAAATTCCATTTTTGA
1 CCTCAAACTTTCCAAAATTCCATTTTTCA
*
111968 CC-CTAAATTTTCCAAAA
1 CCTC-AAACTTTCCAAAA
111985 ATTATATTTT
Statistics
Matches: 143, Mismatches: 39, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
28 39 0.27
29 50 0.35
30 46 0.32
31 8 0.06
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (29 bp):
CCTCAAACTTTCCAAAATTCCATTTTTCA
Found at i:111835 original size:58 final size:58
Alignment explanation
Indices: 111768--111999 Score: 331
Period size: 58 Copynumber: 4.0 Consensus size: 58
111758 TATGATCCTC
* * *
111768 AAACTTTCCAAAATTCCATTTTTG-GCCTCGAATTTTCCAAAAAATACATTTTACCCCT
1 AAACTTTCCAAAATTCCATTTTTGACCCT-AAATTTTCCAAAAATTACATTTTACCCCT
* * * *
111826 AAACTTTCCAAAATTCCATTTTTTAACCTCAAATTTTCTAAAAATTACATTTTACACCT
1 AAACTTTCCAAAATTCCATTTTTGACCCT-AAATTTTCCAAAAATTACATTTTACCCCT
* * *
111885 AAACTTTCTAAAATTCTATTTTTGACCCTAAATTTTTCAAAAATTACATTTTACCCCT
1 AAACTTTCCAAAATTCCATTTTTGACCCTAAATTTTCCAAAAATTACATTTTACCCCT
*
111943 AAACTTTCCAAAATTCCATTTTTGACCCTAAATTTTCCAAAAATTATATTTTTACCC
1 AAACTTTCCAAAATTCCATTTTTGACCCTAAATTTTCCAAAAATTACA-TTTTACCC
112000 TCGAACTTCA
Statistics
Matches: 155, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
58 93 0.60
59 62 0.40
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (58 bp):
AAACTTTCCAAAATTCCATTTTTGACCCTAAATTTTCCAAAAATTACATTTTACCCCT
Found at i:111994 original size:29 final size:28
Alignment explanation
Indices: 111798--112000 Score: 153
Period size: 29 Copynumber: 7.0 Consensus size: 28
111788 TTTGGCCTCG
* *
111798 AATTTTCCAAAAAATACATTTTACCCCTA
1 AATTTTCCAAAAATTATATTTTA-CCCTA
* * *
111827 AACTTTCC-AAAATTCCATTTTTTAACCTCA
1 AATTTTCCAAAAATT--ATATTTTACCCT-A
* *
111857 AATTTTCTAAAAATTACATTTTACACCTA
1 AATTTTCCAAAAATTATATTTTAC-CCTA
* * *
111886 AACTTT-CTAAAATTCTATTTTTGACCCTA
1 AATTTTCCAAAAATTATA-TTTT-ACCCTA
* *
111915 AATTTTTCAAAAATTACATTTTACCCCTA
1 AATTTTCCAAAAATTATATTTTA-CCCTA
*
111944 AACTTTCC-AAAATTCCAT-TTTTGACCCTA
1 AATTTTCCAAAAATT--ATATTTT-ACCCTA
111973 AATTTTCCAAAAATTATATTTTTACCCT
1 AATTTTCCAAAAATTATA-TTTTACCCT
112001 CGAACTTCAA
Statistics
Matches: 136, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
28 21 0.15
29 71 0.52
30 38 0.28
31 6 0.04
ACGTcount: A:0.36, C:0.22, G:0.01, T:0.41
Consensus pattern (28 bp):
AATTTTCCAAAAATTATATTTTACCCTA
Found at i:111997 original size:117 final size:117
Alignment explanation
Indices: 111768--111994 Score: 341
Period size: 117 Copynumber: 1.9 Consensus size: 117
111758 TATGATCCTC
* *
111768 AAACTTTCCAAAATTCCATTTTTGGCCTCGAATTTTCCAAAAAATACATTTTACCCCTAAACTTT
1 AAACTTTCCAAAATTCCATTTTTGCCCTCAAATTTTCCAAAAAATACATTTTACCCCTAAACTTT
* *
111833 CCAAAATTCCATTTTTTAACCTCAAATTTTCTAAAAATTACATTTTACACCT
66 CCAAAATTCCATTTTTGAACCTCAAATTTTCCAAAAATTACATTTTACACCT
* * * *
111885 AAACTTTCTAAAATTCTATTTTTGACCCT-AAATTTTTCAAAAATTACATTTTACCCCTAAACTT
1 AAACTTTCCAAAATTCCATTTTTG-CCCTCAAATTTTCCAAAAAATACATTTTACCCCTAAACTT
* *
111949 TCCAAAATTCCATTTTTGACCCT-AAATTTTCCAAAAATTATATTTT
65 TCCAAAATTCCATTTTTGAACCTCAAATTTTCCAAAAATTACATTTT
111995 TACCCTCGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 21 0.21
117 75 0.76
118 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (117 bp):
AAACTTTCCAAAATTCCATTTTTGCCCTCAAATTTTCCAAAAAATACATTTTACCCCTAAACTTT
CCAAAATTCCATTTTTGAACCTCAAATTTTCCAAAAATTACATTTTACACCT
Found at i:113338 original size:13 final size:13
Alignment explanation
Indices: 113328--113357 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
113318 AAACAAAATT
113328 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
113341 AAAAAGAAAAAAG
1 AAAAAAAAAAAAG
113354 AAAA
1 AAAA
113358 TAGTGGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:117664 original size:26 final size:26
Alignment explanation
Indices: 117609--117664 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
117599 AAATTGAATT
* *
117609 AGTTGACTTTTGAACCAATACAAATC
1 AGTTGACTTTTGAACCAACACAAATA
*
117635 AGTTGACTTTTGAACCAACACAAGTA
1 AGTTGACTTTTGAACCAACACAAATA
117661 AGTT
1 AGTT
117665 CAATCGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (26 bp):
AGTTGACTTTTGAACCAACACAAATA
Found at i:118485 original size:19 final size:20
Alignment explanation
Indices: 118446--118488 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
118436 ATTACAAAAT
118446 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTCAAA
118466 AATTCAAAAT-ATTTAT-AAA
1 AATTCAAAATAATTT-TCAAA
118485 AATT
1 AATT
118489 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:125972 original size:26 final size:27
Alignment explanation
Indices: 125922--125972 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
125912 TAACTTCAAC
*
125922 AAATAAAAAAATAAAAAAATGATTCCA
1 AAATAAAAAAATAAAAAAATAATTCCA
* *
125949 AAATAAAAAAA-ATAAATATAATTC
1 AAATAAAAAAATAAAAAAATAATTC
125973 ATAATCAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.22
Consensus pattern (27 bp):
AAATAAAAAAATAAAAAAATAATTCCA
Found at i:127279 original size:22 final size:22
Alignment explanation
Indices: 127251--127295 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
127241 TAAGGGTCCA
127251 ATAACTTAAATGAAAAATGTTG
1 ATAACTTAAATGAAAAATGTTG
127273 ATAACTTAAATGAAAAATGTTG
1 ATAACTTAAATGAAAAATGTTG
127295 A
1 A
127296 ATAGTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (22 bp):
ATAACTTAAATGAAAAATGTTG
Found at i:135834 original size:87 final size:87
Alignment explanation
Indices: 135688--135846 Score: 264
Period size: 87 Copynumber: 1.8 Consensus size: 87
135678 TAAGGATGAG
**
135688 TTATTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACGGACTTGATAAAT
1 TTATTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATAAAT
135753 TCACCGACTTGAGAGGTTGAAT
66 TCACCGACTTGAGAGGTTGAAT
* * * *
135775 TTATTATTCTTAATGAGTTCATATCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATGAAT
1 TTATTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATAAAT
135840 TCACCGA
66 TCACCGA
135847 ACTTAAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (87 bp):
TTATTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATAAAT
TCACCGACTTGAGAGGTTGAAT
Found at i:135881 original size:87 final size:87
Alignment explanation
Indices: 135696--135875 Score: 199
Period size: 87 Copynumber: 2.1 Consensus size: 87
135686 AGTTATTACT
**
135696 CTTAATGAA-TTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACGGACTTGATAAATTCACCGA
1 CTTAAT-AAGTTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATAAATTCACCGA
* ** * *
135760 CTTGAGAGGTTGAATTTATTATT
65 CTTGAGAAGTTGAATGGATGATG
* * *
135783 CTTAATGAGTTCATATCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATGAATTCACCGAA
1 CTTAATAAGTTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATAAATTCACCG-A
*
135848 CTT-A-AATTTGAGA-GGATGA-G
65 CTTGAGAAGTTGA-ATGGATGATG
135868 CTTAATAA
1 CTTAATAA
135876 AAGTTCTTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
85 7 0.09
86 9 0.12
87 58 0.74
88 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (87 bp):
CTTAATAAGTTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACAAACTTGATAAATTCACCGAC
TTGAGAAGTTGAATGGATGATG
Found at i:138336 original size:61 final size:61
Alignment explanation
Indices: 138268--138389 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
138258 TTATACAGTA
* *
138268 TAGAGGTGTTCATGAACTAGATTCAATTAAAATTTTAAATTCGTTTATTAGATTTAAAGTT
1 TAGAGGTGTTCATGAACTAAATTCAATTAAAATTTTAAATTCGTTTATTAAATTTAAAGTT
138329 TAGAGGTGTTCATGAACTAAATTCAATTAAAATTTTAAATTCGTTTATTAAATTTAAAGTT
1 TAGAGGTGTTCATGAACTAAATTCAATTAAAATTTTAAATTCGTTTATTAAATTTAAAGTT
138390 GATCAAATTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.43
Consensus pattern (61 bp):
TAGAGGTGTTCATGAACTAAATTCAATTAAAATTTTAAATTCGTTTATTAAATTTAAAGTT
Found at i:139676 original size:96 final size:96
Alignment explanation
Indices: 139497--139683 Score: 254
Period size: 96 Copynumber: 1.9 Consensus size: 96
139487 GCGAAAAAGA
* * * *
139497 TATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAGTATTTCGGAATC
1 TATTCGATTATCTCGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCGCAATATTTCGAAATC
*
139562 GAAGATAAGGAAACATTGCCTCGATTAAGGG
66 GAAGATAAAGAAACATTGCCTCGATTAAGGG
* *
139593 TATTCGATTATTTCGATTTGAAGAAAAGTTGCACCTAGTGAGTTAAGGCGCAA-ATTTTCGAAAC
1 TATTCGATTATCTCGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCGCAATA-TTTCGAAA-
*
139657 TCGAA-ATAAA-AGAATATTGCCTCGATT
64 TCGAAGATAAAGA-AACATTGCCTCGATT
139684 TTAAAGTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 73 0.91
97 5 0.06
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (96 bp):
TATTCGATTATCTCGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCGCAATATTTCGAAATC
GAAGATAAAGAAACATTGCCTCGATTAAGGG
Found at i:140039 original size:29 final size:28
Alignment explanation
Indices: 139995--140420 Score: 351
Period size: 29 Copynumber: 14.5 Consensus size: 28
139985 TAAAAGGGTA
*
139995 ATTTTTGGAAGGTTCAGGGTCAAAAATGGG
1 ATTTTTGGAA-GTTCGGGGT-AAAAATGGG
*
140025 ATTTTTGGAAGTTCAGGGGGGT-AAAATGGTA
1 ATTTTTGGAAGTTC---GGGGTAAAAATGG-G
*
140056 ATTTTTGGAAGGTTCGGGATAAAAAATGGG
1 ATTTTTGGAA-GTTCGGGGT-AAAAATGGG
*
140086 ACTTTTGGAAGTTCGGGGTAAAAAATGGG
1 ATTTTTGGAAGTTCGGGGT-AAAAATGGG
** **
140115 ACCTTTGGAAGTTCGGGGGT-AAAATGAT
1 ATTTTTGGAAGTTC-GGGGTAAAAATGGG
*
140143 AATTTTGGAAAGTTCGGGGTAAAAAATGGG
1 ATTTTTGG-AAGTTCGGGGT-AAAAATGGG
** *
140173 ACCTTTGGAAGTTCGGAGGT-AAAATGGTA
1 ATTTTTGGAAGTTCGG-GGTAAAAATGG-G
* **
140202 AATTTTGGAAGGTTCGATGTCAAAAATGGG
1 ATTTTTGGAA-GTTCGGGGT-AAAAATGGG
* *
140232 ACTTTTGGAAGTTCGGGGGT-AAAATGGTA
1 ATTTTTGGAAGTTC-GGGGTAAAAATGG-G
*
140261 ATTTTTGGAAGGTTCGAGGTCAAAAATGGG
1 ATTTTTGGAA-GTTCGGGGT-AAAAATGGG
*
140291 ATTTTTGGAAGTTCGGGGGT-AAAATGGT
1 ATTTTTGGAAGTTC-GGGGTAAAAATGGG
* *
140319 ACTTTTTGGAAGGTTCGAGGTCAAAATGGG
1 A-TTTTTGGAA-GTTCGGGGTAAAAATGGG
* *
140349 ATTTTTGGAAGTTCGAGGTCAAAAATGAG
1 ATTTTTGGAAGTTCGGGGT-AAAAATGGG
*
140378 ATTTTTGGAAGTTCGGGGGT-AAAATGGTA
1 ATTTTTGGAAGTTC-GGGGTAAAAATGG-G
140407 ATTTTTGGATAGTT
1 ATTTTTGGA-AGTT
140421 TAGGGACCTC
Statistics
Matches: 330, Mismatches: 37, Indels: 58
0.78 0.09 0.14
Matches are distributed among these distances:
28 54 0.16
29 136 0.41
30 101 0.31
31 31 0.09
32 8 0.02
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.31
Consensus pattern (28 bp):
ATTTTTGGAAGTTCGGGGTAAAAATGGG
Found at i:140056 original size:61 final size:60
Alignment explanation
Indices: 139980--140103 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 60
139970 TCAAACATTC
* *
139980 GGGGATAAAAGGGTAATTTTTGGAAGGTTCAGGG-TCAAAAATGGGATTTTTGGAAGTTCAG
1 GGGGATAAAAGGGTAATTTTTGGAAGGTTC-GGGATAAAAAATGGGACTTTTGGAAGTTC-G
* *
140041 GGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGATAAAAAATGGGACTTTTGGAAGTTCG
1 GGGGATAAAAGGGTAATTTTTGGAAGGTTCGGGATAAAAAATGGGACTTTTGGAAGTTCG
140101 GGG
1 GGG
140104 TAAAAAATGG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
60 7 0.12
61 51 0.88
ACGTcount: A:0.30, C:0.05, G:0.36, T:0.29
Consensus pattern (60 bp):
GGGGATAAAAGGGTAATTTTTGGAAGGTTCGGGATAAAAAATGGGACTTTTGGAAGTTCG
Found at i:140217 original size:59 final size:59
Alignment explanation
Indices: 140088--140363 Score: 396
Period size: 59 Copynumber: 4.7 Consensus size: 59
140078 AAAATGGGAC
* * *
140088 TTTTGGAA-GTTCGGGGTAAAAAATGGGACCTTTGGAAGTTCGGGGGTAAAATGATAA-
1 TTTTGGAAGGTTCGAGGTAAAAAATGGGACTTTTGGAAGTTCGGGGGTAAAATGGTAAT
* * * * *
140145 TTTTGGAAAGTTCGGGGTAAAAAATGGGACCTTTGGAAGTTCGGAGGTAAAATGGTAAA
1 TTTTGGAAGGTTCGAGGTAAAAAATGGGACTTTTGGAAGTTCGGGGGTAAAATGGTAAT
* *
140204 TTTTGGAAGGTTCGATGTCAAAAATGGGACTTTTGGAAGTTCGGGGGTAAAATGGTAAT
1 TTTTGGAAGGTTCGAGGTAAAAAATGGGACTTTTGGAAGTTCGGGGGTAAAATGGTAAT
* * *
140263 TTTTGGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTACT
1 TTTTGGAAGGTTCGAGGTAAAAAATGGGACTTTTGGAAGTTCGGGGGTAAAATGGTAAT
* *
140322 TTTTGGAAGGTTCGAGGT-CAAAATGGGATTTTTGGAAGTTCG
1 TTTTGGAAGGTTCGAGGTAAAAAATGGGACTTTTGGAAGTTCG
140364 AGGTCAAAAA
Statistics
Matches: 204, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
57 8 0.04
58 70 0.34
59 126 0.62
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (59 bp):
TTTTGGAAGGTTCGAGGTAAAAAATGGGACTTTTGGAAGTTCGGGGGTAAAATGGTAAT
Found at i:140374 original size:59 final size:56
Alignment explanation
Indices: 139995--140420 Score: 351
Period size: 59 Copynumber: 7.2 Consensus size: 56
139985 TAAAAGGGTA
* * *
139995 ATTTTTGGAAGGTTCAG-GGTCAAAAATGGGATTTTTGGAAGTTCAGGGGGGT-AAAATGGTA
1 ATTTTTGGAA-GTTCGGAGGT--AAAATGGTATTTTTGGAAGTTC---GGGGTCAAAATGG-G
* * * *
140056 ATTTTTGGAAGGTTCGG-GATAAAAAATGGGACTTTTGGAAGTTCGGGGTAAAAAATGGG
1 ATTTTTGGAA-GTTCGGAGGT--AAAATGGTATTTTTGGAAGTTCGGGGT-CAAAATGGG
** * * * *
140115 ACCTTTGGAAGTTCGGGGGTAAAATGATAATTTTGGAAAGTTCGGGGTAAAAAATGGG
1 ATTTTTGGAAGTTCGGAGGTAAAATGGTATTTTTGG-AAGTTCGGGGT-CAAAATGGG
** * **
140173 ACCTTTGGAAGTTCGGAGGTAAAATGGTAAATTTTGGAAGGTTCGATGTCAAAAATGGG
1 ATTTTTGGAAGTTCGGAGGTAAAATGGT-ATTTTTGGAA-GTTCGGGGTC-AAAATGGG
* * *
140232 ACTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGG
1 ATTTTTGGAAGTTCGGAGGTAAAATGGT-ATTTTTGGAA-GTTCGGGGTC-AAAATGGG
* *
140291 ATTTTTGGAAGTTCGGGGGTAAAATGGTACTTTTTGGAAGGTTCGAGGTCAAAATGGG
1 ATTTTTGGAAGTTCGGAGGTAAAATGGTA-TTTTTGGAA-GTTCGGGGTCAAAATGGG
*
140349 ATTTTTGGAAGTTC-GAGGTCAAAAATGAG-ATTTTTGGAAGTTCGGGGGT-AAAATGGTA
1 ATTTTTGGAAGTTCGGAGGT--AAAATG-GTATTTTTGGAAGTTC-GGGGTCAAAATGG-G
140407 ATTTTTGGATAGTT
1 ATTTTTGGA-AGTT
140421 TAGGGACCTC
Statistics
Matches: 327, Mismatches: 24, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
57 28 0.09
58 105 0.32
59 146 0.45
60 8 0.02
61 40 0.12
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.31
Consensus pattern (56 bp):
ATTTTTGGAAGTTCGGAGGTAAAATGGTATTTTTGGAAGTTCGGGGTCAAAATGGG
Found at i:141637 original size:7 final size:7
Alignment explanation
Indices: 141625--141663 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
141615 CCCCCCTTTT
141625 TTATTAA
1 TTATTAA
141632 TTATTAA
1 TTATTAA
*
141639 TTAATAA
1 TTATTAA
141646 TTATTAA
1 TTATTAA
141653 -TATTAA
1 TTATTAA
141659 -TATTA
1 TTATTA
141664 TTAATATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 11 0.37
7 19 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTATTAA
Found at i:141751 original size:18 final size:18
Alignment explanation
Indices: 141740--141781 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
141730 ATTAGTATTA
141740 TTATTAATATTAAAATAG
1 TTATTAATATTAAAATAG
*
141758 TTATTAATATTAATAAAAG
1 TTATTAATATTAA-AATAG
141777 TTATT
1 TTATT
141782 GAAACGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
TTATTAATATTAAAATAG
Found at i:142178 original size:7 final size:7
Alignment explanation
Indices: 142166--142204 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
142156 CCCCCCTTTT
142166 TTATTAA
1 TTATTAA
142173 TTATTAA
1 TTATTAA
*
142180 TTAATAA
1 TTATTAA
142187 TTATTAA
1 TTATTAA
142194 -TATTAA
1 TTATTAA
142200 -TATTA
1 TTATTA
142205 TTAATATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 11 0.37
7 19 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTATTAA
Found at i:142302 original size:18 final size:19
Alignment explanation
Indices: 142281--142322 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
142271 ATTAGTATTA
*
142281 TTATTAATATTAA-AACAG
1 TTATTAATATTAATAAAAG
142299 TTATTAATATTAATAAAAG
1 TTATTAATATTAATAAAAG
142318 TTATT
1 TTATT
142323 GAAACGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (19 bp):
TTATTAATATTAATAAAAG
Found at i:142388 original size:541 final size:541
Alignment explanation
Indices: 141366--142449 Score: 2062
Period size: 541 Copynumber: 2.0 Consensus size: 541
141356 AGGCGATAAC
*
141366 AGCTCTCCGGCGCGAAGCTCCGGCGACGGTAGAATCGACCAAGGGTAAATCTTCTGTCCTTTCAG
1 AGCTCTCCAGCGCGAAGCTCCGGCGACGGTAGAATCGACCAAGGGTAAATCTTCTGTCCTTTCAG
*
141431 TTTTTCTTTTATTATTAATGTTTTTTTTTAAATCTTATTAAACCATTTTTTTAAAAAAAAAATCC
66 TTTTTCTTTTATTATTAATGTTTTTTTTAAAATCTTATTAAACCATTTTTTTAAAAAAAAAATCC
*
141496 TTTTATCAATTCTTTGTTTCTTTTTTCTGTTTTTTGCAGATCCATGCACGACAAGGAATAGGCGG
131 TTTTATCAATTCTTTGTTTCTTTTTTCTGTGTTTTGCAGATCCATGCACGACAAGGAATAGGCGG
141561 CGTTCGGCTTCCGGCGACGACGACTAGGGAAGTGACTCTTCGGCCTTTTGTTTTCCCCCCTTTTT
196 CGTTCGGCTTCCGGCGACGACGACTAGGGAAGTGACTCTTCGGCCTTTTGTTTTCCCCCCTTTTT
141626 TATTAATTATTAATTAATAATTATTAATATTAATATTATTAATATCAAAACATTTATTATTATTA
261 TATTAATTATTAATTAATAATTATTAATATTAATATTATTAATATCAAAACATTTATTATTATTA
*
141691 ATGACTATTAAGAAAAACTTATTTATTATTAATAGGGTCATTAGTATTATTATTAATATTAAAAT
326 ATGACTATTAAGAAAAACTTATTTATTATTAATAGGGTCATTAGTATTATTATTAATATTAAAAC
141756 AGTTATTAATATTAATAAAAGTTATTGAAACGTTTTGAAAATAAAAAGAAATAAATGACAATAGC
391 AGTTATTAATATTAATAAAAGTTATTGAAACGTTTTGAAAATAAAAAGAAATAAATGACAATAGC
141821 GGGTATTGAATGCATGCATAGGAACTGAATAGGGCTTTAAATGATGGTAAACATTTATTGAGGAT
456 GGGTATTGAATGCATGCATAGGAACTGAATAGGGCTTTAAATGATGGTAAACATTTATTGAGGAT
*
141886 ACTTGGATGCTTTAATGCTTA
521 ACCTGGATGCTTTAATGCTTA
*
141907 AGCTCTCCAGCGCGAAGCTCCGGCGACGGTAGAATCGACCAAGGGTAAATCTTCTGTCCTTTTAG
1 AGCTCTCCAGCGCGAAGCTCCGGCGACGGTAGAATCGACCAAGGGTAAATCTTCTGTCCTTTCAG
*
141972 TTTTTCTTTTATTATTAATGTTTTTTTTAAAAATCTTTTTAAACCATTTTTTT-AAAAAAAAATC
66 TTTTTCTTTTATTATTAATGTTTTTTTT-AAAATCTTATTAAACCATTTTTTTAAAAAAAAAATC
142036 CTTTTATCAATTCTTTGTTTCTTTTTTCTGTGTTTTGCAGATCCATGCACGACAAGGAATAGGCG
130 CTTTTATCAATTCTTTGTTTCTTTTTTCTGTGTTTTGCAGATCCATGCACGACAAGGAATAGGCG
*
142101 GCGTTCGGCTTCCGGCGACGACGACTAGGGAAGTGACTTTTCGGCCTTTTGTTTTCCCCCCTTTT
195 GCGTTCGGCTTCCGGCGACGACGACTAGGGAAGTGACTCTTCGGCCTTTTGTTTTCCCCCCTTTT
142166 TTATTAATTATTAATTAATAATTATTAATATTAATATTATTAATATCAAAACATTTATTATTATT
260 TTATTAATTATTAATTAATAATTATTAATATTAATATTATTAATATCAAAACATTTATTATTATT
142231 AATGACTATTAAGAAAAACTTATTTATTATTAATAGGGTCATTAGTATTATTATTAATATTAAAA
325 AATGACTATTAAGAAAAACTTATTTATTATTAATAGGGTCATTAGTATTATTATTAATATTAAAA
142296 CAGTTATTAATATTAATAAAAGTTATTGAAACGTTTTGAAAATAAAAAGAAATAAATGACAATAG
390 CAGTTATTAATATTAATAAAAGTTATTGAAACGTTTTGAAAATAAAAAGAAATAAATGACAATAG
*
142361 CGGGTATTGAATGCATGCATTGGAACTGAATAGGGCTTTAAATGATGGTAAACATTTATTGAGGA
455 CGGGTATTGAATGCATGCATAGGAACTGAATAGGGCTTTAAATGATGGTAAACATTTATTGAGGA
*
142426 TACCTGGATGCTTTAATGTTTA
520 TACCTGGATGCTTTAATGCTTA
142448 AG
1 AG
142450 TGTTGTGATC
Statistics
Matches: 532, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
541 510 0.96
542 22 0.04
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (541 bp):
AGCTCTCCAGCGCGAAGCTCCGGCGACGGTAGAATCGACCAAGGGTAAATCTTCTGTCCTTTCAG
TTTTTCTTTTATTATTAATGTTTTTTTTAAAATCTTATTAAACCATTTTTTTAAAAAAAAAATCC
TTTTATCAATTCTTTGTTTCTTTTTTCTGTGTTTTGCAGATCCATGCACGACAAGGAATAGGCGG
CGTTCGGCTTCCGGCGACGACGACTAGGGAAGTGACTCTTCGGCCTTTTGTTTTCCCCCCTTTTT
TATTAATTATTAATTAATAATTATTAATATTAATATTATTAATATCAAAACATTTATTATTATTA
ATGACTATTAAGAAAAACTTATTTATTATTAATAGGGTCATTAGTATTATTATTAATATTAAAAC
AGTTATTAATATTAATAAAAGTTATTGAAACGTTTTGAAAATAAAAAGAAATAAATGACAATAGC
GGGTATTGAATGCATGCATAGGAACTGAATAGGGCTTTAAATGATGGTAAACATTTATTGAGGAT
ACCTGGATGCTTTAATGCTTA
Found at i:142950 original size:19 final size:20
Alignment explanation
Indices: 142897--142947 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
142887 AAGAATGTAA
142897 TTTGGACTTTTTGTAATTAT
1 TTTGGACTTTTTGTAATTAT
142917 TTTGGACTTTTTGTAATTAT
1 TTTGGACTTTTTGTAATTAT
142937 TTTGGACTTTT
1 TTTGGACTTTT
142948 GTATTTGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.06, G:0.16, T:0.61
Consensus pattern (20 bp):
TTTGGACTTTTTGTAATTAT
Found at i:142999 original size:18 final size:18
Alignment explanation
Indices: 142973--143106 Score: 184
Period size: 18 Copynumber: 7.6 Consensus size: 18
142963 TTATTTATTT
*
142973 TAAACTTTAAATTTGAAAA
1 TAAA-TTTAAATTTTAAAA
* * *
142992 TAATTTTAAA-CTTAAAT
1 TAAATTTAAATTTTAAAA
143009 TAAATTTAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
143027 TAAATTTAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
143045 TAAATTTAAA-TTTAAAA
1 TAAATTTAAATTTTAAAA
*
143062 TAAATTTAAATTTTTAAA
1 TAAATTTAAATTTTAAAA
*
143080 CAAATTT-AATTTTAAAA
1 TAAATTTAAATTTTAAAA
143097 TAAATTTAAA
1 TAAATTTAAA
143107 GGGAATATGG
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
17 45 0.45
18 53 0.52
19 3 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
TAAATTTAAATTTTAAAA
Found at i:143018 original size:35 final size:36
Alignment explanation
Indices: 142972--143106 Score: 179
Period size: 35 Copynumber: 3.8 Consensus size: 36
142962 TTTATTTATT
* * *
142972 TTAAACTTTAAATTTGAAAATAATTTTAAA-CTTAAA
1 TTAAA-TTTAAATTTTAAAATAAATTTAAATTTTAAA
143008 TTAAATTTAAATTTTAAAATAAATTTAAATTTTAAA
1 TTAAATTTAAATTTTAAAATAAATTTAAATTTTAAA
*
143044 ATAAATTTAAA-TTTAAAATAAATTTAAATTTTTAAA
1 TTAAATTTAAATTTTAAAATAAATTTAAA-TTTTAAA
*
143080 -CAAATTT-AATTTTAAAATAAATTTAAA
1 TTAAATTTAAATTTTAAAATAAATTTAAA
143107 GGGAATATGG
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
34 2 0.02
35 62 0.68
36 27 0.30
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (36 bp):
TTAAATTTAAATTTTAAAATAAATTTAAATTTTAAA
Found at i:143025 original size:7 final size:6
Alignment explanation
Indices: 142971--143074 Score: 83
Period size: 6 Copynumber: 17.5 Consensus size: 6
142961 ATTTATTTAT
* * *
142971 TTTAAA CTTTAAA TTTGAAA -ATAAT TTTAAA CTTAAA -TTAAA TTTAAA
1 TTTAAA -TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
143019 TTTTAAA -ATAAA TTTAAA TTTTAAA -ATAAA TTTAAA TTTAAA -ATAAA
1 -TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
143066 TTTAAA TTT
1 TTTAAA TTT
143075 TTAAACAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
5 19 0.24
6 38 0.49
7 21 0.27
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:143039 original size:53 final size:53
Alignment explanation
Indices: 142973--143106 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
142963 TTATTTATTT
* * *
142973 TAAACTTTAAATTTGAAAATAATTTTAAACTTAAATTAAATTTAAATTTTAAAA
1 TAAA-TTTAAATTTTAAAATAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
* *
143027 TAAATTTAAATTTTAAAATAAATTTAAATTTAAAATAAATTTAAATTTTTAAA
1 TAAATTTAAATTTTAAAATAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
*
143080 CAAATTT-AATTTTAAAATAAATTTAAA
1 TAAATTTAAATTTTAAAATAAATTTAAA
143107 GGGAATATGG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 20 0.27
53 50 0.68
54 4 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (53 bp):
TAAATTTAAATTTTAAAATAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
Found at i:143795 original size:198 final size:198
Alignment explanation
Indices: 143457--143924 Score: 789
Period size: 198 Copynumber: 2.4 Consensus size: 198
143447 CCGCGTCGCC
* *
143457 TGTTTCAA-TCTGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCA
1 TGTTTCAATTC-GCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCA
143521 TCAGGAAGCTAACCATTTAGATTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAA
65 TCAGGAAGCTAACCATTTAGATTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAA
* *
143586 GATTTTGCTCACTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATTAAGAAGATGGTCCCA
130 GATTTTGCTCACTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAAGAAGATGATCCCA
143651 TCAT
195 TCAT
* *
143655 TGTTTCAATTCGCTTCTTTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTTC-GTATCTTA
1 TGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTC-TCAGTATCTCA
* *
143719 TCAGGAAGCTAACCATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGGTTCAAA
65 TCAGGAAGCTAACCATTTAGATTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAA
*
143784 GATTTTGCTCACTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGATCCCA
130 GATTTTGCTCACTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAAGAAGATGATCCCA
143849 TCAT
195 TCAT
* *
143853 CGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTA-TATCTCA
1 TGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTC-AGTATCTCA
143917 TCAGGAAG
65 TCAGGAAG
143925 ACGAATTTGG
Statistics
Matches: 253, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
197 2 0.01
198 248 0.98
199 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (198 bp):
TGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCAT
CAGGAAGCTAACCATTTAGATTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAG
ATTTTGCTCACTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAAGAAGATGATCCCAT
CAT
Found at i:143915 original size:37 final size:37
Alignment explanation
Indices: 143865--143961 Score: 169
Period size: 37 Copynumber: 2.6 Consensus size: 37
143855 TTTCAATCCG
*
143865 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCA
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
143902 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
143939 CTTC-CTAGTATCTCATCAGGAAG
1 CTTCTCTA-TATCTCATCAGGAAG
143962 CAACCATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 3 0.05
37 55 0.95
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (37 bp):
CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
Found at i:144085 original size:234 final size:235
Alignment explanation
Indices: 143675--144158 Score: 880
Period size: 234 Copynumber: 2.1 Consensus size: 235
143665 CGCTTCTTTG
* * *
143675 TATCTCATCAGGAAGACGAATTTGGTTCACTTCTTCGTATCTTATCAGGAAGCTAACCATTTAGC
1 TATCTCATCAGGAAGACGAATTTGGTTCACTTCCTAGTATCTCATCAGGAAGCTAACCATTTAGC
*
143740 TTCCACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGGTTCAAAGATTTTGCTCACTTTGAGCCT
66 TTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACTTTGAGCCT
*
143805 CGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGATCCCATCATCGTTTCAATCCGCTTCT
131 CGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGATCCCATCATCGTTTCAATCCGCTTCT
*
143870 CTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTA
196 CTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCA
143910 TATCTCATCAGGAAGACGAATTTGGTTCACTTCCTAGTATCTCATCAGGAAGC-AACCATTTAGC
1 TATCTCATCAGGAAGACGAATTTGGTTCACTTCCTAGTATCTCATCAGGAAGCTAACCATTTAGC
143974 TTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACTTTGAGCCT
66 TTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACTTTGAGCCT
*
144039 CGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAATCCGCTTCT
131 CGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGATCCCATCATCGTTTCAATCCGCTTCT
* *
144104 CTGTATCTCATCAGGAAGATGAATTTGGTTCACTTCTCCG
196 CTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCA
144144 TATCTCATCAGGAAG
1 TATCTCATCAGGAAG
144159 CTAACCATTT
Statistics
Matches: 240, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
234 190 0.79
235 50 0.21
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (235 bp):
TATCTCATCAGGAAGACGAATTTGGTTCACTTCCTAGTATCTCATCAGGAAGCTAACCATTTAGC
TTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACTTTGAGCCT
CGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGATCCCATCATCGTTTCAATCCGCTTCT
CTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCA
Found at i:144239 original size:198 final size:197
Alignment explanation
Indices: 143902--144356 Score: 849
Period size: 198 Copynumber: 2.3 Consensus size: 197
143892 ATTTGGTTCA
*
143902 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTC-CTAGTATCTCATCAGGAAGCAAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCTC-CGTATCTCATCAGGAAGCAAC
*
143966 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACT
65 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCAAAGATTTTGCTCACT
144031 TTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAAT
130 TTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAAT
144096 CCG
195 CCG
* *
144099 CTTCTCTGTATCTCATCAGGAAGATGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGC-AAC
144164 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCAAAGATTTTGCTCACT
65 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCAAAGATTTTGCTCACT
144229 TTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAAT
130 TTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAAT
144294 CCG
195 CCG
144297 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAG
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAG
144357 ACGAATTTGG
Statistics
Matches: 250, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
197 56 0.22
198 194 0.78
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (197 bp):
CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCAACC
ATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCAAAGATTTTGCTCACTT
TGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAATC
CG
Found at i:144273 original size:432 final size:433
Alignment explanation
Indices: 143469--144672 Score: 2027
Period size: 432 Copynumber: 2.8 Consensus size: 433
143459 TTTCAATCTG
143469 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCATCAGGAAGCTAAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCATCAGGAAGCTAAC
*
143534 CATTTAGATTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACT
66 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACT
* *
143599 TTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATTAAGAAGATGGTCCCATCATTGTTTCAAT
131 TTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGGTCCCATCATTGTTTCAAT
* * * *
143664 TCGCTTCTTTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTTCGTATCTTATCAGGAAGCT
196 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCT
*
143729 AACCATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGGTTCAAAGATTTTGCTC
261 AACCATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTC
*
143794 ACTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGATCCCATCATCGTTTC
326 ACTTTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGATCCCATCATCGTTTC
*
143859 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCA
391 AATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
*
143902 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCTAGTATCTCATCAGGAAGC-AAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCATCAGGAAGCTAAC
143966 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACT
66 CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACT
* *
144031 TTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTCAAT
131 TTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGGTCCCATCATTGTTTCAAT
*
144096 CCGCTTCTCTGTATCTCATCAGGAAGATGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCT
196 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCT
*
144161 AACCATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCAAAGATTTTGCTC
261 AACCATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTC
*
144226 ACTTTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGGTCCCATCATCGTTTC
326 ACTTTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGATCCCATCATCGTTTC
144291 AATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
391 AATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
**
144334 CTTCTCCGTATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCATCAGGAAGCTAAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCATCAGGAAGCTAAC
*
144399 CATTTATTGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGGTTCAAAGATTTTGCTCA
66 CATTTA--GCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCA
* * * * *
144464 CTTTGAGCCTCGTTTGGATCTTCTCCTCAGTGTCTCATCTGGAAGAT-GACTGCGTCATTTGTTT
129 CTTTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGGTC-CCATCA-TTGTTT
* *
144528 CAA-CTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGTTTCACTTCTCAGTATCTCATCAGG
192 CAATC-CGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGG
* ** **
144592 AAGCTAACCTTTTATTGCTTCGGCCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTTGAAGAT
256 AAGCTAACCATTTA--GCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGAT
**
144657 TTTGCTTGCTTTGAGC
319 TTTGCTCACTTTGAGC
144673 GTAGGCTTGA
Statistics
Matches: 725, Mismatches: 38, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
432 414 0.57
433 69 0.10
434 2 0.00
435 105 0.14
436 77 0.11
438 58 0.08
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (433 bp):
CTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAGTATCTCATCAGGAAGCTAAC
CATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTCACT
TTGAGCCTCGTTTGGGTCTTCTCCTCAGTGTCTCATCAGGAAGATGGTCCCATCATTGTTTCAAT
CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCT
AACCATTTAGCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAGATTTTGCTC
ACTTTGAGCCTCGTTTGGGTCTTCTCCTCAATGTCTCATCAGGAAGATGATCCCATCATCGTTTC
AATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCA
Found at i:144347 original size:37 final size:37
Alignment explanation
Indices: 144305--144393 Score: 162
Period size: 37 Copynumber: 2.4 Consensus size: 37
144295 CGCTTCTCTA
144305 TATCTCATCAGGAAGACGAATTTGGTTCACTTCTCC-G
1 TATCTCATCAGGAAGACGAATTTGGTTCACTTC-CCAG
144342 TATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAG
1 TATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAG
144379 TATCTCATCAGGAAG
1 TATCTCATCAGGAAG
144394 CTAACCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 2 0.04
37 49 0.96
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (37 bp):
TATCTCATCAGGAAGACGAATTTGGTTCACTTCCCAG
Found at i:145226 original size:27 final size:27
Alignment explanation
Indices: 145196--145256 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
145186 CCAAGAATTC
*
145196 TATTAAAAAGAGGATCGAAGGAAACAA
1 TATTAAAAAGAGGATCAAAGGAAACAA
** *
145223 TATTAAAGGGAGGGTCAAAGGAAACAA
1 TATTAAAAAGAGGATCAAAGGAAACAA
145250 TCATTAA
1 T-ATTAA
145257 TTGAAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (27 bp):
TATTAAAAAGAGGATCAAAGGAAACAA
Done.