Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002848.1 Hibiscus syriacus cultivar Beakdansim tig00005860_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 185969
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9362 original size:17 final size:18
Alignment explanation
Indices: 9323--9362 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9313 AGATACGTAA
*
9323 AATTTTATATTAAAAGAT
1 AATTTTATAATAAAAGAT
*
9341 AATTTTTTAATAAAAG-T
1 AATTTTATAATAAAAGAT
9358 AATTT
1 AATTT
9363 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
AATTTTATAATAAAAGAT
Found at i:12026 original size:22 final size:22
Alignment explanation
Indices: 11979--12027 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11969 CTTCATTTCA
**
11979 TTTATGTTTACGAACAATCTTT
1 TTTATGTTTACGAACAATCTCG
*
12001 TTTATGTTTATGAACAAGT-TCG
1 TTTATGTTTACGAACAA-TCTCG
12023 TTTAT
1 TTTAT
12028 CGACTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTATGTTTACGAACAATCTCG
Found at i:12069 original size:37 final size:37
Alignment explanation
Indices: 12020--12092 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
12010 ATGAACAAGT
*
12020 TCGTTTATCGACTTATTCATTTATGTTCACAAACAAA
1 TCGTTTATCGACTCATTCATTTATGTTCACAAACAAA
* * *
12057 TCGTTTATCGACTCGTTCATTTATGTTTATAAACAA
1 TCGTTTATCGACTCATTCATTTATGTTCACAAACAA
12093 CTTGTCTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (37 bp):
TCGTTTATCGACTCATTCATTTATGTTCACAAACAAA
Found at i:12911 original size:18 final size:18
Alignment explanation
Indices: 12884--12923 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12874 ATTTTGATTC
12884 TTTTCCTTTGCTTTTAAT
1 TTTTCCTTTGCTTTTAAT
* *
12902 TTTTCTTTTGCTTTTGAT
1 TTTTCCTTTGCTTTTAAT
12920 TTTT
1 TTTT
12924 TTCCTGATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTCCTTTGCTTTTAAT
Found at i:23601 original size:20 final size:20
Alignment explanation
Indices: 23576--23626 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
23566 TGGTTCTCGA
23576 AATGTAAGATTACTAGTGGG
1 AATGTAAGATTACTAGTGGG
23596 AATGTAAGATTACTAGTGGG
1 AATGTAAGATTACTAGTGGG
23616 AATGTAAGATT
1 AATGTAAGATT
23627 TCCAGGGAAT
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:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (20 bp):
AATGTAAGATTACTAGTGGG
Found at i:23636 original size:18 final size:19
Alignment explanation
Indices: 23576--23633 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
23566 TGGTTCTCGA
*
23576 AATGTAAGATTACTAGTGGG
1 AATGTAAGATTACCAG-GGG
*
23596 AATGTAAGATTACTAGTGGG
1 AATGTAAGATTACCAG-GGG
*
23616 AATGTAAGATTTCCAGGG
1 AATGTAAGATTACCAGGG
23634 AATATGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (19 bp):
AATGTAAGATTACCAGGGG
Found at i:23825 original size:2 final size:2
Alignment explanation
Indices: 23820--23867 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
23810 ATTTAAATTC
23820 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
23862 AT AT AT
1 AT AT AT
23868 TACAAAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32938 original size:21 final size:21
Alignment explanation
Indices: 32912--32951 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32902 CCCCCTTTGA
*
32912 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
32933 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
32952 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:48989 original size:36 final size:36
Alignment explanation
Indices: 48948--49018 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
48938 GAGCTGTTCA
48948 CGAGCTTCAATTCA-AGATTTCGAGTTCGAGTCGAGT
1 CGAGCTTCAATTCAGAGATTTCGAG-TCGAGTCGAGT
* *
48984 CGAGCTTCATTTCAGAGTTTTCGAGTCGAGTCGAG
1 CGAGCTTCAATTCAGAGATTTCGAGTCGAGTCGAG
49019 CTCAGCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (36 bp):
CGAGCTTCAATTCAGAGATTTCGAGTCGAGTCGAGT
Found at i:50953 original size:28 final size:29
Alignment explanation
Indices: 50917--50971 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
50907 ACAATACATC
**
50917 ATTAATTTATTATATTTTA-AATCAAATA
1 ATTAATTTACAATATTTTATAATCAAATA
* *
50945 ATTATTTTACAATTTTTTATAATCAAA
1 ATTAATTTACAATATTTTATAATCAAA
50972 GGATTCAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTAATTTACAATATTTTATAATCAAATA
Found at i:54243 original size:22 final size:21
Alignment explanation
Indices: 54207--54287 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
54197 ATAGTAAAAC
*
54207 AATAATTAAAGTAATGATTTAA
1 AATAATTAAA-TAATGACTTAA
* *
54229 AATATATTAAATAATTAAGTTAA
1 AATA-ATTAAATAA-TGACTTAA
* *
54252 AATAACTAAATAATGACTAAA
1 AATAATTAAATAATGACTTAA
*
54273 AATAAATAAAATAAT
1 AAT-AATTAAATAAT
54288 AATAAATGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.17
22 24 0.50
23 16 0.33
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
AATAATTAAATAATGACTTAA
Found at i:55594 original size:3 final size:3
Alignment explanation
Indices: 55588--55632 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
55578 ATTTTTTATT
* *
55588 TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
55633 AACAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:56846 original size:3 final size:3
Alignment explanation
Indices: 56840--56887 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
56830 TATTTTTATT
*
56840 TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56888 AACAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57136 original size:76 final size:76
Alignment explanation
Indices: 57052--58182 Score: 1951
Period size: 76 Copynumber: 14.9 Consensus size: 76
57042 ACCCCGAGGG
*
57052 TTTGAAAACATCAAAAAACTCCCGAAGGATTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* *
57117 GACCCTGAGGA
66 GACCCTAAGGC
* *
57128 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAGCATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* **
57193 GACCTTAAGAT
66 GACCCTAAGGC
57204 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
57269 GACCCTAAGGC
66 GACCCTAAGGC
*
57280 TTTGAAAACATCAAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCATTGAAGGACTTACAGA
1 TTTGAAAACATC-AAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
57345 TGACCCTAAGGC
65 TGACCCTAAGGC
57357 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* *
57422 GACCCTGAGGA
66 GACCCTAAGGC
* **
57433 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAGTATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* **
57498 GACCTTAAGAT
66 GACCCTAAGGC
*
57509 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
57574 GACCCTAAGGC
66 GACCCTAAGGC
57585 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
57650 GACCCTAAGGC
66 GACCCTAAGGC
57661 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* *
57726 GACCCTGAGGA
66 GACCCTAAGGC
* *
57737 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAGCATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* **
57802 GACCTTAAGAT
66 GACCCTAAGGC
* *
57813 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAATGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
57878 GACCCTAAGGC
66 GACCCTAAGGC
*
57889 TTTGAAAACATCAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
57954 GACCCTAAGGC
66 GACCCTAAGGC
57965 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
58030 GACCCTAAGGC
66 GACCCTAAGGC
* *
58041 TTTAAAAACATCAAAAAGA-TCCCGAAGGCGTTTTGGAAACATCATGCACTGAAGGACTTACAGA
1 TTTGAAAACATCAAAAA-ACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
58105 TGACCCTAAGGC
65 TGACCCTAAGGC
58117 TTTGAAAACATCAAAAAGA-TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
1 TTTGAAAACATCAAAAA-ACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
58181 TG
65 TG
58183 TGAGAAATAG
Statistics
Matches: 1003, Mismatches: 50, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
76 927 0.92
77 76 0.08
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GACCCTAAGGC
Found at i:59335 original size:54 final size:54
Alignment explanation
Indices: 59253--59368 Score: 180
Period size: 54 Copynumber: 2.1 Consensus size: 54
59243 AGAATAACAG
* *
59253 GTTCGTAAAACATTTGACAGTGCATTCAT-CTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTT-CTGTGGCTTCTGCTCAGAT
*
59307 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
*
59361 GTTTGTAA
1 GTTCGTAA
59369 TCATTGAAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 52 0.91
55 5 0.09
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
Found at i:63633 original size:10 final size:10
Alignment explanation
Indices: 63614--63651 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
63604 TTCTTTTTCC
*
63614 TTTTTGTTTT
1 TTTTTCTTTT
63624 TTTTTCTTTT
1 TTTTTCTTTT
*
63634 TTTTTC-TAT
1 TTTTTCTTTT
63643 TTTTTCTTT
1 TTTTTCTTT
63652 GCTGGATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:63645 original size:17 final size:18
Alignment explanation
Indices: 63604--63645 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
63594 ATTTTCCTTC
63604 TTCTTTTTCCTTTTTGTT
1 TTCTTTTTCCTTTTTGTT
63622 TT-TTTTT-CTTTTT-TT
1 TTCTTTTTCCTTTTTGTT
63637 TTCTATTTT
1 TTCT-TTTT
63646 TTCTTTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 7 0.32
17 9 0.41
18 2 0.09
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (18 bp):
TTCTTTTTCCTTTTTGTT
Found at i:70754 original size:3 final size:3
Alignment explanation
Indices: 70748--70795 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
70738 TTTTTTTATT
* *
70748 TAA TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
70796 AACAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:74098 original size:18 final size:18
Alignment explanation
Indices: 74054--74098 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
74044 ATCAATCAGT
* *
74054 CAACCCAAAAAGCTTATC
1 CAACCCAACAAGCTGATC
74072 CAACCCAACAAGCTGATC
1 CAACCCAACAAGCTGATC
74090 CAACCCAAC
1 CAACCCAAC
74099 CTACTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.40, G:0.07, T:0.11
Consensus pattern (18 bp):
CAACCCAACAAGCTGATC
Found at i:80637 original size:42 final size:41
Alignment explanation
Indices: 80590--80714 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 41
80580 GAGCCTAGGA
*
80590 AAACTGTAAGGCTTACTCTTGCACACAACAAAGGGACCTGGG
1 AAACTGTAAGGCTTAC-CTTGCACACAACAAAGGGACCTGAG
*
80632 AAACTGTAAGGCTTACCTTTGCACACACCAAAGGGACCTGAG
1 AAACTGTAAGGCTTACC-TTGCACACAACAAAGGGACCTGAG
* *
80674 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGAACCTGA
1 AAACTGTAAGGCTTACCTT-GCACACAACAAAGGGACCTGA
80715 CAATACTTCC
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
41 3 0.04
42 74 0.96
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (41 bp):
AAACTGTAAGGCTTACCTTGCACACAACAAAGGGACCTGAG
Found at i:81710 original size:29 final size:28
Alignment explanation
Indices: 81671--81806 Score: 127
Period size: 29 Copynumber: 4.9 Consensus size: 28
81661 AGAATATCAT
* *
81671 CATTTTCAAAATAATTACCAAAACATCA
1 CATTTTCAAAATAATTACCAAAATAGCA
* * * * *
81699 CTCTTTTTAAAA-AA-TACGAAATTATCA
1 C-ATTTTCAAAATAATTACCAAAATAGCA
* *
81726 C-TTTT-AAAAAAATTACAAAAATAGCA
1 CATTTTCAAAATAATTACCAAAATAGCA
*
81752 CCATTTTCAAAATAATTACTAAAATAGCA
1 -CATTTTCAAAATAATTACCAAAATAGCA
81781 TCATTTTCAAAATAATTACCAAAATA
1 -CATTTTCAAAATAATTACCAAAATA
81807 CCACTCGGTT
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
24 4 0.04
25 6 0.07
26 10 0.11
27 12 0.13
28 7 0.08
29 51 0.57
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (28 bp):
CATTTTCAAAATAATTACCAAAATAGCA
Found at i:81835 original size:13 final size:13
Alignment explanation
Indices: 81817--81841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81807 CCACTCGGTT
81817 AACGGGTCGGGTG
1 AACGGGTCGGGTG
81830 AACGGGTCGGGT
1 AACGGGTCGGGT
81842 CAGGTGAAGT
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:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTG
Found at i:85803 original size:16 final size:17
Alignment explanation
Indices: 85778--85814 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
85768 CATTAATATT
*
85778 TATT-ATTAAGGTTT-A
1 TATTAATTAAGATTTGA
85793 TATTAATTAAGATTTGA
1 TATTAATTAAGATTTGA
85810 TATTA
1 TATTA
85815 TTGATATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 9 0.47
17 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
TATTAATTAAGATTTGA
Found at i:86854 original size:41 final size:41
Alignment explanation
Indices: 86797--86878 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
86787 AGACCTAGAG
86797 AGAGAAATGGACATGAGTTGGGTTGTTTCAAAATGAGGGAA
1 AGAGAAATGGACATGAGTTGGGTTGTTTCAAAATGAGGGAA
86838 AGAGAAATGGACATGAGTTGGGTTGTTTCAAAATGAGGGAA
1 AGAGAAATGGACATGAGTTGGGTTGTTTCAAAATGAGGGAA
86879 TTCAATCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.05, G:0.34, T:0.24
Consensus pattern (41 bp):
AGAGAAATGGACATGAGTTGGGTTGTTTCAAAATGAGGGAA
Found at i:87272 original size:2 final size:2
Alignment explanation
Indices: 87265--87328 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
87255 ATACTATTAA
87265 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
87307 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
87329 GGGTACGGTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88842 original size:182 final size:182
Alignment explanation
Indices: 88535--89026 Score: 797
Period size: 182 Copynumber: 2.7 Consensus size: 182
88525 TGTCGGTTTA
* * *
88535 TGTCGATACTTTATAAAAATGTATCAATCCACATCAATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * * *
88600 GTCACGAAAAGACAAAATTGGTAAAGCACTACCGGATATATTTAAAGTGTTGATACTTTAATATA
66 GTCTCGAAATGATAAAAATGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
*
88665 AGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCG-TCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCT-TATAAAG
*
88717 TGTCGATACTTTATAAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* **
88782 ATCTCGAAATGATAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAATGATAAAAATGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
88847 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAG
* * *
88899 TGTCGATACGTTATAAAAATGTATCGATCTACAACGATATAACAGGTAACAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
*
88964 GTCTCTAAATGATAAAAATGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCGAAATGATAAAAATGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
89027 AGTACACGTA
Statistics
Matches: 287, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 286 1.00
183 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAATGATAAAAATGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAG
Found at i:91225 original size:21 final size:21
Alignment explanation
Indices: 91201--91244 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
91191 AATACAATCA
91201 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
91222 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
91243 AG
1 AG
91245 GCATAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:91390 original size:66 final size:66
Alignment explanation
Indices: 91266--91390 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
91256 GAGTGGAAGG
** * *
91266 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTGACGGGTG
1 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGACGGGTG
91331 A
66 A
* * * * *
91332 AAAAATTGATGGAGTGGTGAAGGAAGTTGTGGAATTGAGGAGTGAGCTTACGAGGGTGA
1 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGA
91391 AGGGGGTGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.23
Consensus pattern (66 bp):
AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGACGGGTG
A
Found at i:91532 original size:18 final size:18
Alignment explanation
Indices: 91499--91533 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91489 AAATATGAAG
*
91499 AAGAAAAGAGGGAGGAAT
1 AAGAAAAGAGGAAGGAAT
*
91517 AAGAAAAGATGAAGGAA
1 AAGAAAAGAGGAAGGAA
91534 ATGAGGAGGA
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:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (18 bp):
AAGAAAAGAGGAAGGAAT
Found at i:93971 original size:200 final size:199
Alignment explanation
Indices: 93457--94590 Score: 1394
Period size: 200 Copynumber: 5.7 Consensus size: 199
93447 GTAAGCATAT
* * *
93457 GTGTCGATATATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
93522 AGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATAATGT
** * * * * *
93587 ATCGACACTT-TTTAATTTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACA
131 ATCGACACTTCTGGAA-TTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAAAGGGTGCACC
93651 CATAAA
194 CATAAA
* * * *
93657 TTGTGTCGAAACATTTAGAAAAAAGTATCGATCCCAGAAACATCGAAA--C----TCATAATGTA
1 --GTGTCGATACATTTA-TAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* ** * *
93716 ATAGGTAAATTTACAATGTAACCGGTATAACTATACCGATTTTATGAGAGAATAGGTCTACATAA
63 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATAA
* *
93781 TTTATTGACACTTCTGGAATTTGTGTCGATACTATTTGTCCAGAATGAATGCCCAAAAGGGTGCA
128 TGTATCGACACTTCTGGAATTTGTGTCGATACT-TTTGTCCAGAATGAATGCCCAAAAGGGTGCA
93846 CCCATAAA
192 CCCATAAA
*
93854 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
93919 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA-ACAT
66 GGTAATTTTGT-AATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATA-AT
* * * *
93982 GTATCGACAC-TCGTGGAATTTGTGTTGATACTTTTGGTCCAAAATCAAAGCCCAAAAGGGTGCA
129 GTATCGACACTTC-TGGAATTTGTGTCGATACTTTT-GTCCAGAATGAATGCCCAAAAGGGTGCA
*
94046 CCTATAAA
192 CCCATAAA
* * * * *
94054 GTGTCGATATATTTTTAAAAAGTTTCGATCCTAAAAACATCGAAACCCATAATTATAATGCAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
94119 GATAATTTTGTAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGATCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATAATGT
* * * * * * *
94184 ATCGACACTTATGTAATTTGTGTCGATACTATTTGCCCAAAAGGAATGCCCCAAAGGGTGCACAC
131 ATCGACACTTCTGGAATTTGTGTCGATACT-TTTGTCCAGAATGAATGCCCAAAAGGGTGCACCC
94249 ATAAA
195 ATAAA
** *
94254 GTGTCGATACATTTATAAAAAGTATTAATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
94319 GGTAATTTT-TCAATGTAACTGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACA-ACAT
66 GGTAATTTTGT-AATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATA-AT
* * * * * *
94382 GTATCGACACTTGTGGAATTTGTGTCGATACGTTTGGTCCAGAATCAAAGCCCAAAAAGGTGCAT
129 GTATCGACACTTCTGGAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAAAGGGTGCAC
*
94447 CTATAAA
193 CCATAAA
* * * * * * *
94454 GTGTCGATATATTTTTAAAAAATGTCGATCCCAAAAACATTGAAACACATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * * * *
94519 GGTAATTTTGTAATATAACTAGTATAACTATACCGGTTTTATGAGAAAATAGGTC-ATCATAAAG
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTA-CATAATG
94583 TATCGACA
130 TATCGACA
94591 ATTGTTAAAT
Statistics
Matches: 809, Mismatches: 100, Indels: 48
0.85 0.10 0.05
Matches are distributed among these distances:
194 29 0.04
195 14 0.02
196 2 0.00
197 125 0.15
198 3 0.00
199 9 0.01
200 578 0.71
201 9 0.01
202 13 0.02
203 27 0.03
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTCTGGAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
TAAA
Found at i:94287 original size:400 final size:398
Alignment explanation
Indices: 93457--94590 Score: 1584
Period size: 400 Copynumber: 2.8 Consensus size: 398
93447 GTAAGCATAT
* * *
93457 GTGTCGATATATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
93522 AGTAATTTTGT-AATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATA-AT
66 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACA-ACAT
* ** * * * * * *
93585 GTATCGACACTTTTTAATTTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
129 GTATCGACACTGTGGAA-TTTGTGTTGATACTTTTGGTCCAGAATCAAAGCCCAAAAAGGTGCAC
* * ** * *
93650 AC-ATAAATTGTGTCGAAACATTTAGAAAAAAGTATCGATCCCAGAAACATCGAAA-C----TCA
193 -CTATAAA--GTGTCGATATATTT-TTAAAAAGTATCGATCCCAAAAACATCGAAACCATAATTA
* ** * *
93709 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAACTATACCGATTTTATGAGAGAATAGGTC
254 TAATGTAATAGGTAATTTTGTAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTC
* * * * * *
93774 TACATAATTTATTGACACTTCTGGAATTTGTGTCGATACTATTTGTCCAGAATGAATGCCCAAAA
319 TACATAATGTATCGACACTTATGGAATTTGTGTCGATACTATTTGCCCAAAAGGAATGCCCAAAA
*
93839 GGGTGCACCCATAAA
384 GGGTGCACACATAAA
*
93854 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
*
93919 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGT
* *
93984 ATCGACACTCGTGGAATTTGTGTTGATACTTTTGGTCCAAAATCAAAGCCCAAAAGGGTGCACCT
131 ATCGACACT-GTGGAATTTGTGTTGATACTTTTGGTCCAGAATCAAAGCCCAAAAAGGTGCACCT
* *
94049 ATAAAGTGTCGATATATTTTTAAAAAGTTTCGATCCTAAAAACATCGAAACCCATAATTATAATG
195 ATAAAGTGTCGATATATTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCATAATTATAATG
* * *
94114 CAATAGATAATTTTGTAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGATCTACAT
259 TAATAGGTAATTTTGTAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACAT
* *
94179 AATGTATCGACACTTATGTAATTTGTGTCGATACTATTTGCCCAAAAGGAATGCCCCAAAGGGTG
324 AATGTATCGACACTTATGGAATTTGTGTCGATACTATTTGCCCAAAAGGAATGCCCAAAAGGGTG
94244 CACACATAAA
389 CACACATAAA
*
94254 GTGTCGATACATTTATAAAAAGTATTAATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
*
94319 GGTAATTTTTCAATGTAACTGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGT
* * *
94384 ATCGACACTTGTGGAATTTGTGTCGATACGTTTGGTCCAGAATCAAAGCCCAAAAAGGTGCATCT
131 ATCGACAC-TGTGGAATTTGTGTTGATACTTTTGGTCCAGAATCAAAGCCCAAAAAGGTGCACCT
* * * *
94449 ATAAAGTGTCGATATATTTTTAAAAAATGTCGATCCCAAAAACATTGAAACACATAATTATAATA
195 ATAAAGTGTCGATATATTTTTAAAAAGTATCGATCCCAAAAACATCGAAAC-CATAATTATAATG
** *
94514 TAATAGGTAATTTTGTAATATAACTAGTATAACTATACCGGTTTTATGAGAAAATAGGTC-ATCA
259 TAATAGGTAATTTTGTAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTA-CA
*
94578 TAAAGTATCGACA
323 TAATGTATCGACA
94591 ATTGTTAAAT
Statistics
Matches: 660, Mismatches: 64, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
394 26 0.04
395 12 0.02
396 4 0.01
397 172 0.26
398 3 0.00
399 2 0.00
400 440 0.67
401 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (398 bp):
GTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGT
ATCGACACTGTGGAATTTGTGTTGATACTTTTGGTCCAGAATCAAAGCCCAAAAAGGTGCACCTA
TAAAGTGTCGATATATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCATAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATAA
TGTATCGACACTTATGGAATTTGTGTCGATACTATTTGCCCAAAAGGAATGCCCAAAAGGGTGCA
CACATAAA
Found at i:96393 original size:199 final size:198
Alignment explanation
Indices: 96053--97219 Score: 1540
Period size: 199 Copynumber: 5.8 Consensus size: 198
96043 CCAAAAATTA
* * * * *
96053 CATAAAGTGTTGATACATTTTTAAAAATTATCGATCTCAAAAACATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* ** *
96118 GTAATAGGTAAATTTACAATATAACCAGTATAAATATACCGATTGTT-TGAGAGAATATGTCTAC
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATT-TTATGAGAGAATATGTCTAC
*
96182 AACATGTATCGACACTTGTGGAATTTGTGTCGATAC-TTTTGTCCAGAA-GAAATGGCAAAACGG
130 AACATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATG-AATGCCAAAA-GG
* *
96245 GTGTACC
192 GTGAACG
* * *
96252 CATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
96317 GTAATAGGTAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
** * *
96382 ACATGTATCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAAATGGT
131 ACATGTATCGACACTTTGGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAAGGGT
96447 GAACG
194 GAACG
* * *
96452 CATAAATTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
96517 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTAAGAGAGAATAGGTCTACA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
* ** * * *
96582 ACATGTATCAACACTTTTTAATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAATGGTG
131 ACATGTATCGACACTTTGGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTG
96647 AACG
195 AACG
* * * *
96651 CATAAAGTGTCGATATATTTATAAAAAGTATCGATCTCAAAAATATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * ** * ** * *
96716 ATAATAGGTAAATTTACAATGTAACCATTATAACTATACCGGTTTTATGAGAGAATATGTCTACA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
* *
96781 TA-ATGTATCGACACTTGTGGAATATGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGT
131 -ACATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGG-
*
96845 TGCACG
193 TGAACG
* *
96851 CATAAAGTGTCGATACATTTTTTAAAAAGTATCGACCCCAAAAACATCAAAACCCATAATTATAA
1 CATAAAGTGTCGATACA-TTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
* *
96916 TGTAATAGGTAATTTT-TCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTA
65 TGTAATAGGTAATTTTGT-AATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTA
* * * *
96980 CAACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTTCAGAATCAAAGCCCAAAAGG
129 CAACATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAAGG
* *
97045 GTGTACC
192 GTGAACG
*
97052 CATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * * *
97117 GTAATAGGTAATTTTGTAATATAACCGATATAACTATACCTG-TTTTATGAGTA-AATAGGTCTG
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACC-GATTTTATGAG-AGAATATGTCTA
**
97180 CATA-ATGTATCGACACTTTTAAATTTGTGTCGATACTTTT
129 CA-ACATGTATCGACACTTTGGAATTTGTGTCGATACTTTT
97220 AAATAACGCG
Statistics
Matches: 864, Mismatches: 88, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
198 5 0.01
199 341 0.39
200 333 0.39
201 176 0.20
202 9 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
ACATGTATCGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTGA
ACG
Found at i:96531 original size:200 final size:200
Alignment explanation
Indices: 96053--97219 Score: 1547
Period size: 200 Copynumber: 5.8 Consensus size: 200
96043 CCAAAAATTA
* * * * *
96053 CATAAAGTGTTGATACATTTTTAAAAATTATCGATCTCAAAAACATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* ** *
96118 GTAATAGGTAAATTTACAATATAACCAGTATAAATATACCGATTGTT-TGAGAGAATATGTCTAC
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATT-TTATGAGAGAATATGTCTAC
* *
96182 AACATGTATCGACACTTGTGGAATTTGTGTCGATAC-TTTTGTCCAGAA-GAAATG-GCAAAACG
130 AACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCAAGAATG-AATGCCCAAAA-G
* *
96244 GGTGTACC
193 GGTGAACG
* * *
96252 CATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
96317 GTAATAGGTAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
** *
96382 ACATGTATCGACACTT-TTTAATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAAATGG
131 ACATGTATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAAAGGG
96446 TGAACG
195 TGAACG
* * *
96452 CATAAATTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
96517 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTAAGAGAGAATAGGTCTACA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
* ** *
96582 ACATGTATCAACACTT-TTTAATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCC-AAATGG
131 ACATGTATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAAAGGG
96645 TGAACG
195 TGAACG
* * * *
96651 CATAAAGTGTCGATATATTTATAAAAAGTATCGATCTCAAAAATATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * ** * ** * *
96716 ATAATAGGTAAATTTACAATGTAACCATTATAACTATACCGGTTTTATGAGAGAATATGTCTACA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
*
96781 TA-ATGTATCGACACTTGTGGAATATGTGTCGATACTTTTTGTCCAA-AATGAATG-CCAAAAGG
131 -ACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGT-CAAGAATGAATGCCCAAAAGG
*
96843 GTTGCACG
194 G-TGAACG
* *
96851 CATAAAGTGTCGATACATTTTTTAAAAAGTATCGACCCCAAAAACATCAAAACCCATAATTATAA
1 CATAAAGTGTCGATACA-TTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
* *
96916 TGTAATAGGTAATTTT-TCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTA
65 TGTAATAGGTAATTTTGT-AATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTA
* * *
96980 CAACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTTC-AGAATCAAAGCCCAAAAG
129 CAACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTG-TCAAGAATGAATGCCCAAAAG
* *
97044 GGTGTACC
193 GGTGAACG
*
97052 CATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * * *
97117 GTAATAGGTAATTTTGTAATATAACCGATATAACTATACCTG-TTTTATGAGTA-AATAGGTCTG
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACC-GATTTTATGAG-AGAATATGTCTA
**
97180 CATA-ATGTATCGACACTT-TTAAATTTGTGTCGATACTTTT
129 CA-ACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTT
97220 AAATAACGCG
Statistics
Matches: 866, Mismatches: 82, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
198 7 0.01
199 335 0.39
200 340 0.39
201 174 0.20
202 10 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTACA
ACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAAAGGGT
GAACG
Found at i:96811 original size:399 final size:394
Alignment explanation
Indices: 96053--97219 Score: 1612
Period size: 399 Copynumber: 2.9 Consensus size: 394
96043 CCAAAAATTA
* * * * *
96053 CATAAAGTGTTGATACATTTTTAAAAATTATCGATCTCAAAAACATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
** * *
96118 GTAATAGGTAAATTTACAATATAACCAGTATAAATATACCGATTGTT-TGAGAGAATATGTCTAC
66 GTAATAGGT-AATTTTTAATATAACCGGTATAAATATACCGATT-TTATGAGAGAATAAGTCTAC
* *
96182 AACATGTATCGACACTTGTGGAATTTGTGTCGATAC-TTTTGTCCAGAA-GAAATGGCAAAACGG
129 AACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGT-CAGAATG-AATGCCCAAA-GG
*
96245 GTGTACCCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCAAAACCCATAA
191 GTGTACCCATAAAGTGTCGATACATTTT-AAAAAGTGTCGATCCCAAAAACATCGAAACCCATAA
** *
96310 TTATAATGTAATAGGTAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGAGAATAT
255 TTATAATGTAATAGGTAATTTTGTAATATAA-CCATATAACTATACCGGTTTTATGAGAGAATAT
*
96375 GTCTACA-ACATGTATCGACACTTTTTAATTTTGTGTCGATACTTTTTGT-CAAGAATGAATGCC
319 GTCTACATA-ATGTATCGACAC-TTTTAAATTTGTGTCGATACTTTTTGTCCAA-AATGAATG-C
*
96438 CAAAATGG-TGAACG
380 CAAAAGGGTTGAACG
* * *
96452 CATAAATTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
96517 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTAAGAGAGAATAGGTCTACA
66 GTAATAGGTAATTTT-TAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTACA
* ** *
96582 ACATGTATCAACACTT-TTTAATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAATGGT
130 ACATGTATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTC-AGAATGAATGCCCAAAGGGT
* * * * * *
96646 GAACGCATAAAGTGTCGATATATTTATAAAAAGTATCGATCTCAAAAATATCGAAACCCATAATT
193 GTACCCATAAAGTGTCGATACATTT-TAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATT
* * ** *
96711 ATAATATAATAGGTAAATTTACAATGTAACCATTATAACTATACCGGTTTTATGAGAGAATATGT
257 ATAATGTAATAGGTAATTTTGTAATATAACCA-TATAACTATACCGGTTTTATGAGAGAATATGT
** *
96776 CTACATAATGTATCGACACTTGTGGAATATGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAA
321 CTACATAATGTATCGACACTT-TTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAA
*
96841 GGGTTGCACG
385 GGGTTGAACG
* *
96851 CATAAAGTGTCGATACATTTTTTAAAAAGTATCGACCCCAAAAACATCAAAACCCATAATTATAA
1 CATAAAGTGTCGATACA-TTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
*
96916 TGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTAC
65 TGTAATAGGTAATTTTT-AATATAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTAC
* * *
96981 AACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTTCAGAATCAAAGCCCAAAAGGG
129 AACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTG-TCAGAATGAATGCCC-AAAGGG
97046 TGTACCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAAT
192 TGTACCCATAAAGTGTCGATACA-TTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAAT
* *
97111 TATAATGTAATAGGTAATTTTGTAATATAACCGATATAACTATACCTGTTTTATGAGTA-AATAG
256 TATAATGTAATAGGTAATTTTGTAATATAACC-ATATAACTATACCGGTTTTATGAG-AGAATAT
*
97175 GTCTGCATAATGTATCGACACTTTTAAATTTGTGTCGATACTTTT
319 GTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACTTTT
97220 AAATAACGCG
Statistics
Matches: 676, Mismatches: 72, Indels: 39
0.86 0.09 0.05
Matches are distributed among these distances:
398 21 0.03
399 319 0.47
400 190 0.28
401 141 0.21
402 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (394 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
GTAATAGGTAATTTTTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTACAA
CATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCAGAATGAATGCCCAAAGGGTGTA
CCCATAAAGTGTCGATACATTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAA
TGTAATAGGTAATTTTGTAATATAACCATATAACTATACCGGTTTTATGAGAGAATATGTCTACA
TAATGTATCGACACTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTG
AACG
Found at i:101373 original size:20 final size:19
Alignment explanation
Indices: 101335--101373 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
101325 CGAAACATAT
*
101335 AATTAAAATGTAATAGGTA
1 AATTAAAATGTAACAGGTA
*
101354 AATTAATAATGTAACCGGTA
1 AATTAA-AATGTAACAGGTA
101374 TAAATATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (19 bp):
AATTAAAATGTAACAGGTA
Found at i:101705 original size:21 final size:21
Alignment explanation
Indices: 101681--101733 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
101671 ATGCACGCAT
101681 AAAGTGTCGATACATTTATTA
1 AAAGTGTCGATACATTTATTA
101702 AAAGTGTCGATACATTTATTA
1 AAAGTGTCGATACATTTATTA
101723 AAAGTGTCGAT
1 AAAGTGTCGAT
101734 CCCAAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (21 bp):
AAAGTGTCGATACATTTATTA
Found at i:101903 original size:220 final size:220
Alignment explanation
Indices: 101482--101918 Score: 599
Period size: 220 Copynumber: 2.0 Consensus size: 220
101472 GTGCACGCAT
* * * *
101482 AAAGTATCGATACAATTATTAAAAGTATTGATCCCAATAACATCGAAACCGATAATTATAATGTA
1 AAAGTATCGATACAATTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTACAATGTA
* * *
101547 ATATGTAAATTTACAATGCAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCATCATAA
66 ATAGGTAAATTTACAATGCAACCGGTATAAATATAACAGTTTTATGAGAAAATAGGTCATAATAA
* * * * *
101612 AGTATCGACACTTGTTAAATTTGTGTTGATACATTTTGTCCATAATGAATGTCAAACGGATGCAC
131 AGTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGATACAA
101677 GCATAAAGTGTCGATACATTTATTA
196 GCATAAAGTGTCGATACATTTATTA
* * * *
101702 AAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTACAATGTG
1 AAAGTATCGATACAATTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTACAATGTA
* * **
101767 ATAGGTAAATTTACAATGTACCCGGTATAAATATAATGGTTTTATGAGAAAATAGGTC-TAAATA
66 ATAGGTAAATTTACAATGCAACCGGTATAAATATAACAGTTTTATGAGAAAATAGGTCAT-AATA
* * * * * * *
101831 ATGTATCGACACTTTTTAAGTTTGTGTCGATAC-TTTTTTCCAGAATGAATGCCCAATGAGGTAC
130 AAGTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACG-GATAC
101895 AAGCATAAAGTGTCGATACATTTA
194 AAGCATAAAGTGTCGATACATTTA
101919 AAATTGTATC
Statistics
Matches: 188, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
219 21 0.11
220 167 0.89
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (220 bp):
AAAGTATCGATACAATTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTACAATGTA
ATAGGTAAATTTACAATGCAACCGGTATAAATATAACAGTTTTATGAGAAAATAGGTCATAATAA
AGTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGATACAA
GCATAAAGTGTCGATACATTTATTA
Found at i:102124 original size:64 final size:64
Alignment explanation
Indices: 102056--102182 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
102046 TATATAAGTG
*** *
102056 CTACCTAATATGTTATTGTACTTAATAATATTTCCGGTTAAATGTTTATTTTATTATATAAACA
1 CTACCTAATATGTTATTGTACTTAATAATATTTCCGGTTAAATACCTATTTTATTATAAAAACA
* *
102120 CTACCTTATATGTTATTGTACTTGATAATATTTCCGGTTAAATACCTATTTTATTATAAAAAC
1 CTACCTAATATGTTATTGTACTTAATAATATTTCCGGTTAAATACCTATTTTATTATAAAAAC
102183 GTTACTTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (64 bp):
CTACCTAATATGTTATTGTACTTAATAATATTTCCGGTTAAATACCTATTTTATTATAAAAACA
Found at i:102221 original size:23 final size:23
Alignment explanation
Indices: 102162--102222 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
102152 TCCGGTTAAA
* *
102162 TACCTATTTTATTATAAAAACGT
1 TACCTATTATATTATAAAAACGC
* * *
102185 TACTTATTACATTATATAAACGC
1 TACCTATTATATTATAAAAACGC
*
102208 TACCTAATATATTAT
1 TACCTATTATATTAT
102223 TGTACTTGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (23 bp):
TACCTATTATATTATAAAAACGC
Found at i:103925 original size:17 final size:16
Alignment explanation
Indices: 103902--103970 Score: 54
Period size: 17 Copynumber: 4.3 Consensus size: 16
103892 ATGTTAAGTA
103902 AATAAAAGAAATAAAT
1 AATAAAAGAAATAAAT
* *
103918 ATATAAAATAAATAAGT
1 A-ATAAAAGAAATAAAT
* *
103935 AATAAAA-AAAGGAAAA
1 AATAAAAGAAA-TAAAT
103951 AATAGAAA-AAAT-AAT
1 AATA-AAAGAAATAAAT
103966 AATAA
1 AATAA
103971 TTTAAAGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 1 0.02
15 9 0.21
16 13 0.30
17 20 0.47
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (16 bp):
AATAAAAGAAATAAAT
Found at i:103945 original size:36 final size:38
Alignment explanation
Indices: 103874--103971 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 38
103864 GATGTTAGAC
103874 AAATAAATAAAT-AAATAAAT--GTTAAGTAAATAAAA-G
1 AAATAAATAAATAAAATAAATAAG-TAA-TAAATAAAAGG
*
103910 AAATAAATATATAAAATAAATAAGTAATAAA-AAAAGG
1 AAATAAATAAATAAAATAAATAAGTAATAAATAAAAGG
103947 AAA-AAATAGAA-AAAAT-AATAA-TAAT
1 AAATAAATA-AATAAAATAAATAAGTAAT
103972 TTAAAGAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
34 4 0.07
35 5 0.09
36 25 0.45
37 17 0.31
38 3 0.05
39 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (38 bp):
AAATAAATAAATAAAATAAATAAGTAATAAATAAAAGG
Found at i:104053 original size:18 final size:17
Alignment explanation
Indices: 104008--104079 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
103998 TTTTAAAAGC
104008 AATAA-AATAAAG-AAA
1 AATAATAATAAAGAAAA
*
104023 AAT-ATGAAGAAAGAAAA
1 AATAAT-AATAAAGAAAA
104040 AATAATAATTAAAGAAAA
1 AATAATAA-TAAAGAAAA
*
104058 TAATAA-AATAAA-ATAA
1 -AATAATAATAAAGAAAA
104074 AATAAT
1 AATAAT
104080 TTAGAGGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
16 9 0.19
17 12 0.26
18 12 0.26
19 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (17 bp):
AATAATAATAAAGAAAA
Found at i:105569 original size:84 final size:83
Alignment explanation
Indices: 105459--105644 Score: 214
Period size: 84 Copynumber: 2.2 Consensus size: 83
105449 CAGTTTTTTT
* * * *
105459 GTGGCAGATAGCCCTTCTCGATTTAAGCTATACTGCAAAATATATGT-ATTTG-AGCTGAGTGTA
1 GTGGCAGATAACCCTTCTCGACTTAAGCTATACTGC-AAATA-ATGTCACTCGAAGCTGAGTGTA
105522 ATCGAACTCGAAGGTCTTCG
64 ATCGAACTCGAAGGTCTTCG
* * * *
105542 GTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATAATGTGCCCTCGAAGCTGAGTGTA
1 G-TGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATAATGT-CACTCGAAGCTGAGTGTA
* *
105607 ATCGAACTTGAAGGTCTTTG
64 ATCGAACTCGAAGGTCTTCG
* *
105627 GTGACAGATAACTCTTCT
1 GTGGCAGATAACCCTTCT
105645 AGCCTTGAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
82 4 0.05
83 6 0.07
84 46 0.53
85 30 0.35
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (83 bp):
GTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATAATGTCACTCGAAGCTGAGTGTAAT
CGAACTCGAAGGTCTTCG
Found at i:105664 original size:84 final size:85
Alignment explanation
Indices: 105511--105703 Score: 239
Period size: 84 Copynumber: 2.3 Consensus size: 85
105501 TATGTATTTG
* * *
105511 AGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAACCCTTTTCGACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
105576 TGCAAATAATGTGCCCTCGA
66 TGCAAATAATGTGCCCTCGA
* * * * *
105596 AGCTGAGTGTAATCGAACTTGAAGGTCTTTGG-TGACAGATAACTCTTCTAGCCTTGAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * *
105660 TGCAAATGATATG-CC-AGG
66 TGCAAATAATGTGCCCTCGA
* *
105678 AGCTGAGCGTATTCGAACTCGAAGGT
1 AGCTGAGTGTAATCGAACTCGAAGGT
105704 ATTTGTTGAG
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
82 24 0.26
83 2 0.02
84 37 0.40
85 30 0.32
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATAATGTGCCCTCGA
Found at i:106359 original size:106 final size:106
Alignment explanation
Indices: 106174--106435 Score: 427
Period size: 106 Copynumber: 2.5 Consensus size: 106
106164 GTATTACTCC
* * * * *
106174 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
*
106238 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGCGCTGTCTT
65 GTCAGCAGCCCCTTCGCTGTGAAGTTGAGCTTGCGCTGTCTT
106280 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
* *
106345 TCAGCAGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
66 TCAGCAGCCCCTTCGCTGTGAAGTTGAGCTTGCGCTGTCTT
*
106386 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
106436 GCCCCTTCGT
Statistics
Matches: 146, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
106 145 0.99
107 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
TCAGCAGCCCCTTCGCTGTGAAGTTGAGCTTGCGCTGTCTT
Found at i:110833 original size:21 final size:21
Alignment explanation
Indices: 110807--110846 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110797 CAGAACCCCA
*
110807 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
110828 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
110847 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:120005 original size:4 final size:4
Alignment explanation
Indices: 119996--120062 Score: 64
Period size: 4 Copynumber: 16.5 Consensus size: 4
119986 GATGTTAGAC
** * *
119996 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -GTT AAGT AAAT AAAAG AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT
*
120044 AAAT ATAT AAAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AA
120063 GTAATAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 1 0.02
4 44 0.86
5 6 0.12
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:120055 original size:17 final size:16
Alignment explanation
Indices: 120032--120100 Score: 54
Period size: 17 Copynumber: 4.3 Consensus size: 16
120022 ATGTTAAGTA
120032 AATAAAAGAAATAAAT
1 AATAAAAGAAATAAAT
* *
120048 ATATAAAATAAATAAGT
1 A-ATAAAAGAAATAAAT
* *
120065 AATAAAA-AAAGGAAAA
1 AATAAAAGAAA-TAAAT
120081 AATAGAAA-AAAT-AAT
1 AATA-AAAGAAATAAAT
120096 AATAA
1 AATAA
120101 TTTAAAGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 1 0.02
15 9 0.21
16 13 0.30
17 20 0.47
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (16 bp):
AATAAAAGAAATAAAT
Found at i:120075 original size:36 final size:38
Alignment explanation
Indices: 120000--120101 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 38
119990 TTAGACAAAT
120000 AAATAAATAAAT-AAATAAATAAATGTTAAGTAAATAAAA-G
1 AAATAAATAAATAAAATAAAT-AA-G-TAA-TAAATAAAAGG
*
120040 AAATAAATATATAAAATAAATAAGTAATAAA-AAAAGG
1 AAATAAATAAATAAAATAAATAAGTAATAAATAAAAGG
120077 AAA-AAATAGAA-AAAAT-AATAA-TAAT
1 AAATAAATA-AATAAAATAAATAAGTAAT
120102 TTAAAGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
34 4 0.07
35 5 0.09
36 14 0.25
37 9 0.16
38 3 0.05
39 1 0.02
40 13 0.23
41 8 0.14
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.23
Consensus pattern (38 bp):
AAATAAATAAATAAAATAAATAAGTAATAAATAAAAGG
Found at i:120183 original size:18 final size:17
Alignment explanation
Indices: 120138--120209 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
120128 TTTTAAAATC
120138 AATAA-AATAAAG-AAA
1 AATAATAATAAAGAAAA
*
120153 AAT-ATGAAGAAAGAAAA
1 AATAAT-AATAAAGAAAA
120170 AATAATAATTAAAGAAAA
1 AATAATAA-TAAAGAAAA
*
120188 TAATAA-AATAAA-ATAA
1 -AATAATAATAAAGAAAA
120204 AATAAT
1 AATAAT
120210 TTAGAGGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
16 9 0.19
17 12 0.26
18 12 0.26
19 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (17 bp):
AATAATAATAAAGAAAA
Found at i:121385 original size:23 final size:23
Alignment explanation
Indices: 121353--121413 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
121343 GATAATAAAT
* *
121353 AAATAATAAATTTTACATTAATA
1 AAATATTAAATTATACATTAATA
* *
121376 AAATATTAAATGATACTTTAATA
1 AAATATTAAATTATACATTAATA
121399 AAATTATTAAATTAT
1 AAA-TATTAAATTAT
121414 CTTTGAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.69
24 10 0.31
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATATTAAATTATACATTAATA
Found at i:121422 original size:24 final size:23
Alignment explanation
Indices: 121370--121423 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
121360 AAATTTTACA
121370 TTAATAAAATATTAAATGATACT
1 TTAATAAAATATTAAATGATACT
*
121393 TTAATAAAATTATTAAATTAT-CT
1 TTAATAAAA-TATTAAATGATACT
121416 TTGAATAA
1 TT-AATAA
121424 CTTTTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAATAAAATATTAAATGATACT
Found at i:121849 original size:16 final size:16
Alignment explanation
Indices: 121825--121863 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
121815 AATAACTCAA
* *
121825 TTATGGATGACGTTCT
1 TTATTGATGACATTCT
121841 TTATTGATGACATTCT
1 TTATTGATGACATTCT
121857 TTATTGA
1 TTATTGA
121864 CTTGACCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (16 bp):
TTATTGATGACATTCT
Found at i:122245 original size:14 final size:16
Alignment explanation
Indices: 122226--122257 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
122216 GTAAGAAAAT
122226 AAATTTGT-TC-AATA
1 AAATTTGTATCGAATA
122240 AAATTTGTATCGAATA
1 AAATTTGTATCGAATA
122256 AA
1 AA
122258 CATTGCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
AAATTTGTATCGAATA
Found at i:143449 original size:14 final size:13
Alignment explanation
Indices: 143426--143462 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
143416 GGGTTTAAAA
143426 TTTAAGGGTTATGG
1 TTTAA-GGTTATGG
143440 TTTAGAGGTTATGG
1 TTTA-AGGTTATGG
143454 TTTAAGGTT
1 TTTAAGGTT
143463 TTAAGTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 16 0.73
15 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (13 bp):
TTTAAGGTTATGG
Found at i:143906 original size:20 final size:21
Alignment explanation
Indices: 143870--143915 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
143860 TATGGATTGA
* *
143870 CAGAGGAACCTTCATCTTCAC
1 CAGAAGAACCTTCATCTCCAC
143891 CAGAAGAACC-TCATCTCCAC
1 CAGAAGAACCTTCATCTCCAC
143911 CAGAA
1 CAGAA
143916 TAAACCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.17
Consensus pattern (21 bp):
CAGAAGAACCTTCATCTCCAC
Found at i:143921 original size:21 final size:21
Alignment explanation
Indices: 143876--143921 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
143866 TTGACAGAGG
* *
143876 AACCTTCATCTTCACCAGAAG
1 AACCTTCATCTCCACCAGAAA
143897 AACC-TCATCTCCACCAGAATA
1 AACCTTCATCTCCACCAGAA-A
143918 AACC
1 AACC
143922 ACCTCTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.37, C:0.37, G:0.07, T:0.20
Consensus pattern (21 bp):
AACCTTCATCTCCACCAGAAA
Found at i:144757 original size:19 final size:19
Alignment explanation
Indices: 144733--144792 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
144723 GATTTGTTTA
144733 CAAATAGATCGATCATTTT
1 CAAATAGATCGATCATTTT
** *
144752 CAAATATTTCGATCATTATAC
1 CAAATAGATCGATCATT-T-T
**
144773 CAAAGGGATCGATCATTTT
1 CAAATAGATCGATCATTTT
144792 C
1 C
144793 CTCGAGTAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (19 bp):
CAAATAGATCGATCATTTT
Found at i:144876 original size:20 final size:20
Alignment explanation
Indices: 144846--144922 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
144836 ACTGTTGTCC
*
144846 AAGGAATCGATCCTTTTTCA
1 AAGGGATCGATCCTTTTTCA
* * *
144866 AGGGGATCGATCATTTGGTCA
1 AAGGGATCGATCCTTT-TTCA
* * *
144887 AAGGGATCAATCCTTTTGCT
1 AAGGGATCGATCCTTTTTCA
* *
144907 AAGTGATCGACCCTTT
1 AAGGGATCGATCCTTT
144923 GAGCCAAAGA
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (20 bp):
AAGGGATCGATCCTTTTTCA
Found at i:144892 original size:21 final size:20
Alignment explanation
Indices: 144840--144894 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
144830 AAACTCACTG
* * *
144840 TTGTCCAAGGAATCGATCCT
1 TTGTCAAAGGGATCGATCAT
* *
144860 TTTTCAAGGGGATCGATCAT
1 TTGTCAAAGGGATCGATCAT
144880 TTGGTCAAAGGGATC
1 TT-GTCAAAGGGATC
144895 AATCCTTTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (20 bp):
TTGTCAAAGGGATCGATCAT
Found at i:153009 original size:3 final size:3
Alignment explanation
Indices: 153001--153048 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
152991 GAACAGAAAA
153001 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
153048 A
1 A
153049 CCCTTTGTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:153913 original size:74 final size:75
Alignment explanation
Indices: 153838--154061 Score: 228
Period size: 74 Copynumber: 3.1 Consensus size: 75
153828 TAAACTCAAG
* * **
153838 TTTAGAATAATATTTTAAACATTATAT-TTTTTCTTTGTATTTTACATTAAATAGGTTTTAGTAT
1 TTTAGAATATTATTTTAAATATTATATCTTTTT-TAGGTATTTTACATTAAATAGGTTTTAGTAT
*
153902 TTTAATTAAGT
65 TTTAATTAAGA
* * * **
153913 TTTAGGATATTATTTT-TATATTTTATCTTTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATT
1 TTTAGAATATTATTTTAAATATTATATCTTTTTTAGGTATTTTACATTAAATAGGTTTTAGTATT
*
153977 TTAATTAGGA
66 TTAATTAAGA
* * ** *
153987 TTTATAATATTATTTTAAATA-T-TA--TTTTATAGGTATTTTAGTTTAAATA-GTTTTAAGTGT
1 TTTAGAATATTATTTTAAATATTATATCTTTTTTAGGTATTTTACATTAAATAGGTTTT-AGTAT
*
154047 TTTAATTAGGA
65 TTTAATTAAGA
154058 TTTA
1 TTTA
154062 AGATGTTTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
70 5 0.04
71 43 0.33
73 2 0.02
74 58 0.45
75 22 0.17
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (75 bp):
TTTAGAATATTATTTTAAATATTATATCTTTTTTAGGTATTTTACATTAAATAGGTTTTAGTATT
TTAATTAAGA
Found at i:153985 original size:19 final size:19
Alignment explanation
Indices: 153884--153990 Score: 55
Period size: 19 Copynumber: 5.7 Consensus size: 19
153874 GTATTTTACA
*
153884 TTAAATAGGTTTTAGTATT
1 TTAATTAGGTTTTAGTATT
*
153903 TTAATTAAGTTTTAGGATATT
1 TTAATTAGGTTTTA-G-TATT
* ** *
153924 ATT-TTTATATTTTA-TCTT
1 -TTAATTAGGTTTTAGTATT
*
153942 TT--TTAGGTATTT--TAGT
1 TTAATTAGGT-TTTAGTATT
*
153958 TTAAATAGGTTTTAGTATT
1 TTAATTAGGTTTTAGTATT
*
153977 TTAATTAGGATTTA
1 TTAATTAGGTTTTA
153991 TAATATTATT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
16 8 0.12
17 8 0.12
18 8 0.12
19 27 0.41
20 1 0.02
21 12 0.18
22 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (19 bp):
TTAATTAGGTTTTAGTATT
Found at i:154057 original size:71 final size:73
Alignment explanation
Indices: 153874--154061 Score: 247
Period size: 74 Copynumber: 2.6 Consensus size: 73
153864 TTTTTTCTTT
** * * * * *
153874 GTATTTTACATTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTAT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAATATTA-
*
153939 CTTTTTTAG
65 CTTTTATAG
*
153948 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTATAATATTA-TTTTAAATATTA-
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAATATTAC
154011 TTTTATAG
66 TTTTATAG
*
154019 GTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTA
154062 AGATGTTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
70 5 0.05
71 43 0.42
73 10 0.10
74 45 0.44
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (73 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAATATTAC
TTTTATAG
Found at i:154741 original size:18 final size:19
Alignment explanation
Indices: 154718--154758 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
154708 TATTTATTAT
*
154718 TTTATTATT-TCCCTTTTA
1 TTTATTATTATCCATTTTA
*
154736 TTTATTATTATCTATTTTA
1 TTTATTATTATCCATTTTA
154755 TTTA
1 TTTA
154759 ATTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTATTATCCATTTTA
Found at i:155066 original size:12 final size:12
Alignment explanation
Indices: 155049--155079 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
155039 TTCTAGAGTT
155049 CTCTTCTTCATC
1 CTCTTCTTCATC
155061 CTCTTCTTCATC
1 CTCTTCTTCATC
*
155073 CACTTCT
1 CTCTTCT
155080 AGCCGTGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.42, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTTCTTCATC
Found at i:155737 original size:20 final size:20
Alignment explanation
Indices: 155712--155783 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
155702 AGTTAAGGAA
155712 TGTACCGATGCACTACAGAG
1 TGTACCGATGCACTACAGAG
*
155732 TGTACCGATGCACTACACAG
1 TGTACCGATGCACTACAGAG
155752 TGTACCGATGCACTACAGAG
1 TGTACCGATGCACTACAGAG
155772 TGTACCGATGCA
1 TGTACCGATGCA
155784 TACCTTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (20 bp):
TGTACCGATGCACTACAGAG
Found at i:159104 original size:30 final size:30
Alignment explanation
Indices: 159059--159135 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
159049 TGACCACTAC
* *
159059 TTATGTAATTGTATTTCATAATA-TTTCAAT
1 TTATGTGATTTTATTTC-TAATACTTTCAAT
**
159089 TTATGTGATTTTATTTTCTTGTACTTTCAAT
1 TTATGTGATTTTA-TTTCTAATACTTTCAAT
*
159120 TAATGTGATTTTATTT
1 TTATGTGATTTTATTT
159136 TATTTTACCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.43
31 23 0.57
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.58
Consensus pattern (30 bp):
TTATGTGATTTTATTTCTAATACTTTCAAT
Found at i:162012 original size:93 final size:93
Alignment explanation
Indices: 161853--162029 Score: 291
Period size: 93 Copynumber: 1.9 Consensus size: 93
161843 CTTTAAAAAA
* *
161853 ACTTACATAATCTATCAAAATGATCATAATTTTAAATTAATTCAATATATCTAATCTTCTAATCA
1 ACTTACACAATCTATCAAAATGATCATAATTTTAAATTAATTCAATATATCTAATCTTCCAATCA
* *
161918 TATAAATATACGTGTCAATGTCCTGATT
66 TATAAAGACACGTGTCAATGTCCTGATT
* * *
161946 ACTTACACAATCTATCAAAATGGTTATAATTTTAAATTAATTCAATATATTTAATCTTCCAATCA
1 ACTTACACAATCTATCAAAATGATCATAATTTTAAATTAATTCAATATATCTAATCTTCCAATCA
162011 TATAAAGACACGTGTCAAT
66 TATAAAGACACGTGTCAAT
162030 ACCACAATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (93 bp):
ACTTACACAATCTATCAAAATGATCATAATTTTAAATTAATTCAATATATCTAATCTTCCAATCA
TATAAAGACACGTGTCAATGTCCTGATT
Found at i:163758 original size:16 final size:17
Alignment explanation
Indices: 163732--163764 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
163722 ATTCAATGTA
163732 TTTGAGACACAGATATG
1 TTTGAGACACAGATATG
163749 TTTG-GACACAGATATG
1 TTTGAGACACAGATATG
163765 AATGTACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (17 bp):
TTTGAGACACAGATATG
Found at i:171316 original size:13 final size:13
Alignment explanation
Indices: 171277--171329 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
171267 ATTCTTCTAC
*
171277 TTTATTTATTTTC
1 TTTATTTATTTTA
171290 TCATTA-TTATTTTTA
1 T--TTATTTA-TTTTA
171305 TTTATTTATTTTA
1 TTTATTTATTTTA
*
171318 TTCATTTATTTT
1 TTTATTTATTTT
171330 CATTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 6 0.18
15 8 0.24
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:175749 original size:13 final size:13
Alignment explanation
Indices: 175733--175765 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
175723 CATCTCCATC
*
175733 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
175746 TTTCTTTCATTAT
1 TTTCTTTCATTAT
175759 TTTCTTT
1 TTTCTTT
175766 TCACAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:176378 original size:14 final size:14
Alignment explanation
Indices: 176359--176407 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
176349 TCTACTTTAT
176359 TTATTTTCTCATT-A
1 TTATTTT-TCATTCA
*
176373 TTATTTTTTATTCA
1 TTATTTTTCATTCA
176387 TTA-TTTT-ATTCA
1 TTATTTTTCATTCA
176399 CTTATTTTT
1 -TTATTTTT
176408 ATTAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 5 0.16
13 11 0.35
14 15 0.48
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTTTCATTCA
Found at i:176403 original size:13 final size:12
Alignment explanation
Indices: 176370--176406 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
176360 TATTTTCTCA
176370 TTATT-ATT-TT
1 TTATTCATTATT
176380 TTATTCATTATT
1 TTATTCATTATT
176392 TTATTCACTTATT
1 TTATTCA-TTATT
176405 TT
1 TT
176407 TATTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.21
11 3 0.12
12 9 0.38
13 7 0.29
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTCATTATT
Found at i:178301 original size:14 final size:14
Alignment explanation
Indices: 178291--178327 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
178281 CTTTTCTTCC
178291 TTTCTTCTTCTCCA
1 TTTCTTCTTCTCCA
178305 TTTCTTCTT-T-CA
1 TTTCTTCTTCTCCA
178317 TCTTCTTCTTC
1 T-TTCTTCTTC
178328 AAGCTTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 9 0.43
14 9 0.43
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTCTTCTTCTCCA
Found at i:179863 original size:21 final size:21
Alignment explanation
Indices: 179838--179891 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
179828 TTATGTTAGG
179838 AGTATTGATACTCTAAGGAGA
1 AGTATTGATACTCTAAGGAGA
179859 AGTATTGATACTCTAAGGAGA
1 AGTATTGATACTCTAAGGAGA
*
179880 AGTATCGATACT
1 AGTATTGATACT
179892 GTAGCCTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (21 bp):
AGTATTGATACTCTAAGGAGA
Found at i:181039 original size:45 final size:44
Alignment explanation
Indices: 180944--181042 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
180934 GTGCCGATGT
*
180944 TATGTGACCCGGACCTAGCCTAAGATACTATAAGGTGCTGATTC
1 TATGTGACCCGGACCTAGCCTAAGATACTATAAGATGCTGATTC
* * * *
180988 TATGTGACCCGGACCTCA-CCTAGGGTACTTGTGAGATGCTGATTC
1 TATGTGACCCGGACCT-AGCCTAAGATAC-TATAAGATGCTGATTC
181033 TATGTGACCC
1 TATGTGACCC
181043 AGATCTTGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 24 0.50
45 24 0.50
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (44 bp):
TATGTGACCCGGACCTAGCCTAAGATACTATAAGATGCTGATTC
Found at i:183365 original size:6 final size:6
Alignment explanation
Indices: 183354--183380 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
183344 TTAAATCAGC
183354 CAGGTT CAGGTT CAGGTT CAGGTT CAG
1 CAGGTT CAGGTT CAGGTT CAGGTT CAG
183381 AAGCCCCGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.30
Consensus pattern (6 bp):
CAGGTT
Done.