Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 43
Found at i:3592 original size:2 final size:2
Alignment explanation
Indices: 3585--3611 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3575 TTGAGTTAAA
3585 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3612 CTTAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4785 original size:15 final size:15
Alignment explanation
Indices: 4765--4795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4755 ATTTTTTTTA
*
4765 TTGAGAAGAATATTT
1 TTGAGAAAAATATTT
4780 TTGAGAAAAATATTT
1 TTGAGAAAAATATTT
4795 T
1 T
4796 AAGGACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (15 bp):
TTGAGAAAAATATTT
Found at i:5371 original size:23 final size:23
Alignment explanation
Indices: 5337--5386 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5327 ATTTTTTATT
* *
5337 AATAATAAATTTTAAATAATAAC
1 AATAATAAATTTAAAAAAATAAC
5360 GAATAA-AAATTTAAAAAAATAAC
1 -AATAATAAATTTAAAAAAATAAC
5383 AATA
1 AATA
5387 GACTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
AATAATAAATTTAAAAAAATAAC
Found at i:5657 original size:2 final size:2
Alignment explanation
Indices: 5652--5676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5642 TAAATTGCCC
5652 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5677 ACGTCAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5864 original size:2 final size:2
Alignment explanation
Indices: 5852--5884 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
5842 CCTAAACTTC
5852 TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
5885 AACAAACGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7555 original size:19 final size:19
Alignment explanation
Indices: 7531--7570 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7521 GTTAAACTAA
*
7531 TTTATAATGAATTTTATAT
1 TTTATAATGAATTTTAAAT
7550 TTTATAATGAATTTTAAAT
1 TTTATAATGAATTTTAAAT
7569 TT
1 TT
7571 ATGAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATGAATTTTAAAT
Found at i:8932 original size:28 final size:28
Alignment explanation
Indices: 8900--8954 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
8890 TCCAATTTTT
*
8900 AATATATTTTGTAGA-ACTAATTATGTCC
1 AATATATTTTATA-ACACTAATTATGTCC
*
8928 AATATATTTTATAACACTCATTATGTC
1 AATATATTTTATAACACTAATTATGTC
8955 TACGTCACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (28 bp):
AATATATTTTATAACACTAATTATGTCC
Found at i:12172 original size:39 final size:39
Alignment explanation
Indices: 12129--12216 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 39
12119 CATCAATGGT
*
12129 CACTAATGTTTGATTAAGTTTCAAAAGTAACAAATTGGC
1 CACTAACGTTTGATTAAGTTTCAAAAGTAACAAATTGGC
* **
12168 CACTAACGTTTGATTAAGTTTCAAAAGTAATAAATTGAT
1 CACTAACGTTTGATTAAGTTTCAAAAGTAACAAATTGGC
12207 CACTAACGTT
1 CACTAACGTT
12217 ATCGATTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (39 bp):
CACTAACGTTTGATTAAGTTTCAAAAGTAACAAATTGGC
Found at i:24059 original size:54 final size:53
Alignment explanation
Indices: 23953--24091 Score: 129
Period size: 54 Copynumber: 2.6 Consensus size: 53
23943 TCAAGGGTAG
* * * **
23953 TATCGATACCTGTAGAATGGTATCGATACCCTTAAAACTTCAAAGGTAATTTCGA
1 TATCGATACCTGCAGGA-GGTATCGATACCC-TAAAACATCAAACCTAATTTCGA
* * *
24008 TATCGATACCTTG-AGGAGGTATCGATACCCTAGAAACATCGAACCTTATTTCGG
1 TATCGATACC-TGCAGGAGGTATCGATACCCTA-AAACATCAAACCTAATTTCGA
* * *
24062 TATTGATGCATGCA-GAGGTATCGATACCCT
1 TATCGATACCTGCAGGAGGTATCGATACCCT
24092 TGAAGGGTGG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
53 20 0.28
54 36 0.51
55 13 0.18
56 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (53 bp):
TATCGATACCTGCAGGAGGTATCGATACCCTAAAACATCAAACCTAATTTCGA
Found at i:24106 original size:22 final size:20
Alignment explanation
Indices: 24078--24123 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
24068 TGCATGCAGA
24078 GGTATCGATACCCTTGAAGGGT
1 GGTATCGATACCCTT--AGGGT
*
24100 GGTATCGGTACCCTTAGGGT
1 GGTATCGATACCCTTAGGGT
24120 GGTA
1 GGTA
24124 CTGATACCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCCTTAGGGT
Found at i:24120 original size:20 final size:21
Alignment explanation
Indices: 24078--24131 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
24068 TGCATGCAGA
24078 GGTATCGATACCCTTGAAGGGT
1 GGTATCGATACCCTT-AAGGGT
*
24100 GGTATCGGTACCCTT-AGGGT
1 GGTATCGATACCCTTAAGGGT
24120 GGTA-CTGATACC
1 GGTATC-GATACC
24132 TCCAAGCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 14 0.48
22 14 0.48
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCCTTAAGGGT
Found at i:24713 original size:21 final size:21
Alignment explanation
Indices: 24659--24714 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
24649 GTAGAGGGTC
*
24659 TATGTGGTCCTTC-GGACAAT
1 TATGTGGTCCTTCGGGACAAA
*
24679 TATGTGGTCTTTCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
24700 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
24715 TGCAAGACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.34
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:24728 original size:24 final size:22
Alignment explanation
Indices: 24696--24752 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 22
24686 TCTTTCGGGA
24696 CAAA-TATGTGGCACTTCGGTG
1 CAAACTATGTGGCACTTCGGTG
*
24717 CAAGACCTATGTGACACTTCGGTG
1 CAA-A-CTATGTGGCACTTCGGTG
24741 CAAACTATGTGG
1 CAAACTATGTGG
24753 TCCTTCGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 3 0.10
22 8 0.26
23 1 0.03
24 19 0.61
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
CAAACTATGTGGCACTTCGGTG
Found at i:24758 original size:22 final size:21
Alignment explanation
Indices: 24658--24759 Score: 77
Period size: 24 Copynumber: 4.7 Consensus size: 21
24648 AGTAGAGGGT
*
24658 CTATGTGGTCCTTCGGAC-AA
1 CTATGTGGTCCTTCGGGCAAA
* *
24678 TTATGTGGTCTTTCGGGACAAA
1 CTATGTGGTCCTTCGGG-CAAA
24700 -TATGTGG-CACTTCGGTGCAAGA
1 CTATGTGGTC-CTTCGG-GCAA-A
*
24722 CCTATGT-GACACTTCGGTGCAAA
1 -CTATGTGGTC-CTTCGG-GCAAA
24745 CTATGTGGTCCTTCG
1 CTATGTGGTCCTTCG
24760 ATATAAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
20 15 0.22
21 16 0.24
22 15 0.22
23 4 0.06
24 18 0.26
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (21 bp):
CTATGTGGTCCTTCGGGCAAA
Found at i:25670 original size:2 final size:2
Alignment explanation
Indices: 25663--25712 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
25653 GATAACATAC
25663 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
25705 AT AT AT AT
1 AT AT AT AT
25713 GGATTTTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26974 original size:21 final size:21
Alignment explanation
Indices: 26950--27001 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
26940 GATGGCGAAT
26950 GCATTTAAGATGCAGAAAAGA
1 GCATTTAAGATGCAGAAAAGA
26971 GCATTTAAGATGCAGAAAAGA
1 GCATTTAAGATGCAGAAAAGA
*
26992 GCAATTAAGA
1 GCATTTAAGA
27002 GGAAGAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.19
Consensus pattern (21 bp):
GCATTTAAGATGCAGAAAAGA
Found at i:28359 original size:2 final size:2
Alignment explanation
Indices: 28352--28385 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
28342 CCTATAAAAT
28352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28386 CAATAATGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31303 original size:24 final size:25
Alignment explanation
Indices: 31271--31344 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 25
31261 TTGAAATTAA
* *
31271 TTTTAAAATATTA-ATTTATTATTT
1 TTTTAAAATATTATATTAATTATAT
*
31295 TTTTAAAATCTTATATTAATTATAT
1 TTTTAAAATATTATATTAATTATAT
* *
31320 TTTT-AAATA-TATATGAAATATAT
1 TTTTAAAATATTATATTAATTATAT
31343 TT
1 TT
31345 ATTTATAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
23 14 0.33
24 16 0.37
25 13 0.30
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
TTTTAAAATATTATATTAATTATAT
Found at i:31322 original size:25 final size:24
Alignment explanation
Indices: 31271--31331 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
31261 TTGAAATTAA
* *
31271 TTTTAAAATATTAATTTATTATTT
1 TTTTAAAATATTAATTAATTATAT
*
31295 TTTTAAAATCTTATATTAATTATAT
1 TTTTAAAATATTA-ATTAATTATAT
31320 TTTTAAATATAT
1 TTTTAAA-ATAT
31332 ATGAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 12 0.39
25 16 0.52
26 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTAAAATATTAATTAATTATAT
Found at i:41066 original size:32 final size:32
Alignment explanation
Indices: 41025--41085 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
41015 ATTATTTATA
* *
41025 ATATGTAATATATATAGTTGTAGAAAATAAAT
1 ATATATAATATAAATAGTTGTAGAAAATAAAT
* *
41057 ATATATAATATAAATAGTTTTTGAAAATA
1 ATATATAATATAAATAGTTGTAGAAAATA
41086 TAGTTGTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (32 bp):
ATATATAATATAAATAGTTGTAGAAAATAAAT
Found at i:41151 original size:44 final size:43
Alignment explanation
Indices: 41103--41216 Score: 115
Period size: 47 Copynumber: 2.6 Consensus size: 43
41093 TGAAAACGTG
*
41103 TATAATATATATATATATATTAAAAACATATTGTTTTTAAAAAA
1 TATAATATATATATAT-TATTAAAAACATATAGTTTTTAAAAAA
* * *
41147 TATAATATATTATACATTTTTTCAAAAAACATATAGTTTTTAAAACA
1 TATAATATA-TATATA-TTATT--AAAAACATATAGTTTTTAAAAAA
*
41194 T-TTATATATAGTATATTA-TAAAA
1 TATAATATATA-TATATTATTAAAA
41217 TAAATGTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.07
44 10 0.17
45 12 0.21
46 10 0.17
47 22 0.38
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (43 bp):
TATAATATATATATATTATTAAAAACATATAGTTTTTAAAAAA
Found at i:44087 original size:29 final size:28
Alignment explanation
Indices: 43994--44087 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
43984 ACCCAATCAT
43994 ATATATTA-ATATTTAAAATAATTAAAATA
1 ATATATTATAT-TTTAAAAT-ATTAAAATA
* ** * * *
44023 ATATATTTTATAATAATATATTTATAATT
1 ATATATTATATTTTAAAATA-TTAAAATA
*
44052 ATTTATTATATTTTAAAATATTAAAAATA
1 ATATATTATATTTTAAAATATT-AAAATA
44081 ATATATT
1 ATATATT
44088 TTATAGTAAT
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
28 3 0.06
29 43 0.90
30 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATATATTATATTTTAAAATATTAAAATA
Found at i:44087 original size:58 final size:56
Alignment explanation
Indices: 43997--44104 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 56
43987 CAATCATATA
43997 TATTAATATTTAAAATAATTAAAATAATATATTTTATAATAATATATTTATAATTATT
1 TATTAATATTTAAAATAATTAAAATAATATATTTTATAATAAT-T-TTTATAATTATT
*
44055 TATT-ATATTTTAAAAT-ATTAAAAATAATATATTTTATAGTAATTTTTATA
1 TATTAATA-TTTAAAATAATT-AAAATAATATATTTTATAATAATTTTTATA
44105 TTTTTAACAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
56 6 0.13
57 7 0.15
58 34 0.72
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (56 bp):
TATTAATATTTAAAATAATTAAAATAATATATTTTATAATAATTTTTATAATTATT
Found at i:44131 original size:41 final size:43
Alignment explanation
Indices: 44034--44137 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 43
44024 TATATTTTAT
*
44034 AATAATATA-TTTATAATTATTTATTATATTTTAAAATATTAAA
1 AATAATATATTTTATAATAATTTATTATATTTTAAAATATT-AA
* *
44077 AATAATATATTTTATAGTAATTT-TTATATTTTTAACA-ATT-A
1 AATAATATATTTTATAATAATTTATTATA-TTTTAAAATATTAA
44118 AATAATATATTTTAATAATA
1 AATAATATATTTT-ATAATA
44138 TAAAATGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 14 0.26
42 5 0.09
43 17 0.31
44 18 0.33
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (43 bp):
AATAATATATTTTATAATAATTTATTATATTTTAAAATATTAA
Found at i:44927 original size:21 final size:21
Alignment explanation
Indices: 44901--44940 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
44891 AATTTGAATA
44901 TAAAAAAAACTCACGTCCTTC
1 TAAAAAAAACTCACGTCCTTC
44922 TAAAAAAAACTCACGTCCT
1 TAAAAAAAACTCACGTCCT
44941 ATTGTCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.28, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAAAAAACTCACGTCCTTC
Found at i:57473 original size:19 final size:19
Alignment explanation
Indices: 57449--57491 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
57439 ATTTTTAAAT
57449 ATGTTTAATACAAAAATAA
1 ATGTTTAATACAAAAATAA
57468 ATGTTTAATACAAAAATAA
1 ATGTTTAATACAAAAATAA
*
57487 GTGTT
1 ATGTT
57492 CAAACTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (19 bp):
ATGTTTAATACAAAAATAA
Found at i:60014 original size:36 final size:36
Alignment explanation
Indices: 59963--60033 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
59953 GAGCTATACA
*
59963 CACAAAGTTCATGTTAGATTGATACCAAAAGTATTC
1 CACAAAGATCATGTTAGATTGATACCAAAAGTATTC
*
59999 CACAAAGATCTTGTTAGATTGATACCAAAAGTATT
1 CACAAAGATCATGTTAGATTGATACCAAAAGTATT
60034 TACGGTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (36 bp):
CACAAAGATCATGTTAGATTGATACCAAAAGTATTC
Found at i:62836 original size:8 final size:8
Alignment explanation
Indices: 62823--62855 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
62813 TCATCAGAAA
62823 AAAAAAAT
1 AAAAAAAT
62831 AAAAAAAT
1 AAAAAAAT
62839 AAAAAAAT
1 AAAAAAAT
62847 AAAAAAAT
1 AAAAAAAT
62855 A
1 A
62856 GATGAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:62863 original size:10 final size:9
Alignment explanation
Indices: 62859--62916 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
62849 AAAAATAGAT
62859 GAAAAAGAA
1 GAAAAAGAA
62868 GAAAAA-AA
1 GAAAAAGAA
62876 GGAAAAAG--
1 -GAAAAAGAA
62884 GAAAAAG-A
1 GAAAAAGAA
62892 GAAGAAAGAA
1 GAA-AAAGAA
*
62902 AAAAGAAGAA
1 GAAA-AAGAA
62912 GAAAA
1 GAAAA
62917 GAAATTGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 7 0.17
8 5 0.12
9 18 0.44
10 11 0.27
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:62918 original size:22 final size:23
Alignment explanation
Indices: 62863--62920 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
62853 ATAGATGAAA
*
62863 AAGAAGAAAA-AAAGGAAAAAGG
1 AAGAAGAAAAGAAAGGAAAAAAG
* *
62885 AAAAAGAGAAGAAA-GAAAAAAG
1 AAGAAGAAAAGAAAGGAAAAAAG
62907 AAGAAGAAAAGAAA
1 AAGAAGAAAAGAAA
62921 TTGAATCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AAGAAGAAAAGAAAGGAAAAAAG
Found at i:64138 original size:78 final size:78
Alignment explanation
Indices: 64022--64173 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 78
64012 CATGCTGAAA
* * * *
64022 GCCCATTTCAACTAGAAATGATCCATGTGAGGCGTTTTGAAAGCTCATATTAGTATGAAAGTTTG
1 GCCCATTTCAACTAGAAATGATCCATGTGAGGCATTTTGAAAACTCACATTAGTATGAAAATTTG
64087 GGGCATTTTTAAG
66 GGGCATTTTTAAG
* * *
64100 GCCCATTTCAGAC-AGAAATGATTCATGTGGGGCATTTTGAAAACTCGCATTAGTATGAAAATTT
1 GCCCATTTCA-ACTAGAAATGATCCATGTGAGGCATTTTGAAAACTCACATTAGTATGAAAATTT
*
64164 GGGGTATTTT
65 GGGGCATTTT
64174 GAAAGCTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 63 0.97
79 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (78 bp):
GCCCATTTCAACTAGAAATGATCCATGTGAGGCATTTTGAAAACTCACATTAGTATGAAAATTTG
GGGCATTTTTAAG
Found at i:66046 original size:38 final size:37
Alignment explanation
Indices: 65850--66054 Score: 122
Period size: 37 Copynumber: 5.6 Consensus size: 37
65840 TCAAATAAAA
* **
65850 TTTATCTCACTTGAGATTG-TTTTTCTTAAAACAAAC
1 TTTATCTCGCTTGAGAAAGTTTTTTCTTAAAACAAAC
* * * ** *
65886 TTTTTCTTGCTTAAGAAAG-TTTCACTCGAAATAGC-AA-
1 TTTATCTCGCTTGAGAAAGTTTTTTCT-TAAA-A-CAAAC
* *
65923 TTTATCTCACTTGAG--ATTTTTTTCTTAAAACAAAC
1 TTTATCTCGCTTGAGAAAGTTTTTTCTTAAAACAAAC
* **
65958 TTTTTCTCGCTTGAGAAAG-TTTCACTTGAAATAGCAAA-
1 TTTATCTCGCTTGAGAAAGTTTTTTCTT-AAA-A-CAAAC
* **
65996 -TTATCTCACTTGAGATTTGTTTTTTCTTAAAACAAAC
1 TTTATCTCGCTTGAGA-AAGTTTTTTCTTAAAACAAAC
*
66033 TTTATCTTGCTTGAGAAAGTTT
1 TTTATCTCGCTTGAGAAAGTTT
66055 CAATTGAAAT
Statistics
Matches: 122, Mismatches: 32, Indels: 29
0.67 0.17 0.16
Matches are distributed among these distances:
33 1 0.01
34 3 0.02
35 17 0.14
36 33 0.27
37 36 0.30
38 21 0.17
39 11 0.09
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTATCTCGCTTGAGAAAGTTTTTTCTTAAAACAAAC
Found at i:66055 original size:75 final size:73
Alignment explanation
Indices: 65848--66108 Score: 434
Period size: 72 Copynumber: 3.6 Consensus size: 73
65838 TTTCAAATAA
* *
65848 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTTGCTTAAGAAAGTTTCACTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTTGCTTGAGAAAGTTTCACTT
65913 GAAATAGC
66 GAAATAGC
*
65921 AATTTATCTCACTTGAGATT-TTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACTT
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTTGCTTGAGAAAGTTTCACTT
65985 GAAATAGC
66 GAAATAGC
* * *
65993 AAATTATCTCACTTGAGATTTGTTTTTTCTTAAAACAAACTTTATCTTGCTTGAGAAAGTTTCAA
1 AATTTATCTCACTTGAGA-TTG-TTTTTCTTAAAACAAACTTTTTCTTGCTTGAGAAAGTTTCAC
66058 TTGAAATAGC
64 TTGAAATAGC
*
66068 AATTTATTTCACTTGAGATTGTTTTTCTTAAAACAAACTTT
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTT
66109 CTCTCGAGAC
Statistics
Matches: 176, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
72 66 0.38
73 42 0.24
74 3 0.02
75 65 0.37
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (73 bp):
AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTTGCTTGAGAAAGTTTCACTT
GAAATAGC
Found at i:66064 original size:147 final size:146
Alignment explanation
Indices: 65851--66114 Score: 449
Period size: 147 Copynumber: 1.8 Consensus size: 146
65841 CAAATAAAAT
* *
65851 TTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTTGCTTAAGAAAGTTTCACTCGAA
1 TTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTATCTTGCTTAAGAAAGTTTCAATCGAA
*
65916 ATAGCAATTTATCTCACTTGAGATT-TTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTT
66 ATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTCTCTCGCTTGAGAAAGTTT
65980 CACTTGAAATAGCAAA
131 CACTTGAAATAGCAAA
* *
65996 TTATCTCACTTGAGATTTGTTTTTTCTTAAAACAAACTTTATCTTGCTTGAGAAAGTTTCAATTG
1 TTATCTCACTTGAGA-TTG-TTTTTCTTAAAACAAACTTTATCTTGCTTAAGAAAGTTTCAATCG
*
66061 AAATAGCAATTTATTTCACTTGAGATTGTTTTTCTTAAAACAAACTTTCTCTCG
64 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTCTCTCG
66115 AGACAGTTTC
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
145 15 0.14
146 3 0.03
147 67 0.61
148 25 0.23
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (146 bp):
TTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTATCTTGCTTAAGAAAGTTTCAATCGAA
ATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTCTCTCGCTTGAGAAAGTTT
CACTTGAAATAGCAAA
Found at i:66435 original size:120 final size:122
Alignment explanation
Indices: 66156--66479 Score: 413
Period size: 120 Copynumber: 2.7 Consensus size: 122
66146 CACTCGATGA
* * * *
66156 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTTAATAGGAAGAAGAATTTCATA
1 ATCAACATTTCCAGAA-GAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
** * * * *
66221 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTGCAGAAGGAGATAGAATAAC
65 ATGAGAAGAACTTGTTCAACCTTTAGCTCAACTCTATCGCAGAAGGAGATAGAATAAC
*
66279 ATCAACATTTCCAAAAGAAGTTCATAATAAGAAGAACTCAT-TGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAG-AGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
66343 ATGAGAAGAACTTGTTCAACC-TTAGCTCAATTC-ATCGCATATGGAGATA-TATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTAGCTCAACTCTATCGCAGAAGGAGATAGAAT-AAC
* * *
66399 ATCAACATTTCTAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
66464 ATGAGAAGAACTTGTT
65 ATGAGAAGAACTTGTT
66480 TAACATTGCC
Statistics
Matches: 177, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
119 2 0.01
120 50 0.28
121 49 0.28
122 39 0.22
123 37 0.21
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTAGCTCAACTCTATCGCAGAAGGAGATAGAATAAC
Found at i:66497 original size:121 final size:119
Alignment explanation
Indices: 66156--66509 Score: 406
Period size: 121 Copynumber: 2.9 Consensus size: 119
66146 CACTCGATGA
* * * *
66156 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTTAATAGGAAGAAGAATTTCATA
1 ATCAACATTTCCAGAA-GAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
** * * * * *
66221 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTGCAGAAGGAGATAGAATAAC
65 ATGAGAAGAACTTGTTCAA-C-ATTGCTCGATTC-ATTGCATATGGAGATAGAATAAC
*
66279 ATCAACATTTCCAAAAGAAGTTCATAATAAGAAGAACTCAT-TGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAG-AGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
66343 ATGAGAAGAACTTGTTCAACCTTAGCTCAATTCATCGCATATGGAGATA-TATCAGC
65 ATGAGAAGAACTTGTTCAACATT-GCTCGATTCATTGCATATGGAGATAGAAT-AAC
* * *
66399 ATCAACATTTCTAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
66464 ATGAGAAGAACTTGTTTAACATTGCCTTGATTCATTACATATGGAG
65 ATGAGAAGAACTTGTTCAACATTG-CTCGATTCATTGCATATGGAG
66510 TTGAATTAAT
Statistics
Matches: 199, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
119 2 0.01
120 53 0.27
121 70 0.35
122 37 0.19
123 37 0.19
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (119 bp):
ATCAACATTTCCAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACATTGCTCGATTCATTGCATATGGAGATAGAATAAC
Found at i:67931 original size:29 final size:31
Alignment explanation
Indices: 67875--67932 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
67865 ATTATTTCTT
*
67875 TATTTTATTTCAATTTTTGCATATTAATTTC
1 TATTTTATTTCAATTTTAGCATATTAATTTC
*
67906 TATTTTATTTC-ATTTTAGTA-ATTAATT
1 TATTTTATTTCAATTTTAGCATATTAATT
67933 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 7 0.28
31 11 0.44
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (31 bp):
TATTTTATTTCAATTTTAGCATATTAATTTC
Found at i:70405 original size:31 final size:31
Alignment explanation
Indices: 70367--70582 Score: 310
Period size: 31 Copynumber: 7.0 Consensus size: 31
70357 CCCGAATGAC
* * * *
70367 CAGTCCATAGGTCCATAAAAACCTAGGTAAT
1 CAGTCCATATGTCCAGAAGAACATAGGTAAT
*
70398 CAGTCCATATGTCCTGAAGAACATAGGTAAT
1 CAGTCCATATGTCCAGAAGAACATAGGTAAT
*
70429 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCAGAAGAACATAGGTAAT
*
70460 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCAGAAGAACATAGGTAAT
70491 CAGTCCATATGTCCCA-AAGAACATAGGTAAT
1 CAGTCCATATGT-CCAGAAGAACATAGGTAAT
* *
70522 CAGTCCATATGTCCCGAAGAATATAGGTAAT
1 CAGTCCATATGTCCAGAAGAACATAGGTAAT
*
70553 TAGTCCATATGTCCCA-AAGAACATAGGTAA
1 CAGTCCATATGT-CCAGAAGAACATAGGTAA
70583 CCCTTGACTC
Statistics
Matches: 170, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
30 2 0.01
31 164 0.96
32 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (31 bp):
CAGTCCATATGTCCAGAAGAACATAGGTAAT
Found at i:70464 original size:62 final size:62
Alignment explanation
Indices: 70367--70582 Score: 353
Period size: 62 Copynumber: 3.5 Consensus size: 62
70357 CCCGAATGAC
* * * *
70367 CAGTCCATAGGT-CCATAAAAACCTAGGTAATCAGTCCATATGTCCTGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCA-AAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAT
*
70429 CAGTCCATATGTCCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAT
*
70491 CAGTCCATATGTCCCAAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAATATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAT
*
70553 TAGTCCATATGTCCCAAAGAACATAGGTAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAA
70583 CCCTTGACTC
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
62 143 0.99
63 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (62 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAT
Found at i:70526 original size:93 final size:93
Alignment explanation
Indices: 70367--70582 Score: 344
Period size: 93 Copynumber: 2.3 Consensus size: 93
70357 CCCGAATGAC
* * * **
70367 CAGTCCATAGGT-CCATAAAAACCTAGGTAATCAGTCCATATGTCCTGAAGAACATAGGTAATCA
1 CAGTCCATATGTCCCA-AAGAACATAGGTAATCAGTCCATATGTCCCAAAGAACATAGGTAATCA
70431 GTCCATATGTCCCGAAGAACATAGGTAAT
65 GTCCATATGTCCCGAAGAACATAGGTAAT
*
70460 CAGTCCATATGTCCCGAAGAACATAGGTAATCAGTCCATATGTCCCAAAGAACATAGGTAATCAG
1 CAGTCCATATGTCCCAAAGAACATAGGTAATCAGTCCATATGTCCCAAAGAACATAGGTAATCAG
*
70525 TCCATATGTCCCGAAGAATATAGGTAAT
66 TCCATATGTCCCGAAGAACATAGGTAAT
*
70553 TAGTCCATATGTCCCAAAGAACATAGGTAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAA
70583 CCCTTGACTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 111 0.98
94 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (93 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAATCAGTCCATATGTCCCAAAGAACATAGGTAATCAG
TCCATATGTCCCGAAGAACATAGGTAAT
Found at i:73038 original size:20 final size:20
Alignment explanation
Indices: 73015--73052 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73005 AGTGTTGATG
*
73015 ATATACTATATATTATATGT
1 ATATACTATATATAATATGT
*
73035 ATATATTATATATAATAT
1 ATATACTATATATAATAT
73053 ATATTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATACTATATATAATATGT
Found at i:73039 original size:13 final size:13
Alignment explanation
Indices: 73021--73045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73011 GATGATATAC
73021 TATATATTATATG
1 TATATATTATATG
73034 TATATATTATAT
1 TATATATTATAT
73046 ATAATATATA
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TATATATTATATG
Found at i:74206 original size:46 final size:46
Alignment explanation
Indices: 74129--74231 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
74119 AGATCAGTTA
* * * *
74129 GTTTCGGTTTGGGTTAAGCTTTAGGTTTTTGGGTCAATTAGGGTTG
1 GTTTAGGTTCGGGTTAAGCTTTAGATTTTTGGGCCAATTAGGGTTG
* *
74175 GTTTTGGTTCGGGTTAAGCTTTAGATTTTTGGGCCAATTTGGGTTG
1 GTTTAGGTTCGGGTTAAGCTTTAGATTTTTGGGCCAATTAGGGTTG
74221 GTTTAGGTTCG
1 GTTTAGGTTCG
74232 AATCAATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.13, C:0.08, G:0.34, T:0.46
Consensus pattern (46 bp):
GTTTAGGTTCGGGTTAAGCTTTAGATTTTTGGGCCAATTAGGGTTG
Found at i:74243 original size:46 final size:46
Alignment explanation
Indices: 74144--74250 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 46
74134 GGTTTGGGTT
* * * ** *
74144 AAGCTTTAGGTTTTTGGGTCAATTAGGGTTGGTTTTGGTTCGGGTT
1 AAGCTTTAGATTTTTGGGCCAATTAGGGTTGGTTTAGGTTCGAATC
*
74190 AAGCTTTAGATTTTTGGGCCAATTTGGGTTGGTTTAGGTTCGAATC
1 AAGCTTTAGATTTTTGGGCCAATTAGGGTTGGTTTAGGTTCGAATC
* *
74236 AATCTTTAGTTTTTT
1 AAGCTTTAGATTTTT
74251 CAAGTTAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.17, C:0.08, G:0.28, T:0.47
Consensus pattern (46 bp):
AAGCTTTAGATTTTTGGGCCAATTAGGGTTGGTTTAGGTTCGAATC
Found at i:75505 original size:21 final size:21
Alignment explanation
Indices: 75454--75506 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
75444 ATTCTGACTA
*
75454 TCGCATTGCAATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
75475 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
75496 TCGCAATGCGA
1 TCGCATTGCGA
75507 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:75521 original size:20 final size:20
Alignment explanation
Indices: 75496--75589 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
75486 TTTTCCTAAT
75496 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
75516 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
75537 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
75557 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
75577 TCACAATGCGAAT
1 TCGCAATGCGAAT
75590 CTGACTATCG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 48 0.75
21 16 0.25
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:75811 original size:22 final size:22
Alignment explanation
Indices: 75786--75851 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
75776 GGCGACATCC
75786 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
75808 GTCCCCATCTCTGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
75830 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
75852 TTCACTATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:78196 original size:34 final size:34
Alignment explanation
Indices: 78153--78303 Score: 124
Period size: 34 Copynumber: 4.3 Consensus size: 34
78143 TTTACTATCA
* * *
78153 CAATACGAAAATGACTATCTCAACGAGAGAATCA
1 CAATGCGAAAATGACTATCGCAACGAGAGAATCG
** * * *
78187 CAATGCG-AAATGAAAATCGCAACAACAAAATCG
1 CAATGCGAAAATGACTATCGCAACGAGAGAATCG
* * *
78220 TAACGCGAAAATGACTATCGCAATGCGAAAATGACTATCG
1 CAATGCGAAAATGACTATCGCAA--CG-AGA-GA--ATCG
**
78260 CAATGCGAATTTGACTATCGCAACGAGAGAATCG
1 CAATGCGAAAATGACTATCGCAACGAGAGAATCG
78294 CAATGCGAAA
1 CAATGCGAAA
78304 TAAAAATCGC
Statistics
Matches: 89, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
33 24 0.27
34 32 0.36
36 3 0.03
37 4 0.04
38 3 0.03
40 23 0.26
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (34 bp):
CAATGCGAAAATGACTATCGCAACGAGAGAATCG
Found at i:78247 original size:20 final size:20
Alignment explanation
Indices: 78224--78282 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
78214 AAATCGTAAC
78224 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
78244 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
**
78264 GCGAATTTGACTATCGCAA
1 GCGAAAATGACTATCGCAA
78283 CGAGAGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:78354 original size:20 final size:20
Alignment explanation
Indices: 78329--78415 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
78319 GATTCTCTCG
78329 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
78349 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
78369 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
78389 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
78409 TTGCGAT
1 TTGCGAT
78416 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:78425 original size:20 final size:20
Alignment explanation
Indices: 78327--78425 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
78317 GCGATTCTCT
*
78327 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* *
78347 CATTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* * *
78367 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
78387 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
78407 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
78426 AAATTCTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 69 0.99
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:78941 original size:18 final size:19
Alignment explanation
Indices: 78902--78943 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
78892 CTCACCTATC
78902 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
78923 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
78941 ATC
1 ATC
78944 ATCCCTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:80401 original size:14 final size:14
Alignment explanation
Indices: 80382--80417 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
80372 ATGGTTTAAT
80382 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
80396 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
80410 TGATTTGT
1 TGATTTGT
80418 TAATTGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:80584 original size:33 final size:33
Alignment explanation
Indices: 80539--80625 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
80529 TGCGGAAATG
*
80539 ATTCATTTTCGCATTGCGATTCACTCGTTGCGAT
1 ATTCA-TTTCGCATTGCGATTCACTAGTTGCGAT
* *
80573 TTTCATTTCGCATTGCGATTCTCTAGTTGCGAT
1 ATTCATTTCGCATTGCGATTCACTAGTTGCGAT
* *
80606 AATCATTTCCGCGTTGCGAT
1 ATTCATTT-CGCATTGCGAT
80626 AGTCAATTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 32 0.70
34 14 0.30
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (33 bp):
ATTCATTTCGCATTGCGATTCACTAGTTGCGAT
Found at i:80623 original size:20 final size:20
Alignment explanation
Indices: 80598--80690 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
80588 CGATTCTCTA
*
80598 GTTGCGATAATCATTTCCGC
1 GTTGCGATAGTCATTTCCGC
*
80618 GTTGCGATAGTCAATTCCGC
1 GTTGCGATAGTCATTTCCGC
* *
80638 GTTGCAATAGTCATTTCCGT
1 GTTGCGATAGTCATTTCCGC
80658 GTTGCGATAGTCATATT-CGC
1 GTTGCGATAGTCAT-TTCCGC
80678 GTTGCGATAGTCA
1 GTTGCGATAGTCA
80691 AATGAATGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGC
Found at i:83125 original size:24 final size:24
Alignment explanation
Indices: 83091--83144 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
83081 CTGAAAAATC
83091 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
83115 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
83139 ATCAAA
1 ATCAAA
83145 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:83158 original size:24 final size:24
Alignment explanation
Indices: 83091--83158 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
83081 CTGAAAAATC
* * *
83091 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
83115 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
83139 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
83159 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:84029 original size:20 final size:20
Alignment explanation
Indices: 83985--84052 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
83975 GAAATTCAGT
* *
83985 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGATTCGC
*
84005 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGATTCGC
* * *
84025 ATTGCAAT-TTACATATTCGC
1 ATTGCGATAGT-CAGATTCGC
84045 ATTGCGAT
1 ATTGCGAT
84053 TTACGTATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (20 bp):
ATTGCGATAGTCAGATTCGC
Found at i:84054 original size:20 final size:20
Alignment explanation
Indices: 84019--84172 Score: 218
Period size: 20 Copynumber: 7.7 Consensus size: 20
84009 CGATAGTCAG
* *
84019 ATTCGCATTGCAATTTACAT
1 ATTCGCATTGCGATTTACGT
84039 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
84059 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
84079 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
84099 AATCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * **
84119 AATCGCATTACGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
84140 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
84160 ATTCGCATTGCGA
1 ATTCGCATTGCGA
84173 ATTAGGAAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
20 105 0.88
21 14 0.12
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:84194 original size:21 final size:21
Alignment explanation
Indices: 84170--84209 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
84160 ATTCGCATTG
84170 CGAATTAGGAAAATCGCAACA
1 CGAATTAGGAAAATCGCAACA
*
84191 CGAATTTGGAAAATCGCAA
1 CGAATTAGGAAAATCGCAA
84210 TGCGATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (21 bp):
CGAATTAGGAAAATCGCAACA
Found at i:84609 original size:25 final size:23
Alignment explanation
Indices: 84587--84635 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
84577 TACATTAATT
84587 AAGA-AAATTTCAATTTTTTTTAA
1 AAGATAAA-TTCAATTTTTTTTAA
84610 AAGATTCAAATTCAATTTTTTTTAA
1 AAGA-T-AAATTCAATTTTTTTTAA
84635 A
1 A
84636 GTAGACACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
25 16 0.70
26 3 0.13
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (23 bp):
AAGATAAATTCAATTTTTTTTAA
Found at i:85115 original size:31 final size:31
Alignment explanation
Indices: 85080--85155 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
85070 TTTCAAATCC
85080 ATACCTAAAGTTTACTTTTTGTTTCATTTTA
1 ATACCTAAAGTTTACTTTTTGTTTCATTTTA
* *
85111 ATACCTGATGTTTACTTTTTGTTTCATTTTA
1 ATACCTAAAGTTTACTTTTTGTTTCATTTTA
*
85142 ATACCTAAATTTTA
1 ATACCTAAAGTTTA
85156 AATGCCAGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (31 bp):
ATACCTAAAGTTTACTTTTTGTTTCATTTTA
Found at i:89910 original size:14 final size:15
Alignment explanation
Indices: 89891--89928 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
89881 TTGACAATCC
89891 GAACTC-GATGATCT
1 GAACTCAGATGATCT
89905 GAACTCGAAGATGATCT
1 GAACTC--AGATGATCT
89922 GAACTCA
1 GAACTCA
89929 AAATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (15 bp):
GAACTCAGATGATCT
Found at i:90525 original size:23 final size:23
Alignment explanation
Indices: 90495--90542 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
90485 GTTTTTCCTT
90495 GAGGTCTTGGGTTCAAGCACTAG
1 GAGGTCTTGGGTTCAAGCACTAG
90518 GAGGTCTTGGGTTCAAGCACTAG
1 GAGGTCTTGGGTTCAAGCACTAG
90541 GA
1 GA
90543 ATGTCAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (23 bp):
GAGGTCTTGGGTTCAAGCACTAG
Found at i:99983 original size:16 final size:16
Alignment explanation
Indices: 99962--99994 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
99952 TAAAAAATAA
99962 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
99978 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
99994 A
1 A
99995 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:100075 original size:10 final size:10
Alignment explanation
Indices: 100060--100134 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
100050 CATTTAATAA
100060 ATAAACGAAC
1 ATAAACGAAC
100070 ATAAACGAAC
1 ATAAACGAAC
100080 AT----GAAC
1 ATAAACGAAC
100086 ATAAACGAAC
1 ATAAACGAAC
*** *
100096 ACGGAC-ATAA
1 ATAAACGA-AC
100106 ATGAACACGAAC
1 AT-AA-ACGAAC
100118 ATAAACGAAC
1 ATAAACGAAC
100128 ATAAACG
1 ATAAACG
100135 TTGGAGACCC
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.69
11 2 0.04
12 5 0.10
13 1 0.02
ACGTcount: A:0.56, C:0.20, G:0.13, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:100087 original size:16 final size:16
Alignment explanation
Indices: 100064--100128 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
100054 TAATAAATAA
100064 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
100080 ATGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
100096 ACGGACATAAATGAAC
1 ACGAACATAAACGAAC
100112 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
100128 A
1 A
100129 TAAACGTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.55, C:0.22, G:0.14, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:100895 original size:14 final size:14
Alignment explanation
Indices: 100878--100933 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
100868 AATGAACATA
*
100878 AACGAACATAATCG
1 AACGAACATAACCG
100892 AACGAACAT-A---
1 AACGAACATAACCG
*
100902 AACGAACATAACCA
1 AACGAACATAACCG
100916 AACGAACATAACCG
1 AACGAACATAACCG
100930 AACG
1 AACG
100934 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:100898 original size:24 final size:24
Alignment explanation
Indices: 100858--100932 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
100848 GATTGTGTTA
*
100858 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
100882 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
100906 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
100930 AAC
1 AAC
100933 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:114434 original size:26 final size:27
Alignment explanation
Indices: 114405--114494 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 27
114395 AGAACATAAA
114405 AATAATT-ATAATCATTTATAATATTT
1 AATAATTAATAATCATTTATAATATTT
* * *
114431 AATAATTAATAA-AATTAATAAAATATAT
1 AATAATTAATAATCATT--TATAATATTT
*
114459 ATATAATTAAAAGATCATTTTATAATATTT
1 A-ATAATTAATA-ATCA-TTTATAATATTT
114489 AATAAT
1 AATAAT
114495 CAATGTAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 10 0.20
27 4 0.08
28 9 0.18
29 14 0.28
30 10 0.20
31 1 0.02
32 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (27 bp):
AATAATTAATAATCATTTATAATATTT
Found at i:122448 original size:5 final size:5
Alignment explanation
Indices: 122438--122463 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
122428 CATAGAATAT
122438 TTTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTTAA TTTAA T
122464 CATAATTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:129663 original size:27 final size:29
Alignment explanation
Indices: 129625--129681 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
129615 AATTTCACCT
129625 AACTAAATTGAT-T-AGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
129652 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
129681 A
1 A
129682 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 12 0.43
28 1 0.04
29 15 0.54
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:132184 original size:20 final size:21
Alignment explanation
Indices: 132159--132210 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
132149 TTTTCCCAAT
*
132159 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* *
132179 TCGCAACGCGAATTAGGAAAA
1 TCGCAATGCGAATTAAGAAAA
132200 TCGCAATGCGA
1 TCGCAATGCGA
132211 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:132263 original size:81 final size:81
Alignment explanation
Indices: 132178--132332 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
132168 GAATAAGTAA
* * * * *
132178 ATCGCAACGCGA-ATTAGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATC
1 ATCGCAACGCGATAATA-CAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATC
*
132242 GCAATGCGATACTTACT
65 GCAACGCGATACTTACT
* * * *
132259 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCG
1 ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCG
132324 CAACGCGAT
66 CAACGCGAT
132333 TTACATAGCG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 60 0.95
82 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (81 bp):
ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCG
CAACGCGATACTTACT
Found at i:132333 original size:20 final size:20
Alignment explanation
Indices: 132199--132332 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
132189 AATTAGGAAA
132199 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
132219 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
132239 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
132259 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
132280 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
132300 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
132320 TTCGCAACGCGAT
1 ATCGCAATGCGAT
132333 TTACATAGCG
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.02
20 84 0.83
21 13 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:132885 original size:18 final size:18
Alignment explanation
Indices: 132840--132885 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
132830 TTCGAGAATG
*
132840 AAAATCGCAACGCGGAAC
1 AAAATCGCAACGCGAAAC
*
132858 AACTATCGCAACGCGAAAC
1 AA-AATCGCAACGCGAAAC
132877 AAAATCGCA
1 AAAATCGCA
132886 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAC
Found at i:132908 original size:19 final size:19
Alignment explanation
Indices: 132881--133061 Score: 136
Period size: 20 Copynumber: 10.0 Consensus size: 19
132871 CGAAACAAAA
* *
132881 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
132900 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
132918 TCGCGTTGCGATTTTTTATT
1 TCGCGTTGCGA-TTTTCATT
132938 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
132958 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
132974 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
132991 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
133005 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
133024 TCCGCGTTGCGA--TTCATT
1 T-CGCGTTGCGATTTTCATT
*
133042 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
133062 CAACCAAAGA
Statistics
Matches: 131, Mismatches: 14, Indels: 33
0.74 0.08 0.19
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 32 0.24
19 29 0.22
20 36 0.27
21 7 0.05
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:132990 original size:33 final size:33
Alignment explanation
Indices: 132953--133038 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
132943 GTTGCGATTT
* *
132953 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
132986 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
133019 TCATTTCCGCGTTGCGATTC
1 TCATTT-CGCGTTGCGATTC
133039 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 36 0.73
34 13 0.27
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.38
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:136492 original size:14 final size:14
Alignment explanation
Indices: 136473--136506 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
136463 ATTGTTTAAT
136473 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
136487 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
136501 TGATTT
1 TGATTT
136507 TGTTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:138432 original size:20 final size:19
Alignment explanation
Indices: 138393--138458 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
138383 GAAACTTAAA
138393 ATCGCAACGCG-AATGACT
1 ATCGCAACGCGAAATGACT
*
138411 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
138431 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
138450 ATCGCAACG
1 ATCGCAACG
138459 ACAAATCGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 10 0.25
19 15 0.38
20 15 0.38
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:138453 original size:19 final size:19
Alignment explanation
Indices: 138374--138489 Score: 77
Period size: 20 Copynumber: 6.4 Consensus size: 19
138364 TAGTTTACTT
* *
138374 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
138394 TCGCAACGCG-AATGACTA
1 TCGCAACGCGAAATGAAAA
***
138412 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
138432 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
138451 TCGCAA--CG--A--CAAA
1 TCGCAACGCGAAATGAAAA
138464 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
138482 TCGCAACG
1 TCGCAACG
138490 ACAAAATCGC
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.12
15 3 0.04
17 3 0.04
18 23 0.29
19 16 0.21
20 24 0.31
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:138486 original size:31 final size:33
Alignment explanation
Indices: 138431--138508 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
138421 GGAAATGGCT
*
138431 ATCGCAATGCGAAATGAAAATCGCAACGAC-AA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
138463 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
138495 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
138509 CATAAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 13 0.30
32 31 0.70
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:138590 original size:33 final size:32
Alignment explanation
Indices: 138520--138605 Score: 119
Period size: 27 Copynumber: 2.8 Consensus size: 32
138510 ATAAATCGCA
*
138520 TTGCGATTTTCATTTCGCGTTGCGATTTTGCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGCG
138552 -T----TTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTG-CG
138580 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
138606 AGCCATTTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
27 23 0.49
28 2 0.04
29 1 0.02
31 1 0.02
33 20 0.43
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.49
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGCG
Found at i:138624 original size:20 final size:19
Alignment explanation
Indices: 138590--138644 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
138580 TTGCGATTTT
*
138590 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
138609 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
138629 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
138645 AAGTAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:139143 original size:18 final size:18
Alignment explanation
Indices: 139117--139161 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
139107 GTCGATCAGA
*
139117 TGATGGCTCTGGGTAAGG
1 TGATGGCTCTGGGCAAGG
* *
139135 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCAAGG
139153 TGATGGCTC
1 TGATGGCTC
139162 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCAAGG
Found at i:141021 original size:20 final size:20
Alignment explanation
Indices: 140995--141108 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
140985 GATTATGTAT
*
140995 TATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
141015 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
141035 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
141055 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
141076 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
141096 TATCGCATTGCGA
1 TATCGCGTTGCGA
141109 TTTTCCCAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 64 0.83
21 13 0.17
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:141098 original size:41 final size:41
Alignment explanation
Indices: 140975--141112 Score: 116
Period size: 41 Copynumber: 3.4 Consensus size: 41
140965 CGCTTTGAAA
* * * * * *
140975 ATCGCATTGCGATTATGTATTATCGCGTTGCAAAAGTCAGA
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
* *** * * *
141016 ATCGCGTTGCGA-AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
* * * *
141056 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
141097 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
141113 CCCAATTCGC
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 31 0.41
41 45 0.59
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
Found at i:141127 original size:21 final size:21
Alignment explanation
Indices: 141098--141173 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
141088 ATAGTCAGTA
141098 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
141119 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
141139 TCGCATTACGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
141160 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
141174 ACTTATTCGC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:141128 original size:41 final size:41
Alignment explanation
Indices: 141037--141171 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
141027 AAAGTCAGTA
* * * ** *
141037 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
141077 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
141119 TCGCGTTGCGAT-TTACTTATTCGCATTACGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
141160 TCGCGTTGCGAT
1 TCGCGTTGCGAT
141172 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:141142 original size:20 final size:20
Alignment explanation
Indices: 141117--141183 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
141107 GATTTTCCCA
141117 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
* * * **
141137 ATTCGCATTACGATTTTCCCA
1 ATTCGCGTTGCGA-TTTACTT
141158 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
141178 ATTCGC
1 ATTCGC
141184 ATTGTGAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACTT
Found at i:141172 original size:41 final size:41
Alignment explanation
Indices: 141098--141186 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
141088 ATAGTCAGTA
*
141098 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
141139 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
141180 TCGCATT
1 TCGCATT
141187 GTGAATTGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.42
Consensus pattern (41 bp):
TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:143381 original size:18 final size:19
Alignment explanation
Indices: 143358--143394 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
143348 ACATATACAA
*
143358 TTTT-AAAAATTATTTTAT
1 TTTTAAAAAATAATTTTAT
143376 TTTTAAAAAATAATTTTAT
1 TTTTAAAAAATAATTTTAT
143395 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAAAAAATAATTTTAT
Found at i:144124 original size:24 final size:22
Alignment explanation
Indices: 144097--144146 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
144087 TTTTTATTTT
*
144097 TTATAAATTCTATATTATAATATA
1 TTATAAATT-TATATTAT-ATAAA
144121 TTAT-AATTTATATTATATAAA
1 TTATAAATTTATATTATATAAA
144142 TTATA
1 TTATA
144147 CTATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.33
22 8 0.33
23 4 0.17
24 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAAATTTATATTATATAAA
Found at i:144131 original size:38 final size:40
Alignment explanation
Indices: 144089--144165 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 40
144079 TTAAAGTCTT
* * *
144089 TTTATTTTTTATAAATTCTA-TAT-TATAATATAT-TATAA
1 TTTATATTATATAAATTATACTATATA-AATATATATATAA
144127 TTTATATTATATAAATTATACTATATAAATATATATATA
1 TTTATATTATATAAATTATACTATATAAATATATATATA
144166 TTTGTCCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 17 0.52
39 10 0.30
40 6 0.18
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (40 bp):
TTTATATTATATAAATTATACTATATAAATATATATATAA
Found at i:144163 original size:12 final size:12
Alignment explanation
Indices: 144107--144165 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 12
144097 TTATAAATTC
144107 TATAT-TAT-AA
1 TATATATATAAA
*
144117 TATAT-TATAATT
1 TATATATATAA-A
144129 TATATTATATAAA
1 TATA-TATATAAA
144142 TTATACTATATAAA
1 -TATA-TATATAAA
144156 TATATATATA
1 TATATATATA
144166 TTTGTCCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 8 0.20
11 1 0.02
12 10 0.24
13 5 0.12
14 17 0.41
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
TATATATATAAA
Found at i:144165 original size:14 final size:15
Alignment explanation
Indices: 144129--144166 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
144119 TATTATAATT
*
144129 TATATTATATAAAT-
1 TATACTATATAAATA
144143 TATACTATATAAATA
1 TATACTATATAAATA
144158 TATA-TATAT
1 TATACTATAT
144167 TTGTCCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TATACTATATAAATA
Found at i:147847 original size:24 final size:23
Alignment explanation
Indices: 147819--147885 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
147809 ATATAATATA
147819 ATTTTATATATATTAACTTAAAAT
1 ATTTT-TATATATTAACTTAAAAT
147843 A-TTTT-TATATTAACTTATTAAAT
1 ATTTTTATATATTAACTTA--AAAT
*
147866 ATATTTTA-CTATTAACTTAA
1 AT-TTTTATATATTAACTTAA
147886 TTTAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 12 0.32
22 1 0.03
23 9 0.24
24 1 0.03
25 14 0.38
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTATATATTAACTTAAAAT
Found at i:147851 original size:21 final size:22
Alignment explanation
Indices: 147827--147885 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 22
147817 TAATTTTATA
147827 TATATTAACTTAAAATAT-TTT
1 TATATTAACTTAAAATATATTT
147848 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA--AAATATATTT
147872 TACTATTAACTTAA
1 TA-TATTAACTTAA
147886 TTTAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.35
23 7 0.21
24 5 0.15
25 10 0.29
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTAACTTAAAATATATTT
Found at i:147869 original size:25 final size:27
Alignment explanation
Indices: 147831--147899 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 27
147821 TTTATATATA
*
147831 TTAACTTAAAATATTTTTA-TATTAAC
1 TTAATTTAAAATATTTTTACTATTAAC
147857 TT-A-TT-AAATATATTTTACTATTAAC
1 TTAATTTAAAATAT-TTTTACTATTAAC
147882 TTAATTTAAAAATATTTT
1 TTAATTT-AAAATATTTT
147900 ATTTTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
23 6 0.16
24 7 0.19
25 10 0.27
26 3 0.08
27 2 0.05
28 3 0.08
29 6 0.16
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATTTAAAATATTTTTACTATTAAC
Found at i:147897 original size:27 final size:24
Alignment explanation
Indices: 147827--147901 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 24
147817 TAATTTTATA
*
147827 TATATTAACTTA--AAATAT-TTT
1 TATATTAACTTATTAAAAATATTT
*
147848 TATATTAACTTATTAAATATATTT
1 TATATTAACTTATTAAAAATATTT
147872 TACTATTAACTTAATTTAAAAATATTT
1 TA-TATTAACTT-A-TTAAAAATATTT
147899 TAT
1 TAT
147902 TTTCATTTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 12 0.26
23 6 0.13
24 5 0.11
25 9 0.19
26 2 0.04
27 13 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTAACTTATTAAAAATATTT
Found at i:148315 original size:10 final size:10
Alignment explanation
Indices: 148295--148326 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
148285 TTAAATAGAT
148295 ATTATTTTAAA
1 ATTA-TTTAAA
148306 ATTATTTAAA
1 ATTATTTAAA
148316 ATTATTTAAA
1 ATTATTTAAA
148326 A
1 A
148327 GAATTCTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTATTTAAA
Found at i:148405 original size:22 final size:22
Alignment explanation
Indices: 148378--148446 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
148368 TATTTTATTT
148378 TAATTTAATATTTCAAGATTGA
1 TAATTTAATATTTCAAGATTGA
148400 TAATTTAATATTTCAAGATTGA
1 TAATTTAATATTTCAAGATTGA
*
148422 TAATTTAATATTTCAAGATTAA
1 TAATTTAATATTTCAAGATTGA
148444 TAA
1 TAA
148447 GAAAAAAGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (22 bp):
TAATTTAATATTTCAAGATTGA
Found at i:148954 original size:13 final size:13
Alignment explanation
Indices: 148936--148961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148926 CGGGTCGGGT
148936 TGATCAAAATAGA
1 TGATCAAAATAGA
148949 TGATCAAAATAGA
1 TGATCAAAATAGA
148962 AATAAGACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
TGATCAAAATAGA
Found at i:151605 original size:26 final size:25
Alignment explanation
Indices: 151550--151618 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
151540 TATATTAACT
151550 TTAAGAAATATTTT-TTACATTAAATTA
1 TTAA-AAATATTTTATT--ATTAAATTA
* * *
151577 TTAGATATATTTTATTATTAACTTAA
1 TTAAAAATATTTTATTATTAAATT-A
151603 TTAAAAATATTTTATT
1 TTAAAAATATTTTATT
151619 TTATTTTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 7 0.20
26 23 0.66
27 5 0.14
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (25 bp):
TTAAAAATATTTTATTATTAAATTA
Found at i:151632 original size:26 final size:26
Alignment explanation
Indices: 151583--151654 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
151573 ATTATTAGAT
**
151583 ATATTTTATTATTAACTTAA-TTAAAA
1 ATATTTTATT-TTATTTTAATTTAAAA
151609 ATATTTTATTTTATTTTAATTTAAAA
1 ATATTTTATTTTATTTTAATTTAAAA
* *
151635 ATA-TATATTTTATTCTAATT
1 ATATTTTATTTTATTTTAATT
151655 GGTGGAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 22 0.54
26 19 0.46
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
ATATTTTATTTTATTTTAATTTAAAA
Found at i:151752 original size:28 final size:28
Alignment explanation
Indices: 151712--151780 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
151702 TAACCGAATG
*
151712 GTGACACATGACACGCCACGTGGTACCA
1 GTGACACATGACACGCCACGTGGTACAA
151740 GTGACACATGACACGCCACGTGGTACAA
1 GTGACACATGACACGCCACGTGGTACAA
*
151768 ATGACACATGACA
1 GTGACACATGACA
151781 TCATTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.14
Consensus pattern (28 bp):
GTGACACATGACACGCCACGTGGTACAA
Found at i:155061 original size:37 final size:37
Alignment explanation
Indices: 154970--155066 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 37
154960 CTTATTTTGT
154970 TCGGGTCGGTTT--TTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGTTTGGTTT-AGTGTGATATTCGGGTCGAG
**
155006 TCGGGTCGGTTTTTTTTAGTGTGATATTC-GGTC-AGG
1 TCGGGTCGGTTTGGTTTAGTGTGATATTCGGGTCGA-G
*
155042 TC-GGTCGGATTTGGGTTTAGGGTGA
1 TCGGGTCGG-TTT-GGTTTAGTGTGA
155067 AAAAAACTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
35 7 0.13
36 22 0.42
37 21 0.40
38 3 0.06
ACGTcount: A:0.12, C:0.10, G:0.37, T:0.40
Consensus pattern (37 bp):
TCGGGTCGGTTTGGTTTAGTGTGATATTCGGGTCGAG
Found at i:155547 original size:16 final size:18
Alignment explanation
Indices: 155526--155571 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
155516 TATGGAATTG
155526 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
155542 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
155560 GATTCTAATTCC
1 GATTCCAATTCC
155572 CTCATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 14 0.52
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:157999 original size:16 final size:16
Alignment explanation
Indices: 157958--158037 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 16
157948 TTAAATTTGA
**
157958 TTCGGGTTAAATTCGG
1 TTCGGGTTACTTTCGG
*
157974 TTTTGGGTTACTTTCGG
1 -TTCGGGTTACTTTCGG
157991 TTCGGGTTACTTTCGG
1 TTCGGGTTACTTTCGG
* * *
158007 TTCAGATTACTTTTGG
1 TTCGGGTTACTTTCGG
* *
158023 TTCAGGTTAATTTCG
1 TTCGGGTTACTTTCG
158038 ATTCATGTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
16 40 0.75
17 13 0.25
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.46
Consensus pattern (16 bp):
TTCGGGTTACTTTCGG
Found at i:158025 original size:32 final size:32
Alignment explanation
Indices: 157980--158055 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
157970 TCGGTTTTGG
* * * *
157980 GTTACTTTCGGTTCGGGTTACTTTCGGTTCA-
1 GTTACTTTTGGTTCAGGTTAATTTCGATTCAT
158011 GATTACTTTTGGTTCAGGTTAATTTCGATTCAT
1 G-TTACTTTTGGTTCAGGTTAATTTCGATTCAT
*
158044 GTTGCTTTTGGT
1 GTTACTTTTGGT
158056 GGTTGTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 1 0.03
32 36 0.95
33 1 0.03
ACGTcount: A:0.13, C:0.14, G:0.24, T:0.49
Consensus pattern (32 bp):
GTTACTTTTGGTTCAGGTTAATTTCGATTCAT
Found at i:158113 original size:15 final size:15
Alignment explanation
Indices: 158093--158126 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
158083 ATACTAACTT
*
158093 ATAATTATAAATTTG
1 ATAATTATAAATTTA
158108 ATAATTATAAATTTA
1 ATAATTATAAATTTA
158123 ATAA
1 ATAA
158127 GAAATATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
ATAATTATAAATTTA
Found at i:158956 original size:21 final size:21
Alignment explanation
Indices: 158918--158968 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
158908 ACATAGTATT
158918 AAATAA-AAATAATAATAGAA
1 AAATAAGAAATAATAATAGAA
158938 AAATAAGAAAT-ATATATAGAA
1 AAATAAGAAATAATA-ATAGAA
*
158959 ACATATAGAA
1 AAATA-AGAA
158969 CAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAGAAATAATAATAGAA
Found at i:160551 original size:103 final size:104
Alignment explanation
Indices: 160417--160642 Score: 271
Period size: 103 Copynumber: 2.2 Consensus size: 104
160407 ATCTTCTGTC
* * * * **
160417 GTGAAGTTGAAGTTGGTTCTGGAACTGGGAAATTGTTTTGTTGACAGTCAG-CGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAA-TGTTTTGTTGACAACCAGCCGTCCCTTCG-TG
* * *
160481 TGAAGTTG-ACTTGTGCTGTCTCGAGTCCAATGCCCTT-CA
64 TGAAGTTGAACTTGTACTGTCTCAAGTCCAATACCCTTCCA
*
160520 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATGTTTTGTTGACAACCAGCCGTCCCTTCGTGTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATGTTTTGTTGACAACCAGCCGTCCCTTCGTGTG
* * * *
160585 AAGTTGAACTTGTATTGTCTTAAGTCCAATATCCTTCGCT
66 AAGTTGAACTTGTACTGTCTCAAGTCCAATACCCTTC-CA
160625 GTGAAG-TGAAATTGGCTC
1 GTGAAGTTGAAATTGGCTC
160643 TAGCTAACCT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
102 26 0.25
103 60 0.57
104 12 0.11
105 7 0.07
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (104 bp):
GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATGTTTTGTTGACAACCAGCCGTCCCTTCGTGTG
AAGTTGAACTTGTACTGTCTCAAGTCCAATACCCTTCCA
Found at i:161050 original size:68 final size:67
Alignment explanation
Indices: 160947--161137 Score: 233
Period size: 67 Copynumber: 2.8 Consensus size: 67
160937 TGTCTTAAAA
* * * * *
160947 AGACAGAATTCGTTTTCAA-GGAAACAATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTC
1 AGACAAAATTTGTTTT-AAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTC
161011 AA-GG
63 AAGGG
* * * *
161015 AGACAAAATTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAG
1 AGACAAAATTTGTTTTAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
161080 GG
66 GG
* * *
161082 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTTAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
161138 ATTTTCAAGG
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
66 20 0.19
67 58 0.54
68 29 0.27
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (67 bp):
AGACAAAATTTGTTTTAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
GG
Found at i:161078 original size:31 final size:30
Alignment explanation
Indices: 161043--161169 Score: 85
Period size: 31 Copynumber: 3.9 Consensus size: 30
161033 GGGAAATAAA
161043 CTCAAAGATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAAGATTTTGTGTTTCAAGAGAAACT-T
** * *
161074 CTCAAGGGAGACGAAATT-TGTTTCAAGGGAAACAAT
1 CTC-A---A-A-GATTTTGTGTTTCAAGAGAAAC-TT
*
161110 CTCAAAGGTTTTGTGTTTCAAGAGAAACATT
1 CTCAAAGATTTTGTGTTTCAAGAGAAAC-TT
* * *
161141 TTCAAGGTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAAG-ATTTTGTGTTTCAAGAGAAAC
161170 AATTTCAAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
30 3 0.04
31 25 0.33
32 22 0.29
35 2 0.03
36 19 0.25
37 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (30 bp):
CTCAAAGATTTTGTGTTTCAAGAGAAACTT
Found at i:161157 original size:32 final size:33
Alignment explanation
Indices: 161092--161205 Score: 153
Period size: 32 Copynumber: 3.5 Consensus size: 33
161082 AGACGAAATT
* *
161092 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
161123 TGTTTCAAGAGAAACATTTTC-AAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
161155 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
161191 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
161206 TGTATCAAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
30 4 0.05
31 18 0.25
32 25 0.34
33 4 0.05
35 1 0.01
36 21 0.29
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:161349 original size:35 final size:36
Alignment explanation
Indices: 161245--161591 Score: 145
Period size: 36 Copynumber: 10.4 Consensus size: 36
161235 CAAGGATTGA
*
161245 TGTTTCAAGAGAAACTGTCTC-AGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
161281 TGTTTTAAGAAAAACATGT-T-AAGAGA-ACAAAA-T
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
161314 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
161350 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* *
161379 TGTTTCAAGGGAAACTGTTTTC--GA-AG------TT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
161407 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
161444 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
161480 CATTTCAAG-GGAA-TGTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
161506 ATGTTTCAAGAGAAACTGTGTCAAGGGAGACAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
161543 TGTTTCAAG-GAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
161578 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
161592 TGTTTTCAAT
Statistics
Matches: 238, Mismatches: 35, Indels: 76
0.68 0.10 0.22
Matches are distributed among these distances:
26 2 0.01
27 7 0.03
28 9 0.04
29 35 0.15
30 8 0.03
31 3 0.01
32 5 0.02
33 18 0.08
34 11 0.05
35 46 0.19
36 82 0.34
37 12 0.05
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:161524 original size:99 final size:101
Alignment explanation
Indices: 161381--161679 Score: 423
Period size: 99 Copynumber: 3.0 Consensus size: 101
161371 AAAGATTTTG
*
161381 TTTCAAGGGAAACTGTTTTCGAA-G-TTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAATT
1 TTTCAAGGGAAA-TGTTTTC-AATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATT
161444 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
64 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* * *
161482 TTTCAAGGG-AATG-TTTCAATGTTTATGTTTCAAGAGAAACTGTGTCAAGGGAGACAAATTTTG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTG
161545 TTTCAA-GGAAACTATCTCAAGAGAGACAAAATTCA
66 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
161580 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAAC-GTCTC-AAGTGAGACAAAACTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAG-GAGACAAAA--T
* * *
161643 TCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
63 T-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
161680 CTTGTTTTAA
Statistics
Matches: 178, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
97 2 0.01
98 45 0.25
99 61 0.34
100 28 0.16
101 11 0.06
102 7 0.04
103 24 0.13
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTG
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:163192 original size:183 final size:182
Alignment explanation
Indices: 162874--163208 Score: 600
Period size: 183 Copynumber: 1.8 Consensus size: 182
162864 AGGGTTCATC
162874 TCACAAAGTCTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTACCAAGTGTCCGAGCAATG
1 TCACAAAGTCTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTACCAAGTGTCCGAGCAATG
* **
162939 TCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCC
66 TCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCC
163004 TTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTGAAGGGTTCGTCTCA
131 TTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTGAAGGGTTCGTCTCA
* *
163056 TCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATTGCCAAGTGTCCGAG-AAG
1 TCACAAAGTC-TTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTACCAAGTGTCCGAGCAA-
163120 TGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTG
64 TGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTG
163185 CCTTAGTGGAATAGCTCAGCTTTA
129 CCTTAGTGGAATAGCTCAGCTTTA
163209 CGGATTTAAT
Statistics
Matches: 146, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
182 12 0.08
183 134 0.92
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (182 bp):
TCACAAAGTCTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTACCAAGTGTCCGAGCAATG
TCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCC
TTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTGAAGGGTTCGTCTCA
Found at i:167355 original size:2 final size:2
Alignment explanation
Indices: 167348--167384 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
167338 ATACTTAAAA
167348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
167385 CTAATATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.