Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000861.1 Hibiscus syriacus cultivar Beakdansim tig00001667_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: 197037
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Found at i:16211 original size:24 final size:24
Alignment explanation
Indices: 16174--16240 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
16164 GTAATTCTAG
** *
16174 CCTCGTCCGCGACCTCTACTTGCA
1 CCTCGTCCATGACCTCTACTTCCA
*
16198 CCTCGTCCATGACCTCGACTTCCA
1 CCTCGTCCATGACCTCTACTTCCA
16222 CCTCGTCCATGACCTCTAC
1 CCTCGTCCATGACCTCTAC
16241 CTCTGCCTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.15, C:0.46, G:0.13, T:0.25
Consensus pattern (24 bp):
CCTCGTCCATGACCTCTACTTCCA
Found at i:18628 original size:11 final size:11
Alignment explanation
Indices: 18612--18636 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18602 AATAAATACA
18612 ATTATGATTGT
1 ATTATGATTGT
18623 ATTATGATTGT
1 ATTATGATTGT
18634 ATT
1 ATT
18637 TATTTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTATGATTGT
Found at i:19225 original size:30 final size:30
Alignment explanation
Indices: 19191--19251 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
19181 AAACCAAACT
19191 GTAAAAGATAAATACGAACCGAATCGAACC
1 GTAAAAGATAAATACGAACCGAATCGAACC
19221 GTAAAAGATAAATACGAACCGAATCGAACC
1 GTAAAAGATAAATACGAACCGAATCGAACC
19251 G
1 G
19252 AACTGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (30 bp):
GTAAAAGATAAATACGAACCGAATCGAACC
Found at i:19243 original size:25 final size:25
Alignment explanation
Indices: 19182--19243 Score: 61
Period size: 30 Copynumber: 2.3 Consensus size: 25
19172 ATCAATCTGA
* *
19182 AACCAAACTGTAAAAGATAAATACG
1 AACCGAACCGTAAAAGATAAATACG
19207 AACCGAATCGAACCGTAAAAGATAAATACG
1 AA-C----CGAACCGTAAAAGATAAATACG
19237 AACCGAA
1 AACCGAA
19244 TCGAACCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
25 6 0.20
26 1 0.03
29 1 0.03
30 22 0.73
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.13
Consensus pattern (25 bp):
AACCGAACCGTAAAAGATAAATACG
Found at i:34738 original size:29 final size:29
Alignment explanation
Indices: 34695--34777 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
34685 CTCACCTAAC
*
34695 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
34725 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
34754 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
34778 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:39071 original size:18 final size:20
Alignment explanation
Indices: 39034--39071 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
39024 CTCGGTCAAG
39034 GGCTCCAACTCGGCTGACTC
1 GGCTCCAACTCGGCTGACTC
39054 GGCT-CAACTCGG-TGACTC
1 GGCTCCAACTCGGCTGACTC
39072 AACTCGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.16, C:0.37, G:0.26, T:0.21
Consensus pattern (20 bp):
GGCTCCAACTCGGCTGACTC
Found at i:39495 original size:29 final size:29
Alignment explanation
Indices: 39452--39534 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
39442 AGAGCCTAAC
*
39452 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
39482 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
39511 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
39535 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:42481 original size:12 final size:12
Alignment explanation
Indices: 42464--42493 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
42454 TGGAGTAGTA
42464 AATAATATATTT
1 AATAATATATTT
42476 AATAATATATTT
1 AATAATATATTT
42488 AA-AATA
1 AATAATA
42494 ATGCAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATAATATATTT
Found at i:42493 original size:14 final size:13
Alignment explanation
Indices: 42462--42495 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
42452 TATGGAGTAG
42462 TAAATAATATATT
1 TAAATAATATATT
42475 T-AATAATATATT
1 TAAATAATATATT
42487 TAAAATAAT
1 T-AAATAAT
42496 GCAATTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
13 1 0.05
14 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATAATATATT
Found at i:44067 original size:3 final size:3
Alignment explanation
Indices: 44059--44093 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
44049 TCTTTGCTTA
44059 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44094 ATATATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51395 original size:3 final size:3
Alignment explanation
Indices: 51387--51418 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
51377 ATACATATAT
*
51387 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51419 GAAGCAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54140 original size:17 final size:16
Alignment explanation
Indices: 54120--54154 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
54110 GTAAAAACAG
54120 AAAATAAAAAGATAAAT
1 AAAATAAAAAGA-AAAT
*
54137 AAAATAAGAAGAAAAT
1 AAAATAAAAAGAAAAT
54153 AA
1 AA
54155 TCCTCACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAGAAAAT
Found at i:59516 original size:105 final size:104
Alignment explanation
Indices: 59319--59534 Score: 279
Period size: 105 Copynumber: 2.1 Consensus size: 104
59309 GATTGTCCAT
* * *
59319 AAGGACCACATATAAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAAA
1 AAGGACCACATAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAA
59384 AAACCTCATACATGCTCCAAAGAATACATATACGTCCCG
66 AAACCTCATACATGCTCCAAAGAATACATATACGTCCCG
* * * * *
59423 AAGGACCACATAGAAAATTCCTTAAGAATCATATACATATGCTAAGTACCAAATACGTGTCTCAA
1 AAGGACCACATA-AAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAA
** * * * * * *
59488 ATGACCTTATAGATGTTCCATAGGATACATATATGTCCCG
65 AAAACCTCATACATGCTCCAAAGAATACATATACGTCCCG
59528 AAGGACC
1 AAGGACC
59535 GCGTAAACCC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 12 0.13
105 83 0.87
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (104 bp):
AAGGACCACATAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAA
AAACCTCATACATGCTCCAAAGAATACATATACGTCCCG
Found at i:63186 original size:19 final size:19
Alignment explanation
Indices: 63162--63209 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
63152 TTATGGTGAC
63162 TCTTATTCACCATATTTTA
1 TCTTATTCACCATATTTTA
63181 TCTTATTCACCATATTTTA
1 TCTTATTCACCATATTTTA
63200 TCTTATTCAC
1 TCTTATTCAC
63210 GTAATAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTTATTCACCATATTTTA
Found at i:64569 original size:105 final size:105
Alignment explanation
Indices: 64378--64584 Score: 243
Period size: 105 Copynumber: 2.0 Consensus size: 105
64368 CACATATAAG
* *
64378 TTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAAAAAACCTCATACATGCT
1 TTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAAAAACCTCATACATGCT
64443 CCAAAGAATACATATACGTCCCGAAGAACCACGTAGAAAA
66 CCAAAGAATACATATACGTCCCGAAGAACCACGTAGAAAA
** * * * * * ** * *
64483 TTCCTTAAGAATTATATACATATGCTAAGGACCAAATACGTGTTTTAAAGGACCTCATAGATGTT
1 TTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAAAAACCTCATACATGCT
* * * * * *
64548 CCATAGGATACCTATATGTCCCGAAGGACCGCGTAGA
66 CCAAAGAATACATATACGTCCCGAAGAACCACGTAGA
64585 CCCTCGACTC
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
105 83 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (105 bp):
TTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAAAAACCTCATACATGCT
CCAAAGAATACATATACGTCCCGAAGAACCACGTAGAAAA
Found at i:69165 original size:19 final size:18
Alignment explanation
Indices: 69136--69173 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
69126 TAAAATTGTA
69136 ATAATTAATTATAATAAT
1 ATAATTAATTATAATAAT
69154 ATAATATAATTATAATAAT
1 ATAAT-TAATTATAATAAT
69173 A
1 A
69174 ATATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTAATTATAATAAT
Found at i:69193 original size:12 final size:12
Alignment explanation
Indices: 69143--69216 Score: 53
Period size: 12 Copynumber: 5.9 Consensus size: 12
69133 GTAATAATTA
*
69143 ATTATA-ATAAT
1 ATTATATATATT
*
69154 ATAATATA-ATT
1 ATTATATATATT
*
69165 ATAATAATAATATTT
1 ATTAT-AT-ATA-TT
*
69180 ATTATATTTATT
1 ATTATATATATT
69192 ATTATATATATAT
1 ATTATATATAT-T
69205 ATATATATATAT
1 AT-TATATATAT
69217 ATATGTCACT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
11 12 0.24
12 15 0.29
13 6 0.12
14 12 0.24
15 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTATATATATT
Found at i:69201 original size:2 final size:2
Alignment explanation
Indices: 69152--69220 Score: 57
Period size: 2 Copynumber: 39.0 Consensus size: 2
69142 AATTATAATA
*
69152 AT AT A- AT AT A- AT -T AT A- AT A- AT A- AT AT TT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
69187 TT AT -T AT -T 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
69221 GTCACTCGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
1 9 0.17
2 45 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:69429 original size:36 final size:36
Alignment explanation
Indices: 69389--69491 Score: 206
Period size: 36 Copynumber: 2.9 Consensus size: 36
69379 TGATCTGATC
69389 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
69425 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
69461 TTGCTTCACTACTCTTTTGTGAAGGCTTGAT
1 TTGCTTCACTACTCTTTTGTGAAGGCTTGAT
69492 GTTTTGCTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (36 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
Found at i:69722 original size:90 final size:90
Alignment explanation
Indices: 69556--70079 Score: 805
Period size: 90 Copynumber: 5.8 Consensus size: 90
69546 TTTTTGCCTT
* * * ** *
69556 ACTACTCTTCCGTGAAGTTTTCATACGTTGCTGAAAAAAATTTGTTCCACTACTCTTTCGTTGAG
1 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTG--AAAAATCCGTTCCACTACTCTTTCGTGGAG
* *
69621 ACTGAATTTATAATTGAACTTGCTTCC
64 ACTGATTTTATACTTGAACTTGCTTCC
*
69648 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGATAC
1 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGAGAC
*
69713 TGATTTTATACTTGATCTTGCTTCC
66 TGATTTTATACTTGAACTTGCTTCC
* * **
69738 AGTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCATTCCACTACTCTTTAATGGAGAC
1 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGAGAC
69803 TGATTTTATACTTGAACTTGCTTCC
66 TGATTTTATACTTGAACTTGCTTCC
* *
69828 ACTACTCTTCCGTAGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGATAC
1 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGAGAC
*
69893 TGATTTTATACTTGATCTTGCTTCC
66 TGATTTTATACTTGAACTTGCTTCC
* * * **
69918 AGTACTCTTCCATGGAGTTTGCATACTTTGCTGAAAAATCCATTCCACTACTCTTTAATGGAGAC
1 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGAGAC
69983 TGATTTTATACTTGAACTTGCTTCC
66 TGATTTTATACTTGAACTTGCTTCC
* * *
70008 ACTACTCTTCCGTAGAGTTTACATACTTTGCTGAAAAATACGTTCCACTACTCTTTCGTGGAGAC
1 ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGAGAC
70073 TGATTTT
66 TGATTTT
70080 TTGATTTTGC
Statistics
Matches: 393, Mismatches: 39, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
90 363 0.92
92 30 0.08
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (90 bp):
ACTACTCTTCCGTGGAGTTTGCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTCGTGGAGAC
TGATTTTATACTTGAACTTGCTTCC
Found at i:69752 original size:44 final size:44
Alignment explanation
Indices: 69600--70020 Score: 173
Period size: 44 Copynumber: 9.4 Consensus size: 44
69590 AAAAAATTTG
* * * * *
69600 TTCCACTACTCTTTCGTTGAGACTGAATTTATAATTGAACTTGC
1 TTCCACTACTCTTCCGTGGATACTGATTTTATACTTGAACTTGC
* * * ** *
69644 TTCCACTACTCTTCCGTGGAGT-TTGCATACTT-TGC-TGAAAAATCC
1 TTCCACTACTCTTCCGTGGA-TACTG-AT-TTTATACTTG-AACTTGC
* *
69689 GTTCCACTACTCTTTCGTGGATACTGATTTTATACTTGATCTTGC
1 -TTCCACTACTCTTCCGTGGATACTGATTTTATACTTGAACTTGC
* * * * ** *
69734 TTCCAGTACTCTTCCGTGGAGT-TTGCATACTT-TGC-TGAAAAATCC
1 TTCCACTACTCTTCCGTGGA-TACTG-AT-TTTATACTTG-AACTTGC
*** *
69779 ATTCCACTACTCTTTAATGGAGACTGATTTTATACTTGAACTTGC
1 -TTCCACTACTCTTCCGTGGATACTGATTTTATACTTGAACTTGC
* * * * ** *
69824 TTCCACTACTCTTCCGTAGAGT-TTGCATACTT-TGC-TGAAAAATCC
1 TTCCACTACTCTTCCGTGGA-TACTG-AT-TTTATACTTG-AACTTGC
* *
69869 GTTCCACTACTCTTTCGTGGATACTGATTTTATACTTGATCTTGC
1 -TTCCACTACTCTTCCGTGGATACTGATTTTATACTTGAACTTGC
* * * * * ** *
69914 TTCCAGTACTCTTCCATGGAGT-TTGCATACTT-TGC-TGAAAAATCC
1 TTCCACTACTCTTCCGTGGA-TACTG-AT-TTTATACTTG-AACTTGC
*** *
69959 ATTCCACTACTCTTTAATGGAGACTGATTTTATACTTGAACTTGC
1 -TTCCACTACTCTTCCGTGGATACTGATTTTATACTTGAACTTGC
70004 TTCCACTACTCTTCCGT
1 TTCCACTACTCTTCCGT
70021 AGAGTTTACA
Statistics
Matches: 263, Mismatches: 82, Indels: 64
0.64 0.20 0.16
Matches are distributed among these distances:
44 107 0.41
45 62 0.24
46 94 0.36
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (44 bp):
TTCCACTACTCTTCCGTGGATACTGATTTTATACTTGAACTTGC
Found at i:74089 original size:15 final size:15
Alignment explanation
Indices: 74069--74099 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
74059 CAAGACCGCT
74069 TTCAAAGAGAAAGGG
1 TTCAAAGAGAAAGGG
74084 TTCAAAGAGAAAGGG
1 TTCAAAGAGAAAGGG
74099 T
1 T
74100 AACAATGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.16
Consensus pattern (15 bp):
TTCAAAGAGAAAGGG
Found at i:76792 original size:18 final size:17
Alignment explanation
Indices: 76769--76802 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
76759 AACTAATATA
76769 AATACTAAATAATTATTT
1 AATACTAAAT-ATTATTT
*
76787 AATACTTAATATTATT
1 AATACTAAATATTATT
76803 ATTCCTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
AATACTAAATATTATTT
Found at i:76908 original size:2 final size:2
Alignment explanation
Indices: 76901--76947 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
76891 ATAATAATTA
76901 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
76943 AT AT A
1 AT AT A
76948 ATGTTAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78200 original size:6 final size:6
Alignment explanation
Indices: 78191--78249 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
78181 CTAAAATAAT
* * * *
78191 TAATTA TAATAATA TAATTA TAATTA TAATTA TAATAA TATTTA TTATAA
1 TAATTA TAAT--TA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
78241 TAATATA TA
1 TAAT-TA TA
78250 TATAAACGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
6 33 0.79
7 3 0.07
8 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATTA
Found at i:78209 original size:18 final size:18
Alignment explanation
Indices: 78186--78247 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
78176 TAAAACTAAA
78186 ATAATTAATTATAATAAT
1 ATAATTAATTATAATAAT
*
78204 ATAATTATAATTATAATTAT
1 ATAA-T-TAATTATAATAAT
*
78224 AATAATATTTATTATAATAAT
1 -AT-A-ATTAATTATAATAAT
78245 ATA
1 ATA
78248 TATATAAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 14 0.39
21 13 0.36
22 2 0.06
23 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTAATTATAATAAT
Found at i:78220 original size:12 final size:12
Alignment explanation
Indices: 78185--78254 Score: 68
Period size: 12 Copynumber: 5.4 Consensus size: 12
78175 ATAAAACTAA
78185 AATAATTAATTAT
1 AATAA-TAATTAT
78198 AATAATATAATTAT
1 AAT-A-ATAATTAT
*
78212 AATTATAATTAT
1 AATAATAATTAT
*
78224 AATAATATTTAT
1 AATAATAATTAT
*
78236 TATAATAATATAT
1 AATAATAAT-TAT
78249 ATATAA
1 A-ATAA
78255 ACGTCACTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
12 25 0.53
13 6 0.13
14 15 0.32
15 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATAATAATTAT
Found at i:78631 original size:19 final size:19
Alignment explanation
Indices: 78603--78639 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78593 GAAATAAAAA
* *
78603 AAACTTCTTTTTGCTCTTG
1 AAACTACTTTTTCCTCTTG
78622 AAACTACTTTTTCCTCTT
1 AAACTACTTTTTCCTCTT
78640 TTGATTACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.24, G:0.05, T:0.51
Consensus pattern (19 bp):
AAACTACTTTTTCCTCTTG
Found at i:79841 original size:20 final size:21
Alignment explanation
Indices: 79804--79845 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
79794 GTCATGCAAC
79804 TAATAATAGTTGCATAATGCA
1 TAATAATAGTTGCATAATGCA
*
79825 TAATAATGGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
79845 T
1 T
79846 TGTAATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:84369 original size:20 final size:21
Alignment explanation
Indices: 84332--84373 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
84322 GTCATGCAAC
84332 TAATAATAGTTGCATAATGCA
1 TAATAATAGTTGCATAATGCA
*
84353 TAATAATGGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
84373 T
1 T
84374 TGTAAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:104160 original size:3 final size:3
Alignment explanation
Indices: 104152--104177 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104142 TCATTGCTTC
104152 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
104178 ATATATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:105822 original size:21 final size:21
Alignment explanation
Indices: 105771--105823 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
105761 ATTATGACTA
105771 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
105792 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
105813 TCGCAATGCGA
1 TCGCAATGCGA
105824 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:105838 original size:20 final size:21
Alignment explanation
Indices: 105813--105864 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
105803 TTTTCCCAAT
*
105813 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
105833 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
105854 TCGCAATGCGA
1 TCGCAATGCGA
105865 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:105877 original size:41 final size:41
Alignment explanation
Indices: 105850--106027 Score: 130
Period size: 40 Copynumber: 4.4 Consensus size: 41
105840 GCGAATTGGG
*
105850 AAAATCGCAATGCGATACTGACTATCGCAACACGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* * * **
105891 AAAATCGCAATGCGATATTGACTTTCGCAACGTGATTCTGAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-AC
** * * * **
105933 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATTCTGAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-AC
** * * * *
105973 --TTTCGCAACGAGATTCTGACTATCGCAACGAGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
*
106012 AGAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
106028 TTTCAAAGTT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.02
40 66 0.58
41 43 0.38
42 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:105878 original size:20 final size:20
Alignment explanation
Indices: 105853--106002 Score: 142
Period size: 20 Copynumber: 7.5 Consensus size: 20
105843 AATTGGGAAA
* *
105853 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATTCTGACT
* ** *
105873 ATCGCAACACGATAAT-ACAAA
1 ATCGCAACGCGATTCTGAC--T
*
105894 ATCGCAATGCGATAT-TGACT
1 ATCGCAACGCGAT-TCTGACT
* *
105914 TTCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
105934 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
105954 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
105974 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
105994 ATCGCAACG
1 ATCGCAACG
106003 AGATAATACA
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
19 3 0.03
20 94 0.85
21 12 0.11
22 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:105953 original size:40 final size:40
Alignment explanation
Indices: 105895--106002 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
105885 TAATACAAAA
* *
105895 TCGCAATGCGATAT-TGACTTTCGCAACGTGATTCTGACTT
1 TCGCAACGCGAT-TCTGACTTTCGCAACGCGATTCTGACTT
105935 TCGCAACGCGATTCTGACTTTCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTTTCGCAACGCGATTCTGACTT
* *
105975 TCGCAACGAGATTCTGACTATCGCAACG
1 TCGCAACGCGATTCTGACTTTCGCAACG
106003 AGATAATACA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TCGCAACGCGATTCTGACTTTCGCAACGCGATTCTGACTT
Found at i:106003 original size:20 final size:20
Alignment explanation
Indices: 105909--106006 Score: 160
Period size: 20 Copynumber: 4.9 Consensus size: 20
105899 AATGCGATAT
*
105909 TGACTTTCGCAACGTGATTC
1 TGACTTTCGCAACGAGATTC
*
105929 TGACTTTCGCAACGCGATTC
1 TGACTTTCGCAACGAGATTC
*
105949 TGACTTTCGCAACGCGATTC
1 TGACTTTCGCAACGAGATTC
105969 TGACTTTCGCAACGAGATTC
1 TGACTTTCGCAACGAGATTC
*
105989 TGACTATCGCAACGAGAT
1 TGACTTTCGCAACGAGAT
106007 AATACAGAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (20 bp):
TGACTTTCGCAACGAGATTC
Found at i:106180 original size:12 final size:12
Alignment explanation
Indices: 106161--106194 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
106151 CTCTCCGGCG
106161 ACATCCGTTCCT
1 ACATCCGTTCCT
*
106173 ATATCCGTTCCT
1 ACATCCGTTCCT
106185 ACATCC-TTCC
1 ACATCCGTTCC
106195 CCATCCGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:106800 original size:24 final size:24
Alignment explanation
Indices: 106749--106802 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
106739 GTATTCGAAA
* *
106749 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
106773 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
106797 TTTGAT
1 TTTGAT
106803 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:106994 original size:12 final size:12
Alignment explanation
Indices: 106977--107001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106967 ATATAATCCT
106977 GAAGAAGAAAAA
1 GAAGAAGAAAAA
106989 GAAGAAGAAAAA
1 GAAGAAGAAAAA
107001 G
1 G
107002 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:109370 original size:20 final size:20
Alignment explanation
Indices: 109257--109364 Score: 198
Period size: 20 Copynumber: 5.4 Consensus size: 20
109247 ATTCATTTGA
*
109257 CTATCGCAACGCGAAAATGA
1 CTATCGCAACGCGAAAATGG
109277 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
109297 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
109317 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
109337 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
109357 CTATCGCA
1 CTATCGCA
109365 TTGCGATTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:109550 original size:14 final size:14
Alignment explanation
Indices: 109531--109567 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
109521 CATCAATTAA
109531 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
109545 ACAAATCATCTTTT
1 ACAAATCAACATTT
109559 ACAAATCAA
1 ACAAATCAA
109568 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:111457 original size:20 final size:20
Alignment explanation
Indices: 111434--111483 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
111424 CTTAAAATCG
111434 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
* *
111454 CAACGCGAAAATGGCTATCG
1 CAACGCGAAAATGACTATCA
*
111474 CAATGCGAAA
1 CAACGCGAAA
111484 TGAAAATCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:111492 original size:19 final size:19
Alignment explanation
Indices: 111470--111528 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
111460 GAAAATGGCT
111470 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
111489 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
111503 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
111522 ATCGCAA
1 ATCGCAA
111529 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:111505 original size:14 final size:14
Alignment explanation
Indices: 111486--111544 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
111476 ATGCGAAATG
111486 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
111500 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
111519 AAAATCGCAACGAC
1 AAAATCGCAACGAC
111533 AAAATCGCAACG
1 AAAATCGCAACG
111545 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:111560 original size:33 final size:33
Alignment explanation
Indices: 111470--111549 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
111460 GAAAATGGCT
111470 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
111503 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
111536 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
111550 CACAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:111593 original size:19 final size:19
Alignment explanation
Indices: 111556--111614 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
111546 GAAACACAAA
**
111556 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT
*
111575 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATAGTCATT
*
111594 TCCGCGTTGCGATAGTCATT
1 T-CGCATTGCGATAGTCATT
111614 T
1 T
111615 TCGTGTTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (19 bp):
TCGCATTGCGATAGTCATT
Found at i:111622 original size:20 final size:20
Alignment explanation
Indices: 111571--111614 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
111561 TTGCGATTTT
*
111571 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
111590 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
111610 CATTT
1 CATTT
111615 TCGTGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:112189 original size:18 final size:18
Alignment explanation
Indices: 112166--112213 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
112156 CGGGTCGATC
112166 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
112184 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
112202 AGGTGATGGCTC
1 AGGTGATGGCTC
112214 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:113568 original size:20 final size:20
Alignment explanation
Indices: 113545--113582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
113535 AATTGCAGCA
113545 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAATG
**
113565 CGAATTTGACTATCGCAA
1 CGAAAATGACTATCGCAA
113583 CGAGAGAATC
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:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
CGAAAATGACTATCGCAATG
Found at i:113846 original size:20 final size:21
Alignment explanation
Indices: 113821--113869 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
113811 TCTGAGAGAT
113821 GGAGAT-AGACAGATTTCGCC
1 GGAGATGAGACAGATTTCGCC
* *
113841 GGAGATGGAGACGGATTTCGTC
1 GGAGAT-GAGACAGATTTCGCC
113863 GGAGATG
1 GGAGATG
113870 GGTGAGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 18 0.72
ACGTcount: A:0.27, C:0.14, G:0.39, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACAGATTTCGCC
Found at i:113857 original size:22 final size:22
Alignment explanation
Indices: 113827--113870 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
113817 AGATGGAGAT
113827 AGACAGATTTCGCCGGAGATGG
1 AGACAGATTTCGCCGGAGATGG
* *
113849 AGACGGATTTCGTCGGAGATGG
1 AGACAGATTTCGCCGGAGATGG
113871 GTGAGAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.39, T:0.20
Consensus pattern (22 bp):
AGACAGATTTCGCCGGAGATGG
Found at i:114084 original size:20 final size:20
Alignment explanation
Indices: 114058--114171 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
114048 GATTACGTAT
114058 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
114078 AATCGCGCTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
114098 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
114118 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
114139 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
114159 TATCGCATTGCGA
1 TATCGCGTTGCGA
114172 TTTTCCCAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 61 0.77
21 13 0.16
22 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:114175 original size:41 final size:41
Alignment explanation
Indices: 114038--114173 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
114028 CGCTTTGAAA
* *
114038 ATCGCATTGCGATTACGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
** * *
114079 ATCGCGCTGCGA--AAGTCAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * *
114119 ATCTCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
114160 ATCGCATTGCGATT
1 ATCGCATTGCGATT
114174 TTCCCAATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.39
41 43 0.54
42 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:114186 original size:41 final size:41
Alignment explanation
Indices: 114058--114193 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
114048 GATTACGTAT
* * ** *** *
114058 TATCGCGTTGCGAAAGTCAGAATCGCGCTGCGAAAGT-CAG
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
* * * ** *
114098 TATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
114139 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAA
114181 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
114194 TTACTTATTC
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
40 31 0.39
41 47 0.59
42 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
Found at i:125148 original size:31 final size:31
Alignment explanation
Indices: 125110--125234 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
125100 CCCGAAGGAC
* * *
125110 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
125141 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
125172 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
125203 CAGTCCATATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
125234 C
1 C
125235 CCTCGACCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:125533 original size:13 final size:13
Alignment explanation
Indices: 125517--125541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125507 CATAGCTCAC
125517 TATCATATTTTCA
1 TATCATATTTTCA
125530 TATCATATTTTC
1 TATCATATTTTC
125542 CTTTCTACTT
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:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
TATCATATTTTCA
Found at i:126139 original size:21 final size:21
Alignment explanation
Indices: 126115--126159 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
126105 TGTTGTTCGT
* *
126115 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
126136 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
126157 TTG
1 TTG
126160 TCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:129613 original size:31 final size:31
Alignment explanation
Indices: 129575--129699 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
129565 CCCGAAGGAC
* * *
129575 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
129606 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
129637 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
129668 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
129699 C
1 C
129700 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:130546 original size:21 final size:21
Alignment explanation
Indices: 130522--130566 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
130512 TGTTGTTCGT
* *
130522 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
130543 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
130564 TTG
1 TTG
130567 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:134154 original size:21 final size:21
Alignment explanation
Indices: 134124--134165 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
134114 ATTATGACTA
134124 TCGCTTGCGATTTT-CCAATT
1 TCGCTTGCGATTTTCCCAATT
134144 TCGCGTTGCGATTTTCCCAATT
1 TCGC-TTGCGATTTTCCCAATT
134166 CGCAATGCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.43
Consensus pattern (21 bp):
TCGCTTGCGATTTTCCCAATT
Found at i:134174 original size:21 final size:21
Alignment explanation
Indices: 134129--134175 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
134119 GACTATCGCT
**
134129 TGCGATTTTCCAATTTCGCGT
1 TGCGATTTTCCAATTTCGCAA
134150 TGCGATTTTCCCAA-TTCGCAA
1 TGCGATTTT-CCAATTTCGCAA
134171 TGCGA
1 TGCGA
134176 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (21 bp):
TGCGATTTTCCAATTTCGCAA
Found at i:134190 original size:20 final size:21
Alignment explanation
Indices: 134165--134216 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
134155 TTTTCCCAAT
*
134165 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
134185 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
134206 TCGCAATGCGA
1 TCGCAATGCGA
134217 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:134230 original size:20 final size:20
Alignment explanation
Indices: 134206--134338 Score: 176
Period size: 20 Copynumber: 6.7 Consensus size: 20
134196 ATTGGGAAAA
* *
134206 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTT
*
134226 TCGCAACGCGATATTGACTT
1 TCGCAACGCGATACTGACTT
*
134246 TCGCAATGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
134266 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
*
134286 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
* * *
134306 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATACTGACTT
*
134326 TCGCAACGAGATA
1 TCGCAACGCGATA
134339 ATACAGAATC
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 103 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:137664 original size:20 final size:20
Alignment explanation
Indices: 137591--137658 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
137581 ATTCATTTGA
*
137591 CTATCGCAACGCGAAAATGA
1 CTATCGCAACGCGAAAATGG
137611 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
137631 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
137651 CTATCGCA
1 CTATCGCA
137659 TTGCGATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:139730 original size:20 final size:20
Alignment explanation
Indices: 139707--139779 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
139697 GAAACTTAAA
*
139707 ATCGCAACTCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
139727 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
* **
139747 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
139766 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
139780 CACAAATCGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:139808 original size:19 final size:19
Alignment explanation
Indices: 139786--139882 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
139776 GAAACACAAA
139786 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
139805 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
139821 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
139838 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
139854 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
139871 TCGTATTGCGAT
1 TCGCATTGCGAT
139883 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 12 0.19
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 23 0.37
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:139827 original size:14 final size:14
Alignment explanation
Indices: 139808--139866 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
139798 TTTCATTTCG
139808 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
139822 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
139839 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
139855 CGTTGCGATTTT
1 CGTTGCGATTTT
139867 CATTTCGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:139833 original size:33 final size:33
Alignment explanation
Indices: 139791--139882 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
139781 ACAAATCGCA
*
139791 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
139824 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
139857 TTGCGATTTTCATTTCGTATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
139883 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:140485 original size:18 final size:18
Alignment explanation
Indices: 140462--140509 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
140452 CGGGTCGATC
140462 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
140480 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
140498 AGGTGATGGCTC
1 AGGTGATGGCTC
140510 CCGAAGTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:141868 original size:20 final size:20
Alignment explanation
Indices: 141845--141889 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
141835 AATTGCAGCA
*
141845 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAACG
**
141865 CGAATTTGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
141885 CGAAA
1 CGAAA
141890 CTAAAATCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:142389 original size:20 final size:20
Alignment explanation
Indices: 142363--142476 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
142353 GATTATGTAT
142363 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
142383 AATCGCGCTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
142403 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
142423 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
142444 TATCGCGTTGCTATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
142464 TATCACGTTGCGA
1 TATCGCGTTGCGA
142477 TTTTCCCAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.78
21 12 0.16
22 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:142462 original size:41 final size:41
Alignment explanation
Indices: 142353--142480 Score: 143
Period size: 41 Copynumber: 3.1 Consensus size: 41
142343 ATCGCATTAA
* * * *
142353 GATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGCTGC
1 GATTTTGTATTATCGCGTTGCGAAAGTCAGTATCACGTTGC
** * *
142394 GA--AAGTCAGTATCGCGTTGCGAAAGTCAGTATCTCGTTGC
1 GATTTTGT-ATTATCGCGTTGCGAAAGTCAGTATCACGTTGC
* *
142434 GATTTTGTATTATCGCGTTGCTATAGTCAGTATCACGTTGC
1 GATTTTGTATTATCGCGTTGCGAAAGTCAGTATCACGTTGC
142475 GATTTT
1 GATTTT
142481 CCCAATTCGC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.04
40 31 0.42
41 37 0.51
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
GATTTTGTATTATCGCGTTGCGAAAGTCAGTATCACGTTGC
Found at i:142491 original size:41 final size:41
Alignment explanation
Indices: 142363--142497 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
142353 GATTATGTAT
* * * *** *
142363 TATCGCGTTGCGAAAGTCAGAATCGCGCTGCGAAAGT-CAG
1 TATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTTCCAA
* ** *
142403 TATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTTCCAA
* *
142444 TATCGCGTTGCTATAGTCAGTATCACGTTGCGATTTTCCCAA
1 TATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTT-CCAA
142486 T-TCGCGTTGCGA
1 TATCGCGTTGCGA
142498 TTTACTTATT
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 31 0.40
41 45 0.58
42 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTTCCAA
Found at i:142559 original size:21 final size:22
Alignment explanation
Indices: 142507--142559 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
142497 ATTTACTTAT
142507 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
142528 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
142549 TCGCATTGCGA
1 TCGCATTGCGA
142560 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:150665 original size:108 final size:107
Alignment explanation
Indices: 150453--150672 Score: 257
Period size: 108 Copynumber: 2.0 Consensus size: 107
150443 CGTAGTAATT
* * * *
150453 AGTCTCATAGTTTGGAGTTTCTGCGTGGGTTCCAGTCAGATTTTGGAGTTCTGATTGCGATTGTT
1 AGTCTCATAGTTTGGAGTTTCTGCGTGGGTTACAGTCAGATTCTGGAGTTCAGAATGCGATTGTT
* * *
150518 ATATCCGTTTGCAAGTTGTTTGTGTAAATGTCATAGTGAACC
66 ATATCCGTTTACAAGCTGTTTGTGTAAATGTCAGAGTGAACC
* * *
150560 TGTCTCAT-GTTTTGGAGTTTCTGCGTGGGTTAATAGTCTGATTCTGGAGTTCAGAATGCG-TCT
1 AGTCTCATAG-TTTGGAGTTTCTGCGTGGGTT-ACAGTCAGATTCTGGAGTTCAGAATGCGAT-T
* * * *
150623 GTTTTTTCTGTTTATAAGCTGTTTGTGTAAATG-CTAGAGTGAACC
63 GTTATATCCGTTTACAAGCTGTTTGTGTAAATGTC-AGAGTGAACC
150668 AGTCT
1 AGTCT
150673 ATTGCTCGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
106 1 0.01
107 30 0.32
108 63 0.67
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (107 bp):
AGTCTCATAGTTTGGAGTTTCTGCGTGGGTTACAGTCAGATTCTGGAGTTCAGAATGCGATTGTT
ATATCCGTTTACAAGCTGTTTGTGTAAATGTCAGAGTGAACC
Found at i:153004 original size:29 final size:26
Alignment explanation
Indices: 152967--153020 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
152957 AAATTATTAT
152967 AATGTAAACATAAATTATTGATAAAAAA
1 AATGTAAACATAAATTA-T-ATAAAAAA
* *
152995 AATGTAAAACTTCAATTATATAAAAA
1 AATGT-AAACATAAATTATATAAAAA
153021 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (26 bp):
AATGTAAACATAAATTATATAAAAAA
Found at i:160756 original size:12 final size:12
Alignment explanation
Indices: 160739--160768 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
160729 TGGAGTAGTA
160739 AATAATATATTT
1 AATAATATATTT
160751 AATAATATATTT
1 AATAATATATTT
160763 AA-AATA
1 AATAATA
160769 ATGCAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATAATATATTT
Found at i:160768 original size:14 final size:13
Alignment explanation
Indices: 160737--160770 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
160727 TATGGAGTAG
160737 TAAATAATATATT
1 TAAATAATATATT
160750 T-AATAATATATT
1 TAAATAATATATT
160762 TAAAATAAT
1 T-AAATAAT
160771 GCAATTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
13 1 0.05
14 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATAATATATT
Found at i:164896 original size:24 final size:24
Alignment explanation
Indices: 164869--164986 Score: 166
Period size: 24 Copynumber: 4.9 Consensus size: 24
164859 TTCGATTTGA
*
164869 ATTCTGATATGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
164893 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
164917 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
164941 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
164965 ATTTTGATATGATACTTGACAT
1 ATTCTGATCTGATACTTGACAT
164987 AAATTATGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:165150 original size:35 final size:35
Alignment explanation
Indices: 165111--165185 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
165101 CTTGGTGTGT
* * * *
165111 TGGTGGGTGTATGGTTCTGGGGAACTTACACATTA
1 TGGTGGGTGTATAGTTCTGAGAAACCTACACATTA
165146 TGGTGGGTGTATAGTTCTGAGAAACCTACACATTA
1 TGGTGGGTGTATAGTTCTGAGAAACCTACACATTA
165181 TGGTG
1 TGGTG
165186 TGTTCGGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (35 bp):
TGGTGGGTGTATAGTTCTGAGAAACCTACACATTA
Found at i:167390 original size:21 final size:21
Alignment explanation
Indices: 167364--167478 Score: 144
Period size: 21 Copynumber: 5.5 Consensus size: 21
167354 GTTTCCAGAT
**
167364 TCGCAATGCGATTTTGGACTA
1 TCGCAATGCGAACTTGGACTA
167385 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
167406 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
*
167426 TCGCAATGCGAACTTGGACTG
1 TCGCAATGCGAACTTGGACTA
*
167447 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
167468 TCGCATTGCGA
1 TCGCAATGCGA
167479 TTTACATATT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.21
21 64 0.79
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:167513 original size:62 final size:62
Alignment explanation
Indices: 167380--167519 Score: 144
Period size: 62 Copynumber: 2.3 Consensus size: 62
167370 TGCGATTTTG
* * * *
167380 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATACGAACGTC
* * *
167442 GACTGTCGCAATGCGAACTTCGACTATCGCATTGCG-AT-T-TACATATTCGCATTACGATA-GT
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTA-A-A-TCGCAATACGA-ACGT
167503 C
62 C
*
167504 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
167520 TAGTCCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
59 2 0.03
60 2 0.03
61 3 0.05
62 57 0.88
63 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (62 bp):
GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATACGAACGTC
Found at i:167514 original size:21 final size:21
Alignment explanation
Indices: 167488--167555 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
167478 ATTTACATAT
* * **
167488 TCGCATTACGATAGTCGACTA
1 TCGCATTGCGATAGTCCAAAA
167509 TCGCATTGCGATAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAA
167530 TCGCATTGCGATAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAA
167551 TCGCA
1 TCGCA
167556 ACGACTGGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAA
Found at i:167649 original size:6 final size:6
Alignment explanation
Indices: 167638--167670 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
167628 GACATGTATT
*
167638 ACCACG ACCACG ACCACG ACCATG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
167671 CGAGACTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.33, C:0.48, G:0.15, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:168186 original size:6 final size:6
Alignment explanation
Indices: 168170--168201 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
168160 TCTCGTCTCG
168170 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
168202 AATACGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:168352 original size:21 final size:21
Alignment explanation
Indices: 168322--168420 Score: 116
Period size: 21 Copynumber: 4.8 Consensus size: 21
168312 AATATGTAAA
*
168322 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
168343 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
168364 TCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
168384 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
168405 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
168421 CAAAATCGCA
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
20 16 0.23
21 52 0.75
22 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:168431 original size:21 final size:21
Alignment explanation
Indices: 168319--168432 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
168309 GCGAATATGT
*
168319 AAATCGCAATGCGATAGTCGA
1 AAATCGCATTGCGATAGTCGA
**
168340 AGTTCGCATTGCGATAGTCGA
1 AAATCGCATTGCGATAGTCGA
**
168361 AGTTCGCATTGCGATAGTCGA
1 AAATCGCATTGCGATAGTCGA
** *
168382 CTATCGCATTGCGAT-TTAC-A
1 AAATCGCATTGCGATAGT-CGA
* * *
168402 TATTCGCATTGCGATAGTCCA
1 AAATCGCATTGCGATAGTCGA
168423 AAATCGCATT
1 AAATCGCATT
168433 TCGAATCTGG
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 15 0.19
21 62 0.81
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (21 bp):
AAATCGCATTGCGATAGTCGA
Found at i:177549 original size:2 final size:2
Alignment explanation
Indices: 177542--177568 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
177532 TACAAATTCC
177542 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
177569 CTAACTCATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:178295 original size:64 final size:64
Alignment explanation
Indices: 178187--178348 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 64
178177 CCCTTGACGG
* * *
178187 GTGCATCGATGCACTACC-CATGCATCGGTGCATAAATCCTATTCGATGTT-TGTATTTTAAGA-
1 GTGCATCGATGCACT-CCTTATGCATCGATGCATAAATCCTATTCGATGTTATGTAATTTAA-AT
178249 A
64 A
** * *
178250 TGTGCATCGATGCACTCCTTATGCATCGATGCATCCATGGC-ATTCGATGTTCATTTAATTTAAA
1 -GTGCATCGATGCACTCCTTATGCATCGATGCATAAAT-CCTATTCGATGTT-ATGTAATTTAAA
178314 TGA
63 T-A
*
178317 GTGCATCGATGCACTCCTTATGAATCGATGCA
1 GTGCATCGATGCACTCCTTATGCATCGATGCA
178349 CCTTCAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 2 0.02
64 40 0.48
65 2 0.02
66 39 0.46
67 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTATGTAATTTAAATA
Found at i:180195 original size:12 final size:12
Alignment explanation
Indices: 180161--180195 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
180151 TATCATGTTC
**
180161 TCATATCACAGG
1 TCATATCACATA
180173 TCATATCACATA
1 TCATATCACATA
180185 TCATATCACAT
1 TCATATCACAT
180196 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:180616 original size:64 final size:64
Alignment explanation
Indices: 180508--180684 Score: 198
Period size: 64 Copynumber: 2.8 Consensus size: 64
180498 TAATGAAGGT
* * * ** * * **
180508 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAAGGTATTCGATGTAGT-ATTATTGCTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-GATTGCATTCGATGT-GTCACTATTAATGG
180571 G
64 G
* *
180572 ATGCATCGATGCACTCCTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTGATTGCATTCGATGTGTCACTATTAATGGG
*
180636 ATGCATCGATGCACTACTTATGCATCGATGCAC-GAATTACATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACTG-ATTGCATTCGATGT
180685 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.02
64 94 0.97
65 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTGATTGCATTCGATGTGTCACTATTAATGGG
Found at i:180705 original size:64 final size:64
Alignment explanation
Indices: 180571--180732 Score: 188
Period size: 64 Copynumber: 2.5 Consensus size: 64
180561 TTATTGCTGG
* * *
180571 GATGCATCGATGCACTCCTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCACTGATTACATTCGATGTTTCACTATTAATGA
* *
180635 GATGCATCGATGCACTACTTATGCATCGATGCAC-GAATTACATTCGATGTCTTTA-TTTTAAAA
1 GATGCATCGATGCACTACTTATGCATCGATGCACTG-ATTACATTCGATGT-TTCACTATT--AA
180698 T-A
62 TGA
* **
180700 G-TGCATCGATACACTACCAATGCATCGATGCAC
1 GATGCATCGATGCACTACTTATGCATCGATGCAC
180733 ATTCAAAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 78 0.91
65 4 0.05
66 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (64 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACTGATTACATTCGATGTTTCACTATTAATGA
Found at i:186884 original size:15 final size:15
Alignment explanation
Indices: 186857--186904 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
186847 CGTAGGACTC
*
186857 CTACATCCCGAAGGA
1 CTACGTCCCGAAGGA
*
186872 CTACGTCCTGAAGGA
1 CTACGTCCCGAAGGA
* *
186887 CTATGTCCCGAATGA
1 CTACGTCCCGAAGGA
186902 CTA
1 CTA
186905 TTATACCCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (15 bp):
CTACGTCCCGAAGGA
Found at i:186905 original size:15 final size:15
Alignment explanation
Indices: 186862--186905 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
186852 GACTCCTACA
*
186862 TCCCGAAGGACTACG
1 TCCCGAAGGACTATG
*
186877 TCCTGAAGGACTATG
1 TCCCGAAGGACTATG
*
186892 TCCCGAATGACTAT
1 TCCCGAAGGACTAT
186906 TATACCCTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (15 bp):
TCCCGAAGGACTATG
Found at i:187083 original size:12 final size:12
Alignment explanation
Indices: 187049--187083 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
187039 TATCATGTTC
**
187049 TCATATCACAGG
1 TCATATCACATA
187061 TCATATCACATA
1 TCATATCACATA
187073 TCATATCACAT
1 TCATATCACAT
187084 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:187477 original size:19 final size:19
Alignment explanation
Indices: 187453--187504 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
187443 TATTTCTGGG
187453 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
187472 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
187491 ATGCATCGATGCAC
1 ATGCATCGATGCAC
187505 CGATTGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:187605 original size:64 final size:64
Alignment explanation
Indices: 187472--187631 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
187462 TGCACTCCTT
* * *
187472 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGAG
* *
187536 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTCTTTA-TTTTAAA-A
1 ATGCATCGATGCACTACTTATGCATCGATGCACCG-ATTGCATTCGATGT-TTCACTATTAAAGA
187598 G
64 G
** *
187599 AGTGCATCGATGCACTACCAATGCATCGGTGCA
1 A-TGCATCGATGCACTACTTATGCATCGATGCA
187632 TATTCAAACA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 4 0.05
64 78 0.92
65 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGAG
Found at i:191650 original size:6 final size:6
Alignment explanation
Indices: 191614--191647 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
191604 CTCTGAAGAC
*
191614 GCAATG GCAATG GCAATG GCAATG GCAAAG GCAA
1 GCAATG GCAATG GCAATG GCAATG GCAATG GCAA
191648 AGGAAAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.12
Consensus pattern (6 bp):
GCAATG
Found at i:192054 original size:27 final size:28
Alignment explanation
Indices: 192023--192075 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
192013 AAAAAAACTT
192023 GTTGCTC-GACTCG-TGCTTATTAAGCCC
1 GTTGCTCAG-CTCGTTGCTTATTAAGCCC
*
192050 GTTGCTCAGCTCGTTGCTTGTTAAGC
1 GTTGCTCAGCTCGTTGCTTATTAAGC
192076 TCACTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.13, C:0.26, G:0.25, T:0.36
Consensus pattern (28 bp):
GTTGCTCAGCTCGTTGCTTATTAAGCCC
Found at i:192461 original size:13 final size:13
Alignment explanation
Indices: 192443--192473 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
192433 CTAGAAAATA
192443 TTTTCTGTTTTTG
1 TTTTCTGTTTTTG
192456 TTTTCTGTTTTTG
1 TTTTCTGTTTTTG
192469 TTTTC
1 TTTTC
192474 AGAAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.13, T:0.77
Consensus pattern (13 bp):
TTTTCTGTTTTTG
Found at i:196828 original size:24 final size:25
Alignment explanation
Indices: 196800--196846 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
196790 TAATTCGATC
196800 CGTTGCCAT-CCTATACTGATCCCT
1 CGTTGCCATCCCTATACTGATCCCT
196824 CGTTGCCATCCCTATACTGATCC
1 CGTTGCCATCCCTATACTGATCC
196847 ATGTTTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.17, C:0.38, G:0.13, T:0.32
Consensus pattern (25 bp):
CGTTGCCATCCCTATACTGATCCCT
Done.