Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007458.1 Hibiscus syriacus cultivar Beakdansim tig00020439_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: 143067
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:264 original size:15 final size:15
Alignment explanation
Indices: 244--280 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
234 ACTTGACTTA
*
244 TGGTATTAGTACCCT
1 TGGTATCAGTACCCT
*
259 TGGTATCGGTACCCT
1 TGGTATCAGTACCCT
274 TGGTATC
1 TGGTATC
281 GATACTACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (15 bp):
TGGTATCAGTACCCT
Found at i:281 original size:15 final size:15
Alignment explanation
Indices: 252--281 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
242 TATGGTATTA
252 GTACCCTTGGTATCG
1 GTACCCTTGGTATCG
267 GTACCCTTGGTATCG
1 GTACCCTTGGTATCG
282 ATACTACCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (15 bp):
GTACCCTTGGTATCG
Found at i:1266 original size:31 final size:31
Alignment explanation
Indices: 1230--1290 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1220 TCATAATATA
*
1230 TGGTCACTTTTATTTTTATTTCATTAAGATT
1 TGGTCACTTTTATTTTTATTTAATTAAGATT
*
1261 TGGTCACTTTTGTTTTTATTTAATTAAGAT
1 TGGTCACTTTTATTTTTATTTAATTAAGAT
1291 GTGACCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.08, G:0.11, T:0.57
Consensus pattern (31 bp):
TGGTCACTTTTATTTTTATTTAATTAAGATT
Found at i:2137 original size:19 final size:21
Alignment explanation
Indices: 2104--2153 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2094 ATTCTTTAAA
* *
2104 ATTTTTAATATAAAATATA-T
1 ATTTTAAATATAAAATAAATT
2124 ATTTTAAATA-AAAATAAATT
1 ATTTTAAATATAAAATAAATT
2144 ATTTTTAAAT
1 A-TTTTAAAT
2154 TAAGTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 7 0.27
20 11 0.42
21 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTAAATATAAAATAAATT
Found at i:2596 original size:23 final size:22
Alignment explanation
Indices: 2570--2612 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2560 ATTATTAGTA
2570 TTATATATTAAATTAAAAATAAG
1 TTATAT-TTAAATTAAAAATAAG
* *
2593 TTATATTTAATTTTAAAATA
1 TTATATTTAAATTAAAAATA
2613 TTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTATATTTAAATTAAAAATAAG
Found at i:9906 original size:21 final size:21
Alignment explanation
Indices: 9876--9923 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
9866 TAATTTTCAA
*
9876 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
9897 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
9918 ACATTG
1 ACATTG
9924 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:16972 original size:28 final size:28
Alignment explanation
Indices: 16928--16984 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
16918 TATCTTTCCC
*
16928 TACTAATATATATGTTTTATTGTTTACT
1 TACTAATATATATGTTTTATTGATTACT
*
16956 TACTACTATAT-TCGTTTTATTGATTACT
1 TACTAATATATAT-GTTTTATTGATTACT
16984 T
1 T
16985 TTAACATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (28 bp):
TACTAATATATATGTTTTATTGATTACT
Found at i:19366 original size:2 final size:2
Alignment explanation
Indices: 19359--19404 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
19349 ATACGTTGAG
19359 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
19401 AT AT
1 AT AT
19405 CGAGTATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20721 original size:2 final size:2
Alignment explanation
Indices: 20716--20769 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
20706 TTAATAAAAG
20716 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
20758 AT AT AT AT AT AT
1 AT AT AT AT AT AT
20770 GACTGTATCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21050 original size:21 final size:21
Alignment explanation
Indices: 21024--21064 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21014 ATAAAGATAA
* *
21024 AGAAAAATATGTCATAAAAAG
1 AGAAAAACATGTAATAAAAAG
21045 AGAAAAACATGTAATAAAAA
1 AGAAAAACATGTAATAAAAA
21065 CAGAGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.12, T:0.17
Consensus pattern (21 bp):
AGAAAAACATGTAATAAAAAG
Found at i:21430 original size:29 final size:29
Alignment explanation
Indices: 21398--21463 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
21388 AGTGAGATTG
* * *
21398 AAAAAATTAGAT-ACCTTAATTATGAAGAT
1 AAAAAATTA-ATGACCTCAATTATAAAGAA
*
21427 AAAAAATTATTGACCTCAATTATAAAGAA
1 AAAAAATTAATGACCTCAATTATAAAGAA
21456 AAAAAATT
1 AAAAAATT
21464 GGGCCCGTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAAAATTAATGACCTCAATTATAAAGAA
Found at i:26191 original size:21 final size:21
Alignment explanation
Indices: 26167--26224 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
26157 CATCCGACCC
*
26167 GACTGCGGTGGCATCTGAAAT
1 GACTGCGGTGCCATCTGAAAT
** *
26188 GACTGTAGTGCCATCTGATAT
1 GACTGCGGTGCCATCTGAAAT
* *
26209 GACTGGGGTGTCATCT
1 GACTGCGGTGCCATCT
26225 AAAACGGTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (21 bp):
GACTGCGGTGCCATCTGAAAT
Found at i:26793 original size:2 final size:2
Alignment explanation
Indices: 26786--26819 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26776 CATTGAAACT
26786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26820 ATTCTTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27596 original size:30 final size:30
Alignment explanation
Indices: 27514--27596 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
27504 TTTATTTAAT
* * *
27514 GACCAAATTATAAATTTGGTAAAGTTTAGT
1 GACCAAAATATAAATTTGGAAAAGTTTAGG
*
27544 GACCAAAGTATAAACTTT-GAAAAGTTTAGG
1 GACCAAAATATAAA-TTTGGAAAAGTTTAGG
* *
27574 GACCAAAATGTAATTTTGGAAAA
1 GACCAAAATATAAATTTGGAAAA
27597 ATTACAAACG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.07
30 39 0.87
31 3 0.07
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.30
Consensus pattern (30 bp):
GACCAAAATATAAATTTGGAAAAGTTTAGG
Found at i:29101 original size:13 final size:13
Alignment explanation
Indices: 29085--29110 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29075 CACTGGTCAT
29085 GGTTACTGTTCAC
1 GGTTACTGTTCAC
29098 GGTTACTGTTCAC
1 GGTTACTGTTCAC
29111 TGTTTACTAT
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:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
GGTTACTGTTCAC
Found at i:30917 original size:6 final size:6
Alignment explanation
Indices: 30908--30942 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
30898 ATAATATAAA
30908 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTA
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTA
30943 AATAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:31660 original size:22 final size:22
Alignment explanation
Indices: 31634--31681 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
31624 TCAAAAATAT
* **
31634 TAAAAAATATTAATGTTTTAAA
1 TAAAAAATAATAAAATTTTAAA
31656 T-AAAAATAATAAAATTTTAAA
1 TAAAAAATAATAAAATTTTAAA
31677 TAAAA
1 TAAAA
31682 TTTTACCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAAAATAATAAAATTTTAAA
Found at i:33502 original size:15 final size:14
Alignment explanation
Indices: 33473--33507 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
33463 AATCAAAATT
33473 TTAAATAAATTTAA
1 TTAAATAAATTTAA
*
33487 TTAATTAAATTTTAA
1 TTAAATAAA-TTTAA
33502 TTAAAT
1 TTAAAT
33508 TTAATTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATAAATTTAA
Found at i:33512 original size:10 final size:11
Alignment explanation
Indices: 33468--33514 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
33458 AAATAAATCA
*
33468 AAATTTTAAAT
1 AAATTTTAATT
33479 AAATTTAATTAATT
1 AAA-TT--TTAATT
33493 AAATTTTAATT
1 AAATTTTAATT
33504 AAA-TTTAATT
1 AAATTTTAATT
33514 A
1 A
33515 GAAATAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.25
11 12 0.38
12 2 0.06
13 2 0.06
14 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATTTTAATT
Found at i:36632 original size:20 final size:20
Alignment explanation
Indices: 36607--36658 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
36597 ACCAACAAAT
36607 TCGCAACGCGAACAGATAAA
1 TCGCAACGCGAACAGATAAA
* *
36627 TCGCAACGCGAATAGCTAAA
1 TCGCAACGCGAACAGATAAA
* *
36647 TCACAACACGAA
1 TCGCAACGCGAA
36659 TTTTAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.27, G:0.17, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAACAGATAAA
Found at i:36741 original size:20 final size:20
Alignment explanation
Indices: 36716--36796 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
36706 ACCGATATAG
*
36716 GTAAACAATACTATCGTAAT
1 GTAAACAATACTATCGCAAT
*
36736 GTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAAT
36756 GTAAACAATACTATCGCAAT
1 GTAAACAATACTATCGCAAT
*
36776 GTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAAT
36796 G
1 G
36797 CGATTTTCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (20 bp):
GTAAACAATACTATCGCAAT
Found at i:36771 original size:40 final size:40
Alignment explanation
Indices: 36716--36893 Score: 160
Period size: 40 Copynumber: 4.5 Consensus size: 40
36706 ACCGATATAG
*
36716 GTAAACAATACTATCGTAATGTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAAT
36756 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAAT
*** *
36796 GCGATTTTCAA-A-T-TCGCAACAT-TAATTACCG-A-TAT----AT
1 --G-TAAACAATACTATCGC-A-ATGTAA--ACAGTACTATCGCAAT
36833 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAAT
* *
36873 GTAAACAGTACTATCGTAATG
1 GTAAACAATACTATCGCAATG
36894 CGATTTTCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 34
0.71 0.07 0.22
Matches are distributed among these distances:
34 7 0.06
35 5 0.05
36 8 0.07
37 6 0.05
40 64 0.58
41 8 0.07
42 5 0.05
43 7 0.06
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (40 bp):
GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAAT
Found at i:36828 original size:117 final size:118
Alignment explanation
Indices: 36677--36893 Score: 373
Period size: 117 Copynumber: 1.8 Consensus size: 118
36667 TTGTTTACCT
* *
36677 TGCGAATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGTAATGTAAAC
1 TGCGAATTTTCAAATTCGCAACACTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAAC
36742 AGTACTATCGCAATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAA
66 AGTACTATCGCAATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAA
* *
36795 TGCG-ATTTTCAAATTCGCAACATTAATTACCGATATATGTAAACAATACTATCGCAATGTAAAC
1 TGCGAATTTTCAAATTCGCAACACTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAAC
* *
36859 AGTACTATCGCAATGTAAACAGTACTATCGTAATG
66 AGTACTATCGCAATGTAAACAATACTATCGCAATG
36894 CGATTTTCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
117 89 0.96
118 4 0.04
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (118 bp):
TGCGAATTTTCAAATTCGCAACACTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAAC
AGTACTATCGCAATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAA
Found at i:36856 original size:20 final size:20
Alignment explanation
Indices: 36831--36893 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
36821 TTACCGATAT
*
36831 ATGTAAACAATACTATCGCA
1 ATGTAAACAGTACTATCGCA
36851 ATGTAAACAGTACTATCGCA
1 ATGTAAACAGTACTATCGCA
*
36871 ATGTAAACAGTACTATCGTA
1 ATGTAAACAGTACTATCGCA
36891 ATG
1 ATG
36894 CGATTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (20 bp):
ATGTAAACAGTACTATCGCA
Found at i:36865 original size:97 final size:97
Alignment explanation
Indices: 36734--36970 Score: 420
Period size: 97 Copynumber: 2.4 Consensus size: 97
36724 TACTATCGTA
* *
36734 ATGTAAACAGTACTATCGCAATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCG
1 ATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCG
*
36799 ATTTTCAAATTCGCAACATTAATTACCGATAT
66 ATTTTCAAATTCGCAACACTAATTACCGATAT
*
36831 ATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGTAAACAGTACTATCGTAATGCG
1 ATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCG
*
36896 ATTTTCAAATTCGCAACGCTAATTACCGATAT
66 ATTTTCAAATTCGCAACACTAATTACCGATAT
*
36928 AGGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATG
1 ATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATG
36971 CGATTTTCAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 134 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (97 bp):
ATGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCG
ATTTTCAAATTCGCAACACTAATTACCGATAT
Found at i:36934 original size:77 final size:77
Alignment explanation
Indices: 36853--37047 Score: 345
Period size: 77 Copynumber: 2.5 Consensus size: 77
36843 CTATCGCAAT
36853 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGTAATGCGATTTTCAAATTCGCAACGCTAA
1 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGTAATGCGATTTTCAAATTCGCAACGCTAA
36918 TTACCGATATAG
66 TTACCGATATAG
* *
36930 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAA
1 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGTAATGCGATTTTCAAATTCGCAACGCTAA
*
36995 TTACCGATATTG
66 TTACCGATATAG
* *
37007 GTAAACAGTACTATCGTAATGTAAATAGTACTATCGTAATG
1 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGTAATG
37048 TAAATAGTAC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 111 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (77 bp):
GTAAACAGTACTATCGCAATGTAAACAGTACTATCGTAATGCGATTTTCAAATTCGCAACGCTAA
TTACCGATATAG
Found at i:36955 original size:20 final size:20
Alignment explanation
Indices: 36930--36970 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
36920 ACCGATATAG
36930 GTAAACAATACTATCGCAAT
1 GTAAACAATACTATCGCAAT
*
36950 GTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAAT
36970 G
1 G
36971 CGATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (20 bp):
GTAAACAATACTATCGCAAT
Found at i:37036 original size:20 final size:20
Alignment explanation
Indices: 37007--37087 Score: 144
Period size: 20 Copynumber: 4.0 Consensus size: 20
36997 ACCGATATTG
*
37007 GTAAACAGTACTATCGTAAT
1 GTAAATAGTACTATCGTAAT
37027 GTAAATAGTACTATCGTAAT
1 GTAAATAGTACTATCGTAAT
37047 GTAAATAGTACTATCGTAAT
1 GTAAATAGTACTATCGTAAT
*
37067 GTAAATAGTACTATCGCAAT
1 GTAAATAGTACTATCGTAAT
37087 G
1 G
37088 CAATTTTCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
GTAAATAGTACTATCGTAAT
Found at i:37103 original size:20 final size:20
Alignment explanation
Indices: 37080--37126 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
37070 AATAGTACTA
*
37080 TCGCAATGCAATTTTCAAAT
1 TCGCAACGCAATTTTCAAAT
*
37100 TCGCAACGCGATTTTCAAAT
1 TCGCAACGCAATTTTCAAAT
37120 TCGCAAC
1 TCGCAAC
37127 TCTAATTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (20 bp):
TCGCAACGCAATTTTCAAAT
Found at i:38200 original size:60 final size:59
Alignment explanation
Indices: 38080--38206 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 59
38070 CTCGCACTTG
*** **
38080 ATATCATTTTGATAGGATACCAAATATGAGATATGCTTATATACACGAATCAACTTAAAT
1 ATATCATTTTGATAGGATACCAAATATGAGATATGAAAATATACAC-AATCAACAAAAAT
* *
38140 ATATCATTTTGATAGGATACCAAATATGAGTGATAT-AAAATATACA-AATTACCAAAAA-
1 ATATCATTTTGATAGGATACCAAATATGA--GATATGAAAATATACACAATCAACAAAAAT
38198 ATAT-ATTTT
1 ATATCATTTT
38207 ATTCAATTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
57 5 0.09
58 4 0.07
59 8 0.14
60 29 0.50
61 7 0.12
62 5 0.09
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (59 bp):
ATATCATTTTGATAGGATACCAAATATGAGATATGAAAATATACACAATCAACAAAAAT
Found at i:38673 original size:16 final size:16
Alignment explanation
Indices: 38652--38683 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38642 TTTATCTTAT
38652 ATGTAAGATTAAAAGA
1 ATGTAAGATTAAAAGA
38668 ATGTAAGATTAAAAGA
1 ATGTAAGATTAAAAGA
38684 CAGGTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTAAGATTAAAAGA
Found at i:39721 original size:16 final size:15
Alignment explanation
Indices: 39700--39739 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
39690 GTACCCGATT
39700 TAGATTAATTGATCAA
1 TAGATTAATT-ATCAA
*
39716 TAGATTAAATATCAA
1 TAGATTAATTATCAA
39731 TA-ATTAATT
1 TAGATTAATT
39740 CAAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 9 0.41
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (15 bp):
TAGATTAATTATCAA
Found at i:40162 original size:20 final size:20
Alignment explanation
Indices: 40120--40162 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
40110 TGATCTGATC
* *
40120 TTAATTAAATTATTTTTCGT
1 TTAATTAAAATATTTTTCAT
40140 TTAATGTAAAATATTTTT-AT
1 TTAAT-TAAAATATTTTTCAT
40160 TTA
1 TTA
40163 CATTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (20 bp):
TTAATTAAAATATTTTTCAT
Found at i:42470 original size:31 final size:31
Alignment explanation
Indices: 42435--42503 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
42425 TTATGGTCAA
*
42435 AGCTTGTTA-GAGTTTGTTA-TGGTTTGTTATT
1 AGCTTGTTATGAG-TTGTTATTAGTTTGTTA-T
*
42466 AGCTTGTTATTAGTTGTTATTAGTTTGTTAT
1 AGCTTGTTATGAGTTGTTATTAGTTTGTTAT
42497 AG-TTGTT
1 AGCTTGTT
42504 GGTTATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.15
31 18 0.53
32 11 0.32
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (31 bp):
AGCTTGTTATGAGTTGTTATTAGTTTGTTAT
Found at i:42474 original size:11 final size:10
Alignment explanation
Indices: 42458--42503 Score: 67
Period size: 11 Copynumber: 4.5 Consensus size: 10
42448 TTGTTATGGT
42458 TTGTTATTAG
1 TTGTTATTAG
42468 CTTGTTATTAG
1 -TTGTTATTAG
42479 TTGTTATTAG
1 TTGTTATTAG
42489 TTTGTTA-TAG
1 -TTGTTATTAG
42499 TTGTT
1 TTGTT
42504 GGTTATTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.17, C:0.02, G:0.20, T:0.61
Consensus pattern (10 bp):
TTGTTATTAG
Found at i:42499 original size:10 final size:11
Alignment explanation
Indices: 42445--42500 Score: 73
Period size: 10 Copynumber: 5.4 Consensus size: 11
42435 AGCTTGTTAG
42445 AGTTTGTTA-T
1 AGTTTGTTATT
*
42455 GGTTTGTTATT
1 AGTTTGTTATT
*
42466 AGCTTGTTATT
1 AGTTTGTTATT
42477 AG-TTGTTATT
1 AGTTTGTTATT
42487 AGTTTGTTA-T
1 AGTTTGTTATT
42497 AGTT
1 AGTT
42501 GTTGGTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
10 23 0.56
11 18 0.44
ACGTcount: A:0.18, C:0.02, G:0.21, T:0.59
Consensus pattern (11 bp):
AGTTTGTTATT
Found at i:42512 original size:20 final size:21
Alignment explanation
Indices: 42445--42503 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
42435 AGCTTGTTAG
*
42445 AGTTTGTTA-TGGTTTGTTATT
1 AGTTTGTTATTAG-TTGTTATT
*
42466 AGCTTGTTATTAGTTGTTATT
1 AGTTTGTTATTAGTTGTTATT
42487 AGTTTGTTA-TAGTTGTT
1 AGTTTGTTATTAGTTGTT
42504 GGTTATTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 24 0.71
22 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.22, T:0.59
Consensus pattern (21 bp):
AGTTTGTTATTAGTTGTTATT
Found at i:44473 original size:11 final size:10
Alignment explanation
Indices: 44457--44500 Score: 65
Period size: 9 Copynumber: 4.5 Consensus size: 10
44447 TTGTTATGGT
44457 TTGTTATTAG
1 TTGTTATTAG
44467 CTTGTTATTAG
1 -TTGTTATTAG
44478 TTGTTA-TAG
1 TTGTTATTAG
44487 TTGTTA-TAG
1 TTGTTATTAG
44496 TTGTT
1 TTGTT
44501 GGTTACTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 17 0.52
10 6 0.18
11 10 0.30
ACGTcount: A:0.18, C:0.02, G:0.20, T:0.59
Consensus pattern (10 bp):
TTGTTATTAG
Found at i:44489 original size:9 final size:9
Alignment explanation
Indices: 44447--44500 Score: 63
Period size: 9 Copynumber: 5.6 Consensus size: 9
44437 ATGTTAGAGT
*
44447 TTGTTATGG
1 TTGTTATAG
44456 TTTGTTATTAG
1 -TTGTTA-TAG
44467 CTTGTTATTAG
1 -TTGTTA-TAG
44478 TTGTTATAG
1 TTGTTATAG
44487 TTGTTATAG
1 TTGTTATAG
44496 TTGTT
1 TTGTT
44501 GGTTACTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.41
10 12 0.29
11 12 0.29
ACGTcount: A:0.17, C:0.02, G:0.22, T:0.59
Consensus pattern (9 bp):
TTGTTATAG
Found at i:44498 original size:18 final size:20
Alignment explanation
Indices: 44447--44500 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
44437 ATGTTAGAGT
*
44447 TTGTTATGGTTTGTTATTAGC
1 TTGTTATAG-TTGTTATTAGC
44468 TTGTTATTAGTTGTTA-TAG-
1 TTGTTA-TAGTTGTTATTAGC
44487 TTGTTATAGTTGTT
1 TTGTTATAGTTGTT
44501 GGTTACTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 3 0.10
21 12 0.39
22 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.22, T:0.59
Consensus pattern (20 bp):
TTGTTATAGTTGTTATTAGC
Found at i:47448 original size:60 final size:60
Alignment explanation
Indices: 47337--47473 Score: 141
Period size: 60 Copynumber: 2.3 Consensus size: 60
47327 AAAAGTTTGG
* * * *
47337 GGACTAATTTAGAATGTGGGTCATAGTTTGAGGATGAAATTGAAATGTTCAAATGTCCAA
1 GGACTAATTTAGAATGAGGATCATAGTTTGAGGATAAAATTGAAATATTCAAATGTCCAA
* * * * * **
47397 GGACTAGTTTAGAATGAGTATCATAGTTTTATGATAAAATT-AGAATATTCAAAAGTTTAA
1 GGACTAATTTAGAATGAGGATCATAGTTTGAGGATAAAATTGA-AATATTCAAATGTCCAA
* *
47457 GGACCAATTTAAAATGA
1 GGACTAATTTAGAATGA
47474 AAATTATAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
59 1 0.02
60 61 0.98
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (60 bp):
GGACTAATTTAGAATGAGGATCATAGTTTGAGGATAAAATTGAAATATTCAAATGTCCAA
Found at i:50506 original size:21 final size:21
Alignment explanation
Indices: 50482--50521 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50472 ATTATTAATC
50482 GATTAAAAAAAGTTT-AAAACA
1 GATTAAAAAAA-TTTGAAAACA
*
50503 GATTAAGAAAATTTGAAAA
1 GATTAAAAAAATTTGAAAA
50522 ATGATATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (21 bp):
GATTAAAAAAATTTGAAAACA
Found at i:50770 original size:22 final size:22
Alignment explanation
Indices: 50735--50779 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
50725 ATATTTTTTT
*
50735 GGCGTATTGCTTGGGATCTCCC
1 GGCGTATTGCTTGGAATCTCCC
* *
50757 GGCGTCTTGTTTGGAATCTCCC
1 GGCGTATTGCTTGGAATCTCCC
50779 G
1 G
50780 ACGTTTTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.27, G:0.31, T:0.33
Consensus pattern (22 bp):
GGCGTATTGCTTGGAATCTCCC
Found at i:50952 original size:20 final size:19
Alignment explanation
Indices: 50911--50955 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
50901 GTTTAAGAAT
50911 ATTTTACGAATCTAGCAAA
1 ATTTTACGAATCTAGCAAA
50930 ATTTTACGAATCTAGCAAA
1 ATTTTACGAATCTAGCAAA
*
50949 AATTTAC
1 ATTTTAC
50956 TTAGTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (19 bp):
ATTTTACGAATCTAGCAAA
Found at i:51680 original size:22 final size:22
Alignment explanation
Indices: 51652--51702 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
51642 ACAACACCCT
*
51652 CAAGACGTTGGGAGATTCCAAA
1 CAAGACGTTGGGAGATCCCAAA
*
51674 CAAGACG-TGGGAGATCCCAAG
1 CAAGACGTTGGGAGATCCCAAA
51695 CAAGACGT
1 CAAGACGT
51703 CAAAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.14
Consensus pattern (22 bp):
CAAGACGTTGGGAGATCCCAAA
Found at i:63003 original size:87 final size:89
Alignment explanation
Indices: 62898--63148 Score: 330
Period size: 87 Copynumber: 2.8 Consensus size: 89
62888 TATAATGTTA
**
62898 TAGGAATGTGAATA-AGAAAGCTCCTTACGAGAATGAAAATGCAGTAATCATAAAATACTGTTGA
1 TAGGAATGTGAA-AGAGAAAGC-CCTTATAAGAATGAAAATGCAGTAATCATAAAATACTGTTGA
62962 GAAATATGAAAG-AA-AC-GAGAATC
64 GAAATATGAAAGAAACACGGAGAATC
*
62985 TAGGAATGTGAAAGAGAAAGCACTTTATAAGAATGAAAATGCAGTAATCATAAAATACTGTTGAG
1 TAGGAATGTGAAAGAGAAAGC-CCTTATAAGAATGAAAATGCAGTAATCATAAAATACTGTTGAG
63050 AAATATGAAAGAAACAAGCACGGAGAATC
65 AAATATGAAAG--A-AA-CACGGAGAATC
* * * **
63079 TAGGAATGCGAATGAGAAAGCACTGTATAAGAATGAAAATGCAGTAAAAATAAAATACTGTTGAG
1 TAGGAATGTGAAAGAGAAAGCCCT-TATAAGAATGAAAATGCAGTAATCATAAAATACTGTTGAG
63144 AAATA
65 AAATA
63149 CAAAAGGAAC
Statistics
Matches: 145, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
86 1 0.01
87 70 0.48
91 2 0.01
93 3 0.02
94 69 0.48
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (89 bp):
TAGGAATGTGAAAGAGAAAGCCCTTATAAGAATGAAAATGCAGTAATCATAAAATACTGTTGAGA
AATATGAAAGAAACACGGAGAATC
Found at i:65710 original size:23 final size:23
Alignment explanation
Indices: 65638--65702 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
65628 AATAACATAT
65638 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
65661 TAGGCAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
65684 TAGGTAGCGCTTATATAAT
1 TAGGTAGCGCTTATATAAT
65703 AAAATAGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:65795 original size:23 final size:23
Alignment explanation
Indices: 65748--65797 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
65738 AATAACATAT
**
65748 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
*
65771 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
65794 TAGG
1 TAGG
65798 CATTTAACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:65871 original size:86 final size:87
Alignment explanation
Indices: 65670--65872 Score: 327
Period size: 86 Copynumber: 2.3 Consensus size: 87
65660 ATAGGCAGCG
* *
65670 CTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGCATTTAACCGGAAATATTATCAAG
1 CTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGGCATTTAACCGAAAATATTATCAAG
* *
65735 TACAATAACATATTAGGTAGCG
66 TACAATAACATATTAGGTAACA
* *
65757 CTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAGGCATTTAA-CGAAAATATTATCAAG
1 CTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGGCATTTAACCGAAAATATTATCAAG
*
65821 TATAATAACATATTAGGTAACA
66 TACAATAACATATTAGGTAACA
*
65843 CTTGTACAATGTAATAGGTAGCGCTTATAT
1 CTTATACAATGTAATAGGTAGCGCTTATAT
65873 TGACCTATTT
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 61 0.56
87 47 0.44
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (87 bp):
CTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGGCATTTAACCGAAAATATTATCAAG
TACAATAACATATTAGGTAACA
Found at i:66600 original size:180 final size:178
Alignment explanation
Indices: 66292--66859 Score: 699
Period size: 200 Copynumber: 3.1 Consensus size: 178
66282 TTATAAATGT
* *
66292 ATCGAAACTTTGTTGTGCACTTGG-TTTTAAAATACAATCTGGACAAGATGTATCGACACTATTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * * * * *
66356 TTATTTATGTCGATACTTTTTGTACACCTATTTTCTAAAAAACTGATATATTTATACTGGTTACA
66 TTATTTGTGTCGATATTTTTTGTACACATATTTTCTAAAAATC-GGTATATTTAGACCGGTTACA
66421 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGG
130 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGG
66470 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTT
*
66535 TTTATTTGTGTCGATATTTTTTGTACACTTATTTTCTCAAAAATCGGTATATTTAGACCGGTTAC
65 TTTATTTGTGTCGATATTTTTTGTACACATATTTTCT-AAAAATCGGTATATTTAGACCGGTTAC
**
66600 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAA
129 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGG
* *
66650 ATCGACACTTGTTTTAAACGTATCGACATTTTGTTGTGCACTTGGTTTTTAAGATACAATATGGA
1 ATCGACAC------T-----T-T-G-----TT---GTGCACTTGGTTTTTAAAATACAATCTGGA
* * *
66715 CAAAATGTATCGACACTTATTTTATTTGTGTCGATATTTGTTT-TACACATGTTTTCTAAAAAAT
45 CAAGATGTATCGACACTTTTTTTATTTGTGTCGATATTT-TTTGTACACATATTTTCT-AAAAAT
** * *
66779 CGGTATATTTAGACCAATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCAATGTT
108 CGGTATATTTAGACCGGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTT
66844 TTCGGG
173 TTCGGG
66850 ATCGACACTT
1 ATCGACACTT
66860 GTTTTAAACG
Statistics
Matches: 341, Mismatches: 24, Indels: 39
0.84 0.06 0.10
Matches are distributed among these distances:
178 23 0.07
179 35 0.10
180 110 0.32
181 6 0.02
186 1 0.00
189 1 0.00
191 1 0.00
192 1 0.00
193 1 0.00
194 1 0.00
198 2 0.01
200 113 0.33
201 46 0.13
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (178 bp):
ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
TTATTTGTGTCGATATTTTTTGTACACATATTTTCTAAAAATCGGTATATTTAGACCGGTTACAT
TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGG
Found at i:66804 original size:200 final size:198
Alignment explanation
Indices: 66470--69745 Score: 4143
Period size: 200 Copynumber: 16.6 Consensus size: 198
66460 TGTTTTCGGG
66470 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTT
* * *
66535 TTTATTTGTGTCGATATTTTTTGTACACTTATTTTCTCAAAAATCGGTATATTTAGACCGGTTAC
65 TTTATTTGTGTCGATATTTTTT-TACACATGTTTTCTCAAAAA-CGGTATATTTAGACCAGTTAC
**
66600 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTT
128 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
66665 AAACGT
193 AAACGT
* * * * *
66671 ATCGACATTTTGTTGTGCACTTGGTTTTTAAGATACAATATGGACAAAATGTATCGACACTTATT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* *
66736 TTATTTGTGTCGATATTTGTTTTACACATGTTTTCTAAAAAATCGGTATATTTAGACCAATTACA
66 TTATTTGTGTCGATATTT-TTTTACACATGTTTTCTCAAAAA-CGGTATATTTAGACCAGTTACA
* *
66801 TTAATAATTTACATATTACATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
66866 AACGT
194 AACGT
*
66871 ATCGACACTTTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * *
66936 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCAATTACA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAA-CGGTATATTTAGACCAGTTACA
* * *
67001 TTAATAATTTGCCTATTACATTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
67066 AACGT
194 AACGT
* * * * *
67071 ATCGAAACTTTGTTGTGCACTTAGTTTTTAAAATACAATCTGGAAAAGATGTATCGATACCTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * * *
67136 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTATACCGGTTACA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAA-CGGTATATTTAGACCAGTTACA
* * *
67201 TTAATAATTTATCTATTACATTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
67266 AACGT
194 AACGT
* * *
67271 ATCAAAATTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * ***
67336 TTATTTGTGTGGATACTTTTTGTACACATGTTTTCTCAAAAACTGGTATATTTATATTGGTTACA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAAC-GGTATATTTAGACCAGTTACA
* *
67401 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGTATCGACA-TTTTATTG
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGT-TT-
**
67465 TGCACTTGGT
192 TAAAC---GT
* ** * * **** * * ** * ** ** *** * * * * *
67475 TTTTAAAATACAATCTGGACAAGATATATCGACACTTTTTTTATCTGTGTCGATACT-TTTTGTA
1 ATCGACACTTTGTTGTGCACTTGGT-T-TTTA-A--AATACAATCTG-GACAAGA-TGTATCG-A
***** * * * * * **
67539 CACTTATTTTCTA-AAAAATCGGTA--TATTTAGAC-CG-TTT-ACATTAA---TA-ATTT--AC
58 CACTT-TTTT-TATTTGTGTCGATATTTTTTTACACATGTTTTCTCAAAAACGGTATATTTAGAC
**
67592 CTA-TTACATT-ATAA--T---T--------------ATGTTTTTCGATGTTTTCGAAATCGACA
121 C-AGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACA
67636 CTTGTTTTAAACGT
185 CTTGTTTTAAACGT
* * * * *
67650 ATCGACACTTTGTTTTGCACTTGGTTTTTAAGATACAATCTGGACAAAATATATCGACACTTGTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
67715 TTATTTGTGTCGATACTTGTTTTACACTTGTTTTCTCAAAAATCGGTATATTTAGACCAATTACA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAA-CGGTATATTTAGACCAGTTACA
67780 TTAATAATTTACCTATTACATTATAATTATGTTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
129 TTAATAATTTACCTATTACATTATAATTATG-TTTTTCGATGTTTTCGGGATCGACACTTGTTTT
67845 AAACGT
193 AAACGT
* * * *
67851 ATCGACACTTTGTAGTGTACTTAGTTTTTAAAATACAATCTGTACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * * *
67916 TTATTTGTCTCGATACTTTTGTACACATGTTTTCTCAAAAACTAGTATATTTAGACCAATTACAT
66 TTATTTGTGTCGATATTTTTTTACACATGTTTTCTCAAAAAC-GGTATATTTAGACCAGTTACAT
*
67981 TAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
130 TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
68046 ACGT
195 ACGT
*
68050 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACTCTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * * *
68115 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAGCCGATATATTTAGACCGGTTATA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAA-ACGGTATATTTAGACCAGTTACA
* *
68180 TTAATAATTTGCCTATTACATTATAATTATGTTTTTCGATGTTTTCGAGATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
*
68245 AACAT
194 AACGT
* *
68250 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATGCAATCTAGACAAGATGTATCGACA-TTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* *
68314 TTATTTGTGTCGATACTTTTTTTACACCTG--TT-T---GAA----A-A---AG----GTTACAT
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAACGGTATATTTAGACCAGTTACAT
68361 TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
130 TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
68426 ACGT
195 ACGT
* * * *
68430 ATCAACACTTTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAAATGTATCGACACTTGTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
68495 TTATTTGTGTCGATACTTGTTTTACATATGTTTTCTCAAAAACTGGTATATTTAGACCGGTTACA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAAC-GGTATATTTAGACCAGTTACA
* * * *
68560 TTAATAATTTATCTATTTCATTATAATTATTTTTTTTGATGTTTTCGGGATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
*
68625 AATGT
194 AACGT
68630 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* *
68695 TTATTTCTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCAGTTACA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAA-CGGTATATTTAGACCAGTTACA
* *
68760 TTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
68825 AACGT
194 AACGT
*
68830 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATATATCGACAC-TTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * **
68894 TTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACAGGTATATTT-GAAAAAGGTTA
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAAC-GGTATATTTAG-ACCA-GTTA
68958 CATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTT
127 CATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTT
69023 TAAACGT
192 TAAACGT
* * * *
69030 ATCGACACTTTGTTATCCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACACTTGTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
69095 TTATTTGTGTCGATACTTGTTTTACACATGTTTTCTCGAAAACATGTATATTTAGACC-GATTAC
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAAC-GGTATATTTAGACCAG-TTAC
* *
69159 ATTAATAATTTACCTATTACATTATAATTAT-ATTTTCGATATTTTCGGGATCGACACTTGTTTT
128 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
69223 AAACGT
193 AAACGT
* *
69229 ATCGACACTTTGTTGTGCACTTGTTTTTTAAAATACAATCTGGACAAGATGTATCGATACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
*
69294 TTATTTGTGTCGATATTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTAGACCAGTTACA
66 TTATTTGTGTCGATATTTTTT-TACACATGTTTTCTCAAAAAC-GGTATATTTAGACCAGTTACA
* **
69359 TTAATAATTTACTTATTACATTATAATTATGTTTTTCGATGTTTTCGATATCGACACTTGTTTTA
129 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
*
69424 AATGT
194 AACGT
* *
69429 ATCGTCACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATTGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * *
69494 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTTA-ACCGGTTAC
66 TTATTTGTGTCGATA-TTTTTTTACACATGTTTTCTCAAAAA-CGGTATA-TTTAGACCAGTTAC
*
69558 ATTAATAATTTACCTATTACATTATAATTACGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
128 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
*
69623 AAATGT
193 AAACGT
*
69629 ATTGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * *
69693 TTATTTGTGTCGATTTTTTTTGTACACCTGTTTTCTAAAAAACCGGCATATTT
66 TTATTTGTGTCGATATTTTTT-TACACATGTTTTCTCAAAAA-CGGTATATTT
69746 GAAAAAGGTA
Statistics
Matches: 2701, Mismatches: 280, Indels: 191
0.85 0.09 0.06
Matches are distributed among these distances:
166 2 0.00
167 8 0.00
168 7 0.00
169 7 0.00
170 12 0.00
171 1 0.00
172 4 0.00
173 6 0.00
174 1 0.00
175 13 0.00
177 2 0.00
178 7 0.00
179 29 0.01
180 139 0.05
181 35 0.01
183 3 0.00
184 3 0.00
186 1 0.00
187 3 0.00
188 1 0.00
192 1 0.00
193 3 0.00
196 4 0.00
197 2 0.00
198 19 0.01
199 435 0.16
200 1648 0.61
201 240 0.09
202 3 0.00
204 14 0.01
205 1 0.00
206 6 0.00
207 4 0.00
208 1 0.00
209 12 0.00
210 7 0.00
211 7 0.00
212 8 0.00
213 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (198 bp):
ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
TTATTTGTGTCGATATTTTTTTACACATGTTTTCTCAAAAACGGTATATTTAGACCAGTTACATT
AATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAA
CGT
Found at i:67018 original size:400 final size:400
Alignment explanation
Indices: 66470--69745 Score: 4862
Period size: 400 Copynumber: 8.3 Consensus size: 400
66460 TGTTTTCGGG
66470 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTT
* * * * *
66535 TTTATTTGTGTCGATATTTTTTGTACACTTATTTTCTCAAAAATCGGTATATTTAGACCGGTTAC
65 TTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTAC
**
66600 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTT
130 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
* * * *
66665 AAACGTATCGACATTTTGTTGTGCACTTGGTTTTTAAGATACAATATGGACAAAATGTATCGACA
195 AAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACA
* * *
66730 CTTATTTTATTTGTGTCGATA-TTTGTTTTACACATGTTTTCTAAAAAATCGGTATATTTAGACC
260 CTTTTTTTATTTGTGTCGATACTTT-TTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACC
* * *
66794 AATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACT
324 GATTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
66859 TGTTTTAAACGT
389 TGTTTTAAACGT
*
66871 ATCGACACTTTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
66936 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCAATTACA
66 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTACA
* * *
67001 TTAATAATTTGCCTATTACATTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTA
131 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
* * * *
67066 AACGTATCGAAACTTTGTTGTGCACTTAGTTTTTAAAATACAATCTGGAAAAGATGTATCGATAC
196 AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
* * * * *
67131 CTTTTTTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTATACCGG
261 TTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGA
* * *
67196 TTACATTAATAATTTATCTATTACATTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTG
326 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTG
67261 TTTTAAACGT
391 TTTTAAACGT
* * *
67271 ATCAAAATTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * ***
67336 TTATTTGTGTGGATACTTTTTGTACACATGTTTTCTCAAAAACTGGTATATTTATATTGGTTACA
66 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTACA
*
67401 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGTATCGACA------TT-
131 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
*
67459 ----T-T----A-----TTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATATATCGACAC
196 AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
* * * * *
67510 TTTTTTTATCTGTGTCGATACTTTTTGTACACTTATTTTCTAAAAAATCGGTATATTTAGACCGT
261 TTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGA
**
67575 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCGACACTTG
326 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTG
67640 TTTTAAACGT
391 TTTTAAACGT
* * * * *
67650 ATCGACACTTTGTTTTGCACTTGGTTTTTAAGATACAATCTGGACAAAATATATCGACACTTGTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
67715 TTATTTGTGTCGATACTTGTTT-TACACTTGTTTTCTCAAAAATCGGTATATTTAGACCAATTAC
66 TTATTTGTGTCGATACTT-TTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTAC
67779 ATTAATAATTTACCTATTACATTATAATTATGTTTTTTCGATGTTTTCGGGATCGACACTTGTTT
130 ATTAATAATTTACCTATTACATTATAATTATG-TTTTTCGATGTTTTCGGGATCGACACTTGTTT
* * * *
67844 TAAACGTATCGACACTTTGTAGTGTACTTAGTTTTTAAAATACAATCTGTACAAGATGTATCGAC
194 TAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGAC
* *
67909 ACTTTTTTTATTTGTCTCGATAC-TTTTGTACACATGTTTTCTCAAAAA-CTAGTATATTTAGAC
259 ACTTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATC-GGTATATTTAGAC
* *
67972 CAATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACAC
323 CGATTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACAC
68037 TTGTTTTAAACGT
388 TTGTTTTAAACGT
*
68050 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACTCTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * * *
68115 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAGCCGATATATTTAGACCGGTTATA
66 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTACA
* *
68180 TTAATAATTTGCCTATTACATTATAATTATGTTTTTCGATGTTTTCGAGATCGACACTTGTTTTA
131 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
* * *
68245 AACATATCGACACTTTGTTGTGCACTTGGTTTTTAAAATGCAATCTAGACAAGATGTATCGACA-
196 AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
* * *
68309 TTTTTTTATTTGTGTCGATACTTTTTTTACACCTG--TT-T---GAA-----A-A---AG---G-
261 TTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGA
68355 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTG
326 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTG
68420 TTTTAAACGT
391 TTTTAAACGT
* * * *
68430 ATCAACACTTTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAAATGTATCGACACTTGTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
68495 TTATTTGTGTCGATACTTGTTT-TACATATGTTTTCTCAAAAACTGGTATATTTAGACCGGTTAC
66 TTATTTGTGTCGATACTT-TTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTAC
* * * *
68559 ATTAATAATTTATCTATTTCATTATAATTATTTTTTTTGATGTTTTCGGGATCGACACTTGTTTT
130 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
*
68624 AAATGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACA
195 AAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACA
*
68689 CTTTTTTTATTTCTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACC-
260 CTTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCG
* *
68753 AGTTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTTGGGATCGACACT
325 A-TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
68818 TGTTTTAAACGT
389 TGTTTTAAACGT
*
68830 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATATATCGACAC-TTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * **
68894 TTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACAGGTATATTT-GAAAAAGGTTA
66 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAG-ACCA-GTTA
68958 CATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTT
129 CATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTT
* * *
69023 TAAACGTATCGACACTTTGTTATCCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGAC
194 TAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGAC
*
69088 ACTTGTTTTATTTGTGTCGATACTTGTTT-TACACATGTTTTCTCGAAAACAT--GTATATTTAG
259 ACTTTTTTTATTTGTGTCGATACTT-TTTGTACACATGTTTTCTC-AAAA-ATCGGTATATTTAG
* *
69150 ACCGATTACATTAATAATTTACCTATTACATTATAATTAT-ATTTTCGATATTTTCGGGATCGAC
321 ACCGATTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGAC
69214 ACTTGTTTTAAACGT
386 ACTTGTTTTAAACGT
* *
69229 ATCGACACTTTGTTGTGCACTTGTTTTTTAAAATACAATCTGGACAAGATGTATCGATACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
69294 TTATTTGTGTCGATATTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTAGACCAGTTACA
66 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTACA
* **
69359 TTAATAATTTACTTATTACATTATAATTATGTTTTTCGATGTTTTCGATATCGACACTTGTTTTA
131 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
* * *
69424 AATGTATCGTCACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATTGACAC
196 AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
* * *
69489 TTTTTTTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTTA-ACCG
261 TTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATA-TTTAGACCG
* *
69553 GTTACATTAATAATTTACCTATTACATTATAATTACGTTTTTCGATGTTTTCGGGATCGACACTT
325 ATTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTT
*
69618 GTTTTAAATGT
390 GTTTTAAACGT
*
69629 ATTGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
** * * *
69693 TTATTTGTGTCGATTTTTTTTGTACACCTGTTTTCTAAAAAACCGGCATATTT
66 TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTT
69746 GAAAAAGGTA
Statistics
Matches: 2603, Mismatches: 209, Indels: 128
0.89 0.07 0.04
Matches are distributed among these distances:
379 315 0.12
380 336 0.13
381 35 0.01
383 2 0.00
384 4 0.00
386 2 0.00
387 3 0.00
388 2 0.00
389 1 0.00
391 1 0.00
392 2 0.00
393 3 0.00
394 2 0.00
396 4 0.00
397 3 0.00
398 31 0.01
399 504 0.19
400 1218 0.47
401 133 0.05
402 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (400 bp):
ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
TTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTACA
TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
TTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGA
TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTG
TTTTAAACGT
Found at i:67266 original size:600 final size:599
Alignment explanation
Indices: 66470--69745 Score: 4923
Period size: 600 Copynumber: 5.5 Consensus size: 599
66460 TGTTTTCGGG
66470 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC--TTT
* *
66535 TTTATTTGTGTCGATATTTTTTGTACACTTATTTTCTCAAAAATCGGTATATTTAGACCGGTTAC
64 TTTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTAC
**
66600 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTT
129 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
* * *
66665 AAACGTATCGACATTTTGTTGTGCACTTGGTTTTTAAGATACAATATGGACAAAATGTATCGACA
194 AAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACA
* *
66730 CTTATTTTATTTGTGTCGATATTTGTTTTACACATGTTTTCTAAAAAA-TCGGTATATTTAGACC
259 CTTGTTTTATTTGTGTCGATACTTGTTTTACACATGTTTTCTAAAAAACT-GGTATATTTAGACC
* *
66794 AATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACT
323 GATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
*
66859 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAGATGTA
388 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTA
*
66924 TCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTT
453 TCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATATTTTCTCAAAAACCGGTATATTT
* * *
66989 AGACCAATTACATTAATAATTTGCCTATTACATTATAATTATGTTTTTCGATATTTTCGGAATCG
518 AGACCAGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGAATCG
67054 ACACTTGTTTTAAACGT
583 ACACTTGTTTTAAACGT
* * * *
67071 ATCGAAACTTTGTTGTGCACTTAGTTTTTAAAATACAATCTGGAAAAGATGTATCGATACCTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACA-CTTTT
*
67136 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTATACCGGTTACA
65 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACA
* * *
67201 TTAATAATTTATCTATTACATTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTA
130 TTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
* * * *
67266 AACGTATCAAAATTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
195 AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACAC
* * * * **
67331 TTTTTTTATTTGTGTGGATACTT-TTTGTACACATGTTTTCTCAAAAACTGGTATATTTATATTG
260 TTGTTTTATTTGTGTCGATACTTGTTT-TACACATGTTTTCTAAAAAACTGGTATATTTAGACCG
* * *
67395 GTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGTATCGACA---
324 ATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTT
*
67457 ---TT-----T-T----A-----TTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATATAT
389 GTTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTAT
* * * *
67504 CGACACTTTTTTTATCTGTGTCGATACTTTTTGTACACTTATTTTCTAAAAAATCGGTATATTTA
454 CGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATATTTTCTCAAAAACCGGTATATTTA
*
67569 GACC-GTTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCG
519 GACCAG-TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGAATCG
67633 ACACTTGTTTTAAACGT
583 ACACTTGTTTTAAACGT
* * * *
67650 ATCGACACTTTGTTTTGCACTTGGTTTTTAAGATACAATCTGGACAAAATATATCGACACTTGTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTT-TT
* * **
67715 TTATTTGTGTCGATACTTGTTT-TACACTTGTTTTCTCAAAAATCGGTATATTTAGACCAATTAC
65 TTATTTGTGTCGATACTT-TTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTAC
67779 ATTAATAATTTACCTATTACATTATAATTATGTTTTTTCGATGTTTTCGGGATCGACACTTGTTT
129 ATTAATAATTTACCTATTACATTATAATTATG-TTTTTCGATGTTTTCGGGATCGACACTTGTTT
* * * * *
67844 TAAACGTATCGACACTTTGTAGTGTACTTAGTTTTTAAAATACAATCTGTACAAGATGTATCGAC
193 TAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGAC
* * * * *
67909 ACTTTTTTTATTTGTCTCGATACTT-TTGTACACATGTTTTCTCAAAAACTAGTATATTTAGACC
258 ACTTGTTTTATTTGTGTCGATACTTGTTTTACACATGTTTTCTAAAAAACTGGTATATTTAGACC
*
67973 AATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
323 GATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
68038 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTA
388 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTA
* * * *
68103 TCGACTCTTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAGCCGATATATTT
453 TCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATATTTTCTCAAAAACCGGTATATTT
* * *
68168 AGACCGGTTATATTAATAATTTGCCTATTACATTATAATTATGTTTTTCGATGTTTTC-GAGATC
518 AGACCAGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGA-ATC
*
68232 GACACTTGTTTTAAACAT
582 GACACTTGTTTTAAACGT
* * *
68250 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATGCAATCTAGACAAGATGTATCGACATTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * *
68315 TATTTGTGTCGATACTTTTTTTACACC---TGT-T------T--G-A-A---A-A-AGGTTACAT
66 TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACAT
68361 TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
131 TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
* *
68426 ACGTATCAACACTTTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAAATGTATCGACACT
196 ACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACACT
* * *
68491 TGTTTTATTTGTGTCGATACTTGTTTTACATATGTTTTCTCAAAAACTGGTATATTTAGACCGGT
261 TGTTTTATTTGTGTCGATACTTGTTTTACACATGTTTTCTAAAAAACTGGTATATTTAGACCGAT
* * *
68556 TACATTAATAATTTATC-TATTTCATTATAATTATTTTTTTTGATGTTTTCGGGATCGACACTTG
326 TACATTAATAATTTA-CATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTG
*
68620 TTTTAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATC
390 TTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATC
* * *
68685 GACACTTTTTTTATTTCTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAG
455 GACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATATTTTCTCAAAAACCGGTATATTTAG
* * *
68750 ACCAGTTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTTGGGATCGAC
520 ACCAGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGAATCGAC
68815 ACTTGTTTTAAACGT
585 ACTTGTTTTAAACGT
*
68830 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATATATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* * **
68895 TATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAA-CAGGTATATTTGAAAAAGGTTAC
66 TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATC-GGTATATTT-AGACCGGTTAC
68959 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
129 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
* *
69024 AAACGTATCGACACTTTGTTATCCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACA
194 AAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACA
**
69089 CTTGTTTTATTTGTGTCGATACTTGTTTTACACATGTTTTCTCGAAAACAT-GTATATTTAGACC
259 CTTGTTTTATTTGTGTCGATACTTGTTTTACACATGTTTTCTAAAAAAC-TGGTATATTTAGACC
* * *
69153 GATTACATTAATAATTTACCTATTACATTATAATTAT-ATTTTCGATATTTTCGGGATCGACACT
323 GATTACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
*
69217 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGTTTTTTAAAATACAATCTGGACAAGATGTA
388 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTA
* * *
69282 TCGATACTTTTTTTATTTGTGTCGATATTTTTTGTACACATATTTTCTCAAAAACTGGTATATTT
453 TCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATATTTTCTCAAAAACCGGTATATTT
*
69347 AGACCAGTTACATTAATAATTTACTTATTACATTATAATTATGTTTTTCGATGTTTTC-GATATC
518 AGACCAGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGA-ATC
*
69411 GACACTTGTTTTAAATGT
582 GACACTTGTTTTAAACGT
* *
69429 ATCGTCACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATTGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTT
*
69494 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTTA-ACCGGTTAC
65 TTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATA-TTTAGACCGGTTAC
*
69558 ATTAATAATTTACCTATTACATTATAATTACGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
129 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
* * *
69623 AAATGTATTGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACA
194 AAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACA
* * * * *
69688 CTT-TTTTATTTGTGTCGAT-TTTTTTTGTACACCTGTTTTCTAAAAAACCGGCATATTT
259 CTTGTTTTATTTGTGTCGATACTTGTTT-TACACATGTTTTCTAAAAAACTGGTATATTT
69746 GAAAAAGGTA
Statistics
Matches: 2438, Mismatches: 174, Indels: 129
0.89 0.06 0.05
Matches are distributed among these distances:
578 3 0.00
579 520 0.21
580 530 0.22
581 3 0.00
582 1 0.00
583 2 0.00
584 2 0.00
585 3 0.00
586 1 0.00
587 1 0.00
588 1 0.00
589 2 0.00
590 1 0.00
591 1 0.00
592 1 0.00
593 1 0.00
594 3 0.00
595 2 0.00
596 2 0.00
597 5 0.00
598 46 0.02
599 444 0.18
600 800 0.33
601 62 0.03
602 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (599 bp):
ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACAT
TAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
ACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACACT
TGTTTTATTTGTGTCGATACTTGTTTTACACATGTTTTCTAAAAAACTGGTATATTTAGACCGAT
TACATTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGT
TTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCG
ACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATATTTTCTCAAAAACCGGTATATTTAGA
CCAGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGAATCGACA
CTTGTTTTAAACGT
Found at i:68139 original size:979 final size:981
Alignment explanation
Indices: 66242--69745 Score: 5104
Period size: 979 Copynumber: 3.6 Consensus size: 981
66232 AGACATTTGG
* * * * *
66242 TTATAATTATATTTTTCGATATTGTT-GGGATCGACAATTGTTATAAATGTATCGAAACTTTGTT
1 TTATAATTATGTTTTTCGATATT-TTCGGAATCGACACTTGTTTTAAACGTATCGAAACTTTGTT
* *
66306 GTGCACTTGG-TTTTAAAATACAATCTGGACAAGATGTATCGACACTATTTTTATTTATGTCGAT
65 GTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGAT
* * *
66370 ACTTTTTGTACACCTATTTTCTAAAAAACTGATATATTTATACTGGTTACATTAATAATTTACCT
130 ACTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTATACTGGTTACATTAATAATTTACCT
* *
66435 ATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT-T-T--GTTGTGCACTTGGTT
195 ATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTATATCATTTGTGCACTTGGTT
*
66496 TTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTGTCGATATTTTTTGTAC
260 TTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTTTTTATTTGTGTCGATACTTTTTGTAC
66561 ACTTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCTATTACATTATA
324 ACTTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCTATTACATTATA
*
66626 ATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTATCGACATTTTGTTGTGCAC
389 ATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTATCGACACTTTGTTGTGCAC
* * *
66691 TTGGTTTTTAAGATACAATATGGACAAAATGTATCGACACTTATTTTATTTGTGTCGATATTTGT
454 TTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACACTT-TTTTATTTGTGTCGATACTTGT
66756 TT-TACACATGTTTTCTAAAAAATCGGTATATTTAGACCAATTACATTAATAATTTACATATTAC
518 TTGTACACATGTTTTCTAAAAAATCGGTATATTTAGACCAATTACATTAATAATTTACATATTAC
*
66820 ATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTT
583 ATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTT
66885 GTGCACTTGATTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGAT
648 GTGCACTTG-TTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGAT
* * *
66950 ACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCAATTACATTAATAATTTGCCT
712 ACTTTTTGTACACCTGTTTTCTCAAAAA-CAGTATATTTAGACCAATTACATTAATAATTTACCT
* * *
67015 ATTACATTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTAAACGTATCGAAACT
776 ATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACT
* * *
67080 TTGTTGTGCACTTAGTTTTTAAAATACAATCTGGAAAAGATGTATCGA-TACCTTTTTTATTTGT
841 TTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACT-CTTTTTTTATTTGT
* * *
67144 GTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTATACCGGTTACATTAATAAT
905 GTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAAT
*
67209 TTATCTATTACA
970 TTACCTATTACA
* *
67221 TTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTAAACGTATCAAAATTTTGTTG
1 TTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTAAACGTATCGAAACTTTGTTG
*
67286 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTGGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* *
67351 CTTTTTGTACACATGTTTTCTCAAAAACTGGTATATTTATATTGGTTACATTAATAATTTACCTA
131 CTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTATACTGGTTACATTAATAATTTACCTA
*
67416 TTACATTATAATTATGTTTTTCGATGTTTTCGGTATCGACATT-T-T-A-TTGTGCACTTGGTTT
196 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTATATCATTTGTGCACTTGGTTT
* *
67477 TTAAAATACAATCTGGACAAGATATATCGACACTTTTTTTATCTGTGTCGATACTTTTTGTACAC
261 TTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACAC
* *
67542 TTATTTTCTAAAAAATCGGTATATTTAGACCGTTTACATTAATAATTTACCTATTACATTATAAT
326 TTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCTATTACATTATAAT
*
67607 TATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTATCGACACTTTGTTTTGCACTT
391 TATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTATCGACACTTTGTTGTGCACTT
* *
67672 GGTTTTTAAGATACAATCTGGACAAAATATATCGACACTTGTTTTATTTGTGTCGATACTTGTTT
456 GGTTTTTAAAATACAATCTGGACAAAATGTATCGACACTT-TTTTATTTGTGTCGATACTTGTTT
* * *
67737 -TACACTTGTTTTCTCAAAAATCGGTATATTTAGACCAATTACATTAATAATTTACCTATTACAT
520 GTACACATGTTTTCTAAAAAATCGGTATATTTAGACCAATTACATTAATAATTTACATATTACAT
*
67801 TATAATTATGTTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTAG
585 TATAATTATG-TTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTTG
* * *
67866 TGTACTTAGTTTTTAAAATACAATCTGTACAAGATGTATCGACACTTTTTTTATTTGTCTCGATA
649 TGCACTT-GTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* *
67931 C-TTTTGTACACATGTTTTCTCAAAAACTAGTATATTTAGACCAATTACATTAATAATTTACATA
713 CTTTTTGTACACCTGTTTTCTCAAAAAC-AGTATATTTAGACCAATTACATTAATAATTTACCTA
67995 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTT
777 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTT
68060 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACTCTTTTTTTATTTGTGT
842 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACTCTTTTTTTATTTGTGT
** * *
68125 CGATACTTTTTGTACACATGTTTTCTCAAAAGCCGATATATTTAGACCGGTTATATTAATAATTT
907 CGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTT
*
68190 GCCTATTACA
972 ACCTATTACA
* * *
68200 TTATAATTATGTTTTTCGATGTTTTC-GAGATCGACACTTGTTTTAAACATATCGACACTTTGTT
1 TTATAATTATGTTTTTCGATATTTTCGGA-ATCGACACTTGTTTTAAACGTATCGAAACTTTGTT
* *
68264 GTGCACTTGGTTTTTAAAATGCAATCTAGACAAGATGTATCGACA-TTTTTTTATTTGTGTCGAT
65 GTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGAT
* * * *
68328 ACTTTTTTTACAC---CTGT-T-------T-G-A-A---A-A-AGGTTACATTAATAATTTACCT
130 ACTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTATACTGGTTACATTAATAATTTACCT
68374 ATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCAACACT
195 ATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACA------TT--A--TAT---CA--
* * *
68439 TTGTTGTGCACTTGATTTTTAAAATACAATCTGGACAAAATGTATCGACACTTGTTTTATTTGTG
245 -T-TTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTG
*
68504 TCGATACTTGTTT-TACA-TATGTTTTCTCAAAAA-CTGGTATATTTAGACCGGTTACATTAATA
308 TCGATACTT-TTTGTACACT-TATTTTCTCAAAAATC-GGTATATTTAGACCGGTTACATTAATA
* * * * ** *
68566 ATTTATCTATTTCATTATAATTATTTTTTTTGATGTTTTCGGGATCGACACTTGTTTTAAATGTA
370 ATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTA
*
68631 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTT
435 TCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACAC-TTTTT
* * *
68696 TATTTCTGTCGATACTT-TTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCAGTTACA
499 TATTTGTGTCGATACTTGTTTGTACACATGTTTTCTAAAAAATCGGTATATTTAGACCAATTACA
*
68760 TTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTTTA
564 TTAATAATTTACATATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
*
68825 AACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATATATCGACAC
629 AACGTATCGACACTTTGTTGTGCACTT-GTTTTTAAAATACAATCTGGACAAGATGTATCGACAC
**
68890 -TTTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACAGGTATATTT-GAAAAA
693 TTTTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACA-GTATATTTAGACCAA
68953 GGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
757 --TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACT
* * *
69018 TGTTTTAAACGTATCGACACTTTGTTATCCACTTGGTTTTTAAAATACAATCTGGACAAAATGTA
820 TGTTTTAAACGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTA
* *
69083 TCGACACTTGTTTTATTTGTGTCGATACTTGTTT-TACACATGTTTTCTCGAAAACAT--GTATA
885 TCGACTCTTTTTTTATTTGTGTCGATACTT-TTTGTACACATGTTTTCTC-AAAA-ATCGGTATA
*
69145 TTTAGACCGATTACATTAATAATTTACCTATTACA
947 TTTAGACCGGTTACATTAATAATTTACCTATTACA
* * *
69180 TTATAATTAT-ATTTTCGATATTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTAAACGTATCGAAACTTTGTTG
* *
69244 TGCACTTGTTTTTTAAAATACAATCTGGACAAGATGTATCGATACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* * ** *
69309 TTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTAGACCAGTTACATTAATAATTTACTTA
131 CTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTATACTGGTTACATTAATAATTTACCTA
**
69374 TTACATTATAATTATGTTTTTCGATGTTTTCGATATCGACACTTGTTTTAAATGTATCGTCACTT
196 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACA------TT--A--TA---TCA---
*
69439 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATTGACACTTTTTTTATTTGTGT
245 T-TTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGT
* *
69504 CGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTTA-ACCGGTTACATTAATAATT
309 CGATACTTTTTGTACACTTATTTTCTCAAAAATCGGTATA-TTTAGACCGGTTACATTAATAATT
* ** * *
69568 TACCTATTACATTATAATTACGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATTG
373 TACCTATTACATTATAATTATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTATCG
*
69633 ACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTATT
438 ACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAAATGTATCGACACTTTTTTATT
* * * * *
69698 TGTGTCGAT-TTTTTTTGTACACCTGTTTTCTAAAAAACCGGCATATTT
503 TGTGTCGATACTTGTTTGTACACATGTTTTCTAAAAAATCGGTATATTT
69746 GAAAAAGGTA
Statistics
Matches: 2305, Mismatches: 150, Indels: 121
0.89 0.06 0.05
Matches are distributed among these distances:
959 62 0.03
960 1 0.00
961 1 0.00
964 1 0.00
965 3 0.00
966 1 0.00
967 1 0.00
970 1 0.00
971 1 0.00
974 1 0.00
975 3 0.00
978 59 0.03
979 914 0.40
980 871 0.38
981 13 0.01
983 2 0.00
984 1 0.00
991 1 0.00
992 1 0.00
993 1 0.00
994 1 0.00
997 3 0.00
998 52 0.02
999 304 0.13
1000 5 0.00
1002 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (981 bp):
TTATAATTATGTTTTTCGATATTTTCGGAATCGACACTTGTTTTAAACGTATCGAAACTTTGTTG
TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
CTTTTTGTACACATATTTTCTCAAAAACTGGTATATTTATACTGGTTACATTAATAATTTACCTA
TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTATATCATTTGTGCACTTGGTTT
TTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACAC
TTATTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCTATTACATTATAAT
TATGTTTTTCGATGTTTTCGAAATCGACACTTGTTTTAAACGTATCGACACTTTGTTGTGCACTT
GGTTTTTAAAATACAATCTGGACAAAATGTATCGACACTTTTTTATTTGTGTCGATACTTGTTTG
TACACATGTTTTCTAAAAAATCGGTATATTTAGACCAATTACATTAATAATTTACATATTACATT
ATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTTGTG
CACTTGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATACTT
TTTGTACACCTGTTTTCTCAAAAACAGTATATTTAGACCAATTACATTAATAATTTACCTATTAC
ATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAACGTATCGACACTTTGTT
GTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACTCTTTTTTTATTTGTGTCGAT
ACTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCT
ATTACA
Found at i:69169 original size:22 final size:19
Alignment explanation
Indices: 69150--69187 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
69140 GTATATTTAG
69150 ACCGATTACATTAATAATTT
1 ACCGATTACATT-ATAATTT
*
69170 ACCTATTACATTATAATT
1 ACCGATTACATTATAATT
69188 ATATTTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (19 bp):
ACCGATTACATTATAATTT
Found at i:75034 original size:14 final size:14
Alignment explanation
Indices: 74997--75034 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
74987 AACATAAAAT
* *
74997 GAACGAACACAAAC
1 GAACGAAAATAAAC
75011 GAACGAAAATAAAC
1 GAACGAAAATAAAC
75025 GAACGAAAAT
1 GAACGAAAAT
75035 GAACATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.18, G:0.16, T:0.05
Consensus pattern (14 bp):
GAACGAAAATAAAC
Found at i:75200 original size:14 final size:14
Alignment explanation
Indices: 75191--75234 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
75181 GCGAACAAAC
75191 ATAAATGAACATAA
1 ATAAATGAACATAA
*
75205 ACAAATGAACATAA
1 ATAAATGAACATAA
75219 ATAAATGAACATAA
1 ATAAATGAACATAA
75233 AT
1 AT
75235 GAACGGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (14 bp):
ATAAATGAACATAA
Found at i:79519 original size:13 final size:13
Alignment explanation
Indices: 79501--79550 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
79491 CGATAATTTT
79501 AAATACTTAATTG
1 AAATACTTAATTG
79514 AAATACTTAATT-
1 AAATACTTAATTG
* *
79526 AACTCAACATAATTG
1 AAAT--ACTTAATTG
79541 AAATACTTAA
1 AAATACTTAA
79551 ATACTTCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 7 0.23
15 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (13 bp):
AAATACTTAATTG
Found at i:79632 original size:32 final size:33
Alignment explanation
Indices: 79536--79634 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
79526 AACTCAACAT
* * *
79536 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
79569 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
79602 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
79634 A
1 A
79635 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:79653 original size:21 final size:21
Alignment explanation
Indices: 79629--79668 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
79619 ACTTCAAGTT
79629 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
79650 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
79669 ATAAAATAAA
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:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:81957 original size:12 final size:12
Alignment explanation
Indices: 81940--81984 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
81930 TTAAACCCAG
81940 ACCGGTTTTTTA
1 ACCGGTTTTTTA
81952 ACCGGTTTTTTTCAA
1 ACCGG-TTTTTT--A
81967 ACCGGTTTTTTA
1 ACCGGTTTTTTA
*
81979 TCCGGT
1 ACCGGT
81985 AAAAAAACCG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
14 6 0.21
15 6 0.21
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.47
Consensus pattern (12 bp):
ACCGGTTTTTTA
Found at i:81969 original size:15 final size:13
Alignment explanation
Indices: 81940--81977 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
81930 TTAAACCCAG
81940 ACCGG-TTTTTTA
1 ACCGGTTTTTTTA
81952 ACCGGTTTTTTTCAA
1 ACCGGTTTTTTT--A
81967 ACCGGTTTTTT
1 ACCGGTTTTTT
81978 ATCCGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
15 12 0.52
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (13 bp):
ACCGGTTTTTTTA
Found at i:82015 original size:14 final size:13
Alignment explanation
Indices: 81980--82018 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
81970 GGTTTTTTAT
81980 CCGG-TAAAAAAA
1 CCGGTTAAAAAAA
*
81992 CCGGTTAAAATAA
1 CCGGTTAAAAAAA
82005 CCGGTTTAAAAAAA
1 CCGG-TTAAAAAAA
82019 TCCGATCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 4 0.17
13 11 0.48
14 8 0.35
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (13 bp):
CCGGTTAAAAAAA
Found at i:82044 original size:14 final size:14
Alignment explanation
Indices: 81985--82044 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 14
81975 TTTATCCGGT
81985 AAAAAAACCGGTT-
1 AAAAAAACCGGTTA
*
81998 AAAATAACCGGTTTA
1 AAAAAAACCGG-TTA
82013 AAAAAATCCGATCCGGTTA
1 AAAAAA----A-CCGGTTA
82032 AAAAAAACCGGTT
1 AAAAAAACCGGTT
82045 TTTCCCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
14 8 0.21
15 6 0.16
19 10 0.26
20 4 0.11
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (14 bp):
AAAAAAACCGGTTA
Found at i:90568 original size:38 final size:39
Alignment explanation
Indices: 90525--90608 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 39
90515 AAAATATGTG
* *
90525 AAGGAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCAGGA
1 AAGGAATTGGAATCCAATTCCATATTATGTTTGGTT--C--GC
90568 AATGGAATTGGAATCCAATTCCATATTATGTTTGGTTCGC
1 AA-GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGC
90608 A
1 A
90609 GACATGTCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
40 2 0.05
42 1 0.03
43 2 0.05
44 33 0.87
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (39 bp):
AAGGAATTGGAATCCAATTCCATATTATGTTTGGTTCGC
Found at i:91187 original size:27 final size:28
Alignment explanation
Indices: 91125--91191 Score: 118
Period size: 29 Copynumber: 2.4 Consensus size: 28
91115 CCTAAACCCG
91125 ACCCGACCCGAATATCACACTTAAAAAAA
1 ACCCGACCCGAATATCACACTT-AAAAAA
91154 ACCCGACCCGAATATCACACTT-AAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
91181 ACCCGACCCGA
1 ACCCGACCCGA
91192 CCCGAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 16 0.42
29 22 0.58
ACGTcount: A:0.43, C:0.36, G:0.09, T:0.12
Consensus pattern (28 bp):
ACCCGACCCGAATATCACACTTAAAAAA
Found at i:93946 original size:14 final size:14
Alignment explanation
Indices: 93927--93969 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
93917 TTAACTCTAC
93927 TGCTGTTGCATTAG
1 TGCTGTTGCATTAG
*
93941 TGCTGTTACATTAG
1 TGCTGTTGCATTAG
*
93955 TGCTGCTGCATTAG
1 TGCTGTTGCATTAG
93969 T
1 T
93970 TCCTAAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (14 bp):
TGCTGTTGCATTAG
Found at i:102522 original size:15 final size:15
Alignment explanation
Indices: 102502--102538 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
102492 CCCCTCAACC
102502 ATCATCAGCACGTAT
1 ATCATCAGCACGTAT
102517 ATCATCAGCACGTAT
1 ATCATCAGCACGTAT
102532 ATCATCA
1 ATCATCA
102539 CCTGAAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (15 bp):
ATCATCAGCACGTAT
Found at i:103229 original size:6 final size:7
Alignment explanation
Indices: 103212--103237 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
103202 GTAGTTAAAC
103212 TTTTTAA
1 TTTTTAA
103219 TTTTTAA
1 TTTTTAA
103226 TTTTTAA
1 TTTTTAA
103233 TTTTT
1 TTTTT
103238 TGTGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:108045 original size:19 final size:20
Alignment explanation
Indices: 108023--108066 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
108013 AGAGAAAAGT
*
108023 AAAAGTTAA-AATGAAATAG
1 AAAAGTTAATAATGAAAGAG
*
108042 AAAAGTTAATGATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
108062 AAAAG
1 AAAAG
108067 AAAAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:118527 original size:38 final size:38
Alignment explanation
Indices: 118471--118549 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
118461 ATTACAATGA
*
118471 ATTTTGATAATGTAGATATGAAAATTTGAATATCCAAT
1 ATTTTGATAATGTAGATATCAAAATTTGAATATCCAAT
* * *
118509 ATTTTGATAATTTGGATATCAAACTTTGAATATCCAAT
1 ATTTTGATAATGTAGATATCAAAATTTGAATATCCAAT
118547 ATT
1 ATT
118550 CGATTTGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (38 bp):
ATTTTGATAATGTAGATATCAAAATTTGAATATCCAAT
Found at i:122603 original size:33 final size:33
Alignment explanation
Indices: 122561--122649 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
122551 AAAATCCTTG
* * * *
122561 TTTGGTAAGAACTCCCCTTCCTCGAGATCTCCA
1 TTTGGTAAGAACTCACCTTCCTCAAAATCCCCA
122594 TTTGGTAAGAACTCACCTTCCTCAAAATCCCCA
1 TTTGGTAAGAACTCACCTTCCTCAAAATCCCCA
*
122627 TTTGGGAAGAACTCACCTTCCTC
1 TTTGGTAAGAACTCACCTTCCTC
122650 CATTTCAACT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (33 bp):
TTTGGTAAGAACTCACCTTCCTCAAAATCCCCA
Found at i:130043 original size:21 final size:22
Alignment explanation
Indices: 130018--130062 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
130008 GAATGTCTAA
130018 AACAAAGAAG-ATCAGCATGAT
1 AACAAAGAAGTATCAGCATGAT
* * *
130039 AACAAATAAGTGTCAGCTTGAT
1 AACAAAGAAGTATCAGCATGAT
130061 AA
1 AA
130063 GTAGTGACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (22 bp):
AACAAAGAAGTATCAGCATGAT
Found at i:130732 original size:2 final size:2
Alignment explanation
Indices: 130725--130758 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
130715 TATGTTCCTT
130725 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130759 AATTTATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:132572 original size:23 final size:23
Alignment explanation
Indices: 132546--132591 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
132536 AAAAGCATAG
* *
132546 AAAAACGTGTTATGAAAACAAAA
1 AAAAACGTATTATAAAAACAAAA
* *
132569 AAAATCGTATTATAAAAATAAAA
1 AAAAACGTATTATAAAAACAAAA
132592 TTATTCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (23 bp):
AAAAACGTATTATAAAAACAAAA
Found at i:133599 original size:18 final size:19
Alignment explanation
Indices: 133573--133608 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
133563 TTAAAAAAGA
133573 AAACACAAAA-TTTGAAAT
1 AAACACAAAACTTTGAAAT
*
133591 AAACCCAAAACTTTGAAA
1 AAACACAAAACTTTGAAA
133609 ACCTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (19 bp):
AAACACAAAACTTTGAAAT
Found at i:134778 original size:15 final size:17
Alignment explanation
Indices: 134755--134791 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
134745 AACGTCTTTT
134755 AAATAA-TTTTAAG-CA
1 AAATAATTTTTAAGACA
*
134770 AAATCATTTTTAAGACA
1 AAATAATTTTTAAGACA
134787 AAATA
1 AAATA
134792 CGGGTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 5 0.28
16 7 0.39
17 6 0.33
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (17 bp):
AAATAATTTTTAAGACA
Found at i:135459 original size:2 final size:2
Alignment explanation
Indices: 135452--135493 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
135442 TATTAGATAA
*
135452 AT AT AT AT AT AT AT AT AT AT AT AT A- AC AT GAT AT A- 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
135493 A
1 A
135494 CATACATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:139910 original size:36 final size:36
Alignment explanation
Indices: 139858--139996 Score: 233
Period size: 36 Copynumber: 3.9 Consensus size: 36
139848 AGTTGAGTAT
*
139858 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
139894 TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
139930 TATCATCTTTGGTACAGTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
139966 TATCAGCTTTGGTACATTCGCGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
139997 CCAACACCGT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 96 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Done.