Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002448.1 Hibiscus syriacus cultivar Beakdansim tig00005018_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: 106503
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2969 original size:3 final size:3
Alignment explanation
Indices: 2956--2996 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
2946 TTCAAAAGAA
2956 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2997 ACATATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3092 original size:20 final size:21
Alignment explanation
Indices: 3046--3103 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
3036 ACAGGGAACT
*
3046 GAAACAAAC-AAATAAAAGTTA
1 GAAA-AAACAAAATAAAAGTCA
*
3067 GTAAAAACAAAATAAAAG-CA
1 GAAAAAACAAAATAAAAGTCA
* *
3087 GAAAAAATAAAAAAAAA
1 GAAAAAACAAAATAAAA
3104 AAGTCCAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.10
Consensus pattern (21 bp):
GAAAAAACAAAATAAAAGTCA
Found at i:4316 original size:3 final size:3
Alignment explanation
Indices: 4294--4343 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
4284 AGCCTGTAAA
*
4294 AAT ATT AAT AA- AAT -AT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4339 -AT AAT
1 AAT AAT
4344 GCTTTTATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:9769 original size:16 final size:17
Alignment explanation
Indices: 9737--9770 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9727 CTTTATATTC
9737 AACATAGATATTAAAAT
1 AACATAGATATTAAAAT
*
9754 AACATA-ATATTGAAAT
1 AACATAGATATTAAAAT
9770 A
1 A
9771 TTATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AACATAGATATTAAAAT
Found at i:15160 original size:24 final size:20
Alignment explanation
Indices: 15103--15160 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
15093 TTTCCCTTGA
*
15103 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
15123 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
15146 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
15161 CTATCCACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:18647 original size:40 final size:41
Alignment explanation
Indices: 18543--18635 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 41
18533 ATGTTCATAT
* * *
18543 CATATATCTTATAACAT-ATATAA-T-A-ATCACTAACACA
1 CATATATCATATCACATCATATAATTCATATCACTAAAACA
*
18580 CATATATCATATCATATCATATAATTCATATCAC-AAAACA
1 CATATATCATATCACATCATATAATTCATATCACTAAAACA
18620 CATATAT-ATATCACAT
1 CATATATCATATCACAT
18636 ACATTGTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
37 14 0.30
38 6 0.13
39 9 0.19
40 13 0.28
41 5 0.11
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (41 bp):
CATATATCATATCACATCATATAATTCATATCACTAAAACA
Found at i:25444 original size:21 final size:20
Alignment explanation
Indices: 25420--25474 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
25410 CTCAATATTC
25420 ATCGATACACTATGAATGTGT
1 ATCGATACACT-TGAATGTGT
*
25441 ATCGATATATTCCTTGAATGTGT
1 ATCGATACA---CTTGAATGTGT
25464 ATCGATACACT
1 ATCGATACACT
25475 CACAAGTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
23 17 0.59
24 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
ATCGATACACTTGAATGTGT
Found at i:25904 original size:24 final size:26
Alignment explanation
Indices: 25863--25910 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
25853 CAAAAATTTC
* *
25863 AAAATTTTTCTTATTTTTTGAAATAA
1 AAAATTGTTCTTATTTTTTAAAATAA
25889 AAAATTGTT-TTA-TTTTTAAAAT
1 AAAATTGTTCTTATTTTTTAAAAT
25911 TGTTGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 3 0.15
26 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
AAAATTGTTCTTATTTTTTAAAATAA
Found at i:25922 original size:16 final size:17
Alignment explanation
Indices: 25889--25922 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25879 TTTGAAATAA
*
25889 AAAATTGTTTTATTTTT
1 AAAATTGTTGTATTTTT
25906 AAAATTGTTGT-TTTTT
1 AAAATTGTTGTATTTTT
25922 A
1 A
25923 TTTAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
AAAATTGTTGTATTTTT
Found at i:27711 original size:13 final size:13
Alignment explanation
Indices: 27689--27722 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
27679 AAGGGGAGTA
*
27689 ATTTTCAAAATTG
1 ATTTTCAAAAATG
27702 A-TTTCAAAAATG
1 ATTTTCAAAAATG
27714 ATTTTCAAA
1 ATTTTCAAA
27723 GAAAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:30829 original size:34 final size:33
Alignment explanation
Indices: 30791--30864 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
30781 GAACAGATTC
*
30791 TCCCCCAGGGGGTATCGATTCCCCGTGAACAAAT
1 TCCCCCA-GGGGTATCGATTCCCCGGGAACAAAT
* *
30825 TCCCCCCAGGGGTATCGATTCCCCGGGTACAGAT
1 T-CCCCCAGGGGTATCGATTCCCCGGGAACAAAT
30859 TCCCCC
1 TCCCCC
30865 TGCATGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 5 0.14
34 25 0.69
35 6 0.17
ACGTcount: A:0.19, C:0.38, G:0.23, T:0.20
Consensus pattern (33 bp):
TCCCCCAGGGGTATCGATTCCCCGGGAACAAAT
Found at i:34345 original size:34 final size:35
Alignment explanation
Indices: 34280--34365 Score: 131
Period size: 34 Copynumber: 2.5 Consensus size: 35
34270 ATTGCCCAGA
*
34280 GGGAACAGATTCCCCCTATGGGGTATTGATTCCCC
1 GGGAACAGATTCCCCCTATGGGGTATCGATTCCCC
34315 GGGAACAGATTCCCCAC-A-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCC-CTATGGGGTATCGATTCCCC
*
34349 GGGTACAGATTCCCCCT
1 GGGAACAGATTCCCCCT
34366 GCATGGTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
33 1 0.02
34 29 0.62
35 16 0.34
36 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.22
Consensus pattern (35 bp):
GGGAACAGATTCCCCCTATGGGGTATCGATTCCCC
Found at i:34359 original size:15 final size:15
Alignment explanation
Indices: 34307--34363 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
34297 ATGGGGTATT
*
34307 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
34322 GATTCCCCACAGGGGTATC-
1 GATT-CCC-C--GGGTA-CA
34341 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
34356 GATTCCCC
1 GATTCCCC
34364 CTGCATGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 17 0.49
16 3 0.09
17 2 0.06
18 3 0.09
19 8 0.23
20 1 0.03
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:43584 original size:25 final size:24
Alignment explanation
Indices: 43540--43586 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
43530 AAATTTGATT
*
43540 TTTTTTTGGAGTAGGAAAAATTGA
1 TTTTTTTGGAGAAGGAAAAATTGA
43564 TTTTTTTGG-GAAGAGAGAAAATT
1 TTTTTTTGGAGAAG-GA-AAAATT
43587 AGGAAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 11 0.55
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (24 bp):
TTTTTTTGGAGAAGGAAAAATTGA
Found at i:43719 original size:20 final size:20
Alignment explanation
Indices: 43694--43733 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43684 AACATCTTTA
43694 TTTCTACCGGTTTTATTATT
1 TTTCTACCGGTTTTATTATT
*
43714 TTTCTACCGGTTTTGTTATT
1 TTTCTACCGGTTTTATTATT
43734 GCTAGACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTCTACCGGTTTTATTATT
Found at i:44207 original size:14 final size:14
Alignment explanation
Indices: 44188--44225 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44178 TACTTATACT
44188 TATATACATACTTA
1 TATATACATACTTA
* *
44202 TATATAGATACTTT
1 TATATACATACTTA
44216 TATATACATA
1 TATATACATA
44226 TATATGTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (14 bp):
TATATACATACTTA
Found at i:44324 original size:79 final size:73
Alignment explanation
Indices: 44241--44408 Score: 183
Period size: 79 Copynumber: 2.2 Consensus size: 73
44231 GTGTGTAAAA
* **
44241 TTATATATATAAGTATAATGTGTGTGTATATATATATATACTTATTAAGTATAATGTATAGTTAT
1 TTATATATATAAGTATAATGTAT-ACT-TATA-ATATATACTTA-TAAGTATAATGTATAGTTAT
* *
44306 ATTTATAAGTATAT
62 ATATAT-A-TATAC
* *
44320 TTATACATATGCATAAGTATAATGTATACTTATACTGTATACTTATAAGTATAATGTATAGTTAT
1 TTAT--ATAT--ATAAGTATAATGTATACTTATAATATATACTTATAAGTATAATGTATAGTTAT
44385 ATATATATATAC
62 ATATATATATAC
44397 TTATATATATAA
1 TTATATATATAA
44409 AAGTTTTTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
73 4 0.05
75 4 0.05
77 8 0.10
78 1 0.01
79 29 0.37
80 9 0.12
81 8 0.10
82 1 0.01
83 14 0.18
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (73 bp):
TTATATATATAAGTATAATGTATACTTATAATATATACTTATAAGTATAATGTATAGTTATATAT
ATATATAC
Found at i:44385 original size:13 final size:13
Alignment explanation
Indices: 44337--44372 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
44327 TATGCATAAG
44337 TATAATGTATACT
1 TATAATGTATACT
*
44350 TATACTGTATACT
1 TATAATGTATACT
44363 TATAA-GTATA
1 TATAATGTATA
44373 ATGTATAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TATAATGTATACT
Found at i:44448 original size:19 final size:18
Alignment explanation
Indices: 44426--44480 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
44416 TATATATACT
*
44426 TATAGTTATAAGTATAGTGTA
1 TATA-TTATAAGTATA--ATA
*
44447 TATATTATAAGTGTAATA
1 TATATTATAAGTATAATA
44465 TATTATTATAAGTATA
1 TA-TATTATAAGTATA
44481 TATTACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 10 0.33
21 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
TATATTATAAGTATAATA
Found at i:44459 original size:15 final size:16
Alignment explanation
Indices: 44441--44470 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44431 TTATAAGTAT
44441 AGTGT-ATATATTATA
1 AGTGTAATATATTATA
44456 AGTGTAATATATTAT
1 AGTGTAATATATTAT
44471 TATAAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (16 bp):
AGTGTAATATATTATA
Found at i:45961 original size:32 final size:32
Alignment explanation
Indices: 45911--45978 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
45901 AAAGTAGTAT
*
45911 CCTATAGTCAAGTGACCAGTTGTATACTTTAC
1 CCTATAGTCAAGTGACCAGTAGTATACTTTAC
*
45943 CCTATAGTC-GGTGTACCAGTAGTATACTTTAC
1 CCTATAGTCAAGTG-ACCAGTAGTATACTTTAC
45975 CCTA
1 CCTA
45979 AAATTTAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 3 0.09
32 30 0.91
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (32 bp):
CCTATAGTCAAGTGACCAGTAGTATACTTTAC
Found at i:47756 original size:24 final size:24
Alignment explanation
Indices: 47729--47881 Score: 123
Period size: 24 Copynumber: 6.5 Consensus size: 24
47719 CATTTAAATG
*
47729 ATAAACGAACACAAATGAATAAAC
1 ATAAACGAACACAAATAAATAAAC
* * *
47753 ATAAACAAACACAAATGAACAAAC
1 ATAAACGAACACAAATAAATAAAC
* ** *
47777 ATAAACGAACAGATGTAAATGAAC
1 ATAAACGAACACAAATAAATAAAC
**
47801 ATAAACGAACA-AAATAAATGAATG
1 ATAAACGAACACAAATAAAT-AAAC
** ** *
47825 A-AAACGAACACAAACGAACGAAT
1 ATAAACGAACACAAATAAATAAAC
* *
47848 GTAAACGAACAC-AATAAATGAAC
1 ATAAACGAACACAAATAAATAAAC
47871 ATAAACGAACA
1 ATAAACGAACA
47882 TAACTGAAAA
Statistics
Matches: 100, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
23 33 0.33
24 67 0.67
ACGTcount: A:0.61, C:0.16, G:0.11, T:0.12
Consensus pattern (24 bp):
ATAAACGAACACAAATAAATAAAC
Found at i:48099 original size:24 final size:24
Alignment explanation
Indices: 48067--48116 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
48057 AACATAAACG
*
48067 AACACACATAAACGAACGGACATA
1 AACACACATAAACGAACGAACATA
*
48091 AACAGACATAAACGAACGAACATA
1 AACACACATAAACGAACGAACATA
48115 AA
1 AA
48117 TGAACGAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (24 bp):
AACACACATAAACGAACGAACATA
Found at i:48115 original size:14 final size:14
Alignment explanation
Indices: 48057--48128 Score: 82
Period size: 14 Copynumber: 5.4 Consensus size: 14
48047 GATTGAGATA
48057 AACATAAACGAAC-
1 AACATAAACGAACG
48070 ACACATAAACGAACG
1 A-ACATAAACGAACG
*
48085 GACATAAAC--A-G
1 AACATAAACGAACG
48096 -ACATAAACGAACG
1 AACATAAACGAACG
*
48109 AACATAAATGAACG
1 AACATAAACGAACG
48123 AACATA
1 AACATA
48129 TTACCGAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.16
11 1 0.02
12 2 0.04
13 2 0.04
14 38 0.75
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:51567 original size:21 final size:21
Alignment explanation
Indices: 51513--51560 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
51503 TTTCAACTAG
51513 GAGTATTGGTACTGCTGGGGA
1 GAGTATTGGTACTGCTGGGGA
51534 GAGTATTGGTACTGCTGGGGA
1 GAGTATTGGTACTGCTGGGGA
51555 GAGTAT
1 GAGTAT
51561 CGATACTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.08, G:0.42, T:0.29
Consensus pattern (21 bp):
GAGTATTGGTACTGCTGGGGA
Found at i:54584 original size:77 final size:79
Alignment explanation
Indices: 54444--54592 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 79
54434 ATATAGTAAG
*
54444 TAAACATTAAAATAATTTAATTCTGATTACAACTCTTTTAATCGATATATAATTCTAAATAATTA
1 TAAACATTAAAATAATTTAATTCAGATTACAACTCTTTTAATCGATATATAATTCTAAATAATTA
54509 AATAAGAGTTTAAA
66 AATAAGAGTTTAAA
* * * * *
54523 TAAACATT-AAAT-ATTGTAATTCAGATTATAAGTC-TTTAATGGATATTTAATT-TGAATTAAT
1 TAAACATTAAAATAATT-TAATTCAGATTACAACTCTTTTAATCGATATATAATTCT-AAATAAT
54584 TAAATAAGA
64 TAAATAAGA
54593 TTTTTTATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 1 0.02
77 34 0.55
78 19 0.31
79 8 0.13
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (79 bp):
TAAACATTAAAATAATTTAATTCAGATTACAACTCTTTTAATCGATATATAATTCTAAATAATTA
AATAAGAGTTTAAA
Found at i:56781 original size:19 final size:19
Alignment explanation
Indices: 56759--56803 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
56749 GACAGGCGAC
56759 GATGGTTGACAACAGTAAT
1 GATGGTTGACAACAGTAAT
*
56778 GATGGATGACAACAGTAAT
1 GATGGTTGACAACAGTAAT
*
56797 GAGGGTT
1 GATGGTT
56804 TGAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (19 bp):
GATGGTTGACAACAGTAAT
Found at i:60219 original size:21 final size:20
Alignment explanation
Indices: 60169--60247 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
60159 CTATTGTGAT
60169 TCAA-GGGATCGATCCTTTC
1 TCAAGGGGATCGATCCTTTC
*
60188 TCAAGGGGATCGATTCTTTGC
1 TCAAGGGGATCGATCCTTT-C
* * *
60209 TCAATGTGATCTATCCTTT-
1 TCAAGGGGATCGATCCTTTC
* *
60228 TGCTAGGTGATCGATCCTTT
1 T-CAAGGGGATCGATCCTTT
60248 GAGCCAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.10
20 28 0.57
21 16 0.33
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TCAAGGGGATCGATCCTTTC
Found at i:63621 original size:20 final size:20
Alignment explanation
Indices: 63579--63624 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
63569 ATTTTGGCTC
*
63579 AAAGGATCGATCTCCTAGCA
1 AAAGGATCGATCTCCTAGAA
*
63599 AAAGGATCGATC-CCATTGAA
1 AAAGGATCGATCTCC-TAGAA
63619 AAAGGA
1 AAAGGA
63625 ATGATCCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (20 bp):
AAAGGATCGATCTCCTAGAA
Found at i:66093 original size:27 final size:28
Alignment explanation
Indices: 66063--66122 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
66053 TCTCAAATAT
66063 CAAATACCAT-AAAT-CATAATAATCATC
1 CAAATACCATAAAATCCATAAT-ATCATC
**
66090 CAAATGTCATAAAAATCCATAATATCATC
1 CAAATACCAT-AAAATCCATAATATCATC
66119 CAAA
1 CAAA
66123 ATAGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
29 14 0.50
30 6 0.21
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.25
Consensus pattern (28 bp):
CAAATACCATAAAATCCATAATATCATC
Found at i:67827 original size:2 final size:2
Alignment explanation
Indices: 67820--67883 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
67810 TTTGAAAGCA
67820 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
67862 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
67884 TGTAACACCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68624 original size:6 final size:6
Alignment explanation
Indices: 68598--69041 Score: 698
Period size: 6 Copynumber: 74.5 Consensus size: 6
68588 TAGTATAGCC
68598 TAACC- TAACC- TAACC- TAACCA TAACCA TAACCA TAACCA TAACCA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
68643 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
68691 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
68739 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
* * *
68787 TAACCA TAACCA TAACCA TAACCA TAACCA TAAACA TAAACA TAAACA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
* * * * *
68835 TAAACA TAAACA TAACCA TAAACA TAAACA TAAACA TAACCA TAAACC-
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA T-AACCA
*
68883 TAACCA TAACCA TAACCA AAACCA TAACCA TAACCA TAACCA TAACCA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
* * * * *
68931 TCACCA TCACCA TAACCA TAACCA TAACCA TAAACA TAAACA TAAACA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
* * *
68979 TAACCA TAAACA TAACCA TAACCA TAAACA TAAACA TAACCA TAACCA
1 TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA TAACCA
69027 TAACCA TAACCA TAA
1 TAACCA TAACCA TAA
69042 ACGTAAACAT
Statistics
Matches: 422, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
5 19 0.05
6 399 0.95
7 4 0.01
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.17
Consensus pattern (6 bp):
TAACCA
Found at i:69048 original size:6 final size:6
Alignment explanation
Indices: 69039--69228 Score: 133
Period size: 6 Copynumber: 31.8 Consensus size: 6
69029 ACCATAACCA
* * *
69039 TAAACG TAAACA T-AACTG TAAACG T-AACTG TAACCG TAACCG TAAACG
1 TAAACG TAAACG TAAAC-G TAAACG TAAAC-G TAAACG TAAACG TAAACG
* * * *
69087 -AAACCG TAATCG TAAACG TAACCG TAACCG TAAACG T-AACTG TAACCG
1 TAAA-CG TAAACG TAAACG TAAACG TAAACG TAAACG TAAAC-G TAAACG
* * * * *
69135 TAACCG -AAATCG TAATCG TAACCG TAAACG TAATCG TAAACG TAACCG
1 TAAACG TAAA-CG TAAACG TAAACG TAAACG TAAACG TAAACG TAAACG
* * * *
69183 TAAATG TAAACA T-AACAG TAACCG T-AACG TAAACG TAAATG TAAAC
1 TAAACG TAAACG TAAAC-G TAAACG TAAACG TAAACG TAAACG TAAAC
69229 ACAACAAAAT
Statistics
Matches: 146, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
5 21 0.14
6 112 0.77
7 13 0.09
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (6 bp):
TAAACG
Found at i:69060 original size:18 final size:18
Alignment explanation
Indices: 68823--69229 Score: 167
Period size: 18 Copynumber: 22.7 Consensus size: 18
68813 ACCATAAACA
* * *
68823 TAAACATAAACATAAACA
1 TAAACGTAAACATAACCG
* * * *
68841 TAAACATAACCATAAACA
1 TAAACGTAAACATAACCG
* *
68859 TAAACATAAACATAACCA
1 TAAACGTAAACATAACCG
* * *
68877 TAAACCTAACCATAACCA
1 TAAACGTAAACATAACCG
** *
68895 T-AACCAAAACCATAACCA
1 TAAACGTAAA-CATAACCG
* * * *
68913 TAACCATAACCATAACCA
1 TAAACGTAAACATAACCG
* * * * * *
68931 TCACCATCACCATAACCA
1 TAAACGTAAACATAACCG
* * * * *
68949 TAACCATAACCATAAACA
1 TAAACGTAAACATAACCG
* *
68967 TAAACATAAACATAACCA
1 TAAACGTAAACATAACCG
* * *
68985 TAAACATAACCATAACCA
1 TAAACGTAAACATAACCG
* *
69003 TAAACATAAACATAACCA
1 TAAACGTAAACATAACCG
* * * *
69021 TAACCATAACCATAACCA
1 TAAACGTAAACATAACCG
*
69039 TAAACGTAAACATAACTG
1 TAAACGTAAACATAACCG
*
69057 TAAACGT-AACTGTAACCG
1 TAAACGTAAAC-ATAACCG
*
69075 TAACCGTAAACGA-AACCG
1 TAAACGTAAAC-ATAACCG
* *
69093 TAATCGTAAACGTAACCG
1 TAAACGTAAACATAACCG
* * *
69111 TAACCGTAAACGTAACTG
1 TAAACGTAAACATAACCG
* * *
69129 TAACCGTAACCGA-AATCG
1 TAAACGTAAAC-ATAACCG
* * * *
69147 TAATCGTAACCGTAAACG
1 TAAACGTAAACATAACCG
* *
69165 TAATCGTAAACGTAACCG
1 TAAACGTAAACATAACCG
* *
69183 TAAATGTAAACATAACAG
1 TAAACGTAAACATAACCG
* * *
69201 TAACCGT-AACGTAAACG
1 TAAACGTAAACATAACCG
*
69218 TAAATGTAAACA
1 TAAACGTAAACA
69230 CAACAAAATA
Statistics
Matches: 323, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
17 21 0.07
18 295 0.91
19 7 0.02
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (18 bp):
TAAACGTAAACATAACCG
Found at i:69251 original size:6 final size:6
Alignment explanation
Indices: 69240--69297 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
69230 CAACAAAATA
* *
69240 TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC TAAACA TAAACA
1 TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC
*
69288 TAAACA TAAA
1 TAAACC TAAA
69298 TTTTAAGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAACC
Found at i:71573 original size:6 final size:6
Alignment explanation
Indices: 71561--72186 Score: 376
Period size: 6 Copynumber: 103.0 Consensus size: 6
71551 GAATGGAAAT
* * * *
71561 GACATA GATATA GACATA GACATA GACATA CACATA GACATA TATATA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * * * * * ***
71609 CACATA GACATA AACGTA GACGTA GACATA GGCGTA GACGTA GGTGTA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * * * *
71657 GACGTA GGCATA GACGTA GACGTA GACGTA GACATA GACATA GACATT
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * * * * * * *
71705 GATATA AAGATA GACATA GACATA AAGATA GACGTAAA AACATA AACGTA
1 GACATA GACATA GACATA GACATA GACATA GAC--ATA GACATA GACATA
* * * * * * * *
71755 GACGTA GACGTA G-CGTA GACGTA GACGTA GACGTA GACGTA GACGTA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * ** * *
71802 GACATA GACATA GACGTA GACGTA GACGTA GATGTA GACGTA GACGTA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * * * * *
71850 GACGTA GACGTA GACGTA GACGTA AACATA GACGTATA AACATA AACATA
1 GACATA GACATA GACATA GACATA GACATA GAC--ATA GACATA GACATA
* * * * * * *
71900 AACATA -ACATA GACATA AACATA AACATA AACATA AACGTA GACGTA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * *
71947 GACATA GACGTA GACATA GACGTA GACATA GACGTA GACATA GACGTA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * * * * *
71995 AACATA GACGTATA AACATA AACATA AACATA AACATA GACGTA AACATA
1 GACATA GAC--ATA GACATA GACATA GACATA GACATA GACATA GACATA
* * * * *
72045 GACGTA GACATA GACGTA AACATA GACATATA AACATA GACGTA GACATA
1 GACATA GACATA GACATA GACATA GAC--ATA GACATA GACATA GACATA
* ** * ** *
72095 GACGTA GATGTA GACATA GACGA-A GACGTA GACATA GATGTGTA AACATA
1 GACATA GACATA GACATA GAC-ATA GACATA GACATA GA--CATA GACATA
* * *
72145 GACGTA GACATA GACGTA GACATA GACATA GACATA AACATA
1 GACATA GACATA GACATA GACATA GACATA GACATA GACATA
72187 AACAAAAATA
Statistics
Matches: 510, Mismatches: 96, Indels: 28
0.80 0.15 0.04
Matches are distributed among these distances:
5 10 0.02
6 477 0.94
7 1 0.00
8 22 0.04
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GACATA
Found at i:72159 original size:68 final size:68
Alignment explanation
Indices: 71565--72186 Score: 416
Period size: 68 Copynumber: 9.3 Consensus size: 68
71555 GGAAATGACA
* * * * * * * *
71565 TAGATATAGACATAGACATAGACATACACATAGAC--ATATATATACACATAGACATAAACGTAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
71628 ACG
66 ACG
* * ** * * *
71631 TAGACATAGGCGTAGACGTAGGTGTAGACGTAGGCATAGACG--TAGACGTAGACGTAGACATAG
1 TAGACATAGACATAGAC--A----TAGACGTAAACATAGACGTATAAACATAGACATAGACATAG
*
71694 ACATAGACA
60 ACATAGACG
* * * * * * * * * * *
71703 TTGATATAAAGATAGACATAGACATAAAGATAGACGTAAAAACATAAACGTAGACGTAGACGTAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
71768 -CG
66 ACG
* * * * * * * * *
71770 TAGACGTAGACGTAGACGTAGACGTAGACGTAGAC--ATAGACATAGACGTAGACGTAGACGTAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
*
71833 ATG
66 ACG
* * * * * * *
71836 TAGACGTAGACGTAGACGTAGACGTAGACGTAGACG--TAAACATAGACGTATAAACATAAACAT
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGAC--ATAGACATAGACAT
* *
71899 AAACA
64 AGACG
* * * * * * *
71904 TA-ACATAGACATAAACATAAACATAAACATAAACG--TAGACGTAGACATAGACGTAGACATAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
71966 ACG
66 ACG
* * * *
71969 TAGACATAGACGTAGACATAGACGTAAACATAGACGTATAAACATAAACATAAACATAAACATAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
72034 ACG
66 ACG
* * * * *
72037 TAAACATAGACGTAGACATAGACGTAAACATAGACATATAAACATAGACGTAGACATAGACGTAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
*
72102 ATG
66 ACG
* * * * *
72105 TAGACATAGAC---G--A-AGACGTAGACATAGATGTGTAAACATAGACGTAGACATAGACGTAG
1 TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
*
72164 ACA
66 ACG
*
72167 TAGACATAGACATAAACATA
1 TAGACATAGACATAGACATA
72187 AACAAAAATA
Statistics
Matches: 436, Mismatches: 98, Indels: 42
0.76 0.17 0.07
Matches are distributed among these distances:
62 54 0.12
63 1 0.00
65 42 0.10
66 102 0.23
67 59 0.14
68 130 0.30
70 1 0.00
72 47 0.11
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (68 bp):
TAGACATAGACATAGACATAGACGTAAACATAGACGTATAAACATAGACATAGACATAGACATAG
ACG
Found at i:72205 original size:6 final size:6
Alignment explanation
Indices: 72199--72319 Score: 224
Period size: 6 Copynumber: 20.2 Consensus size: 6
72189 CAAAAATATA
*
72199 AACATA AACATG AACATG AACATG AACATG AACATG AACATG AACATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
72247 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
*
72295 AACATG AACAGG AACATG AACATG A
1 AACATG AACATG AACATG AACATG A
72320 TGTTGAAAAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 112 1.00
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.16
Consensus pattern (6 bp):
AACATG
Found at i:72650 original size:19 final size:19
Alignment explanation
Indices: 72626--72664 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
72616 TCGAATGCAT
72626 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
72645 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
72664 T
1 T
72665 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:72765 original size:64 final size:65
Alignment explanation
Indices: 72612--72772 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
72602 GAATTAATTG
* * *** *
72612 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
72677 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
72740 A
65 A
72741 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
72773 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:72787 original size:64 final size:64
Alignment explanation
Indices: 72612--72792 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
72602 GAATTAATTG
* * * *
72612 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
72677 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
72741 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
72793 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:79986 original size:40 final size:40
Alignment explanation
Indices: 79931--80014 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
79921 CAGCTTCCAG
79931 AGCTTCAAAGGCTTATGAGAGATATTGACGAGGAAGTACC
1 AGCTTCAAAGGCTTATGAGAGATATTGACGAGGAAGTACC
79971 AGCTTCAAAGGCTTATGAGAGATATTGACGAGGAAGTACC
1 AGCTTCAAAGGCTTATGAGAGATATTGACGAGGAAGTACC
80011 AGCT
1 AGCT
80015 CGGCAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (40 bp):
AGCTTCAAAGGCTTATGAGAGATATTGACGAGGAAGTACC
Found at i:80287 original size:8 final size:8
Alignment explanation
Indices: 80274--80303 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
80264 TGTTTATGTT
80274 TGTTTGGA
1 TGTTTGGA
80282 TGTTTGGA
1 TGTTTGGA
*
80290 TGTTTGAA
1 TGTTTGGA
80298 TGTTTG
1 TGTTTG
80304 AACTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (8 bp):
TGTTTGGA
Found at i:80986 original size:19 final size:19
Alignment explanation
Indices: 80962--81000 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
80952 TCGAATGCAT
80962 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
80981 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
81000 T
1 T
81001 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:81101 original size:64 final size:65
Alignment explanation
Indices: 80948--81108 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
80938 GAATTAATTG
* * *** *
80948 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
81013 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
81076 A
65 A
81077 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
81109 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:81123 original size:64 final size:64
Alignment explanation
Indices: 80948--81128 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
80938 GAATTAATTG
* * * *
80948 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
81013 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
81077 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
81129 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:81842 original size:6 final size:6
Alignment explanation
Indices: 81831--81942 Score: 215
Period size: 6 Copynumber: 18.7 Consensus size: 6
81821 TTAACTCAAC
81831 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
*
81879 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA AAATGA ACATGA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
81927 ACATGA ACATGA ACAT
1 ACATGA ACATGA ACAT
81943 AGACGTAGAC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 104 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (6 bp):
ACATGA
Found at i:81951 original size:6 final size:6
Alignment explanation
Indices: 81942--82906 Score: 409
Period size: 6 Copynumber: 159.8 Consensus size: 6
81932 AACATGAACA
* * * * * * * *
81942 TAGACG TAGACA TAGACG TAGACA TAGACA AAGAAG TAGACA AAGAAG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
81990 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * *
82038 TATACG TAGACG TAGACG TAGACG TATACG TAGACG TACACA TACACA
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * * * * * *
82086 TACACG TATACG TATATG TACACG TACACG TACACG TACACA TACACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * * * * * * * *
82134 TACATG TACACA TACACA TACACG TACACG TACACG TACACA TACACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * * * * * * * * *
82182 TACACA TATACG TACACA TATATG TACACG TACACA TATACA TACACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * ** * * * *
82230 TACACA TATACG TACACG TACAAT TACACG TAAACG TATACG TAAACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * * * * **
82278 TAAACG TAAACG TAAACG TAAACG TAAACG TAAACA TA-ACAT TA-ATA
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGAC-G TAGACG
** * * * * * * * * * * *
82325 TA-ATA TAGACA TACACG TAAACA TAGACATA TAAACA TAAACA TAAACA
1 TAGACG TAGACG TAGACG TAGACG TAGAC--G TAGACG TAGACG TAGACG
* * * * * * * * *
82374 TAAACG TAAACA TAGATG TAAACA TAGACG TAGACA TAGACG TATAAACA
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG --TAGACG
** *
82424 TAGACG TAGACG TAGACG TAGATA TAGACA TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * ** * * *
82472 TAGACG TAGACG TAGACG TAGACA TTGATA TA-AAG ATAGACA TAGACA
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG -TAGACG TAGACG
* * * * *
82520 TA-AAG ATAGACG TAAAAACA TAAACG TAGACG TAGACG TAGACG TAG-CA
1 TAGACG -TAGACG T--AGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * *
82569 TGGACG TAGACG TAGACT TAGATG TAGACG TAGATG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * *
82617 TAGACG TAGATG TAGACG TAGACG TAGACG TAGACG TAGACG T-CACA
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * * *
82664 TAGACA TAAACA TAAGACA TAGACG TAGACA TAAACG TAGACA TAGACG
1 TAGACG TAGACG T-AGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * *
82713 TAGACA TAGACG TAGACA TAGACG TAAACA TAGACG TAGACA TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * * * * * * *
82761 TAGACA TAGACG TAAACA TAGACG TATAAACA TAAACA TAAACA TA-ACA
1 TAGACG TAGACG TAGACG TAGACG --TAGACG TAGACG TAGACG TAGACG
* * * * * *
82810 TA-AGCA TAGACG TAAACA TAGACG TAGACA TAGACG TAAACA TAGACG
1 TAGA-CG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * *
82858 TATAAACA TAGACG TAGACA TAGACG TAGACG TAGACA TAGACA TAGAC
1 --TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGAC
82907 ATGAACATGA
Statistics
Matches: 774, Mismatches: 164, Indels: 42
0.79 0.17 0.04
Matches are distributed among these distances:
5 23 0.03
6 721 0.93
7 9 0.01
8 21 0.03
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (6 bp):
TAGACG
Found at i:82421 original size:56 final size:56
Alignment explanation
Indices: 82361--82521 Score: 155
Period size: 56 Copynumber: 2.9 Consensus size: 56
82351 ACATATAAAC
*
82361 ATAAACATAAACATAAACGTAAACATAGATGTAAACATAGACGTAGACATAGACGT
1 ATAAACATAAACATAAACGTAAACATAGATATAAACATAGACGTAGACATAGACGT
* * * * * * *
82417 ATAAACATAGACGTAGACGTAGACGTAGATATAGACATAGACGTAGACGTAGACG-
1 ATAAACATAAACATAAACGTAAACATAGATATAAACATAGACGTAGACATAGACGT
* * * * * * * * *
82472 -TAGACGTAGACGTAGACGTAGACATTGATATAAAGATAGACATAGACATA
1 ATAAACATAAACATAAACGTAAACATAGATATAAACATAGACGTAGACATA
82522 AAGATAGACG
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 42 0.47
56 47 0.53
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (56 bp):
ATAAACATAAACATAAACGTAAACATAGATATAAACATAGACGTAGACATAGACGT
Found at i:82908 original size:12 final size:12
Alignment explanation
Indices: 81939--82906 Score: 489
Period size: 12 Copynumber: 80.7 Consensus size: 12
81929 ATGAACATGA
81939 ACATAGACGTAG
1 ACATAGACGTAG
81951 ACATAGACGTAG
1 ACATAGACGTAG
81963 ACATAGAC----
1 ACATAGACGTAG
*
81971 A-A-AGAAGTAG
1 ACATAGACGTAG
* *
81981 ACAAAGAAGTAG
1 ACATAGACGTAG
*
81993 ACGTAGACGTAG
1 ACATAGACGTAG
*
82005 ACGTAGACGTAG
1 ACATAGACGTAG
*
82017 ACGTAGACGTAG
1 ACATAGACGTAG
* *
82029 ACGTAGACGTAT
1 ACATAGACGTAG
*
82041 ACGTAGACGTAG
1 ACATAGACGTAG
* *
82053 ACGTAGACGTAT
1 ACATAGACGTAG
* *
82065 ACGTAGACGTAC
1 ACATAGACGTAG
* * *
82077 ACATACACATAC
1 ACATAGACGTAG
* * *
82089 ACGTATACGTAT
1 ACATAGACGTAG
** * *
82101 ATGTACACGTAC
1 ACATAGACGTAG
* * *
82113 ACGTACACGTAC
1 ACATAGACGTAG
* *
82125 ACATACACGTAC
1 ACATAGACGTAG
** * * *
82137 ATGTACACATAC
1 ACATAGACGTAG
* *
82149 ACATACACGTAC
1 ACATAGACGTAG
* * *
82161 ACGTACACGTAC
1 ACATAGACGTAG
* *
82173 ACATACACGTAC
1 ACATAGACGTAG
* *
82185 ACATATACGTAC
1 ACATAGACGTAG
* * *
82197 ACATATATGTAC
1 ACATAGACGTAG
* * * *
82209 ACGTACACATAT
1 ACATAGACGTAG
* *
82221 ACATACACGTAC
1 ACATAGACGTAG
*
82233 ACATATACGTACACG
1 ACATAGACGT--A-G
* *
82248 TACAATTACACGTAA
1 -AC-A-TAGACGTAG
* * *
82263 ACGTATACGTAA
1 ACATAGACGTAG
* * *
82275 ACGTAAACGTAA
1 ACATAGACGTAG
* * *
82287 ACGTAAACGTAA
1 ACATAGACGTAG
* * *
82299 ACGTAAACGTAA
1 ACATAGACGTAG
*
82311 ACATA-ACATTA-
1 ACATAGAC-GTAG
* **
82322 ATATA-ATATAG
1 ACATAGACGTAG
* *
82333 ACATACACGTAA
1 ACATAGACGTAG
* *
82345 ACATAGACATATAA
1 ACATAGAC--GTAG
* * *
82359 ACATAAACATAA
1 ACATAGACGTAG
* *
82371 ACATAAACGTAA
1 ACATAGACGTAG
* *
82383 ACATAGATGTAA
1 ACATAGACGTAG
82395 ACATAGACGTAG
1 ACATAGACGTAG
*
82407 ACATAGACGTATAA
1 ACATAGACG--TAG
82421 ACATAGACGTAG
1 ACATAGACGTAG
*
82433 ACGTAGACGTAG
1 ACATAGACGTAG
* *
82445 ATATAGACATAG
1 ACATAGACGTAG
*
82457 ACGTAGACGTAG
1 ACATAGACGTAG
*
82469 ACGTAGACGTAG
1 ACATAGACGTAG
*
82481 ACGTAGACGTAG
1 ACATAGACGTAG
* *
82493 ACATTGA--TAT
1 ACATAGACGTAG
82503 A-A-AGA--TAG
1 ACATAGACGTAG
* *
82511 ACATAGACATAA
1 ACATAGACGTAG
* *
82523 AGATAGACGTAAAA
1 ACATAGACGT--AG
*
82537 ACATAAACGTAG
1 ACATAGACGTAG
*
82549 ACGTAGACGTAG
1 ACATAGACGTAG
* * *
82561 ACGTAG-CATGG
1 ACATAGACGTAG
*
82572 ACGTAGACGTAG
1 ACATAGACGTAG
* *
82584 ACTTAGATGTAG
1 ACATAGACGTAG
* *
82596 ACGTAGATGTAG
1 ACATAGACGTAG
*
82608 ACGTAGACGTAG
1 ACATAGACGTAG
* *
82620 ACGTAGATGTAG
1 ACATAGACGTAG
*
82632 ACGTAGACGTAG
1 ACATAGACGTAG
*
82644 ACGTAGACGTAG
1 ACATAGACGTAG
* * *
82656 ACGT-CACATAG
1 ACATAGACGTAG
* *
82667 ACATAAACATAAG
1 ACATAGACGT-AG
82680 ACATAGACGTAG
1 ACATAGACGTAG
*
82692 ACATAAACGTAG
1 ACATAGACGTAG
82704 ACATAGACGTAG
1 ACATAGACGTAG
82716 ACATAGACGTAG
1 ACATAGACGTAG
*
82728 ACATAGACGTAA
1 ACATAGACGTAG
82740 ACATAGACGTAG
1 ACATAGACGTAG
82752 ACATAGACGTAG
1 ACATAGACGTAG
*
82764 ACATAGACGTAA
1 ACATAGACGTAG
*
82776 ACATAGACGTATAA
1 ACATAGACG--TAG
* * *
82790 ACATAAACATAA
1 ACATAGACGTAG
*
82802 ACATA-ACATA-
1 ACATAGACGTAG
*
82812 AGCATAGACGTAA
1 A-CATAGACGTAG
82825 ACATAGACGTAG
1 ACATAGACGTAG
*
82837 ACATAGACGTAA
1 ACATAGACGTAG
*
82849 ACATAGACGTATAA
1 ACATAGACG--TAG
82863 ACATAGACGTAG
1 ACATAGACGTAG
82875 ACATAGACGTAG
1 ACATAGACGTAG
* *
82887 ACGTAGACATAG
1 ACATAGACGTAG
82899 ACATAGAC
1 ACATAGAC
82907 ATGAACATGA
Statistics
Matches: 807, Mismatches: 114, Indels: 70
0.81 0.12 0.07
Matches are distributed among these distances:
6 3 0.00
7 1 0.00
8 6 0.01
9 2 0.00
10 10 0.01
11 38 0.05
12 670 0.83
13 11 0.01
14 56 0.07
16 3 0.00
17 1 0.00
18 6 0.01
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (12 bp):
ACATAGACGTAG
Found at i:82914 original size:12 final size:12
Alignment explanation
Indices: 82728--83431 Score: 446
Period size: 12 Copynumber: 58.4 Consensus size: 12
82718 ATAGACGTAG
* *
82728 ACATAGACGTAA
1 ACATAGACATGA
*
82740 ACATAGACGT-A
1 ACATAGACATGA
*
82751 GACATAGACGT-A
1 -ACATAGACATGA
* *
82763 GACATAGACGTAA
1 -ACATAGACATGA
*
82776 ACATAGACGTATAA
1 ACATAGAC--ATGA
* *
82790 ACATAAACATAA
1 ACATAGACATGA
82802 ACATA-ACAT-A
1 ACATAGACATGA
* *
82812 AGCATAGACGTAA
1 A-CATAGACATGA
*
82825 ACATAGACGT-A
1 ACATAGACATGA
* *
82836 GACATAGACGTAA
1 -ACATAGACATGA
*
82849 ACATAGACGTATAA
1 ACATAGAC--ATGA
*
82863 ACATAGACGT-A
1 ACATAGACATGA
*
82874 GACATAGACGT-A
1 -ACATAGACATGA
*
82886 GACGTAGACAT-A
1 -ACATAGACATGA
82898 GACATAGACATGA
1 -ACATAGACATGA
82911 ACAT-GAACATGA
1 ACATAG-ACATGA
82923 ACAT-GAACATGA
1 ACATAG-ACATGA
82935 ACAT-GAACATGA
1 ACATAG-ACATGA
82947 ACAT-GAACATGA
1 ACATAG-ACATGA
82959 ACAT-GAACATGA
1 ACATAG-ACATGA
82971 ACAT-GAACATGA
1 ACATAG-ACATGA
82983 ACAT-GAACATGA
1 ACATAG-ACATGA
82995 ACAT-GAACATGA
1 ACATAG-ACATGA
83007 ACAT-GAACATGA
1 ACATAG-ACATGA
83019 ACAT-GAACATGA
1 ACATAG-ACATGA
83031 ACAT-GAACATGA
1 ACATAG-ACATGA
83043 ACATGAACATGATCATGA
1 ACAT----A-GA-CATGA
83061 ACAT-GATCATGA
1 ACATAGA-CATGA
83073 ACAT-GATCATGA
1 ACATAGA-CATGA
83085 ACAT-GATCATGA
1 ACATAGA-CATGA
*
83097 ACATAAACATGA
1 ACATAGACATGA
*
83109 ACATAAACATGA
1 ACATAGACATGA
*
83121 ACATAAACATGA
1 ACATAGACATGA
83133 AC-----C-TGA
1 ACATAGACATGA
*
83139 ACATAAACATGA
1 ACATAGACATGA
*
83151 ACATAAACATGA
1 ACATAGACATGA
*
83163 ACATAAACATGA
1 ACATAGACATGA
*
83175 ACATAAACATGA
1 ACATAGACATGA
*
83187 ACATAAACATGA
1 ACATAGACATGA
83199 ACAT-GAACATGA
1 ACATAG-ACATGA
*
83211 ACAT-GAACATAA
1 ACATAG-ACATGA
*
83223 ACAT-GAACATAA
1 ACATAG-ACATGA
*
83235 ACAT-GAACATAA
1 ACATAG-ACATGA
*
83247 ACATAAACATGA
1 ACATAGACATGA
*
83259 ACATAAACATGA
1 ACATAGACATGA
*
83271 ACATAAACATGA
1 ACATAGACATGA
*
83283 ACATAAACATGA
1 ACATAGACATGA
*
83295 ACATAAACATGA
1 ACATAGACATGA
*
83307 ACATAAACATGA
1 ACATAGACATGA
*
83319 ACATAAACATGA
1 ACATAGACATGA
* *
83331 ACATAAACATAA
1 ACATAGACATGA
*
83343 ACATAAACATGA
1 ACATAGACATGA
*
83355 ACATAAACATGA
1 ACATAGACATGA
*
83367 ACATAAACATGA
1 ACATAGACATGA
* * *
83379 TCATAAACAAGA
1 ACATAGACATGA
*
83391 ACATAAACATGA
1 ACATAGACATGA
*
83403 ACATAAACATGA
1 ACATAGACATGA
*
83415 ACATAAACATGA
1 ACATAGACATGA
83427 ACATA
1 ACATA
83432 CACGTAGACA
Statistics
Matches: 643, Mismatches: 19, Indels: 60
0.89 0.03 0.08
Matches are distributed among these distances:
6 5 0.01
7 1 0.00
10 2 0.00
11 13 0.02
12 584 0.91
13 6 0.01
14 21 0.03
17 1 0.00
18 10 0.02
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (12 bp):
ACATAGACATGA
Found at i:82920 original size:24 final size:24
Alignment explanation
Indices: 82911--83508 Score: 588
Period size: 24 Copynumber: 25.2 Consensus size: 24
82901 ATAGACATGA
*
82911 ACATGAACATGAACATGAACAT-G
1 ACATGAACATAAACATGAACATAG
*
82934 AACATGAACATGAACATGAACAT-G
1 -ACATGAACATAAACATGAACATAG
*
82958 AACATGAACATGAACATGAACAT-G
1 -ACATGAACATAAACATGAACATAG
*
82982 AACATGAACATGAACATGAACAT-G
1 -ACATGAACATAAACATGAACATAG
*
83006 AACATGAACATGAACATGAACAT-G
1 -ACATGAACATAAACATGAACATAG
*
83030 AACATGAACATGAACATGAACAT-G
1 -ACATGAACATAAACATGAACATAG
* *
83054 ATCATGAACATGATCATGAACAT-G
1 A-CATGAACATAAACATGAACATAG
* * *
83078 ATCATGAACATGATCATGAACATAA
1 A-CATGAACATAAACATGAACATAG
*
83103 ACATGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83127 ACATGAAC-----C-TGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83145 ACATGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83169 ACATGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83193 ACATGAACATGAACATGAACAT-G
1 ACATGAACATAAACATGAACATAG
* * *
83216 AACATAAACATGAACATAAACAT-G
1 -ACATGAACATAAACATGAACATAG
* *
83240 AACATAAACATAAACATGAACATAA
1 -ACATGAACATAAACATGAACATAG
*
83265 ACATGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83289 ACATGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83313 ACATGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
* *
83337 ACATAAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
* *
83361 ACATGAACATAAACATGATCATAA
1 ACATGAACATAAACATGAACATAG
* *
83385 ACAAGAACATAAACATGAACATAA
1 ACATGAACATAAACATGAACATAG
*
83409 ACATGAACATAAACATGAACATAC
1 ACATGAACATAAACATGAACATAG
* *
83433 ACGT-AGACATAAACGT-AGACATAG
1 ACATGA-ACATAAACATGA-ACATAG
* * *
83457 ACGT-AGACATAGACGT-AGACATAG
1 ACATGA-ACATAAACATGA-ACATAG
* *
83481 ACATAAACGTAAACAT-AGACATAG
1 ACATGAACATAAACATGA-ACATAG
83505 ACAT
1 ACAT
83509 AGACGTAAAC
Statistics
Matches: 534, Mismatches: 27, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
18 17 0.03
19 1 0.00
23 4 0.01
24 510 0.96
25 2 0.00
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.17
Consensus pattern (24 bp):
ACATGAACATAAACATGAACATAG
Found at i:82952 original size:36 final size:36
Alignment explanation
Indices: 82899--83431 Score: 751
Period size: 36 Copynumber: 14.8 Consensus size: 36
82889 GTAGACATAG
* *
82899 ACATAGACATGAACATGAACATGAACATGAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* *
82935 ACATGAACATGAACATGAACATGAACATGAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* *
82971 ACATGAACATGAACATGAACATGAACATGAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* *
83007 ACATGAACATGAACATGAACATGAACATGAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* * * *
83043 ACATGAACATGATCATGAACATGATCATGAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* * * * * *
83079 TCATGAACATGATCATGAACATAAACATGAACATAA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* * *
83115 ACATGAACATAAACATGAACCTGAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
*
83151 ACATAAACATGAACATAAACATGAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* *
83187 ACATAAACATGAACATGAACATGAACATGAACATAA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* * *
83223 ACATGAACATAAACATGAACATAAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
*
83259 ACATAAACATGAACATAAACATGAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
*
83295 ACATAAACATGAACATAAACATGAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* *
83331 ACATAAACATAAACATAAACATGAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
* * *
83367 ACATAAACATGATCATAAACAAGAACATAAACATGA
1 ACATAAACATGAACATGAACATGAACATAAACATGA
*
83403 ACATAAACATGAACATAAACATGAACATA
1 ACATAAACATGAACATGAACATGAACATA
83432 CACGTAGACA
Statistics
Matches: 460, Mismatches: 37, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 460 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (36 bp):
ACATAAACATGAACATGAACATGAACATAAACATGA
Found at i:83442 original size:12 final size:12
Alignment explanation
Indices: 83427--84130 Score: 250
Period size: 12 Copynumber: 59.2 Consensus size: 12
83417 ATAAACATGA
*
83427 ACATACACGTAG
1 ACATAGACGTAG
*
83439 ACATAAACGTAG
1 ACATAGACGTAG
83451 ACATAGACGTAG
1 ACATAGACGTAG
83463 ACATAGACGTAG
1 ACATAGACGTAG
83475 AC----A--TAG
1 ACATAGACGTAG
* *
83481 ACATAAACGTAA
1 ACATAGACGTAG
*
83493 ACATAGACATAG
1 ACATAGACGTAG
*
83505 ACATAGACGTAA
1 ACATAGACGTAG
*
83517 ACATAGACGTAA
1 ACATAGACGTAG
*
83529 ACATAGACGTATAA
1 ACATAGACG--TAG
83543 ACATAGACGTAG
1 ACATAGACGTAG
**
83555 ACATAGACAAAG
1 ACATAGACGTAG
**
83567 A-AGTAGACAAAG
1 ACA-TAGACGTAG
83579 A-AGTAGACGTAG
1 ACA-TAGACGTAG
* *
83591 ACGTACACGTAG
1 ACATAGACGTAG
** * *
83603 ATGTACACGTAC
1 ACATAGACGTAG
* * *
83615 ACATATATGTAC
1 ACATAGACGTAG
** * *
83627 ATGTACACGTAC
1 ACATAGACGTAG
* * *
83639 ACGTATACGTAC
1 ACATAGACGTAG
* *
83651 ACATACACGTAT
1 ACATAGACGTAG
* *
83663 ACATACACGTAC
1 ACATAGACGTAG
* * *
83675 ACGTACACGTAC
1 ACATAGACGTAG
** * * *
83687 ATGTATACATAC
1 ACATAGACGTAG
* * ** *
83699 ACGTACATATAC
1 ACATAGACGTAG
* * * *
83711 ACGTATACATAC
1 ACATAGACGTAG
* * *
83723 ATATACACGTAC
1 ACATAGACGTAG
* * *
83735 ACGTATACGTAC
1 ACATAGACGTAG
* *
83747 ACATACACGTAC
1 ACATAGACGTAG
* * *
83759 ACGTACACGTAA
1 ACATAGACGTAG
* * *
83771 ACGTACACGTAA
1 ACATAGACGTAG
* * *
83783 ACGTACACGTAT
1 ACATAGACGTAG
* * *
83795 ACGTAAACGTAA
1 ACATAGACGTAG
* * *
83807 ACGTAAACGTAA
1 ACATAGACGTAG
* * *
83819 ACATAAACATAA
1 ACATAGACGTAG
* **
83831 ACATAAAATTA-
1 ACATAGACGTAG
* **
83842 ATATA-ATATAG
1 ACATAGACGTAG
* *
83853 ACATACACGTAA
1 ACATAGACGTAG
*
83865 ACATAGACGTAA
1 ACATAGACGTAG
*
83877 ACATAGACGTATAA
1 ACATAGACG--TAG
* * *
83891 ACATAAACATAA
1 ACATAGACGTAG
*
83903 ACATAGACGTAA
1 ACATAGACGTAG
83915 ACATAGACGTAG
1 ACATAGACGTAG
*
83927 ACATAGACGTATAA
1 ACATAGACG--TAG
83941 ACATAGACGTAG
1 ACATAGACGTAG
83953 ACATAGACGTAG
1 ACATAGACGTAG
* *
83965 ACGTAGATGTAG
1 ACATAGACGTAG
83977 ACATAGACGT--
1 ACATAGACGTAG
* * *
83987 --ATAAACATAA
1 ACATAGACGTAG
* * *
83997 ACATAAACTTAA
1 ACATAGACGTAG
* * *
84009 ACATAAACATAA
1 ACATAGACGTAG
*
84021 ACATAGACGTAA
1 ACATAGACGTAG
84033 ACATAGACGTAG
1 ACATAGACGTAG
*
84045 ACGTAGACGTAG
1 ACATAGACGTAG
*
84057 ACGTAGACGTAG
1 ACATAGACGTAG
84069 A-AGTAGACGTAG
1 ACA-TAGACGTAG
*
84081 ACGTAGACGTAG
1 ACATAGACGTAG
*
84093 ACGTAGACGTAG
1 ACATAGACGTAG
*
84105 ACGTAGACGTAG
1 ACATAGACGTAG
*
84117 ACGTAGACGTAG
1 ACATAGACGTAG
84129 AC
1 AC
84131 GCACACGTAC
Statistics
Matches: 583, Mismatches: 87, Indels: 44
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.01
8 7 0.01
10 4 0.01
11 9 0.02
12 525 0.90
14 33 0.06
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.19
Consensus pattern (12 bp):
ACATAGACGTAG
Found at i:83455 original size:36 final size:36
Alignment explanation
Indices: 82893--83550 Score: 572
Period size: 36 Copynumber: 18.4 Consensus size: 36
82883 GTAGACGTAG
* * *
82893 ACATAGACATAGACATGAACATGAACATGAACATGA
1 ACATAAACATAGACATAAACATGAACATAAACATGA
* * *
82929 ACATGAACAT-GAACATGAACATGAACATGAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
* * *
82965 ACATGAACAT-GAACATGAACATGAACATGAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
* * *
83001 ACATGAACAT-GAACATGAACATGAACATGAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
* * * * *
83037 ACATGAACAT-GAACATGATCATGAACATGATCATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
* * * *
83073 ACATGATCAT-GAACATGATCATGAACATAAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
83109 ACATAAACAT-GAACATAAACATGAAC-----C-TGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
83139 ACATAAACAT-GAACATAAACATGAACATAAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
*
83175 ACATAAACAT-GAACATAAACATGAACATGAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
* * * * * *
83211 ACATGAACATAAACATGAACATAAACATGAACATAA
1 ACATAAACATAGACATAAACATGAACATAAACATGA
83247 ACATAAACAT-GAACATAAACATGAACATAAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
83283 ACATAAACAT-GAACATAAACATGAACATAAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
*
83319 ACATAAACAT-GAACATAAACATAAACATAAACATGA
1 ACATAAACATAG-ACATAAACATGAACATAAACATGA
* *
83355 ACATAAACATGA-ACATAAACATGATCATAAACAAGA
1 ACATAAACAT-AGACATAAACATGAACATAAACATGA
83391 ACATAAACATGA-ACATAAACATGAACATAAACATGA
1 ACATAAACAT-AGACATAAACATGAACATAAACATGA
* * * * *
83427 ACATACACGTAGACATAAACGT-AGACATAGACGTAG-
1 ACATAAACATAGACATAAACATGA-ACATAAACAT-GA
* * * * *
83463 ACATAGACGTAGACATAGACATAAACGTAAACAT-A
1 ACATAAACATAGACATAAACATGAACATAAACATGA
* * *
83498 GACATAGACATAGACGTAAACAT-AGACGTAAACAT-A
1 -ACATAAACATAGACATAAACATGA-ACATAAACATGA
83534 GACGTATAAACATAGAC
1 -AC--ATAAACATAGAC
83551 GTAGACATAG
Statistics
Matches: 558, Mismatches: 44, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
30 29 0.05
31 1 0.00
35 5 0.01
36 510 0.91
37 2 0.00
38 11 0.02
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (36 bp):
ACATAAACATAGACATAAACATGAACATAAACATGA
Found at i:83463 original size:6 final size:6
Alignment explanation
Indices: 83433--84131 Score: 214
Period size: 6 Copynumber: 115.5 Consensus size: 6
83423 ATGAACATAC
* * * * *
83433 ACGTAG ACATAA ACGTAG ACATAG ACGTAG ACATAG ACGTAG ACATAG
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * * *
83481 ACATAA ACGTAA ACATAG ACATAG ACATAG ACGTAA ACATAG ACGTAA
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * ** * **
83529 ACATAG ACGTATAA ACATAG ACGTAG ACATAG ACAAAG AAGTAG ACAAAG
1 ACGTAG ACG--TAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * * *
83579 AAGTAG ACGTAG ACGTAC ACGTAG ATGTAC ACGTAC ACATAT ATGTAC
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * * * * *
83627 ATGTAC ACGTAC ACGTAT ACGTAC ACATAC ACGTAT ACATAC ACGTAC
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * ** * * * *
83675 ACGTAC ACGTAC ATGTAT ACATAC ACGTAC ATATAC ACGTAT ACATAC
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
** * * * * * * * * *
83723 ATATAC ACGTAC ACGTAT ACGTAC ACATAC ACGTAC ACGTAC ACGTAA
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * *
83771 ACGTAC ACGTAA ACGTAC ACGTAT ACGTAA ACGTAA ACGTAA ACGTAA
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * ** ** ** * * *
83819 ACATAA ACATAA ACATAA AATTA- ATATA- ATATAG ACATAC ACGTAA
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * * * *
83865 ACATAG ACGTAA ACATAG ACGTATAA ACATAA ACATAA ACATAG ACGTAA
1 ACGTAG ACGTAG ACGTAG ACG--TAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * *
83915 ACATAG ACGTAG ACATAG ACGTATAA ACATAG ACGTAG ACATAG ACGTAG
1 ACGTAG ACGTAG ACGTAG ACG--TAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * * * * * * * *
83965 ACGTAG ATGTAG ACATAG ACGTATAA ACATAA ACATAA ACTTAA ACATAA
1 ACGTAG ACGTAG ACGTAG ACG--TAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * * *
84015 ACATAA ACATAG ACGTAA ACATAG ACGTAG ACGTAG ACGTAG ACGTAG
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
*
84063 ACGTAG AAGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
84111 ACGTAG ACGTAG ACGTAG ACG
1 ACGTAG ACGTAG ACGTAG ACG
84132 CACACGTACA
Statistics
Matches: 553, Mismatches: 131, Indels: 18
0.79 0.19 0.03
Matches are distributed among these distances:
5 8 0.01
6 529 0.96
8 16 0.03
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.19
Consensus pattern (6 bp):
ACGTAG
Found at i:83509 original size:24 final size:24
Alignment explanation
Indices: 82661--83559 Score: 416
Period size: 24 Copynumber: 37.5 Consensus size: 24
82651 CGTAGACGTC
82661 ACATAGACATAAACATAAGACATAG
1 ACATAGACATAAACATAA-ACATAG
* * *
82686 ACGTAGACATAAACGTAGACATAG
1 ACATAGACATAAACATAAACATAG
* * * *
82710 ACGTAGACATAGACGTAGACATAG
1 ACATAGACATAAACATAAACATAG
* * * * *
82734 ACGTAAACATAGACGTAGACATAG
1 ACATAGACATAAACATAAACATAG
* * *
82758 ACGTAGACATAGACGTAAACATAG
1 ACATAGACATAAACATAAACATAG
*
82782 ACGTATAAACATAAACATAAACATA-
1 AC--ATAGACATAAACATAAACATAG
* *
82807 ACATA-AGCATAGACGTAAACATAG
1 ACATAGA-CATAAACATAAACATAG
* * *
82831 ACGTAGACATAGACGTAAACATAG
1 ACATAGACATAAACATAAACATAG
* * *
82855 AC---G-TATAAACATAGACGTAG
1 ACATAGACATAAACATAAACATAG
* * * *
82875 ACATAGACGTAGACGTAGACATAG
1 ACATAGACATAAACATAAACATAG
* *
82899 ACATAGACATGAACATGAACAT-G
1 ACATAGACATAAACATAAACATAG
* *
82922 AACAT-GAACATGAACATGAACAT-G
1 -ACATAG-ACATAAACATAAACATAG
* *
82946 AACAT-GAACATGAACATGAACAT-G
1 -ACATAG-ACATAAACATAAACATAG
* *
82970 AACAT-GAACATGAACATGAACAT-G
1 -ACATAG-ACATAAACATAAACATAG
* *
82994 AACAT-GAACATGAACATGAACAT-G
1 -ACATAG-ACATAAACATAAACATAG
* *
83018 AACAT-GAACATGAACATGAACAT-G
1 -ACATAG-ACATAAACATAAACATAG
* * *
83042 AACAT-GAACATGATCATGAACAT-G
1 -ACATAG-ACATAAACATAAACATAG
* * *
83066 ATCAT-GAACATGATCATGAACAT-G
1 A-CATAG-ACATAAACATAAACATAG
* *
83090 ATCAT-GAACATAAACATGAACATAA
1 A-CATAG-ACATAAACATAAACATAG
* *
83115 ACAT-GAACATAAACATGAACCT-G
1 ACATAG-ACATAAACATAAACATAG
* *
83138 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
* *
83162 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
* * *
83186 AACATAAACATGAACATGAACAT-G
1 -ACATAGACATAAACATAAACATAG
* *
83210 AACAT-GAACATAAACATGAACATAA
1 -ACATAG-ACATAAACATAAACATAG
83235 ACAT-GAACATAAACATAAACAT-G
1 ACATAG-ACATAAACATAAACATAG
* *
83258 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
* *
83282 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
* *
83306 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
*
83330 AACATAAACATAAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
* *
83354 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
*
83378 ATCATAAACA-AGAACATAAACAT-G
1 A-CATAGACATA-AACATAAACATAG
* *
83402 AACATAAACATGAACATAAACAT-G
1 -ACATAGACATAAACATAAACATAG
* * * *
83426 AACATACACGTAGACATAAACGTAG
1 -ACATAGACATAAACATAAACATAG
* * * *
83451 ACATAGACGTAGACATAGACGTAG
1 ACATAGACATAAACATAAACATAG
*
83475 ACATAGACATAAACGTAAACATAG
1 ACATAGACATAAACATAAACATAG
* *
83499 ACATAGACATAGACGTAAACATAG
1 ACATAGACATAAACATAAACATAG
* * *
83523 ACGTAAACATAGACGTATAAACATAG
1 ACATAGACATAAAC--ATAAACATAG
*
83549 ACGTAGACATA
1 ACATAGACATA
83560 GACAAAGAAG
Statistics
Matches: 779, Mismatches: 69, Indels: 51
0.87 0.08 0.06
Matches are distributed among these distances:
20 14 0.02
21 1 0.00
22 1 0.00
23 22 0.03
24 684 0.88
25 21 0.03
26 36 0.05
ACGTcount: A:0.52, C:0.17, G:0.14, T:0.17
Consensus pattern (24 bp):
ACATAGACATAAACATAAACATAG
Found at i:83918 original size:50 final size:50
Alignment explanation
Indices: 83853--84043 Score: 229
Period size: 50 Copynumber: 3.7 Consensus size: 50
83843 TATAATATAG
*
83853 ACATACACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
1 ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
* * * *
83903 ACATAGACGTAAACATAGACGTAGACATAGACGTATAAACATAGACGTAG
1 ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
* * * *
83953 ACATAGACGTAGACGTAGATGTAGACATAGACGTATAAACATAAACATAAACTTAA
1 ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAAC----A--TAA
* *
84009 ACATAAACATAAACATAGACGTAAACATAGACGTA
1 ACATAGACGTAAACATAGACGTAAACATAGACGTA
84044 GACGTAGACG
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 87 0.74
56 31 0.26
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (50 bp):
ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
Found at i:84138 original size:12 final size:12
Alignment explanation
Indices: 84123--84457 Score: 583
Period size: 12 Copynumber: 28.4 Consensus size: 12
84113 GTAGACGTAG
*
84123 ACGTAGACGCAC
1 ACGTACACGCAC
84135 ACGTACACGCAC
1 ACGTACACGCAC
84147 ACGTACACGCAC
1 ACGTACACGCAC
84159 ACGTACACGCAC
1 ACGTACACGCAC
84171 ACGTACACGCAC
1 ACGTACACGCAC
84183 ACGTACACGCAC
1 ACGTACACGCAC
84195 ACGTACACGCAC
1 ACGTACACGCAC
84207 ACGTACACGCAC
1 ACGTACACGCAC
84219 ACGTACACGCAC
1 ACGTACACGCAC
84231 ACGTACACGCAC
1 ACGTACACGCAC
84243 ACGTACACGCAC
1 ACGTACACGCAC
84255 ACGTACACGCAC
1 ACGTACACGCAC
84267 ACGTACACGCAC
1 ACGTACACGCAC
84279 ACGTACACGCAC
1 ACGTACACGCAC
84291 ACGTACACGCAC
1 ACGTACACGCAC
84303 ACGT------AC
1 ACGTACACGCAC
84309 ACGTACACGCAC
1 ACGTACACGCAC
84321 ACGTACACGCAC
1 ACGTACACGCAC
84333 ACGTACACGCAC
1 ACGTACACGCAC
84345 ACGTACACGCAC
1 ACGTACACGCAC
84357 ACGTACACGCAC
1 ACGTACACGCAC
84369 ACGTACACGCAC
1 ACGTACACGCAC
*
84381 ATGTACACGCAC
1 ACGTACACGCAC
84393 ACGTACACGCAC
1 ACGTACACGCAC
84405 ACGTACACGCAC
1 ACGTACACGCAC
*
84417 ACGTACACGTAC
1 ACGTACACGCAC
*
84429 ACGTACACGTAC
1 ACGTACACGCAC
*
84441 ACGTACACGTAC
1 ACGTACACGCAC
84453 ACGTA
1 ACGTA
84458 AACGTAAACG
Statistics
Matches: 313, Mismatches: 4, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
6 6 0.02
12 307 0.98
ACGTcount: A:0.33, C:0.40, G:0.17, T:0.10
Consensus pattern (12 bp):
ACGTACACGCAC
Found at i:84490 original size:6 final size:6
Alignment explanation
Indices: 83585--84487 Score: 514
Period size: 6 Copynumber: 149.8 Consensus size: 6
83575 AAAGAAGTAG
* * * * * * *
83585 ACGTAG ACGTAC ACGTAG ATGTAC ACGTAC ACATAT ATGTAC ATGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
83633 ACGTAC ACGTAT ACGTAC ACATAC ACGTAT ACATAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * ** * * **
83681 ACGTAC ATGTAT ACATAC ACGTAC ATATAC ACGTAT ACATAC ATATAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * *
83729 ACGTAC ACGTAT ACGTAC ACATAC ACGTAC ACGTAC ACGTAA ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * *
83777 ACGTAA ACGTAC ACGTAT ACGTAA ACGTAA ACGTAA ACGTAA ACATAA
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * ** ** ** * * * * *
83825 ACATAA ACATAA AATTA- ATATA- ATATAG ACATAC ACGTAA ACATAG
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * * * * * *
83871 ACGTAA ACATAG ACGTATAA ACATAA ACATAA ACATAG ACGTAA ACATAG
1 ACGTAC ACGTAC ACG--TAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * * * *
83921 ACGTAG ACATAG ACGTATAA ACATAG ACGTAG ACATAG ACGTAG ACGTAG
1 ACGTAC ACGTAC ACG--TAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * * * * * * * *
83971 ATGTAG ACATAG ACGTATAA ACATAA ACATAA ACTTAA ACATAA ACATAA
1 ACGTAC ACGTAC ACG--TAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * * *
84021 ACATAG ACGTAA ACATAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * *
84069 AAGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * *
84117 ACGTAG ACGTAG ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
84165 ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
84213 ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
84261 ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
84309 ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC ACGTAC ACGCAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * *
84357 ACGTAC ACGCAC ACGTAC ACGCAC ATGTAC ACGCAC ACGTAC ACGCAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
*
84405 ACGTAC ACGCAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * *
84453 ACGTAA ACGTAA ACGTAA ACGTAA ACGTAA ACGTA
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTA
84488 AACATAAACA
Statistics
Matches: 745, Mismatches: 145, Indels: 14
0.82 0.16 0.02
Matches are distributed among these distances:
5 8 0.01
6 725 0.97
8 12 0.02
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.16
Consensus pattern (6 bp):
ACGTAC
Found at i:84495 original size:6 final size:6
Alignment explanation
Indices: 84456--84796 Score: 128
Period size: 6 Copynumber: 56.2 Consensus size: 6
84446 CACGTACACG
* * * * *
84456 TAAACG TAAACG TAAACG TAAACG TAAACG TAAACA TAAACA T-AACA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
* * * * * * * * *
84503 TTAATA T-AATA TAGACA TACACG TAAACA TAGACG TAAACA TAGACGTA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAAC--A
* * * * * *
84552 TAAACA TAAACA TAAACA TAGACG TAAACA TAGACG TAGACA TAGACGTA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAAC--A
* * * * * * * * * * *
84602 TAAACA TAGACG TAGACA TAGACG TAGACG TAGACG TAGACA TAGACGTA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAAC--A
* * *
84652 TAAACA TAAACT TAAACA TAAACA TAAACA TAAACA TAGACG TAAACA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
* * * * * * * ** * * *
84700 TAGACG TAGACG TAGACG TAGATG TAAAGA TAAACA TGAACA TGAACA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
* * * * * * * *
84748 TGAACA TGAACA TGAACA TGAACA TGAACA TGAACA TGAACA TGAACA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
84796 T
1 T
84797 GAACGTGAAC
Statistics
Matches: 285, Mismatches: 42, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
5 10 0.04
6 260 0.91
8 15 0.05
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (6 bp):
TAAACA
Found at i:84495 original size:12 final size:12
Alignment explanation
Indices: 84453--84686 Score: 150
Period size: 12 Copynumber: 19.2 Consensus size: 12
84443 GTACACGTAC
*
84453 ACGTAAACGTAA
1 ACGTAAACATAA
*
84465 ACGTAAACGTAA
1 ACGTAAACATAA
*
84477 ACGTAAACGTAA
1 ACGTAAACATAA
*
84489 ACATAAACAT-A
1 ACGTAAACATAA
* * *
84500 ACATTAATATAA
1 ACGTAAACATAA
* *
84512 TA--TAGACATAC
1 -ACGTAAACATAA
*
84523 ACGTAAACATAG
1 ACGTAAACATAA
*
84535 ACGTAAACATAG
1 ACGTAAACATAA
84547 ACGTATAAACATAA
1 ACG--TAAACATAA
* *
84561 ACATAAACATAG
1 ACGTAAACATAA
*
84573 ACGTAAACATAG
1 ACGTAAACATAA
* *
84585 ACGTAGACATAG
1 ACGTAAACATAA
*
84597 ACGTATAAACATAG
1 ACG--TAAACATAA
* *
84611 ACGTAGACATAG
1 ACGTAAACATAA
* * *
84623 ACGTAGACGTAG
1 ACGTAAACATAA
* *
84635 ACGTAGACATAG
1 ACGTAAACATAA
84647 ACGTATAAACATAA
1 ACG--TAAACATAA
*
84661 ACTTAAACATAA
1 ACGTAAACATAA
*
84673 ACATAAACATAA
1 ACGTAAACATAA
84685 AC
1 AC
84687 ATAGACGTAA
Statistics
Matches: 189, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
10 1 0.01
11 14 0.07
12 143 0.76
13 1 0.01
14 30 0.16
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.19
Consensus pattern (12 bp):
ACGTAAACATAA
Found at i:84582 original size:50 final size:50
Alignment explanation
Indices: 84517--84707 Score: 238
Period size: 50 Copynumber: 3.7 Consensus size: 50
84507 TATAATATAG
*
84517 ACATACACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
1 ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
* * * *
84567 ACATAGACGTAAACATAGACGTAGACATAGACGTATAAACATAGACGTAG
1 ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
* * *
84617 ACATAGACGTAGACGTAGACGTAGACATAGACGTATAAACATAAACTTAAACATAA
1 ACATAGACGTAAACATAGACGTAAACATAGACGTATAAAC----A--TAAACATAA
* *
84673 ACATAAACATAAACATAGACGTAAACATAGACGTA
1 ACATAGACGTAAACATAGACGTAAACATAGACGTA
84708 GACGTAGACG
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 83 0.69
54 1 0.01
56 36 0.30
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (50 bp):
ACATAGACGTAAACATAGACGTAAACATAGACGTATAAACATAAACATAA
Found at i:84820 original size:6 final size:6
Alignment explanation
Indices: 84732--84818 Score: 156
Period size: 6 Copynumber: 14.5 Consensus size: 6
84722 TGTAAAGATA
84732 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* *
84780 AACATG AACATG AACATG AACGTG AACATG AACGTG AAC
1 AACATG AACATG AACATG AACATG AACATG AACATG AAC
84819 GTCAACGTGA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.16
Consensus pattern (6 bp):
AACATG
Found at i:84825 original size:12 final size:12
Alignment explanation
Indices: 84798--84844 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
84788 CATGAACATG
* *
84798 AACGTGAACATG
1 AACGTGAACGTC
84810 AACGTGAACGTC
1 AACGTGAACGTC
84822 AACGTGAACGTC
1 AACGTGAACGTC
*
84834 AACGTAAACGT
1 AACGTGAACGT
84845 AAACATAGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (12 bp):
AACGTGAACGTC
Found at i:84829 original size:18 final size:18
Alignment explanation
Indices: 84730--84844 Score: 68
Period size: 18 Copynumber: 6.4 Consensus size: 18
84720 GATGTAAAGA
* * *
84730 TAAACATGAACATGAACA
1 TAAACGTGAACGTGAACG
* * * *
84748 TGAACATGAACATGAACA
1 TAAACGTGAACGTGAACG
* * * *
84766 TGAACATGAACATGAACA
1 TAAACGTGAACGTGAACG
* * *
84784 TGAACATGAACATGAACG
1 TAAACGTGAACGTGAACG
* *
84802 TGAACATGAACGTGAACG
1 TAAACGTGAACGTGAACG
* *
84820 TCAACGTGAACGTCAACG
1 TAAACGTGAACGTGAACG
84838 TAAACGT
1 TAAACGT
84845 AAACATAGCC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 90 1.00
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.17
Consensus pattern (18 bp):
TAAACGTGAACGTGAACG
Found at i:106186 original size:2 final size:2
Alignment explanation
Indices: 106179--106232 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
106169 ATTTGCAAGC
*
106179 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106220 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
106233 TGCATTCTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.