Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004426.1 Hibiscus syriacus cultivar Beakdansim tig00009705_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: 282303
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:2664 original size:20 final size:22
Alignment explanation
Indices: 2627--2667 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2617 TAAAACAATG
2627 ATATAATGAAATATTAAAAATT
1 ATATAATGAAATATTAAAAATT
*
2649 ATATAATTAAA-A-TAAAAAT
1 ATATAATGAAATATTAAAAAT
2668 ATTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
ATATAATGAAATATTAAAAATT
Found at i:2671 original size:22 final size:22
Alignment explanation
Indices: 2617--2671 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
2607 GATTACTTAT
*
2617 TAAAACAATGATATAATGAAATA
1 TAAAA-AATTATATAATGAAATA
* *
2640 TTAAAAATTATATAATTAAA-A
1 TAAAAAATTATATAATGAAATA
2661 TAAAAATATTA
1 TAAAAA-ATTA
2672 AATTATATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
23 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
TAAAAAATTATATAATGAAATA
Found at i:2774 original size:19 final size:20
Alignment explanation
Indices: 2742--2870 Score: 68
Period size: 21 Copynumber: 6.5 Consensus size: 20
2732 CTTTTATGAA
* *
2742 ATTAATAAATAATATTA-AT
1 ATTATTAAAAAATATTATAT
*
2761 TTTATTAAAAAATATTATAT
1 ATTATTAAAAAATATTATAT
* ** *
2781 ATTATTAAAATAAAAGAAAAT
1 ATTATTAAAA-AATATTATAT
* ** *
2802 ATTA-TATATTATAATA-AT
1 ATTATTAAAAAATATTATAT
* *
2820 A-TAATAAAATATATTACTAT
1 ATTATTAAAAAATATTA-TAT
* *
2840 ATCATTAAAAAATAATATTAT
1 ATTATTAAAAAATATTA-TAT
2861 ATTATTAAAA
1 ATTATTAAAA
2871 TTATCAATAA
Statistics
Matches: 81, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
17 2 0.02
18 12 0.15
19 17 0.21
20 17 0.21
21 33 0.41
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (20 bp):
ATTATTAAAAAATATTATAT
Found at i:2806 original size:28 final size:29
Alignment explanation
Indices: 2768--2856 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 29
2758 AATTTTATTA
2768 AAAAATATTATATATTATTAAAATA-AA-
1 AAAAATATTATATATTATTAAAATATAAT
2795 AGAAAATATTATATATTA-TAATAATATAAT
1 A-AAAATATTATATATTATTAA-AATATAAT
* *
2825 AAAATATATTACTATATCATTAAAAAATAAT
1 AAAA-ATATTA-TATATTATTAAAATATAAT
2856 A
1 A
2857 TTATATTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.08
28 20 0.38
29 5 0.09
30 7 0.13
31 14 0.26
32 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (29 bp):
AAAAATATTATATATTATTAAAATATAAT
Found at i:3640 original size:2 final size:2
Alignment explanation
Indices: 3633--3665 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3623 TAAATTTCAC
*
3633 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3666 CACACATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10280 original size:21 final size:20
Alignment explanation
Indices: 10251--10292 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10241 AATCAAACAA
10251 TTATAAAATTATCATTAAAAT
1 TTATAAAATTATCA-TAAAAT
* *
10272 TTATCAAATTATTATAAAAT
1 TTATAAAATTATCATAAAAT
10292 T
1 T
10293 GTAACTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATAAAATTATCATAAAAT
Found at i:10858 original size:60 final size:60
Alignment explanation
Indices: 10757--10938 Score: 199
Period size: 60 Copynumber: 3.0 Consensus size: 60
10747 TTGGATGAAA
* * * * * *
10757 TTGGGGATAAAATT-GAA-GTTGCAAAAGTTTAGGGACCAATTTAGAATGATATTCATTA-T
1 TTGGGGATGAAATTGGAATGTT-TAAAAGTTTAAGGACTAATTTAGAATGAGAGTCA-TAGT
* *
10816 TTGGGGATGAAATTGGAATGTTTAAAAGTTTAATGACTAATTTAGAATAAGAGTCATAGT
1 TTGGGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
* * * * * *
10876 TTTGAGATGAAATTGCAATGTTTAAAAGTTTAAGGACTAATTTAAAATGAAAGCCATAGT
1 TTGGGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
10936 TTG
1 TTG
10939 AGGACATTTG
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
59 15 0.15
60 85 0.83
61 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.35
Consensus pattern (60 bp):
TTGGGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
Found at i:11508 original size:19 final size:19
Alignment explanation
Indices: 11484--11520 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11474 CGGCCCAATC
11484 TAAAATAATATGTTTATTA
1 TAAAATAATATGTTTATTA
* *
11503 TAAAATATTATTTTTATT
1 TAAAATAATATGTTTATT
11521 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TAAAATAATATGTTTATTA
Found at i:17706 original size:27 final size:28
Alignment explanation
Indices: 17669--17725 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
17659 TTGTTTATTT
*
17669 ATTTGATAATC-TTGAATGTTTAGATTC
1 ATTTGAAAATCTTTGAATGTTTAGATTC
*
17696 ATTTGAAAATCTTTGAATGTTTTGATTC
1 ATTTGAAAATCTTTGAATGTTTAGATTC
17724 AT
1 AT
17726 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (28 bp):
ATTTGAAAATCTTTGAATGTTTAGATTC
Found at i:19355 original size:24 final size:24
Alignment explanation
Indices: 19302--19355 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
19292 CACCACTACT
* * *
19302 CATATAATTTGCATCGAAGTGCCG
1 CATAGAATTTGCACCGAAGTGCCA
*
19326 CGTAGAATTTGCACCGAAGTGCCA
1 CATAGAATTTGCACCGAAGTGCCA
19350 CATAGA
1 CATAGA
19356 TATGTCCTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
CATAGAATTTGCACCGAAGTGCCA
Found at i:19390 original size:24 final size:24
Alignment explanation
Indices: 19358--19427 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
19348 CACATAGATA
19358 TGTCCTGAAGGACCGCGTAGAATT
1 TGTCCTGAAGGACCGCGTAGAATT
* * *
19382 TGTCTTGAATGACCACGTAGAATT
1 TGTCCTGAAGGACCGCGTAGAATT
*
19406 TGTCCCGAAGGACCGCGTAGAA
1 TGTCCTGAAGGACCGCGTAGAA
19428 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (24 bp):
TGTCCTGAAGGACCGCGTAGAATT
Found at i:19847 original size:21 final size:21
Alignment explanation
Indices: 19819--19864 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
19809 TTCCTCACGA
19819 AATCCTTT-CAACTATCG-TTC
1 AATCCTTTGCAA-TATCGCTTC
*
19839 AATCTCTTTGCTATATCGCTTC
1 AATC-CTTTGCAATATCGCTTC
19861 AATC
1 AATC
19865 AGCACGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.24, C:0.28, G:0.07, T:0.41
Consensus pattern (21 bp):
AATCCTTTGCAATATCGCTTC
Found at i:20056 original size:18 final size:18
Alignment explanation
Indices: 20033--20081 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
20023 TTCTCTTCTA
20033 TGGTATCGATACCCACTT
1 TGGTATCGATACCCACTT
20051 TGGTATCGATACCCACTT
1 TGGTATCGATACCCACTT
*
20069 CGGTATCGATACC
1 TGGTATCGATACC
20082 ATTTTGGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (18 bp):
TGGTATCGATACCCACTT
Found at i:23161 original size:33 final size:33
Alignment explanation
Indices: 23124--23199 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
23114 AATGGTTTAT
*
23124 ATCATCTTCGATTAGTGCACCTCCAGGGTTTCA
1 ATCATCTTCGATTAGTGCACCTCCAGGGCTTCA
* *
23157 ATCATCTTCAATTGGTGCACCTCCAGGGCTTCA
1 ATCATCTTCGATTAGTGCACCTCCAGGGCTTCA
*
23190 ATCATATTCG
1 ATCATCTTCG
23200 GCTAGCAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (33 bp):
ATCATCTTCGATTAGTGCACCTCCAGGGCTTCA
Found at i:24034 original size:18 final size:18
Alignment explanation
Indices: 24011--24057 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
24001 GCACTTAAAA
* *
24011 TTTGTCTCGAATGACCAC
1 TTTGTCCCGAAAGACCAC
24029 TTTGTCCCGAAAGACCAC
1 TTTGTCCCGAAAGACCAC
*
24047 TATGTCCCGAA
1 TTTGTCCCGAA
24058 GGACTACTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (18 bp):
TTTGTCCCGAAAGACCAC
Found at i:24774 original size:20 final size:23
Alignment explanation
Indices: 24723--24778 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 23
24713 ACCCTTAACC
*
24723 TGGTATCGATA-CTACTATATTA
1 TGGTATCGATACCTACTACATTA
*
24745 TGGTACCGATACCTAC-ACA-T-
1 TGGTATCGATACCTACTACATTA
24765 TGGTATCGATACCT
1 TGGTATCGATACCT
24779 TATGAATGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
21 1 0.03
22 12 0.40
23 4 0.13
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (23 bp):
TGGTATCGATACCTACTACATTA
Found at i:25369 original size:3 final size:3
Alignment explanation
Indices: 25361--25401 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25351 ACGTATGAAG
25361 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
25402 TAACTCTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:28293 original size:20 final size:20
Alignment explanation
Indices: 28244--28295 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
28234 AATTGTAAAG
28244 ATTATAAATAATTTATTTGT
1 ATTATAAATAATTTATTTGT
* * * * *
28264 GTTTTTAATAGTTTATTTTT
1 ATTATAAATAATTTATTTGT
28284 ATTATAAATAAT
1 ATTATAAATAAT
28296 ATTTTTTTGA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTATAAATAATTTATTTGT
Found at i:34181 original size:4 final size:4
Alignment explanation
Indices: 34174--35729 Score: 2523
Period size: 4 Copynumber: 391.2 Consensus size: 4
34164 TATGTAACAA
34174 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34222 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
34270 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAC ACGCT A-AGT CAAAG ACTT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-AT ACA-T -ACAT ACAT
* * * * ** * *
34320 A-GT GAGGCAT ATAA ACAT ATAAT GTAA ACGGT A-ACT A-AT A-AT -CAT
1 ACAT -A--CAT ACAT ACAT A-CAT ACAT AC-AT ACA-T ACAT ACAT ACAT
* * **
34365 ACAT A-A- ACAATT ACTATT ATCATT TCAT ACA- AC-T -CAT ACTT TTAT
1 ACAT ACAT AC-A-T AC-A-T A-CA-T ACAT ACAT ACAT ACAT ACAT ACAT
** *
34410 ATGT AACAA ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
34459 ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT GCAT GCAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
34507 GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34555 ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34601 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34647 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34695 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34743 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34789 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34837 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34885 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34933 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34981 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35027 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35075 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35123 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35171 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35217 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35265 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35313 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35359 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35407 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35455 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35503 ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35549 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35597 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35645 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
35693 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
35730 TATGTCCTTA
Statistics
Matches: 1476, Mismatches: 40, Indels: 72
0.93 0.03 0.05
Matches are distributed among these distances:
2 16 0.01
3 11 0.01
4 1428 0.97
5 8 0.01
6 11 0.01
7 2 0.00
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:36082 original size:23 final size:23
Alignment explanation
Indices: 36048--36108 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
36038 CTCATATAAA
*
36048 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
36071 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
36094 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
36109 TATAATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:37117 original size:21 final size:21
Alignment explanation
Indices: 37085--37127 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
37075 TGTTTGTTTA
37085 ATTGAGAGTGCATCGATGCAC
1 ATTGAGAGTGCATCGATGCAC
37106 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATGCAC
37127 A
1 A
37128 CAACCCAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATGCAC
Found at i:42440 original size:3 final size:3
Alignment explanation
Indices: 42432--42458 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
42422 CGATTAACAA
42432 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
42459 TTGTAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44521 original size:5 final size:5
Alignment explanation
Indices: 44504--44636 Score: 77
Period size: 5 Copynumber: 27.6 Consensus size: 5
44494 TAAAAAAATG
* *
44504 ATAAA AT-AA ATAAC ATAAA ATAAA A-ACAA ATAAC ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA
* * * * * * *
44552 ACAAA AGAAA ATAAG A-AAA AGAAA ATTAA ATCAA ATAAA A-AGAA A-CAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA
*
44600 A-AAA ATTAA AT-AA ATAAA ATTAAA A-AAA ATAGAA ATA
1 ATAAA ATAAA ATAAA ATAAA A-TAAA ATAAA ATA-AA ATA
44637 TAAAAACGAA
Statistics
Matches: 101, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
4 27 0.27
5 63 0.62
6 11 0.11
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:44541 original size:29 final size:29
Alignment explanation
Indices: 44505--44565 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
44495 AAAAAAATGA
*
44505 TAAAAT-AAATAACATAAAATAAAA-ACAAA
1 TAAAATAAAATAA-ATAAAACAAAAGA-AAA
*
44534 TAACATAAAATAAATAAAACAAAAGAAAA
1 TAAAATAAAATAAATAAAACAAAAGAAAA
44563 TAA
1 TAA
44566 GAAAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (29 bp):
TAAAATAAAATAAATAAAACAAAAGAAAA
Found at i:44610 original size:28 final size:26
Alignment explanation
Indices: 44564--44628 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
44554 AAAAGAAAAT
*
44564 AAGAAAAAGAAAATTAAATCAAATAAA
1 AAGAAAAAAAAAATTAAAT-AAATAAA
44591 AAGAAACAAAAAAATTAAATAAATAAA
1 AAGAAA-AAAAAAATTAAATAAATAAA
**
44618 ATTAAAAAAAA
1 AAGAAAAAAAA
44629 TAGAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 17 0.50
28 12 0.35
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (26 bp):
AAGAAAAAAAAAATTAAATAAATAAA
Found at i:44618 original size:14 final size:14
Alignment explanation
Indices: 44573--44623 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
44563 TAAGAAAAAG
44573 AAAATTAAATCAAAT
1 AAAATTAAAT-AAAT
** *
44588 AAAAAGAAACAAA-
1 AAAATTAAATAAAT
44601 AAAATTAAATAAAT
1 AAAATTAAATAAAT
44615 AAAATTAAA
1 AAAATTAAA
44624 AAAAATAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 10 0.34
14 12 0.41
15 7 0.24
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATTAAATAAAT
Found at i:44629 original size:15 final size:15
Alignment explanation
Indices: 44540--44642 Score: 58
Period size: 14 Copynumber: 7.1 Consensus size: 15
44530 CAAATAACAT
44540 AAAAT-AAA-TAAAA
1 AAAATAAAATTAAAA
* *
44553 CAAAAGAAAA-TAAGA
1 -AAAATAAAATTAAAA
* *
44568 AAAAGAAAATTAAAT
1 AAAATAAAATTAAAA
*
44583 CAAATAAAA--AGAAA
1 AAAATAAAATTA-AAA
*
44597 CAAA-AAAATT-AAA
1 AAAATAAAATTAAAA
*
44610 TAAATAAAATTAAAA
1 AAAATAAAATTAAAA
44625 AAAATAGAAATATAAAA
1 AAAATA-AAAT-TAAAA
44642 A
1 A
44643 CGAAAATATA
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
13 11 0.15
14 25 0.35
15 25 0.35
16 4 0.06
17 6 0.08
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAATAAAATTAAAA
Found at i:45142 original size:20 final size:20
Alignment explanation
Indices: 45117--45158 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
45107 CGTCGGCTGT
*
45117 CGCAGACCGGCGCCGACCGC
1 CGCAGACCGACGCCGACCGC
45137 CGCAGACCGACGCCGACCGC
1 CGCAGACCGACGCCGACCGC
45157 CG
1 CG
45159 TTCATCAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.50, G:0.33, T:0.00
Consensus pattern (20 bp):
CGCAGACCGACGCCGACCGC
Found at i:47274 original size:85 final size:85
Alignment explanation
Indices: 47186--47823 Score: 660
Period size: 85 Copynumber: 7.7 Consensus size: 85
47176 TTACTTTAGT
* * * *
47186 TATGTTGTAAATTCGACATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGA
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGA
* **
47251 AAAACATTCTCGCCTTGAAT
66 AAAACCTTCTCGCCTTGAGC
* * * * * *
47271 TATGCTGTAAATTTGATATGTCATTGAGCTGAATGAAATCAAACTCAAAGGTTTTTGTTGACA-T
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGA
* *
47335 ATAACTTTCTCGCCTTGAGC
66 AAAACCTTCTCGCCTTGAGC
** * * * * * * *
47355 TATGCTGTAAATTTGATATATCTTTGAGTTGAATGTAATCGTACTTGAAAGTTATGGTT----G-
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGA
*
47415 ---ACCTTATCGCCTTGA-C
66 AAAACCTTCTCGCCTTGAGC
* *
47431 ATATGTTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGG--TTTGTTGACAG
1 -TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAG
* **
47494 ATAGCCCTTCTCGCCTTGAGC
65 AAAAACCTTCTCGCCTTGAGC
* *
47515 TATGCTATAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGG--TTTATTGACAGA
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGA
* * * *
47578 TAGACCTTCTCACCTTGACC
66 AAAACCTTCTCGCCTTGAGC
* * * *
47598 TATGCTGCAAATTTTATATGCCCTTGAGCTGAATGTAATCGAACTCTAAGGTTTTTGTTGGCAGA
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGA
* * *
47663 TAACCCTTCTCACCTTGAGC
66 AAAACCTTCTCGCCTTGAGC
* * *
47683 TATGATGTAAATTTTATATGGCCTTGAGCTGAATAG-AATCGAACTCGAAGGTTTTTGTTGACA-
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAAT-GTAATCGAACTCGAAGGTTTTTGTTGACAG
** *
47746 AATAGCCCTTCTCGGCTTGAGC
65 AA-AAACCTTCTCGCCTTGAGC
* * * *
47768 TATACTGTAAATTTGATATGTCCTTGAGCTGAGTGTAATCGAACTTGAAGGTTTTT
1 TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTT
47824 TACTGGCAGA
Statistics
Matches: 467, Mismatches: 70, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
75 4 0.01
76 1 0.00
77 55 0.12
79 1 0.00
83 136 0.29
84 67 0.14
85 202 0.43
86 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (85 bp):
TATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGA
AAAACCTTCTCGCCTTGAGC
Found at i:49449 original size:99 final size:99
Alignment explanation
Indices: 49277--49466 Score: 274
Period size: 99 Copynumber: 1.9 Consensus size: 99
49267 TATTATTATC
* * * *
49277 ACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTGGGCGTGTTTAACTAATTGCTCTAGAATG
1 ACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTGGGCGCGTTTAACCAATTACTCTAGAAGG
* *
49342 ATAACTCAAGCTTTATTGTATAGATAATATAATT
66 ACAACTCAAGCTTTATTGCATAGATAATATAATT
* * *
49376 ACCTTTATCAGGCTAGCTGAATCTTGTCCATAAAGTCGGGC-CGTTTAACCAATTACTTTAGAGG
1 ACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGT-GGGCGCGTTTAACCAATTACTCTAGAAG
*
49440 GACAGCTCAAGCTTTATTGCATAGATA
65 GACAACTCAAGCTTTATTGCATAGATA
49467 TAATATTATA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 76 0.95
100 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (99 bp):
ACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTGGGCGCGTTTAACCAATTACTCTAGAAGG
ACAACTCAAGCTTTATTGCATAGATAATATAATT
Found at i:53492 original size:5 final size:5
Alignment explanation
Indices: 53475--53539 Score: 69
Period size: 5 Copynumber: 12.8 Consensus size: 5
53465 GTAAAAAATG
* * * *
53475 ATAAA AT-AA ATAAC ATAAA ATAAA GTAAA ATAAA ACAAA ACAAA ATAGAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA
53525 ATAGAA ATAAA ATAA
1 ATA-AA ATAAA ATAA
53540 GAAAAAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
4 4 0.08
5 37 0.71
6 11 0.21
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:53548 original size:18 final size:17
Alignment explanation
Indices: 53516--53549 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
53506 AAAACAAAAC
*
53516 AAAATAGAAATAGAAAT
1 AAAATAGAAAAAGAAAT
53533 AAAATAAGAAAAAGAAA
1 AAAAT-AGAAAAAGAAA
53550 AAGAAGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATAGAAAAAGAAAT
Found at i:53581 original size:30 final size:29
Alignment explanation
Indices: 53492--53581 Score: 76
Period size: 30 Copynumber: 3.0 Consensus size: 29
53482 AAATAACATA
*
53492 AAATA-AAGTAAAATAAAACAAAACAAAATAG
1 AAATAGAAATAAAAT-AAA-AAAACAAAA-AG
*
53523 AAATAGAAATAAAATAAGAAAAAGAAAAAG
1 AAATAGAAATAAAATAA-AAAAACAAAAAG
* *
53553 AAGAT-TAAATCAAATAAAAAGAACAAAAA
1 AA-ATAGAAATAAAATAAAAA-AACAAAAA
53582 AATTAAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
29 3 0.06
30 21 0.42
31 17 0.34
32 9 0.18
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.12
Consensus pattern (29 bp):
AAATAGAAATAAAATAAAAAAACAAAAAG
Found at i:53650 original size:17 final size:17
Alignment explanation
Indices: 53630--53669 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
53620 AAAGAAAAAG
* *
53630 AAAAATATATATAAATA
1 AAAAATATAAAAAAATA
53647 AAAAATATAAAAAAATA
1 AAAAATATAAAAAAATA
53664 ATAAAA
1 A-AAAA
53670 AAGAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATATAAAAAAATA
Found at i:53656 original size:13 final size:13
Alignment explanation
Indices: 53630--53678 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
53620 AAAGAAAAAG
53630 AAAAATATATATAA
1 AAAAATA-ATATAA
53644 ATAAAA-AATATAA
1 A-AAAATAATATAA
*
53657 AAAAATAATAAAA
1 AAAAATAATATAA
53670 AAGAAATAA
1 AA-AAATAA
53679 ACCAATAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 4 0.13
13 15 0.48
14 8 0.26
15 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAAATAATATAA
Found at i:53676 original size:24 final size:25
Alignment explanation
Indices: 53618--53677 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
53608 AAATAAAAAG
* *
53618 AAAAAGAAAAAGAAAAATATATATA
1 AAAAAGAAATAGAAAAAAATATATA
*
53643 AATAAA-AAATATAAAAAAATA-ATA
1 AA-AAAGAAATAGAAAAAAATATATA
53667 AAAAAGAAATA
1 AAAAAGAAATA
53678 AACCAATAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 3 0.10
24 10 0.33
25 14 0.47
26 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (25 bp):
AAAAAGAAATAGAAAAAAATATATA
Found at i:58361 original size:25 final size:25
Alignment explanation
Indices: 58316--58374 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
58306 GTAAGACTTT
*
58316 TTATTATAATTAAAATATTATTAGTA
1 TTATTATATTTAAAATATTA-TAGTA
*
58342 TT-TTATATTTAAAA-ATTTATATTA
1 TTATTATATTTAAAATA-TTATAGTA
58366 TTATTATAT
1 TTATTATAT
58375 CGTGCCACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 7 0.24
25 20 0.69
26 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTATATTTAAAATATTATAGTA
Found at i:64467 original size:2 final size:2
Alignment explanation
Indices: 64360--64456 Score: 160
Period size: 2 Copynumber: 48.5 Consensus size: 2
64350 ACATGTACCA
*
64360 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AGT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
64403 AT AT AT AT AT AT AT A- AT CT 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
64444 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
64457 AAGTGTATAT
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.01
2 86 0.97
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:70959 original size:20 final size:20
Alignment explanation
Indices: 70934--70984 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
70924 ATACTTAAAG
70934 TAAATTATATATATAATTTC
1 TAAATTATATATATAATTTC
70954 TAAATTATATATATAATTTC
1 TAAATTATATATATAATTTC
70974 TAAATTATATA
1 TAAATTATATA
70985 AAAATTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATTATATATATAATTTC
Found at i:70964 original size:18 final size:18
Alignment explanation
Indices: 70941--70997 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 18
70931 AAGTAAATTA
70941 TATATATAATTTCTAAATT
1 TATATATAATTTCTAAA-T
70960 ATATATATAATTTCTAAAT
1 -TATATATAATTTCTAAAT
* *
70979 TATATAAAAATT-TAAAT
1 TATATATAATTTCTAAAT
70996 TA
1 TA
70998 AATTATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
17 7 0.20
18 10 0.29
19 1 0.03
20 17 0.49
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATATATAATTTCTAAAT
Found at i:71545 original size:38 final size:39
Alignment explanation
Indices: 71460--71556 Score: 94
Period size: 38 Copynumber: 2.6 Consensus size: 39
71450 AATCGGAGTC
*
71460 GGGTGGAAGATATAT-ATTTTTCGGATCGAATCGGTTAT
1 GGGTGGAGGATATATAATTTTTCGGATCGAATCGGTTAT
* * * *
71498 -GATGAAGGATATATAATTTTT-GGGTCGTATCGAGTT-T
1 GGGTGGAGGATATATAATTTTTCGGATCGAATCG-GTTAT
* *
71535 GGGTGGAGGATACATATTTTTT
1 GGGTGGAGGATATATAATTTTT
71557 TAGTCGAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
37 21 0.45
38 26 0.55
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.39
Consensus pattern (39 bp):
GGGTGGAGGATATATAATTTTTCGGATCGAATCGGTTAT
Found at i:80006 original size:26 final size:26
Alignment explanation
Indices: 79970--80029 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
79960 TATATATAAC
*
79970 AAAAA-AATAATAGTAATAATAAATA
1 AAAAATAATAATAATAATAATAAATA
*
79995 AAAAATAATAATAATAGTAATAAATA
1 AAAAATAATAATAATAATAATAAATA
80021 AAAACATAA
1 AAAA-ATAA
80030 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 5 0.16
26 22 0.71
27 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (26 bp):
AAAAATAATAATAATAATAATAAATA
Found at i:80636 original size:35 final size:35
Alignment explanation
Indices: 80597--80668 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
80587 TAAAAAAATC
80597 CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
*
80632 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
80667 CT
1 CT
80669 TCTTTGTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
Found at i:87422 original size:2 final size:2
Alignment explanation
Indices: 87415--87447 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
87405 AGTTATATGA
87415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87448 AAAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87480 original size:23 final size:23
Alignment explanation
Indices: 87450--87500 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
87440 TATATATAAA
*
87450 AAAAAATAATAGTAATAAAAAAT
1 AAAAAATAATAATAATAAAAAAT
* *
87473 AAAAAATAATAATAGTAATAAAT
1 AAAAAATAATAATAATAAAAAAT
87496 AAAAA
1 AAAAA
87501 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAAATAATAATAATAAAAAAT
Found at i:87483 original size:26 final size:27
Alignment explanation
Indices: 87445--87509 Score: 96
Period size: 26 Copynumber: 2.4 Consensus size: 27
87435 ATATATATAT
*
87445 ATAAAAAAAAATAATAGTAATAAA-AA
1 ATAAAAAATAATAATAGTAATAAATAA
87471 ATAAAAAATAATAATAGTAATAAATAA
1 ATAAAAAATAATAATAGTAATAAATAA
*
87498 AAACAAAAATAA
1 ATA-AAAAATAA
87510 AAGAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 23 0.66
27 4 0.11
28 8 0.23
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (27 bp):
ATAAAAAATAATAATAGTAATAAATAA
Found at i:87603 original size:21 final size:20
Alignment explanation
Indices: 87579--87626 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
87569 ATAAAGTTTA
*
87579 AATGAAATAAAAAATAATAAT
1 AATGAAAT-AAAAATAAAAAT
*
87600 AATGGAAATATAAATAAAAAT
1 AAT-GAAATAAAAATAAAAAT
87621 ATATGA
1 A-ATGA
87627 TATTAGTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (20 bp):
AATGAAATAAAAATAAAAAT
Found at i:88122 original size:34 final size:34
Alignment explanation
Indices: 88084--88150 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
88074 AAAATCTTAT
*
88084 TTTAGACTAGTATTTGAGTCCTAATCTAACTCTA
1 TTTAGACTAGTATTTGAGTCCTAATCCAACTCTA
88118 TTTAGACTAGTATTTGAGTCCTAATCCAACTCT
1 TTTAGACTAGTATTTGAGTCCTAATCCAACTCT
88151 TCTTTATTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (34 bp):
TTTAGACTAGTATTTGAGTCCTAATCCAACTCTA
Found at i:88883 original size:14 final size:16
Alignment explanation
Indices: 88854--88885 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
88844 CGTTCGTGAA
88854 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
88870 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
88884 CG
1 CG
88886 AACAGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:89178 original size:20 final size:18
Alignment explanation
Indices: 89141--89186 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
89131 TGTTTTTTGT
89141 GTTTGTG-TTGTTCGTTC
1 GTTTGTGTTTGTTCGTTC
89158 GTTTGTGTTTGTTTACGTTC
1 GTTTGTGTTTG-TT-CGTTC
*
89178 GTTTTTGTT
1 GTTTGTGTT
89187 CGATTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 2 0.08
20 13 0.52
ACGTcount: A:0.02, C:0.09, G:0.26, T:0.63
Consensus pattern (18 bp):
GTTTGTGTTTGTTCGTTC
Found at i:89241 original size:31 final size:31
Alignment explanation
Indices: 89204--89280 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
89194 CATTTAAATA
*
89204 AACGAACATGAATAAGCTATATTCCTTAATG
1 AACGAACATGAACAAGCTATATTCCTTAATG
*
89235 AACGAACATGAACAAGTTATATTCCTTAATG
1 AACGAACATGAACAAGCTATATTCCTTAATG
89266 AACGAACATGAACAA
1 AACGAACATGAACAA
89281 AAGAATTCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (31 bp):
AACGAACATGAACAAGCTATATTCCTTAATG
Found at i:103569 original size:23 final size:23
Alignment explanation
Indices: 103522--103571 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
103512 AATAACATAT
* **
103522 TAGGTATCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
103545 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
103568 TAGG
1 TAGG
103572 CATTTAACAG
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:0.08, G:0.20, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:103631 original size:87 final size:87
Alignment explanation
Indices: 103485--103647 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
103475 TATGTTATAT
*
103485 CATTTAACCAGAAATATTATCAAGCACAATAACATATTAGGTATCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
103550 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
103572 CATTTAA-CAGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
1 CATTTAACCA-GAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
103636 TAGCGCTTATAT
65 TAGCGCTTATAT
103648 TGACATATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 2 0.03
87 71 0.97
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:108025 original size:201 final size:199
Alignment explanation
Indices: 107599--108096 Score: 640
Period size: 201 Copynumber: 2.5 Consensus size: 199
107589 ATTTACACCA
* * * * *
107599 GTAAATTTCAATCGGTTACATTGTAAATTGACCTATTACATTATAATTTCTGGTCTCGATGTATT
1 GTAAATTTAAACCGGTTACATTGTAAAATGACCTATTACATTATAATTTTTGGTCTTGATGTATT
* * * * ** *
107664 TGGGGTCGATACTTTTTATAAATGTATCGAAATTTTATGCGTGGACATCGTTTGGCATTAATTAT
66 TGGGGTCGATAC-TTTTATAAATGTATCGACACTTTAAGCGTGCACAAAGTTTGGAATTAATTAT
* ** * * * *
107729 GGACATAAAGTATCGGCACAAATGTAAAAAGTATTGATACGTTATGTAGACCAATTTGCTCATAA
130 GGACAAAAAGTATCAACACAAATGAAAAAAGCATCGATACATTATGTAGACCAATTTGCTCATAA
107794 AACCG
195 AACCG
107799 GTAAATTTAAACCGGTTACATTGTAAAATGACCTATTACATTATAATTTTTGGTCTTGATGTATT
1 GTAAATTTAAACCGGTTACATTGTAAAATGACCTATTACATTATAATTTTTGGTCTTGATGTATT
*
107864 TGGGGTCGATACTTTTAATAAATGTATCGACACTTTAAGCGTGCACAAAGTTTGGGAATTCATTA
66 TGGGGTCGATACTTTT-ATAAATGTATCGACACTTTAAGCGTGCACAAAGTTT-GGAATTAATTA
* * *
107929 TGGATAAAAAGTATCAACACAAAT-AAATAAAGCATCGATACATTATTTAGA-CATATTTTCTCA
129 TGGACAAAAAGTATCAACACAAATGAAA-AAAGCATCGATACATTATGTAGACCA-ATTTGCTCA
107992 TAAAACCG
192 TAAAACCG
* * * * *
108000 GTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTATAGGTTTTTATGTATT
1 GTAAATTTAAACCGGTTACATTGTAAAATGACCTATTACATTATAATTTTTGGTCTTGATGTATT
* * * *
108065 TGGGATCGACACATGTTATAAATGTATAGACA
66 TGGGGTCGATAC-TTTTATAAATGTATCGACA
108097 TTTTTTTGTG
Statistics
Matches: 261, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
199 4 0.02
200 106 0.41
201 148 0.57
202 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (199 bp):
GTAAATTTAAACCGGTTACATTGTAAAATGACCTATTACATTATAATTTTTGGTCTTGATGTATT
TGGGGTCGATACTTTTATAAATGTATCGACACTTTAAGCGTGCACAAAGTTTGGAATTAATTATG
GACAAAAAGTATCAACACAAATGAAAAAAGCATCGATACATTATGTAGACCAATTTGCTCATAAA
ACCG
Found at i:108237 original size:20 final size:19
Alignment explanation
Indices: 108209--108247 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
108199 GGTATATTTA
108209 TACCGATTACATTATTAATT
1 TACCGATTACATTA-TAATT
*
108229 TACCTATTACATTATAATT
1 TACCGATTACATTATAATT
108248 ATGGGTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (19 bp):
TACCGATTACATTATAATT
Found at i:108269 original size:200 final size:200
Alignment explanation
Indices: 107764--108947 Score: 1328
Period size: 200 Copynumber: 5.9 Consensus size: 200
107754 AAAAAGTATT
* * ** * * * * * *
107764 GATACGTTATGTAGACCAATTTGCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAATG
1 GATACTTTATGTATACCTGTTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTAATTT
* * * * *
107829 ACCTATTACATTATAATTTTTGGTCTT-GATGTATTTGGGGTCGATACTT-TTAATAAATGTATC
65 ACCTATTACATTATAATTATGGGT-TTCGATGTTTTTGGGATCGACACTTGTT-ATAAATGTATC
* *** ** * * * * *** *
107892 GACACTTTAAG-CGTGCACAAAGTTTG-GGAATTCATTATGGATAAAAAGTATCAACAC-AAATA
128 GACACTTT--GTTGTGCACTTGGTTTGAAAAATACATTCTGGACAAAAAGTATCGACACTTGTTG
* ** **
107954 AATAAAGCATC
191 GAT-TTGTGTC
* * * * * * * * * *
107965 GATACATTATTTAGACATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTG
1 GATACTTTATGTATACCTGTTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTAATTT
* ** * * *
108030 ACCTATTACATTATAATTATAGGTTTTTATGTATTTGGGATCGACACATGTTATAAATGTATAGA
65 ACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
* * * * **
108095 CATTTTTTTGTGCACTTGGTTTGGAAAATACATTCTAGACAAAAAGTATCGACACTTGTTTTATT
130 CACTTTGTTGTGCACTTGGTTTGAAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATT
*
108160 TGTGTT
195 TGTGTC
* * * *
108166 GATACTTTATGTATACCTGTTTTCTCATAAATCGGTATATTTATACCGATTACATTATTAATTTA
1 GATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTA
**
108231 CCTATTACATTATAATTATGGGTTTCGACATTTTTGGGATCGACACTTGTTATAAATGTATCGAC
66 CCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAC
* ** * *
108296 ACTTTGTTGTACACTTGGTTAAAAAAATACACTCTGGGCAAAAAGTATCGACACTTGTTGGATTT
131 ACTTTGTTGTGCACTTGGTTTGAAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATTT
108361 GTGTC
196 GTGTC
*
108366 GATACTTTATGTATACCTGTTTTCTCATAAACCGATATATTTAGACCGGTTACATTGTTAATTTA
1 GATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTA
*
108431 CCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATTGAC
66 CCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAC
* **
108496 ATTTTGTTGTGCACTTGGTTTTTAAAATAC-TCTCTGGACAAAAAGTATCGACACTTGTTGGATT
131 ACTTTGTTGTGCACTTGGTTTGAAAAATACAT-TCTGGACAAAAAGTATCGACACTTGTTGGATT
108560 TGTGTC
195 TGTGTC
**
108566 GATACTTTATGTATACCAATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTA
1 GATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTA
108631 CCTATTACATT-TAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAC
66 CCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAC
* **
108695 ACTTT-TTAGTGCACTTGGTTTTG--AAATACATTCTGGACCAAAAGTATCGACACTTGTTTTAT
131 ACTTTGTT-GTGCACTTGG-TTTGAAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGAT
*
108757 TTGTGTT
194 TTGTGTC
* * * * * * * *
108764 GATGCTTTTTGTACACCTGTTTTCTCAAAAATCGTTATATTTAGGCCGGTTACATTGTTATTTTA
1 GATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTA
* * * *
108829 CCTATTACATTAT-ATATATGTGTTTCGATGTTTTTAGTATCGACACTTGTTATAAATGTATTGA
66 CCTATTACATTATAAT-TATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGA
* * * * *
108893 CACTTTATCGTGCACTTGGTTTGAAAAATATATTCTGGACAACATGTATCGACAC
130 CACTTTGTTGTGCACTTGGTTTGAAAAATACATTCTGGACAAAAAGTATCGACAC
108948 GAATGAATAA
Statistics
Matches: 856, Mismatches: 113, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
198 114 0.13
199 128 0.15
200 444 0.52
201 165 0.19
202 5 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (200 bp):
GATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTA
CCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAC
ACTTTGTTGTGCACTTGGTTTGAAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATTT
GTGTC
Found at i:109147 original size:24 final size:23
Alignment explanation
Indices: 109120--109173 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
109110 AGTGGAGCCG
109120 AAATTAACATTTAAATTCAAACTC
1 AAATTAA-ATTTAAATTCAAACTC
109144 AAATTGAAATTTAAATTCAAACTC
1 AAATT-AAATTTAAATTCAAACTC
*
109168 TAATTA
1 AAATTA
109174 TAAATGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATTAAATTTAAATTCAAACTC
Found at i:109183 original size:24 final size:24
Alignment explanation
Indices: 109132--109183 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
109122 ATTAACATTT
* *
109132 AAATTCAAACTCAAATTGAAATTT
1 AAATTCAAACTCAAATTGAAAATG
*
109156 AAATTCAAACTCTAATT-ATAAATG
1 AAATTCAAACTCAAATTGA-AAATG
109180 AAAT
1 AAAT
109184 GAAAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATTCAAACTCAAATTGAAAATG
Found at i:117839 original size:20 final size:20
Alignment explanation
Indices: 117816--117860 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
117806 TTAACTTTTT
*
117816 CTTTTCTCTTTC-TTCCTTAA
1 CTTTTCTATTTCATT-CTTAA
*
117836 CTTTTCTATTTCATTTTTAA
1 CTTTTCTATTTCATTCTTAA
117856 CTTTT
1 CTTTT
117861 ACTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTCTATTTCATTCTTAA
Found at i:122162 original size:15 final size:15
Alignment explanation
Indices: 122122--122179 Score: 80
Period size: 15 Copynumber: 3.7 Consensus size: 15
122112 GGGCGATTGT
122122 TTGAGAAGGAGGTTGTGG
1 TTGAGAA-GAGG-TG-GG
122140 TTGAGAAGAGGTGGG
1 TTGAGAAGAGGTGGG
*
122155 TTGGGAAGAGGTGGG
1 TTGAGAAGAGGTGGG
122170 TTGAGAAGAG
1 TTGAGAAGAG
122180 CTTTGAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 25 0.66
16 2 0.05
17 4 0.11
18 7 0.18
ACGTcount: A:0.26, C:0.00, G:0.52, T:0.22
Consensus pattern (15 bp):
TTGAGAAGAGGTGGG
Found at i:123234 original size:200 final size:200
Alignment explanation
Indices: 122528--123828 Score: 1862
Period size: 199 Copynumber: 6.5 Consensus size: 200
122518 TTTTTAAATT
* * * ** * * * * *
122528 AAACTGGTATATTTATATCGGTTACATTGAAAAATGACCTATTACATTAAAATTTTGGGCTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * * *
122593 TGTTCTTAGGATCGATACTTGTTATAAATGTACCGACACTTTTTCC-TGCACTTGGTTTTTAAAA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC-TTTTCCGTGCACTTGGTTTTGAAAA
* * * * ** ** * *
122657 TACACTCTGGACAAAAAGTATTGACACTTATTGGATTTGTGTCGATACTTAATGTATATCTGTTT
130 TACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTT
*
122722 TCTCAT
195 TCTCAA
*
122728 AAACCAGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
*
122793 TGTTTTTGGGATCGACACTTATTATAAATGTATCGACACTTTTCCGTGCACTTGG-TTT-ATAAA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTCCGTGCACTTGGTTTTGA-AAA
* * * *
122856 TACATTATAGACCAAAAGTATCGACACTTGTTTTATTTGTGTCAATACTTTTTGTACACCTATTT
130 TACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTT
122921 TCTCAA
195 TCTCAA
* * *
122927 AAATCGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTACAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * *
122992 TATTTTTGGGATCGATACCTTTTTATAAATGTATCGACACTTTTCCGTGCACTTGGTTTGGAAAA
66 TGTTTTTGGGATCGACA-CTTGTTATAAATGTATCGACACTTTTCCGTGCACTTGGTTTTGAAAA
* *
123057 TACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATATTTTTTGTACACATGTTT
130 TACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTT
123122 TCTCAA
195 TCTCAA
* * *
123128 AAACCGGTATATTTAGATCGGTTACATTTTTAATTTACCTATTACATTATAATTATGGGTTTCAA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
**
123193 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTG-AAAT
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTCCGTGCACTTGGTTTTGAAAAT
* * *
123257 ACTTTCTGGACCAAAAGTATTGACACTTGTTTTATTTGTGTCAATACTTTTTGTACA-CTGTTTT
131 ACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTT
123321 CTCAA
196 CTCAA
** *
123326 AAATTGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
123391 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGT-TGTGCACTTGGTTTTTAAAA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TCCGTGCACTTGGTTTTGAAAA
* * ** * * * *
123455 TAC-TCTCTGGACAAAAAGTGTCGACACTTGTTGGATTTGTGTCGATACTTTATATATACCTATT
130 TACAT-TCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTT
*
123519 TTCTCAT
194 TTCTCAA
123526 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* **
123591 TGTTTTTGGGATCGACACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTG-AAAT
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTCCGTGCACTTGGTTTTGAAAAT
*
123655 ACATTCTGGACCAAAAGTATCGAAACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTT
131 ACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTT
123720 CTCAA
196 CTCAA
*
123725 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCAA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * *
123790 TATTTTTGGGATCGATACTTGTTGTAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
123829 ATAAGTTTAC
Statistics
Matches: 988, Mismatches: 102, Indels: 23
0.89 0.09 0.02
Matches are distributed among these distances:
198 128 0.13
199 414 0.42
200 301 0.30
201 144 0.15
202 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (200 bp):
AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTCCGTGCACTTGGTTTTGAAAAT
ACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTT
CTCAA
Found at i:124229 original size:19 final size:19
Alignment explanation
Indices: 124205--124249 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
124195 ATTTACATAT
124205 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
124224 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
124243 AAAATTA
1 AAAATTA
124250 ACCCTACATT
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:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:126448 original size:22 final size:22
Alignment explanation
Indices: 126420--126474 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
126410 AACTTGCATT
126420 TATAATAAAAGT-TATCATTTTA
1 TATAATAAAA-TATATCATTTTA
126442 TATAATAAATATACTATCATTTTA
1 TATAATAAA-ATA-TATCATTTTA
126466 TAT-ATAAAA
1 TATAATAAAA
126475 AAAACATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.37
23 6 0.20
24 13 0.43
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAATAAAATATATCATTTTA
Found at i:127756 original size:19 final size:19
Alignment explanation
Indices: 127728--127795 Score: 100
Period size: 19 Copynumber: 3.6 Consensus size: 19
127718 CATTTATACA
* *
127728 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTTT
127747 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
*
127766 ACCTATAACATCATTTTTT
1 ACCTATAATATCATTTTTT
*
127785 AACTATAATAT
1 ACCTATAATAT
127796 TAAATAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.46
Consensus pattern (19 bp):
ACCTATAATATCATTTTTT
Found at i:128153 original size:21 final size:21
Alignment explanation
Indices: 128129--128186 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
128119 TACAACTACC
128129 TAAGTGTCGATACTTTTATGT
1 TAAGTGTCGATACTTTTATGT
128150 TAAGTGTCGATACTTTTATGT
1 TAAGTGTCGATACTTTTATGT
*
128171 CAAGTGTCGATACTTT
1 TAAGTGTCGATACTTT
128187 CGATAGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (21 bp):
TAAGTGTCGATACTTTTATGT
Found at i:128759 original size:182 final size:182
Alignment explanation
Indices: 128241--129082 Score: 1072
Period size: 182 Copynumber: 4.6 Consensus size: 182
128231 TACACGTATT
* *
128241 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGTTTTACCGATTTTGTAATTTTGAGATCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
* * * *
128306 GTTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTTAAAAGTATCGACACT
66 ATTTTGTCATATTTTTAACTGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGACACT
* * * *
128371 TTATAGGCGCTATAACTTCTTCTATTTTAAATTCTTAAAA-TGTCGATACTTA
131 TTATAGGCACTATAACTTCTTCTCTTTTAAATTC-CAAAAGTGTCAATACTTA
* * * *
128423 TATTAAA-TCATCGACACTTTCAACATATCCGGTATCTTTTTACCGATTTTATCATTTTTGAGAC
1 TATTAAAGT-ATCGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCA-TTTTGAGAT
*
128487 CTG-TTTTGTCATATTTTT-ACTTGTTATATTATTATGGATCGATACATTTTTTAAAAGTATCGA
64 C-GATTTTGTCATATTTTTAAC-TGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGA
* * * *
128550 CACTTTATAGGCACTATAAATTCTTCTCTTTTAAACTCCAAAAGTATTAATACTTA
127 CACTTTATAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTA
** *
128606 TATTAAAGTATCGACACTTTCAACATATTTGGTAGCGTTTTACCGGTTTTGTCATTTTGAGATCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
* * *
128671 ATTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTGTCGATAC
66 ATTTTGTCATATTTTTAACTGTTATATTATTATGGATCGATACATTTT-ATAAAAGTATCGACAC
* ** * * *
128735 TTTTTAGGTGCTATAACTTCTTCTCTTTTAAATTACAAAAATGTCGATACTTA
130 TTTATAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTA
* * * *
128788 TATTAAATTATCGACATTTTCAACATATCCGGTAG-TTATTTACATG-TTTTGTCATTTTGAGAT
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGT-TTTAC-CGATTTTGTCATTTTGAGAT
* * * *
128851 CGGTTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGATATATTTTCATAAAA-TGTCGAC
64 CGATTTTGTCATATTTTTAACTGTTATATTATTATGGATCGATACATTTT-ATAAAAGTATCGAC
* *
128915 ACTTTTTAGGCACTATATCTTCTTCTCTTTTAAATT-CAGAAAGTGTCAATACTTA
128 ACTTTATAGGCACTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCAATACTTA
* * * * *
128970 TATTCAATTATTGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
* * * * *
129035 ATTTTATCATATTTTTACCTGTAATATTACTATGGAACGATACATTTT
66 ATTTTGTCATATTTTTAACTGTTATATTATTATGGATCGATACATTTT
129083 TCATTTGTAT
Statistics
Matches: 579, Mismatches: 66, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
181 6 0.01
182 409 0.71
183 162 0.28
184 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
ATTTTGTCATATTTTTAACTGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGACACT
TTATAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTA
Found at i:129022 original size:364 final size:365
Alignment explanation
Indices: 128241--129082 Score: 1205
Period size: 365 Copynumber: 2.3 Consensus size: 365
128231 TACACGTATT
*
128241 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGTTTTACCGATTTTGTAATTTTGAGATCG
1 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
* *
128306 GTTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTTAAAAGTATCGACACT
66 ATTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGACACT
*
128371 TTATAGGCGCTATAACTTCTTCTATTTTAAATTCTTAAAATGTCGATACTTATATTAAATCATCG
131 TTATAGGCGCTATAACTTCTTCTATTTTAAATTCTAAAAATGTCGATACTTATATTAAATCATCG
* *
128436 ACACTTTCAACATATCCGGTATCTTTTTACCGATTTTATCATTTTTGAGACCTGTTTTGTCATAT
196 ACACTTTCAACATATCCGGTATCTATTTACCGATTTTATCATTTTTGAGACCGGTTTTGTCATAT
*
128501 TTTTACTTGTTATATTATTATGGATCGATACATTTTTTAAAAGTATCGACACTTTATAGGCACTA
261 TTTTACTTGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGACACTTTATAGGCACTA
*
128566 TAAATTCTTCTCTTTTAAACTCCAAAAGTATTAATACTTA
326 TAAATTCTTCTCTTTTAAACTCCAAAAGTATCAATACTTA
* *
128606 TATTAAAGTATCGACACTTTCAACATATTTGGTAGCGTTTTACCGGTTTTGTCATTTTGAGATCG
1 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
* * * * *
128671 ATTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTGTCGATAC
66 ATTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTT-ATAAAAGTATCGACAC
* * * *
128735 TTTTTAGGTGCTATAACTTCTTCTCTTTTAAATTAC-AAAAATGTCGATACTTATATTAAATTAT
130 TTTATAGGCGCTATAACTTCTTCTATTTTAAATT-CTAAAAATGTCGATACTTATATTAAATCAT
* * * *
128799 CGACATTTTCAACATATCCGGTAGT-TATTTACATG-TTTTGTCA-TTTTGAGATCGGTTTTGTC
194 CGACACTTTCAACATATCCGGTA-TCTATTTAC-CGATTTTATCATTTTTGAGACCGGTTTTGTC
* * * *
128861 ATATTTTTAAC-TGTTATATTGTTATGGATCGATATATTTTCATAAAA-TGTCGACACTTTTTAG
257 ATATTTTT-ACTTGTTATATTATTATGGATCGATACATTTT-ATAAAAGTATCGACACTTTATAG
** * *
128924 GCACTATATCTTCTTCTCTTTTAAA-TTCAGAAAGTGTCAATACTTA
320 GCACTATAAATTCTTCTCTTTTAAACTCCA-AAAGTATCAATACTTA
* * * * * *
128970 TATTCAATTATTGACACTTTCAACATATCCGGTAGCGTTTTACCGATTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
* * *
129035 ATTTTATCATATTTTTACCTGTAATATTACTATGGAACGATACATTTT
66 ATTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTT
129083 TCATTTGTAT
Statistics
Matches: 425, Mismatches: 45, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
363 3 0.01
364 202 0.48
365 216 0.51
366 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (365 bp):
TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGTTTTACCGATTTTGTCATTTTGAGATCG
ATTTTATCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGACACT
TTATAGGCGCTATAACTTCTTCTATTTTAAATTCTAAAAATGTCGATACTTATATTAAATCATCG
ACACTTTCAACATATCCGGTATCTATTTACCGATTTTATCATTTTTGAGACCGGTTTTGTCATAT
TTTTACTTGTTATATTATTATGGATCGATACATTTTATAAAAGTATCGACACTTTATAGGCACTA
TAAATTCTTCTCTTTTAAACTCCAAAAGTATCAATACTTA
Found at i:134897 original size:2 final size:2
Alignment explanation
Indices: 134890--134916 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
134880 AATTGAAAAT
134890 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
134917 GACCCATCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:141708 original size:14 final size:15
Alignment explanation
Indices: 141686--141714 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
141676 TTTTATTTAA
141686 ATTATTTTTAATTTT
1 ATTATTTTTAATTTT
141701 ATTA-TTTTAATTTT
1 ATTATTTTTAATTTT
141715 CTAATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTATTTTTAATTTT
Found at i:142472 original size:26 final size:26
Alignment explanation
Indices: 142443--142493 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
142433 TAAACAAAGA
142443 TTAAAACTTTATAATTTTATAAGCTT
1 TTAAAACTTTATAATTTTATAAGCTT
142469 TTAAAACTTTATAATTTTATAAGCT
1 TTAAAACTTTATAATTTTATAAGCT
142494 CTGTCCGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (26 bp):
TTAAAACTTTATAATTTTATAAGCTT
Found at i:144344 original size:24 final size:24
Alignment explanation
Indices: 144317--144430 Score: 167
Period size: 24 Copynumber: 4.8 Consensus size: 24
144307 TCGATTTGAT
*
144317 TTCTGATATGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
144341 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
144365 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
144389 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
144413 TTTTGATATGATACTTGA
1 TTCTGATCTGATACTTGA
144431 TGTGAATTAT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:144352 original size:48 final size:49
Alignment explanation
Indices: 144300--144430 Score: 146
Period size: 48 Copynumber: 2.7 Consensus size: 49
144290 AATATTTTAC
* *
144300 CTGATTTTCGA-TTTGATTTCTGATATGATACTTGACATGGATTCTGAT
1 CTGATTTTCGACATGGATTTCTGATATGATACTTGACATGGATTCTGAT
* * *
144348 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GACATGGATTTCTGATATGATACTTGACATGGATTCTGAT
* *
144396 CTGATACTT-GACCTGGATTT-TGATATGATACTTGA
1 CTGAT-TTTCGACATGGATTTCTGATATGATACTTGA
144431 TGTGAATTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
47 3 0.04
48 60 0.87
49 5 0.07
50 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (49 bp):
CTGATTTTCGACATGGATTTCTGATATGATACTTGACATGGATTCTGAT
Found at i:144443 original size:24 final size:23
Alignment explanation
Indices: 144320--144448 Score: 98
Period size: 24 Copynumber: 5.4 Consensus size: 23
144310 ATTTGATTTC
* * *
144320 TGATATGATACTTGACATGGATTC
1 TGATCTGATACTTGA-TTGGATTA
* *
144344 TGATCTGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGA-TTGGATTA
*
144368 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGA-TTGGATTA
* *
144392 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGA-TTGGATTA
* *
144416 TGATATGATACTTGATGTGAATTA
1 TGATCTGATACTTGAT-TGGATTA
*
144440 TGATTTGAT
1 TGATCTGAT
144449 TTTTGATATA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.01
24 91 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (23 bp):
TGATCTGATACTTGATTGGATTA
Found at i:144654 original size:2 final size:2
Alignment explanation
Indices: 144647--144699 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
144637 CGGATAGGGG
144647 TA TA TA TA 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 TA TA TA TA
144689 TA TA TA TA TA T
1 TA TA TA TA TA T
144700 GTTTTAAAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:148793 original size:24 final size:24
Alignment explanation
Indices: 148665--148776 Score: 154
Period size: 24 Copynumber: 4.7 Consensus size: 24
148655 ATTTGATTTA
148665 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
148689 TGATCTGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGACATGGATTC
* *
148713 TGATATGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTC
* * *
148737 CGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTC
*
148761 TGATATGATACTTGAC
1 TGATCTGATACTTGAC
148777 GTGAATTATG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 76 0.97
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:148999 original size:2 final size:2
Alignment explanation
Indices: 148992--149018 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
148982 CGGATGGGGG
148992 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
149019 TAAAAGGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:151378 original size:87 final size:87
Alignment explanation
Indices: 151199--151393 Score: 227
Period size: 87 Copynumber: 2.2 Consensus size: 87
151189 GAGATCCAAC
* * *
151199 AGAAGTTGAGATATCGCAACATTC-CTCGGAA-CTAGAATCGGAATATGTTAGCCAAGCAGAAGA
1 AGAAGTTGAGATATCACAGCAGTCTC-CGGAATC-AGAATCGGAATATGTTAGCCAAGCAGAAGA
* * *
151262 TGATCAATCATCAATTCTCACATT
64 TGATCAATCATCAATACTAACACT
* * * *
151286 AGAAGTTGAGATATCAGAGCAGTCTCCGGAATCAGAATCGGAACT-TGTTATCGAAGCCGAAGAT
1 AGAAGTTGAGATATCACAGCAGTCTCCGGAATCAGAATCGGAA-TATGTTAGCCAAGCAGAAGAT
*
151350 GATCAATCATCAATACTAACGGCT
65 GATCAATCATCAATACTAAC-ACT
151374 -GAAGTTGAGATATCACAGCA
1 AGAAGTTGAGATATCACAGCA
151394 TTTCCAACCT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
87 88 0.96
88 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (87 bp):
AGAAGTTGAGATATCACAGCAGTCTCCGGAATCAGAATCGGAATATGTTAGCCAAGCAGAAGATG
ATCAATCATCAATACTAACACT
Found at i:152175 original size:31 final size:31
Alignment explanation
Indices: 152137--152202 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
152127 TTGTAATACA
* *
152137 GTCCCCCAACATTTAGTTTGTTTTCAATATG
1 GTCCCCCAACATTTAGTTCGTTTGCAATATG
152168 GTCCCCCAACATTTAGTTCGTTTGCAATATG
1 GTCCCCCAACATTTAGTTCGTTTGCAATATG
152199 GTCC
1 GTCC
152203 TTGACGTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTTCGTTTGCAATATG
Found at i:153824 original size:16 final size:16
Alignment explanation
Indices: 153803--153833 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
153793 AAAAAAAATT
153803 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
153819 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
153834 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:160572 original size:3 final size:3
Alignment explanation
Indices: 160564--160631 Score: 75
Period size: 3 Copynumber: 22.0 Consensus size: 3
160554 ATTTATTTAT
* * *
160564 TTA TTA TTA TTA TAA TAA TTA TTA TTA TTA TAA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
160609 TTA TATA TATA TTA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA TTA TTA
160632 AAAATAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.03
3 46 0.79
4 10 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:160584 original size:15 final size:13
Alignment explanation
Indices: 160560--160629 Score: 81
Period size: 13 Copynumber: 5.3 Consensus size: 13
160550 ATTTATTTAT
*
160560 TTATTTATTATTA
1 TTATATATTATTA
160573 TTATAATAATTATTA
1 TTAT-AT-ATTATTA
*
160588 TTAT-TATAATTA
1 TTATATATTATTA
160600 TTATATA-TATTA
1 TTATATATTATTA
160612 TATATATATTATTA
1 T-TATATATTATTA
160626 TTAT
1 TTAT
160630 TAAAAATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
12 15 0.31
13 16 0.33
14 7 0.14
15 11 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:161841 original size:27 final size:27
Alignment explanation
Indices: 161811--161867 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
161801 TTATGTAGTC
161811 ATAAA-TA-TATAATAATTTATTTTTTCA
1 ATAAATTATTATAAT-ATTTA-TTTTTCA
*
161838 ATAAATTATTTTAATATTTATTTTTCA
1 ATAAATTATTATAATATTTATTTTTCA
161865 ATA
1 ATA
161868 TCGAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 15 0.56
28 7 0.26
29 5 0.19
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
ATAAATTATTATAATATTTATTTTTCA
Found at i:165988 original size:22 final size:22
Alignment explanation
Indices: 165957--166014 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
165947 TACATCTACA
*
165957 CTTTTCAAAGATGATAGATT-T
1 CTTTTCAAAGATGACAGATTCT
*
165978 CCTTTTTAAAGATGACAGATTCT
1 -CTTTTCAAAGATGACAGATTCT
166001 CTTTTCAAAGATGA
1 CTTTTCAAAGATGA
166015 AAGCTTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
CTTTTCAAAGATGACAGATTCT
Found at i:166612 original size:113 final size:113
Alignment explanation
Indices: 166414--167058 Score: 1177
Period size: 113 Copynumber: 5.7 Consensus size: 113
166404 TTAGCAAAGA
*
166414 TTCAAATCCATCACCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
166479 AAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
166527 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
166592 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
166640 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
166705 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
166753 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
166818 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * **
166866 CTCAAATACATCA-CTTGATGGATCAAATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
1 TTCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
166930 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* *
166979 CTCAAATCCATC-TCTTGATGGATCAGCTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCT
1 TTCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
167043 GAAGAAGGAAGAAGAA
65 GAAGAAGGAAGAAGAA
167059 TTTATTCAAC
Statistics
Matches: 518, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
112 1 0.00
113 517 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (113 bp):
TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:167035 original size:339 final size:321
Alignment explanation
Indices: 166414--167291 Score: 1156
Period size: 339 Copynumber: 2.7 Consensus size: 321
166404 TTAGCAAAGA
*
166414 TTCAAATCCATCACCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* * *
166479 AAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCA-TCT
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATACATCACT-T
*
166543 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
130 GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
*
166608 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTGATGGATCAGCTTTTCC
195 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCC
166673 AGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
260 AGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG-AA-T--T--T-------A-
*
166738 TTGTTCAACCTTTT
311 ---TTCAACATTTT
166752 GTTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
1 -TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
166817 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATACATCACTT
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATACATCACTT
*
166882 GATGGATCAAATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
130 GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
166947 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATC-TCTTGATGGATCAGCTTTTC
195 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC-TGATGGATCAGCTTTTC
* *
167011 TAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTATTCAACATTTT
259 CAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTATTCAACATTTT
* * * * ** *
167074 TT----T-CATCATTTGATGGATCAACATTGCCAGGTAAAGTTTATAATGAGAAGAACTCGTCAT
1 TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCAT
* * * *
167134 CTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCT-AGAATTA-AT
63 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTCA-AA-TACAT
* * *
167196 CACTCGATGGATCAACTTTTCCAGAGAGAA-TTCATCATGAGAAGAACTCATCTGAAGAA-GAAG
125 CACTTGATGGATCAACTTTTCCAGA-AAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* ** *
167259 AAG---TTCACAATGAGAAGAGCTTGTGCAACCTTT
189 AAGAAATTCATAATGAGAAGAATTTGTTCAACCTTT
167292 GCTAGATTAC
Statistics
Matches: 501, Mismatches: 29, Indels: 42
0.88 0.05 0.07
Matches are distributed among these distances:
315 26 0.05
316 42 0.08
317 1 0.00
318 14 0.03
319 102 0.20
320 5 0.01
321 2 0.00
322 10 0.02
326 1 0.00
333 1 0.00
335 1 0.00
337 1 0.00
338 4 0.01
339 290 0.58
340 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (321 bp):
TTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATACATCACTTG
ATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCA
GAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTATTCAACATTTT
Found at i:167177 original size:206 final size:202
Alignment explanation
Indices: 166874--167261 Score: 523
Period size: 206 Copynumber: 1.9 Consensus size: 202
166864 TGCTCAAATA
* *
166874 CATCACTTGATGGATCAAATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAAATTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
* * * * *
166939 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTCA-AATCCATCTCTTGATGGAT
66 AGAAGAAATTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCT-AGAATCAATCACTCGATGGAT
* *
167002 CAGCTTTTCTAGA-AAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTATTC
129 CAACTTTTCCAGAGAAAA-TTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAATTTATTC
167066 AACATTTTTTT
192 AACATTTTTTT
* ** *
167077 CATCATTTGATGGATCAACA-TTGCCAGGTAAAGTTTATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCACTTGATGGATCAA-ATTTGCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
* *
167141 AAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTAGAATTAATCACTCGATGG
62 AAGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACTTTTCGCTAGAATCAATCACTCGATGG
* *
167206 ATCAACTTTTCCAGAGAGAATTCATCATGAGAAGAACTCATCTGAAGAAGAAGAAG
127 ATCAACTTTTCCAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
167262 TTCACAATGA
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
203 42 0.26
204 1 0.01
205 14 0.09
206 101 0.63
207 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (202 bp):
CATCACTTGATGGATCAAATTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
AGAAGAAATTCATAATAAGAAGAACTTGTTCAACTTTTCGCTAGAATCAATCACTCGATGGATCA
ACTTTTCCAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAATTTATTCAACA
TTTTTTT
Found at i:167533 original size:3 final size:3
Alignment explanation
Indices: 167525--167593 Score: 97
Period size: 3 Copynumber: 23.0 Consensus size: 3
167515 ATTTATTTAT
*
167525 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TAA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
167570 TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
167594 AAAATAATAA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
2 4 0.07
3 50 0.83
4 6 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:167566 original size:28 final size:28
Alignment explanation
Indices: 167527--167591 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
167517 TTATTTATTT
167527 ATTATTATTATATTATTAT-TATTATTATA
1 ATTATTA-TATATTATTATATA-TATTATA
*
167556 ATTATTATATATTATTATATATATTATT
1 ATTATTATATATTATTATATATATTATA
167584 ATTATTAT
1 ATTATTAT
167592 TAAAAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 25 0.74
29 9 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTATTATATATTATTATATATATTATA
Found at i:168723 original size:22 final size:22
Alignment explanation
Indices: 168698--168753 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
168688 CAATTTTAAA
168698 TATTTTTATATAGTTCTAATTG
1 TATTTTTATATAGTTCTAATTG
* *
168720 TATTTTTAT-T-GTTTTAATTT
1 TATTTTTATATAGTTCTAATTG
168740 TACTTGTTTATATA
1 TA-TT-TTTATATA
168754 TTTAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 10 0.36
21 3 0.11
22 14 0.50
23 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (22 bp):
TATTTTTATATAGTTCTAATTG
Found at i:170153 original size:25 final size:24
Alignment explanation
Indices: 170120--170166 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 24
170110 ATTGGTTAAT
170120 TGATCTAAATCATATTTTTAAATATG
1 TGATCTAAAT-A-ATTTTTAAATATG
170146 TGAT-TAAATAATTTTTAAATA
1 TGATCTAAATAATTTTTAAATA
170167 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 1 0.05
25 5 0.24
26 4 0.19
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
TGATCTAAATAATTTTTAAATATG
Found at i:172320 original size:43 final size:42
Alignment explanation
Indices: 172254--172420 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 42
172244 TTTTTTAACA
* *
172254 AAAAACGCCGCAATATGTATTGATATTTAGCGGCGTTTGTGTG
1 AAAAACGCCGCAATAGGT-TTGATATTTAGCGGCGTTTGTATG
* *
172297 ACAAACGTCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT-
1 AAAAACGCCGCAATAGGT-TTGATATTTAGCGGCGTTTGT-ATG
* *
172340 AAAAACGCCGCAATAGGTTTTGATAATTAGCGGCGTTT-TTTAG
1 AAAAACGCCGCAATAGG-TTTGATATTTAGCGGCGTTTGTAT-G
* *
172383 AAAAATGCCGCAATAGGTTATGATGTTTAGCGGCGTTT
1 AAAAACGCCGCAATAGGTT-TGATATTTAGCGGCGTTT
172421 TTCCACAAAC
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 101 0.94
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTTTGATATTTAGCGGCGTTTGTATG
Found at i:172399 original size:86 final size:85
Alignment explanation
Indices: 172254--172448 Score: 232
Period size: 86 Copynumber: 2.3 Consensus size: 85
172244 TTTTTTAACA
* * * * *
172254 AAAAACGCCGCAATATGTATTGATATTTAGCGGCGTTTGTGTGACAAACGTCGCAATAGGTGT-T
1 AAAAACGCCGCAATAGGTTTTGATAATTAGCGGCGTTTGTGTGAAAAACGCCGCAATAGGT-TAT
*
172318 GATATTTAGCGGCGTTTGTCAT
65 GATATTTAGCGGCGTTTGTC-C
* *
172340 AAAAACGCCGCAATAGGTTTTGATAATTAGCGGCGTTT-TTTAGAAAAATGCCGCAATAGGTTAT
1 AAAAACGCCGCAATAGGTTTTGATAATTAGCGGCGTTTGTGT-GAAAAACGCCGCAATAGGTTAT
* *
172404 GATGTTTAGCGGCGTTTTTCC
65 GATATTTAGCGGCGTTTGTCC
* * *
172425 ACAAACGCCGCAGTGGGTTTTGAT
1 AAAAACGCCGCAATAGGTTTTGAT
172449 GTTTTGCGGT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 24 0.26
86 70 0.74
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (85 bp):
AAAAACGCCGCAATAGGTTTTGATAATTAGCGGCGTTTGTGTGAAAAACGCCGCAATAGGTTATG
ATATTTAGCGGCGTTTGTCC
Found at i:172436 original size:42 final size:41
Alignment explanation
Indices: 172256--172505 Score: 173
Period size: 43 Copynumber: 5.9 Consensus size: 41
172246 TTTTAACAAA
* *
172256 AAACGCCGCAATATG-TATTGATATTTAGCGGCGTTTGTGTGAC
1 AAACGCCGCAATAGGTTA-TGATATTTAGCGGCGTTT-T-TCAC
* * *
172299 AAACGTCGCAATAGGTGT-TGATATTTAGCGGCGTTTGTCATAA
1 AAACGCCGCAATAGGT-TATGATATTTAGCGGCGTTTTTC--AC
* * * *
172342 AAACGCCGCAATAGGTTTTGATAATTAGCGGCGTTTTTTAGAA
1 AAACGCCGCAATAGGTTATGATATTTAGCGGCG-TTTTT-CAC
* *
172385 AAATGCCGCAATAGGTTATGATGTTTAGCGGCGTTTTTCCAC
1 AAACGCCGCAATAGGTTATGATATTTAGCGGCGTTTTT-CAC
* * * * * **
172427 AAACGCCGCAGTGGGTTTTGATGTTTTGCGGTATTTTTCAC
1 AAACGCCGCAATAGGTTATGATATTTAGCGGCGTTTTTCAC
* * * * * *
172468 AAATGTCGTAGTAGG-TATTGATGTTTTGCGGCGTTTTT
1 AAACGCCGCAATAGGTTA-TGATATTTAGCGGCGTTTTT
172506 GCTAAAAACG
Statistics
Matches: 169, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 33 0.20
42 38 0.22
43 92 0.54
44 4 0.02
45 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.36
Consensus pattern (41 bp):
AAACGCCGCAATAGGTTATGATATTTAGCGGCGTTTTTCAC
Found at i:172489 original size:41 final size:42
Alignment explanation
Indices: 172389--172505 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 42
172379 TTAGAAAAAT
* * *
172389 GCCGCAATAGGT-TATGATGTTTAGCGGCGTTTTTCCACAAAC
1 GCCGCAGTAGGTAT-TGATGTTTTGCGGCATTTTTCCACAAAC
* * * *
172431 GCCGCAGTGGGTTTTGATGTTTTGCGGTATTTTT-CACAAAT
1 GCCGCAGTAGGTATTGATGTTTTGCGGCATTTTTCCACAAAC
* * *
172472 GTCGTAGTAGGTATTGATGTTTTGCGGCGTTTTT
1 GCCGCAGTAGGTATTGATGTTTTGCGGCATTTTT
172506 GCTAAAAACG
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
41 34 0.55
42 27 0.44
43 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (42 bp):
GCCGCAGTAGGTATTGATGTTTTGCGGCATTTTTCCACAAAC
Found at i:172942 original size:21 final size:21
Alignment explanation
Indices: 172918--172968 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
172908 GCTAATATGT
* *
172918 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTCTACTGCCGC
* *
172939 TGCTTCTTTCTCTACTTCCGC
1 TGCTTCTCTCTCTACTGCCGC
*
172960 TGCTGCTCT
1 TGCTTCTCT
172969 GGCTGCTTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.37, G:0.18, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTCTACTGCCGC
Found at i:182498 original size:190 final size:188
Alignment explanation
Indices: 182116--182575 Score: 617
Period size: 190 Copynumber: 2.4 Consensus size: 188
182106 CAACTAATGT
* * *
182116 TAAAAACATTTGCGGCGTTTTTTGTCAAAACGCCA-TAAATGTATCG-TTAATTTACGGCGTTTG
1 TAAAAACATTTGCGGCGTTTTTTGTCTAAACGCCACT-AATGTA-CGAATCATTTAC-GCGTTTG
* * * *
182179 TTACTACAACGCCGCTATATGTGCAACCTATTGCAGCGTTTTTATCAAAACGCTACTAAAGTACT
63 TTACCAAAACGCCGCTATATGTGCAACCTATTGAAGCATTTTTATCAAAACGCTACTAAAGTACT
182244 AATTTATTGCGGCGTTTATTAAAAAAACGCCTCTATATGTCTAAAGTTAATGACGTTTAAA
128 AATTTATTGCGGCGTTTATTAAAAAAACGCCTCTATATGTCTAAAGTTAATGACGTTTAAA
* *
182305 TAAAATACATTTACGGCGTTTTTTGTCTAAACGCCACTAATGTACGAAATCATTTGCAGCGTTTG
1 TAAAA-ACATTTGCGGCGTTTTTTGTCTAAACGCCACTAATGTACG-AATCATTTAC-GCGTTTG
* * *
182370 TTACCAAAACGTCGCTATATGTG-AACCCTATT-AAGGCATTTTTGTCAAAACGCTGCTAAAGTA
63 TTACCAAAACGCCGCTATATGTGCAA-CCTATTGAA-GCATTTTTATCAAAACGCTACTAAAGTA
* * *
182433 CTAGTTTATTGCGGCGTTTATT-AAAAAATG-CTGTTATATGTCTAAAGTTAATGACGTTTAAA
126 CTAATTTATTGCGGCGTTTATTAAAAAAACGCCT-CTATATGTCTAAAGTTAATGACGTTTAAA
* *
182495 TAAAAAACATTTGCTGCATTTTTTGTCTAAACGCCACTAATGTACGAATCATTTACGACGTTTGT
1 T-AAAAACATTTGCGGCGTTTTTTGTCTAAACGCCACTAATGTACGAATCATTTACG-CGTTTGT
*
182560 TATCAAAACGCCGCTA
64 TACCAAAACGCCGCTA
182576 AAGTACTAAT
Statistics
Matches: 240, Mismatches: 22, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
188 1 0.00
189 39 0.16
190 110 0.46
191 90 0.38
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (188 bp):
TAAAAACATTTGCGGCGTTTTTTGTCTAAACGCCACTAATGTACGAATCATTTACGCGTTTGTTA
CCAAAACGCCGCTATATGTGCAACCTATTGAAGCATTTTTATCAAAACGCTACTAAAGTACTAAT
TTATTGCGGCGTTTATTAAAAAAACGCCTCTATATGTCTAAAGTTAATGACGTTTAAA
Found at i:182579 original size:148 final size:148
Alignment explanation
Indices: 182414--182723 Score: 449
Period size: 148 Copynumber: 2.1 Consensus size: 148
182404 GGCATTTTTG
* * * * * * *
182414 TCAAAACGCTGCTAAAGTACTAGTTTATTGCGGCGTTTATTAAAAAATGCTGTTATATGTCTAAA
1 TCAAAACGCCGCTAAAGTACTAATATATTGCGACGTTTATTAAAAAACGCCGCTATATGTCTAAA
* * * * *
182479 GTTAATGACGTTTAAATAAAAAACATTTGCTGCATTTTTTGTCTAAACGCCACTAATGTACGAAT
66 GTTAATGACGTTTAAATAAAAAACATTTGCGGCATTTTCTATCAAAACGCCACTAAAGTACGAAT
*
182544 CATTTACGACGTTTGTTA
131 CATTTACGACGTTTGATA
182562 TCAAAACGCCGCTAAAGTACTAATATATTGCGACGTTTATTAAAAAACGCCGCTATATGTCTAAA
1 TCAAAACGCCGCTAAAGTACTAATATATTGCGACGTTTATTAAAAAACGCCGCTATATGTCTAAA
*
182627 GTTAATGACGTTTAAATAAAAAACATTTGCGGCATTTTCTATCAAAACGCCACTAAAGTCCGAAT
66 GTTAATGACGTTTAAATAAAAAACATTTGCGGCATTTTCTATCAAAACGCCACTAAAGTACGAAT
** *
182692 CATTTGTGGCGTTTGATA
131 CATTTACGACGTTTGATA
* *
182710 CCAAAACGTCGCTA
1 TCAAAACGCCGCTA
182724 TGTGTTAACC
Statistics
Matches: 143, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 143 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (148 bp):
TCAAAACGCCGCTAAAGTACTAATATATTGCGACGTTTATTAAAAAACGCCGCTATATGTCTAAA
GTTAATGACGTTTAAATAAAAAACATTTGCGGCATTTTCTATCAAAACGCCACTAAAGTACGAAT
CATTTACGACGTTTGATA
Found at i:182613 original size:41 final size:42
Alignment explanation
Indices: 182523--182616 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
182513 TTTTTTGTCT
* * * *
182523 AAACGCCACTAATGTACGAATCATTTACGACGTTTGTTATCA
1 AAACGCCGCTAAAGTACGAATCATTTACGACGTTTATTATAA
* *
182565 AAACGCCGCTAAAGTACTAAT-ATATTGCGACGTTTATTA-AA
1 AAACGCCGCTAAAGTACGAATCAT-TTACGACGTTTATTATAA
182606 AAACGCCGCTA
1 AAACGCCGCTA
182617 TATGTCTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 14 0.31
42 31 0.69
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAGTACGAATCATTTACGACGTTTATTATAA
Found at i:184667 original size:20 final size:20
Alignment explanation
Indices: 184644--184689 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
184634 AATTAGCGTT
184644 GCGAA-AGTGAAATTCGCAAC
1 GCGAATAGTGAAA-TCGCAAC
*
184664 GCGAATAGTTAAATCGCAAC
1 GCGAATAGTGAAATCGCAAC
*
184684 GTGAAT
1 GCGAAT
184690 TTCGTTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (20 bp):
GCGAATAGTGAAATCGCAAC
Found at i:184817 original size:20 final size:20
Alignment explanation
Indices: 184794--184855 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
184784 TCATTACGAT
*
184794 TTACCTATTCGCGTTGAGAA
1 TTACCTATTCGCGTTGCGAA
* ** *
184814 TTACATATTATCGTTGCGAT
1 TTACCTATTCGCGTTGCGAA
* *
184834 TTAACTATTCGCATTGCGAA
1 TTACCTATTCGCGTTGCGAA
184854 TT
1 TT
184856 TGACTTTCGT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (20 bp):
TTACCTATTCGCGTTGCGAA
Found at i:184822 original size:40 final size:40
Alignment explanation
Indices: 184760--184855 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
184750 AATTTGGAGA
* * *
184760 ATTCGCGTTGCGATTTATATATTATCATTACGATTTACCT
1 ATTCGCGTTGCGAATTACATATTATCATTACGATTTAACT
* * *
184800 ATTCGCGTTGAGAATTACATATTATCGTTGCGATTTAACT
1 ATTCGCGTTGCGAATTACATATTATCATTACGATTTAACT
*
184840 ATTCGCATTGCGAATT
1 ATTCGCGTTGCGAATT
184856 TGACTTTCGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (40 bp):
ATTCGCGTTGCGAATTACATATTATCATTACGATTTAACT
Found at i:184864 original size:20 final size:20
Alignment explanation
Indices: 184760--184852 Score: 55
Period size: 20 Copynumber: 4.7 Consensus size: 20
184750 AATTTGGAGA
*
184760 ATTCGCGTTGCGATTTATA-T
1 ATTCGCATTGCGATTTA-ACT
** * *
184780 ATTATCATTACGATTTACCT
1 ATTCGCATTGCGATTTAACT
* * *
184800 ATTCGCGTTGAGAATT-ACAT
1 ATTCGCATTGCGATTTAAC-T
** *
184820 ATTATCGTTGCGATTTAACT
1 ATTCGCATTGCGATTTAACT
184840 ATTCGCATTGCGA
1 ATTCGCATTGCGA
184853 ATTTGACTTT
Statistics
Matches: 51, Mismatches: 19, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
19 1 0.02
20 48 0.94
21 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTAACT
Found at i:184917 original size:21 final size:21
Alignment explanation
Indices: 184871--184910 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
184861 TTCGTGTTGT
*
184871 GAATTTGGAAAATCGCAACAC
1 GAATTCGGAAAATCGCAACAC
184892 GAATTCGGAAAATCGCAAC
1 GAATTCGGAAAATCGCAAC
184911 GCTAATTACC
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:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (21 bp):
GAATTCGGAAAATCGCAACAC
Found at i:184981 original size:20 final size:20
Alignment explanation
Indices: 184939--184984 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
184929 TAATTAACTA
* *
184939 TTCGTGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTCACT
*
184959 TTCGCGTTGCGAATTTCATT
1 TTCGCGTTGCGAATTTCACT
184979 TTCGCG
1 TTCGCG
184985 CTAATTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTCACT
Found at i:185196 original size:20 final size:20
Alignment explanation
Indices: 185185--185267 Score: 121
Period size: 20 Copynumber: 4.2 Consensus size: 20
185175 GATTTAACTA
*
185185 TTCGTGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
185205 TTCGCGTTGTGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
* *
185225 TTCGCGTTGCGATTTTGATT
1 TTCGCGTTGCGAATTTGACT
*
185245 TTCACGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
185265 TTC
1 TTC
185268 ATGTTGAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:188111 original size:21 final size:21
Alignment explanation
Indices: 188078--188117 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
188068 AGTCTAAATG
* *
188078 TACCAAGTGTTTTACTAAACA
1 TACCAAGTCTTTTAATAAACA
*
188099 TACCAATTCTTTTAATAAA
1 TACCAAGTCTTTTAATAAA
188118 ATAATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
TACCAAGTCTTTTAATAAACA
Found at i:188936 original size:11 final size:11
Alignment explanation
Indices: 188917--188951 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
188907 TATATTTTTT
188917 TAGTAAAATGA
1 TAGTAAAATGA
*
188928 TAGTGAAATGA
1 TAGTAAAATGA
188939 TAGTAAAATGA
1 TAGTAAAATGA
188950 TA
1 TA
188952 AACAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (11 bp):
TAGTAAAATGA
Found at i:191708 original size:16 final size:16
Alignment explanation
Indices: 191683--191713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
191673 AAGTAAAAAG
191683 TATAAAAGTCACTACT
1 TATAAAAGTCACTACT
*
191699 TATAAGAGTCACTAC
1 TATAAAAGTCACTAC
191714 ATCCAACTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (16 bp):
TATAAAAGTCACTACT
Found at i:192609 original size:74 final size:73
Alignment explanation
Indices: 192493--192635 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 73
192483 TTTTTATAAT
* * * *
192493 TTTTAAAATTAAAAAAAATATTTAAAACAAGAGAATAAAAC-AACACATCCATAATGTTGCTCAT
1 TTTTAAAAATAAAAAAAATATTTAAAAAAAAAGAAGAAAACAAAC-CATCCATAATGTTGCTCAT
192557 AAAATTTGA
65 AAAATTTGA
* *
192566 TTTTAAAAATAAAAAAAATATTTAATAAAAAAAGAAGAAAACAAACCATCCATAATGTTTCTTAT
1 TTTTAAAAATAAAAAAAATATTTAA-AAAAAAAGAAGAAAACAAACCATCCATAATGTTGCTCAT
192631 AAAAT
65 AAAAT
192636 GGTTGAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
73 24 0.39
74 35 0.56
75 3 0.05
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.29
Consensus pattern (73 bp):
TTTTAAAAATAAAAAAAATATTTAAAAAAAAAGAAGAAAACAAACCATCCATAATGTTGCTCATA
AAATTTGA
Found at i:193507 original size:93 final size:93
Alignment explanation
Indices: 193382--193559 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 93
193372 TGATTTATCC
* * **
193382 TCAGAACTAGAATCAGAACATGTTAGTCAAGCCGAAGATGACCAATCATCAATTCTCACATTAGA
1 TCAGAACTAGAATCAGAACATGTTAGTCAAGCCGAAGATGACCAATCATCAATACTAACAGCAGA
*
193447 AGTTGAGATATCAGAGCATTCTCCGGAA
66 AGTTGAGATATCACAGCATTCTCCGGAA
* * * * *
193475 TCAGAA-TCAGAATCGGAACTTGTTA-TCGAAGCCGAAGATGATCAATCATCAATACTAACGGCG
1 TCAGAACT-AGAATCAGAACATGTTAGTC-AAGCCGAAGATGACCAATCATCAATACTAACAGCA
193538 GAAGTTGAGATATCACAGCATT
64 GAAGTTGAGATATCACAGCATT
193560 TCCAACCTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (93 bp):
TCAGAACTAGAATCAGAACATGTTAGTCAAGCCGAAGATGACCAATCATCAATACTAACAGCAGA
AGTTGAGATATCACAGCATTCTCCGGAA
Found at i:197332 original size:2 final size:2
Alignment explanation
Indices: 197325--197379 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
197315 GACTAATTGA
197325 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
197367 AT AT A- AT -T AT AT A
1 AT AT AT AT AT AT AT A
197380 GTTATAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:198772 original size:2 final size:2
Alignment explanation
Indices: 198729--198758 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
198719 ATGTGATAAT
198729 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
198759 CATTACACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:200053 original size:20 final size:20
Alignment explanation
Indices: 200030--200099 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
200020 ACACTTTACT
200030 TTTTTTTATATTTTTCTTCA
1 TTTTTTTATATTTTTCTTCA
*
200050 TTTTGTATATATTTTGTCTTCA
1 TTTT-TTTATATTTT-TCTTCA
* *
200072 -TTTATTATA-TTTTATTCA
1 TTTTTTTATATTTTTCTTCA
200090 TTTTTATTAT
1 TTTTT-TTAT
200100 TGTTTTTTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 5 0.12
19 6 0.15
20 12 0.29
21 12 0.29
22 6 0.15
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTTTATATTTTTCTTCA
Found at i:200126 original size:4 final size:4
Alignment explanation
Indices: 200117--200168 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
200107 TCGTATTTGT
* * *
200117 TTTA TTTA TTTA TTTT TTTG TTTT TCTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
200166 TTT
1 TTT
200169 CTTTTGGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
4 40 0.93
5 3 0.07
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:200132 original size:25 final size:24
Alignment explanation
Indices: 200090--200156 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
200080 ATTTTATTCA
*
200090 TTTTTA-TTATTGTTTTTTCGTATT
1 TTTTTATTTATT-TATTTTCGTATT
** *
200114 TGTTTTATTTATTTATTTTTTTGTT
1 T-TTTTATTTATTTATTTTCGTATT
200139 TTTCTTATTTATTTATTT
1 TTT-TTATTTATTTATTT
200157 ATTTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.08
25 28 0.78
26 5 0.14
ACGTcount: A:0.13, C:0.03, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTTTATTTATTTATTTTCGTATT
Found at i:200146 original size:17 final size:18
Alignment explanation
Indices: 200103--200148 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
200093 TTATTATTGT
*
200103 TTTTTCGTATTTGTTTTA
1 TTTTTCTTATTTGTTTTA
* *
200121 TTTAT-TTATTT-TTTTG
1 TTTTTCTTATTTGTTTTA
200137 TTTTTCTTATTT
1 TTTTTCTTATTT
200149 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.35
17 11 0.48
18 4 0.17
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTCTTATTTGTTTTA
Found at i:200154 original size:33 final size:34
Alignment explanation
Indices: 200103--200173 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
200093 TTATTATTGT
* * *
200103 TTTTTCGTATTTGTTTTATTTATTTATTTTTTTG
1 TTTTTCGTATTTGATTTATTTATTTATTTATTTC
*
200137 TTTTTCTTATTT-ATTTATTTATTTATTTATTTC
1 TTTTTCGTATTTGATTTATTTATTTATTTATTTC
200170 TTTT
1 TTTT
200174 GGTTTTAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (34 bp):
TTTTTCGTATTTGATTTATTTATTTATTTATTTC
Found at i:200732 original size:17 final size:17
Alignment explanation
Indices: 200692--200742 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
200682 TCGGGCCGTG
*
200692 TATATATATATTTAA-AT
1 TATATATATA-TAAATAT
200709 TA-A-ATATATAAATAT
1 TATATATATATAAATAT
*
200724 TATATATATATATATAT
1 TATATATATATAAATAT
200741 TA
1 TA
200743 ATTTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 9 0.31
16 2 0.07
17 15 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATATATAAATAT
Found at i:200748 original size:42 final size:40
Alignment explanation
Indices: 200692--200779 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 40
200682 TCGGGCCGTG
200692 TATATATATATTTAAATTAAATATATAAATATTATATATA
1 TATATATATATTTAAATTAAATATATAAATATTATATATA
* *
200732 TATATATATTAATTTAAATTAAATTTATTAATATTATATATA
1 TATATATA-T-ATTTAAATTAAATATATAAATATTATATATA
200774 TATATA
1 TATATA
200780 AATAATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 8 0.18
41 1 0.02
42 35 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (40 bp):
TATATATATATTTAAATTAAATATATAAATATTATATATA
Found at i:206084 original size:20 final size:20
Alignment explanation
Indices: 206059--206096 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
206049 TTTGGTTCAC
*
206059 GGAATGTAAGATTACCAGTG
1 GGAATGAAAGATTACCAGTG
206079 GGAATGAAAGATTACCAG
1 GGAATGAAAGATTACCAG
206097 AGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (20 bp):
GGAATGAAAGATTACCAGTG
Done.