Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007882.1 Hibiscus syriacus cultivar Beakdansim tig00110260_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: 1274288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:549451 original size:4 final size:4
Alignment explanation
Indices: 549442--549477 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
549432 CAATTTAACA
549442 AAAG AAAG AAAG -AA- AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
549478 TATGAATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 4 0.13
4 26 0.87
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:549460 original size:14 final size:14
Alignment explanation
Indices: 549441--549470 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
549431 TCAATTTAAC
549441 AAAAGAAAGAAAGA
1 AAAAGAAAGAAAGA
549455 AAAAGAAAGAAAGA
1 AAAAGAAAGAAAGA
549469 AA
1 AA
549471 GAAAGAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAGA
Found at i:562997 original size:20 final size:20
Alignment explanation
Indices: 562972--563028 Score: 105
Period size: 20 Copynumber: 2.8 Consensus size: 20
562962 ATCCGAAATA
562972 AATAAAAATATTATTTTTTC
1 AATAAAAATATTATTTTTTC
562992 AATAAAAATATTATTTTTTC
1 AATAAAAATATTATTTTTTC
563012 AATAAAAATATTGATTT
1 AATAAAAATATT-ATTT
563029 AATTGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAAAATATTATTTTTTC
Found at i:566582 original size:21 final size:21
Alignment explanation
Indices: 566544--566583 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
566534 ATTATTGATA
*
566544 ATTATAAAATTTTAAAAATAC
1 ATTATAAAATTCTAAAAATAC
566565 ATTA-AAAATTCTATAAAAT
1 ATTATAAAATTCTA-AAAAT
566584 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATAAAATTCTAAAAATAC
Found at i:566845 original size:7 final size:7
Alignment explanation
Indices: 566832--566919 Score: 140
Period size: 7 Copynumber: 12.6 Consensus size: 7
566822 TTGTAATAAG
566832 CCCTAAA
1 CCCTAAA
*
566839 TCCTAAA
1 CCCTAAA
566846 CCCTAAA
1 CCCTAAA
566853 CCCTAAA
1 CCCTAAA
566860 CCCTAAA
1 CCCTAAA
566867 CCCTAAA
1 CCCTAAA
566874 CCCTAAA
1 CCCTAAA
566881 CCCTAAA
1 CCCTAAA
* *
566888 CCATATA
1 CCCTAAA
*
566895 CACTAAA
1 CCCTAAA
566902 CCCTAAA
1 CCCTAAA
566909 CCCTAAA
1 CCCTAAA
566916 CCCT
1 CCCT
566920 TAATCCAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 73 1.00
ACGTcount: A:0.42, C:0.41, G:0.00, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:569029 original size:45 final size:45
Alignment explanation
Indices: 568951--569053 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
568941 CACATTGAAT
* * *
568951 GTGCATCGATGCA-CTCTTTAAAGAAGAAACATCGAATGCAATTG
1 GTGCATCGATGCATCCCGTTAAAGAAGAAACATCGAAGGCAATTG
* * *
568995 GTGCATCGATGCATCCCGTTAAA-ATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCATCCCGTTAAAGAAG-AAACATCGAAGGCAATTG
*
569040 GTGTATCGATGCAT
1 GTGCATCGATGCAT
569054 GGGTAGTGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 15 0.30
45 35 0.70
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (45 bp):
GTGCATCGATGCATCCCGTTAAAGAAGAAACATCGAAGGCAATTG
Found at i:569109 original size:20 final size:22
Alignment explanation
Indices: 569060--569117 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
569050 GCATGGGTAG
569060 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
*
569084 TACATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
569104 TGCATCAATGCACT
1 TGCATCGATGCACT
569118 TCAAGGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:569858 original size:23 final size:24
Alignment explanation
Indices: 569829--569874 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
569819 AGGGTTCATA
*
569829 GGTCATTCGGGAC-ATTTCATAGT
1 GGTCATTCGGGACAAATTCATAGT
569852 GGTCATTCGGGACAAATTCATAG
1 GGTCATTCGGGACAAATTCATAG
569875 CCCCTAGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (24 bp):
GGTCATTCGGGACAAATTCATAGT
Found at i:570161 original size:6 final size:6
Alignment explanation
Indices: 570150--570175 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
570140 GTAGGAATTA
570150 GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTATAT GTATAT GTATAT GT
570176 GGGTGTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:570942 original size:10 final size:10
Alignment explanation
Indices: 570927--570951 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
570917 TCATTTCCCC
570927 CCTAAAGGTT
1 CCTAAAGGTT
570937 CCTAAAGGTT
1 CCTAAAGGTT
570947 CCTAA
1 CCTAA
570952 GTGAAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (10 bp):
CCTAAAGGTT
Found at i:571546 original size:11 final size:11
Alignment explanation
Indices: 571534--571582 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
571524 GTAAGCATTT
*
571534 GAGCTTGATTT
1 GAGCTTGATTC
571545 GAGCTTGATTC
1 GAGCTTGATTC
*
571556 GAGCTTGAATC
1 GAGCTTGATTC
*
571567 GAGCTTGAATC
1 GAGCTTGATTC
571578 GAGCT
1 GAGCT
571583 CGAGTGTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (11 bp):
GAGCTTGATTC
Found at i:572065 original size:10 final size:10
Alignment explanation
Indices: 572050--572109 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
572040 AACTGTAGCG
572050 TGAACAGTAA
1 TGAACAGTAA
* *
572060 TGAACAATACCG
1 TGAACAGTA--A
572072 TGAACAGTAA
1 TGAACAGTAA
*
572082 TGAACAATACCA
1 TGAACAGTA--A
572094 TGAACAGTAA
1 TGAACAGTAA
572104 TGAACA
1 TGAACA
572110 ATACCGTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 23 0.57
12 17 0.43
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (10 bp):
TGAACAGTAA
Found at i:572074 original size:22 final size:22
Alignment explanation
Indices: 572048--572129 Score: 146
Period size: 22 Copynumber: 3.7 Consensus size: 22
572038 TAAACTGTAG
572048 CGTGAACAGTAATGAACAATAC
1 CGTGAACAGTAATGAACAATAC
572070 CGTGAACAGTAATGAACAATAC
1 CGTGAACAGTAATGAACAATAC
*
572092 CATGAACAGTAATGAACAATAC
1 CGTGAACAGTAATGAACAATAC
*
572114 CGTGAACATTAATGAA
1 CGTGAACAGTAATGAA
572130 TAGTATCGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (22 bp):
CGTGAACAGTAATGAACAATAC
Found at i:572077 original size:12 final size:12
Alignment explanation
Indices: 572059--572121 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 12
572049 GTGAACAGTA
572059 ATGAACAATACC
1 ATGAACAATACC
* *
572071 GTGAACAGTA--
1 ATGAACAATACC
572081 ATGAACAATACC
1 ATGAACAATACC
*
572093 ATGAACAGTA--
1 ATGAACAATACC
572103 ATGAACAATACC
1 ATGAACAATACC
*
572115 GTGAACA
1 ATGAACA
572122 TTAATGAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
10 17 0.43
12 23 0.57
ACGTcount: A:0.48, C:0.19, G:0.16, T:0.17
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:572189 original size:22 final size:23
Alignment explanation
Indices: 572158--572210 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
572148 TTTTTCCAGA
* * *
572158 TTGCTTCAGGGGTATCGATACTC
1 TTGCTACAGGGGTACCGATACCC
572181 -TGCTACA-GGGTACCGATACCC
1 TTGCTACAGGGGTACCGATACCC
572202 TTGCTACAG
1 TTGCTACAG
572211 TACTTCCGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
TTGCTACAGGGGTACCGATACCC
Found at i:572946 original size:23 final size:23
Alignment explanation
Indices: 572916--572982 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
572906 AATACATATA
*
572916 TGTCCCGAAGGACAACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
572939 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
* *
572962 TATCCCGAAGTACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
572983 CCTTCTACTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:573082 original size:16 final size:16
Alignment explanation
Indices: 573058--573089 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
573048 TCATATAGTG
*
573058 TATCTCATAGACATAT
1 TATCACATAGACATAT
573074 TATCACATAGACATAT
1 TATCACATAGACATAT
573090 CATTTCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
TATCACATAGACATAT
Found at i:574413 original size:2 final size:2
Alignment explanation
Indices: 574406--574431 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
574396 TGAAATCAAG
574406 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
574432 ATGTATGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:574429 original size:79 final size:79
Alignment explanation
Indices: 574336--574484 Score: 262
Period size: 79 Copynumber: 1.9 Consensus size: 79
574326 AAACTAAGAA
* *
574336 CTCTCTCTCTCTCTCTCATGTATGACTCAGAAGATCCTCAAACAATCACTGAATAAACTATGAAA
1 CTCTCTCTCTCTCTCTCATGTATGACTCAGAAGATCCTCAAACAATCACTGAAGAAACTAAGAAA
*
574401 TCAAGTCTCTCTCT
66 CCAAGTCTCTCTCT
*
574415 CTCTCTCTCTCTCTCTCATGTATGACTCAGAAGATCCTCATACAATCACTGAAGAAACTAAGAAA
1 CTCTCTCTCTCTCTCTCATGTATGACTCAGAAGATCCTCAAACAATCACTGAAGAAACTAAGAAA
574480 CCAAG
66 CCAAG
574485 AAGACGTGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (79 bp):
CTCTCTCTCTCTCTCTCATGTATGACTCAGAAGATCCTCAAACAATCACTGAAGAAACTAAGAAA
CCAAGTCTCTCTCT
Found at i:577882 original size:32 final size:32
Alignment explanation
Indices: 577830--577941 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 32
577820 CGGGTTCGGA
* * *
577830 TCGGGTCAGGTTTTTTTAAGTTTGATATTCGGG
1 TCGGGTC-GGGTTTTTTAAGTGTGATATTCGAG
577863 TCGGGTCGGGTTTTTTAAGTGTGATATTCGAG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGAG
**
577895 TTAGGTCGGGTTTTTTTAAGTGTGATATTCGAG
1 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGAG
577928 TCGGGTTCGGGTTT
1 TCGGG-TCGGGTTT
577942 AGGGTGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 30 0.43
33 35 0.50
34 5 0.07
ACGTcount: A:0.14, C:0.09, G:0.33, T:0.44
Consensus pattern (32 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGAG
Found at i:583827 original size:27 final size:27
Alignment explanation
Indices: 583797--583862 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
583787 CACATACCAT
583797 GCATCGATGCACTCAGGTTTTATGAAA
1 GCATCGATGCACTCAGGTTTTATGAAA
583824 GCATCGATGCACTCAGGTTTTATGAAA
1 GCATCGATGCACTCAGGTTTTATGAAA
*
583851 ACATCGAATGCA
1 GCATCG-ATGCA
583863 TTTTATGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 32 0.86
28 5 0.14
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
GCATCGATGCACTCAGGTTTTATGAAA
Found at i:583876 original size:45 final size:45
Alignment explanation
Indices: 583824--583927 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
583814 TTTTATGAAA
* *
583824 GCATCGATGCACTC-AGGT-TTTATGAAAACATCGAATGCATTTTAT
1 GCATCGATGCACTCAAGCTATTT-T-AAAACATCAAATGCATTTTAT
*
583869 GCATCGATGCACTCAAGCTATTTTAAAACTTCAAATGCATTTTAT
1 GCATCGATGCACTCAAGCTATTTTAAAACATCAAATGCATTTTAT
583914 GCAT-GTATGCACTC
1 GCATCG-ATGCACTC
583928 TTAGTGCATC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
44 1 0.02
45 45 0.85
46 4 0.08
47 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (45 bp):
GCATCGATGCACTCAAGCTATTTTAAAACATCAAATGCATTTTAT
Found at i:595474 original size:21 final size:21
Alignment explanation
Indices: 595449--595488 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
595439 GAGAAATTAT
595449 TTTCAAAATACAAAAAAGATA
1 TTTCAAAATACAAAAAAGATA
**
595470 TTTCAAAATTGAAAAAAGA
1 TTTCAAAATACAAAAAAGA
595489 AAATAATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (21 bp):
TTTCAAAATACAAAAAAGATA
Found at i:599338 original size:13 final size:13
Alignment explanation
Indices: 599316--599349 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
599306 GGAGTAAACA
*
599316 ATTTTCAAAATTG
1 ATTTTCAAAAATG
599329 A-TTTCAAAAATG
1 ATTTTCAAAAATG
599341 ATTTTCAAA
1 ATTTTCAAA
599350 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:600945 original size:36 final size:36
Alignment explanation
Indices: 600898--600968 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
600888 AAGGAATTCA
600898 AAGGGTACCGATACCTTGAA-GAACATATCGATACCC
1 AAGGGTACCGATACCTT-AAGGAACATATCGATACCC
**
600934 AAGGGTACCGATACCTTAAGGAAGGTATCGATACC
1 AAGGGTACCGATACCTTAAGGAACATATCGATACC
600969 ATAATGAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (36 bp):
AAGGGTACCGATACCTTAAGGAACATATCGATACCC
Found at i:607227 original size:15 final size:16
Alignment explanation
Indices: 607207--607236 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
607197 CAAAGATGAG
607207 ATTTCTTGTT-AGTTA
1 ATTTCTTGTTGAGTTA
607222 ATTTCTTGTTGAGTT
1 ATTTCTTGTTGAGTT
607237 TAAGGTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (16 bp):
ATTTCTTGTTGAGTTA
Found at i:608388 original size:18 final size:18
Alignment explanation
Indices: 608365--608399 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
608355 AGGGATTATC
*
608365 AGTGGTCCTTTGAGACAT
1 AGTGGTCCTTCGAGACAT
608383 AGTGGTCCTTCGAGACA
1 AGTGGTCCTTCGAGACA
608400 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:612429 original size:2 final size:2
Alignment explanation
Indices: 612422--612466 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
612412 CGCAAAACAA
*
612422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
612464 AT A
1 AT A
612467 ATTAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:617415 original size:20 final size:20
Alignment explanation
Indices: 617367--617406 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
617357 TGATCTGATA
617367 TGCTAAAATAAGGGCTTTGG
1 TGCTAAAATAAGGGCTTTGG
617387 TGCTAAAATAAGGGCTTTGG
1 TGCTAAAATAAGGGCTTTGG
617407 CTTTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (20 bp):
TGCTAAAATAAGGGCTTTGG
Found at i:618586 original size:28 final size:29
Alignment explanation
Indices: 618554--618609 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
618544 TTTATATTTC
* *
618554 TTATAAAATTACTATATAAAA-TAATATG
1 TTATAAAAATAATATATAAAACTAATATG
618582 TTATAAAAATAATATATAAAACTAATAT
1 TTATAAAAATAATATATAAAACTAATAT
618610 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (29 bp):
TTATAAAAATAATATATAAAACTAATATG
Found at i:618599 original size:13 final size:13
Alignment explanation
Indices: 618555--618611 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
618545 TTATATTTCT
* *
618555 TATAAAATTACTA
1 TATAAAAATAATA
618568 TAT-AAAATAATA
1 TATAAAAATAATA
618580 TGTTATAAAAATAATA
1 ---TATAAAAATAATA
*
618596 TATAAAACTAATA
1 TATAAAAATAATA
618609 TAT
1 TAT
618612 TTTTATTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 7 0.19
13 18 0.49
15 3 0.08
16 9 0.24
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (13 bp):
TATAAAAATAATA
Found at i:618674 original size:25 final size:24
Alignment explanation
Indices: 618633--618680 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
618623 ATAATATTTT
*
618633 ATTTTATAAATAAATTATGAATAG
1 ATTTTATAAATAAATTATAAATAG
* *
618657 ATTTATATAATTATATTATAAATA
1 ATTT-TATAAATAAATTATAAATA
618681 TTATAAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
ATTTTATAAATAAATTATAAATAG
Found at i:619081 original size:2 final size:2
Alignment explanation
Indices: 619074--619111 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
619064 GTGTAATTAG
619074 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
619112 GAAAGGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:625642 original size:23 final size:23
Alignment explanation
Indices: 625583--625644 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
625573 TTGGTGCAGA
625583 GGGAATCGATACCCCC-TTGAAG
1 GGGAATCGATACCCCCTTTGAAG
* *
625605 GGGAA-CTGATTCCCCCTTTGTAG
1 GGGAATC-GATACCCCCTTTGAAG
625628 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
625645 CGGGTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.38
23 19 0.56
24 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (23 bp):
GGGAATCGATACCCCCTTTGAAG
Found at i:627250 original size:18 final size:18
Alignment explanation
Indices: 627215--627252 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
627205 GGAGCAGCAC
*
627215 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCACCACCA
*
627233 GAGGAACAAGCACGACCA
1 GAGGAACAAGCACCACCA
627251 GA
1 GA
627253 AGATCAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.26, T:0.03
Consensus pattern (18 bp):
GAGGAACAAGCACCACCA
Found at i:629380 original size:17 final size:15
Alignment explanation
Indices: 629358--629405 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
629348 AGTGACGTTT
629358 TTATATAATATATATTA
1 TTATATAA-AT-TATTA
629375 TTATATAAATTATTA
1 TTATATAAATTATTA
* *
629390 TAATAT-TATTATTA
1 TTATATAAATTATTA
629404 TT
1 TT
629406 TACAAAGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.29
15 10 0.36
16 2 0.07
17 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATATAAATTATTA
Found at i:629386 original size:12 final size:12
Alignment explanation
Indices: 629365--629401 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
629355 TTTTTATATA
629365 ATATATATTATT
1 ATATATATTATT
*
629377 ATATAAATTATT
1 ATATATATTATT
629389 ATA-ATATTATT
1 ATATATATTATT
629400 AT
1 AT
629402 TATTTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATATATTATT
Found at i:630760 original size:18 final size:19
Alignment explanation
Indices: 630737--630775 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
630727 AATAACATAT
* *
630737 TATTTTGAT-ATTTTTTTA
1 TATTTTAATCATTATTTTA
630755 TATTTTAATCATTATTTTA
1 TATTTTAATCATTATTTTA
630774 TA
1 TA
630776 CATATGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTTTAATCATTATTTTA
Found at i:630827 original size:29 final size:29
Alignment explanation
Indices: 630769--630828 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
630759 TTAATCATTA
*
630769 TTTTATACATATGTATTTAAATTATATTC
1 TTTTATACATATGTAATTAAATTATATTC
*
630798 TTTTATACA-ATAGATAATTAAA-TATTTTC
1 TTTTATACATAT-G-TAATTAAATTATATTC
630827 TT
1 TT
630829 AATAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 18 0.67
30 7 0.26
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTTATACATATGTAATTAAATTATATTC
Found at i:637980 original size:20 final size:20
Alignment explanation
Indices: 637955--638100 Score: 240
Period size: 20 Copynumber: 7.3 Consensus size: 20
637945 TATTTCCACA
*
637955 CATTTGTAAAGCCTCCAGGT
1 CATTTGTAAAGCCTCCGGGT
637975 CATTTGTAAAGCCTCCGGGT
1 CATTTGTAAAGCCTCCGGGT
637995 CATTTGTAAAGCCTCCGGGT
1 CATTTGTAAAGCCTCCGGGT
*
638015 CATTTGTAAAGCCTCCGAGT
1 CATTTGTAAAGCCTCCGGGT
*
638035 CATTTGTAAAGACTCCGGGT
1 CATTTGTAAAGCCTCCGGGT
*
638055 CATTTGTAAAGCAT-CGGGT
1 CATTTGTAAAGCCTCCGGGT
*
638074 CATTTGTAAAGCCTCTGGGT
1 CATTTGTAAAGCCTCCGGGT
638094 CATTTGT
1 CATTTGT
638101 CAATCTTTCG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
19 18 0.15
20 99 0.85
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (20 bp):
CATTTGTAAAGCCTCCGGGT
Found at i:640906 original size:18 final size:18
Alignment explanation
Indices: 640883--640923 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
640873 GTGTTTACTC
*
640883 AACTCAAAAGGAGAAACG
1 AACTCAAAAGGAGAAACA
640901 AACTCAAAAGGAGAAACA
1 AACTCAAAAGGAGAAACA
640919 AACTC
1 AACTC
640924 TAAATGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.20, G:0.17, T:0.07
Consensus pattern (18 bp):
AACTCAAAAGGAGAAACA
Found at i:643868 original size:22 final size:21
Alignment explanation
Indices: 643822--644083 Score: 181
Period size: 22 Copynumber: 12.0 Consensus size: 21
643812 AAGATCGATC
* *
643822 CATATTTTAAAATAATTTTTT
1 CATATTTTAAAATAAATTTTA
643843 CATATTTTAAAATAAAATTTTA
1 CATATTTTAAAAT-AAATTTTA
**
643865 CATATTTTAAAATAAA-TCAA
1 CATATTTTAAAATAAATTTTA
** *
643885 TCTATATTTTAAAATAAATCAATC
1 -C-ATATTTTAAAATAAAT-TTTA
*
643909 CATATTTTAAAATAAAATTTTT
1 CATATTTTAAAAT-AAATTTTA
**
643931 CATATTTTAAAATAAA-TCAA
1 CATATTTTAAAATAAATTTTA
** *
643951 TCTATATTTTAAAATAAATCAATC
1 -C-ATATTTTAAAATAAAT-TTTA
*
643975 CATATTTTAAAATAAAATTTTT
1 CATATTTTAAAAT-AAATTTTA
**
643997 CATATTTTAAAATAAA-TCAA
1 CATATTTTAAAATAAATTTTA
** *
644017 TCTATATTTTAAAATAAATCAATC
1 -C-ATATTTTAAAATAAAT-TTTA
**
644041 CATATTTTAAAATAAA-TCAA
1 CATATTTTAAAATAAATTTTA
644061 TCTATATTTTAAAATAAATTTTA
1 -C-ATATTTTAAAATAAATTTTA
644084 AAATATATTT
Statistics
Matches: 189, Mismatches: 34, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.02
21 26 0.14
22 146 0.77
23 13 0.07
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (21 bp):
CATATTTTAAAATAAATTTTA
Found at i:643902 original size:44 final size:43
Alignment explanation
Indices: 643822--644083 Score: 287
Period size: 44 Copynumber: 6.0 Consensus size: 43
643812 AAGATCGATC
* ***
643822 CATATTTTAAAATAATTTTTTC-ATATTTTAAAATAAAATTTTA
1 CATATTTTAAAATAAATCAATCTATATTTTAAAAT-AAATTTTA
** *
643865 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATC
1 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAAT-TTTA
*** **
643909 CATATTTTAAAATAAAATTTTTC-ATATTTTAAAATAAA-TCAA
1 CATATTTTAAAAT-AAATCAATCTATATTTTAAAATAAATTTTA
* *
643951 TCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTT
1 -C-ATATTTTAAAATAAATCAATCTATATTTTAAAAT-AAATTTTA
** *
643997 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATC
1 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAAT-TTTA
644041 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTTA
1 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTTA
644084 AAATATATTT
Statistics
Matches: 183, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
43 34 0.19
44 138 0.75
45 10 0.05
46 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (43 bp):
CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTTA
Found at i:643925 original size:66 final size:66
Alignment explanation
Indices: 643843--644079 Score: 422
Period size: 66 Copynumber: 3.6 Consensus size: 66
643833 ATAATTTTTT
*
643843 CATATTTTAAAATAAAATTTTACATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
1 CATATTTTAAAATAAAATTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
643908 C
66 C
643909 CATATTTTAAAATAAAATTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
1 CATATTTTAAAATAAAATTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
643974 C
66 C
643975 CATATTTTAAAATAAAATTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
1 CATATTTTAAAATAAAATTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
644040 C
66 C
***
644041 CATATTTTAAAAT-AAATCAATCTATATTTTAAAATAAAT
1 CATATTTTAAAATAAAATTTTTC-ATATTTTAAAATAAAT
644080 TTTAAAATAT
Statistics
Matches: 166, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
65 6 0.04
66 160 0.96
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (66 bp):
CATATTTTAAAATAAAATTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
C
Found at i:644096 original size:11 final size:12
Alignment explanation
Indices: 644063--644093 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
644053 TAAATCAATC
644063 TATATTTTAAAA
1 TATATTTTAAAA
*
644075 TAAATTTTAAAA
1 TATATTTTAAAA
644087 TATATTT
1 TATATTT
644094 AAATGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:644097 original size:22 final size:23
Alignment explanation
Indices: 644063--644105 Score: 54
Period size: 21 Copynumber: 1.9 Consensus size: 23
644053 TAAATCAATC
644063 TATATTTTAAAATAAATTTTAAAA
1 TATATTTTAAAAT-AATTTTAAAA
*
644087 TATA-TTT-AAATGATTTTAA
1 TATATTTTAAAATAATTTTAA
644106 TTTCCCCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 3 0.17
24 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATTTTAAAATAATTTTAAAA
Found at i:644712 original size:2 final size:2
Alignment explanation
Indices: 644700--644741 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
644690 ATGGAACATA
*
644700 AT AT GT 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
644742 TTGGTTGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:649093 original size:13 final size:13
Alignment explanation
Indices: 649075--649106 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
649065 CGCCGGTCAA
*
649075 CGGGTCAACGGGT
1 CGGGTCAACGGAT
649088 CGGGTCAACGGAT
1 CGGGTCAACGGAT
649101 CGGGTC
1 CGGGTC
649107 TGGTCAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGAT
Found at i:649106 original size:18 final size:18
Alignment explanation
Indices: 649083--649130 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
649073 AACGGGTCAA
649083 CGGGTCGGGTCAACGGAT
1 CGGGTCGGGTCAACGGAT
* *
649101 CGGGTCTGGTCAACGGGT
1 CGGGTCGGGTCAACGGAT
*
649119 TGGGTCGGGTCA
1 CGGGTCGGGTCA
649131 GCAGGTCGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.12, C:0.21, G:0.46, T:0.21
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGAT
Found at i:649141 original size:18 final size:17
Alignment explanation
Indices: 649083--649142 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
649073 AACGGGTCAA
649083 CGGGTCGGGTCAACGGAT
1 CGGGTCGGGTCAACGG-T
*
649101 CGGGTCTGGTCAACGGGT
1 CGGGTCGGGTCAAC-GGT
* *
649119 TGGGTCGGGTCAGCAGGT
1 CGGGTCGGGTCAAC-GGT
649137 CGGGTC
1 CGGGTC
649143 AGGTTATGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 33 0.94
19 2 0.06
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.20
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:651237 original size:32 final size:32
Alignment explanation
Indices: 651192--651267 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
651182 GGTGCCGTGA
*
651192 GGCCTACTTAAGAAAAT-ATCT-TAGGGCCGCAG
1 GGCCTACCTAAG-AAATGATCTCT-GGGCCGCAG
*
651224 GGCCTACCCAAG-AATGATCTCTGGGCCGCAG
1 GGCCTACCTAAGAAATGATCTCTGGGCCGCAG
*
651255 AGCCTACCTAAGA
1 GGCCTACCTAAGA
651268 GTCACATTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
30 3 0.08
31 23 0.62
32 11 0.30
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (32 bp):
GGCCTACCTAAGAAATGATCTCTGGGCCGCAG
Found at i:655627 original size:25 final size:26
Alignment explanation
Indices: 655584--655633 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
655574 TTGATCGTTA
* *
655584 ACTTTGATCGTTGA-TTTTTTTGTTG
1 ACTTTGACCGTTGACTTTTTCTGTTG
*
655609 ACTTTGACCGTTTACTTTTTCTGTT
1 ACTTTGACCGTTGACTTTTTCTGTT
655634 CAATTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (26 bp):
ACTTTGACCGTTGACTTTTTCTGTTG
Found at i:664056 original size:20 final size:20
Alignment explanation
Indices: 664027--664065 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
664017 AGAGCTCATA
*
664027 TAGGATCATATAGATACATT
1 TAGGAGCATATAGATACATT
*
664047 TAGGAGCATATAGCTACAT
1 TAGGAGCATATAGATACAT
664066 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
TAGGAGCATATAGATACATT
Found at i:665725 original size:36 final size:35
Alignment explanation
Indices: 665666--665733 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
665656 ACTCACAATC
*
665666 AGCGGACAGACGCATTCAAGCATCTGATTCTTCTG
1 AGCGGACAGACGCATTCAAGCATCTAATTCTTCTG
* * *
665701 AGCGGACTGAACGTATTTAAGCATCTAATTCTT
1 AGCGGACAG-ACGCATTCAAGCATCTAATTCTT
665734 TTAATATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 8 0.29
36 20 0.71
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (35 bp):
AGCGGACAGACGCATTCAAGCATCTAATTCTTCTG
Found at i:673691 original size:23 final size:23
Alignment explanation
Indices: 673665--673718 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
673655 TCTCGAAGGA
* *
673665 CCACATAGGTTTGCACCGAAGTG
1 CCACATAAGTTTGCACCAAAGTG
673688 CCACATAAGTTTGCACCAAAGTG
1 CCACATAAGTTTGCACCAAAGTG
673711 CCACATAA
1 CCACATAA
673719 TTGTCCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (23 bp):
CCACATAAGTTTGCACCAAAGTG
Found at i:678354 original size:64 final size:62
Alignment explanation
Indices: 678150--678356 Score: 247
Period size: 64 Copynumber: 3.2 Consensus size: 62
678140 ATTCAAGGTG
* * * *
678150 ATGCACCGATGCATCAAACCATGCATCGATGCACCTATGATTTAATT-GAACATCAAATGCATTT
1 ATGCATCGATGCA-CAAGCCATGCATCGATGCACC-AGGATTT--TTCAAACATCAAATGCATTT
678214 C
62 C
* * *
678215 ATGCATCGATGAACAAGCCATGCATCGATGCACTC-GGAATATTTTCAAACATCGAATGCATTTG
1 ATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGG-AT-TTTTCAAACATCAAATGCATTTC
*
678279 ATGCATCGATGCACAAGCCATGCATCGATGCACCAGGCTATTTTTCAAACATCAAATGCACTTC
1 ATGCATCGATGCACAAGCCATGCATCGATGCACCAGG--ATTTTTCAAACATCAAATGCATTTC
678343 ATGCATCGATGCAC
1 ATGCATCGATGCAC
678357 TCTTAGTGCA
Statistics
Matches: 124, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
63 4 0.03
64 104 0.84
65 16 0.13
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (62 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCACCAGGATTTTTCAAACATCAAATGCATTTC
Found at i:678356 original size:17 final size:19
Alignment explanation
Indices: 678334--678376 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
678324 CAAACATCAA
*
678334 ATGCACT-TCA-TGCATCG
1 ATGCACTCTCAGTGCACCG
*
678351 ATGCACTCTTAGTGCACCG
1 ATGCACTCTCAGTGCACCG
678370 ATGCACT
1 ATGCACT
678377 AGGAGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (19 bp):
ATGCACTCTCAGTGCACCG
Found at i:686952 original size:64 final size:63
Alignment explanation
Indices: 686836--686978 Score: 182
Period size: 64 Copynumber: 2.2 Consensus size: 63
686826 ATTCAAGGTG
* * * *
686836 ATGCACCGATGCATCAAACCATGCATCGATGCACCTATGATTTAATTGAACATCGAATGCATTTC
1 ATGCATCGATGCA-CAAACCATGCATCGATGCACCTAGGATTT-ATTAAACATCGAATGCACTTC
*
686901 ATGCATCGATGCACAAGCCATGCATCGATGCACC-AGGCTATTT-TTCAAACATCGAATGCACTT
1 ATGCATCGATGCACAAACCATGCATCGATGCACCTAGG--ATTTATT-AAACATCGAATGCACTT
686964 C
63 C
686965 ATGCATCGATGCAC
1 ATGCATCGATGCAC
686979 TCTTAGTGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 4 0.06
64 50 0.71
65 16 0.23
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAAACCATGCATCGATGCACCTAGGATTTATTAAACATCGAATGCACTTC
Found at i:686978 original size:17 final size:19
Alignment explanation
Indices: 686950--686998 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
686940 ATTTTTCAAA
686950 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
686968 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
686987 CACCGATGCACT
1 CATCGATGCACT
686999 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:691073 original size:22 final size:22
Alignment explanation
Indices: 691044--691100 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
691034 ACTCACCACT
691044 CAGTATCGATACCCTATACAAC
1 CAGTATCGATACCCTATACAAC
*
691066 TAGTATCGATACCCTATACAAC
1 CAGTATCGATACCCTATACAAC
*
691088 CAGTACCGATACC
1 CAGTATCGATACC
691101 ACCCTTCGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.32, G:0.11, T:0.23
Consensus pattern (22 bp):
CAGTATCGATACCCTATACAAC
Found at i:699272 original size:20 final size:19
Alignment explanation
Indices: 699228--699264 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
699218 ATACCAAAAG
*
699228 CTTCACAATTTTTGTCATT
1 CTTCACAATCTTTGTCATT
699247 CTTCACAATCTTT-TCATT
1 CTTCACAATCTTTGTCATT
699265 TCCTTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.22, C:0.24, G:0.03, T:0.51
Consensus pattern (19 bp):
CTTCACAATCTTTGTCATT
Found at i:701479 original size:10 final size:10
Alignment explanation
Indices: 701464--701502 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
701454 TGTAATTTAA
701464 ATATTTTTTT
1 ATATTTTTTT
*
701474 ATATTTTATTA
1 ATATTTT-TTT
701485 ATATTTTTTT
1 ATATTTTTTT
*
701495 TTATTTTT
1 ATATTTTT
701503 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:701485 original size:22 final size:23
Alignment explanation
Indices: 701460--701513 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
701450 TTCATGTAAT
701460 TTAAATATTTTTTTATA-TTTTA
1 TTAAATATTTTTTTATATTTTTA
*
701482 TT-AATATTTTTTTTTATTTTTA
1 TTAAATATTTTTTTATATTTTTA
701504 TTAAA-ATTTT
1 TTAAATATTTT
701514 GTAAATTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 13 0.45
22 14 0.48
23 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTAAATATTTTTTTATATTTTTA
Found at i:703419 original size:3 final size:3
Alignment explanation
Indices: 703411--703441 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
703401 TATTTGATAT
703411 GAA GAA GAA GAA GAA GAA GAA GGAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA
703442 ATAAGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:710224 original size:148 final size:149
Alignment explanation
Indices: 709954--710245 Score: 478
Period size: 148 Copynumber: 2.0 Consensus size: 149
709944 GTTCTTATTC
* ****
709954 GTCAATGGTACCTGTGCAGTCCAGGGGCCTCCAGTGTTTGTGCTTAATACAAAGCAATTTTTTTT
1 GTCAATGGTACATGTGCAGTCCAGGGGCCTCCAGTGTTTGTGCTTAATACAAAGCAA-TAAAATT
* *
710019 TTCTTTTTTCAGAATTATAGAAGAATTTAGTTCTATGTTCTTGCTTAACTCTTAATACATGCAGA
65 TTCTTTTTGCAGAATTATAGAAGAATTTAGTTCTATGTTCTTGCTTAACTCTTAATACATGCAAA
*
710084 CGATTGTTTTAAAAACAATA
130 CAATTGTTTTAAAAACAATA
*
710104 GTCAATGGTTCATGTGCAGTCCAGGGGCCTCCAGTGTTTGTGCTTAATACAAAGCAA-AAAATTT
1 GTCAATGGTACATGTGCAGTCCAGGGGCCTCCAGTGTTTGTGCTTAATACAAAGCAATAAAATTT
*
710168 TCTTTTTGCAGAATTATAGAAGAATTTAGTTCTATGTTCTTGTTTAACTCTTAATACATGCAAAC
66 TCTTTTTGCAGAATTATAGAAGAATTTAGTTCTATGTTCTTGCTTAACTCTTAATACATGCAAAC
710233 AATTGTTTTAAAA
131 AATTGTTTTAAAA
710246 GCCAAAGATA
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
148 77 0.58
150 55 0.42
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (149 bp):
GTCAATGGTACATGTGCAGTCCAGGGGCCTCCAGTGTTTGTGCTTAATACAAAGCAATAAAATTT
TCTTTTTGCAGAATTATAGAAGAATTTAGTTCTATGTTCTTGCTTAACTCTTAATACATGCAAAC
AATTGTTTTAAAAACAATA
Found at i:729581 original size:24 final size:25
Alignment explanation
Indices: 729528--729595 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
729518 ATTAGTTCAC
*
729528 TTAATTGTTTCATAATGTTTTATAAA
1 TTAATTGTTTCATAAT-TTATATAAA
*
729554 --AATTATTTCATAATTTATA-AAA
1 TTAATTGTTTCATAATTTATATAAA
*
729576 TTAATTGTTTAAT-ATTTATA
1 TTAATTGTTTCATAATTTATA
729596 GTATTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 3 0.08
23 11 0.31
24 22 0.61
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAATTGTTTCATAATTTATATAAA
Found at i:729601 original size:23 final size:24
Alignment explanation
Indices: 729566--729611 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
729556 TTATTTCATA
*
729566 ATTTATAAAATT-AATTGTTTAAT
1 ATTTATAAAATTAAAATGTTTAAT
**
729589 ATTTATAGTATTAAAATGTTTAA
1 ATTTATAAAATTAAAATGTTTAA
729612 CTTTAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (24 bp):
ATTTATAAAATTAAAATGTTTAAT
Found at i:730579 original size:2 final size:2
Alignment explanation
Indices: 730561--730619 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
730551 TTAAATCAAC
* *
730561 AT AT AT GT AT AT GT 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
730603 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
730620 GAGAGAGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:730624 original size:2 final size:2
Alignment explanation
Indices: 730619--730643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
730609 ATATATATAT
730619 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
730644 AGTCAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:732732 original size:5 final size:6
Alignment explanation
Indices: 732714--732741 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
732704 GTTAAAATGT
732714 AATAAA AATAAA AATAAA AATAAA AATA
1 AATAAA AATAAA AATAAA AATAAA AATA
732742 TAATTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:732847 original size:21 final size:21
Alignment explanation
Indices: 732805--732846 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
732795 AATAGCACAT
732805 ATGGATCAAAATGTAAATAAA
1 ATGGATCAAAATGTAAATAAA
*
732826 ATGG-TCAAAATGTTAATAAA
1 ATGGATCAAAATGTAAATAAA
732846 A
1 A
732847 AAAGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (21 bp):
ATGGATCAAAATGTAAATAAA
Found at i:733072 original size:25 final size:26
Alignment explanation
Indices: 733039--733090 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
733029 GTGATCAATT
733039 TTAAATAAATGAAAA-AAATAAAACA
1 TTAAATAAATGAAAATAAATAAAACA
* *
733064 TTAACTAAATTAAAATTAAATAAAACA
1 TTAAATAAATGAAAA-TAAATAAAACA
733091 AAATGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
27 10 0.43
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (26 bp):
TTAAATAAATGAAAATAAATAAAACA
Found at i:734528 original size:104 final size:103
Alignment explanation
Indices: 734348--734600 Score: 362
Period size: 104 Copynumber: 2.4 Consensus size: 103
734338 TGCTTGCTGA
* * * *
734348 AGATGACATTGTTCCTTCTCGTTGAGGAAGTAGGGTCAATCTGGAGATAATTTGGTGTTGAAGAC
1 AGATGACGTTGTTCCTTCTCGTTGAGGAAGTA-AGTCAATCTGGAGAGAATCTGGTGTTGAAGAC
734413 GACACTGCTCATCCATGTTGAAGAGTTCTGACCGCTTTC
65 GACACTGCTCATCCATGTTGAAGAGTTCTGACCGCTTTC
* * *
734452 AGATGACGTTGTTCCTTCTTGTTGAGGAAGTCAAGTCAATCTGGAGGGAATCTGGTGTTGAAGAT
1 AGATGACGTTGTTCCTTCTCGTTGAGGAAGT-AAGTCAATCTGGAGAGAATCTGGTGTTGAAGAC
* * * *
734517 GACACTGCTCATCCATGTTGGAGAGTTTTGGCCGTTTTC
65 GACACTGCTCATCCATGTTGAAGAGTTCTGACCGCTTTC
* *
734556 ATATGACGTTGTTCCTTCTCGTTGAGGAAGTAAGGTTAATCTGGA
1 AGATGACGTTGTTCCTTCTCGTTGAGGAAGTAA-GTCAATCTGGA
734601 TAATTTGAAG
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
103 2 0.02
104 130 0.98
105 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (103 bp):
AGATGACGTTGTTCCTTCTCGTTGAGGAAGTAAGTCAATCTGGAGAGAATCTGGTGTTGAAGACG
ACACTGCTCATCCATGTTGAAGAGTTCTGACCGCTTTC
Found at i:735390 original size:36 final size:36
Alignment explanation
Indices: 735295--735387 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 36
735285 ACAATTTCAA
*
735295 AATTTGTGTTTCAAGGGAAAACTATCTCAAGCAAGACG
1 AATTT-TGTTTCAA-GGAAAACAATCTCAAGCAAGACG
** **
735333 AATTTTGTTTTTAGGAAAACAATCTCAAGTGAGATC-
1 AATTTTGTTTCAAGGAAAACAATCTCAAGCAAGA-CG
735369 AATTTTGTTTCAAGTGAAA
1 AATTTTGTTTCAAG-GAAA
735388 CAACTTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 30 0.65
37 11 0.24
38 5 0.11
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
AATTTTGTTTCAAGGAAAACAATCTCAAGCAAGACG
Found at i:735455 original size:102 final size:103
Alignment explanation
Indices: 735233--735462 Score: 259
Period size: 102 Copynumber: 2.2 Consensus size: 103
735223 TGGAAAAAAA
* * * * *
735233 TTTATTTCAAGAGAAGCTATCTCAGGTGAGATAAAATTTTGTTTCGAGGGAAACAATTTCAAAAT
1 TTTATTTCAAGAGAAACAATCTCAAGTGAGATAAAATTTTGTTTCAAGGGAAACAACTTCAAAAT
* * * *
735298 TTGTGTTTCAAGGGAAAACTATCTCAAGCAAGACGAAT
66 TTGGGCTTCAAGGGAAAACTATCTCAAACAAGACGAAC
* ** * * *
735336 TTTGTTTTTAG-GAAAACAATCTCAAGTGAGAT-CAATTTTGTTTCAAGTGAAACAACTTCAAAT
1 TTTATTTCAAGAG-AAACAATCTCAAGTGAGATAAAATTTTGTTTCAAGGGAAACAACTTCAAAA
* *
735399 TTTGGGCTTCAAGGG-AAACTGTCTCAAACGAGACGAAAC
65 TTTGGGCTTCAAGGGAAAACTATCTCAAACAAGACG-AAC
*
735438 TTTATTTCGAGAGAAACAATCTCAA
1 TTTATTTCAAGAGAAACAATCTCAA
735463 AGGCTTATGT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
101 17 0.16
102 62 0.60
103 25 0.24
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (103 bp):
TTTATTTCAAGAGAAACAATCTCAAGTGAGATAAAATTTTGTTTCAAGGGAAACAACTTCAAAAT
TTGGGCTTCAAGGGAAAACTATCTCAAACAAGACGAAC
Found at i:735862 original size:19 final size:18
Alignment explanation
Indices: 735838--735873 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
735828 TGGGGTTTTT
*
735838 TTTGAATTTTTGAGTTGGG
1 TTTGAATCTTTG-GTTGGG
735857 TTTGAATCTTTGGTTGG
1 TTTGAATCTTTGGTTGG
735874 TATAGAAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.31, T:0.53
Consensus pattern (18 bp):
TTTGAATCTTTGGTTGGG
Found at i:737261 original size:24 final size:24
Alignment explanation
Indices: 737229--737295 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
737219 CATCACAGCT
* * *
737229 CGTATAAATTGTACCGAAGTG-TCG
1 CGTAGAAATTGTCCCGAAG-GACCG
737253 CGTAGAAATTTGTCCCGAAGGACCG
1 CGTAGAAA-TTGTCCCGAAGGACCG
*
737278 CGTAGAATTTGTCCCGAA
1 CGTAGAAATTGTCCCGAA
737296 TGACTACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 18 0.49
25 19 0.51
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (24 bp):
CGTAGAAATTGTCCCGAAGGACCG
Found at i:738024 original size:20 final size:21
Alignment explanation
Indices: 737987--738029 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
737977 TTTTCCTTTA
*
737987 GGGGGAATCGGTTCCCCCTCT
1 GGGGGAATCGATTCCCCCTCT
*
738008 GGGGGTATCGATT-CCCCTCT
1 GGGGGAATCGATTCCCCCTCT
738028 GG
1 GG
738030 CATTCTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.09, C:0.30, G:0.35, T:0.26
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCCTCT
Found at i:738557 original size:3 final size:3
Alignment explanation
Indices: 738549--738581 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
738539 TCTCACGTAT
738549 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
738582 AACTCTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:739042 original size:15 final size:15
Alignment explanation
Indices: 739022--739106 Score: 107
Period size: 15 Copynumber: 5.7 Consensus size: 15
739012 ATTTTATTAG
*
739022 TATGTGAAAATGTTC
1 TATGTGAATATGTTC
739037 TATGTGAATATGTTC
1 TATGTGAATATGTTC
* * *
739052 TAGGTGAAAATGTTT
1 TATGTGAATATGTTC
*
739067 TATGTGAATATTTTC
1 TATGTGAATATGTTC
* *
739082 TATATGAATGTGTTC
1 TATGTGAATATGTTC
739097 TATGTGAATA
1 TATGTGAATA
739107 AATGATACTT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:739270 original size:23 final size:23
Alignment explanation
Indices: 739209--739274 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
739199 GAGTCGAGAG
*
739209 TTCTACGCGG-TCATTTGGGACAA
1 TTCTACGCGGTTC-TTCGGGACAA
* * * *
739232 TTCTATGTGATCCTTCGGGACAA
1 TTCTACGCGGTTCTTCGGGACAA
739255 TTCTACGCGGTTCTTCGGGA
1 TTCTACGCGGTTCTTCGGGA
739275 AAAATCTATA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTTCTTCGGGACAA
Found at i:740337 original size:126 final size:126
Alignment explanation
Indices: 740108--740345 Score: 368
Period size: 126 Copynumber: 1.9 Consensus size: 126
740098 AAATCTGCGA
* *
740108 ACGACATTGTTCCTTCATGTTGAGGATGACTAGCCGTATTTAAAGATAACATTGTTCCTTCATGT
1 ACGACATTGTTACTTCATGTTGAGGACGACTAGCCGTATTTAAAGATAACATTGTTCCTTCATGT
* *
740173 TGTGAAAGTCTGGTTATCTGGATGACACTGCTCATTCGCGTTGAGGAGATATGGTCGGTGG
66 TGAGAAAGTCTGGTTATCTAGATGACACTGCTCATTCGCGTTGAGGAGATATGGTCGGTGG
* * ** **
740234 ACGACATTGTTACTTCGTGTTGAGGACGTCTAGCCGTATTTGGAGATAACATTGTTCCTTTGTGT
1 ACGACATTGTTACTTCATGTTGAGGACGACTAGCCGTATTTAAAGATAACATTGTTCCTTCATGT
* *
740299 TGAGGAAGTCTGGTTATCTAGATGACACTGCTCCTTCGCGTTGAGGA
66 TGAGAAAGTCTGGTTATCTAGATGACACTGCTCATTCGCGTTGAGGA
740346 TATCTAGTTG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 100 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (126 bp):
ACGACATTGTTACTTCATGTTGAGGACGACTAGCCGTATTTAAAGATAACATTGTTCCTTCATGT
TGAGAAAGTCTGGTTATCTAGATGACACTGCTCATTCGCGTTGAGGAGATATGGTCGGTGG
Found at i:743353 original size:144 final size:144
Alignment explanation
Indices: 743173--743482 Score: 566
Period size: 144 Copynumber: 2.2 Consensus size: 144
743163 TGAACCACTC
* *
743173 TTTAAATCCATGATTGCATTTCACAATCGGTCGTTACCCATTAAATTAAAATTGTGATCTACTAT
1 TTTAGATCCATGATTGTATTTCACAATCGGTCGTTACCCATTAAATTAAAATTGTGATCTACTAT
* *
743238 TGGTGTGAATCCGCTTAACGCCGCTATTTTTCGCAACAACGGTTTTAAAAACTGCCACTATTCTA
66 TGGTGTGAATCCGCTTAACACCGCTATTTTTCGCAACAACGGTTTTAAAAACTACCACTATTCTA
743303 CTATTTAGCCGCTA
131 CTATTTAGCCGCTA
*
743317 TTTAGATCCATGATTGTATTTCACAATCGGTTGTTACCCATTAAATTAAAATTGTGATCTACTAT
1 TTTAGATCCATGATTGTATTTCACAATCGGTCGTTACCCATTAAATTAAAATTGTGATCTACTAT
*
743382 TGGTGTGAATCCGCTTAACATCGCTATTTTTCGCAACAACGGTTTTAAAAACTACCACTATTCTA
66 TGGTGTGAATCCGCTTAACACCGCTATTTTTCGCAACAACGGTTTTAAAAACTACCACTATTCTA
743447 CTATTTAGCCGCTA
131 CTATTTAGCCGCTA
743461 TTTAGATCCATGATTGTATTTC
1 TTTAGATCCATGATTGTATTTC
743483 GGATGACACC
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 160 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (144 bp):
TTTAGATCCATGATTGTATTTCACAATCGGTCGTTACCCATTAAATTAAAATTGTGATCTACTAT
TGGTGTGAATCCGCTTAACACCGCTATTTTTCGCAACAACGGTTTTAAAAACTACCACTATTCTA
CTATTTAGCCGCTA
Found at i:744006 original size:3 final size:3
Alignment explanation
Indices: 743998--744027 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
743988 ATGGTTAGTC
743998 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
744028 AAGGAAGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:751938 original size:25 final size:25
Alignment explanation
Indices: 751904--751953 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
751894 TCTAATTATC
*
751904 ATGTCATTGTAGTCTTATTCGCCAT
1 ATGTCATTGTAGTCTCATTCGCCAT
751929 ATGTCATTGTAGTCTCATTCGCCAT
1 ATGTCATTGTAGTCTCATTCGCCAT
751954 TTCATGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (25 bp):
ATGTCATTGTAGTCTCATTCGCCAT
Found at i:759332 original size:15 final size:16
Alignment explanation
Indices: 759304--759334 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
759294 ATGCGAGGTA
759304 AAGATTTAGGATGTTC
1 AAGATTTAGGATGTTC
759320 AAGATTT-GGATGTTC
1 AAGATTTAGGATGTTC
759335 TTACATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (16 bp):
AAGATTTAGGATGTTC
Found at i:760920 original size:33 final size:33
Alignment explanation
Indices: 760832--760920 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 33
760822 TAAATAGTTG
* *
760832 TTATATTTTA-TATTAATATAATTATATAAATA
1 TTATTTTTTATTATTAATATATTTATATAAATA
* *
760864 TTATTTTTTATTA-AAATAATATTTATATAATTA
1 TTATTTTTTATTATTAAT-ATATTTATATAAATA
760897 TTATTTATTTATTATTAAT-TATTT
1 TTATTT-TTTATTATTAATATATTT
760921 TTTGTGGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
32 12 0.25
33 26 0.54
34 7 0.15
35 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TTATTTTTTATTATTAATATATTTATATAAATA
Found at i:761067 original size:23 final size:24
Alignment explanation
Indices: 761023--761069 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
761013 GATATGGTAA
761023 TATTTTTTTATAATTAATATTTAT
1 TATTTTTTTATAATTAATATTTAT
*
761047 TATTATTTTTA-ATTTAA-ATTTAT
1 TATT-TTTTTATAATTAATATTTAT
761070 CATGAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTTTTTATAATTAATATTTAT
Found at i:761936 original size:33 final size:33
Alignment explanation
Indices: 761865--761926 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
761855 ATTAAATGTT
*
761865 TTTAAAATACAAATTATAATATTTGAAATTAAA
1 TTTAAAATACAAATTATAATATTCGAAATTAAA
*
761898 TTTAAAATA-AAATTATAGTATTCGAAATT
1 TTTAAAATACAAATTATAATATTCGAAATT
761927 TAACATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (33 bp):
TTTAAAATACAAATTATAATATTCGAAATTAAA
Found at i:761993 original size:19 final size:19
Alignment explanation
Indices: 761955--761993 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
761945 AATATTCCAA
*
761955 TTGAAATTTAAAATTGTAT
1 TTGAAATTTAAAATTATAT
761974 TTGAAA-TTAAAAGTTATAT
1 TTGAAATTTAAAA-TTATAT
761993 T
1 T
761994 CCAATTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTGAAATTTAAAATTATAT
Found at i:762076 original size:14 final size:14
Alignment explanation
Indices: 762057--762087 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
762047 TTTTATCCTT
762057 AACATATACATTAA
1 AACATATACATTAA
*
762071 AACATATATATTAA
1 AACATATACATTAA
762085 AAC
1 AAC
762088 TCACGAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:762265 original size:63 final size:63
Alignment explanation
Indices: 762184--762304 Score: 224
Period size: 63 Copynumber: 1.9 Consensus size: 63
762174 TGTCACAACT
762184 AACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAAAGAACC
1 AACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAAAGAACC
* *
762247 AACTTATCACTTTACATTTATTCAATTTATCCATAATATTTTATCCAATTTATTCAAA
1 AACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAAA
762305 CTTCACATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (63 bp):
AACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAAAGAACC
Found at i:762899 original size:138 final size:138
Alignment explanation
Indices: 762443--763347 Score: 1430
Period size: 138 Copynumber: 6.6 Consensus size: 138
762433 CTGTGTCTCT
* * *
762443 GGGGGATATGAGTGACATAATATGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGGCGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
* *
762508 CCCCTGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTATTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
*
762573 AGTTCCTC
131 AGTTCCCC
*
762581 GGGAGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA-AAAATAATGGAAGGCGC-
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
* ** *
762644 CCCCCGGGAATGCGTTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
762709 AGTT-CCC
131 AGTTCCCC
* *
762716 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTAACAAAATAATGGAAGGCGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
*
762781 CCCCCGGAAATACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
762846 AGTTCCCC
131 AGTTCCCC
* * *
762854 GGGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTAACAAAATAATGGAAGGCG-T
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
*
762918 CCCCCGAAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
*
762983 AGTTCCCG
131 AGTTCCCC
* * * *
762991 GGGGGACAAGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGACACA
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
* *
763056 CCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
763121 AGTTCCCC
131 AGTTCCCC
* * *
763129 GGGGGACATGAGTAATATAATATGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
*
763194 CCCCCCGG--A-ACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTAACATGAA
66 -CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAA
763256 TAGTTCCCC
130 TAGTTCCCC
**
763265 -GGGGACATGAGTGACATAATAGAACAATGATAACATATTCTCTGTGACAAAATAATGGAAGGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC--TGACAAAATAATGGAAGGCG
* *
763329 CACCCCCGGGAACACGCTT
64 CGCCCCCGGAAACACGCTT
763348 CACTTGAATA
Statistics
Matches: 710, Mismatches: 47, Indels: 19
0.91 0.06 0.02
Matches are distributed among these distances:
135 82 0.12
136 147 0.21
137 233 0.33
138 235 0.33
139 13 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (138 bp):
GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG
CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
AGTTCCCC
Found at i:763104 original size:275 final size:271
Alignment explanation
Indices: 762443--763347 Score: 1434
Period size: 275 Copynumber: 3.3 Consensus size: 271
762433 CTGTGTCTCT
* * * *
762443 GGGGGATATGAGTGACATAATATGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGGCGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCA
* *
762508 CCCCTGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTATTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
* * *
762573 AGTTCCTCGGGAGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA-AAAATAATGG
131 AGTTCCCCGGGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTGACAAAATAATGG
* *
762637 AAGGCGCCCCCCGGGAATGCGTTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGA
196 AAGGCGCCCCCC--GAA-ACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGA
762702 CATGAATAGTTCCC
258 CATGAATAGTTCCC
* * *
762716 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTAACAAAATAATGGAAGGCGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCA
*
762781 CCCCCGGAAATACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
66 CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
*
762846 AGTTCCCCGGGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTAACAAAATAATGG
131 AGTTCCCCGGGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTGACAAAATAATGG
*
762911 AAGGCGTCCCCCGAAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGA
196 AAGGCGCCCCCCG--AA-ACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGA
762976 CATGAATAGTTCCC
258 CATGAATAGTTCCC
* * *
762990 GGGGGGACAAGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGACAC
1 -GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGC
* *
763055 ACCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAA
65 ACCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAA
* *
763120 TAGTTCCCCGGGGGACATGAGTAATATAATATGGCAATGATAACATATTCTCTGACAAAATAATG
130 TAGTTCCCCGGGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTGACAAAATAATG
* *
763185 GAAGGCGCGCCCCCCGGAACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTAA
195 GAA-G-GCGCCCCCCGAAACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGA
763250 CATGAATAGTTCCC
258 CATGAATAGTTCCC
* **
763264 CGGGGACATGAGTGACATAATAGAACAATGATAACATATTCTCTGTGACAAAATAATGGAAGGCG
1 GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC--TGACAAAATAATGGAAGGCG
*
763329 CACCCCCGGGAACACGCTT
64 CACCCCCGGAAACACGCTT
763348 CACTTGAATA
Statistics
Matches: 586, Mismatches: 38, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
272 1 0.00
273 211 0.36
274 142 0.24
275 222 0.38
276 1 0.00
277 9 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (271 bp):
GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCA
CCCCCGGAAACACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACATGAAT
AGTTCCCCGGGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTGACAAAATAATGG
AAGGCGCCCCCCGAAACGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTACTGACAT
GAATAGTTCCC
Found at i:766511 original size:26 final size:26
Alignment explanation
Indices: 766482--766544 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
766472 TTTATTGGTA
*
766482 ATTTTATAAAATGATTAAT-TATATTT
1 ATTTTATAAAATAATTAATAT-TATTT
* *
766508 ATTTAATATAATAATTAATATTATTT
1 ATTTTATAAAATAATTAATATTATTT
*
766534 ATTATA-AAAAT
1 ATTTTATAAAAT
766545 TTATTATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.13
26 25 0.83
27 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTTATAAAATAATTAATATTATTT
Found at i:766522 original size:22 final size:22
Alignment explanation
Indices: 766497--766549 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
766487 ATAAAATGAT
766497 TAATTATATTTATTTAATATAA
1 TAATTATATTTATTTAATATAA
*
766519 TAATTA-ATATTATTTATTATAA
1 TAATTATAT-TTATTTAATATAA
*
766541 AAATT-TATT
1 TAATTATATT
766550 ATTAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTATATTTATTTAATATAA
Found at i:777443 original size:24 final size:24
Alignment explanation
Indices: 777411--777460 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
777401 TCCTGTCAAA
* *
777411 GATGAACACTTGATTTTATGTTAG
1 GATGAACACATGATTTTACGTTAG
777435 GATGAACACATGATTTTACGTTAG
1 GATGAACACATGATTTTACGTTAG
777459 GA
1 GA
777461 CGATGAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (24 bp):
GATGAACACATGATTTTACGTTAG
Found at i:783114 original size:24 final size:24
Alignment explanation
Indices: 783082--783131 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
783072 TCCTGTCAAA
* *
783082 GATGAACACTTGATTTTATGTTAG
1 GATGAACACATGATTTTACGTTAG
783106 GATGAACACATGATTTTACGTTAG
1 GATGAACACATGATTTTACGTTAG
783130 GA
1 GA
783132 CGATGAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (24 bp):
GATGAACACATGATTTTACGTTAG
Found at i:790458 original size:33 final size:33
Alignment explanation
Indices: 790421--790584 Score: 143
Period size: 33 Copynumber: 5.0 Consensus size: 33
790411 TTGTTCCGGA
*
790421 CAAGTAGCAGGGATGATGCCCCCACATGCAGCC
1 CAAGTAGCAGGGATGATGCCCCCACAAGCAGCC
* * * * *
790454 CAAGTAGCAGGAATGATGCCCCTATAAGAAGGC
1 CAAGTAGCAGGGATGATGCCCCCACAAGCAGCC
* * * * *
790487 CAAGTAGGAGGGACGATGCCTCCGCATGCAGCC
1 CAAGTAGCAGGGATGATGCCCCCACAAGCAGCC
* * *
790520 CAAGTAGTC--GGATTGATGCCCCTATAAGCAGGC
1 CAAGTAG-CAGGGA-TGATGCCCCCACAAGCAGCC
* * *
790553 CAAGTAGCAGTGATGATGCCTCCATAAGCAGC
1 CAAGTAGCAGGGATGATGCCCCCACAAGCAGC
790585 AGGTTAAATA
Statistics
Matches: 99, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
32 4 0.04
33 93 0.94
34 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.16
Consensus pattern (33 bp):
CAAGTAGCAGGGATGATGCCCCCACAAGCAGCC
Found at i:790584 original size:66 final size:66
Alignment explanation
Indices: 790421--790576 Score: 233
Period size: 66 Copynumber: 2.4 Consensus size: 66
790411 TTGTTCCGGA
*
790421 CAAGTAGCAGGGATGATGCCCCCACATGCAGCCCAAGTAGCAGGAATGATGCCCCTATAAGAAGG
1 CAAGTAGCAGGGATGATGCCTCCACATGCAGCCCAAGTAGCAGGAATGATGCCCCTATAAGAAGG
790486 C
66 C
* * * * *
790487 CAAGTAGGAGGGACGATGCCTCCGCATGCAGCCCAAGTAGTC-GGATTGATGCCCCTATAAGCAG
1 CAAGTAGCAGGGATGATGCCTCCACATGCAGCCCAAGTAG-CAGGAATGATGCCCCTATAAGAAG
790551 GC
65 GC
*
790553 CAAGTAGCAGTGATGATGCCTCCA
1 CAAGTAGCAGGGATGATGCCTCCA
790577 TAAGCAGCAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 78 0.99
67 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.16
Consensus pattern (66 bp):
CAAGTAGCAGGGATGATGCCTCCACATGCAGCCCAAGTAGCAGGAATGATGCCCCTATAAGAAGG
C
Found at i:796146 original size:34 final size:34
Alignment explanation
Indices: 796041--796342 Score: 142
Period size: 36 Copynumber: 8.5 Consensus size: 34
796031 TTGAAACATT
* *
796041 TATATATTATATAATTTTTAAAACACTTTGAAAA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAA
* *
796075 TAAATATAATATATAGTTTTTAAAACGTTTTTGAAAA
1 T--ATATATTATATAGTTTTTAAAAC-ATTTTGAAAA
* *
796112 TATATATTATATGGTTTTCAAAACATTTTGAAAA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAA
*
796146 TA-A-A-TATA-ATTTTTTAAAAAGAAACATTTTGAAAACATA
1 TATATATTATATAGTTTTT----A-AAACATTTTG--AA-A-A
* * *
796185 TATATATTATATAATTTTGAAATCATTTTGAAAA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAA
* * *
796219 CT-TATAATATATAATTTTAAAAAAACATTTTCG-AAA
1 -TATATATTATATAGTTTT--TAAAACATTTT-GAAAA
* * * *
796255 -A-CTA-TATA-A-TTTTGAAAACGTTTTTAAAAA
1 TATATATTATATAGTTTTTAAAAC-ATTTTGAAAA
*
796285 TATATATATAATATA-TAATTTTAAAATACTTTTGAAAATA
1 TATATAT-T-ATATAGT--TTTTAAAACA-TTTTG-AAA-A
796325 TATATATTATATAGTTTT
1 TATATATTATATAGTTTT
796343 AGAAAATATT
Statistics
Matches: 207, Mismatches: 26, Indels: 67
0.69 0.09 0.22
Matches are distributed among these distances:
29 5 0.02
30 11 0.05
31 9 0.04
32 4 0.02
33 5 0.02
34 32 0.15
35 35 0.17
36 37 0.18
37 15 0.07
38 26 0.13
39 9 0.04
40 9 0.04
41 1 0.00
42 4 0.02
43 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (34 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAA
Found at i:796329 original size:38 final size:38
Alignment explanation
Indices: 796257--796337 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
796247 TTTCGAAAAC
*
796257 TATATAATTTTGAAAACGTTTTTAAAAATATATATATAA
1 TATATAATTTTAAAAACG-TTTTAAAAATATATATATAA
* *
796296 TATATAATTTTAAAATAC-TTTTGAAAATATATATATTA
1 TATATAATTTTAAAA-ACGTTTTAAAAATATATATATAA
796334 TATA
1 TATA
796338 GTTTTAGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 22 0.58
39 14 0.37
40 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATAATTTTAAAAACGTTTTAAAAATATATATATAA
Found at i:796336 original size:36 final size:37
Alignment explanation
Indices: 796257--796348 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 37
796247 TTTCGAAAAC
*
796257 TATATAATTTTGAAAACGTTTTTAAAAATATATATATAA
1 TATATAATTTTAAAAACG-TTTTAAAAATATATATAT-A
*
796296 TATATAATTTTAAAATAC-TTTTGAAAATATATATAT-
1 TATATAATTTTAAAA-ACGTTTTAAAAATATATATATA
*
796332 TATATAGTTTTAGAAAA
1 TATATAATTTTA-AAAA
796349 TATTTTATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.25
37 3 0.06
38 17 0.35
39 14 0.29
40 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (37 bp):
TATATAATTTTAAAAACGTTTTAAAAATATATATATA
Found at i:796392 original size:11 final size:10
Alignment explanation
Indices: 796373--796411 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
796363 ATTATTATCG
796373 TTTTTATTTA
1 TTTTTATTTA
796383 TTTATTATTTA
1 TTT-TTATTTA
796394 TTTTTA-TTA
1 TTTTTATTTA
*
796403 ATTTTATTT
1 TTTTTATTT
796412 TCATTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 8 0.31
10 8 0.31
11 10 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:796397 original size:21 final size:23
Alignment explanation
Indices: 796351--796418 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
796341 TTAGAAAATA
*
796351 TTTTATATTA-TTATTATTATCGT
1 TTTTAT-TTATTTATTATTATCAT
796374 TTTTATTTATTTATTATT-T-AT
1 TTTTATTTATTTATTATTATCAT
* *
796395 TTTTA-TTAATT-TTATTTTCAT
1 TTTTATTTATTTATTATTATCAT
796416 TTT
1 TTT
796419 AATTGACTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 5 0.12
20 6 0.15
21 11 0.28
22 4 0.10
23 14 0.35
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (23 bp):
TTTTATTTATTTATTATTATCAT
Found at i:797611 original size:9 final size:9
Alignment explanation
Indices: 797597--797623 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
797587 TGATCATAAG
797597 TTTTATTTT
1 TTTTATTTT
797606 TTTTATTTT
1 TTTTATTTT
797615 TTTTATTTT
1 TTTTATTTT
797624 ACTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTATTTT
Found at i:797673 original size:15 final size:14
Alignment explanation
Indices: 797653--797714 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
797643 ACTTAACCTG
797653 TTATTATTGTTTTTT
1 TTATTATT-TTTTTT
797668 TTATTATTTCTTTCTT
1 TTATTATTT-TTT-TT
* *
797684 TCATTATTATTATTT
1 TTATTATT-TTTTTT
*
797699 TTA-TATTTTTTAT
1 TTATTATTTTTTTT
797712 TTA
1 TTA
797715 GCATCTTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
13 7 0.18
14 5 0.13
15 15 0.38
16 11 0.28
17 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (14 bp):
TTATTATTTTTTTT
Found at i:799461 original size:19 final size:19
Alignment explanation
Indices: 799427--799471 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
799417 ATTTAGACAT
799427 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
799445 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
799464 TTTGCATT
1 TTTGCATT
799472 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:803073 original size:165 final size:165
Alignment explanation
Indices: 802801--803504 Score: 1304
Period size: 165 Copynumber: 4.3 Consensus size: 165
802791 TAAACAAACT
802801 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
802866 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
802931 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
802966 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
803031 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
*
803096 TTCGAGTTCGACTACGCTTAGCTCCAAGGCACATC
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
803131 ATTTGCAGCATAGCTTAAGTCGAGAGGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
803196 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
803261 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
803296 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
803361 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-AAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
* *
803425 TTTGAGTTCGACTACACTCAGCT-CAACGGCACATC
131 TTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
*
803460 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
803505 TTCGGGGTCG
Statistics
Matches: 526, Mismatches: 12, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
163 3 0.01
164 80 0.15
165 443 0.84
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:804750 original size:30 final size:29
Alignment explanation
Indices: 804655--804750 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
804645 CAAAATATTT
* * *
804655 TTTTAATCCAAATAGATACCTAAAATTGTC
1 TTTTAATCAAAATAGGTA-CTAAAATTATC
* * *
804685 ATTTTCATCAAAACAAGTACATAAAATATAT-
1 -TTTTAATCAAAATAGGTAC-TAAAAT-TATC
804716 TTTTAATCAAAATAGGTATCTAAAATTATC
1 TTTTAATCAAAATAGGTA-CTAAAATTATC
804746 TTTTA
1 TTTTA
804751 CCTAAAATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
29 3 0.06
30 27 0.52
31 20 0.38
32 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTTAATCAAAATAGGTACTAAAATTATC
Found at i:814713 original size:37 final size:37
Alignment explanation
Indices: 814667--814746 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
814657 AACAAGTTAG
* * *
814667 AAAATATTTATATATATTTTTTA-AAAATTTAAATTCAT
1 AAAA-ATTTATATAAATTTTTTACAAAATTAAAAAT-AT
814705 AAAAATTTATATAAATTTTTTACAAAATTAAAAATAT
1 AAAAATTTATATAAATTTTTTACAAAATTAAAAATAT
814742 AAAAA
1 AAAAA
814747 AGTTTAATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 24 0.63
38 14 0.37
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (37 bp):
AAAAATTTATATAAATTTTTTACAAAATTAAAAATAT
Found at i:820388 original size:33 final size:32
Alignment explanation
Indices: 820344--820444 Score: 118
Period size: 33 Copynumber: 3.2 Consensus size: 32
820334 CTTTCTTAAT
820344 TTACA-AT-ATTCGTAATCATATCTCATAGAA
1 TTACAGATGATTCGTAATCATATCTCATAGAA
*
820374 TTACTTAGA-GATTCGCAATCATATCTCATAGAA
1 TTAC--AGATGATTCGTAATCATATCTCATAGAA
* **
820407 TTACAGATGAGTTCATAATCATATCTTGTAGAA
1 TTACAGATGA-TTCGTAATCATATCTCATAGAA
820440 TTACA
1 TTACA
820445 AAGGGGTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
30 4 0.07
31 3 0.05
32 3 0.05
33 50 0.83
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (32 bp):
TTACAGATGATTCGTAATCATATCTCATAGAA
Found at i:822866 original size:2 final size:2
Alignment explanation
Indices: 822859--822887 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
822849 TAGCTAAATA
822859 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
822888 TAAATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:828133 original size:31 final size:31
Alignment explanation
Indices: 828095--828157 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
828085 AGTAATTATG
* **
828095 TAATACATATCATGTATTTAAAGTGATGACA
1 TAATACATACCATGTATACAAAGTGATGACA
*
828126 TAATACATACCATGTGTACAAAGTGATGACA
1 TAATACATACCATGTATACAAAGTGATGACA
828157 T
1 T
828158 GATTTGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (31 bp):
TAATACATACCATGTATACAAAGTGATGACA
Found at i:840775 original size:324 final size:324
Alignment explanation
Indices: 840186--841484 Score: 2411
Period size: 324 Copynumber: 4.0 Consensus size: 324
840176 TCATTGAAAT
*
840186 CTCAATTGGCCTTTTGAGCA-GATTTAAGATCAATTACACTATATTAAGTGCAATGGAATGTTAA
1 CTCAATTGGCCTTTTGAG-ATGATTTAAGATCAATGACACTATATTAAGTGCAATGGAATGTTAA
*
840250 AAAACGTTGGACACCCTAAGATATCCCTAAAGATAAAATTAAGAATACAACCATATGGTAATGTT
65 AAAACGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTT
840315 TTACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGT
130 TTACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGT
*
840380 TTAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCGG
195 TTAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCAG
840445 AAGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
260 AAGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
*
840510 CTCAATTGGCCTTTTGAGCTGATTTAAGATCAATGACACTATATTAAGTGCAATGGAATGTTAAA
1 CTCAATTGGCCTTTTGAGATGATTTAAGATCAATGACACTATATTAAGTGCAATGGAATGTTAAA
*
840575 AAATGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
66 AAACGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
840640 TACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGTT
131 TACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGTT
*
840705 TAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATACATAGCTTTACCTTCAGA
196 TAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCAGA
840770 AGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
261 AGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
*
840834 CTCAATTGGCCTTTTGAGATGATTTAAGATCAATGACACTATATTAAGTGCAATGGTATGTTAAA
1 CTCAATTGGCCTTTTGAGATGATTTAAGATCAATGACACTATATTAAGTGCAATGGAATGTTAAA
*
840899 AAACGTTAGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
66 AAACGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
840964 TACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGTT
131 TACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGTT
*
841029 TAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCGGA
196 TAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCAGA
841094 AGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
261 AGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
* *
841158 CTCAATTGGCCTTTTGAGATGATTTAAGATCAATGACGCTATATTAAGTGCAATGGAATGTTCAA
1 CTCAATTGGCCTTTTGAGATGATTTAAGATCAATGACACTATATTAAGTGCAATGGAATGTTAAA
841223 AAACGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
66 AAACGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
* * *
841288 TACTGTAGTTCCACTCTTTTAGTGACAACATCAATAAGCTTGAGAAAAATAATCATAATAAAGTT
131 TACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGTT
*
841353 TAGACAAATTTATTATTTGGCATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCAGA
196 TAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCAGA
* * * *
841418 AGGACAAAGAAACCAAATGATCATGAGAAAAAAGAGACAATTCGAAAACTTTTGGGACGTGGAA
261 AGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
841482 CTC
1 CTC
841485 TCATTAGGGA
Statistics
Matches: 949, Mismatches: 25, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
324 949 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (324 bp):
CTCAATTGGCCTTTTGAGATGATTTAAGATCAATGACACTATATTAAGTGCAATGGAATGTTAAA
AAACGTTGGACACCCTAAGATATCCCTAAAAATAAAATTAAGAATACAACCATATGGTAATGTTT
TACTGTAGTTCCACTCTTTTAATGACAACATCAACAAGTTTGAGAAAAATAATCATAATAAAGTT
TAGACAAATTTATTATTTGACATGATAAAACCACCAATAATCACATGCATAGCTTTACCTTCAGA
AGGACAAAGAAACCAAATGATCATGAGAAGAAAGAAACAATCCGAAAACTTTTGGGATGTGGAA
Found at i:846789 original size:16 final size:17
Alignment explanation
Indices: 846768--846800 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
846758 TTTTCATAAA
846768 TTAATA-AAATTAATTT
1 TTAATATAAATTAATTT
*
846784 TTAATATAAATTCATTT
1 TTAATATAAATTAATTT
846801 GGTTTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAATATAAATTAATTT
Found at i:848748 original size:29 final size:29
Alignment explanation
Indices: 848706--848780 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
848696 AACCCAACCA
**
848706 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
* * *
848735 TAGGTCGCCATGCACGCCCGGCGACCAAG
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
*
848764 GAGGTCGCCATGCACTC
1 TAGGTCGCCATGCACTC
848781 GGGGCGACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.15
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCAAC
Found at i:848786 original size:29 final size:29
Alignment explanation
Indices: 848707--848794 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
848697 ACCCAACCAT
* * ****
848707 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
848736 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
* **
848765 AGGTCGCCATGCACTCGGGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
848794 A
1 A
848795 TTCATGCATG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.20, C:0.38, G:0.31, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAAGG
Found at i:849046 original size:29 final size:29
Alignment explanation
Indices: 849011--849097 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
849001 GTTGGCTGGT
*
849011 AGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
* ***
849040 AGGTCGCTGGGCGTGCATGGCGACCTGGT
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
*
849069 AGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
849098 CCCGGTACTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.15, C:0.30, G:0.39, T:0.16
Consensus pattern (29 bp):
AGGTCGCAGGGCGTGCATGGCGACCTACC
Found at i:852219 original size:38 final size:38
Alignment explanation
Indices: 852187--852270 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
852177 TGAAGGGTTG
* *
852187 AAAAGGCAGCAGCTATAATACTTAATTATGAAGGAATT
1 AAAAGGCAACAACTATAATACTTAATTATGAAGGAATT
**
852225 TTAAGGCAACAACTATAATACTTAATTATGAAGGAATT
1 AAAAGGCAACAACTATAATACTTAATTATGAAGGAATT
*
852263 ATAAGGCA
1 AAAAGGCA
852271 GCAAGTCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (38 bp):
AAAAGGCAACAACTATAATACTTAATTATGAAGGAATT
Done.