Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_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: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:750660 original size:20 final size:20
Alignment explanation
Indices: 750637--750679 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
750627 GATTTTCGGT
750637 TTGCGAATTCGACTTTCGCG
1 TTGCGAATTCGACTTTCGCG
*
750657 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTCGACTTTCGCG
750677 TTG
1 TTG
750680 ATCGCAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.40
Consensus pattern (20 bp):
TTGCGAATTCGACTTTCGCG
Found at i:754029 original size:16 final size:16
Alignment explanation
Indices: 754008--754038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
753998 AAATCATTGA
754008 AAAATTATATAAAAAT
1 AAAATTATATAAAAAT
*
754024 AAAATTATGTAAAAA
1 AAAATTATATAAAAA
754039 AAATAGAGAT
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:754239 original size:20 final size:20
Alignment explanation
Indices: 754214--754310 Score: 149
Period size: 20 Copynumber: 4.8 Consensus size: 20
754204 TGAAATTAAA
754214 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
754234 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
754254 ATCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
* * *
754274 TTCACGTTGAGAATTTAACT
1 TTCGCGTTGCGAATTTGACT
*
754294 ATCGCGTTGCGAATTTG
1 TTCGCGTTGCGAATTTG
754311 GAATATCGCA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:754262 original size:40 final size:40
Alignment explanation
Indices: 754215--754310 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
754205 GAAATTAAAT
* * *
754215 TCGCGTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTCACGTTGAGAATTTAACTA
754255 TCGCGTTGCGAATTTGACTTTCACGTTGAGAATTTAACTA
1 TCGCGTTGCGAATTTGACTTTCACGTTGAGAATTTAACTA
754295 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
754311 GAATATCGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (40 bp):
TCGCGTTGCGAATTTGACTTTCACGTTGAGAATTTAACTA
Found at i:757501 original size:26 final size:27
Alignment explanation
Indices: 757465--757524 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
757455 TAGATTACTT
* *
757465 GATTATAGA-TTAAACCCTTAAGTTTA
1 GATTTTAGATTTAAACCCTTAACTTTA
**
757491 GATTTTAGATTTAGTCCCTTAACTTTA
1 GATTTTAGATTTAAACCCTTAACTTTA
757518 GACTTTT
1 GA-TTTT
757525 CACATTCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (27 bp):
GATTTTAGATTTAAACCCTTAACTTTA
Found at i:757517 original size:27 final size:30
Alignment explanation
Indices: 757479--757546 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
757469 ATAGATTAAA
* *
757479 CCCTTAAGTTTAGA-TTTT-AGATT-TAGT
1 CCCTTAACTTTAGACTTTTCACATTCTAGT
757506 CCCTTAACTTTAGACTTTTCACATTCTAGT
1 CCCTTAACTTTAGACTTTTCACATTCTAGT
*
757536 CCCTAAACTTT
1 CCCTTAACTTT
757547 TAATTAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.37
28 4 0.11
29 4 0.11
30 14 0.40
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (30 bp):
CCCTTAACTTTAGACTTTTCACATTCTAGT
Found at i:759430 original size:20 final size:20
Alignment explanation
Indices: 759407--759459 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
759397 CATGGAATGT
759407 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
* *
759427 AAGATTACCAATTGGAATAA
1 AAGATTACCAGTGGGAATAA
759447 AAGATTACCAGTG
1 AAGATTACCAGTG
759460 AATAGAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:759689 original size:37 final size:38
Alignment explanation
Indices: 759609--759689 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 38
759599 AACAAGTTAA
* *
759609 AAAATATTTATATATTTTCTTTAAAGAATTTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAGAATTGAAAATCAT
759648 -AAAATTTATATACTTTT-TTTACAA-AATTGAAAAT-AT
1 AAAAATTTATATA-TTTTCTTTA-AAGAATTGAAAATCAT
759684 AAAAAT
1 AAAAAT
759690 GTTTAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 2 0.05
37 26 0.70
38 9 0.24
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAGAATTGAAAATCAT
Found at i:762577 original size:17 final size:17
Alignment explanation
Indices: 762555--762588 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
762545 ATTTATTAGA
762555 ATAAAATTATAT-AAAAT
1 ATAAAA-TATATCAAAAT
762572 ATAAAATATATCAAAAT
1 ATAAAATATATCAAAAT
762589 CTATATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAATATATCAAAAT
Found at i:762602 original size:26 final size:28
Alignment explanation
Indices: 762557--762611 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
762547 TTATTAGAAT
762557 AAAATTATATAAAATATAAAATA-TATC
1 AAAATTATATAAAATATAAAATATTATC
*
762584 AAAATCTATAT-AAAT-TAAATTATTATC
1 AAAAT-TATATAAAATATAAAATATTATC
762611 A
1 A
762612 TTATAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 14 0.56
28 5 0.20
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAATTATATAAAATATAAAATATTATC
Found at i:764109 original size:21 final size:21
Alignment explanation
Indices: 764063--764101 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
764053 TAAATTTAAT
764063 TAAA-ATTTATAACTCATAAA
1 TAAATATTTATAACTCATAAA
*
764083 TAAATATTTTTAACTCATA
1 TAAATATTTATAACTCATA
764102 GTAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTTATAACTCATAAA
Found at i:764326 original size:25 final size:22
Alignment explanation
Indices: 764263--764306 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
764253 CCTTAAAAAG
764263 AAAAAATATTGTTTTATTACGA
1 AAAAAATATTGTTTTATTACGA
764285 AAAAAATATTGTTTTATTACGA
1 AAAAAATATTGTTTTATTACGA
764307 GTCAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
AAAAAATATTGTTTTATTACGA
Found at i:773665 original size:105 final size:104
Alignment explanation
Indices: 773483--773994 Score: 663
Period size: 105 Copynumber: 4.9 Consensus size: 104
773473 AAAAATTGAG
* * * *
773483 CAAGTTCTTCTCTTTATGAACTTCCTTCTTTAAGG-CGATTTCTTCTCATTATGAACTCTTCTGG
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTT-AGGACGAGTTCTTCTCATTATGAACTCTTCTGG
* * *
773547 AAATATTGGTTCACCTCCTTATGCGATGGATTTGAAAGGAA
65 AAATGTTGGTTCACCTCCTTCTG-GGTGGATTTGAAAGGAA
* *
773588 CAAGTTATTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTCTGGA
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGA
* *
773653 AATGTTGATTCACCTCCTTCTAGGATGGATTTGAAAGGAA
66 AATGTTGGTTCACCTCCTTCT-GGGTGGATTTGAAAGGAA
* *
773693 CAAGTTCTTCTCATTATGAACTTTCTTCTTTAGGACGAGTTCTTCTCATTATGAACT-TTTTGGA
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGA
*
773757 AATGTTGTTTCACCTCCTTCTGGGTGGATTTGAAAGGAA
66 AATGTTGGTTCACCTCCTTCTGGGTGGATTTGAAAGGAA
** * ** * * *
773796 CATCTTCTTCTAATTACAAACTCTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCTAGA
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGA
* * *
773861 AATATTGTTTCACCCCCTTCTGGGGTGGATTTGAAAGGAA
66 AATGTTGGTTCACCTCCTTCT-GGGTGGATTTGAAAGGAA
* ** * *
773901 CATGTTCTTCTCATTACAAACTTTCTCCTTTAGGATGAGCTT-TTCTCATTATGAACT-TTTTGG
1 CAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAG-TTCTTCTCATTATGAACTCTTCTGG
*
773964 AAATGTTGGTACACCTCCTTCTGCGGTGGAT
65 AAATGTTGGTTCACCTCCTTCTG-GGTGGAT
773995 CATAGTTGTT
Statistics
Matches: 365, Mismatches: 36, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
103 67 0.18
104 81 0.22
105 214 0.59
106 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (104 bp):
CAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGA
AATGTTGGTTCACCTCCTTCTGGGTGGATTTGAAAGGAA
Found at i:773720 original size:18 final size:18
Alignment explanation
Indices: 773697--773751 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
773687 AAGGAACAAG
773697 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
* *
773715 TTCTTCT--TTA-GGACGAG
1 TTCTTCTCATTATGAAC--T
773732 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
773750 TT
1 TT
773752 TTGGAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 7 0.25
18 9 0.32
19 3 0.11
20 3 0.11
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:773853 original size:208 final size:209
Alignment explanation
Indices: 773483--773994 Score: 715
Period size: 208 Copynumber: 2.4 Consensus size: 209
773473 AAAAATTGAG
* * * *
773483 CAAGTTCTTCTCTTTATGAACTTCCTTCTTTAAGG-CGATTTCTTCTCATTATGAACTCTTCTGG
1 CAAGTTCTTCTCATTATGAACTTTCTTCTTT-AGGACGAGTTCTTCTCATTATGAACT-TTTTGG
* * * * * ** *
773547 AAATATTGGTTCACCTCCTTATGCGATGGATTTGAAAGGAACAAGTTATTCTCATTATGAACTTT
64 AAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAACTTATTCTAATTACAAACTCT
* * *
773612 CTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTAGG
129 CTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTCTAGAAATATTGATTCACCCCCTTCTAGG
773677 ATGGATTTGAAAGGAA
194 ATGGATTTGAAAGGAA
773693 CAAGTTCTTCTCATTATGAACTTTCTTCTTTAGGACGAGTTCTTCTCATTATGAACTTTTTGGAA
1 CAAGTTCTTCTCATTATGAACTTTCTTCTTTAGGACGAGTTCTTCTCATTATGAACTTTTTGGAA
* * *
773758 ATGTTGTTTCACCTCCTTCTG-GGTGGATTTGAAAGGAACATCTTCTTCTAATTACAAACTCTCT
66 ATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAACTTATTCTAATTACAAACTCTCT
* * * * *
773822 CCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCTAGAAATATTGTTTCACCCCCTTCTGGGGT
131 CCTTTAAGACGAGTTCTTCTCATTATGAACTCTTCTAGAAATATTGATTCACCCCCTTCTAGGAT
773887 GGATTTGAAAGGAA
196 GGATTTGAAAGGAA
* ** * *
773901 CATGTTCTTCTCATTACAAACTTTCTCCTTTAGGATGAGCTT-TTCTCATTATGAACTTTTTGGA
1 CAAGTTCTTCTCATTATGAACTTTCTTCTTTAGGACGAG-TTCTTCTCATTATGAACTTTTTGGA
*
773965 AATGTTGGTACACCTCCTTCTGCGGTGGAT
65 AATGTTGGTTCACCTCCTTCTGCGGTGGAT
773995 CATAGTTGTT
Statistics
Matches: 269, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
208 182 0.68
209 37 0.14
210 50 0.19
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (209 bp):
CAAGTTCTTCTCATTATGAACTTTCTTCTTTAGGACGAGTTCTTCTCATTATGAACTTTTTGGAA
ATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAACTTATTCTAATTACAAACTCTCT
CCTTTAAGACGAGTTCTTCTCATTATGAACTCTTCTAGAAATATTGATTCACCCCCTTCTAGGAT
GGATTTGAAAGGAA
Found at i:774952 original size:7 final size:7
Alignment explanation
Indices: 774924--775034 Score: 52
Period size: 7 Copynumber: 15.1 Consensus size: 7
774914 CGAACCCTCA
774924 TTTTTCT
1 TTTTTCT
774931 TTTCATT-T
1 TTT--TTCT
774939 TTATTTCT
1 TT-TTTCT
774947 TTTTTCT
1 TTTTTCT
774954 CTTTTT-T
1 -TTTTTCT
**
774961 CATTT-T
1 TTTTTCT
774967 TTTTTCAT
1 TTTTTC-T
774975 TTTTTCAT
1 TTTTTC-T
774983 TTTTTCAT
1 TTTTTC-T
*
774991 TTTTCCATCA
1 TTTT---TCT
775001 TTTTTC-
1 TTTTTCT
775007 -TTTTCT
1 TTTTTCT
*
775013 TTTTTCA
1 TTTTTCT
*
775020 TTTTTCA
1 TTTTTCT
775027 TTTTTCT
1 TTTTTCT
775034 T
1 T
775035 CAAGCATATT
Statistics
Matches: 85, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
5 5 0.06
6 7 0.08
7 32 0.38
8 32 0.38
9 3 0.04
10 4 0.05
11 2 0.02
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCT
Found at i:774962 original size:27 final size:28
Alignment explanation
Indices: 774930--775029 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 28
774920 CTCATTTTTC
774930 TTTTCATTTTT-ATTTCTTTTTTCTCTT
1 TTTTCATTTTTCATTTCTTTTTTCTCTT
* *
774957 TTTTCATTTTT-TTTTCATTTTTTC-ATT
1 TTTTCATTTTTCATTTC-TTTTTTCTCTT
774984 TTTTCATTTTTCCATCATT-TTTCTTT-TCTT
1 TTTTCATTTTT-CAT--TTCTTT-TTTCTCTT
775014 TTTTCATTTTTCATTT
1 TTTTCATTTTTCATTT
775030 TTCTTCAAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
27 30 0.48
28 7 0.11
29 7 0.11
30 16 0.26
31 2 0.03
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTCATTTTTCATTTCTTTTTTCTCTT
Found at i:774966 original size:8 final size:8
Alignment explanation
Indices: 774966--775031 Score: 70
Period size: 8 Copynumber: 8.6 Consensus size: 8
774956 TTTTTCATTT
774966 TTTTTTCA
1 TTTTTTCA
774974 TTTTTTCA
1 TTTTTTCA
774982 TTTTTTCA
1 TTTTTTCA
*
774990 TTTTTCCA
1 TTTTTTCA
774998 TCATTTTTC-
1 T--TTTTTCA
775007 --TTTTC-
1 TTTTTTCA
775012 TTTTTTCA
1 TTTTTTCA
775020 -TTTTTCA
1 TTTTTTCA
775027 TTTTT
1 TTTTT
775032 CTTCAAGCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
5 5 0.10
7 12 0.24
8 28 0.56
10 5 0.10
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:775002 original size:38 final size:37
Alignment explanation
Indices: 774960--775032 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 37
774950 TTCTCTTTTT
774960 TCATTTTT-TTTTCATTTTTTCATTTTTTCATTTTTCCA
1 TCATTTTTCTTTTC-TTTTTTCA-TTTTTCATTTTTCCA
774998 TCATTTTTCTTTTCTTTTTTCATTTTTCATTTTTC
1 TCATTTTTCTTTTCTTTTTTCATTTTTCATTTTTC
775033 TTCAAGCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 13 0.38
38 16 0.47
39 5 0.15
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (37 bp):
TCATTTTTCTTTTCTTTTTTCATTTTTCATTTTTCCA
Found at i:775025 original size:19 final size:19
Alignment explanation
Indices: 774921--775030 Score: 100
Period size: 19 Copynumber: 5.7 Consensus size: 19
774911 TCTCGAACCC
*
774921 TCATTTTTCTTTTCATTTT
1 TCATTTTTCTTTTCTTTTT
*
774940 T-ATTTCTTTTTTCTCTTTTT
1 TCATTT-TTCTTT-TCTTTTT
774960 TCATTTTT-TTTTCATTTTT
1 TCATTTTTCTTTTC-TTTTT
* ***
774979 TCATTTTTTCATTT-TTCCA
1 TCA-TTTTTCTTTTCTTTTT
774998 TCATTTTTCTTTTCTTTTT
1 TCATTTTTCTTTTCTTTTT
775017 TCATTTTTCATTTT
1 TCATTTTTC-TTTT
775031 TCTTCAAGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
18 15 0.21
19 33 0.45
20 18 0.25
21 7 0.10
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (19 bp):
TCATTTTTCTTTTCTTTTT
Found at i:798366 original size:42 final size:42
Alignment explanation
Indices: 798302--798396 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
798292 TTCCCCGAAA
* *
798302 TCCCATGTTTGTTTCGTGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
*
798344 TCCCGTGTTTGTTTCATGTAATTCGTTTTCTGGAAAATGTTT
1 TCCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
* *
798386 TTCAGTGTTTG
1 TCCCGTGTTTG
798397 GTTGGAGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
Found at i:798653 original size:23 final size:24
Alignment explanation
Indices: 798611--798712 Score: 77
Period size: 26 Copynumber: 4.2 Consensus size: 24
798601 AATTATTAAA
*
798611 ATATT-TAA-AATATATTTATTATT
1 ATATTATAATAATATA-ATATTATT
798634 AT-TTATAATAATATAATATTAAATT
1 ATATTATAATAATATAATATT--ATT
* * * *
798659 TTATTATTATAATAAAATAATCAATT
1 ATATTATAATAATATAAT-AT-TATT
*
798685 ATATTATAATAATATAAGA-TATT
1 ATATTATAATAATATAATATTATT
798708 ATATT
1 ATATT
798713 TTTATGTTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
22 2 0.03
23 17 0.27
24 6 0.10
25 5 0.08
26 30 0.48
27 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
ATATTATAATAATATAATATTATT
Found at i:798672 original size:26 final size:26
Alignment explanation
Indices: 798631--798833 Score: 100
Period size: 26 Copynumber: 7.8 Consensus size: 26
798621 TATATTTATT
*
798631 ATTAT-TTATAATAATATAATATTAA
1 ATTATATTATAATAATATAATAATAA
* * * *
798656 ATTTTATTATTATAATAAAATAATCA
1 ATTATATTATAATAATATAATAATAA
*
798682 ATTATATTATAATAATATAAGATATTATA
1 ATTATATTATAATAATAT-A-ATAATA-A
* *
798711 TTTTTATGT-TAATAA-ATATATAATAA
1 ATTATAT-TATAATAATATA-ATAATAA
* * *
798737 ATT-TTTTAT-AT-ATTTAATAATGA
1 ATTATATTATAATAATATAATAATAA
* * * *
798760 ATAATATTATTTATATATTTAATATTAA
1 ATTATATTA-TAATA-ATATAATAATAA
* * **
798788 TATAATATAATAATAATATTTTAATAA
1 -ATTATATTATAATAATATAATAATAA
798815 A-TATATT-TAA-AATATAATA
1 ATTATATTATAATAATATAATA
798834 TAACACTATT
Statistics
Matches: 133, Mismatches: 32, Indels: 28
0.69 0.17 0.15
Matches are distributed among these distances:
23 16 0.12
24 12 0.09
25 12 0.09
26 37 0.28
27 15 0.11
28 20 0.15
29 20 0.15
30 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
ATTATATTATAATAATATAATAATAA
Found at i:798876 original size:58 final size:54
Alignment explanation
Indices: 798790--798948 Score: 121
Period size: 58 Copynumber: 2.8 Consensus size: 54
798780 AATATTAATA
* *
798790 TAATATAATAATAATAT-TTTAATAAATATATTTAAAATATAATATAACA-CTATTACTT
1 TAATA-AATAATAATATATTT-AT-AATAT-TTTAAAATATAATATAA-AGATAATA-TT
* *
798848 TAATAAATAATTAATATAATTTATAATATTTTTATTAATAAAATTATAAAGATAATATT
1 TAATAAATAA-TAATAT-ATTTATAATA-TTTTA-AAATATAA-TATAAAGATAATATT
798907 TAAT-AATAAATAA-ATTATTT-TAATATTTTAAAATAATAATAT
1 TAATAAAT-AATAATA-TATTTATAATATTTTAAAAT-ATAATAT
798949 TAAGTTTTAT
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
54 6 0.07
55 8 0.09
56 5 0.06
57 10 0.12
58 26 0.31
59 18 0.21
60 12 0.14
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (54 bp):
TAATAAATAATAATATATTTATAATATTTTAAAATATAATATAAAGATAATATT
Found at i:799119 original size:47 final size:46
Alignment explanation
Indices: 799062--799151 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 46
799052 CAAATATCAT
* * *
799062 AAAACGTTTTC-CAAATGTTTTTCAGAAAAATGTAATTCATTTTACGG
1 AAAACATTTTCGCAAAAGTTTTCCAG--AAATGTAATTCATTTTACGG
*
799109 AAAACATTTTCTGGAAAAGTTTTCCAGAAATGTAATTCATTTT
1 AAAACATTTTC-GCAAAAGTTTTCCAGAAATGTAATTCATTTT
799152 CCAGAATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
47 26 0.70
49 11 0.30
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (46 bp):
AAAACATTTTCGCAAAAGTTTTCCAGAAATGTAATTCATTTTACGG
Found at i:799165 original size:20 final size:20
Alignment explanation
Indices: 799128--799166 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
799118 TCTGGAAAAG
**
799128 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
799148 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
799167 CAGTATTTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:799182 original size:15 final size:15
Alignment explanation
Indices: 799140--799211 Score: 76
Period size: 15 Copynumber: 4.9 Consensus size: 15
799130 TTCCAGAAAT
799140 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
799155 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
*
799169 GTATTTCATTTTCCA
1 GTAATTCATTTTCCA
*
799184 GTAATTCAAATTT-CA
1 GTAATTC-ATTTTCCA
*
799199 GAAATTCATTTTC
1 GTAATTCATTTTC
799212 TAGAAAACCA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
14 16 0.36
15 25 0.56
16 4 0.09
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:799192 original size:30 final size:29
Alignment explanation
Indices: 799142--799216 Score: 105
Period size: 30 Copynumber: 2.6 Consensus size: 29
799132 CCAGAAATGT
*
799142 AATTCATTTTCCAGAATTCAAATTCCAGT
1 AATTCATTTTCCAGAATTCAAATTCCAGA
* *
799171 ATTTCATTTTCCAGTAATTCAAATTTCAGA
1 AATTCATTTTCCAG-AATTCAAATTCCAGA
*
799201 AATTCATTTTCTAGAA
1 AATTCATTTTCCAGAA
799217 AACCAATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 15 0.38
30 25 0.62
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (29 bp):
AATTCATTTTCCAGAATTCAAATTCCAGA
Found at i:801845 original size:3 final size:3
Alignment explanation
Indices: 801823--801935 Score: 79
Period size: 3 Copynumber: 37.3 Consensus size: 3
801813 ATATAAATTT
* * * *
801823 ATA ATA TTA ATA AAA ATA ATA ATA TTA ATT A-A ATA ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * *
801870 ATA ATT ATA ATA ATT ATA ATA ATA TTT ATA ATAA ATA A-A ACTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A-TA ATA
* *
801916 ATA AAA ATAA ATA AAA ATA A
1 ATA ATA AT-A ATA ATA ATA A
801936 ATAGATGAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
2 4 0.05
3 70 0.84
4 9 0.11
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:801916 original size:16 final size:17
Alignment explanation
Indices: 801831--801938 Score: 73
Period size: 16 Copynumber: 6.2 Consensus size: 17
801821 TTATAATATT
801831 AATAA-AAATAATAAT-
1 AATAATAAATAATAATA
*
801846 ATTAATTAAATAATAATAA
1 AATAA-TAAATAATAAT-A
801865 ATATAATAATTATAATAATTA
1 A-ATAATAA--ATAATAA-TA
* *
801886 TAATAAT-ATTTATAATA
1 -AATAATAAATAATAATA
*
801903 AATAA-AACTAATAATA
1 AATAATAAATAATAATA
*
801919 AA-AATAAATAAAAATA
1 AATAATAAATAATAATA
801935 AATA
1 AATA
801939 GATGAAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
15 6 0.08
16 26 0.36
17 13 0.18
18 5 0.07
19 4 0.05
20 4 0.05
21 13 0.18
22 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAAATAATAATA
Found at i:801936 original size:10 final size:10
Alignment explanation
Indices: 801899--801938 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
801889 TAATATTTAT
801899 AATAAATAAA
1 AATAAATAAA
*
801909 ACTAATAATAAA
1 AAT-A-AATAAA
801921 AATAAATAAA
1 AATAAATAAA
801931 AATAAATA
1 AATAAATA
801939 GATGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAAATAAA
Found at i:802471 original size:139 final size:138
Alignment explanation
Indices: 802147--802487 Score: 424
Period size: 139 Copynumber: 2.5 Consensus size: 138
802137 GCAAAAAATT
* *
802147 GAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCATCAGATGAG-TCATTCTCATTATGAAC-
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTC-TTCTCATTATGAACT
* * * * * *
802210 TCCTTCTGGAAATGTTGATCCTCGAAAGAGGGGTTGTTAATTCGACTTCATATGTGATGAATTAA
65 TCCTTCTGAAAATGTTGATCCTCGAAAGAGGGATTGTTAATTCAACTCCATAGGTGATGAATCAA
* *
802275 GGCAAGGTT
130 GACAAGGTC
* *
802284 GAACAAATTCTTCTCATTATGAACTTCTTC-TCCTTTTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACT
* * *
802348 TCCTT-TGAAAATGTTGATCCTC-AAGAGAGGTTATTCTTTCATTCAACTCCATAGGTGATGAAT
65 TCCTTCTGAAAATGTTGATCCTCGAA-AGAGG-GATT-GTTAATTCAACTCCATAGGTGATGAAT
*
802411 CAA-ACTATGGTC
127 CAAGAC-AAGGTC
* *
802423 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
802488 TATCTAGAAA
Statistics
Matches: 176, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
136 5 0.03
137 73 0.41
138 10 0.06
139 85 0.48
140 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (138 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
CCTTCTGAAAATGTTGATCCTCGAAAGAGGGATTGTTAATTCAACTCCATAGGTGATGAATCAAG
ACAAGGTC
Found at i:802710 original size:122 final size:122
Alignment explanation
Indices: 802423--803116 Score: 984
Period size: 122 Copynumber: 5.7 Consensus size: 122
802413 AACTATGGTC
* *
802423 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
* * *
802488 TATCTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCATGTAAAAGGTT
66 TCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCA-GCAAAAGGTT
*
802546 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
*
802611 TCTCTGGAAAAG-TGTATGTTGATCTATCT-CTTCTGTGATAGAATCATGCAAAAGGTT
66 TCTCTGGAAATGTTG-ATGTTGATCTATCTCCTTCTGTGATAGAATCA-GCAAAAGGTT
* **
802668 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTACAGATGAGTTCTTCTCATTATGAACAC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
*
802733 T-TCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
66 TCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATC-AGCAAAAGGTT
* *
802790 GAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
* * * * * * * *
802855 CCTCTGAAAATGTTGGTGCTGATTTATCTCATTATGGGATAGAATCGAGCAAAAGGTT
66 TCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATC-AGCAAAAGGTT
* *
802913 AAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGCGTTCTTCTCATTATGAAC-T
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
* * * * * *
802977 TCTCTAGAAATGTTGGTGTTGATTTATCTCCTTCTGGGATAAAATCAAGAAAAAGGTT
66 TCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATC-AGCAAAAGGTT
* * * *
803035 GAATAATTTCTTCTCATTATGAACTTTTTCTTCCTCTTTC-TATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTC-TTCAGATGAGTTCTTCTCATTATGAACT
*
803099 TCCTCTGGAAATGTTGAT
65 TTCTCTGGAAATGTTGAT
803117 CCATCGAGTG
Statistics
Matches: 519, Mismatches: 45, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
121 23 0.04
122 282 0.54
123 214 0.41
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (122 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
TCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCAGCAAAAGGTT
Found at i:802912 original size:245 final size:240
Alignment explanation
Indices: 802423--803114 Score: 996
Period size: 245 Copynumber: 2.8 Consensus size: 240
802413 AACTATGGTC
* *
802423 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAAC-T
* *
802488 TATCTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCATGTAAAAGGTTGAACAAG
65 TATCTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCA-G-AAAAAGTTGAATAAG
* *
802553 TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
128 TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCT-G
* *
802618 AAAAGTGTAT-GTTGATCTATCTCTTCTGTGATAGAATCATGCAAAAGGTT
192 AAAA-TGT-TGGTTGATCTATCTCTTATGGGATAGAATCATGCAAAAGGTT
* *
802668 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTACAGATGAGTTCTTCTCATTATGAACAC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAAC-T
*
802733 T-TCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAATAAG
65 TATCTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATC-AG-AAAAAGTTGAATAAG
*
802797 TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCCCTCTGA
128 TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGA
*
802862 AAATGTTGGTGCTGATTTATCTCATTATGGGATAGAATCGA-GCAAAAGGTT
193 AAATGTTGGT--TGATCTATCTC-TTATGGGATAGAATC-ATGCAAAAGGTT
* *
802913 AAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGCGTTCTTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
* * * * * *
802978 CTCTAGAAATGTTGGTGTTGATTTATCTCCTTCTGGGATAAAATCAAGAAAAAGGTTGAATAATT
66 ATCTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATC-AGAAAAA-GTTGAATAAGT
* * *
803043 TCTTCTCATTATGAACTTTTTCTTCCTCTTTC-TATGAGTTCTTCTCATTATGAACTTCCTCTGG
129 TCTTCTCATTATGAACTTCTTCTTCCTC-TTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGA
803107 AAATGTTG
193 AAATGTTG
803115 ATCCATCGAG
Statistics
Matches: 408, Mismatches: 30, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
241 1 0.00
242 5 0.01
243 5 0.01
244 133 0.33
245 260 0.64
246 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (240 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTT
ATCTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCAGAAAAAGTTGAATAAGTTC
TTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGAAAA
TGTTGGTTGATCTATCTCTTATGGGATAGAATCATGCAAAAGGTT
Found at i:803033 original size:367 final size:368
Alignment explanation
Indices: 802427--803116 Score: 1023
Period size: 367 Copynumber: 1.9 Consensus size: 368
802417 ATGGTCGAAC
**
802427 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTTTATC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTCCATC
* * * * * *
802492 TAGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAATCATGTAAAAGGTTGAACAAGTTCT
66 TAGAAATGTTGATGCTGATCTATCTCATTATGGGATAGAATCATGCAAAAGGTTAAACAAGTTCT
*
802557 TCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
131 TCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAAAA
* * * *
802622 GTGTATGTTGATCTATCTCTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGTTCTTCTCATTA
196 GTGTATGTTGATCTATCTCTTCTGGGATAAAATCAAGAAAAAGGTTGAACAAGTTCTTCTCATTA
*
802687 TGAACTTCTTCTTCCTC-TACAGATGAGTTCTTCTCATTATGAAC-ACTTCTGGAAATGTTGATG
261 TGAACTTCTTCTTCCTCTTAC-GATGAGTTCTTCTCATTATGAACTACCTCTGGAAATGTTGATG
802750 TTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAAT
325 TTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAAT
* * *
802794 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCCCTC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTCCATC
* *
802859 T-GAAAATGTTGGTGCTGATTTATCTCATTATGGGATAGAATCGA-GCAAAAGGTTAAACAAGTT
66 TAG-AAATGTTGATGCTGATCTATCTCATTATGGGATAGAATC-ATGCAAAAGGTTAAACAAGTT
**
802922 CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGCGTTCTTCTCATTATGAAC-TTCTCTAGAA
129 CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAA
* * * * *
802986 ATGT-TGGTGTTGATTTATCTCCTTCTGGGATAAAATCAAGAAAAAGGTTGAATAATTTCTTCTC
194 AAGTGT-ATGTTGATCTATCT-CTTCTGGGATAAAATCAAGAAAAAGGTTGAACAAGTTCTTCTC
* * * *
803050 ATTATGAACTTTTTCTTCCTCTTTCTATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTG
257 ATTATGAACTTCTTCTTCCTCTTACGATGAGTTCTTCTCATTATGAACTACCTCTGGAAATGTTG
803115 AT
322 AT
803117 CCATCGAGTG
Statistics
Matches: 287, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
365 1 0.00
366 25 0.09
367 242 0.84
368 19 0.07
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (368 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTATGAACTCCATC
TAGAAATGTTGATGCTGATCTATCTCATTATGGGATAGAATCATGCAAAAGGTTAAACAAGTTCT
TCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAAAA
GTGTATGTTGATCTATCTCTTCTGGGATAAAATCAAGAAAAAGGTTGAACAAGTTCTTCTCATTA
TGAACTTCTTCTTCCTCTTACGATGAGTTCTTCTCATTATGAACTACCTCTGGAAATGTTGATGT
TGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAAT
Found at i:803188 original size:36 final size:35
Alignment explanation
Indices: 803155--803276 Score: 100
Period size: 36 Copynumber: 3.4 Consensus size: 35
803145 AGTAAAACTG
803155 TCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAA
* * ** ** **
803191 TCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTG
1 TCTCAAGCGAGATGAA-T-TTGTTTTAAGAAAAACAA
* * *
803228 TCTCAAGCGAGACGCAGTTTGTTTTAAGGAAAACAA
1 TCTCAAGCGAGATG-AATTTGTTTTAAGAAAAACAA
*
803264 TCTCAAGTGAGAT
1 TCTCAAGCGAGAT
803277 AACACATAAA
Statistics
Matches: 63, Mismatches: 21, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
36 37 0.59
37 25 0.40
38 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (35 bp):
TCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAA
Found at i:803200 original size:73 final size:73
Alignment explanation
Indices: 803138--803278 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
803128 TGAAAATTTC
* *
803138 TGTTTCTAGTAAAACTGTCTCAAGCGAGATG-AATCTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTAAAACTGTCTCAAGCGAGACGCAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAG
803202 ATAAATTGT
65 ATAAATTGT
* * *
803211 TGTTTCGAGTGAAACTGTCTCAAGCGAGACGCAGTTTGTTTTAAGGAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTAAAACTGTCTCAAGCGAGACGCAATTTGTTTTAAGAAAAACAATCTCAAGTGAGA
803276 TAA
66 TAA
803279 CACATAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 60 0.97
74 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (73 bp):
TGTTTCGAGTAAAACTGTCTCAAGCGAGACGCAATTTGTTTTAAGAAAAACAATCTCAAGTGAGA
TAAATTGT
Found at i:803232 original size:37 final size:36
Alignment explanation
Indices: 803138--803239 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
803128 TGAAAATTTC
* *
803138 TGTTTCTAGTAAAACTGTCTCAAGCGAGATGAATCT
1 TGTTTCAAGTAAAACTGTCTCAAGCGAGATAAATCT
* * ** * *
803174 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGT
1 TGTTTCAAGTAAAACTGTCTCAAGCGAGATAAA-TCT
* *
803211 TGTTTCGAGTGAAACTGTCTCAAGCGAGA
1 TGTTTCAAGTAAAACTGTCTCAAGCGAGA
803240 CGCAGTTTGT
Statistics
Matches: 50, Mismatches: 15, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
36 26 0.52
37 24 0.48
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGTAAAACTGTCTCAAGCGAGATAAATCT
Found at i:803370 original size:53 final size:54
Alignment explanation
Indices: 803283--803491 Score: 280
Period size: 54 Copynumber: 3.9 Consensus size: 54
803273 AGATAACACA
* * * *
803283 TAAAGCATTTGATAACA-ATTCATTTTTTCATGTGGTTTCTGCAT-AGATGTTCG
1 TAAAACATTTGACAACATATTCATCTTTTCCTGTGGTTTCTGC-TCAGATGTTCG
* * *
803336 TAAAACATTTGA-AACACATTCATCTTTTCTTGTGGTTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACATATTCATCTTTTCCTGTGGTTTCTGCTCAGATGTTCG
* * * *
803389 TAAAACATTTGACAACATATTCATCCTTTCCTATGGCTTCTGCTCAAATGTTCG
1 TAAAACATTTGACAACATATTCATCTTTTCCTGTGGTTTCTGCTCAGATGTTCG
*
803443 TAAAACATTTGACAACATATTCATCTTTTCCTGTGGTTTCTGCCCAGAT
1 TAAAACATTTGACAACATATTCATCTTTTCCTGTGGTTTCTGCTCAGAT
803492 AATTTGTCAG
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
52 5 0.04
53 54 0.39
54 78 0.57
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (54 bp):
TAAAACATTTGACAACATATTCATCTTTTCCTGTGGTTTCTGCTCAGATGTTCG
Found at i:808070 original size:14 final size:15
Alignment explanation
Indices: 808052--808090 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
808042 TACAAACGCA
808052 AAAATGCAAAGATG-
1 AAAATGCAAAGATGT
*
808066 CAAATGCAAAGATGT
1 AAAATGCAAAGATGT
808081 AAAATGCAAA
1 AAAATGCAAA
808091 TGCATGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.15
Consensus pattern (15 bp):
AAAATGCAAAGATGT
Found at i:808501 original size:13 final size:13
Alignment explanation
Indices: 808483--808512 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
808473 GTTATGGAGT
*
808483 TCTTTTTCCTTTA
1 TCTTTTTCCTTCA
808496 TCTTTTTCCTTCA
1 TCTTTTTCCTTCA
808509 TCTT
1 TCTT
808513 CTGTGTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (13 bp):
TCTTTTTCCTTCA
Found at i:809872 original size:14 final size:15
Alignment explanation
Indices: 809847--809876 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
809837 TGGTCGGTTC
809847 TCTCATTTCTCTCTT
1 TCTCATTTCTCTCTT
809862 TCTCATTCTCTCTCT
1 TCTCATT-TCTCTCT
809877 AAGAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.57
Consensus pattern (15 bp):
TCTCATTTCTCTCTT
Found at i:810674 original size:3 final size:3
Alignment explanation
Indices: 810659--810742 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
810649 ATATAAATTT
* *
810659 ATA ATA TTA ATA ATA ATA ATA ATA ATTA ATA A-A ATA A-A ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * *
810703 ATA ATA ATA TTT ATA ATAA ATA A-A ACTA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA A-TA ATA ATA ATA ATA
810743 TAAATAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.09
3 51 0.78
4 8 0.12
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:810719 original size:35 final size:37
Alignment explanation
Indices: 810659--810737 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 37
810649 ATATAAATTT
*
810659 ATAAT-ATTAATAATAATAATAATAATTAATAAAA-TA
1 ATAATAATT-ATAATAATAATAATAATAAATAAAACTA
* *
810695 A-AATAATTATAATAATATTTATAATAAATAAAACTA
1 ATAATAATTATAATAATAATAATAATAAATAAAACTA
810731 ATAATAA
1 ATAATAA
810738 AAATATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 25 0.68
36 7 0.19
37 5 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (37 bp):
ATAATAATTATAATAATAATAATAATAAATAAAACTA
Found at i:814998 original size:21 final size:21
Alignment explanation
Indices: 814969--815021 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
814959 ATTCTGACTA
814969 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
814990 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
815011 TCGCAATGCGA
1 TCGCATTGCGA
815022 ATACGTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:815270 original size:21 final size:21
Alignment explanation
Indices: 815245--815306 Score: 106
Period size: 21 Copynumber: 2.9 Consensus size: 21
815235 GACATCCGTC
815245 CCCATCTCCGACGAAATCAGT
1 CCCATCTCCGACGAAATCAGT
*
815266 CCCATCTCCGACGATATCAGT
1 CCCATCTCCGACGAAATCAGT
815287 CTCCATCTCCGACGAAATCA
1 C-CCATCTCCGACGAAATCA
815307 TTCTCGGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.27, C:0.39, G:0.13, T:0.21
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCAGT
Found at i:815311 original size:22 final size:22
Alignment explanation
Indices: 815246--815311 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
815236 ACATCCGTCC
815246 CCATCTCCGACGAAATCAGTC-
1 CCATCTCCGACGAAATCAGTCT
*
815267 CCATCTCCGACGATATCAGTCT
1 CCATCTCCGACGAAATCAGTCT
*
815289 CCATCTCCGACGAAATCATTCT
1 CCATCTCCGACGAAATCAGTCT
815311 C
1 C
815312 GGTAAGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 20 0.49
22 21 0.51
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (22 bp):
CCATCTCCGACGAAATCAGTCT
Found at i:815697 original size:34 final size:34
Alignment explanation
Indices: 815657--815776 Score: 107
Period size: 34 Copynumber: 3.4 Consensus size: 34
815647 CGATTTTCAT
815657 TTCGCGTTGCGATTATTGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTATTGCGTTGCGATAGTCAAA
* ** *
815691 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTC-AT
1 TTCGCGTTGCGAT--T-A--TT-GCGTTGCGATAGTCAAA
* * * *
815730 TTCGAGTTGCGATTCTTGCGATACGATAGTCAAA
1 TTCGCGTTGCGATTATTGCGTTGCGATAGTCAAA
815764 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
815777 AGTCATTTTC
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
33 9 0.14
34 28 0.42
36 1 0.02
37 2 0.03
39 15 0.23
40 11 0.17
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (34 bp):
TTCGCGTTGCGATTATTGCGTTGCGATAGTCAAA
Found at i:815699 original size:20 final size:20
Alignment explanation
Indices: 815674--815816 Score: 102
Period size: 20 Copynumber: 7.5 Consensus size: 20
815664 TGCGATTATT
*
815674 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAATTTC
*
815694 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAATTTC
* **
815714 GTGTTGCGATTTTC-ATTTC
1 GCGTTGCGATAGTCAATTTC
*
815733 GAGTTGCGAT--TC---TT-
1 GCGTTGCGATAGTCAATTTC
* * *
815747 GCGATACGATAGTCAAATTC
1 GCGTTGCGATAGTCAATTTC
*
815767 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAATTTC
* ** *
815787 GTGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCAATTTC
*
815807 GTGTTGCGAT
1 GCGTTGCGAT
815817 TTTAAGTTTC
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
14 7 0.07
15 2 0.02
16 2 0.02
17 2 0.02
19 15 0.15
20 72 0.72
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (20 bp):
GCGTTGCGATAGTCAATTTC
Found at i:815766 original size:73 final size:73
Alignment explanation
Indices: 815647--815817 Score: 288
Period size: 73 Copynumber: 2.3 Consensus size: 73
815637 TCTGTCGTTA
* * *
815647 CGATTTTCATTTCGCGTTGCGATTATTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTT
1 CGATTTTCATTTCGAGTTGCGATTATTGCGATACGATAGTCAAATTCGCGTTGCGATAGTCATTT
815712 TCGTGTTG
66 TCGTGTTG
*
815720 CGATTTTCATTTCGAGTTGCGATTCTTGCGATACGATAGTCAAATTCGCGTTGCGATAGTCATTT
1 CGATTTTCATTTCGAGTTGCGATTATTGCGATACGATAGTCAAATTCGCGTTGCGATAGTCATTT
815785 TCGTGTTG
66 TCGTGTTG
*
815793 CGATTTTCATTTTCGTGTTGCGATT
1 CGATTTTCA-TTTCGAGTTGCGATT
815818 TTAAGTTTCA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 78 0.85
74 14 0.15
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (73 bp):
CGATTTTCATTTCGAGTTGCGATTATTGCGATACGATAGTCAAATTCGCGTTGCGATAGTCATTT
TCGTGTTG
Found at i:815826 original size:20 final size:20
Alignment explanation
Indices: 815783--815826 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
815773 CGATAGTCAT
* *
815783 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
815803 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
815823 TTTC
1 TTTC
815827 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:817779 original size:19 final size:19
Alignment explanation
Indices: 817755--817799 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
817745 CAACAACAAA
817755 ATCGCACGCGAAAATAAAT
1 ATCGCACGCGAAAATAAAT
* * *
817774 ATCGCAATGCGAAAATGACT
1 ATCGC-ACGCGAAAATAAAT
817794 ATCGCA
1 ATCGCA
817800 ATGTGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (19 bp):
ATCGCACGCGAAAATAAAT
Found at i:817812 original size:20 final size:20
Alignment explanation
Indices: 817762--817820 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
817752 AAAATCGCAC
* *
817762 GCGAAAATAAATATCGCAAT
1 GCGAAAATGACTATCGCAAT
817782 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
* **
817802 GTGAATTTGACTATCGCAA
1 GCGAAAATGACTATCGCAA
817821 CGAAAGAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:817892 original size:20 final size:20
Alignment explanation
Indices: 817865--817953 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
817855 GCGATTCTCT
**
817865 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
817885 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
817905 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCG
817925 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
817945 CGTTGCGAT
1 CGTTGCGAT
817954 TTTAAGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:818489 original size:20 final size:20
Alignment explanation
Indices: 818464--818570 Score: 160
Period size: 20 Copynumber: 5.3 Consensus size: 20
818454 AAATTCAGTA
*
818464 TTGCGATTGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
818484 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
818504 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
818524 TTGCGATAGTCATAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
818544 TTGCGATAGTCAGATTCGCA
1 TTGCGATAGTCAGAATCGCG
818564 TTGCGAT
1 TTGCGAT
818571 TTACGTATTC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:818580 original size:20 final size:20
Alignment explanation
Indices: 818557--818609 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
818547 CGATAGTCAG
818557 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
818577 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
818597 ATTCGCATTGCGA
1 ATTCGCATTGCGA
818610 ATTAAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:818628 original size:19 final size:20
Alignment explanation
Indices: 818606--818665 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
818596 TATTCGCATT
818606 GCGAATT-AAAAATCGCAAC
1 GCGAATTGAAAAATCGCAAC
* *
818625 GCGAATTTGGAAAATCGCAAT
1 GCGAA-TTGAAAAATCGCAAC
*
818646 GCGAATTTGGAAAATCGCAA
1 GCGAA-TTGAAAAATCGCAA
818666 TGTGATAGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.14
20 2 0.05
21 30 0.81
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.20
Consensus pattern (20 bp):
GCGAATTGAAAAATCGCAAC
Found at i:818666 original size:21 final size:21
Alignment explanation
Indices: 818614--818667 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
818604 TTGCGAATTA
*
818614 AAAATCGCAACGCGAATTTGG
1 AAAATCGCAATGCGAATTTGG
818635 AAAATCGCAATGCGAATTTGG
1 AAAATCGCAATGCGAATTTGG
818656 AAAATCGCAATG
1 AAAATCGCAATG
818668 TGATAGTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (21 bp):
AAAATCGCAATGCGAATTTGG
Found at i:820844 original size:14 final size:14
Alignment explanation
Indices: 820825--820853 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
820815 ACATTTGTAA
820825 CTCTTGATATTAAT
1 CTCTTGATATTAAT
820839 CTCTTGATATTAAT
1 CTCTTGATATTAAT
820853 C
1 C
820854 ATATGAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (14 bp):
CTCTTGATATTAAT
Found at i:836225 original size:28 final size:28
Alignment explanation
Indices: 836175--836239 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
836165 GTCCAATCAC
836175 CGAGTCAACTCGTCTAAGTCAAC-CGTA
1 CGAGTCAACTCGTCTAAGTCAACTCGTA
* * *
836202 CGAGTTAACTCGGTCTGAGTCAACTCGTC
1 CGAGTCAACTC-GTCTAAGTCAACTCGTA
836231 CGAGTCAAC
1 CGAGTCAAC
836240 CCGTTTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 10 0.31
28 11 0.34
29 11 0.34
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (28 bp):
CGAGTCAACTCGTCTAAGTCAACTCGTA
Found at i:836237 original size:14 final size:14
Alignment explanation
Indices: 836174--836239 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
836164 GGTCCAATCA
836174 CCGAGTCAACTCGT
1 CCGAGTCAACTCGT
**
836188 CTAAGTCAAC-CGT
1 CCGAGTCAACTCGT
* *
836201 ACGAGTTAACTCGGT
1 CCGAGTCAACTC-GT
*
836216 CTGAGTCAACTCGT
1 CCGAGTCAACTCGT
836230 CCGAGTCAAC
1 CCGAGTCAAC
836240 CCGTTTACTT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
13 9 0.22
14 20 0.50
15 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (14 bp):
CCGAGTCAACTCGT
Found at i:836258 original size:13 final size:13
Alignment explanation
Indices: 836240--836268 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
836230 CCGAGTCAAC
836240 CCGTTTACTTTGA
1 CCGTTTACTTTGA
836253 CCGTTTACTTTGA
1 CCGTTTACTTTGA
836266 CCG
1 CCG
836269 AAAAAGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.41
Consensus pattern (13 bp):
CCGTTTACTTTGA
Found at i:840220 original size:30 final size:29
Alignment explanation
Indices: 840186--840242 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
840176 TCTTTTAAAA
*
840186 TTATAATTTGGTCC-CTAAACTTTTCAAAGT
1 TTATAATTTAG-CCACTAAAC-TTTCAAAGT
*
840216 TTATACTTTAGCCACTAAACTTTCAAA
1 TTATAATTTAGCCACTAAACTTTCAAA
840243 ACTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (29 bp):
TTATAATTTAGCCACTAAACTTTCAAAGT
Found at i:841772 original size:31 final size:31
Alignment explanation
Indices: 841702--841788 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
841692 ATCTTTTAGT
* * * *
841702 TTTAGATAGAATATTAATTTGA-CCCTAAAC
1 TTTAGATAAAATATCAATTTAACCCCTAAAA
841732 TTTAGATAAAATAT-AATTTTAACCCCTAAAA
1 TTTAGATAAAATATCAA-TTTAACCCCTAAAA
*
841763 TTTATATAAAATATCAATTTAACCCC
1 TTTAGATAAAATATCAATTTAACCCC
841789 ATGAATTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 2 0.04
30 17 0.34
31 29 0.58
32 2 0.04
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (31 bp):
TTTAGATAAAATATCAATTTAACCCCTAAAA
Found at i:843310 original size:16 final size:16
Alignment explanation
Indices: 843286--843346 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
843276 TAATAAATAA
843286 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
843302 ACAAACATAAACGAAC
1 ACGAACATAAACGAAC
* * *
843318 ATGAATATAAATGAAC
1 ACGAACATAAACGAAC
843334 ACGAACATAAACG
1 ACGAACATAAACG
843347 TTGGAGACCC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:844623 original size:27 final size:29
Alignment explanation
Indices: 844557--844623 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 29
844547 GAAGAGAAAG
*
844557 AGATGAAGCTCTGTCGAATCGTTGCAGTTGA
1 AGATGAAGCTCCGTCGAATCGTTGCA--TGA
844588 AGACTTGAAGCTCCGTCGAATCGTTGCA-GA
1 AGA--TGAAGCTCCGTCGAATCGTTGCATGA
844618 A-ATGAA
1 AGATGAA
844624 AATTGTGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 4 0.12
29 1 0.03
30 3 0.09
31 3 0.09
33 22 0.67
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (29 bp):
AGATGAAGCTCCGTCGAATCGTTGCATGA
Found at i:844882 original size:14 final size:14
Alignment explanation
Indices: 844865--844916 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
844855 TGAACGCACA
844865 TAAACGAACATAAC
1 TAAACGAACATAAC
* *
844879 TAAACGCATATAAC
1 TAAACGAACATAAC
844893 TAAACG--CAT-A-
1 TAAACGAACATAAC
844903 TAAACGAACATAAC
1 TAAACGAACATAAC
844917 CGAACGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 6 0.19
11 1 0.03
12 5 0.16
13 1 0.03
14 18 0.58
ACGTcount: A:0.54, C:0.21, G:0.08, T:0.17
Consensus pattern (14 bp):
TAAACGAACATAAC
Found at i:855291 original size:27 final size:25
Alignment explanation
Indices: 855255--855306 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
855245 AAAAAGAGAA
*
855255 AAAAAGAGAAAAAGGCAAAGAGAAAAT
1 AAAAAGAGAAAAA-ACAAAG-GAAAAT
855282 AAAAAGAGAAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAACAAAGGAAAAT
855307 TGAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.25
26 5 0.21
27 13 0.54
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAAACAAAGGAAAAT
Found at i:855299 original size:26 final size:26
Alignment explanation
Indices: 855242--855306 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
855232 ATTCAATCAT
* *
855242 AACAAAAAGAGAA-AAAAAGAGAAAA
1 AACAAAGAGAAAATAAAAAGAGAAAA
*
855267 AGGCAAAGAGAAAATAAAAAGAGAAAA
1 A-ACAAAGAGAAAATAAAAAGAGAAAA
855294 AACAAAG-GAAAAT
1 AACAAAGAGAAAAT
855307 TGAAGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 14 0.41
27 13 0.38
ACGTcount: A:0.74, C:0.05, G:0.18, T:0.03
Consensus pattern (26 bp):
AACAAAGAGAAAATAAAAAGAGAAAA
Found at i:855496 original size:69 final size:69
Alignment explanation
Indices: 855378--855515 Score: 224
Period size: 69 Copynumber: 2.0 Consensus size: 69
855368 GATTCAAACT
* *
855378 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTTCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
855443 TCAA
66 TCAA
* *
855447 ATGAGATTGATCAAGCACAGTCA-TTTCTAAATCACTGAATCACTCCACTCGAAGATCATAGAGC
1 ATGAGATTGATCAAGCACAATCATTTTC-AAATCACTGAACCACTCCACTCGAAGATCATAGAGC
855511 ATCAA
65 ATCAA
855516 GAGAGAGAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
68 4 0.06
69 60 0.94
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTTCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:857354 original size:102 final size:102
Alignment explanation
Indices: 857174--857416 Score: 276
Period size: 102 Copynumber: 2.4 Consensus size: 102
857164 AGACAGTTTC
* * * * *
857174 CAAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACA-AAATCTTTGAATATCTTTTCCTTGAA
1 CAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAACTTTCCCTTGAA
* ** *
857238 ACAAATTTCATCTCTCTTGAGACATTTTCTTTTGGAA
66 ACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAA
*
857275 CTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAA-AACATTTCCCTTG
1 C-AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAAC-TTTCCCTTG
** ** *
857338 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAA
64 AAACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAA
* * * *
857377 CAAATTTTGTCTCCCTTGAGACAGTTTTTCTTGAAGCATA
1 CAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATA
857417 TTTTACCTCC
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
101 37 0.31
102 79 0.66
103 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (102 bp):
CAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAACTTTCCCTTGAA
ACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAA
Found at i:857376 original size:36 final size:36
Alignment explanation
Indices: 857329--857450 Score: 136
Period size: 36 Copynumber: 3.4 Consensus size: 36
857319 ATTGAAAACA
** * *
857329 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
857365 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
** * * ** *
857401 TTTTTCTTGAAGCATATTTTACCTCCCTTGAGACAA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
857437 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
857451 CAAAAAGAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:857535 original size:31 final size:29
Alignment explanation
Indices: 857452--857536 Score: 116
Period size: 29 Copynumber: 2.8 Consensus size: 29
857442 CTTGAAACAC
857452 AAAAAGAAACCTTTGAAATTGTTTCTCTTG
1 AAAAA-AAACCTTTGAAATTGTTTCTCTTG
* *
857482 AAAAAAATCCTTTGAAAATGTTTCTCTTG
1 AAAAAAAACCTTTGAAATTGTTTCTCTTG
*
857511 AAACACAAAACCTTTGAGATTGTTTC
1 AAA-A-AAAACCTTTGAAATTGTTTC
857537 CCTTATTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 25 0.52
30 6 0.12
31 17 0.35
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (29 bp):
AAAAAAAACCTTTGAAATTGTTTCTCTTG
Found at i:861570 original size:21 final size:21
Alignment explanation
Indices: 861546--861585 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
861536 TTTTCAAAGG
861546 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
861567 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
861586 GAATAAATTG
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:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:861635 original size:19 final size:19
Alignment explanation
Indices: 861611--861649 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
861601 TCGAATGCAT
861611 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
861630 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
861649 T
1 T
861650 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:861674 original size:64 final size:64
Alignment explanation
Indices: 861546--861775 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
861536 TTTTCAAAGG
* * *
861546 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
861609 ATT
62 ATT
861612 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
861676 T
64 T
* * ** * *
861677 GATGCATCGATGCACAATCCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-
861739 TT
63 TT
* * *
861741 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
861776 AGGAGTCCAA
Statistics
Matches: 140, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
63 2 0.01
64 98 0.70
65 17 0.12
66 7 0.05
67 14 0.10
68 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:861755 original size:17 final size:19
Alignment explanation
Indices: 861727--861775 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
861717 ATTTTTCAAA
861727 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
861745 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
861764 CACCGATGCACT
1 CATCGATGCACT
861776 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:867571 original size:24 final size:22
Alignment explanation
Indices: 867543--867622 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
867533 CACTTAACAA
867543 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
867567 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
867587 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
867611 TGCATCGATGCA
1 TGCATCGATGCA
867623 CAAGACCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:870195 original size:21 final size:21
Alignment explanation
Indices: 870171--870210 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
870161 TTTTCAAAGG
870171 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
870192 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
870211 GAATAAATTG
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:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:870260 original size:19 final size:19
Alignment explanation
Indices: 870236--870274 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
870226 TCGAATGCAT
870236 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
870255 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
870274 T
1 T
870275 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:870299 original size:64 final size:65
Alignment explanation
Indices: 870171--870335 Score: 201
Period size: 64 Copynumber: 2.5 Consensus size: 65
870161 TTTTCAAAGG
*
870171 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGC
870234 ATTC
62 ATTC
* * *
870238 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
* * **
870302 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCAC
870336 CAGGCTATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 54 0.61
65 15 0.17
66 3 0.03
67 14 0.16
68 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
Found at i:870353 original size:64 final size:63
Alignment explanation
Indices: 870171--870380 Score: 199
Period size: 64 Copynumber: 3.2 Consensus size: 63
870161 TTTTCAAAGG
* ** ** *
870171 CATGCACCGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCAT
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCA-CGCTG-ATTTATTAAAACATCGAATGCAT
*
870236 TC
62 TT
* ** *
870238 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTT-ATTAAAACATCGAATGCATTT
* * *
870302 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTCAAACATCGAATGCACT
1 CATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTTATTAAAACATCGAATGCATT
870365 T
63 T
*
870366 CATGCATCGTTGCAC
1 CATGCATCGATGCAC
870381 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
63 2 0.02
64 82 0.67
65 16 0.13
66 6 0.05
67 16 0.13
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTATTAAAACATCGAATGCATTT
Found at i:874197 original size:23 final size:23
Alignment explanation
Indices: 874170--874221 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
874160 CTTTTAAAGA
* *
874170 AACAACCACAGCAACAAATGTGC
1 AACAACCACACCAACAAACGTGC
*
874193 AACAATCACACCAACAAACGTGC
1 AACAACCACACCAACAAACGTGC
874216 AACAAC
1 AACAAC
874222 GGAGCAAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.33, G:0.10, T:0.08
Consensus pattern (23 bp):
AACAACCACACCAACAAACGTGC
Found at i:874672 original size:38 final size:37
Alignment explanation
Indices: 874630--874714 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 37
874620 CATATATATA
874630 TATATATATGTTA-ATTTTCATTATATG-TTTTA-TTAATT
1 TATATATAT-TTACATTTT--TT-TATGTTTTTATTTAATT
*
874668 TATATATATTTACTATTTTTTTATGTTTTTATTTATTT
1 TATATATATTTAC-ATTTTTTTATGTTTTTATTTAATT
874706 TATATATAT
1 TATATATAT
874715 ACATATTATC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
36 4 0.10
37 10 0.24
38 23 0.55
39 5 0.12
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (37 bp):
TATATATATTTACATTTTTTTATGTTTTTATTTAATT
Found at i:874959 original size:33 final size:31
Alignment explanation
Indices: 874904--874973 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
874894 ATTTTATTTA
* **
874904 TTTATTTAATTTTTCTTTTCGTTTCTTTATT
1 TTTATTTAATTTTTCTTATCGTTAATTTATT
*
874935 TTTATTTAATTTACTTGTTATCGTTAATTTATT
1 TTTATTTAATTT--TTCTTATCGTTAATTTATT
*
874968 ATTATT
1 TTTATT
874974 CTTTTCTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 12 0.38
33 20 0.62
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (31 bp):
TTTATTTAATTTTTCTTATCGTTAATTTATT
Found at i:878864 original size:183 final size:183
Alignment explanation
Indices: 878545--878898 Score: 609
Period size: 183 Copynumber: 1.9 Consensus size: 183
878535 ATTAAATCCG
*
878545 TAAAGCTGAGCTATTCCACTAAGGAAATTGGTTATAGAGGAAACTCTAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
878610 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCAGTGTTTGCTACACTGCTT
66 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCAGTGTTTGCTACACTGCTT
* *
878675 TTGTCAGGCCAAAGACTTTATGATGAGATGAACCCTTCAGTGATTTGTCCCTT
131 TTGTCAGGCAAAAGACTTTATGATGAGACGAACCCTTCAGTGATTTGTCCCTT
* * *
878728 TAAAGTTGAGTTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
878793 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTTGGTGTTTGTTCCACTGCTT
66 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCAGTGTTTGCTACACTGCTT
*
878858 TTGTCAGGCAAAAGACTTTGTGATGAGACGAACCCTTCAGT
131 TTGTCAGGCAAAAGACTTTATGATGAGACGAACCCTTCAGT
878899 TAAACTTGGT
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCAGTGTTTGCTACACTGCTT
TTGTCAGGCAAAAGACTTTATGATGAGACGAACCCTTCAGTGATTTGTCCCTT
Found at i:880262 original size:73 final size:72
Alignment explanation
Indices: 880045--880297 Score: 276
Period size: 72 Copynumber: 3.5 Consensus size: 72
880035 TCTCACTTGT
* * * ** * *
880045 GATTGTTTTTCTTAAAGCATACTTTGTCTCACTTGAGACTGTTTTAATCGAAATAAGATTTATTT
1 GATTGTTTTTCTTAAAACAAACTTTGTCTCTCTTGAGACCATTTTACTCGAAAGAAGATTTATTT
880110 CACTCAA
66 CACTCAA
* * * * **
880117 GTTTGCTTTGCTTAAAACAAACTTTGTCTCAAC-TGAGACTGTTTTACTCGAAAGAAGATTTATT
1 GATTGTTTTTCTTAAAACAAACTTTGTCTC-TCTTGAGACCATTTTACTCGAAAGAAGATTTATT
*
880181 CCACTCAA
65 TCACTCAA
* * *
880189 GATTATTTTTCTTAAAACCAGA-TTTGTCTCTCTTGGGACCATTTTCACTCGAAAGAAGATTTAT
1 GATTGTTTTTCTTAAAA-CAAACTTTGTCTCTCTTGAGACCATTTT-ACTCGAAAGAAGATTTAT
*
880253 TTCAGTCAA
64 TTCACTCAA
* * *
880262 GATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGA
1 GATTGTTTTTCTTAAAACAAACTTTGTCTCTCTTGA
880298 AACAAATTTC
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 94 0.62
73 57 0.38
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (72 bp):
GATTGTTTTTCTTAAAACAAACTTTGTCTCTCTTGAGACCATTTTACTCGAAAGAAGATTTATTT
CACTCAA
Found at i:880293 original size:21 final size:21
Alignment explanation
Indices: 880264--880312 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
880254 TCAGTCAAGA
*
880264 TTGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
880285 TTGTCTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
*
880306 TCGTCTC
1 TTGTCTC
880313 CCTCGAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (21 bp):
TTGTCTCTCTTGAAACAAATT
Found at i:880463 original size:65 final size:65
Alignment explanation
Indices: 880345--880494 Score: 171
Period size: 65 Copynumber: 2.3 Consensus size: 65
880335 ACTAAGTTTC
*
880345 GTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTT
1 GTCTCTCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTT
* * * * * * *
880410 GTCTTTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTG-AATCTGTTTCCCTTGAAA-CAAAT
1 GTCTCTCTTAAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC-ATTTCCCTTGAAATGAATT
880472 TT
64 TT
* *
880474 GTCTCCCTTAAGACATTTTCT
1 GTCTCTCTTAAGACAGTTTCT
880495 TTTGGAACTA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
64 28 0.39
65 43 0.61
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (65 bp):
GTCTCTCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTT
Found at i:880531 original size:166 final size:167
Alignment explanation
Indices: 880293--880614 Score: 522
Period size: 166 Copynumber: 1.9 Consensus size: 167
880283 TTTTGTCTCT
*
880293 CTTGAAACAAATTTCGTCTCCCTCGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
1 CTTGAAACAAATTTCGTCTCCCTCAAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
* * *
880358 CAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTTTCTTAAGA
66 CAGTTTCTCTTAAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
*
880423 TA-GTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCC
131 TAGGTTTCCCTTGAAACAAAAT-TTTGAATCTGTTTCC
* * * *
880460 CTTGAAACAAATTT-GTCTCCCTTAAGACATTTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGA
1 CTTGAAACAAATTTCGTCTCCCTCAAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
* *
880524 TAGTTTCTCTTAAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGA
66 CAGTTTCTCTTAAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
880589 TAGGTTTCCCTTGAAACAAAATTTTG
131 TAGGTTTCCCTTGAAACAAAATTTTG
880615 TCTCCCTTGA
Statistics
Matches: 143, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
166 111 0.78
167 32 0.22
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (167 bp):
CTTGAAACAAATTTCGTCTCCCTCAAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
CAGTTTCTCTTAAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
TAGGTTTCCCTTGAAACAAAATTTTGAATCTGTTTCC
Found at i:880560 original size:101 final size:101
Alignment explanation
Indices: 880390--880776 Score: 404
Period size: 101 Copynumber: 3.8 Consensus size: 101
880380 ATTGAAAACA
** ** * * * *
880390 TTTCCCTTGAAATGAATTTTGTCTTTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTG-AATC
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC
* * * * *
880453 TGTTTCCCTTGAAA-CAAATTTGTCTCCCTTAAGACAT
65 -ATTTCCCTTGAAATCAAATTTGTCTCTCTTGAGATAG
** * * * * * * *
880490 TTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGATAGTTTCTCTTAAAACATAAACATTAAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
880555 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGG
65 ATTTCCCTTGAAATCAAATTTGTCTCTCTTGAGATA-G
880593 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* * * * *
880658 AATTCCCTTGAAATGAATTTTGTCACTCATGAGATAG
65 ATTTCCCTTGAAATCAAATTTGTCTCTCTTGAGATAG
* *
880695 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACTTTGAAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
880760 GTTTCCTTTGAAA-CAAA
66 -TTTCCCTTGAAATCAAA
880777 ATCTTTGAAT
Statistics
Matches: 242, Mismatches: 39, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
100 9 0.04
101 98 0.40
102 47 0.19
103 88 0.36
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (101 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAATCAAATTTGTCTCTCTTGAGATAG
Found at i:880633 original size:37 final size:38
Alignment explanation
Indices: 880556--880643 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 38
880546 ATTAAAAACA
** * *
880556 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAGG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
880593 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA-G
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
880630 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
880644 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
37 26 0.58
38 19 0.42
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (38 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
Found at i:880636 original size:103 final size:101
Alignment explanation
Indices: 880507--880772 Score: 406
Period size: 103 Copynumber: 2.6 Consensus size: 101
880497 TGGAACTAAG
* * * * *
880507 TTTTGTTTCTCTTGAGATAGTTTCTCTTAAAACATAAACATTAAAAACATTTCCCTTGAAATGAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* *
880572 TTTTGTCTCTCTTGAGATAGGTTTCCCTTGAAACAAAA
66 TTTTGTCACTCATGAGATA-GTTTCCCTTGAAAC-AAA
*
880610 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAATTCCCTTGAAATGAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
880675 TTTTGTCACTCATGAGATAGTTTCCCTTGAAACAAA
66 TTTTGTCACTCATGAGATAGTTTCCCTTGAAACAAA
* * *
880711 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACTTTGAAAACAGTTTCCTTTGAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
880773 CAAAATCTTT
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
101 50 0.33
102 24 0.16
103 76 0.51
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (101 bp):
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
TTTTGTCACTCATGAGATAGTTTCCCTTGAAACAAA
Found at i:880713 original size:36 final size:36
Alignment explanation
Indices: 880660--880741 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
880650 TTGAAAACAA
** * *
880660 TTCCCTTGAAATGAATTTTGTCACTCATGAGATAGT
1 TTCCCTTGAAACAAATTTTGTCACCCATGAGACAGT
* *
880696 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
1 TTCCCTTGAAACAAATTTTGTCACCCATGAGACAGT
*
880732 TTCTCTTGAA
1 TTCCCTTGAA
880742 GCATAAACTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (36 bp):
TTCCCTTGAAACAAATTTTGTCACCCATGAGACAGT
Found at i:880761 original size:30 final size:30
Alignment explanation
Indices: 880727--880785 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
880717 CTCCCTTGAG
*
880727 ACAGTTT-CTCTTGAAGCATAAA-CTTTGAAA
1 ACAGTTTCCT-TTGAAACA-AAATCTTTGAAA
880757 ACAGTTTCCTTTGAAACAAAATCTTTGAA
1 ACAGTTTCCTTTGAAACAAAATCTTTGAA
880786 TATGTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (30 bp):
ACAGTTTCCTTTGAAACAAAATCTTTGAAA
Found at i:881722 original size:16 final size:17
Alignment explanation
Indices: 881687--881728 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
881677 CAACCGAGCA
*
881687 AGGAGTCTAGTTGCATT
1 AGGATTCTAGTTGCATT
*
881704 AGGATTCTA-TTGTATT
1 AGGATTCTAGTTGCATT
881720 AGGATTCTA
1 AGGATTCTA
881729 AAAAATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (17 bp):
AGGATTCTAGTTGCATT
Found at i:882314 original size:8 final size:8
Alignment explanation
Indices: 882286--882326 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
882276 TTTTATAGAC
882286 TTTA-TTT
1 TTTATTTT
*
882293 TTTATGTCT
1 TTTAT-TTT
882302 TTTATTTT
1 TTTATTTT
882310 TTTATTTT
1 TTTATTTT
882318 TTTATTTT
1 TTTATTTT
882326 T
1 T
882327 CTTTTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 4 0.13
8 19 0.63
9 7 0.23
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTATTTT
Found at i:882336 original size:16 final size:15
Alignment explanation
Indices: 882286--882336 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
882276 TTTTATAGAC
*
882286 TTTATTTTTTATGTCT
1 TTTATTTTTT-TTTCT
*
882302 TTTATTTTTTTATTTT
1 TTTATTTTTTT-TTCT
882318 TTTATTTTTCTTTTCT
1 TTTATTTTT-TTTTCT
882334 TTT
1 TTT
882337 CGTTTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.90
17 2 0.07
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTATTTTTTTTTCT
Found at i:888201 original size:16 final size:16
Alignment explanation
Indices: 888182--888215 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
888172 TACTAACATC
888182 TATTTAAACTAAAATA
1 TATTTAAACTAAAATA
888198 TATTTAAACTAAAATA
1 TATTTAAACTAAAATA
888214 TA
1 TA
888216 AAGATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TATTTAAACTAAAATA
Found at i:893297 original size:2 final size:2
Alignment explanation
Indices: 893290--893317 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
893280 AGCAATTGGT
893290 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
893318 CACACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:894458 original size:37 final size:37
Alignment explanation
Indices: 894417--894536 Score: 163
Period size: 36 Copynumber: 3.3 Consensus size: 37
894407 GTCACCTTTT
*
894417 AGACAATTTCTTTTAAAAACAAATTTTGTCTCGCTGG
1 AGACAATTTCTTTTAAAAACAAATTTTGTCTCGCTTG
* *
894454 AGACAATTT-TCTTAAAAACAAATTTTGTTTCGCTTG
1 AGACAATTTCTTTTAAAAACAAATTTTGTCTCGCTTG
* * *
894490 AAACAATTTC-TTTCAAAACAAATTTTGTCTCACTTG
1 AGACAATTTCTTTTAAAAACAAATTTTGTCTCGCTTG
*
894526 AGACAGTTTCT
1 AGACAATTTCT
894537 ATCGAATACA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
36 62 0.87
37 9 0.13
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (37 bp):
AGACAATTTCTTTTAAAAACAAATTTTGTCTCGCTTG
Found at i:894796 original size:66 final size:64
Alignment explanation
Indices: 894704--894834 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 64
894694 TCTTGAAACG
* *
894704 AATTTTGTCTCTTGAGATAGTTTCTCTTGAAACA-CAATCTTTGAGTCTT-TTTCTCTTAAAACA
1 AATTTTGTCTCTTAAGATAGTTTCTCTTGAAACATC-ATCTTTGAGT-TTGTTTCCCTTAAAACA
894767 A
64 A
** *
894768 AATTTTGTCTTTCTTAAGATA-TCTTCTCTTGAATGATCATCTTTGAGTTTGTTTCCCTTGAAAC
1 AATTTTGTC--TCTTAAGATAGT-TTCTCTTGAAACATCATCTTTGAGTTTGTTTCCCTTAAAAC
894832 AA
63 AA
894834 A
1 A
894835 TACCTAAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
64 9 0.16
65 3 0.05
66 44 0.77
67 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (64 bp):
AATTTTGTCTCTTAAGATAGTTTCTCTTGAAACATCATCTTTGAGTTTGTTTCCCTTAAAACAA
Found at i:895074 original size:130 final size:129
Alignment explanation
Indices: 894855--895099 Score: 350
Period size: 130 Copynumber: 1.9 Consensus size: 129
894845 TGGCATGTCT
* * * *
894855 TCCTCATCGCGTAGGAACCGTGTCATCCACTGACCAGACCTTCTCATCACGTAGGAGCCGTGTCA
1 TCCTCAACACGTAGGAACCATGTCATCCACCGACCAGACCTTCTCATCACGTAGGAGCCGTGTCA
* *
894920 CCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACTATGTTATCATCCCTAAGATGGCCTGAAG
66 CCCCTAGATAACCAGTCGTCCTCATCACATAGGAACCATGTTATC-TCCCTAAGATGGCCTGAAG
*
894985 TCCTCAACACGTAGGAACCATGTCATCCCCCGACCAGAACTCTT-T-ATCACGTAGGAGCCGTGT
1 TCCTCAACACGTAGGAACCATGTCATCCACCGACCAG-AC-CTTCTCATCACGTAGGAGCCGTGT
* * * *
895048 CACCCTTAGATAATCAGTCGTTCTCATCGCATAGGAACCATGTTATCTCCCT
64 CACCCCTAGATAACCAGTCGTCCTCATCACATAGGAACCATGTTATCTCCCT
895100 TCCTAAAGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
129 5 0.05
130 91 0.89
131 3 0.03
132 3 0.03
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (129 bp):
TCCTCAACACGTAGGAACCATGTCATCCACCGACCAGACCTTCTCATCACGTAGGAGCCGTGTCA
CCCCTAGATAACCAGTCGTCCTCATCACATAGGAACCATGTTATCTCCCTAAGATGGCCTGAAG
Found at i:895399 original size:3 final size:3
Alignment explanation
Indices: 895381--895443 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
895371 CGAAAAAAGG
* *
895381 TTA TTAA TTA -TA TTA TTA TTA TTAA TTA -TA TTA TTT TTA TTA CTA
1 TTA TT-A TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
*
895426 ATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
895444 CATTTTATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:895404 original size:18 final size:18
Alignment explanation
Indices: 895381--895440 Score: 93
Period size: 18 Copynumber: 3.3 Consensus size: 18
895371 CGAAAAAAGG
895381 TTATTAATTATATTATTA
1 TTATTAATTATATTATTA
*
895399 TTATTAATTATATTATTT
1 TTATTAATTATATTATTA
* *
895417 TTATTACTAATATTATTA
1 TTATTAATTATATTATTA
895435 TTATTA
1 TTATTA
895441 TTACATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTAATTATATTATTA
Found at i:895444 original size:21 final size:21
Alignment explanation
Indices: 895387--895444 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
895377 AAGGTTATTA
*
895387 ATTA-TATTATTATTATTAAT
1 ATTATTATTATTATTACTAAT
*
895407 -TATATTATTTTTATTACTAAT
1 AT-TATTATTATTATTACTAAT
895428 ATTATTATTATTATTAC
1 ATTATTATTATTATTAC
895445 ATTTTATAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 28 0.88
22 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTATTACTAAT
Found at i:896818 original size:15 final size:16
Alignment explanation
Indices: 896798--896827 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
896788 CAAAATACAA
896798 TATTCCC-AGTAATCC
1 TATTCCCTAGTAATCC
896813 TATTCCCTAGTAATC
1 TATTCCCTAGTAATC
896828 TTACATTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.37
Consensus pattern (16 bp):
TATTCCCTAGTAATCC
Found at i:896837 original size:18 final size:19
Alignment explanation
Indices: 896814--896856 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
896804 CAGTAATCCT
896814 ATTCC-CTAGTAATCTTAC
1 ATTCCACTAGTAATCTTAC
*
896832 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTAGTAATCTTAC
896852 ATTCC
1 ATTCC
896857 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTCCACTAGTAATCTTAC
Found at i:904505 original size:3 final size:3
Alignment explanation
Indices: 904497--904552 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
904487 ATTTGTAAAT
* **
904497 TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
904544 TAA TAA TAA
1 TAA TAA TAA
904553 CGTTAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:904768 original size:43 final size:42
Alignment explanation
Indices: 904707--905000 Score: 245
Period size: 43 Copynumber: 6.8 Consensus size: 42
904697 TGTTGGGGAC
* * * *
904707 GACACTGCTCATACGTGATGAAGAGTTTGGGTCGTCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTCT-GGTCATCTAAAGGT
*
904750 GACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
904793 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGGT
* * *
904839 GACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCT---GAT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* *
904879 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * * *
904922 GATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
904968 GACACGGCTCCTACGTGATGAAGAGATCTGGTC
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTC
905001 TGGGGATGAC
Statistics
Matches: 201, Mismatches: 35, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
40 34 0.17
42 2 0.01
43 94 0.47
44 2 0.01
45 3 0.01
46 64 0.32
47 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
GACACGGCTCCTACGTGATGAAGAGTCTGGTCATCTAAAGGT
Found at i:904833 original size:46 final size:45
Alignment explanation
Indices: 904707--905044 Score: 221
Period size: 43 Copynumber: 7.8 Consensus size: 45
904697 TGTTGGGGAC
* * * * * *
904707 GACACTGCTCATACGTGATGAAGAGTT-TGGGTCGTCTAAAG-G-T
1 GACACGGCTCCTACGTGATGAGGAGTTCT-GGCCATCTAAGGTGAT
*
904750 GACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCT-AAGGTGAT
* * * **
904796 AACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGG-G-T
1 GACACGGCTCCTACGTGATGAGGA-GTTCTGGCCATCTAAGGTGAT
* *
904839 GACACGGCTCCTACGTGATGAGGAGATCTGG---TC--AGCTGAT
1 GACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCTAAGGTGAT
* *
904879 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCT-AAGGTGAT
* * * * ** *
904925 AACACAGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT--T
1 GACACGGCTCCTACGTGATGAGGA-GTTCTGGCCATCTAAGGTGAT
* * *
904968 GACACGGCTCCTACGTGATGAAGAGATCTGG---TCT--GGGGAT
1 GACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCTAAGGTGAT
* * *
905008 GACACGGTTCCTACATGATGAGGACG-GCTGGCCATCT
1 GACACGGCTCCTACGTGATGAGGA-GTTCTGGCCATCT
905045 TTAGGAGTTA
Statistics
Matches: 235, Mismatches: 38, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
38 4 0.02
39 1 0.00
40 60 0.26
41 1 0.00
42 2 0.01
43 88 0.37
44 5 0.02
45 9 0.04
46 63 0.27
47 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (45 bp):
GACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCTAAGGTGAT
Found at i:904988 original size:89 final size:83
Alignment explanation
Indices: 904878--905038 Score: 214
Period size: 83 Copynumber: 1.9 Consensus size: 83
904868 GGTCAGCTGA
* * *
904878 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG---TCT---GGGGATAACACAGTTCCTACATGA
904943 TGAGGACGGCTGGTTATCTATGGT
60 TGAGGACGGCTGGTTATCTATGGT
* * *
904967 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATAACACAGTTCCTACATGATGAGGA
905032 CGGCTGG
66 CGGCTGG
905039 CCATCTTTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
83 33 0.50
86 3 0.05
89 30 0.45
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (83 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATAACACAGTTCCTACATGATGAGGA
CGGCTGGTTATCTATGGT
Found at i:905044 original size:129 final size:129
Alignment explanation
Indices: 904749--905028 Score: 470
Period size: 129 Copynumber: 2.2 Consensus size: 129
904739 CGTCTAAAGG
*
904749 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGA
* *
904814 TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
66 TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCGGA
*
904878 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGA
* * * *
904943 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGA
66 TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCGGA
* *
905007 TGACACGGTTCCTACATGATGA
1 TGACACGGCTCCTACGTGATGA
905029 GGACGGCTGG
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 140 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGA
TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCGGA
Found at i:905107 original size:28 final size:28
Alignment explanation
Indices: 905057--905110 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
905047 AGGAGTTATG
* *
905057 GTTTCAAGAGAAACCAAATCAAAGATTT
1 GTTTCAAAAGAAACCAAACCAAAGATTT
905085 GTTTCAAAAGAAA-CAAACCCAAAGAT
1 GTTTCAAAAGAAACCAAA-CCAAAGAT
905111 GATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (28 bp):
GTTTCAAAAGAAACCAAACCAAAGATTT
Found at i:905525 original size:31 final size:30
Alignment explanation
Indices: 905461--905535 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
905451 AGAGAAAATG
*
905461 TTTCAAGTGAAACGACTCAAAAATGGTTTTA
1 TTTCAAGTGAAACAACTCAAAAAT-GTTTTA
*
905492 TTTCAATTGAAACAAACTCAAAAAT-TTTGTA
1 TTTCAAGTGAAAC-AACTCAAAAATGTTT-TA
* *
905523 TTTCTAGAGAAAC
1 TTTCAAGTGAAAC
905536 TGCCTCAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 3 0.08
31 24 0.65
32 10 0.27
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTCAAGTGAAACAACTCAAAAATGTTTTA
Found at i:905740 original size:64 final size:64
Alignment explanation
Indices: 905628--905833 Score: 263
Period size: 64 Copynumber: 3.2 Consensus size: 64
905618 AAGGTTGGTA
* ** *
905628 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAATTGTCTTAAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
* * * *
905691 TTTTCAAAAGAAATTGTCTTTAATAGATAAAATTTTGTTTCAAAAGAAACATACTCAAAGATTTT
1 TTTTCAAAAGAAATTGTCTTAAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA-TTT
* * * *
905756 TGTTTTAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA-T
1 T-TTTCAAAAGAAATTGTCTTAA-AGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
905820 T
64 T
905821 TTTTCAAAAGAAA
1 TTTTCAAAAGAAA
905834 CAATCTCAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
63 17 0.14
64 47 0.38
65 7 0.06
66 17 0.14
67 35 0.28
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (64 bp):
TTTTCAAAAGAAATTGTCTTAAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
Found at i:905780 original size:29 final size:30
Alignment explanation
Indices: 905723--905850 Score: 95
Period size: 27 Copynumber: 4.1 Consensus size: 30
905713 ATAGATAAAA
905723 TTTTGTTTCAAAAGAAACATACTCAAAGAT
1 TTTTGTTTCAAAAGAAACATACTCAAAGAT
* * *
905753 TTTTGTTTTAAAAGAAAC-TATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACATA-C-TCA-A-AG----AT
* *
905790 TTTTGTTTCCAAAGAAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACATACTCAAAGAT
905819 -TTT-TTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACATA-CTCAAAGAT
905847 TTTT
1 TTTT
905851 TTTTTTTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
26 1 0.01
27 21 0.27
28 3 0.04
29 5 0.06
30 19 0.24
31 2 0.03
32 1 0.01
33 2 0.03
34 2 0.03
35 1 0.01
36 2 0.03
37 18 0.23
38 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACATACTCAAAGAT
Found at i:905828 original size:26 final size:27
Alignment explanation
Indices: 905795--905851 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
905785 CAAAATTTTG
*
905795 TTTCCAAAGAAACAAACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
*
905822 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
905849 TTT
1 TTT
905852 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAAACTCAAAGATTT
Found at i:905979 original size:26 final size:25
Alignment explanation
Indices: 905950--906090 Score: 93
Period size: 29 Copynumber: 5.1 Consensus size: 25
905940 CAAAACTTTG
* *
905950 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACA-ACTCAAAGATT
905976 TTTCAAAAGAAACAACTCAAAGATATT
1 TTTCAAAAGAAACAACTCAAAG--ATT
* *
906003 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
906032 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
906061 TATTTAAAAGGAACAAACTCAAAGATT
1 T-TTCAAAAGAAAC-AACTCAAAGATT
906088 TTT
1 TTT
906091 TTAAGAGAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
25 8 0.08
26 14 0.14
27 8 0.08
28 11 0.11
29 62 0.60
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (25 bp):
TTTCAAAAGAAACAACTCAAAGATT
Found at i:906033 original size:29 final size:29
Alignment explanation
Indices: 905965--906090 Score: 179
Period size: 29 Copynumber: 4.5 Consensus size: 29
905955 AAATAAATAG
*
905965 ACTCAAAGA--TTT-TTCAAAAGAAAC-A
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
905990 ACTCAAAGATATTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
* *
906019 ACTCCAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
906048 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
906077 ACTCAAAGATTTTT
1 ACTCAAAGATTTTT
906091 TTAAGAGAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
25 9 0.10
27 3 0.03
28 11 0.12
29 69 0.75
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTCAAAAGGAACAA
Done.