Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007761.1 Hibiscus syriacus cultivar Beakdansim tig00110030_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: 1497221
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:755326 original size:14 final size:14
Alignment explanation
Indices: 755296--755337 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
755286 TATAATATAG
*
755296 TTTTTT-AAAAATG
1 TTTTTTGAAAAATA
*
755309 TTTTTTGAAACATA
1 TTTTTTGAAAAATA
*
755323 TTTTTTGAAATATA
1 TTTTTTGAAAAATA
755337 T
1 T
755338 AAATATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (14 bp):
TTTTTTGAAAAATA
Found at i:755374 original size:7 final size:7
Alignment explanation
Indices: 755362--755408 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
755352 TTAGTATTTT
755362 ATTTTCC
1 ATTTTCC
755369 ATTTTCC
1 ATTTTCC
755376 ATTTTCC
1 ATTTTCC
755383 ATTTTCC
1 ATTTTCC
*
755390 ATTTTCT
1 ATTTTCC
755397 ATTTTCC
1 ATTTTCC
755404 ATTTT
1 ATTTT
755409 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCC
Found at i:755414 original size:5 final size:5
Alignment explanation
Indices: 755404--755435 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
755394 TCTATTTTCC
755404 ATTTT ATTTT ATTTT A-TTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
755436 CATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:755423 original size:14 final size:14
Alignment explanation
Indices: 755406--755458 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
755396 TATTTTCCAT
755406 TTTATTTTATTTTA
1 TTTATTTTATTTTA
755420 TTTATTTTATTTTA
1 TTTATTTTATTTTA
*
755434 TTCA-TTTA-TTTA
1 TTTATTTTATTTTA
755446 TTT-TTCTTATTTT
1 TTTATT-TTATTTT
755459 TCTATTCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 7 0.21
13 7 0.21
14 20 0.59
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:755425 original size:9 final size:9
Alignment explanation
Indices: 755404--755457 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
755394 TCTATTTTCC
755404 ATTTTATTTT
1 ATTTTA-TTT
755414 ATTTTATTT
1 ATTTTATTT
755423 ATTTTATTT
1 ATTTTATTT
*
755432 -TATTCATTT
1 AT-TTTATTT
755441 A-TTTATTT
1 ATTTTATTT
755449 -TTCTTATTT
1 ATT-TTATTT
755458 TTCTATTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 8 0.21
9 24 0.63
10 6 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTATTT
Found at i:757636 original size:16 final size:17
Alignment explanation
Indices: 757615--757658 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
757605 TTCTTGCAAG
757615 ATATTTATTATTT-TAT
1 ATATTTATTATTTGTAT
*
757631 ATATTT-TAATTTGTAT
1 ATATTTATTATTTGTAT
757647 ATATTTATTATT
1 ATATTTATTATT
757659 AATAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 15 0.62
17 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
ATATTTATTATTTGTAT
Found at i:757812 original size:35 final size:37
Alignment explanation
Indices: 757700--757799 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 37
757690 GAGTATTGAG
* *
757700 AATA-ATA-TTTTATT-AAATAATAA-TAGTACAATAT
1 AATATATATTTTTATTAAAATAATAAGTTGTACTA-AT
* *
757734 AAAATAACATTTTTATTAAAATAATAAGTTGTACTAAT
1 AATAT-ATATTTTTATTAAAATAATAAGTTGTACTAAT
757772 AATATATATTTATTATTAAAATAA-AAGT
1 AATATATATTT-TTATTAAAATAATAAGT
757800 ATTATATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
34 3 0.06
36 2 0.04
37 16 0.30
38 27 0.50
39 6 0.11
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (37 bp):
AATATATATTTTTATTAAAATAATAAGTTGTACTAAT
Found at i:762176 original size:11 final size:11
Alignment explanation
Indices: 762139--762182 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
762129 TCTTCTTTTC
762139 TTTATTTTCAAGT
1 TTTATTTT-AA-T
*
762152 TTTCATTTTTAT
1 TTT-ATTTTAAT
762164 TTTATTTTAAT
1 TTTATTTTAAT
762175 TTTATTTT
1 TTTATTTT
762183 TAAATGTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 4 0.14
13 4 0.14
14 5 0.18
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:765735 original size:17 final size:17
Alignment explanation
Indices: 765713--765751 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
765703 GGAGAAAACC
765713 CATTTTTAATTTAATTA
1 CATTTTTAATTTAATTA
* *
765730 CATTTTTATTTTATTTA
1 CATTTTTAATTTAATTA
765747 -ATTTT
1 CATTTT
765752 ATTTCTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
CATTTTTAATTTAATTA
Found at i:768712 original size:15 final size:16
Alignment explanation
Indices: 768694--768726 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
768684 GCAAAAGAAA
*
768694 AGTT-AAAAAAATAGT
1 AGTTCAAAAAAACAGT
768709 AGTTCAAAAAAACAGT
1 AGTTCAAAAAAACAGT
768725 AG
1 AG
768727 AAAAAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (16 bp):
AGTTCAAAAAAACAGT
Found at i:769743 original size:16 final size:16
Alignment explanation
Indices: 769710--769760 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
769700 TTCTTCTTGC
* **
769710 TTCTGATTTTATAAAT
1 TTCTGATTTTCTTTAT
769726 TTCTGATTTTCTTTATT
1 TTCTGATTTTCTTTA-T
*
769743 TTCTGATTTTCCTTAT
1 TTCTGATTTTCTTTAT
769759 TT
1 TT
769761 TCAAGCTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 15 0.50
17 15 0.50
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCTGATTTTCTTTAT
Found at i:769747 original size:17 final size:17
Alignment explanation
Indices: 769725--769762 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
769715 ATTTTATAAA
*
769725 TTTCTGATTTTCTTTAT
1 TTTCTGATTTTCCTTAT
769742 TTTCTGATTTTCCTTAT
1 TTTCTGATTTTCCTTAT
769759 TTTC
1 TTTC
769763 AAGCTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTCTGATTTTCCTTAT
Found at i:772029 original size:46 final size:45
Alignment explanation
Indices: 771950--772081 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 45
771940 AAAATAATAT
*
771950 AAAATATCTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
1 AAAATA-CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
*
771996 AAAATACTTACCATTTAAATTCCATAAGC-CGTAAGCTTATTTTTCC
1 AAAATACTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACC
* * * * *
772042 TATATACTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
772082 GCATGGTTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
43 10 0.13
44 12 0.16
45 12 0.16
46 32 0.42
47 10 0.13
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (45 bp):
AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
Found at i:779003 original size:47 final size:45
Alignment explanation
Indices: 778926--779058 Score: 160
Period size: 47 Copynumber: 2.9 Consensus size: 45
778916 AAAATAATAT
*
778926 AAAATATCTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
1 AAAATA-CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
*
778972 AAAATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCC
1 AAAATACTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACC
* * * * * *
779019 TATATACTTGCCA-TTATTCCGTAAGCTCATAAGATTATTT
1 AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
779059 GCATGGTTAC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
44 22 0.29
45 10 0.13
46 8 0.10
47 37 0.48
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (45 bp):
AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
Found at i:785733 original size:22 final size:22
Alignment explanation
Indices: 785703--785744 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
785693 GATATTTATG
785703 AAAAAATAATACT-AATTAATTT
1 AAAAAATAAT-CTAAATTAATTT
*
785725 AAAATATAATCTAAATTAAT
1 AAAAAATAATCTAAATTAAT
785745 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAAATAATCTAAATTAATTT
Found at i:788522 original size:57 final size:60
Alignment explanation
Indices: 788459--788606 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 60
788449 GATTAAATAG
* *
788459 AACATCGAATGCATTTTATGCA-C-AT-A-CCATGCATCGATGCACTCAGGGT-TTTATGAA
1 AACATCGAATGCATTTGATGCATCGATAAGCCATGCATCGATGCACTCAGGCTATTT-TG-A
788516 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGAT----AAGCCATGCATCGATGCACTCAGGCTATTTTGA
* * *
788580 AACATCGAATGAACTTCATGCATCGAT
1 AACATCGAATGCATTTGATGCATCGAT
788607 GCACTCTTAG
Statistics
Matches: 77, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 21 0.27
58 1 0.01
59 2 0.03
64 26 0.34
65 24 0.31
66 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (60 bp):
AACATCGAATGCATTTGATGCATCGATAAGCCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:788545 original size:65 final size:64
Alignment explanation
Indices: 788476--788610 Score: 193
Period size: 65 Copynumber: 2.1 Consensus size: 64
788466 AATGCATTTT
* * * *
788476 ATGCACATA-CCATGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATTTGATGCAT
1 ATGCACA-AGCCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGAACTTCATGCAT
788539 CG
63 CG
788541 ATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGAACTTCATGCATCG
1 ATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGAACTTCATGCATCG
788605 ATGCAC
1 ATGCAC
788611 TCTTAGTGCA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
64 30 0.47
65 31 0.48
66 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (64 bp):
ATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGAACTTCATGCATCG
Found at i:796025 original size:3 final size:3
Alignment explanation
Indices: 796019--796075 Score: 73
Period size: 3 Copynumber: 18.7 Consensus size: 3
796009 CTCAAAAAAA
796019 TAT TAT TAT TAT TA- TAGT TAT T-T TAT TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT TAT
796064 TATT TAT TAT TA
1 TA-T TAT TAT TA
796076 CATTTTTGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.08
3 37 0.76
4 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:796046 original size:20 final size:22
Alignment explanation
Indices: 796020--796075 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
796010 TCAAAAAAAT
796020 ATTATTATTATTA-TAGTT-ATT
1 ATTATTATTATTATTA-TTAATT
796041 -TTATTATTATTATTATTAATT
1 ATTATTATTATTATTATTAATT
796062 ATTATTTATTATTA
1 ATTA-TTATTATTA
796076 CATTTTTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 14 0.45
21 5 0.16
22 3 0.10
23 9 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTATTATTATTATTATTAATT
Found at i:796049 original size:23 final size:24
Alignment explanation
Indices: 796018--796075 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
796008 TCTCAAAAAA
*
796018 ATATTATTATTATTA-TAGTTATT
1 ATATTATTATTATTATTAATTATT
*
796041 TTATTATTATTATTATTAATTATT
1 ATATTATTATTATTATTAATTATT
796065 AT-TTATTATTA
1 ATATTATTATTA
796076 CATTTTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
ATATTATTATTATTATTAATTATT
Found at i:796055 original size:26 final size:23
Alignment explanation
Indices: 796019--796075 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 23
796009 CTCAAAAAAA
*
796019 TATTATTATTATTATAGTTATTTTAT
1 TATTATTATTATTA-A-TTATTAT-T
796045 TATTATTATTATTAATTATTATT
1 TATTATTATTATTAATTATTATT
796068 TATTATTA
1 TATTATTA
796076 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 9 0.30
24 6 0.20
25 1 0.03
26 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TATTATTATTATTAATTATTATT
Found at i:797156 original size:58 final size:58
Alignment explanation
Indices: 796847--797149 Score: 444
Period size: 58 Copynumber: 5.2 Consensus size: 58
796837 ATCATATCTC
* * * * * *
796847 ACTTTATGCACACAAAGTGCTCAATACAAAAATTAATACACTGAGTATAAATTTCTTA
1 ACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTCTTA
* *
796905 ACTTTTTGCACACAAAGTGCCCAGTACAAAAATTCATACACTTAGTATGAATTTCTTA
1 ACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTCTTA
** *
796963 ACTTTTTGCACACAAAGTGCCCAATATGGAAATTCATACCCTTAGTATGAATTTCTTA
1 ACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTCTTA
* * *
797021 ACTTTTTGCACACGAGGTGCCCAATACAGAAATTCATGCACTTAGTATGAATTTCTTA
1 ACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTCTTA
* * * *
797079 ACTTTTTGCACACGAAGTGCCCAGTACGGAAATTTATACACTTAGTATGAATTTCTTA
1 ACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTCTTA
797137 ACTTTTTGCACAC
1 ACTTTTTGCACAC
797150 TTAGTGCAAT
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 223 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (58 bp):
ACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTCTTA
Found at i:797547 original size:19 final size:19
Alignment explanation
Indices: 797488--797547 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 19
797478 GTACCAATAC
*
797488 CCCTACCATGGTATCGATA
1 CCCTACTATGGTATCGATA
797507 CTACCATACTATGGTA-CTGATA
1 C--CC-TACTATGGTATC-GATA
797529 CCCTACTATGGTATCGATA
1 CCCTACTATGGTATCGATA
797548 TTATTTATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 15 0.43
20 3 0.09
21 3 0.09
22 14 0.40
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (19 bp):
CCCTACTATGGTATCGATA
Found at i:797624 original size:20 final size:19
Alignment explanation
Indices: 797572--797625 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
797562 TGTTCTAAAA
*
797572 TGGTATAGATACCTTCCCTT
1 TGGTATAGATA-CTCCCCTT
*
797592 TGGTATTGATACTCCCCTT
1 TGGTATAGATACTCCCCTT
*
797611 TCGGTATCGATACTC
1 T-GGTATAGATACTC
797626 ATCTGATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.39
Consensus pattern (19 bp):
TGGTATAGATACTCCCCTT
Found at i:797657 original size:39 final size:39
Alignment explanation
Indices: 797614--797702 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
797604 TCCCCTTTCG
797614 GTATCGATACTCATCTGATTCAGCAATTTTTAGCCTATA
1 GTATCGATACTCATCTGATTCAGCAATTTTTAGCCTATA
*
797653 GTATCGATACTCATCTGATTCATCAATTTTTAGCCTATA
1 GTATCGATACTCATCTGATTCAGCAATTTTTAGCCTATA
797692 GTATCGATACT
1 GTATCGATACT
797703 GTTCTATCAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (39 bp):
GTATCGATACTCATCTGATTCAGCAATTTTTAGCCTATA
Found at i:803302 original size:23 final size:22
Alignment explanation
Indices: 803276--803321 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
803266 TTTGTTTTGT
*
803276 TTATAAAAAAAATTTAAATTTAC
1 TTAT-AAAAAAATATAAATTTAC
*
803299 TTATAATAAAATATAAATTTAC
1 TTATAAAAAAATATAAATTTAC
803321 T
1 T
803322 AAGATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATAAAAAAATATAAATTTAC
Found at i:803861 original size:97 final size:96
Alignment explanation
Indices: 803690--803888 Score: 245
Period size: 97 Copynumber: 2.1 Consensus size: 96
803680 CATCATATCT
* ** *
803690 CACTTTTTGCACACAAAGTGTTCAATACGAAAATTCATACACTGAGTATGAATTTATTAACTTTT
1 CACTTATTGCACACAAAGTGCCCAATACGAAAATTCATACACTGAGTATGAATTTATCAACTTTT
* * * *
803755 TGTAAACGAAGTTCCCAATATGGAAATTCATA
66 TGCAAACGAA-TGCCCAATACGAAAATTCATA
* * * * * *
803787 CACTTATTGCACACGAAGTGCCCAATACGGAAATTTATACACTTAGTATGACTTTCTCAACTTTT
1 CACTTATTGCACACAAAGTGCCCAATACGAAAATTCATACACTGAGTATGAATTTATCAACTTTT
* *
803852 TGCACACGAATGCCCAATACGAAAATTTATA
66 TGCAAACGAATGCCCAATACGAAAATTCATA
803883 CACTTA
1 CACTTA
803889 GTATGAATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
96 23 0.27
97 63 0.73
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (96 bp):
CACTTATTGCACACAAAGTGCCCAATACGAAAATTCATACACTGAGTATGAATTTATCAACTTTT
TGCAAACGAATGCCCAATACGAAAATTCATA
Found at i:803980 original size:58 final size:58
Alignment explanation
Indices: 803788--803973 Score: 302
Period size: 58 Copynumber: 3.2 Consensus size: 58
803778 AAATTCATAC
* * * *
803788 ACTTATTGCACACGAAGTGCCCAATACGGAAATTTATACACTTAGTATGACTTTCTCA
1 ACTTTTTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTA
803846 ACTTTTTGCACACGAA-TGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTA
1 ACTTTTTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTA
* * *
803903 ACTTTTTACACACGAAGTGCCCAAAACAAAAATTTATACACTTAGTATGAATTTCTTA
1 ACTTTTTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTA
803961 ACTTTTTGCACAC
1 ACTTTTTGCACAC
803974 TTAGTGCTAT
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
57 53 0.45
58 66 0.55
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (58 bp):
ACTTTTTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTA
Found at i:810961 original size:36 final size:35
Alignment explanation
Indices: 810921--811036 Score: 101
Period size: 36 Copynumber: 3.3 Consensus size: 35
810911 CTTTGAGGGT
* *
810921 GTTTTTCTCGAAATAATTTTTTTCTCGCTTGAGAAA
1 GTTTCTCTCGAAATAA-TTTTATCTCGCTTGAGAAA
* ** *
810957 GTTT-TATAAAAACTAATTTTGTCTCGCTTGAGAAA
1 GTTTCTCTCGAAA-TAATTTTATCTCGCTTGAGAAA
* * *
810992 ATTTCTCTCAGAACA-AATTTTATCTCACTTGAGACA
1 GTTTCTCTC-GAA-ATAATTTTATCTCGCTTGAGAAA
811028 GTTTCTCTC
1 GTTTCTCTC
811037 AGAATACAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
35 26 0.41
36 35 0.55
37 2 0.03
38 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (35 bp):
GTTTCTCTCGAAATAATTTTATCTCGCTTGAGAAA
Found at i:811037 original size:36 final size:38
Alignment explanation
Indices: 810971--811049 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 38
810961 TATAAAAACT
* *
810971 AATTTTGTCTCGCTTGAGAAAATTTCTCTCAG-A-ACA
1 AATTTTATCTCACTTGAGAAAATTTCTCTCAGAATACA
* *
811007 AATTTTATCTCACTTGAGACAGTTTCTCTCAGAATACA
1 AATTTTATCTCACTTGAGAAAATTTCTCTCAGAATACA
811045 AATTT
1 AATTT
811050 CAAAGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 28 0.76
37 1 0.03
38 8 0.22
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (38 bp):
AATTTTATCTCACTTGAGAAAATTTCTCTCAGAATACA
Found at i:811536 original size:131 final size:131
Alignment explanation
Indices: 811300--811539 Score: 347
Period size: 131 Copynumber: 1.8 Consensus size: 131
811290 AACTAAAATC
* ** *
811300 CCTAAAGATGGTCTGCTATCCTCATCGCGTAGGAACCGTGTCATCCATTGACCAGACCTCCTCAT
1 CCTAAAGATGGCCTGCTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTAAT
* * ** * *
811365 CACGTAGGAGCTGTGTCACCCTTAGATAACCAGTCATCCTCATCACGTAGGAGTCGTGTTATCAT
66 CACGTAGCAACAATGTCACCCCTAGATAACCAGACATCCTCATCACGTAGGAGTCGTGTTATCAT
811430 T
131 T
* *
811431 CCTAAAGATGGCCTG-TCGTCCTCATCGTGTAGGAACCGTGTCATCCACCGACCAGACCTCCTAA
1 CCTAAAGATGGCCTGCT-ATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTAA
*
811495 TCACGTAGCAACAATGTCACCCCTAGATAACCAGACGTCCTCATC
65 TCACGTAGCAACAATGTCACCCCTAGATAACCAGACATCCTCATC
811540 GCCTAGGAAC
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 1 0.01
131 94 0.99
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (131 bp):
CCTAAAGATGGCCTGCTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTAAT
CACGTAGCAACAATGTCACCCCTAGATAACCAGACATCCTCATCACGTAGGAGTCGTGTTATCAT
T
Found at i:811854 original size:3 final size:3
Alignment explanation
Indices: 811848--811906 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
811838 CGAAATTTTT
**
811848 TTA TTA -TA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
811894 TTA TTTA TTA TTA
1 TTA -TTA TTA TTA
811907 CATTTTGCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:811877 original size:23 final size:23
Alignment explanation
Indices: 811851--811894 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
811841 AATTTTTTTA
811851 TTATATTATTATTATTATTATCG
1 TTATATTATTATTATTATTATCG
*
811874 TTATTTTATTATTATTATTAT
1 TTATATTATTATTATTATTAT
811895 TATTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTATATTATTATTATTATTATCG
Found at i:811884 original size:26 final size:26
Alignment explanation
Indices: 811848--811904 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
811838 CGAAATTTTT
811848 TTATTATATTATTATTATTATTATCG
1 TTATTATATTATTATTATTATTATCG
*
811874 TTATTTTATTATTATTATTATTAT--
1 TTATTATATTATTATTATTATTATCG
811898 TTATTAT
1 TTATTAT
811905 TACATTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
26 23 0.79
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
TTATTATATTATTATTATTATTATCG
Found at i:818730 original size:14 final size:14
Alignment explanation
Indices: 818698--818749 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
818688 TAACTTTTTT
*
818698 GTCAAAGTTAACG-
1 GTCAAAGTCAACGA
818711 GTCAAAGTCAACGA
1 GTCAAAGTCAACGA
* *
818725 GTCAAAGCCAACAA
1 GTCAAAGTCAACGA
818739 GTCAAAGTCAA
1 GTCAAAGTCAA
818750 TGGGTTGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.15
Consensus pattern (14 bp):
GTCAAAGTCAACGA
Found at i:824803 original size:13 final size:13
Alignment explanation
Indices: 824785--824826 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
824775 TTGACTTTTT
824785 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
*
824798 GGTCAAAGTTAAC
1 GGTCAAAGTCAAC
824811 GGGTCAAAGTCAAC
1 -GGTCAAAGTCAAC
824825 GG
1 GG
824827 GTTGACTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.17
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:824817 original size:14 final size:14
Alignment explanation
Indices: 824785--824828 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
824775 TTGACTTTTT
824785 GGTCAAAGTCAAC-
1 GGTCAAAGTCAACG
*
824798 GGTCAAAGTTAACG
1 GGTCAAAGTCAACG
824812 GGTCAAAGTCAACG
1 GGTCAAAGTCAACG
824826 GGT
1 GGT
824829 TGACTCAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (14 bp):
GGTCAAAGTCAACG
Found at i:824860 original size:14 final size:14
Alignment explanation
Indices: 824827--824880 Score: 72
Period size: 15 Copynumber: 3.7 Consensus size: 14
824817 AAGTCAACGG
*
824827 GTTGACTCAGACAGA
1 GTTGACTCGGACA-A
*
824842 GTTGATTCGGACAA
1 GTTGACTCGGACAA
824856 GTTGACTCGGACTAA
1 GTTGACTCGGAC-AA
824871 GTTGACTCGG
1 GTTGACTCGG
824881 TGACTGGACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 12 0.34
15 23 0.66
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (14 bp):
GTTGACTCGGACAA
Found at i:827263 original size:35 final size:35
Alignment explanation
Indices: 827212--827288 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
827202 TTCTATTTAT
*
827212 TTATTTTCTAAAATATAAAATATTTGTTTTAAATA
1 TTATATTCTAAAATATAAAATATTTGTTTTAAATA
827247 TTATATTCTAAAATATAAAATATTTGTTTTAAATA
1 TTATATTCTAAAATATAAAATATTTGTTTTAAATA
827282 TTATATT
1 TTATATT
827289 GTACAATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (35 bp):
TTATATTCTAAAATATAAAATATTTGTTTTAAATA
Found at i:829241 original size:14 final size:14
Alignment explanation
Indices: 829222--829252 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
829212 AAATATTTTT
*
829222 ATGAATAGTGAACA
1 ATGAATAGTAAACA
829236 ATGAATAGTAAACA
1 ATGAATAGTAAACA
829250 ATG
1 ATG
829253 TACCGATGCA
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:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (14 bp):
ATGAATAGTAAACA
Found at i:829345 original size:21 final size:21
Alignment explanation
Indices: 829321--829360 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
829311 TAAAATGTGT
*
829321 ATCGATGCACTGCTACAATGC
1 ATCGATGCACTACTACAATGC
829342 ATCGATGCACTACTACAAT
1 ATCGATGCACTACTACAAT
829361 AACTGCTACA
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:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTACTACAATGC
Found at i:829838 original size:45 final size:45
Alignment explanation
Indices: 829774--829959 Score: 304
Period size: 44 Copynumber: 4.2 Consensus size: 45
829764 ATCAATAAAT
* *
829774 TTACCATTTATCCCATAAGCTTGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
829819 TTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
* * *
829864 TTACCA-TTATTCTATATGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
829908 TTACCA-TTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
*
829952 TTGCCATT
1 TTACCATT
829960 AACCTCATTT
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
44 81 0.62
45 50 0.38
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATAC
Found at i:830220 original size:59 final size:56
Alignment explanation
Indices: 830049--830524 Score: 253
Period size: 59 Copynumber: 8.1 Consensus size: 56
830039 TAGCACTCTC
* * * *
830049 AGTGCTCTATCTGAAAAAT-CATACACTTAGTATGCTTCCCCTT-TCATTTTAGCACACGA
1 AGTGCCCTATCTG-AAAATCCATACA-TTAGTATGATT-TCCTTATC-TTTTAGCACA-TA
* * *
830108 AGTGCCCTAT-TGAAAAATTCATACCATTAGTATGAGTTT-GTTACCATTTTAGCACATGA
1 AGTGCCCTATCTG-AAAATCCATA-CATTAGTATGA-TTTCCTTATC-TTTTAGCACAT-A
* * *
830167 AGTGCCCTATGTGAAAATCCATACCATTAGTATGATTTCCTTATCTTTGTAGCACCCTT
1 AGTGCCCTATCTGAAAATCCATA-CATTAGTATGATTTCCTTATCTTT-TAGCA-CATA
** * * * * * * *
830226 AGTGCTTTATCAGGAAATCCATACAATCAGTATGATTCCCTTACCATTTAGCACACTC
1 AGTGCCCTATCTGAAAATCCATAC-ATTAGTATGATTTCCTTATCTTTTAGCACA-TA
* * * * * * *
830284 AGTGCTCC-ATATGGAAATCTATACACTCAGTATGATTTCCTTATCTTTGTAGTACCCTT
1 AGTGC-CCTATCTGAAAATCCATACA-TTAGTATGATTTCCTTATCTTT-TAGCA-CATA
*** * * * * *
830343 AGTGTTTTATCTGGAAATCTATACACTCAGTATGATTCCCTTACCATTTTAGCACATAA
1 AGTGCCCTATCTGAAAATCCATACA-TTAGTATGATTTCCTTATC-TTTTAGCACAT-A
* ** * * * *
830402 AATGCCCTATCTGAAAATCCATATTTTCAATATGATTACCTTATCATTTAGCACACTC
1 AGTGCCCTATCTGAAAATCCATACATT-AGTATGATTTCCTTATCTTTTAGCACA-TA
* * * *
830460 AGTGCTCC-ATATGGAAATCTATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
1 AGTGC-CCTATCTGAAAATCCATACA-TTAGTATGATTTCCTTATC-TTTTAGCACA-TA
830519 AGTGCC
1 AGTGCC
830525 ATTCGGTAAT
Statistics
Matches: 327, Mismatches: 67, Indels: 47
0.74 0.15 0.11
Matches are distributed among these distances:
57 2 0.01
58 104 0.32
59 209 0.64
60 12 0.04
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (56 bp):
AGTGCCCTATCTGAAAATCCATACATTAGTATGATTTCCTTATCTTTTAGCACATA
Found at i:830475 original size:117 final size:118
Alignment explanation
Indices: 830148--830524 Score: 442
Period size: 117 Copynumber: 3.2 Consensus size: 118
830138 TATGAGTTTG
* *
830148 TTACCATTTTAGCACATGAAGTGCCCTATGTGAAAATCCATACCATT-AGTATGATTTCCTTATC
1 TTACCATTTTAGCACATAAAGTGCCCTATATGAAAATCCATA-CATTCAGTATGATTTCCTTATC
* *
830212 TTTGTAGCACCCTTAGTGCTTTATCA-GGAAATCCATACAATCAGTATGATTCCC
65 TTTGTAGCACCCTTAGTGCTTTAT-ATGGAAATCTATACACTCAGTATGATTCCC
* * * *
830266 TTACCA-TTTAGCACACT-CAGTGCTCC-ATATGGAAATCTATACACTCAGTATGATTTCCTTAT
1 TTACCATTTTAGCACA-TAAAGTGC-CCTATATGAAAATCCATACATTCAGTATGATTTCCTTAT
* * *
830328 CTTTGTAGTACCCTTAGTGTTTTATCTGGAAATCTATACACTCAGTATGATTCCC
64 CTTTGTAGCACCCTTAGTGCTTTATATGGAAATCTATACACTCAGTATGATTCCC
* * ** * * *
830383 TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATATTTTCAATATGATTACCTTATCA
1 TTACCATTTTAGCACATAAAGTGCCCTATATGAAAATCCATACATTCAGTATGATTTCCTTATCT
* * ** * *
830448 TT-TAGCACACTCAGTGCTCCATATGGAAATCTATACACTTAGTATGATTTCC
66 TTGTAGCACCCTTAGTGCTTTATATGGAAATCTATACACTCAGTATGATTCCC
* *
830500 TTATCATTTTAGCACACAAAGTGCC
1 TTACCATTTTAGCACATAAAGTGCC
830525 ATTCGGTAAT
Statistics
Matches: 219, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
116 3 0.01
117 163 0.74
118 53 0.24
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (118 bp):
TTACCATTTTAGCACATAAAGTGCCCTATATGAAAATCCATACATTCAGTATGATTTCCTTATCT
TTGTAGCACCCTTAGTGCTTTATATGGAAATCTATACACTCAGTATGATTCCC
Found at i:832421 original size:15 final size:16
Alignment explanation
Indices: 832401--832438 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
832391 AAATAAAATT
832401 AAATAA-ACAAATAAA
1 AAATAATACAAATAAA
*
832416 AAATAATATAAAT-AA
1 AAATAATACAAATAAA
832431 AAATAATA
1 AAATAATA
832439 TATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAATACAAATAAA
Found at i:832430 original size:16 final size:16
Alignment explanation
Indices: 832409--832446 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
832399 TTAAATAAAC
832409 AAATAAAAAATAATAT
1 AAATAAAAAATAATAT
832425 AAAT-AAAAATAATAT
1 AAATAAAAAATAATAT
832440 ATAATAA
1 A-AATAA
832447 TACAGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.60
16 7 0.35
17 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAAAAATAATAT
Found at i:832438 original size:25 final size:25
Alignment explanation
Indices: 832391--832448 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
832381 CCTATTTTTT
* *
832391 AAATAAAATTAAATAAACAAATAAA
1 AAATAATATTAAATAAAAAAATAAA
*
832416 AAATAATA-TAAATAAAAATAATATA
1 AAATAATATTAAATAAAAA-AATAAA
*
832441 TAATAATA
1 AAATAATA
832449 CAGTAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (25 bp):
AAATAATATTAAATAAAAAAATAAA
Found at i:832491 original size:17 final size:17
Alignment explanation
Indices: 832469--832504 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
832459 ATAATAACAT
832469 ATATTATATTTTCAAAA
1 ATATTATATTTTCAAAA
*
832486 ATATTATGTTTTCAAAA
1 ATATTATATTTTCAAAA
832503 AT
1 AT
832505 TATATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATTATATTTTCAAAA
Found at i:832556 original size:22 final size:23
Alignment explanation
Indices: 832513--832581 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
832503 ATTATATATT
*
832513 ATATATATATATCATTTT-AAAAA
1 ATATATATATAT-GTTTTCAAAAA
832536 AT-TATATATATGTTTTC-AAAA
1 ATATATATATATGTTTTCAAAAA
* *
832557 CTATATTATATACGTTTTCAAAAA
1 ATATA-TATATATGTTTTCAAAAA
832581 A
1 A
832582 CAATTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 9 0.24
22 11 0.29
23 14 0.37
24 4 0.11
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATATATATATGTTTTCAAAAA
Found at i:832631 original size:37 final size:37
Alignment explanation
Indices: 832548--832790 Score: 181
Period size: 37 Copynumber: 6.4 Consensus size: 37
832538 TATATATATG
***
832548 TTTTCAAAACTATAT-TATATACGTTTTCAAAAAACAA
1 TTTTCAAAACTATATAT-TATACGTTTTCAAAAATGTA
* * *
832585 TTTTTAAAACTATATATTATACGTTTTCAAAATTGTG
1 TTTTCAAAACTATATATTATACGTTTTCAAAAATGTA
* *
832622 TTTTCAAAACTATATATTATACTTTTTAAAAAATGTA
1 TTTTCAAAACTATATATTATACGTTTTCAAAAATGTA
**
832659 TTTTCAAAACCATACTATATATATATATATATTCAAAAATCG-A
1 TTTTCAAAA-C-TA-TATAT-TATACGT-T-TTCAAAAAT-GTA
* * * * **
832702 TTTTTAAAAACTATATATTATATGCTTTCAAATA-CCA
1 -TTTTCAAAACTATATATTATACGTTTTCAAAAATGTA
* *
832739 TTTTCTAAAAACTATATGTTATATGTTTTCAAAAA--TA
1 TTTTC--AAAACTATATATTATACGTTTTCAAAAATGTA
832776 TTTTCAAAAACTATA
1 TTTTC-AAAACTATA
832791 CTATATTATT
Statistics
Matches: 170, Mismatches: 24, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
36 14 0.08
37 77 0.45
38 34 0.20
39 3 0.02
40 10 0.06
41 10 0.06
42 3 0.02
43 10 0.06
44 9 0.05
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATACGTTTTCAAAAATGTA
Found at i:832713 original size:118 final size:116
Alignment explanation
Indices: 832556--832807 Score: 287
Period size: 118 Copynumber: 2.1 Consensus size: 116
832546 TGTTTTCAAA
** * * ***
832556 ACTATATTATATACGTTTTCAAAAAACAATTTTTAAAACTATATATTATACGTTTTCAAA-ATTG
1 ACTATATTATATATATATTCAAAAAACAATTTTTAAAACTATATATTATACGCTTTCAAATACCA
*
832620 TGTTT-TCAAAACTATATATTATACT-TTTTAAAAAATGTATTTTC-AAAACCAT
66 T-TTTCTAAAAACTATATATTATA-TGTTTTAAAAAA--TATTTTCAAAAACCAT
* * *
832672 ACTATATATATATATATATTCAAAAATCGATTTTTAAAAACTATATATTATATGCTTTCAAATAC
1 ACTATAT-TATATATATATTCAAAAAACAATTTTT-AAAACTATATATTATACGCTTTCAAATAC
* * *
832737 CATTTTCTAAAAACTATATGTTATATGTTTTCAAAAATATTTTCAAAAACTAT
64 CATTTTCTAAAAACTATATATTATATGTTTTAAAAAATATTTTCAAAAACCAT
832790 ACTATATTATTATATATA
1 ACTATATTA-TATATATA
832808 CTAAATAAGC
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
116 7 0.06
117 31 0.27
118 50 0.43
119 27 0.23
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (116 bp):
ACTATATTATATATATATTCAAAAAACAATTTTTAAAACTATATATTATACGCTTTCAAATACCA
TTTTCTAAAAACTATATATTATATGTTTTAAAAAATATTTTCAAAAACCAT
Found at i:832755 original size:36 final size:35
Alignment explanation
Indices: 832690--832796 Score: 101
Period size: 38 Copynumber: 2.9 Consensus size: 35
832680 TATATATATA
832690 TTCAAAAATCGATTTT-TAAAAACTATATATTATATGCT
1 TTCAAAAA-C-ATTTTCTAAAAAC--TATATTATATGCT
* *
832728 TTCAAATACCATTTTCTAAAAACTATATGTTATATGTT
1 TTCAAA-AACATTTTCTAAAAACTATA--TTATATGCT
* *
832766 TTCAAAAATATTTTC-AAAAACTATACTATAT
1 TTCAAAAACATTTTCTAAAAACTATATTATAT
832797 TATTATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
34 5 0.08
36 14 0.23
37 12 0.20
38 28 0.47
39 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (35 bp):
TTCAAAAACATTTTCTAAAAACTATATTATATGCT
Found at i:834477 original size:8 final size:8
Alignment explanation
Indices: 834466--834495 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
834456 TTTCTTCAAT
834466 TTTTTTTC
1 TTTTTTTC
834474 TTTTTTTC
1 TTTTTTTC
834482 -TTTTTTC
1 TTTTTTTC
834489 TTTTTTT
1 TTTTTTT
834496 AACTTAGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:834485 original size:15 final size:15
Alignment explanation
Indices: 834467--834495 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
834457 TTCTTCAATT
834467 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
834482 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
834496 AACTTAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:843519 original size:19 final size:19
Alignment explanation
Indices: 843495--843537 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
843485 TTATTATTAT
843495 TTTTAGCTTTATGCTAATA
1 TTTTAGCTTTATGCTAATA
* * *
843514 TTTTAGGTTTATGTTACTA
1 TTTTAGCTTTATGCTAATA
843533 TTTTA
1 TTTTA
843538 ATATCTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTTAGCTTTATGCTAATA
Found at i:843875 original size:2 final size:2
Alignment explanation
Indices: 843827--843859 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
843817 TTATTTGTAT
843827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
843860 CTGGTATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:851846 original size:42 final size:42
Alignment explanation
Indices: 851785--851864 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
851775 ACTTAGTAAG
* * *
851785 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTTGAGCCATCAGTAAGCCTTTCGAGCAAGATGATTAAA
* *
851827 TCCTTTGAGTCATCTGTAAGCCTTTCGAGCAAGATGAT
1 TCCTTTGAGCCATCAGTAAGCCTTTCGAGCAAGATGAT
851865 AAGTCATTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (42 bp):
TCCTTTGAGCCATCAGTAAGCCTTTCGAGCAAGATGATTAAA
Found at i:851968 original size:237 final size:236
Alignment explanation
Indices: 851553--852659 Score: 1700
Period size: 237 Copynumber: 4.7 Consensus size: 236
851543 GATACTACTA
* * * * * **
851553 TGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATTCTTTGGGCCATCTGTAAGTCTTTTAA
1 TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGA
* *
851618 GTAAGATGATAAGTCATTCGGGCCATTTATAAGACCTTCGGGCAA-GATATTTTCACATGAATTT
66 GCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTC-GG-AAGGATATTTTCACATGAATTT
* *
851682 GAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAATTTTTTGAAA
129 GAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGAAA
* *
851747 AGTAAGAAATTGATTTCCAATGTTTCTTACTTAGTAAGTCCTT
194 AGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTT
* *
851790 TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGAGTCATCTGTAAGCCTTTCGA
1 TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGA
* *
851855 GCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGATAGGATGTTTTCACATGAATTTG
66 GCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGA-AGGATATTTTCACATGAATTTG
*
851920 AAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAA
130 AAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGAAAA
*
851985 GTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTTCTT
195 GTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTT
* * *
852027 CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGACTTTCCA
1 TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGA
* *
852092 GCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGAATTTG
66 GCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTC-GGAAGGATATTTTCACATGAATTTG
* *
852157 AAAAATGAAAAAGCGATTTTCAAAGTTTATCATTTAATATTTTCAGAAAATG-AATATTTTGAAA
130 AAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAAT-TTTTGAAA
* * *
852221 ATTAAGAAA-TCGATTTCCAGAGTTTCTTACTTAGTAAGTCTTT
194 AGTAAGAAAGT-GATTTCCAAAGTTTCTTACTTAGTAAGTCCTT
* *
852264 TGGGCCATCAGTAGGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTAAGCCTTTCGA
1 TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGA
* *
852329 GCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTTAGGAAGGATATTTTCAAATGAATTTG
66 GCAAGATGATAAGTCATTCGGGCCATCTATAAGACC-TTCGGAAGGATATTTTCACATGAATTTG
* * * * *
852394 AAAAATTAGAAATCAATTTTCATAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAA
130 AAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGAAAA
* * *
852459 GTGAGAAAGTGATTTCCAAAGTTTCTTATTTAGTAAGTTCTT
195 GTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTT
* * * * *
852501 CGAGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGACATCTGTAAGCCTTTTGA
1 TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGA
852566 GCAAGATGATAAGT-ATTTCGGGCCATCTATAAGACCTTCGGAAGGATATTTTCACATGAATTTG
66 GCAAGATGATAAGTCA-TTCGGGCCATCTATAAGACCTTCGGAAGGATATTTTCACATGAATTTG
852630 AAAAATGAGAAAGCGATTTTCAAAGTTTCT
130 AAAAATGAGAAAGCGATTTTCAAAGTTTCT
852660 TACTTAGTAA
Statistics
Matches: 795, Mismatches: 66, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
235 1 0.00
236 60 0.08
237 726 0.91
238 8 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (236 bp):
TGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGA
GCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGAAGGATATTTTCACATGAATTTGA
AAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTGAAAAG
TAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTT
Found at i:852083 original size:42 final size:41
Alignment explanation
Indices: 852024--852126 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 41
852014 TTAGTAAGTT
* * * *
852024 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
1 CTTCGGGCCATCTGTAAGACTTTCCAGCAAGATGA-TAAATC
* *
852066 CTTCGGGTCATCTGTAAGACTTTCCAGCAAGATGATAAGTC
1 CTTCGGGCCATCTGTAAGACTTTCCAGCAAGATGATAAATC
* *
852107 ATTCGGGCCATCTATAAGAC
1 CTTCGGGCCATCTGTAAGAC
852127 CTTCGGGCAG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 22 0.42
42 30 0.58
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
CTTCGGGCCATCTGTAAGACTTTCCAGCAAGATGATAAATC
Found at i:852367 original size:42 final size:42
Alignment explanation
Indices: 852280--852367 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
852270 ATCAGTAGGT
* * * *
852280 CTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTAAGC
1 CTTTCGAGCAAGATGATTAAATCATTCGAGCCATCTATAAGC
* *
852322 CTTTCGAGCAAGATGA-TAAGTCATTCGGGCCATCTATAAGAC
1 CTTTCGAGCAAGATGATTAAATCATTCGAGCCATCTATAAG-C
852364 CTTT
1 CTTT
852368 AGGAAGGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 19 0.49
42 20 0.51
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
CTTTCGAGCAAGATGATTAAATCATTCGAGCCATCTATAAGC
Found at i:852745 original size:175 final size:175
Alignment explanation
Indices: 852451--852835 Score: 587
Period size: 175 Copynumber: 2.2 Consensus size: 175
852441 AAATGAAATT
* * * * *
852451 TTTGAAAAGTGAGAAAGTGATTTCCAAAGTTTCTTATTTAGTAAGTTCTTCGAGCCATCAGTAAG
1 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAGTAAG
* *
852516 TCTTTCAAGCATGATGATTAAATCCTTCGGGACATCTGTAAGCCTTTTGAGCAAGATGATAAGTA
66 TCTTTCAAGCATGATGATTAAATCCTTCGGGACATCCGTAAGCCTTTCGAGCAAGATGATAAGT-
* * *
852581 TTTCGGGCCATCTATAAGACCTTC-GGAAGGATATTTTCACATGAA
130 CTTCGAGCCATCTATAAAACCTTCAGGAAGGATATTTTCACATGAA
852626 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCC-TCTGAGCCATCAGTAA
1 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTC-GAGCCATCAGTAA
* * *
852690 TTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGCCTTTCGAGCAAGATGATAAGT
65 GTCTTTCAAGCATGATGATTAAATCCTTCGGGACATCCGTAAGCCTTTCGAGCAAGATGATAAGT
*
852755 CTTCGAGCCATCTATAAAACCTTCAGGCAGGATATTTTCACATGAA
130 CTTCGAGCCATCTATAAAACCTTCAGGAAGGATATTTTCACATGAA
* *
852801 TTTAAAAAATGAGAAAGCGA-TATCAAAGTTTCTTA
1 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTA
852836 TTTAATGTTT
Statistics
Matches: 192, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
174 37 0.19
175 155 0.81
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (175 bp):
TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAGTAAG
TCTTTCAAGCATGATGATTAAATCCTTCGGGACATCCGTAAGCCTTTCGAGCAAGATGATAAGTC
TTCGAGCCATCTATAAAACCTTCAGGAAGGATATTTTCACATGAA
Found at i:853207 original size:637 final size:643
Alignment explanation
Indices: 851977--853296 Score: 1967
Period size: 637 Copynumber: 2.1 Consensus size: 643
851967 AAATGAAATT
* * * * * *
851977 TTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTTCTTCGGGCCATCAGTAAG
1 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAGTAAG
*
852042 TCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGACTTTCCAGCAAGATGATAAGTC
66 TCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGACTTTCCAGCAAGATGATAAGTC
* * * * *
852107 ATTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGAATTTGAAAAATGAAAAAGCG
131 ATTCGAGCCATCTATAAAACCTTCAGGCAGGATATTTTCACATGAATTTAAAAAATGAAAAAGCG
* * **
852172 ATTTTCAAAGTTTATCATTTAATATTTTCAGAAAATGAATATTTTGAAAATTAAGAAATCGATTT
196 ATTATCAAAGTTTATCATTTAATATTTTCAGAAAATG------TTGAAAAGTAAGAAAGAGATTT
* * * * *
852237 CCAGAGTTTCTTACTTAGTAAGTCTTTTGGGCCATCAGTAGGTCTTTCGAGCATGATGATTAAAT
255 CCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAAT
* *
852302 CCTTCGAGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTT
320 CCTTCGAGTCATCTGTAAGCCTTTCAAGCAAGATGATAAGTCATTCGGGCCAACTATAAGACCTT
* * * * *
852367 TAGGAAGGATATTTTCAAATGAATTTGAAAAATTAGAAATCAATTTTCATAGTTTCTCATTTAAT
385 GAGCAAGGATATTTTCAAATGAATTTGAAAAATGAGAAATCAATTTTCAAAATTTCTCATTTAAT
*
852432 GTTTTCAGAAAATGAAATTTTTGAAAAGTGAGAAAGTGATTTCCAAAGTTTCTTATTTAGTAAGT
450 GTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATTTAGTAAGT
*
852497 TCTTCGAGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGACATCTGTAAGCCTT
515 TCTTCGAGACATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGACATCTGTAAGCCTT
* *
852562 TTGAGCAAGATGATAAGTATTTCGGGCCATCTATAAGACCTTC-GGAAGGATATTTTCACATGAA
580 TGGAGCAAGATGATAAGTATTTCGGGCCATCTATAACACCTTCGGGAAGGATATTTTCACAT-AA
852626 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCC-TCTGAGCCATCAGTAA
1 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTC-GAGCCATCAGTAA
* * *
852690 TTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGCCTTTCGAGCAAGATGATAAGT
65 GTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGACTTTCCAGCAAGATGATAAGT
*
852755 C-TTCGAGCCATCTATAAAACCTTCAGGCAGGATATTTTCACATGAATTTAAAAAATGAGAAAGC
130 CATTCGAGCCATCTATAAAACCTTCAGGCAGGATATTTTCACATGAATTTAAAAAATGAAAAAGC
* * *
852819 GA-TATCAAAGTTTCTTATTTAATGTTTTCAG-AAA-G-TGAAAAGTAAGAAAGAGATTTCCAAA
195 GATTATCAAAGTTTATCATTTAATATTTTCAGAAAATGTTGAAAAGTAAGAAAGAGATTTCCAAA
852880 GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTC
260 GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTC
* * * *
852945 GGGTCATCTGTAAGCTTTTCAAGCAAGATGGTAAGTCATTCGGTCCAACTATAAGACCTTCGAGC
325 GAGTCATCTGTAAGCCTTTCAAGCAAGATGATAAGTCATTCGGGCCAACTATAAGACCTT-GAGC
* * *
853010 AA-GATGTTTTCACATGAATTTGAAAAATGAGAAA-GAGATTTT-AAAATTTCTCATTTAATGTT
389 AAGGATATTTTCAAATGAATTTGAAAAATGAGAAATCA-ATTTTCAAAATTTCTCATTTAATGTT
*
853072 TTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATTTAGTATGTTCT
453 TTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATTTAGTAAGTTCT
* * * *
853137 TCGGGACATCAGTAAGTCTTTCATGCTTGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTGG
518 TCGAGACATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGACATCTGTAAGCCTTTGG
* * * *
853202 AGCAAGATGATAAGTCTTTCGGGCCATCTATAACACCTTCGGGCAGGATGTTTTTACATAA
583 AGCAAGATGATAAGTATTTCGGGCCATCTATAACACCTTCGGGAAGGATATTTTCACATAA
* *
853263 ATGGAAAAATGAGAAAGCGATTTTCAAAGTTTCT
1 TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCT
853297 CATTTAATGT
Statistics
Matches: 610, Mismatches: 57, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
637 213 0.35
638 186 0.30
639 4 0.01
645 1 0.00
646 3 0.00
647 25 0.04
648 61 0.10
649 117 0.19
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (643 bp):
TTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAGTAAG
TCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGACTTTCCAGCAAGATGATAAGTC
ATTCGAGCCATCTATAAAACCTTCAGGCAGGATATTTTCACATGAATTTAAAAAATGAAAAAGCG
ATTATCAAAGTTTATCATTTAATATTTTCAGAAAATGTTGAAAAGTAAGAAAGAGATTTCCAAAG
TTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCG
AGTCATCTGTAAGCCTTTCAAGCAAGATGATAAGTCATTCGGGCCAACTATAAGACCTTGAGCAA
GGATATTTTCAAATGAATTTGAAAAATGAGAAATCAATTTTCAAAATTTCTCATTTAATGTTTTC
AGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATTTAGTAAGTTCTTCG
AGACATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGACATCTGTAAGCCTTTGGAGC
AAGATGATAAGTATTTCGGGCCATCTATAACACCTTCGGGAAGGATATTTTCACATAA
Found at i:853692 original size:227 final size:231
Alignment explanation
Indices: 852627--853741 Score: 1342
Period size: 236 Copynumber: 4.8 Consensus size: 231
852617 TCACATGAAT
* * * * *
852627 TTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTTACTTAGTAAGTCC-TCTGAGCCATCAGTAAT
1 TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTC-GGGCCATCAGTAAG
* *
852691 TCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGCCTTTCGAGCAAGATGATAAGT-
65 TCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTC
* * *
852755 CTT-CGAGCCATCTATAAAACCTTCAGGCAGGATATTTTCACATGAATTTAAAAAATGAGAAAGC
130 CTTCCG-GCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGAATTTGAAAAATGAGAAAGC
* *
852819 GA-TATCAAAGTTTCTTATTTAATGTTTTCAG-AAA-G
194 GATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATG
* *
852854 -TGAAAAGTAAGAAAGAGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGC
1 TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGT
* * * * *
852918 CTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCTTTTCAAGCAAGATGGTAAGTCA
66 CTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCC
* * *
852983 TT-CGGTCCAACTATAAGACCTTC-GAGCAAGATGTTTTCACATGAATTTGAAAAATGAGAAAGA
131 TTCCGG-CCATCTATAAGACCTTCAG-GCAGGATGTTTTCACATGAATTTGAAAAATGAGAAAGC
*
853046 GATTTT-AAAATTTCTCATTTAATGTTTTCAGAAAATG
194 GATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATG
* * * * *
853083 AAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATTTAGTATGTTCTTCGGGACATCA
1 ------TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCA
* * *
853148 GTAAGTCTTTCATGCTTGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTGGAGCAAGATGAT
60 GTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGAT
* * * * * * *
853213 AAGTCTTTCGGGCCATCTATAACACCTTCGGGCAGGATGTTTTTACAT-AAATGGAAAAATGAGA
125 AAGTCCTTCCGGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGAATTTGAAAAATGAGA
*
853277 AAGCGATTTTCAAAGTTTCTCATTTAATGTTTTCATAAAATG
190 AAGCGATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATG
* * *
853319 AAATCTTTGAAAAGTAAGAAAGCGATTTTCAAAGTTTCTTTCTTAGTAAGTCCTTTGGGCCATCA
1 ------TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCA
* * * * * *
853384 GTAATTCTTTCAAGCATGATGATTAAATCCTTTGGGTCACCTGTAAGCCTTTTGAACAAGATGAC
60 GTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGAT
* *
853449 AAGTCCTTCGGGCCATCTATAAGACCTTCAGGCAGGAAGTTTTCACATGAATTTGAAAAATGAGA
125 AAGTCCTTCCGGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGAATTTGAAAAATGAGA
* *
853514 AAG-GATTTTCAAAGTTTCTTATTTAAAGTTTTCA-AAAA-G
190 AAGCGATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATG
* * *
853553 -TGAAAAGTAAGAAAGCGATGTCCAAAGTTTCTTACTTAGAAAGTCCTTCGGGCCATCAGTAAGC
1 TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGT
* * * * * * * **
853617 CTTTCAAGCATGATGATTAAATCCTTCAGATCATCTATCAGTCTTTCGAGTAATATGATATTTCC
66 CTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCC
* * * * * *
853682 TTCCGGCCATCTTTAAGACCTTCGGGTATGATGTTTTCACGTGATTTTCGAAAAATGAGA
131 TTCCGGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGAATTT-GAAAAATGAGA
853742 GAAAAAAATG
Statistics
Matches: 769, Mismatches: 100, Indels: 37
0.85 0.11 0.04
Matches are distributed among these distances:
226 115 0.15
227 228 0.30
228 16 0.02
229 1 0.00
234 1 0.00
235 27 0.04
236 361 0.47
237 20 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (231 bp):
TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGT
CTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCC
TTCCGGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGAATTTGAAAAATGAGAAAGCGA
TTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATG
Found at i:854056 original size:12 final size:11
Alignment explanation
Indices: 854039--854078 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
854029 ATTTTATCGT
854039 TTAAAATAAATA
1 TTAAAA-AAATA
854051 TT-AAAAAATA
1 TTAAAAAAATA
854061 TTAAAAAAATAA
1 TTAAAAAAAT-A
854073 TTAAAA
1 TTAAAA
854079 GAGAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.27
11 10 0.38
12 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:858289 original size:54 final size:54
Alignment explanation
Indices: 858187--858289 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
858177 CAAAATGGAA
* *
858187 ATTCACAAACTCATTATGAACTCCATGGATTACACACATAGTGTCGAAATGGTC
1 ATTCACAAACACATTATGAACTCCATGGATTACACACATAGTGCCGAAATGGTC
* * * **
858241 ATTCATAAACACATTATGAA-TACCATGGGTTGCACATTTAGTGCCGAAA
1 ATTCACAAACACATTATGAACT-CCATGGATTACACACATAGTGCCGAAA
858290 ATGCACTGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.02
54 40 0.98
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (54 bp):
ATTCACAAACACATTATGAACTCCATGGATTACACACATAGTGCCGAAATGGTC
Found at i:865327 original size:54 final size:54
Alignment explanation
Indices: 865269--865379 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 54
865259 GAAGTGCCTA
* * *
865269 AAATGGAAATTCAAAAACTCATTATGAATTCCATGGATTGCACACATAGTGTTG
1 AAATGGAAATTCAAAAACACATTATGAATACCATGGATTGCACACATAGTGTCG
** * * *
865323 AAATGGTCATTCATAAACACATTATGAATACCATGGGTTGCACACTTAGTGTCG
1 AAATGGAAATTCAAAAACACATTATGAATACCATGGATTGCACACATAGTGTCG
865377 AAA
1 AAA
865380 ATGCACTGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (54 bp):
AAATGGAAATTCAAAAACACATTATGAATACCATGGATTGCACACATAGTGTCG
Found at i:866227 original size:21 final size:19
Alignment explanation
Indices: 866182--866229 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
866172 TACCTTCCTC
*
866182 TTAGTATCGATACCAAACA
1 TTAGTATCGATACAAAACA
*
866201 TCAGTATCGATACAAATTACA
1 TTAGTATCGATACAAA--ACA
866222 TTAGTATC
1 TTAGTATC
866230 AATAGTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (19 bp):
TTAGTATCGATACAAAACA
Found at i:868348 original size:12 final size:12
Alignment explanation
Indices: 868331--868361 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
868321 TAGTAAGATG
868331 AAAATAATAATC
1 AAAATAATAATC
*
868343 AAAATAATAATG
1 AAAATAATAATC
868355 AAAATAA
1 AAAATAA
868362 AAATTCCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAATAATAATC
Found at i:869544 original size:20 final size:20
Alignment explanation
Indices: 869511--869551 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
869501 GTTACATTTT
869511 AAAAGAAATGAAAAACTTTAA
1 AAAAGAAATGAAAAA-TTTAA
*
869532 AAAATAAAT-AAAAATTTAA
1 AAAAGAAATGAAAAATTTAA
869551 A
1 A
869552 GGATCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAGAAATGAAAAATTTAA
Found at i:870570 original size:9 final size:9
Alignment explanation
Indices: 870544--870582 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
870534 GGACCCTTTT
*
870544 TAATAAAAA
1 TAATATAAA
870553 TAA-ATAAA
1 TAATATAAA
870561 TAATATAAA
1 TAATATAAA
870570 TAATATATAA
1 TAATATA-AA
870580 TAA
1 TAA
870583 AAACTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.26
9 15 0.56
10 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAATATAAA
Found at i:870720 original size:37 final size:36
Alignment explanation
Indices: 870595--870853 Score: 208
Period size: 38 Copynumber: 6.9 Consensus size: 36
870585 ACTATATAAC
* *
870595 ATATATTATA--TTTTC-AAAATATGTTTTCAAAATT
1 ATATATTATATGTTTTCAAAAACAT-TTTTCAAAACT
870629 ATAT-TATATATGTTTTCAAAAACCATTTTT-AAAACT
1 ATATAT-TATATGTTTTCAAAAA-CATTTTTCAAAACT
**
870665 ATAAATATTATATGTTTTCAAAAATGTGTTTTCAAAACT
1 AT--ATATTATATGTTTTCAAAAACAT-TTTTCAAAACT
870704 ATATATTATACT-TTTTCAAAAACATATTTTCAAAACCAT
1 ATATATTATA-TGTTTTCAAAAACAT-TTTTCAAAA-C-T
* * * *
870743 ATTATATATATATATATTCAAAAACCGATTTTTAAAAATT
1 A-TATAT-TATATGTTTTCAAAAA-C-ATTTTTCAAAACT
* *
870783 ATATATTATATGTTTCCAAAAACGTTTTTCTAAAAACT
1 ATATATTATATGTTTTCAAAAACATTTTTC--AAAACT
* * *
870821 ATATATTACATGTTTTTAAAAATA-TTTTCAAAA
1 ATATATTATATGTTTTCAAAAACATTTTTCAAAA
870854 ATTATACTAT
Statistics
Matches: 184, Mismatches: 21, Indels: 39
0.75 0.09 0.16
Matches are distributed among these distances:
33 1 0.01
34 8 0.04
35 4 0.02
36 17 0.09
37 43 0.23
38 63 0.34
39 16 0.09
40 8 0.04
41 13 0.07
42 9 0.05
43 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (36 bp):
ATATATTATATGTTTTCAAAAACATTTTTCAAAACT
Found at i:870735 original size:14 final size:14
Alignment explanation
Indices: 870716--870745 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
870706 ATATTATACT
870716 TTTTCAAAAACATA
1 TTTTCAAAAACATA
*
870730 TTTTCAAAACCATA
1 TTTTCAAAAACATA
870744 TT
1 TT
870746 ATATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (14 bp):
TTTTCAAAAACATA
Found at i:871227 original size:17 final size:17
Alignment explanation
Indices: 871181--871227 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
871171 TGATTTAACT
**
871181 AATTACATAATAAATAA
1 AATTACATAATTTATAA
*
871198 AATTTA-ATGATTTATAA
1 AA-TTACATAATTTATAA
871215 AATTACATAATTT
1 AATTACATAATTT
871228 TTAATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
AATTACATAATTTATAA
Found at i:872434 original size:16 final size:16
Alignment explanation
Indices: 872413--872443 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
872403 TAAATTACTC
872413 TCCTAATTTACTAAAG
1 TCCTAATTTACTAAAG
872429 TCCTAATTTACTAAA
1 TCCTAATTTACTAAA
872444 TTACATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (16 bp):
TCCTAATTTACTAAAG
Found at i:878441 original size:46 final size:46
Alignment explanation
Indices: 878217--878441 Score: 360
Period size: 46 Copynumber: 4.9 Consensus size: 46
878207 AAATGAATGA
* *
878217 ACAAATAAAAATGCATAACGGTGCATTATCGGCATGAAATGATGCC
1 ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
878263 AGAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * **
878309 ACAAATGAAAATGCATAACGGTGCATTATCAGCATGAAAAGATGGT
1 ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
878355 ACAAATGAAAATGCATAACGGTGTATTATCGGCATGAAAGGATGCC
1 ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
878401 ACAAATGAAAATGCATAACGGTGCATTAACGGCATAAAAGG
1 ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGG
878442 TTCCATTCAT
Statistics
Matches: 163, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 163 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:884150 original size:7 final size:7
Alignment explanation
Indices: 884138--884172 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
884128 TTAAAGTAAG
884138 GGGAAAA
1 GGGAAAA
884145 GGGAAAA
1 GGGAAAA
884152 GGGAAAA
1 GGGAAAA
884159 GGGAAAA
1 GGGAAAA
*
884166 GTGAAAA
1 GGGAAAA
884173 TACACTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (7 bp):
GGGAAAA
Found at i:885413 original size:43 final size:44
Alignment explanation
Indices: 885299--885429 Score: 176
Period size: 46 Copynumber: 3.0 Consensus size: 44
885289 AAATGAATGA
885299 ACAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
1 ACAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGAT--C
* *
885345 ACAAATGAAAATGCATAATGATGCATTATCGACATGAAAGGAT-
1 ACAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATC
* * *
885388 ATAAATGAAAAT-CTATAACGGTGCATTATCGGTATGAAAGGA
1 ACAAATGAAAATGC-ATAATGGTGCATTATCGGCATGAAAGGA
885430 ATGTTGGGCG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
42 1 0.01
43 35 0.45
46 41 0.53
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (44 bp):
ACAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATC
Found at i:886009 original size:44 final size:44
Alignment explanation
Indices: 885943--886030 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
885933 CATATTCGAG
885943 ACCATTTTAAATATTCACCCAATTAAACCTATTTAGGACTAAAT
1 ACCATTTTAAATATTCACCCAATTAAACCTATTTAGGACTAAAT
*
885987 ACCATTTTAAATATTCATCCAATTAAACCTATTTAGGACTAAAT
1 ACCATTTTAAATATTCACCCAATTAAACCTATTTAGGACTAAAT
886031 GAATAAAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (44 bp):
ACCATTTTAAATATTCACCCAATTAAACCTATTTAGGACTAAAT
Found at i:886604 original size:18 final size:18
Alignment explanation
Indices: 886581--886627 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
886571 ATTAAGGAGC
886581 ATTAAATAAAGGACTGAA
1 ATTAAATAAAGGACTGAA
886599 ATTAAATAAAGGACTGAA
1 ATTAAATAAAGGACTGAA
886617 ATTAAATAAAG
1 ATTAAATAAAG
886628 TTGCAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.23
Consensus pattern (18 bp):
ATTAAATAAAGGACTGAA
Found at i:891040 original size:39 final size:39
Alignment explanation
Indices: 890935--891142 Score: 204
Period size: 39 Copynumber: 5.3 Consensus size: 39
890925 AAGGACGTGC
* * ** *
890935 GGTAAGGACTTACCATGTGCACAAAGTAGAGGAGCATGCA
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG-A
* * ** *
890975 -GTAAAGACTTACCATGATAACAAAGCCAAGGAGCCTGA
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGA
* * * *
891013 GGTAAGGACTTACCCTGAGTACGAAGCCGAGGAGTCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGA
* * *
891052 GATAAGGACTTACCCTGAGCACAAAGTCGAGGAACCTGA
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGA
* *
891091 GGTAATGACTTACCCTGAGCACAAAGTCGAGGAGCCT-A
1 GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGA
*
891129 CGGTAAGAACTTAC
1 -GGTAAGGACTTAC
891143 AAGTCATAGA
Statistics
Matches: 138, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
38 2 0.01
39 136 0.99
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGA
Found at i:891141 original size:78 final size:78
Alignment explanation
Indices: 890935--891142 Score: 229
Period size: 78 Copynumber: 2.7 Consensus size: 78
890925 AAGGACGTGC
* * * * * *
890935 GGTAAGGACTTACCATGTGCACAAAGTAGAGGAGCATGCAGTAA-AGACTTACCATGATAACAAA
1 GGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTGCGGTAAGA-ACTTACCATGAGAACAAA
*
890999 GCCAAGGAGCCTGA
65 GCCAAGGAACCTGA
* * * * * * * *
891013 GGTAAGGACTTACCCTGAGTACGAAGCCGAGGAGTCTGCGATAAGGACTTACCCTGAGCACAAAG
1 GGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTGCGGTAAGAACTTACCATGAGAACAAAG
* *
891078 TCGAGGAACCTGA
66 CCAAGGAACCTGA
* *
891091 GGTAATGACTTACCCTGAGCACAAAGTCGAGGAGCCTACGGTAAGAACTTAC
1 GGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTGCGGTAAGAACTTAC
891143 AAGTCATAGA
Statistics
Matches: 104, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
78 104 1.00
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (78 bp):
GGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTGCGGTAAGAACTTACCATGAGAACAAAG
CCAAGGAACCTGA
Found at i:898980 original size:21 final size:23
Alignment explanation
Indices: 898909--898968 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
898899 TTAGTGCAGA
* * *
898909 GGGAATCGATACCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAT
898932 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAT
898955 GGGAACCGATTCCC
1 GGGAACCGATTCCC
898969 TTCTTGAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAT
Found at i:905715 original size:39 final size:39
Alignment explanation
Indices: 905661--905826 Score: 208
Period size: 39 Copynumber: 4.3 Consensus size: 39
905651 GAACCTTCGA
* *
905661 TAAGGATTTACCCTGAGCACAAAGCCGAGGAGCCTGCGG
1 TAAGGACTTACCCTGAGCACAAAGCCAAGGAGCCTGCGG
* *
905700 TAAGGACTTACCCTGAGCACGAAGCCAAGTAGCCTGCGG
1 TAAGGACTTACCCTGAGCACAAAGCCAAGGAGCCTGCGG
* * * * *
905739 TACGGACTTAGCCTGAGCAAAAAGTCAAGGAG-CTGCGA
1 TAAGGACTTACCCTGAGCACAAAGCCAAGGAGCCTGCGG
* * *
905777 TAAGGACTTACCATGAGCACAAAGCCGAGGAGCTTGCGG
1 TAAGGACTTACCCTGAGCACAAAGCCAAGGAGCCTGCGG
*
905816 TAAGTACTTAC
1 TAAGGACTTAC
905827 AAGTCATAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
38 31 0.29
39 75 0.71
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCACAAAGCCAAGGAGCCTGCGG
Found at i:905825 original size:77 final size:78
Alignment explanation
Indices: 905661--905825 Score: 206
Period size: 77 Copynumber: 2.1 Consensus size: 78
905651 GAACCTTCGA
* * * * * * *
905661 TAAGGATTTACCCTGAGCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCCTGAGCACGAAGCC
1 TAAGGACTTAGCCTGAGCAAAAAGCCAAGGAGCCTGCGATAAGGACTTACCATGAGCACAAAGCC
*
905726 AAGTAGCCTGCGG
66 AAGGAGCCTGCGG
* *
905739 TACGGACTTAGCCTGAGCAAAAAGTCAAGGAG-CTGCGATAAGGACTTACCATGAGCACAAAGCC
1 TAAGGACTTAGCCTGAGCAAAAAGCCAAGGAGCCTGCGATAAGGACTTACCATGAGCACAAAGCC
* *
905803 GAGGAGCTTGCGG
66 AAGGAGCCTGCGG
*
905816 TAAGTACTTA
1 TAAGGACTTA
905826 CAAGTCATAG
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
77 47 0.64
78 26 0.36
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (78 bp):
TAAGGACTTAGCCTGAGCAAAAAGCCAAGGAGCCTGCGATAAGGACTTACCATGAGCACAAAGCC
AAGGAGCCTGCGG
Found at i:906548 original size:3 final size:3
Alignment explanation
Indices: 906540--906580 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
906530 TCCTAATATG
906540 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
906581 CCATATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:910666 original size:188 final size:188
Alignment explanation
Indices: 910349--910720 Score: 744
Period size: 188 Copynumber: 2.0 Consensus size: 188
910339 AGCTCTAATA
910349 GAATAACAGTTCTTTTGCCACATGATGCACATCAGGCAACACGAATGTTGTTTTGTGAAATCAAA
1 GAATAACAGTTCTTTTGCCACATGATGCACATCAGGCAACACGAATGTTGTTTTGTGAAATCAAA
910414 TAACTGTTCACAAGTTGGAACAACACATACAAATAGCAACATCAGCCACAAAATGCTTTAAACAC
66 TAACTGTTCACAAGTTGGAACAACACATACAAATAGCAACATCAGCCACAAAATGCTTTAAACAC
910479 CATCCAAAAGGGAAATTAGATTCAATCACTTCCTTCAGAATAAATTACAGTTTATTCT
131 CATCCAAAAGGGAAATTAGATTCAATCACTTCCTTCAGAATAAATTACAGTTTATTCT
910537 GAATAACAGTTCTTTTGCCACATGATGCACATCAGGCAACACGAATGTTGTTTTGTGAAATCAAA
1 GAATAACAGTTCTTTTGCCACATGATGCACATCAGGCAACACGAATGTTGTTTTGTGAAATCAAA
910602 TAACTGTTCACAAGTTGGAACAACACATACAAATAGCAACATCAGCCACAAAATGCTTTAAACAC
66 TAACTGTTCACAAGTTGGAACAACACATACAAATAGCAACATCAGCCACAAAATGCTTTAAACAC
910667 CATCCAAAAGGGAAATTAGATTCAATCACTTCCTTCAGAATAAATTACAGTTTA
131 CATCCAAAAGGGAAATTAGATTCAATCACTTCCTTCAGAATAAATTACAGTTTA
910721 AATCAGACAC
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (188 bp):
GAATAACAGTTCTTTTGCCACATGATGCACATCAGGCAACACGAATGTTGTTTTGTGAAATCAAA
TAACTGTTCACAAGTTGGAACAACACATACAAATAGCAACATCAGCCACAAAATGCTTTAAACAC
CATCCAAAAGGGAAATTAGATTCAATCACTTCCTTCAGAATAAATTACAGTTTATTCT
Found at i:913680 original size:38 final size:39
Alignment explanation
Indices: 913596--913701 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 39
913586 TGAAGTTAGA
* * * * *
913596 AATAATTTAGATTATTAGGATAAAATAATTTAAGAAATT
1 AATAATTTAGAATGTTAGCATGAAATAATGTAAGAAATT
913635 AATAATTTAGAATGTTAGCATGAAATAA-GTAAGAAATT
1 AATAATTTAGAATGTTAGCATGAAATAATGTAAGAAATT
*
913673 -ATCAATTTAGAATGTTAACATGAAATAAT
1 AAT-AATTTAGAATGTTAGCATGAAATAAT
913702 TTGGGAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
37 2 0.03
38 33 0.56
39 24 0.41
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (39 bp):
AATAATTTAGAATGTTAGCATGAAATAATGTAAGAAATT
Found at i:915449 original size:28 final size:28
Alignment explanation
Indices: 915409--915474 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
915399 GTGACTCGGG
* *
915409 CCCGACCTGGGAAATATCGGGATGGATA
1 CCCGACCCGGGAAATATCGGGACGGATA
*
915437 CCCGACCCGGGAAATGTCGGGACGGATA
1 CCCGACCCGGGAAATATCGGGACGGATA
915465 CCCGACCCGG
1 CCCGACCCGG
915475 TTGGGTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.30, G:0.33, T:0.12
Consensus pattern (28 bp):
CCCGACCCGGGAAATATCGGGACGGATA
Found at i:919005 original size:89 final size:89
Alignment explanation
Indices: 918868--919187 Score: 513
Period size: 89 Copynumber: 3.6 Consensus size: 89
918858 AGACCATAGG
918868 ATCTAAGGATATCCTTGGGTAGG-CCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGC
1 ATCTAAGGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGC
918932 TATGTGCTTAAGGTAACCCTACGA
66 TATGTGCTTAAGGTAACCCTACGA
* *
918956 ATCTAAGGATATCCTTGGGTAGGCCCTTAGGCCCCAAGGCATATCCTTAGGTTGGTTTTCTTTGC
1 ATCTAAGGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGC
* *
919021 TGTGTGCTTAAGGTAACCCTACGG
66 TATGTGCTTAAGGTAACCCTACGA
*
919045 ATCTAAGGATATCCTTAGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGG-TTCTCTTTG
1 ATCTAAGGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTC-CTTTG
*
919109 CTA-GTTGCTTAGGGTAACCCTACGA
65 CTATG-TGCTTAAGGTAACCCTACGA
* **
919134 ATCTAAGGATACCCTTGGGTAGGCCCATAGG-CCCAAGAAATATCCTTAGGTTGG
1 ATCTAAGGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGG
919188 CTCCTTTTTG
Statistics
Matches: 215, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
88 47 0.22
89 168 0.78
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (89 bp):
ATCTAAGGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGC
TATGTGCTTAAGGTAACCCTACGA
Found at i:919691 original size:63 final size:64
Alignment explanation
Indices: 919610--919761 Score: 170
Period size: 63 Copynumber: 2.4 Consensus size: 64
919600 GATGCACCGT
919610 TGCACCAATCCATGCATCGATGCACCATGA-ATTAAATTG-AAA-ATCGAATGCATTTCAT-CAT
1 TGCACCAA-CCATGCATCGATGCA-C-TGAGATTAAA-TGAAAACATCGAATGCATTTCATACAT
*
919671 CGA
62 AGA
** *
919674 TGCA-CATACCATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATACATAG
1 TGCACCA-ACCATGCATCGATGCACTGA-GATTAAATGAAAACATCGAATGCATTTCATACATAG
919738 A
64 A
*
919739 TGCACCAGCCATGCATCGATGCA
1 TGCACCAACCATGCATCGATGCA
919762 TTCTTGCTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
61 3 0.04
62 3 0.04
63 24 0.32
64 20 0.26
65 24 0.32
66 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (64 bp):
TGCACCAACCATGCATCGATGCACTGAGATTAAATGAAAACATCGAATGCATTTCATACATAGA
Found at i:919783 original size:64 final size:63
Alignment explanation
Indices: 919610--919807 Score: 181
Period size: 64 Copynumber: 3.1 Consensus size: 63
919600 GATGCACCGT
* * *
919610 TGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTGAAA-ATCGAATGCATTTCATCATC
1 TGCACCATA-CCATGCATCGATGCACTCA-GGATT--TTTGAAACATCGAATGCATTTGATCATC
919672 GA
62 GA
* *
919674 TGCA-CATACCATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATACATAG
1 TGCACCATACCATGCATCGATGCACTCAGGATTTT-TG-AAACATCGAATGCATTTGAT-CATCG
919738 A
63 A
* * ** * *
919739 TGCACCA-GCCATGCATCGATGCATTCTTGCTATTTTGAAACATCGAATGCACTTGATGCATCGA
1 TGCACCATACCATGCATCGATGCACTCAGGAT-TTTTGAAACATCGAATGCATTTGAT-CATCGA
919803 TGCAC
1 TGCAC
919808 TAAGGGTCCA
Statistics
Matches: 112, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
61 1 0.01
62 2 0.02
63 25 0.22
64 50 0.45
65 29 0.26
66 5 0.04
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (63 bp):
TGCACCATACCATGCATCGATGCACTCAGGATTTTTGAAACATCGAATGCATTTGATCATCGA
Found at i:921318 original size:21 final size:21
Alignment explanation
Indices: 921292--921333 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
921282 TTGGAGTTGC
921292 TCTCAAATCCACAAAAGATGA
1 TCTCAAATCCACAAAAGATGA
921313 TCTCAAATCCACAAAAGATGA
1 TCTCAAATCCACAAAAGATGA
921334 GAGTGATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.10, T:0.19
Consensus pattern (21 bp):
TCTCAAATCCACAAAAGATGA
Found at i:924981 original size:41 final size:44
Alignment explanation
Indices: 924936--925026 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
924926 TTGTGCTTAA
* *
924936 TGCATCGATACA-C-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTGAATG
*
924977 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
925021 TGCATC
1 TGCATC
925027 AATGCACAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 12 0.28
42 1 0.02
43 13 0.30
44 17 0.40
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:925000 original size:21 final size:22
Alignment explanation
Indices: 924954--925006 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
924944 TACACTAACA
* * *
924954 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATACATCCATGAAG
924976 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATACATCCATGAAG
*
924997 GTGCACCGAT
1 GTGCATCGAT
925007 GCACGCCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (22 bp):
GTGCATCGATACATCCATGAAG
Found at i:925023 original size:23 final size:23
Alignment explanation
Indices: 924954--925034 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
924944 TACACTAACA
*
924954 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
924976 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
924997 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
*
925020 GTGCATCAATGCACA
1 GTGCATCGATGCACA
925035 AGGTCATGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 10 0.22
23 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:926994 original size:29 final size:28
Alignment explanation
Indices: 926962--927019 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
926952 CGATGTTTAA
926962 ATTTGATGGTTGT-TGGATGTTTTGAACTT
1 ATTTG-TGGTTGTATGGAT-TTTTGAACTT
* *
926991 ATTTGTTGTTTTATGGATTTTTGAACTT
1 ATTTGTGGTTGTATGGATTTTTGAACTT
927019 A
1 A
927020 ATATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.55
Consensus pattern (28 bp):
ATTTGTGGTTGTATGGATTTTTGAACTT
Found at i:927209 original size:2 final size:2
Alignment explanation
Indices: 927202--927236 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
927192 CAGCTTAAGC
927202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
927237 TTAAAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:930946 original size:18 final size:18
Alignment explanation
Indices: 930920--930957 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
930910 TCGAAGGGAA
*
930920 TGAAATAAATGATAAGTT
1 TGAAATAAATAATAAGTT
*
930938 TGAATTAAATAATAAGTT
1 TGAAATAAATAATAAGTT
930956 TG
1 TG
930958 GACGGAATGA
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:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (18 bp):
TGAAATAAATAATAAGTT
Found at i:932766 original size:89 final size:89
Alignment explanation
Indices: 932616--932980 Score: 493
Period size: 89 Copynumber: 4.1 Consensus size: 89
932606 GGTAAGACCA
*
932616 TACGGATCTAAGGATATCCTTGGGTAGG-CCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCC
1 TACGGATCTAAAGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCC
* *
932680 TTTGCTGTGTTCTTAAGATAACCC
66 TTTGCTGTGTGCTTAAGGTAACCC
* ** *
932704 TACGGATCTAATGATATAATTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCT
1 TACGGATCTAAAGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCC
*
932769 TTTTCTGTGTGCTTAAGGTAACCC
66 TTTGCTGTGTGCTTAAGGTAACCC
* *
932793 TACGGATCTAAAGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCTTTAGTTTGG-TTCT
1 TACGGATCTAAAGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTC-
* *
932857 CTTTGTTAG-GTGCTTAGGGTAACCC
65 CTTTGCT-GTGTGCTTAAGGTAACCC
* * * * *
932882 TACGGATCTAAAGATACCCTTGGGTAGGCCCATAGGCCCCGAGGAATATCCTTAGGTTGGATCCC
1 TACGGATCTAAAGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCC
* *
932947 TTTTTGCTGTGTGCTGAGGGTAAGCCC
66 --TTTGCTGTGTGCTTAAGGTAA-CCC
932974 TACGGAT
1 TACGGAT
932981 GTAGTTTTGG
Statistics
Matches: 245, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
88 28 0.11
89 186 0.76
90 4 0.02
91 17 0.07
92 10 0.04
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (89 bp):
TACGGATCTAAAGATATCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTTCC
TTTGCTGTGTGCTTAAGGTAACCC
Found at i:934973 original size:23 final size:23
Alignment explanation
Indices: 934928--934973 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
934918 ATTATTAATA
* * * *
934928 ATTCTTCCTTTTTGGCACGTATT
1 ATTCTGCCTTTATGACACATATT
934951 ATTCTGCCTTTATGACACATATT
1 ATTCTGCCTTTATGACACATATT
934974 CTTAAACCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.48
Consensus pattern (23 bp):
ATTCTGCCTTTATGACACATATT
Found at i:935513 original size:2 final size:2
Alignment explanation
Indices: 935506--935553 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
935496 CTATAATTTA
935506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
935548 AT AT AT
1 AT AT AT
935554 CTATCTAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:936634 original size:93 final size:95
Alignment explanation
Indices: 936505--936680 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 95
936495 CGATACTATG
* * * *
936505 GAGAAGTATCGATACCATTGATTATAGAATGCAGAAAT-AGTATCGATATTGTAATG-GAGTATC
1 GAGAAGTATCGATACCATGGATTACAGAATGCAGAAATGA-TATCGATACTG-AAAGAGAGTATC
* *
936568 GGTACCATAGTATAGAAGTATCAGTACTAGAA
64 AGTACCACAGTATAGAAGTATCAGTACTAGAA
* *
936600 GAGAAGTATCG-TACCATGGA-TCCAGAATGTAGAAATGATATCGATACTGAAAGAGAGTATCAG
1 GAGAAGTATCGATACCATGGATTACAGAATGCAGAAATGATATCGATACTGAAAGAGAGTATCAG
936663 TACCACAGTATAGAAGTA
66 TACCACAGTATAGAAGTA
936681 CCGATACCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 3 0.04
93 48 0.68
94 9 0.13
95 11 0.15
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (95 bp):
GAGAAGTATCGATACCATGGATTACAGAATGCAGAAATGATATCGATACTGAAAGAGAGTATCAG
TACCACAGTATAGAAGTATCAGTACTAGAA
Found at i:937107 original size:55 final size:55
Alignment explanation
Indices: 937047--937289 Score: 373
Period size: 55 Copynumber: 4.4 Consensus size: 55
937037 GTGTGCAAAT
937047 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGAAAAAC
*
937102 TAAGAAATTCATAATAAGTTTATGAATTT-CGTATGGGCACTTGGTGTA-CAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT--TGTATGAAAAAC
* * * * * *
937157 TAAGAAATTCATTATGAGTTTATGAATTTTCGTATGAGCACTTGGTATGCAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGAAAAAC
* *
937212 TAAGAAATGCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGAAAAAC
937267 TAAGAAATTCATAATAAGTTTAT
1 TAAGAAATTCATAATAAGTTTAT
937290 TAATAAGTTT
Statistics
Matches: 168, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
54 16 0.10
55 136 0.81
56 16 0.10
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (55 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGAAAAAC
Found at i:937198 original size:110 final size:109
Alignment explanation
Indices: 937029--937590 Score: 761
Period size: 110 Copynumber: 5.0 Consensus size: 109
937019 ATTACCAAAT
* * *
937029 GGCACTATGTGTGC-AAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
* *
937093 ATGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATG
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATG
* * * * * *
937137 GGCACTTGGTGTACAAAAACTAAGAAATTCATTATGAGTTTATGAATTT-TCGTATGAGCACTTG
1 GGCACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTT
* *
937201 GTATGCAAAACTAAGAAATGCATAATAAGTTTATGAATTTCCGTATG
64 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT-CGTATG
*
937248 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATTAATAAGTTTATGAATTTCTGTA
1 GGCACTTTGTGTGCAAAACTAAGAAATTC-----------A-TAATAAGTTTATGAATTTCTGTA
*
937313 TGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
54 TGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTCGTATG
* *
937370 GGCACTTTGTGTGCAAAACTAAGGAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTGT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
*
937435 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATA
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT-CGTATG
* *
937480 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGAGCACTTTAT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
937545 GTGC-AAACTTAAGAAATTCATAATAAGTTTATGAATTTCGTATG
66 GTGCAAAAC-TAAGAAATTCATAATAAGTTTATGAATTTCGTATG
937589 GG
1 GG
937591 TAGTGGGTAT
Statistics
Matches: 403, Mismatches: 31, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
108 11 0.03
109 14 0.03
110 261 0.65
111 18 0.04
121 1 0.00
122 94 0.23
123 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (109 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATG
Found at i:937333 original size:67 final size:61
Alignment explanation
Indices: 937217--937568 Score: 376
Period size: 55 Copynumber: 6.0 Consensus size: 61
937207 AAAACTAAGA
*
937217 AATGCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAGAAATTCAT
1 AATG-ATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
*
937279 AATAAGTTTATTAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTC
1 AAT--G---A-TAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTC
937344 AT
60 AT
* *
937346 AATG------AGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAACTAAGGAATTCAT
1 AATGATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
*
937401 AATG------AGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTC--
1 AATGATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
*
937454 ----ATAATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAACTAAGAAATTC--
1 AATGATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
* * *
937509 ----ATAATAAGTTTATGAATTTCTGTATGAGCACTTTATGTGC-AAACTTAAGAAATTCAT
1 AATGATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC-TAAGAAATTCAT
937566 AAT
1 AAT
937569 AAGTTTATGA
Statistics
Matches: 258, Mismatches: 15, Indels: 36
0.83 0.05 0.12
Matches are distributed among these distances:
54 4 0.02
55 191 0.74
62 3 0.01
64 1 0.00
65 1 0.00
66 1 0.00
67 57 0.22
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (61 bp):
AATGATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCAT
Found at i:937379 original size:55 final size:55
Alignment explanation
Indices: 937290--937590 Score: 500
Period size: 55 Copynumber: 5.5 Consensus size: 55
937280 ATAAGTTTAT
937290 TAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
1 TAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
* *
937345 TAATGAGTTTATGAATTT-TCGTATGGGCACTTTGTGTGCAAAACTAAGGAATTCA
1 TAATAAGTTTATGAATTTCT-GTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
*
937400 TAATGAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
1 TAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
* *
937455 TAATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAACTAAGAAATTCA
1 TAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
* *
937510 TAATAAGTTTATGAATTTCTGTATGAGCACTTTATGTGC-AAACTTAAGAAATTCA
1 TAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAC-TAAGAAATTCA
937565 TAATAAGTTTATGAATTTC-GTATGGG
1 TAATAAGTTTATGAATTTCTGTATGGG
937591 TAGTGGGTAT
Statistics
Matches: 232, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
54 11 0.05
55 220 0.95
56 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (55 bp):
TAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCA
Found at i:937464 original size:232 final size:220
Alignment explanation
Indices: 937029--937590 Score: 790
Period size: 232 Copynumber: 2.5 Consensus size: 220
937019 ATTACCAAAT
* * * *
937029 GGCACTATGTGTG-CAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGT
1 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
* *
937093 ATGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGCACTTGGTGTACAAAAACT
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGCACTTGGTGTACAAAAACT
*
937158 AAGAAATTCATTATGAGTTTATGAATTTTCGTATGAGCACTTGGTATGCAAAACTAAGAAATGCA
131 AAGAAATTCATAATGAGTTTATGAATTTTCGTATGAGCACTTGGTATGCAAAACTAAGAAATGCA
*
937223 TAATAAGTTTATGAATTTCCGTATG
196 TAATAAGTTTATGAATTTCCGTATA
937248 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATTAATAAGTTTATGAATTTCTGTA
1 GGCACTTTGTGTGAAAAACTAAGAAATTC-----------A-TAATAAGTTTATGAATTTCTGTA
* *
937313 TGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTT
54 TGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTCGTATGGGCACTTG
* * * * *
937378 GTGTGC-AAAACTAAGGAATTCATAATGAGTTTATGAA-TTTCTGTATGGGCACTTTGTGTGCAA
118 GTGTACAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATGAGCACTTGGTATGCAA
*
937441 AACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATA
182 AACTAAGAAATGCATAATAAGTTTATGAATTTCCGTATA
* * *
937480 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGAGCACTTTAT
1 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
937545 GTGC-AAACTTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGG
66 GTGCAAAAC-TAAGAAATTCATAATAAGTTTATGAATTTCGTATGGG
937591 TAGTGGGTAT
Statistics
Matches: 307, Mismatches: 20, Indels: 32
0.86 0.06 0.09
Matches are distributed among these distances:
219 27 0.09
220 75 0.24
221 1 0.00
231 5 0.02
232 178 0.58
233 21 0.07
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (220 bp):
GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGT
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGCACTTGGTGTACAAAAACT
AAGAAATTCATAATGAGTTTATGAATTTTCGTATGAGCACTTGGTATGCAAAACTAAGAAATGCA
TAATAAGTTTATGAATTTCCGTATA
Found at i:939795 original size:15 final size:16
Alignment explanation
Indices: 939768--939797 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
939758 TCACCTTCTG
939768 ATTAAAGTTAAAATTT
1 ATTAAAGTTAAAATTT
939784 ATTAAA-TTAAAATT
1 ATTAAAGTTAAAATT
939798 AAAAAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTAAAGTTAAAATTT
Found at i:944250 original size:33 final size:35
Alignment explanation
Indices: 944208--944279 Score: 105
Period size: 33 Copynumber: 2.1 Consensus size: 35
944198 ATAGTTTGAG
*
944208 ATGATTACCTGATAT-TTTGTG-GG-TAATTTGGAC
1 ATGATTACCTGATATCTTT-TGAGGTTAATTTGGAA
944241 ATGATTACCTGATATCTTTTGAGGTTAATTTGGAA
1 ATGATTACCTGATATCTTTTGAGGTTAATTTGGAA
944276 ATGA
1 ATGA
944280 AATTTTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 17 0.49
34 5 0.14
35 13 0.37
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (35 bp):
ATGATTACCTGATATCTTTTGAGGTTAATTTGGAA
Found at i:952465 original size:6 final size:6
Alignment explanation
Indices: 952454--952478 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
952444 ATAGCTCGAC
952454 GAGCTT GAGCTT GAGCTT GAGCTT G
1 GAGCTT GAGCTT GAGCTT GAGCTT G
952479 CCTTCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GAGCTT
Found at i:952651 original size:19 final size:20
Alignment explanation
Indices: 952621--952662 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
952611 GTCAACTAAC
952621 TAAAAATGAAATAAACAA-AA
1 TAAAAATGAAAT-AACAACAA
952641 TAAAAAT-AAATAACAACAA
1 TAAAAATGAAATAACAACAA
952660 TAA
1 TAA
952663 GCATTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (20 bp):
TAAAAATGAAATAACAACAA
Found at i:955745 original size:47 final size:47
Alignment explanation
Indices: 955676--955772 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
955666 TAATACCTAT
955676 GATTATCTCTTCTAAGTTGCAGTCAGACCAAGAATGAAGTTGATAGA
1 GATTATCTCTTCTAAGTTGCAGTCAGACCAAGAATGAAGTTGATAGA
955723 GATTATCTCTTCTAAGTTGCAGTCAGACCAAGAATGAAGTTGATAGA
1 GATTATCTCTTCTAAGTTGCAGTCAGACCAAGAATGAAGTTGATAGA
955770 GAT
1 GAT
955773 GCCAGCACGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (47 bp):
GATTATCTCTTCTAAGTTGCAGTCAGACCAAGAATGAAGTTGATAGA
Found at i:959829 original size:18 final size:18
Alignment explanation
Indices: 959808--959855 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
959798 TATTAATGGA
959808 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* *
959826 GTAAAAGAAATTAAAAAG
1 GTAAAAAAAATAAAAAAG
*
959844 G-AATAAAAATAA
1 GTAAAAAAAATAA
959856 TGTGTACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:959979 original size:29 final size:28
Alignment explanation
Indices: 959947--960016 Score: 72
Period size: 30 Copynumber: 2.5 Consensus size: 28
959937 TACATGATAT
959947 TAAGAAAAAAATAATAGA-AAAAGATAAAA
1 TAAGAAAAAAATAATAGATAAAA-AT-AAA
* * *
959976 TAAGTAAAAATATAATATATATAAATAAA
1 TAAG-AAAAAAATAATAGATAAAAATAAA
960005 TAA-AAAAAAATA
1 TAAGAAAAAAATA
960017 GAATATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 8 0.23
29 10 0.29
30 14 0.40
31 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (28 bp):
TAAGAAAAAAATAATAGATAAAAATAAA
Found at i:960081 original size:2 final size:2
Alignment explanation
Indices: 960027--960065 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
960017 GAATATTAAA
* *
960027 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AA AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
960066 TAAGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:960118 original size:2 final size:2
Alignment explanation
Indices: 960111--960180 Score: 98
Period size: 2 Copynumber: 38.0 Consensus size: 2
960101 TTAATACATC
960111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
960153 TA TA -A TA -A TA -A TA TA -A TA TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
960181 AATAAAAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
1 6 0.10
2 56 0.90
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:960224 original size:21 final size:21
Alignment explanation
Indices: 960173--960224 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
960163 ATATAATATA
960173 ATAATATAAATAAAAAAAGGAAT
1 ATAAT-TAAATAAAAAAA-GAAT
*
960196 AT-AGTAAATAAATAAAA-AAT
1 ATAATTAAATAAA-AAAAGAAT
960216 ATAATTAAA
1 ATAATTAAA
960225 AATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
22 5 0.20
23 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (21 bp):
ATAATTAAATAAAAAAAGAAT
Found at i:961795 original size:110 final size:105
Alignment explanation
Indices: 961556--961805 Score: 250
Period size: 110 Copynumber: 2.3 Consensus size: 105
961546 AGTATTGTTC
* ** * *
961556 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGATA
1 CGAGTCCAATATCC-CCGTTGTGAAGTTGAAATTAACTCTGGAACTGGAAAATTGTTTGTTGACA
* * * *
961621 GCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
65 ACCAGCCACCCCTTCACTGTGAAATTGAGCTTGTGTTGTCT
* * **
961662 CGAGTTCAATATCCTTCAATGTGAAGTTGAAATTAACTCTGAATGAAACT-GAAAAGTTGTTTGT
1 CGAGTCCAATATCC-CCGTTGTGAAGTTGAAATTAACTCTG---G-AACTGGAAAA-TTGTTTGT
* * * *
961726 TGACAATCAGTCACCCCTTCATTGTGAAATTGAGCTTGTGTTGTGT
60 TGACAACCAGCCACCCCTTCACTGTGAAATTGAGCTTGTGTTGTCT
* *
961772 TGAGTCCAATATCCCACGTTGTGAAGTTAAAATT
1 CGAGTCCAATATCCC-CGTTGTGAAGTTGAAATT
961806 GGTTGTGAAA
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
106 34 0.30
109 5 0.04
110 76 0.66
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (105 bp):
CGAGTCCAATATCCCCGTTGTGAAGTTGAAATTAACTCTGGAACTGGAAAATTGTTTGTTGACAA
CCAGCCACCCCTTCACTGTGAAATTGAGCTTGTGTTGTCT
Found at i:962645 original size:67 final size:66
Alignment explanation
Indices: 962493--962849 Score: 240
Period size: 65 Copynumber: 5.3 Consensus size: 66
962483 AAAGAGATAG
* * * * *
962493 AATTCGTTTCAAGGGAAA-CAATCTCAAAGATATCTGTTGTTTCATGA-AAACAGTCTCAAGGGA
1 AATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-T-T-TTGTTTCAAGAGAAACTGTCTCAAGGGA
*
962556 AACAA
62 GACAA
**
962561 AATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 AA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGA
962626 CAA
64 CAA
* * * * *
962629 AATTTGTTTTAGGGGAAATAAATTCAAAGATTTTT-TTTCAAGGGAAACTATCTCAAGAGAGACG
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
962693 A
66 A
* * * ** * * * *
962694 AATTTGTTTCAAGAGAAACT--GTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCA
1 AATTTGTTTTAAGGGAAA-TAAAT-TC-A-A-AG----ATTTTTGTTTCAAGAGAAACTGTCTCA
962757 AGGGAGACAA
57 AGGGAGACAA
* *** * * * * * *
962767 AATTTGTTTCAAATAAAACATATTCAAATA-ATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
962831 A
66 A
*
962832 AATTTGTTTCAAGGGAAA
1 AATTTGTTTTAAGGGAAA
962850 CTGTCTCAAA
Statistics
Matches: 230, Mismatches: 43, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
64 1 0.00
65 86 0.37
66 5 0.02
67 40 0.17
68 26 0.11
69 20 0.09
70 4 0.02
71 1 0.00
72 4 0.02
73 42 0.18
74 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (66 bp):
AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
A
Found at i:962712 original size:36 final size:36
Alignment explanation
Indices: 962664--962885 Score: 226
Period size: 36 Copynumber: 6.3 Consensus size: 36
962654 AAAGATTTTT
*
962664 TTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
* * *
962700 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTG
* ** *
962737 TTCCAAAAGAAACTATCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
*** *
962773 TTTCAAATAAAACATAT-TC-----A-A-ATAATTTG
1 TTTCAAGGGAAAC-TATCTCAAGAGAGACAAAATTTG
*
962802 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
* * *
962838 TTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
962874 TTTCAAGGGAAA
1 TTTCAAGGGAAA
962886 TATTTTCAAT
Statistics
Matches: 156, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.01
29 19 0.12
30 1 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 97 0.62
37 34 0.22
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
Done.