Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
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: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:766712 original size:30 final size:31
Alignment explanation
Indices: 766617--766799 Score: 167
Period size: 31 Copynumber: 5.8 Consensus size: 31
766607 CTTTAAAGAG
* * * **
766617 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACTGAGTCGTGGACTTTAAA-G-ACAAAA
* * * *
766650 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGACAAAA
*
766681 TGCCACTGAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGACAAAA
766711 TGCCACTGAGTCGTGGACTTTAAAGA-AAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAGACAAA--A
* * *
766743 TGCCACTGCGTCGTGGACTTT-GAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGACA-A-AA
766774 TGCCACTGAGTCGTGGACTTTAAAGA
1 TGCCACTGAGTCGTGGACTTTAAAGA
766800 GATTTGAAGA
Statistics
Matches: 126, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
30 31 0.25
31 47 0.37
32 25 0.20
33 23 0.18
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAAGACAAAA
Found at i:767823 original size:14 final size:13
Alignment explanation
Indices: 767804--767845 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
767794 CTTATCGAGA
767804 TTTTCTGCTTTTTT
1 TTTTCT-CTTTTTT
767818 TTTTCT-TTTTTT
1 TTTTCTCTTTTTT
*
767830 TTTTCCCCTTTTTT
1 TTTT-CTCTTTTTT
767844 TT
1 TT
767846 GTGTTTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 14 0.56
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:768483 original size:52 final size:52
Alignment explanation
Indices: 768405--768532 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
768395 CGAAATATGA
*
768405 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
768457 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
768509 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
768533 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:768559 original size:13 final size:13
Alignment explanation
Indices: 768541--768565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
768531 CAAAGATCAG
768541 TGTATCGATACAA
1 TGTATCGATACAA
768554 TGTATCGATACA
1 TGTATCGATACA
768566 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:768643 original size:33 final size:33
Alignment explanation
Indices: 768606--768672 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
768596 AGTAGCTTAA
768606 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
768639 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
768672 A
1 A
768673 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:768646 original size:13 final size:13
Alignment explanation
Indices: 768628--768652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
768618 CAAAAAAATA
768628 TGTATCGATACAT
1 TGTATCGATACAT
768641 TGTATCGATACA
1 TGTATCGATACA
768653 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:771741 original size:13 final size:13
Alignment explanation
Indices: 771723--771774 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
771713 AGCTTCCTAG
771723 CGATACATTGTAT
1 CGATACATTGTAT
771736 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
771755 CGATACATTGTAT
1 CGATACATTGTAT
771768 CGATACA
1 CGATACA
771775 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:771755 original size:19 final size:19
Alignment explanation
Indices: 771731--771816 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
771721 AGCGATACAT
771731 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
771750 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
771763 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
771782 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
771803 TGTATCGATACAAA
1 TGTATCGATACAAA
771817 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:771764 original size:32 final size:32
Alignment explanation
Indices: 771723--771795 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
771713 AGCTTCCTAG
771723 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
771755 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
771787 CGATACATT
1 CGATACATT
771796 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:775411 original size:13 final size:13
Alignment explanation
Indices: 775393--775419 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
775383 ACAATTTTCT
775393 TTGTATCGATACA
1 TTGTATCGATACA
775406 TTGTATCGATACA
1 TTGTATCGATACA
775419 T
1 T
775420 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:777426 original size:13 final size:13
Alignment explanation
Indices: 777408--777433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
777398 TACAGCAAGT
777408 ATGTATCGATACA
1 ATGTATCGATACA
777421 ATGTATCGATACA
1 ATGTATCGATACA
777434 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:779684 original size:21 final size:21
Alignment explanation
Indices: 779651--779695 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
779641 TTGCAAGTTG
*
779651 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
779673 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
779693 AAA
1 AAA
779696 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:781519 original size:15 final size:15
Alignment explanation
Indices: 781499--781529 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
781489 TAAAAATGTC
*
781499 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
781514 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
781529 C
1 C
781530 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:783624 original size:20 final size:20
Alignment explanation
Indices: 783545--783624 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
783535 AATGTCCAAA
*
783545 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
783565 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
783590 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
783610 TTGTATCGATACATT
1 ATGTATCGATACATT
783625 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:783628 original size:13 final size:13
Alignment explanation
Indices: 783610--783648 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
783600 ACATTTTTCT
783610 TTGTATCGATACA
1 TTGTATCGATACA
783623 TTGTATCGATACA
1 TTGTATCGATACA
*
783636 CTGTATCGATACA
1 TTGTATCGATACA
783649 GGATGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:783793 original size:21 final size:21
Alignment explanation
Indices: 783769--783815 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
783759 AAATCTTTTG
783769 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
783790 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
783810 CAAAAT
1 CAAAAT
783816 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:783812 original size:20 final size:19
Alignment explanation
Indices: 783771--783813 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
783761 ATCTTTTGCA
783771 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
783791 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
783811 AAA
1 AAA
783814 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:786194 original size:13 final size:13
Alignment explanation
Indices: 786176--786201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
786166 TACAGCAAGT
786176 ATGTATCGATACA
1 ATGTATCGATACA
786189 ATGTATCGATACA
1 ATGTATCGATACA
786202 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:786920 original size:21 final size:21
Alignment explanation
Indices: 786896--786952 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
786886 ATTTTTGTCC
786896 AAATGTATCGATACATTGTTA
1 AAATGTATCGATACATTGTTA
786917 AAATGTATCGATACATTGTTA
1 AAATGTATCGATACATTGTTA
786938 AAATGTATCGATACA
1 AAATGTATCGATACA
786953 AGGTCCCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTGTTA
Found at i:787027 original size:33 final size:33
Alignment explanation
Indices: 786990--787056 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
786980 TTCAATGATT
786990 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
787023 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
787056 T
1 T
787057 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:787028 original size:13 final size:13
Alignment explanation
Indices: 787010--787034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
787000 CATAAAATGT
787010 TGTATCGATACAA
1 TGTATCGATACAA
787023 TGTATCGATACA
1 TGTATCGATACA
787035 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:787122 original size:13 final size:13
Alignment explanation
Indices: 787104--787128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
787094 CTTACTCACA
787104 TGTATCGATACAT
1 TGTATCGATACAT
787117 TGTATCGATACA
1 TGTATCGATACA
787129 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:787179 original size:52 final size:51
Alignment explanation
Indices: 787117--787257 Score: 219
Period size: 52 Copynumber: 2.7 Consensus size: 51
787107 ATCGATACAT
**
787117 TGTATCGATACACTGATTTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
787169 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-TAATGTATCGATACATGCAGGCAAATTTGCCCAGA
787221 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTATT-AATGTATCGATACATGCAG
787258 TAACTTTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTATTAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:795599 original size:30 final size:30
Alignment explanation
Indices: 795540--795656 Score: 137
Period size: 30 Copynumber: 3.8 Consensus size: 30
795530 ATAAAAAAAA
*
795540 TCCACGACTCAGTGGCAATCTCTTCTCAAAG
1 TCCACGACTCAGTGGC-ATCTTTTCTCAAAG
795571 TCCACGACTCAGTGGCAT-TTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCTTT-TCTCAAAG
*
795601 TCCACGACTTAGTGGCATCCTTTTCTTCAAAG
1 TCCACGACTCAGTGGCAT-CTTTTC-TCAAAG
* * *
795633 CCCACAACTCCGTGGCACTCTTTT
1 TCCACGACTCAGTGGCA-TCTTTT
795657 TCCCTTTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.03
30 27 0.36
31 18 0.24
32 27 0.36
33 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (30 bp):
TCCACGACTCAGTGGCATCTTTTCTCAAAG
Found at i:795711 original size:71 final size:71
Alignment explanation
Indices: 795621--796329 Score: 937
Period size: 71 Copynumber: 10.1 Consensus size: 71
795611 AGTGGCATCC
*
795621 TTTTC-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
795685 CACCTT
66 CACCTT
*
795691 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
*
795754 CATCTT
66 CACCTT
** * * * *
795760 TCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTT--CTTTTCAAAGCCCACAACTC
1 T-TTTCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCCTTTTCAAAGCCCACAACTC
795822 CGTGGCACC-T
61 CGTGGCACCTT
* ** *
795832 TCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
795897 CACCTT
66 CACCTT
* *
795903 TTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
795968 CACCTT
66 CACCTT
*
795974 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
*
796037 CATCTT
66 CACCTT
** * * * *
796043 TCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTT--CTTTTCAAAGCCCACAACTC
1 T-TTTCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCCTTTTCAAAGCCCACAACTC
796105 CGTGGCACC-T
61 CGTGGCACCTT
* ** *
796115 TCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
796180 CACCTT
66 CACCTT
* *
796186 TTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
796251 CA-CTT
66 CACCTT
*
796256 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
*
796319 CATCTT
66 CACCTT
796325 TTTTC
1 TTTTC
796330 CTTCCCAAAG
Statistics
Matches: 561, Mismatches: 54, Indels: 49
0.84 0.08 0.07
Matches are distributed among these distances:
67 4 0.01
68 51 0.09
69 58 0.10
70 127 0.23
71 235 0.42
72 8 0.01
73 74 0.13
74 4 0.01
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (71 bp):
TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
CACCTT
Found at i:795918 original size:141 final size:140
Alignment explanation
Indices: 795660--796367 Score: 991
Period size: 141 Copynumber: 5.0 Consensus size: 140
795650 CTCTTTTTCC
795660 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACC-TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
* *
795725 TTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGT
65 TTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTT-CTAAAGCCCACACAAGTCGGT
795790 GGCAACCTTCTT
129 GGCAACCTTCTT
* **
795802 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* * * * *
795867 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTT-TAAAG-CC-CACAACTCCGT
66 TTTCCCTTTT--AAGTCCACAACTCCGTGGCACCTTTTTCCCTTCTAAAGCCCACACAAGTCGGT
*
795929 GGC-ACTCTTTTT
129 GGCAAC-CTTCTT
795941 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACT
1 --CTTTTCAAAGCCCACAACTCCGTGGCACC-TTTTTCTTTTAAAGCCCACAACTCCGTGGCACT
* *
796006 CTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCG
63 CTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTT-CTAAAGCCCACACAAGTCG
796071 GTGGCAACCTTCTT
127 GTGGCAACCTTCTT
* **
796085 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* * * * *
796150 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTT-TAAAG-CC-CACAACTCCGT
66 TTTCCCTTTT--AAGTCCACAACTCCGTGGCACCTTTTTCCCTTCTAAAGCCCACACAAGTCGGT
*
796212 GGC-ACTCTTTTT
129 GGCAAC-CTTCTT
*
796224 CCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
1 --CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
* * *
796289 TTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCCAAAGCCCACACAAGTCGG
64 TTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTT-CTAAAGCCCACACAAGTCGG
796354 TGGCAACCTTCTT
128 TGGCAACCTTCTT
796367 C
1 C
796368 CAAAGCCCAC
Statistics
Matches: 499, Mismatches: 46, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
138 4 0.01
139 62 0.12
140 32 0.06
141 198 0.40
142 107 0.21
143 75 0.15
144 19 0.04
145 2 0.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (140 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTTCTAAAGCCCACACAAGTCGGTGG
CAACCTTCTT
Found at i:796136 original size:283 final size:283
Alignment explanation
Indices: 795629--796367 Score: 1444
Period size: 283 Copynumber: 2.6 Consensus size: 283
795619 CCTTTTCTTC
795629 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
795694 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
66 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
795759 TTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCG
131 TTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCG
795824 TGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAA
196 TGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAA
795889 CTCCGTGGCACCTTTTTCCGTTT
261 CTCCGTGGCACCTTTTTCCGTTT
795912 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
795977 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
66 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
796042 TTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCG
131 TTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCG
796107 TGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAA
196 TGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAA
796172 CTCCGTGGCACCTTTTTCCGTTT
261 CTCCGTGGCACCTTTTTCCGTTT
796195 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
796259 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
66 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
* * *
796324 TTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
131 TTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
796368 CAAAGCCCAC
Statistics
Matches: 453, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
282 112 0.25
283 341 0.75
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (283 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCT
TTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCG
TGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAA
CTCCGTGGCACCTTTTTCCGTTT
Found at i:796345 original size:212 final size:210
Alignment explanation
Indices: 795621--796327 Score: 925
Period size: 212 Copynumber: 3.3 Consensus size: 210
795611 AGTGGCATCC
*
795621 TTTTC-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGG
*
795685 CACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACT
65 CACC-TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACT
* * * * *
795748 CCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTT--CTTTTCAA
129 CCGTGGCACCTTTTTCCCTT--TAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCCTTTTCAA
*
795810 AGCCCACAACTCCGTGGCACCT
189 AGCCCACAACTCCGTGGCACTT
* ** *
795832 TCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGG
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGG
*
795897 CACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACT
65 CACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACT
* * *
795962 CCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCC
129 CCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
796025 ACAACTCCGTGGCATCTT
194 ACAACTCCGTGGCA-CTT
** * * * *
796043 TCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTT--CTTTTCAAAGCCCACAACTC
1 T-TTTCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCCTTTT-AAAGCCCACAACTC
* ** *
796105 CGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCAC
60 CGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCAC
*
796170 AACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAA
125 AACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAA
796235 GCCCACAACTCCGTGGCACTT
190 GCCCACAACTCCGTGGCACTT
*
796256 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGC
1 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGC
*
796320 ATCTTTTT
66 ACCTTTTT
796328 TCCTTCCCAA
Statistics
Matches: 437, Mismatches: 41, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
208 2 0.00
209 43 0.10
210 38 0.09
211 24 0.05
212 222 0.51
213 42 0.10
214 48 0.11
215 16 0.04
216 2 0.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (210 bp):
TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGC
ACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
GTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCAC
AACTCCGTGGCACTT
Found at i:796371 original size:33 final size:34
Alignment explanation
Indices: 796334--796399 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
796324 TTTTTCCTTC
796334 CCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
796367 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
796400 AAGCCCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.17
Consensus pattern (34 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
Found at i:796517 original size:49 final size:49
Alignment explanation
Indices: 796399--797511 Score: 1505
Period size: 49 Copynumber: 22.7 Consensus size: 49
796389 GCAACCCTTC
* * *
796399 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
796451 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
796500 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
796552 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
796601 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
796653 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
796702 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
796754 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*** * *
796803 TAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
796852 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*** * *
796901 TAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
796950 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
796999 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*** * *
797048 TAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
797097 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
797146 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
797195 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
797244 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
797293 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
797336 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
797385 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
797428 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
*
797480 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
797512 GTTGACATCC
Statistics
Matches: 939, Mismatches: 96, Indels: 52
0.86 0.09 0.05
Matches are distributed among these distances:
43 78 0.08
45 2 0.00
47 1 0.00
48 1 0.00
49 645 0.69
50 10 0.01
51 6 0.01
52 196 0.21
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:797361 original size:92 final size:92
Alignment explanation
Indices: 797241--797511 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
797231 GCACCTTCAT
797241 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
797306 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
797333 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
797398 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
797425 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCCTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
797490 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
797512 GTTGACATCC
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 130 0.76
94 5 0.03
95 36 0.21
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:798398 original size:21 final size:21
Alignment explanation
Indices: 798374--798430 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
798364 ATTTTTGTCC
798374 AAATGTATCGATACATTGTTA
1 AAATGTATCGATACATTGTTA
798395 AAATGTATCGATACATTGTTA
1 AAATGTATCGATACATTGTTA
798416 AAATGTATCGATACA
1 AAATGTATCGATACA
798431 AGGTCCCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTGTTA
Found at i:798505 original size:33 final size:33
Alignment explanation
Indices: 798468--798534 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
798458 TTCAATGATT
798468 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
798501 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
798534 T
1 T
798535 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:798506 original size:13 final size:13
Alignment explanation
Indices: 798488--798512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
798478 CATAAAATGT
798488 TGTATCGATACAA
1 TGTATCGATACAA
798501 TGTATCGATACA
1 TGTATCGATACA
798513 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:798599 original size:13 final size:13
Alignment explanation
Indices: 798581--798605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
798571 CTTACTCACA
798581 TGTATCGATACAT
1 TGTATCGATACAT
798594 TGTATCGATACA
1 TGTATCGATACA
798606 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:798656 original size:52 final size:51
Alignment explanation
Indices: 798594--798734 Score: 219
Period size: 52 Copynumber: 2.7 Consensus size: 51
798584 ATCGATACAT
**
798594 TGTATCGATACACTGATTTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
798646 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-TAATGTATCGATACATGCAGGCAAATTTGCCCAGA
798698 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTATT-AATGTATCGATACATGCAG
798735 TAACTTTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTATTAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:802838 original size:20 final size:20
Alignment explanation
Indices: 802791--802866 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
802781 ACATTATGCT
**
802791 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGAACAA
*
802810 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGAACAA
*
802830 TTGTCTCGATACATGAACAA
1 TTGTATCGATACATGAACAA
*
802850 TTGTCTCGATACATGAA
1 TTGTATCGATACATGAA
802867 ACTAGCAGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 16 0.31
20 36 0.69
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:804127 original size:34 final size:33
Alignment explanation
Indices: 804044--804130 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 33
804034 CATAGCTTAA
804044 TTTTTAAATTTTAATT-A-ATATTATTTTTAATT
1 TTTTTAAA-TTTAATTAATATATTATTTTTAATT
** *
804076 TTATAAAAAATAATAATTAATATATTATTTATTAATT
1 TT-T-TTAAAT-TTAATTAATATATTATTT-TTAATT
804113 TTTTTAAATTTAATTAAT
1 TTTTTAAATTTAATTAAT
804131 TTTATTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
32 2 0.05
33 2 0.05
34 16 0.37
35 5 0.12
36 10 0.23
37 8 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTTTAAATTTAATTAATATATTATTTTTAATT
Found at i:804128 original size:19 final size:18
Alignment explanation
Indices: 804102--804139 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
804092 TTAATATATT
*
804102 ATTTATTAATTTTTTTAA
1 ATTTATTAATTTTATTAA
804120 ATTTAATTAATTTTATTAA
1 ATTT-ATTAATTTTATTAA
804139 A
1 A
804140 AAATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATTAATTTTATTAA
Found at i:804255 original size:39 final size:40
Alignment explanation
Indices: 804176--804256 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
804166 TTAATTTTTT
* *
804176 ATTTTTAAAAATAATGAATATTTTAATTTATTAATGTAAA
1 ATTTTTAAAAATAATGAATATATTAATTTATTAATATAAA
* * *
804216 ATTTTTAAAATTAATTAA-ATATT-ATTTTTTAATTATAAA
1 ATTTTTAAAAATAATGAATATATTAATTTATTAA-TATAAA
804255 AT
1 AT
804257 AATAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 8 0.23
39 11 0.31
40 16 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (40 bp):
ATTTTTAAAAATAATGAATATATTAATTTATTAATATAAA
Found at i:805215 original size:23 final size:21
Alignment explanation
Indices: 805189--805241 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
805179 TTAATTAATA
* *
805189 TTTAATTAATAAAAATATTATTT
1 TTTAATTAAT-AAAATA-AAATT
*
805212 TTTAAGTAATAAAATAAAATT
1 TTTAATTAATAAAATAAAATT
805233 TTTAATTAA
1 TTTAATTAA
805242 ACGAATCTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 11 0.42
22 6 0.23
23 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTAATTAATAAAATAAAATT
Found at i:805233 original size:22 final size:23
Alignment explanation
Indices: 805189--805235 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
805179 TTAATTAATA
* **
805189 TTTAATTAATAAAAATATTATTT
1 TTTAAGTAATAAAAATAAAATTT
805212 TTTAAGTAAT-AAAATAAAATTT
1 TTTAAGTAATAAAAATAAAATTT
805234 TT
1 TT
805236 AATTAAACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAAGTAATAAAAATAAAATTT
Found at i:808366 original size:12 final size:12
Alignment explanation
Indices: 808349--808381 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
808339 AAAAATATTT
808349 TCTTTCTTTTCA
1 TCTTTCTTTTCA
808361 TCTTTCTTTTCA
1 TCTTTCTTTTCA
808373 TCTTTCTTT
1 TCTTTCTTT
808382 CTTTCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (12 bp):
TCTTTCTTTTCA
Found at i:809442 original size:38 final size:38
Alignment explanation
Indices: 809400--809482 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
809390 GTGGTTGTGA
*
809400 GTTTATGAATATATGCCTCCACTAAACTTTAAATTGCT
1 GTTTATGAATATATGCCTCCACTAAACTTTAAATTACT
** * *
809438 GTTTACAAATATATGCCTCTACTAAATTTTAAATTACT
1 GTTTATGAATATATGCCTCCACTAAACTTTAAATTACT
809476 G-TTATGA
1 GTTTATGA
809483 TTTCTGATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 4 0.11
38 34 0.89
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.41
Consensus pattern (38 bp):
GTTTATGAATATATGCCTCCACTAAACTTTAAATTACT
Found at i:812232 original size:27 final size:26
Alignment explanation
Indices: 812189--812250 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
812179 TATTAAAAAT
*
812189 TTTTAACAAATGTATTTAAATTTTTATA
1 TTTTAA-AAATGTATTTAAATTATTA-A
*
812217 TTTTAAAAAT-TAATTTTAATTATTAA
1 TTTTAAAAATGT-ATTTAAATTATTAA
*
812243 CTTTAAAA
1 TTTTAAAA
812251 TAATTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.30
27 15 0.50
28 6 0.20
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTTAAAAATGTATTTAAATTATTAA
Found at i:812267 original size:25 final size:26
Alignment explanation
Indices: 812202--812268 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
812192 TAACAAATGT
* *
812202 ATTTAAATTTTTATATTTTAAAAATTA
1 ATTTTAATTTTTA-ACTTTAAAAATTA
*
812229 ATTTTAATTATTAACTTT-AAAA-TA
1 ATTTTAATTTTTAACTTTAAAAATTA
*
812253 ATTTTGTATTTTTAAC
1 ATTTT-AATTTTTAAC
812269 CATTTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.21
25 12 0.35
26 4 0.12
27 11 0.32
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (26 bp):
ATTTTAATTTTTAACTTTAAAAATTA
Found at i:812478 original size:22 final size:22
Alignment explanation
Indices: 812408--812479 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
812398 CCATATTAAT
*
812408 TTTTTAAAAATA-AATTTTTTA
1 TTTTTAAAAATATAATTTTATA
*
812429 GTTTTTAAGAAATCAT-ATATTA-A
1 -TTTTTAA-AAAT-ATAATTTTATA
*
812452 ATTTTAAAAATATAATTTTATA
1 TTTTTAAAAATATAATTTTATA
812474 TTTTTA
1 TTTTTA
812480 TATTTCAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 2 0.05
21 9 0.22
22 19 0.47
23 5 0.12
24 5 0.12
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (22 bp):
TTTTTAAAAATATAATTTTATA
Found at i:812564 original size:7 final size:8
Alignment explanation
Indices: 812543--812584 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
812533 AATTTTTTTT
812543 TATTTTAA
1 TATTTTAA
812551 TATTTTAA
1 TATTTTAA
812559 TA-TTTAA
1 TATTTTAA
*
812566 AATTTTAA
1 TATTTTAA
*
812574 AATATTTAA
1 TAT-TTTAA
812583 TA
1 TA
812585 AATTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 6 0.20
8 18 0.60
9 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TATTTTAA
Found at i:812564 original size:15 final size:16
Alignment explanation
Indices: 812546--812584 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
812536 TTTTTTTTAT
812546 TTTAATATTTT-AATA
1 TTTAATATTTTAAATA
*
812561 TTTAAAATTTTAAAATA
1 TTTAATATTTT-AAATA
812578 TTTAATA
1 TTTAATA
812585 AATTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
17 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATATTTTAAATA
Found at i:813993 original size:13 final size:13
Alignment explanation
Indices: 813975--813999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
813965 CATAAAGTGT
813975 TGTATCGATACAA
1 TGTATCGATACAA
813988 TGTATCGATACA
1 TGTATCGATACA
814000 TATATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:814064 original size:13 final size:13
Alignment explanation
Indices: 814046--814070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814036 TGCCAAAAAA
814046 TGTATCGATACAT
1 TGTATCGATACAT
814059 TGTATCGATACA
1 TGTATCGATACA
814071 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:814137 original size:52 final size:52
Alignment explanation
Indices: 814079--814207 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
814069 CACTGATCTT
*
814079 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
814131 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
814183 TGTATCGATACATACAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
814208 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:823689 original size:28 final size:28
Alignment explanation
Indices: 823590--824497 Score: 931
Period size: 28 Copynumber: 31.6 Consensus size: 28
823580 AAAAAAAAGG
* * *
823590 TGCCACTAACTTGTGTGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
823618 GTTGCCACCGACTTGTGTGGGCTTTGTAAGGCTA
1 --TGCCACTGAC-T-TGTGGGCTTTGAAATG--A
* * *
823652 TGCCATTGACTTGTGGGTTTTGAAATGT
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
823680 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* **
823708 TGCCGCTGACTTGTAAGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
823736 TGCCCCTGACTTGTAGGCTTTGAAATAA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
823764 TGCCACTGACTTGTGGGCTTTTAAATAA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
823792 TGCCACTGACTTGTGGGCTTCTAAAAAAAAGG
1 TGCCACTGACTTGTGGGCTT-T---GAAATGA
* * *
823824 TGCCACTAACTTGTGTGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
823852 GTTACCACCGACTTGTGTGGGCTTTGAAAGGGTA
1 --TGCCACTGAC-T-TGTGGGCTTTGAAA-TG-A
* * *
823886 TGCCATTGACTTGTGGGTTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
823914 TGCCACTGACTTATGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
823942 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
823970 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
823998 TGTCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
824026 TGTCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * * *
824054 TACCACTCATTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
824082 TGCCACTAACTTATGGGCTTTGAAATGG
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
824110 TGCCACTAACTTGTGGGCTTTGAAACGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
824138 TGCCACTGACTTGTAGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
824166 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
824194 TGCCACTGACTTGTGAGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
824222 TGCCACTGATTTATGGACTTTGAAA-GAA
1 TGCCACTGACTTGTGGGCTTTGAAATG-A
824250 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
824278 TGCCACTAACTTATGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
824306 TGCCACTGACTTGTGGGCTTTGAAATGT
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
824334 TGCCACCGACTTATGGGATTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
824362 TGCCACTAACTTGTGAGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
824390 GTTGCCACCGACTTGTGTGAACTTTGAATAT-A
1 --TGCCACTGACTTGTG-G-GCTTTGAA-ATGA
* *
824422 GTGCCACTGACTTGTGGGCTTTGAAAAAGG
1 -TGCCACTGACTTGTGGGCTTTG-AAATGA
* * *
824452 TGCCACTAACTTATGGGGTTTAGAAGA-GAA
1 TGCCACTGACTTGTGGGCTTT-GAA-ATG-A
*
824482 TGTCACTGACTTGTGG
1 TGCCACTGACTTGTGG
824498 ACTTAAAAAG
Statistics
Matches: 742, Mismatches: 110, Indels: 52
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.00
28 545 0.73
29 31 0.04
30 72 0.10
31 19 0.03
32 70 0.09
33 2 0.00
34 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAATGA
Found at i:823730 original size:56 final size:56
Alignment explanation
Indices: 823585--824680 Score: 936
Period size: 56 Copynumber: 19.2 Consensus size: 56
823575 TTTAAAAAAA
* * * *
823585 AAAGG-TGCCACTAACTTGTGTGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGA--TGCCACTGAC-T-TGTGGGCTTTG
* * * *
823644 TAAGGCTATGCCATTGACTTGTGGGTTTTGAAATGTTGCCACTGACTTGTGGGCTTTG
1 AAAGG--ATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* ** * *
823702 AAAGGATGCCGCTGACTTGTAAGCTTTGAAATGATGCCCCTGACTTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
** * * *
823758 AAATAATGCCACTGACTTGTGGGCTTTTAAATAATGCCACTGACTTGTGGGCTTCTAAAAA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTT-T----G
* * * * *
823819 AAAGG-TGCCACTAACTTGTGTGCTTTGAAAAGAGTTACCACCGACTTGTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGA--TGCCACTGAC-T-TGTGGGCTTTG
* * * *
823878 AAAGGGTATGCCATTGACTTGTGGGTTTTGAAAGGATGCCACTGACTTATGGGCTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* *
823936 AAATGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * *
823992 AAAGGATGTCACTGACTTGTGGGCTTTGAAAGGATGTCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * * * * * *
824048 AAAAGATACCACTCATTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * *
824104 AAATGG-TGCCACTAACTTGTGGGCTTTGAAACGATGCCACTGACTTGTAGGCTTTG
1 AAA-GGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
*
824160 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * * *
824216 AAATGATGCCACTGATTTATGGACTTTGAAA-GAATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATG-ATGCCACTGACTTGTGGGCTTTG
* * *
824272 AAATGATGCCACTAACTTATGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * * * * * *
824328 AAATGTTGCCACCGACTTATGGGATTTGAAATGATGCCACTAACTTGTGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * *
824384 AAAAGAGTTGCCACCGACTTGTGTGAACTTTGAATAT-AGTGCCACTGACTTGTGGGCTTTG
1 -AAAG-GATGCCACTGACTTGTG-G-GCTTTGAA-ATGA-TGCCACTGACTTGTGGGCTTTG
* * * * * **
824445 AAAAAGG-TGCCACTAACTTATGGGGTTTAGAAGA-GAATGTCACTGACTTGTGGACTTAA
1 --AAAGGATGCCACTGACTTGTGGGCTTT-GAA-ATG-ATGCCACTGACTTGTGGGCTTTG
* * * * * * * * * * *
824504 AAAGGGTGCCAC-GAAATTATGGAC-TTAAAAGGGTGCCAC-AACGTTATGGACTTTA
1 AAAGGATGCCACTG-ACTTGTGGGCTTTGAAATGATGCCACTGAC-TTGTGGGCTTTG
* * * * * * * * * *
824559 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
* * * * * * * * * *
824615 AAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
*
824670 AAAGGGTGCCA
1 AAAGGATGCCA
824681 TAGAGTTGTG
Statistics
Matches: 874, Mismatches: 127, Indels: 76
0.81 0.12 0.07
Matches are distributed among these distances:
54 2 0.00
55 78 0.09
56 529 0.61
57 15 0.02
58 60 0.07
59 33 0.04
60 62 0.07
61 26 0.03
62 58 0.07
63 2 0.00
64 9 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (56 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
Found at i:824559 original size:28 final size:27
Alignment explanation
Indices: 824492--824782 Score: 284
Period size: 28 Copynumber: 10.6 Consensus size: 27
824482 TGTCACTGAC
* *
824492 TTGTGGACTTAAAAAGGGTGCCACGAAA
1 TTGTGGACTTTAAAAGGGTGCCAC-AAG
*
824520 TTATGGAC-TTAAAAGGGTGCCACAACG
1 TTGTGGACTTTAAAAGGGTGCCACAA-G
* * *
824547 TTATGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCAC-AAG
*
824575 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCAC-AAG
824603 TTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACA-AG
*
824631 TTGTGGAC-TTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACA-AG
*
824658 TTGTGGACTTTAAAAGGGTGCCATAGAG
1 TTGTGGACTTTAAAAGGGTGCCACA-AG
* * * *
824686 TTGTGAAC-TTCAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCAC-AAG
** * *
824713 TCATAGACTTTAAAAGGGTGCCATAGAG
1 TTGTGGACTTTAAAAGGGTGCCACA-AG
* * *
824741 TTGTGGAC-TTAAAAGGATGCCACGGAT
1 TTGTGGACTTTAAAAGGGTGCCAC-AAG
824768 TTGTGGACTTTAAAA
1 TTGTGGACTTTAAAA
824783 AGAAATGCCA
Statistics
Matches: 222, Mismatches: 31, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
26 2 0.01
27 88 0.40
28 131 0.59
29 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (27 bp):
TTGTGGACTTTAAAAGGGTGCCACAAG
Found at i:824569 original size:55 final size:54
Alignment explanation
Indices: 824492--824782 Score: 300
Period size: 55 Copynumber: 5.3 Consensus size: 54
824482 TGTCACTGAC
* * *
824492 TTGTGGACTTAAAAAGGGTGCCACGAAATTATGGACTTAAAAGGGTGCCACAACG
1 TTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAA-G
* * * *
824547 TTATGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAGGGTGCCAC-AAG
*
824603 TTGTGGACTTTAAAAGGGTGCCAC-AGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCACA-AG
* * * * *
824658 TTGTGGACTTTAAAAGGGTGCCA-TAGAGTTGTGAACTTCAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCAC-AAG
** * * * * *
824713 TCATAGACTTTAAAAGGGTGCCA-TAGAGTTGTGGACTTAAAAGGATGCCACGGAT
1 TTGTGGACTTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCAC-AAG
824768 TTGTGGACTTTAAAA
1 TTGTGGACTTTAAAA
824783 AGAAATGCCA
Statistics
Matches: 206, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
55 157 0.76
56 48 0.23
57 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (54 bp):
TTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAAG
Found at i:824590 original size:83 final size:83
Alignment explanation
Indices: 824433--824782 Score: 350
Period size: 83 Copynumber: 4.2 Consensus size: 83
824423 TGCCACTGAC
* * * ** * * * *
824433 TTGTGGGCTTTGAAAAAGGTGCCACTAACTTATGGGGTTTAGAAGAGAATGTCACTGACTTGTGG
1 TTGTGGACTTT-AAAAGGGTGCCAC-AAGTTATGGACTTTA-AA-AGGATGCCACAGAGTTGTGG
* *
824498 ACTTAAAAAGGGTGCCACGAAA
62 ACTTTAAAAGGGTGCCACGAAG
* *
824520 TTATGGAC-TTAAAAGGGTGCCACAACGTTATGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
1 TTGTGGACTTTAAAAGGGTGCCACAA-GTTATGGACTTTAAAAGGATGCCACAGAGTTGTGGACT
*
824584 TTAAAAGGGTGCCACGGAG
65 TTAAAAGGGTGCCACGAAG
*
824603 TTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACT
1 TTGTGGACTTTAAAAGGGTGCCACA-AGTTATGGACTTTAAAAGGATGCCACAGAGTTGTGGACT
*
824667 TTAAAAGGGTGCCA-TAGAG
65 TTAAAAGGGTGCCACGA-AG
* * * * * * * *
824686 TTGTGAAC-TTCAAAGGATGCCACGGAGTCATAGACTTTAAAAGGGTGCCATAGAGTTGTGGAC-
1 TTGTGGACTTTAAAAGGGTGCCAC-AAGTTATGGACTTTAAAAGGATGCCACAGAGTTGTGGACT
* * *
824749 TTAAAAGGATGCCACGGAT
65 TTAAAAGGGTGCCACGAAG
824768 TTGTGGACTTTAAAA
1 TTGTGGACTTTAAAA
824783 AGAAATGCCA
Statistics
Matches: 222, Mismatches: 33, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
82 41 0.18
83 122 0.55
84 28 0.13
85 23 0.10
86 2 0.01
87 6 0.03
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (83 bp):
TTGTGGACTTTAAAAGGGTGCCACAAGTTATGGACTTTAAAAGGATGCCACAGAGTTGTGGACTT
TAAAAGGGTGCCACGAAG
Found at i:834167 original size:79 final size:79
Alignment explanation
Indices: 834036--834188 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 79
834026 ATTCATGTTA
* * * * *
834036 TTATTTCCAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
1 TTATTTCCAAAACACCAACTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCCAAAGGGATA
834101 CTCCAACCCTAGTT
66 CTCCAACCCTAGTT
* * * * *
834115 TTATTTTCAAAACACTAACTTTTCATAATCGGAGATACTCCAACCTCGTTATTTTCAAAGGGATA
1 TTATTTCCAAAACACCAACTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCCAAAGGGATA
834180 CTCCAACCC
66 CTCCAACCC
834189 CGTTATTTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (79 bp):
TTATTTCCAAAACACCAACTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCCAAAGGGATA
CTCCAACCCTAGTT
Found at i:834192 original size:28 final size:28
Alignment explanation
Indices: 834148--834218 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
834138 CATAATCGGA
* *
834148 GATACTCCAACCTCGTTATTTTCAAAGG
1 GATACTCCAACCCCGTTATTTCCAAAGG
*
834176 GATACTCCAACCCCGTTATTTCCAAGGG
1 GATACTCCAACCCCGTTATTTCCAAAGG
*
834204 GATACTCTAACCCCG
1 GATACTCCAACCCCG
834219 GTTTTATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCCAAAGG
Found at i:834196 original size:107 final size:107
Alignment explanation
Indices: 834067--834261 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 107
834057 TTTACAATCG
* *
834067 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTAGTTTTATTT-TCAAAACA-C
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCT-AAAACATC
834130 TAACTTTT-CATAATCG-GAGATACTCCAACCTCGTTATTTTCAAA
65 -AA-TTTTCCATAATCGAG-GATACTCCAACCTCGTTATTTTCAAA
* *
834174 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCA
834239 ATTTTCCATAATCGAGGATACTC
66 ATTTTCCATAATCGAGGATACTC
834262 TAACTCCGAT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
106 4 0.05
107 73 0.91
108 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCA
ATTTTCCATAATCGAGGATACTCCAACCTCGTTATTTTCAAA
Found at i:834310 original size:51 final size:51
Alignment explanation
Indices: 834203--834317 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
834193 ATTTCCAAGG
* *
834203 GGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGA
1 GGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGA
* **
834254 GGATACTCTAACTCCGATTTTATTT-TCAAAACATCAATTTTTTACAATC-A
1 GGATACTCTAACCCCGATTTTATTTCT-AAAACATCAATTTTCCACAATCGA
*
834304 GAGATACTCCAACC
1 G-GATACTCTAACC
834318 TCATTATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 3 0.05
51 52 0.95
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (51 bp):
GGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGA
Found at i:834352 original size:28 final size:29
Alignment explanation
Indices: 834306--834374 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
834296 TACAATCAGA
*
834306 GATACTCCAA-CCTCATTATTTCAT-CGGG
1 GATACTCCAACCCTCATTATTT-ATGAGGG
* *
834334 GATACTCCAACCCT-GTTATTTTTGAGGG
1 GATACTCCAACCCTCATTATTTATGAGGG
834362 GATACTCCAACCC
1 GATACTCCAACCC
834375 CGTTGTTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 32 0.89
29 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
GATACTCCAACCCTCATTATTTATGAGGG
Found at i:836358 original size:13 final size:13
Alignment explanation
Indices: 836340--836365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
836330 CACTCCCAGA
836340 TGTATCGATACAT
1 TGTATCGATACAT
836353 TGTATCGATACAT
1 TGTATCGATACAT
836366 GCTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:836374 original size:19 final size:19
Alignment explanation
Indices: 836349--836405 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
836339 ATGTATCGAT
836349 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
836368 TCATTGTATCGATACACGG
1 ACATTGTATCGATACATGC
836387 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
836406 AAACTGCCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:836473 original size:13 final size:13
Alignment explanation
Indices: 836455--836503 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
836445 CATGGGACAA
836455 TGTATCGATACAT
1 TGTATCGATACAT
836468 TGTATCGATACA-
1 TGTATCGATACAT
*
836480 TG-A-GGA-A-AT
1 TGTATCGATACAT
836489 TGTATCGATACAT
1 TGTATCGATACAT
836502 TG
1 TG
836504 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:836498 original size:34 final size:33
Alignment explanation
Indices: 836434--836503 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
836424 CAATCACTTT
836434 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGACAATGTATCGATACA
836467 TTGTATCGATACATGAGGA-AATTGTATCGATACA
1 TTGTATCGATACATG-GGACAA-TGTATCGATACA
836501 TTG
1 TTG
836504 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGGACAATGTATCGATACA
Found at i:838103 original size:12 final size:12
Alignment explanation
Indices: 838083--838107 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
838073 CAATGAAGAG
838083 GAAGATGATGAT
1 GAAGATGATGAT
838095 GAAGATGATGAT
1 GAAGATGATGAT
838107 G
1 G
838108 GTGATTCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:842643 original size:13 final size:13
Alignment explanation
Indices: 842625--842653 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
842615 ACAACATTCC
842625 TTGTATCGATACA
1 TTGTATCGATACA
842638 TTGTATCGATACA
1 TTGTATCGATACA
842651 TTG
1 TTG
842654 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:843048 original size:22 final size:21
Alignment explanation
Indices: 843023--843092 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
843013 TTATTTGACA
843023 AAGGGGGAGAAATTCTTTGATT
1 AAGGGGGAGAAATTCTTT-ATT
843045 AAGGGGGAG-AATT-TTTA--
1 AAGGGGGAGAAATTCTTTATT
* *
843062 AAAGGAGAGAAATTCTTTAATT
1 AAGGGGGAGAAATTCTTT-ATT
843084 AAGGGGGAG
1 AAGGGGGAG
843093 TAAAACGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 7 0.18
18 4 0.10
19 4 0.10
20 4 0.10
21 4 0.10
22 16 0.41
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (21 bp):
AAGGGGGAGAAATTCTTTATT
Found at i:843635 original size:13 final size:13
Alignment explanation
Indices: 843617--843642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
843607 CACTCCCAGA
843617 TGTATCGATACAT
1 TGTATCGATACAT
843630 TGTATCGATACAT
1 TGTATCGATACAT
843643 GCTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:843651 original size:19 final size:19
Alignment explanation
Indices: 843626--843682 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
843616 ATGTATCGAT
843626 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
843645 TCATTGTATCGATACACGG
1 ACATTGTATCGATACATGC
843664 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
843683 AAACTGCCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:843750 original size:13 final size:13
Alignment explanation
Indices: 843732--843780 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
843722 CATGGGACAA
843732 TGTATCGATACAT
1 TGTATCGATACAT
843745 TGTATCGATACA-
1 TGTATCGATACAT
*
843757 TG-A-GGA-A-AT
1 TGTATCGATACAT
843766 TGTATCGATACAT
1 TGTATCGATACAT
843779 TG
1 TG
843781 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:843775 original size:34 final size:33
Alignment explanation
Indices: 843711--843780 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
843701 CAATCACTTT
843711 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGACAATGTATCGATACA
843744 TTGTATCGATACATGAGGA-AATTGTATCGATACA
1 TTGTATCGATACATG-GGACAA-TGTATCGATACA
843778 TTG
1 TTG
843781 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGGACAATGTATCGATACA
Found at i:844954 original size:32 final size:33
Alignment explanation
Indices: 844894--844958 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
844884 CACTCCTAGA
*
844894 TGTATCGATACATACTGCTTTGTATCGATACAT
1 TGTATCGATACATACTGCATTGTATCGATACAT
* *
844927 TGTATTGATACATGCT-CATTGTATCGATACAT
1 TGTATCGATACATACTGCATTGTATCGATACAT
844959 GGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATACTGCATTGTATCGATACAT
Found at i:845047 original size:13 final size:13
Alignment explanation
Indices: 845029--845056 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
845019 CATGGGACAA
845029 TGTATCGATACAT
1 TGTATCGATACAT
845042 TGTATCGATACAT
1 TGTATCGATACAT
845055 TG
1 TG
845057 CTTGTAACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:846519 original size:45 final size:48
Alignment explanation
Indices: 846417--846525 Score: 143
Period size: 49 Copynumber: 2.3 Consensus size: 48
846407 TAATGTGCCA
* *
846417 ATTCAAGGCTAGCGACATTGGGCTAAGGGAAAAGTGGACTAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAA-GGAAAAGTGGACTAATATGCTG
* * *
846466 ATTCAAGGCCAGCGACATTGGGCTAA-TAAAGGT-G-CTAATATGTTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGAAAAGTGGACTAATATGCTG
846511 ATTCAAGGCCAGCGA
1 ATTCAAGGCCAGCGA
846526 TATCGGAGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 24 0.44
46 1 0.02
47 5 0.09
49 25 0.45
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (48 bp):
ATTCAAGGCCAGCGACATTGGGCTAAGGAAAAGTGGACTAATATGCTG
Found at i:846702 original size:28 final size:28
Alignment explanation
Indices: 846602--847694 Score: 1235
Period size: 28 Copynumber: 38.6 Consensus size: 28
846592 TAAAAAAAGG
* * *
846602 TGCCACTAACTTGTGTGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
846630 GTTGCCACCGACATGTGGGGGCTTTGAAAGGGTA
1 --TGCCACTGAC-T-TGTGGGCTTTGAAA-TG-A
** * *
846664 TGCCTTTGACTTATGGGTTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
846692 TGCCACCGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
846720 TGCCACTGACTTGTAGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
846748 TGCGACTGACTTGTGGGCTTTGAAAT-A
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
846775 GTGCCACTAACTTGTTGGCTTTGAAATGG
1 -TGCCACTGACTTGTGGGCTTTGAAATGA
*
846804 TGCCATTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
846832 TGCCACTGACTTATGGGCTTTCAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * * * *
846860 TACCACTAACCTGTCGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
846888 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
846916 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
846944 TGCCACTGACTTATGGGCTTTGAAAT-A
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
846971 GTGCCACTAACTTGTGGGCTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847000 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847028 TGCTATTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
847056 TGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847084 TGCCATTGACTTGTGGGCTTTGAAATGG
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847112 CGTCATTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
847140 TGCCACCT-ACTTGTGGGCTTTGAAATGA
1 TGCCA-CTGACTTGTGGGCTTTGAAATGA
* *
847168 TGCCATTGACTT-TGGGGCTTTGAAAGGA
1 TGCCACTGACTTGT-GGGCTTTGAAATGA
* *
847196 TGCCCCTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847224 TACCATTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847252 TGCCACTGACTTATGGGCCTTGAAATGG
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
847280 TGCCATTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847308 TGCCACTTACTTATGGCCTTTGAAA-GAA
1 TGCCACTGACTTGTGGGCTTTGAAATG-A
* *
847336 TGCCACTTACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847364 TGCCATTGACTTGTGGGCTTTGAAATGG
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847392 TGCCACTAACTTGTGGTCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
*
847420 TGCCACTGGCTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847448 TGCCACTAACTTGTGGGTTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847476 TGCCACTAACTTGTGGGCTTTAAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* *
847504 TGCCACTAACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
847532 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847560 TGCCACTAACTT-TTGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATGA
* * *
847587 GTTGCCACCGACTTGTGTGGACTTTAAAAAGA
1 --TGCCACTGACTTGTG-GG-CTTTGAAATGA
* *
847619 GTGTCACTGACTTGTGGGCTTTGAAAATGG
1 -TGCCACTGACTTGTGGGCTTTG-AAATGA
* * **
847649 TGCCACTAACTTTTGGGCTTTAGAAGGGAA
1 TGCCACTGACTTGTGGGCTTT-GAAATG-A
847679 TGCCACTGACTTGTGG
1 TGCCACTGACTTGTGG
847695 ACTTAAAAAG
Statistics
Matches: 909, Mismatches: 132, Indels: 44
0.84 0.12 0.04
Matches are distributed among these distances:
27 18 0.02
28 762 0.84
29 40 0.04
30 41 0.05
31 17 0.02
32 29 0.03
33 1 0.00
34 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAATGA
Found at i:846788 original size:84 final size:84
Alignment explanation
Indices: 846597--847987 Score: 1249
Period size: 84 Copynumber: 16.5 Consensus size: 84
846587 CTTTTTAAAA
* * * ** *
846597 AAAGG-TGCCACTAACTTGTGTGCTTTGAAAAGAGTTGCCACCGACATGTGGGGGCTTTGAAAGG
1 AAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTAAC-T-TGTGGGCTTTGAAA-G
** * *
846661 GTATGCCTTTGACTTATGGGTTTTG
61 G-ATGCCACTGACTTGTGGGCTTTG
* * * * *
846686 AAATGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAATGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
*
846751 GACTGACTTGTGGGCTTTG
66 CACTGACTTGTGGGCTTTG
* * * * * *
846770 AAA-TAGTGCCACTAACTTGTTGGCTTTGAAATGG-TGCCATTGACTTGTGGGCTTTGAAATGAT
1 AAAGGA-TGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTAACTTGTGGGCTTTGAAAGGAT
* *
846833 GCCACTGACTTATGGGCTTTC
64 GCCACTGACTTGTGGGCTTTG
* * * *
846854 AAAGGATACCACTAACCTGTCGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
846919 CACTGACTTGTGGGCTTTG
66 CACTGACTTGTGGGCTTTG
* *
846938 AAAGGATGCCACTGACTTATGGGCTTTGAAA-TAGTGCCACTAACTTGTGGGCTTTGAAAGGATG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGGATG
*
847002 CCACTAACTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * * *
847022 AAAGGATGCTATTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
*
847087 CATTGACTTGTGGGCTTTG
66 CACTGACTTGTGGGCTTTG
* * * * *
847106 AAATGG-CGTCATTGACTTGTGGGCTTTGAAATGATGCCACCT-ACTTGTGGGCTTTGAAATGAT
1 AAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCA-CTAACTTGTGGGCTTTGAAAGGAT
*
847169 GCCATTGACTT-TGGGGCTTTG
64 GCCACTGACTTGT-GGGCTTTG
* * * *
847190 AAAGGATGCCCCTGACTTGTGGGCTTTGAAAGGATACCATTGACTTGTGGGCTTTGAAAGGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
* *
847255 CACTGACTTATGGGCCTTG
66 CACTGACTTGTGGGCTTTG
* * * * * *
847274 AAATGG-TGCCATTGACTTGTGGGCTTTGAAATGATGCCACTTACTTATGGCCTTTGAAAGAATG
1 AAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
*
847338 CCACTTACTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * *
847358 AAAGGATGCCATTGACTTGTGGGCTTTGAAATGG-TGCCACTAACTTGTGGTCTTTGAAATGATG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTAACTTGTGGGCTTTGAAAGGATG
*
847422 CCACTGGCTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * * *
847442 AAATGATGCCACTAACTTGTGGGTTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAATGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
*
847507 CACTAACTTGTGGGCTTTG
66 CACTGACTTGTGGGCTTTG
* * * *
847526 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTAACTT-TTGGCTTTGAAAAGAGTT
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG-AAAG-GAT
* *
847590 GCCACCGACTTGTGTGGACTTTA
64 GCCACTGACTTGTG-GG-CTTTG
* * * *
847613 AAAAGAGTGTCACTGACTTGTGGGCTTTGAAAATGG-TGCCACTAACTTTTGGGCTTTAGAAGGG
1 AAAGGA-TGCCACTGACTTGTGGGCTTTG-AAA-GGATGCCACTAACTTGTGGGCTTT-GAAAGG
* **
847677 AATGCCACTGACTTGTGGACTTAA
62 -ATGCCACTGACTTGTGGGCTTTG
* * * * * * * * * * *
847701 AAAGGGTTCCAC-GAAGTTGTGGAC-TTAAAAGGGTGCCACAAAGTTGTGGACTTTAAAAGGGTG
1 AAAGGATGCCACTG-ACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
* * * ** *
847764 CCACAGAGTTGTTGAATTTA
65 CCACTGACTTGTGGGCTTTG
* * * * * ** * * *
847784 AAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGG-TG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT-GAAAGGATG
* * * * *
847847 CTACAGAGTTGTGGAC-TTA
65 CCACTGACTTGTGGGCTTTG
* * * * * * *
847866 AAAGGATGCCACAGAGTTGTGGACTCT-AAAGGGATGCCAC-AGAGTTGTGGACTCT-AAAGGGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTA-ACTTGTGGGCTTTGAAA-GGA
* * * *
847928 TGCCACGGAGTTGTGGAC-TTA
63 TGCCACTGACTTGTGGGCTTTG
* * * *
847949 AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
847988 AGAGTTATGG
Statistics
Matches: 1123, Mismatches: 142, Indels: 81
0.83 0.11 0.06
Matches are distributed among these distances:
81 3 0.00
82 41 0.04
83 166 0.15
84 717 0.64
85 47 0.04
86 17 0.02
87 23 0.02
88 39 0.03
89 25 0.02
90 44 0.04
91 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (84 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
CACTGACTTGTGGGCTTTG
Found at i:847720 original size:28 final size:27
Alignment explanation
Indices: 847679--847998 Score: 394
Period size: 28 Copynumber: 11.6 Consensus size: 27
847669 TAGAAGGGAA
* *
847679 TGCCACTGACTTGTGGACTTAAAAAGGG
1 TGCCACAGAGTTGTGGACTT-AAAAGGG
*
847707 TTCCAC-GAAGTTGTGGACTTAAAAGGG
1 TGCCACAG-AGTTGTGGACTTAAAAGGG
*
847734 TGCCACAAAGTTGTGGACTTTAAAAGGG
1 TGCCACAGAGTTGTGGAC-TTAAAAGGG
* *
847762 TGCCACAGAGTTGTTGAATTTAAAAGGG
1 TGCCACAGAGTTG-TGGACTTAAAAGGG
*
847790 TGCCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACAGAGTTGTGGACTTAAAAGGG
* *
847817 TGCCACGGAGTTGTGGACTTTAAAAAGG
1 TGCCACAGAGTTGTGGAC-TTAAAAGGG
* *
847845 TGCTACAGAGTTGTGGACTTAAAAGGA
1 TGCCACAGAGTTGTGGACTTAAAAGGG
847872 TGCCACAGAGTTGTGGACTCT-AAAGGG
1 TGCCACAGAGTTGTGGACT-TAAAAGGG
847899 ATGCCACAGAGTTGTGGACTCT-AAAGGG
1 -TGCCACAGAGTTGTGGACT-TAAAAGGG
* *
847927 ATGCCACGGAGTTGTGGACTTAAAAGGA
1 -TGCCACAGAGTTGTGGACTTAAAAGGG
* *
847955 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACAGAGTTGTGGACTTAAAAGGG
*
847982 TGCCACAGAGTTATGGA
1 TGCCACAGAGTTGTGGA
847999 TTTTAAGAAG
Statistics
Matches: 261, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
27 124 0.48
28 134 0.51
29 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:847750 original size:55 final size:54
Alignment explanation
Indices: 847679--847987 Score: 365
Period size: 55 Copynumber: 5.6 Consensus size: 54
847669 TAGAAGGGAA
* * *
847679 TGCCACTGACTTGTGGACTTAAAAAGGGTTCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTT-AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGG
* * *
847734 TGCCACAAAGTTGTGGACTTTAAAAGGGTGCCAC-AGAGTTGTTGAATTTAAAAGGG
1 TGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGA-AGTTG-TGGACTTAAAAGGG
* * *
847790 TGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAGGG
* *
847845 TGCTACAGAGTTGTGGACTTAAAAGGATGCCAC-AGAGTTGTGGACTCT-AAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACT-TAAAAGGG
* *
847899 ATGCCACAGAGTTGTGGACTCT-AAAGGGATGCCACGGAGTTGTGGACTTAAAAGGA
1 -TGCCACAGAGTTGTGGACT-TAAAAGGG-TGCCACGAAGTTGTGGACTTAAAAGGG
* *
847955 TGCCACGGAGTTGTGGACTTAAAAGGATGCCAC
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC
847988 AGAGTTATGG
Statistics
Matches: 220, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
54 17 0.08
55 149 0.68
56 54 0.25
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (54 bp):
TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:847802 original size:83 final size:82
Alignment explanation
Indices: 847679--848004 Score: 431
Period size: 83 Copynumber: 3.9 Consensus size: 82
847669 TAGAAGGGAA
* * * * * *
847679 TGCCACTGACTTGTGGACTTAAAAAGGGTTCCAC-GAAGTTGTGGACTTAAAAGGGTGCCACAAA
1 TGCCACAGAGTTGTGGACTT-AAAAGGATGCCACAG-AGTTGTGGACTTAAAAGGATGCCACAGA
847743 GTTGTGGACTTTAAAAGGG
64 GTTGTGGACTTTAAAAGGG
* * * *
847762 TGCCACAGAGTTGTTGAATTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAG
1 TGCCACAGAGTTG-TGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAG
*
847827 TTGTGGACTTTAAAAAGG
65 TTGTGGACTTTAAAAGGG
* *
847845 TGCTACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTCTAAAGGGATGCCACAGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACT-TAAAAGGATGCCACAGAG
*
847910 TTGTGGACTCT-AAAGGG
65 TTGTGGACTTTAAAAGGG
* *
847927 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 -TGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAG
* *
847992 TTATGGATTTTAA
65 TTGTGGACTTTAA
848005 GAAGAAATGC
Statistics
Matches: 214, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
82 60 0.28
83 148 0.69
84 6 0.03
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (82 bp):
TGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGT
TGTGGACTTTAAAAGGG
Found at i:849376 original size:21 final size:22
Alignment explanation
Indices: 849330--849384 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
849320 CATGTCCTCA
* *
849330 TTTTTTATTTTTGTTGTTCCCT
1 TTTTTTATTTTTCTTGTTCACT
849352 TTTTTTATTTTTCTT-TTGCACT
1 TTTTTTATTTTTCTTGTT-CACT
*
849374 TTTTTTCTTTT
1 TTTTTTATTTT
849385 CATTTTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTTTATTTTTCTTGTTCACT
Found at i:849391 original size:15 final size:16
Alignment explanation
Indices: 849359--849402 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
849349 CCTTTTTTTA
849359 TTTTTCTTTTGCACTT
1 TTTTTCTTTTGCACTT
849375 TTTTTCTTTT-CA-TT
1 TTTTTCTTTTGCACTT
849389 TTTTGTGCTTTTGC
1 TTTT-T-CTTTTGC
849403 TTTCGACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 3 0.12
16 15 0.60
17 1 0.04
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (16 bp):
TTTTTCTTTTGCACTT
Found at i:859040 original size:17 final size:17
Alignment explanation
Indices: 859010--859049 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
859000 ATCGGGTTGG
* *
859010 AAAATCCCCGGAGATGA
1 AAAATTCCCAGAGATGA
859027 AAAATTCCCAGAGATGA
1 AAAATTCCCAGAGATGA
859044 AAAATT
1 AAAATT
859050 TGGTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.17
Consensus pattern (17 bp):
AAAATTCCCAGAGATGA
Found at i:859187 original size:79 final size:78
Alignment explanation
Indices: 859033--859280 Score: 252
Period size: 80 Copynumber: 3.1 Consensus size: 78
859023 ATGAAAAATT
* * *
859033 CCCAGAGATGAAAAATTTGGTATTTTGGAAGT-AAAATGGATTAGAGTATCCCCTC-AATGATGG
1 CCCAGAGATGAAAAATTTGGTGTTTTTGAAGTAAAAACGG-TTAGAGTATCCCCTCGAA-GATGG
*
859096 TGGGGTTAGAGTATC
64 TGGGGTTGGAGTATC
*
859111 CCCA-AGATGAAAAATTTGGTGTTTTTGAAGTAAAAACGGTCTATGAGTATCCCGTCGAAGATGG
1 CCCAGAGATGAAAAATTTGGTGTTTTTGAAGTAAAAACGGT-TA-GAGTATCCCCTCGAAGATGG
859175 TGGGGTTGGAGTATC
64 TGGGGTTGGAGTATC
* * ** * * * * *
859190 CTCAGAAATGAAAAATTAAGTG-ATTTGTAAGTAAAAACAAGGTTGGAGTATCCCTTCGGAGATA
1 CCCAGAGATGAAAAATTTGGTGTTTTTG-AAGTAAAAAC--GGTTAGAGTATCCCCTCGAAGATG
*
859254 GTGAGGTTGGAGTATC
63 GTGGGGTTGGAGTATC
* *
859270 CCTAAAGATGA
1 CCCAGAGATGA
859281 CAATTTAATT
Statistics
Matches: 143, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
77 26 0.18
78 12 0.08
79 37 0.26
80 64 0.45
81 1 0.01
82 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (78 bp):
CCCAGAGATGAAAAATTTGGTGTTTTTGAAGTAAAAACGGTTAGAGTATCCCCTCGAAGATGGTG
GGGTTGGAGTATC
Found at i:860725 original size:19 final size:19
Alignment explanation
Indices: 860677--860735 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
860667 AAAAAAAAAG
860677 AAAAATGCATGGTGATGAC
1 AAAAATGCATGGTGATGAC
*
860696 AAAATATGCATGATGATGAC
1 AAAA-ATGCATGGTGATGAC
860716 AAAAATGCATGGTGATGAC
1 AAAAATGCATGGTGATGAC
860735 A
1 A
860736 TTTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 19 0.51
20 18 0.49
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (19 bp):
AAAAATGCATGGTGATGAC
Found at i:861785 original size:20 final size:21
Alignment explanation
Indices: 861750--861789 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
861740 AATAGTCAAA
*
861750 ATAGCCTATATGTATCGATAC
1 ATAGCATATATGTATCGATAC
861771 ATAGCATAT-TGTATCGATA
1 ATAGCATATATGTATCGATA
861790 GTTCTGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
ATAGCATATATGTATCGATAC
Found at i:861933 original size:21 final size:20
Alignment explanation
Indices: 861903--861953 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
861893 GTCAAGGCTT
* *
861903 GTATCAATACAATCACACTAG
1 GTATCGATACAA-CACACTAA
* *
861924 GTATCGATACCACACCCTAA
1 GTATCGATACAACACACTAA
861944 GTATCGATAC
1 GTATCGATAC
861954 CAAGCCTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (20 bp):
GTATCGATACAACACACTAA
Found at i:861970 original size:21 final size:21
Alignment explanation
Indices: 861944--861992 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
861934 CACACCCTAA
861944 GTATCGATACCAAGCCTTCAT
1 GTATCGATACCAAGCCTTCAT
*
861965 GTATCGATACTAAGCCTTCAT
1 GTATCGATACCAAGCCTTCAT
861986 GTATCGA
1 GTATCGA
861993 CACATTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACCAAGCCTTCAT
Found at i:866513 original size:17 final size:17
Alignment explanation
Indices: 866491--866526 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
866481 ACTCTAATGC
* *
866491 AAAATAGCACCTATTGA
1 AAAATAACACCCATTGA
866508 AAAATAACACCCATTGA
1 AAAATAACACCCATTGA
866525 AA
1 AA
866527 TTTAGCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.19
Consensus pattern (17 bp):
AAAATAACACCCATTGA
Found at i:866891 original size:21 final size:21
Alignment explanation
Indices: 866865--866933 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
866855 AAACTCGACA
866865 TTGTATCGATACAATATGGCC
1 TTGTATCGATACAATATGGCC
* * *
866886 TTGTATTGATACTATA-GGCA
1 TTGTATCGATACAATATGGCC
*
866906 TTGTATCGATACAGTATGGCC
1 TTGTATCGATACAATATGGCC
866927 TTGTATC
1 TTGTATC
866934 AATATAATGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTATCGATACAATATGGCC
Found at i:869600 original size:189 final size:189
Alignment explanation
Indices: 869280--869625 Score: 604
Period size: 189 Copynumber: 1.8 Consensus size: 189
869270 TGCACTTGCC
* * * *
869280 AAGTGCCAAGTGCCATATAATATAATATTATTAATTATATTAATGCACAAATAGCCTAACCTAGG
1 AAGTGCCAAGTGCCATATAATATAATATTATTAATTATATTAATGCACAAATAACCCAACATAAG
* * *
869345 CAAGTTTTGCACCAAATCTATATGTGTCCTATTTAATATAGGCCTATACTTCATTATATTTAAAC
66 CAAGTTTTGCACCAAATCCACATGTGTCCTATTTAATATAGGCATATACTTCATTATATTTAAAC
869410 AACTTAGCAACTTT-AGTTCTTTTTCTATGTGGGATTTTCATCCCAATTATTATTTTGAA
131 AACTTAGCAACTTTCA-TTCTTTTTCTATGTGGGATTTTCATCCCAATTATTATTTTGAA
869469 AAGTGCCAAGTGCCATATAATATAATATTATTAATTATATTAATGCACAAATAACCCAACATAAG
1 AAGTGCCAAGTGCCATATAATATAATATTATTAATTATATTAATGCACAAATAACCCAACATAAG
*
869534 CAAGTTTTGCATCAAATCCACATGTGTCCTATTTAATATAGGCATATACTTCATTATATTTAAAC
66 CAAGTTTTGCACCAAATCCACATGTGTCCTATTTAATATAGGCATATACTTCATTATATTTAAAC
869599 AACTTAGCAACTTTCATTCTTTTTCTA
131 AACTTAGCAACTTTCATTCTTTTTCTA
869626 CATAGGATTT
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
189 147 0.99
190 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (189 bp):
AAGTGCCAAGTGCCATATAATATAATATTATTAATTATATTAATGCACAAATAACCCAACATAAG
CAAGTTTTGCACCAAATCCACATGTGTCCTATTTAATATAGGCATATACTTCATTATATTTAAAC
AACTTAGCAACTTTCATTCTTTTTCTATGTGGGATTTTCATCCCAATTATTATTTTGAA
Found at i:870644 original size:19 final size:18
Alignment explanation
Indices: 870620--870714 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
870610 ATCCATACAA
870620 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
870639 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
870652 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
870671 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
870684 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
870703 TGTATCGATACA
1 TGTATCGATACA
870715 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 34 0.53
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:870650 original size:32 final size:32
Alignment explanation
Indices: 870605--870722 Score: 218
Period size: 32 Copynumber: 3.7 Consensus size: 32
870595 ATTTCAATGA
*
870605 TTTGTATCCATACAATGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
*
870637 GTTGTATCGATACAATGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
870669 TTTGTATCGATACAATGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
870701 TTTGTATCGATACAATGTATCG
1 TTTGTATCGATACAATGTATCG
870723 CTACGAAGCT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 83 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
TTTGTATCGATACAATGTATCGATACATAAGT
Found at i:870657 original size:13 final size:13
Alignment explanation
Indices: 870639--870695 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
870629 ACATAAGTGT
870639 TGTATCGATACAA
1 TGTATCGATACAA
870652 TGTATCGATACATAA
1 TGTATCGATAC--AA
870667 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
870684 TGTATCGATACA
1 TGTATCGATACA
870696 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:870785 original size:13 final size:13
Alignment explanation
Indices: 870767--870791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
870757 ATTACTCAAA
870767 TGTATCGATACAT
1 TGTATCGATACAT
870780 TGTATCGATACA
1 TGTATCGATACA
870792 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:874115 original size:7 final size:7
Alignment explanation
Indices: 874103--874133 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
874093 AGACTTTTTT
874103 TTTTCCA
1 TTTTCCA
874110 TTTTCCA
1 TTTTCCA
874117 TTTTCCA
1 TTTTCCA
874124 TTTTCCA
1 TTTTCCA
874131 TTT
1 TTT
874134 CAGACTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTCCA
Found at i:874579 original size:32 final size:33
Alignment explanation
Indices: 874504--874622 Score: 107
Period size: 33 Copynumber: 3.6 Consensus size: 33
874494 TTTACTTTTT
* * * * *
874504 AACTTGTTCAGAAAGATACAAATTCGATTCCTT-
1 AACTTGTTTAGAAAGATATAAGTTTGACT-CTTC
874537 AACTTGTTTAGAAAGATATAAGTTTGACTC-TC
1 AACTTGTTTAGAAAGATATAAGTTTGACTCTTC
* * * * *
874569 AACTTATTTAGAATGATACATGTTTGACTCTTT
1 AACTTGTTTAGAAAGATATAAGTTTGACTCTTC
* *
874602 GACTTGTTTAAAAAGATATAA
1 AACTTGTTTAGAAAGATATAA
874623 ACTCGATTCT
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
31 1 0.01
32 27 0.40
33 40 0.59
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (33 bp):
AACTTGTTTAGAAAGATATAAGTTTGACTCTTC
Found at i:874739 original size:97 final size:97
Alignment explanation
Indices: 874584--874759 Score: 246
Period size: 97 Copynumber: 1.8 Consensus size: 97
874574 ATTTAGAATG
* *
874584 ATACATGTTTGACTCTTTGACTTGTTTAAAAAGATATAAACTCGATTCTTAACCTATTCAAAAAA
1 ATACATGTTTGACTCTTTAACTTGTTTAAAAAGATATAAACTCGACTCTTAACCTATTCAAAAAA
*
874649 ATATAAGTTTAACTTTTGTCCTACTTAAAAAT
66 ATACAAGTTTAACTTTTGTCCTACTTAAAAAT
** * * * *
874681 ATACATGTTTGACTCTTTAACTTGTTTAAAAA-ATTATAAGTTTGACTCTTGACTTATTCAAAAG
1 ATACATGTTTGACTCTTTAACTTGTTTAAAAAGA-TATAAACTCGACTCTTAACCTATTCAAAAA
*
874745 AATACATGTTTAACT
65 AATACAAGTTTAACT
874760 CTAAAAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
96 1 0.01
97 67 0.99
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (97 bp):
ATACATGTTTGACTCTTTAACTTGTTTAAAAAGATATAAACTCGACTCTTAACCTATTCAAAAAA
ATACAAGTTTAACTTTTGTCCTACTTAAAAAT
Found at i:878633 original size:23 final size:24
Alignment explanation
Indices: 878606--878663 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
878596 ACAAATAATT
878606 TTGACAAA-GGAAGAGTTCAAATC
1 TTGACAAATGGAAGAGTTCAAATC
*
878629 TTGACAAATTTTGAAGAGTTCAAATC
1 TTGACAAA--TGGAAGAGTTCAAATC
*
878655 TTGATAAAT
1 TTGACAAAT
878664 TATGAAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 8 0.27
24 1 0.03
26 21 0.70
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (24 bp):
TTGACAAATGGAAGAGTTCAAATC
Found at i:878644 original size:26 final size:26
Alignment explanation
Indices: 878615--878672 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
878605 TTTGACAAAG
*
878615 GAAGAGTTCAAATCTTGACAAATTTT
1 GAAGAGTTCAAATCTTGACAAATTAT
*
878641 GAAGAGTTCAAATCTTGATAAATTAT
1 GAAGAGTTCAAATCTTGACAAATTAT
878667 GAAGAG
1 GAAGAG
878673 AGAGATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (26 bp):
GAAGAGTTCAAATCTTGACAAATTAT
Found at i:880826 original size:20 final size:21
Alignment explanation
Indices: 880801--880853 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
880791 CCTTGCAAGC
*
880801 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTAACTGT
880821 ATGTATCGATACATTAACTGT
1 ATGTATCGATACATTAACTGT
*
880842 -TGTATCAATACA
1 ATGTATCGATACA
880854 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (21 bp):
ATGTATCGATACATTAACTGT
Found at i:884899 original size:3 final size:3
Alignment explanation
Indices: 884891--884965 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
884881 AAAAAATGTA
884891 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
884939 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
884966 TCATTTTGGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:885737 original size:17 final size:17
Alignment explanation
Indices: 885700--885751 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
885690 AAATATTTCG
*
885700 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
885715 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
885731 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
885748 AATT
1 AATT
885752 GCATCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:890814 original size:28 final size:29
Alignment explanation
Indices: 890760--890819 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
890750 CATGTCTTTA
890760 TTTAAATGTTATGTCTTTACATAACAA-T
1 TTTAAATGTTATGTCTTTACATAACAACT
*
890788 TTTAAATGTTGTGTTCTTT-CA-ACACAACT
1 TTTAAATGTTATG-TCTTTACATA-ACAACT
890817 TTT
1 TTT
890820 TGATGCAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.04
28 18 0.64
29 9 0.32
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.48
Consensus pattern (29 bp):
TTTAAATGTTATGTCTTTACATAACAACT
Found at i:890891 original size:17 final size:17
Alignment explanation
Indices: 890854--890905 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
890844 AAATATTTCG
*
890854 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
890869 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
890885 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
890902 AATT
1 AATT
890906 GCATCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:894152 original size:27 final size:27
Alignment explanation
Indices: 894114--894185 Score: 135
Period size: 27 Copynumber: 2.7 Consensus size: 27
894104 ATATATTGAA
894114 AGATGTATCGATACATCTGGATTTTCC
1 AGATGTATCGATACATCTGGATTTTCC
*
894141 AGATGTATCGATACATTTGGATTTTCC
1 AGATGTATCGATACATCTGGATTTTCC
894168 AGATGTATCGATACATCT
1 AGATGTATCGATACATCT
894186 TTCAATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
AGATGTATCGATACATCTGGATTTTCC
Found at i:895573 original size:16 final size:16
Alignment explanation
Indices: 895544--895583 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
895534 GAGTTTTATC
895544 AACATTTCTTCTATTAA
1 AACATTT-TTCTATTAA
895561 AACATTTTTCTATTAA
1 AACATTTTTCTATTAA
895577 AA-ATTTT
1 AACATTTT
895584 GAAAGCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
AACATTTTTCTATTAA
Found at i:897334 original size:13 final size:12
Alignment explanation
Indices: 897316--897425 Score: 79
Period size: 13 Copynumber: 10.2 Consensus size: 12
897306 CATTATGCTT
897316 TGTATCGATACAA
1 TGTATCGATAC-A
897329 TGTATCGATACA
1 TGTATCGATACA
897341 TGT-TC-AT---
1 TGTATCGATACA
*
897348 TATATCGATACAA
1 TGTATCGATAC-A
897361 TGTATCGATACA
1 TGTATCGATACA
897373 TGT-TC-AT---
1 TGTATCGATACA
897380 TGTATCGATACAA
1 TGTATCGATAC-A
897393 TGTATCGATACA
1 TGTATCGATACA
897405 TGT-TC-AT---
1 TGTATCGATACA
897412 TGTATCGATACA
1 TGTATCGATACA
897424 TG
1 TG
897426 GATAATTGTA
Statistics
Matches: 78, Mismatches: 2, Indels: 35
0.68 0.02 0.30
Matches are distributed among these distances:
7 8 0.10
8 6 0.08
9 6 0.08
10 6 0.08
11 6 0.08
12 14 0.18
13 32 0.41
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:897355 original size:19 final size:19
Alignment explanation
Indices: 897329--897445 Score: 114
Period size: 19 Copynumber: 6.7 Consensus size: 19
897319 ATCGATACAA
897329 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
*
897348 TATATCGATACA-----A-
1 TGTATCGATACATGTTCAT
897361 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
897380 TGTATCGATACA-----A-
1 TGTATCGATACATGTTCAT
897393 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* *
897412 TGTATCGATACATGGATAAT
1 TGTATCGATACAT-GTTCAT
897432 TGTATCGATACATG
1 TGTATCGATACATG
897446 AGATTGGCAG
Statistics
Matches: 81, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
13 23 0.28
14 2 0.02
18 2 0.02
19 37 0.46
20 17 0.21
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:897359 original size:32 final size:32
Alignment explanation
Indices: 897315--897423 Score: 209
Period size: 32 Copynumber: 3.4 Consensus size: 32
897305 ACATTATGCT
897315 TTGTATCGATACAATGTATCGATACATGTTCA
1 TTGTATCGATACAATGTATCGATACATGTTCA
*
897347 TTATATCGATACAATGTATCGATACATGTTCA
1 TTGTATCGATACAATGTATCGATACATGTTCA
897379 TTGTATCGATACAATGTATCGATACATGTTCA
1 TTGTATCGATACAATGTATCGATACATGTTCA
897411 TTGTATCGATACA
1 TTGTATCGATACA
897424 TGGATAATTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 75 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATGTTCA
Found at i:897435 original size:20 final size:20
Alignment explanation
Indices: 897393--897445 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
897383 ATCGATACAA
* *
897393 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
897412 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAT
897432 TGTATCGATACATG
1 TGTATCGATACATG
897446 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:897487 original size:43 final size:42
Alignment explanation
Indices: 897431--897564 Score: 117
Period size: 43 Copynumber: 3.4 Consensus size: 42
897421 ACATGGATAA
897431 TTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCATTGT
1 TTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCA-TGT
* * ***
897474 TTGTATCGATACATG-G--T-ACAAT-G-TATTGATA-CA---
1 TTGTATCGATACATGAGATTGGCAGTAGCTA-CCCTACCATGT
897507 TTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTGT
1 TTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCA-TGT
*
897550 TTGTTTCGATACATG
1 TTGTATCGATACATG
897565 GTACAATGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
33 15 0.22
34 1 0.01
36 1 0.01
37 7 0.10
38 6 0.09
39 7 0.10
40 1 0.01
42 1 0.01
43 29 0.43
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (42 bp):
TTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCATGT
Found at i:897525 original size:76 final size:76
Alignment explanation
Indices: 897426--897598 Score: 294
Period size: 76 Copynumber: 2.3 Consensus size: 76
897416 TCGATACATG
*
897426 GATA-ATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCATTGTTTGTATCGATACATGG
1 GATACATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGG
*
897490 TACAATGTATT
66 TACAATGTATC
*
897501 GATACATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTGTTTGTTTCGATACATGG
1 GATACATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGG
897566 TACAATGTATC
66 TACAATGTATC
* *
897577 GTTACATTGTATCAATACATGA
1 GATACATTGTATCGATACATGA
897599 TGAATTGTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 4 0.04
76 88 0.96
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (76 bp):
GATACATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGG
TACAATGTATC
Found at i:904271 original size:21 final size:21
Alignment explanation
Indices: 904230--904268 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
904220 CTAGGCAACC
* *
904230 CTCTCCAGGTCGCGATCGGCA
1 CTCTCCAGGTCGCAACCGGCA
904251 CTCT-CAGGTCGCAACCGG
1 CTCTCCAGGTCGCAACCGG
904269 GCAACTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.18
Consensus pattern (21 bp):
CTCTCCAGGTCGCAACCGGCA
Found at i:905713 original size:21 final size:21
Alignment explanation
Indices: 905673--905749 Score: 100
Period size: 22 Copynumber: 3.6 Consensus size: 21
905663 GATTTGAAAA
**
905673 AAGGGGGAGAAATGCCTTGATT
1 AAGGGGGAGAAAT-TTTTGATT
905695 AAGGGGGAGAAATTTTTGATT
1 AAGGGGGAGAAATTTTTGATT
* *
905716 AAAGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATT-TTTGATT
905738 AAGGGGGAGAAA
1 AAGGGGGAGAAA
905750 AACGAAAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 19 0.39
22 30 0.61
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.25
Consensus pattern (21 bp):
AAGGGGGAGAAATTTTTGATT
Found at i:910275 original size:49 final size:49
Alignment explanation
Indices: 910203--910299 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
910193 GTGTTTCTTG
910203 ATCGATTCTTTTTATGTTCAGCTGTTGGAGACTCAAATTTATAGGCTTC
1 ATCGATTCTTTTTATGTTCAGCTGTTGGAGACTCAAATTTATAGGCTTC
910252 ATCGATTCTTTTTATGTTCAGCTGTTGGAGACTCAAATTTATAGGCTT
1 ATCGATTCTTTTTATGTTCAGCTGTTGGAGACTCAAATTTATAGGCTT
910300 GAATGTTGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (49 bp):
ATCGATTCTTTTTATGTTCAGCTGTTGGAGACTCAAATTTATAGGCTTC
Found at i:910487 original size:20 final size:20
Alignment explanation
Indices: 910462--910528 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
910452 GTTTCAGACA
910462 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
910482 ATGTATCGATAC-A--T---
1 ATGTATCGATACAATGTGCC
910496 -TGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
910515 ATCG-ATCGATACAA
1 AT-GTATCGATACAA
910529 ACAGTGGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 23 0.59
21 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:910501 original size:13 final size:13
Alignment explanation
Indices: 910483--910507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
910473 CAATGTGCCA
910483 TGTATCGATACAT
1 TGTATCGATACAT
910496 TGTATCGATACA
1 TGTATCGATACA
910508 ATGTGCCATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:910505 original size:33 final size:33
Alignment explanation
Indices: 910463--910527 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
910453 TTTCAGACAA
910463 TGTATCGATACAATGTGCCAT-GTATCGATACAT
1 TGTATCGATACAATGTGCCATCG-ATCGATACAT
910496 TGTATCGATACAATGTGCCATCGATCGATACA
1 TGTATCGATACAATGTGCCATCGATCGATACA
910528 AACAGTGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATCGATCGATACAT
Done.