Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007953.1 Hibiscus syriacus cultivar Beakdansim tig00110378_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 794529
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 4 of 4
Found at i:638822 original size:4 final size:4
Alignment explanation
Indices: 638800--638839 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
638790 AGTAAAGAAT
*
638800 AATA AATA AGACA ACATA AATA AATA AATA AATA AATA AA
1 AATA AATA A-ATA A-ATA AATA AATA AATA AATA AATA AA
638840 CTATTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
4 26 0.81
5 6 0.19
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:640775 original size:10 final size:10
Alignment explanation
Indices: 640762--640831 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
640752 ACGGGTCAAT
640762 AATAATAATA
1 AATAATAATA
* *
640772 AATAGTAGTA
1 AATAATAATA
640782 AATAATAATA
1 AATAATAATA
640792 AATATATTAAT-
1 AATA-A-TAATA
* *
640803 AATGATAAGGGA
1 AATAATAA--TA
*
640815 AATAATATTA
1 AATAATAATA
640825 AATAATA
1 AATAATA
640832 GCATATATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
9 3 0.07
10 29 0.63
11 4 0.09
12 10 0.22
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (10 bp):
AATAATAATA
Found at i:641264 original size:27 final size:28
Alignment explanation
Indices: 641226--641290 Score: 114
Period size: 27 Copynumber: 2.3 Consensus size: 28
641216 ACCAAAAGCC
641226 AAAAATTGTGCTAATAAAGAG-AGATTT
1 AAAAATTGTGCTAATAAAGAGAAGATTT
641253 AAAAATTGTGCTAATAAAGAGAAAGATTT
1 AAAAATTGTGCTAATAAAGAG-AAGATTT
641282 AAAAATTGT
1 AAAAATTGT
641291 TATAATGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 21 0.58
29 15 0.42
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (28 bp):
AAAAATTGTGCTAATAAAGAGAAGATTT
Found at i:643764 original size:17 final size:17
Alignment explanation
Indices: 643744--643794 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
643734 TTAAAGAGCT
643744 AGTTTAATTAATGAACC
1 AGTTTAATTAATGAACC
* **
643761 AGTTTATATAAATGAAAT
1 AGTTTA-ATTAATGAACC
*
643779 AGTTTAATTAGTGAAC
1 AGTTTAATTAATGAAC
643795 TAGCTTTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (17 bp):
AGTTTAATTAATGAACC
Found at i:643782 original size:18 final size:17
Alignment explanation
Indices: 643743--643815 Score: 56
Period size: 18 Copynumber: 4.2 Consensus size: 17
643733 TTTAAAGAGC
* *
643743 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAA
*
643760 CAGTTTATATAAATGAAA
1 TAGTTTA-ATAAATGAAA
* * *
643778 TAGTTTAATTAGTGAAC
1 TAGTTTAATAAATGAAA
* *
643795 TAGCTTTACTGAATGAAA
1 TAG-TTTAATAAATGAAA
643813 TAG
1 TAG
643816 CATACTTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
17 16 0.37
18 27 0.63
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (17 bp):
TAGTTTAATAAATGAAA
Found at i:648609 original size:5 final size:5
Alignment explanation
Indices: 648599--648623 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
648589 TGTGGCCCAA
648599 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
648624 TCAAATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:649126 original size:24 final size:23
Alignment explanation
Indices: 649085--649145 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
649075 TATGACTGAG
*
649085 TTAAACTC-TAAAATTGTTATAA
1 TTAAACTCATGAAATTGTTATAA
*
649107 CTTAAACTCATGAAATTGTTGTAA
1 -TTAAACTCATGAAATTGTTATAA
649131 TTGAAACTCATGAAA
1 TT-AAACTCATGAAA
649146 CAGTTAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (23 bp):
TTAAACTCATGAAATTGTTATAA
Found at i:651900 original size:12 final size:12
Alignment explanation
Indices: 651866--651900 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
651856 TATCATGTTC
**
651866 TCATATCACAGG
1 TCATATCACATA
651878 TCATATCACATA
1 TCATATCACATA
651890 TCATATCACAT
1 TCATATCACAT
651901 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:658290 original size:15 final size:15
Alignment explanation
Indices: 658270--658303 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
658260 CTACAGCCGA
658270 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
658285 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
658300 ACTA
1 ACTA
658304 TTATACCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:658770 original size:195 final size:191
Alignment explanation
Indices: 658435--658820 Score: 688
Period size: 195 Copynumber: 2.0 Consensus size: 191
658425 TCATCACTTC
658435 ATATCATGTTCTTATATCACAGGTCATATCACATATCATATCACATGAACATATATATATCTTAT
1 ATATCATGTTCTTATATCACAGGTCATATCACATATCATATCACATGAACATATATATATCTTAT
658500 GCATGTATCACAATAATTATGCATGTTCACAATTACTGTATTATAAAAATCACATAGGGATTAGA
66 GCATGTATCACAATAATTATGCATGTTCACAATTACTGTATTATAAAAATCACATAGGGATTAGA
658565 CTTATCACAAGTCTTATTCCATTATAATATACATATAGTATGCACTCACCTTAGC-TTGCTT
131 CTTATCACAAGTCTTATTCCATTATAATATACATA-AGTATGCACTCACCTTAGCTTTGCTT
658626 ATATC-TGTTCTTATATCACAGGTCATATCACATATCATATCACATGAACATATATATATCTTAT
1 ATATCATGTTCTTATATCACAGGTCATATCACATATCATATCACATGAACATATATATATCTTAT
658690 GCATGTA-CACAATATTATCATGTATGCATGTTCACAATTACTGTATTATAAAAATCACATAGGG
66 GCATGTATCAC-A-A-TA--AT-TATGCATGTTCACAATTACTGTATTATAAAAATCACATAGGG
658754 ATTAGACTTATCACAAGTCTTATTCCATTATAATATACATAAGTATGCACTCACCTTAGCTTTGC
125 ATTAGACTTATCACAAGTCTTATTCCATTATAATATACATAAGTATGCACTCACCTTAGCTTTGC
658819 TT
190 TT
658821 TGATTCGATT
Statistics
Matches: 188, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
189 3 0.02
190 67 0.36
191 6 0.03
192 2 0.01
194 21 0.11
195 89 0.47
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (191 bp):
ATATCATGTTCTTATATCACAGGTCATATCACATATCATATCACATGAACATATATATATCTTAT
GCATGTATCACAATAATTATGCATGTTCACAATTACTGTATTATAAAAATCACATAGGGATTAGA
CTTATCACAAGTCTTATTCCATTATAATATACATAAGTATGCACTCACCTTAGCTTTGCTT
Found at i:660999 original size:2 final size:2
Alignment explanation
Indices: 660992--661054 Score: 112
Period size: 2 Copynumber: 32.5 Consensus size: 2
660982 TCAAGAACAA
660992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
661033 AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
661055 AAAGTTTCTC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 57 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:662715 original size:2 final size:2
Alignment explanation
Indices: 662708--662739 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
662698 CAATAAATTG
662708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
662740 TCTTTTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:664723 original size:7 final size:7
Alignment explanation
Indices: 664713--664744 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
664703 ATGCATAATA
664713 AATAAAT
1 AATAAAT
664720 AATAAAT
1 AATAAAT
664727 AATAAAT
1 AATAAAT
664734 AATATAAT
1 AATA-AAT
664742 AAT
1 AAT
664745 TAAGAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATAAAT
Found at i:664730 original size:14 final size:15
Alignment explanation
Indices: 664707--664744 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
664697 AAATAAATGC
664707 ATAATAAATAAATAAT
1 ATAAT-AATAAATAAT
664723 A-AATAATAAATAAT
1 ATAATAATAAATAAT
664737 ATAATAAT
1 ATAATAAT
664745 TAAGAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.52
15 9 0.43
16 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:664758 original size:19 final size:19
Alignment explanation
Indices: 664707--664751 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
664697 AAATAAATGC
*
664707 ATAATAAATAA-ATAATAA
1 ATAAGAAATAATATAATAA
*
664725 ATAATAAATAATATAATAA
1 ATAAGAAATAATATAATAA
*
664744 TTAAGAAA
1 ATAAGAAA
664752 AACTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
ATAAGAAATAATATAATAA
Found at i:664951 original size:36 final size:35
Alignment explanation
Indices: 664861--665345 Score: 441
Period size: 36 Copynumber: 13.0 Consensus size: 35
664851 AATATATATT
* * *
664861 TTTTTAAAAATTATAAATTATATGTTTTCCAAAAA-A
1 TTTTTAAAAA-AATATATTATACGTTTT-CAAAAATA
** *
664897 TGTTTTCAAAACCATATATTATACGTTTTCAAAAGTA
1 T-TTTT-AAAAAAATATATTATACGTTTTCAAAAATA
* * *
664934 TTTTTAAAAAAACTATATGTTATATGTTTACAAAAGTA
1 TTTTTAAAAAAA-TATA--TTATACGTTTTCAAAAATA
* *
664972 TTTTTAAAAACTATATATTATACGTTTTCAAAAGTA
1 TTTTTAAAAA-AATATATTATACGTTTTCAAAAATA
*
665008 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
1 -TTTTTAAAAA-AATATATTATACGTTTTCAAAAATA
665045 TTTTTTTAAAGAAACTATATATTATACGTTTTCAAAAATA
1 --TTTTTAAA-AAA--ATATATTATACGTTTTCAAAAATA
* *
665085 TTTTTAAAAACTATATATTATATGTTTTCAAAAATA
1 TTTTTAAAAA-AATATATTATACGTTTTCAAAAATA
* *
665121 TTTTTTTAAAGAAACTATATATTACATGTTTTCAAAAATA
1 --TTTTTAAA-AAA--ATATATTATACGTTTTCAAAAATA
* *
665161 TTTTAAAAAAATATATATTATATGTTTTCAAAAATA
1 TTTTTAAAAAA-ATATATTATACGTTTTCAAAAATA
665197 TTTTTTAAAGAAACTATATATTATACGTTTTCAAAAATA
1 -TTTTTAAA-AAA--ATATATTATACGTTTTCAAAAATA
* * *
665236 TTTTTTAAAAATTATATATTATAAGTTTTCAAAGATA
1 -TTTTTAAAAA-AATATATTATACGTTTTCAAAAATA
*
665273 TTTTTAAAAACTATATATTATACGTTTTCCAAAAAATA
1 TTTTTAAAAA-AATATATTATACGTTTT-C-AAAAATA
* ** * *
665311 TTTTCAAAACCATATATTATATGTTTTCCAAAATA
1 TTTTTAAAAAAATATATTATACGTTTTCAAAAATA
665346 CGTTTTCAAA
Statistics
Matches: 392, Mismatches: 33, Indels: 49
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.03
36 105 0.27
37 105 0.27
38 86 0.22
39 38 0.10
40 47 0.12
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (35 bp):
TTTTTAAAAAAATATATTATACGTTTTCAAAAATA
Found at i:665013 original size:37 final size:37
Alignment explanation
Indices: 664860--665362 Score: 588
Period size: 37 Copynumber: 13.5 Consensus size: 37
664850 AAATATATAT
* * *
664860 TTTTTTAAAAATTATAAATTATATGTTTTCCAAAAA-A
1 TTTTTTAAAAACTATATATTATACGTTTT-CAAAAATA
* * * *
664897 TGTTTTCAAAACCATATATTATACGTTTTCAAAAGTA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
* * * * *
664934 TTTTTAAAAAAACTATATGTTATATGTTTACAAAAGTA
1 TTTTT-TAAAAACTATATATTATACGTTTTCAAAAATA
*
664972 -TTTTTAAAAACTATATATTATACGTTTTCAAAAGTA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
665008 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
665045 TTTTTTTAAAGAAACTATATATTATACGTTTTCAAAAATA
1 -TTTTTT-AA-AAACTATATATTATACGTTTTCAAAAATA
*
665085 -TTTTTAAAAACTATATATTATATGTTTTCAAAAATA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
* *
665121 TTTTTTTAAAGAAACTATATATTACATGTTTTCAAAAATA
1 -TTTTTT-AA-AAACTATATATTATACGTTTTCAAAAATA
* * *
665161 -TTTTAAAAAAATATATATTATATGTTTTCAAAAATA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
665197 TTTTTTAAAGAAACTATATATTATACGTTTTCAAAAATA
1 TTTTTT-AA-AAACTATATATTATACGTTTTCAAAAATA
* * *
665236 TTTTTTAAAAATTATATATTATAAGTTTTCAAAGATA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
665273 -TTTTTAAAAACTATATATTATACGTTTTCCAAAAA-A
1 TTTTTTAAAAACTATATATTATACGTTTT-CAAAAATA
* * * * *
665309 TATTTTCAAAACCATATATTATATGTTTTCCAAAATA
1 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
* *
665346 CGTTTTCAAAAAC-ATAT
1 -TTTTTTAAAAACTATAT
665363 TCAATATACT
Statistics
Matches: 407, Mismatches: 42, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
36 120 0.29
37 135 0.33
38 58 0.14
39 37 0.09
40 57 0.14
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (37 bp):
TTTTTTAAAAACTATATATTATACGTTTTCAAAAATA
Found at i:665118 original size:76 final size:73
Alignment explanation
Indices: 664861--665362 Score: 618
Period size: 76 Copynumber: 6.7 Consensus size: 73
664851 AATATATATT
* * * * *
664861 TTTTTAAAAATTATAAATTATATGTTTTCCAAAAA-ATGTTTTCAAAACCATATATTATACGTTT
1 TTTTTAAAAACTATATATTATATGTTTT-CAAAAATATTTTTTAAAAACTATATATTATACGTTT
*
664925 TCAAAAGTA
65 TCAAAAATA
* * *
664934 TTTTTAAAAAAACTATATGTTATATGTTTACAAAAGTA-TTTTTAAAAACTATATATTATACGTT
1 TTTTT--AAAAACTATATATTATATGTTTTCAAAAATATTTTTTAAAAACTATATATTATACGTT
*
664998 TTCAAAAGTA
64 TTCAAAAATA
*
665008 TTTTTTAAAAACTATATATTATACGTTTTCAAAAATATTTTTTTAAAGAAACTATATATTATACG
1 -TTTTTAAAAACTATATATTATATGTTTTCAAAAATA-TTTTTT-AA-AAACTATATATTATACG
665073 TTTTCAAAAATA
62 TTTTCAAAAATA
* *
665085 TTTTTAAAAACTATATATTATATGTTTTCAAAAATATTTTTTTAAAGAAACTATATATTACATGT
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAATA-TTTTTT-AA-AAACTATATATTATACGT
665150 TTTCAAAAATA
63 TTTCAAAAATA
* *
665161 TTTTAAAAAAATATATATTATATGTTTTCAAAAATATTTTTTAAAGAAACTATATATTATACGTT
1 TTTTTAAAAACTATATATTATATGTTTTCAAAAATATTTTTT-AA-AAACTATATATTATACGTT
665226 TTCAAAAATA
64 TTCAAAAATA
* * *
665236 TTTTTTAAAAATTATATATTATAAGTTTTCAAAGATA-TTTTTAAAAACTATATATTATACGTTT
1 -TTTTTAAAAACTATATATTATATGTTTTCAAAAATATTTTTTAAAAACTATATATTATACGTTT
665300 TCCAAAAA-A
65 T-CAAAAATA
* * * * *
665309 TATTTTCAAAACCATATATTATATGTTTTCCAAAATACGTTTTCAAAAAC-ATAT
1 T-TTTTAAAAACTATATATTATATGTTTTCAAAAATA-TTTTTTAAAAACTATAT
665363 TCAATATACT
Statistics
Matches: 385, Mismatches: 31, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
72 1 0.00
73 83 0.22
74 50 0.13
75 82 0.21
76 141 0.37
77 28 0.07
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (73 bp):
TTTTTAAAAACTATATATTATATGTTTTCAAAAATATTTTTTAAAAACTATATATTATACGTTTT
CAAAAATA
Found at i:671386 original size:45 final size:45
Alignment explanation
Indices: 671320--671505 Score: 275
Period size: 45 Copynumber: 4.2 Consensus size: 45
671310 TATTCATTAT
* *
671320 TTTCATTTAGGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
671365 TTTCATTAATGGCATCCTTTCATGCCTTTAATGCATCGCTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
671410 TTTCATTTATGGCATCCTTTCATGACTTTAATACACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
671455 TTTCATTTATGG-ATCCTTTTATGCCTTTAATGCATCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
671499 TTTCATT
1 TTTCATT
671506 ATTTTATAAC
Statistics
Matches: 126, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
44 34 0.27
45 92 0.73
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:671666 original size:54 final size:55
Alignment explanation
Indices: 671608--671861 Score: 268
Period size: 54 Copynumber: 4.7 Consensus size: 55
671598 CATACAGAAA
* * **
671608 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACATAGTGTCGAAATTG-TTG
1 TTCATCAACTTATGATGAATTCCGTGGGTTGCACACATAGTGTCGAAACGGATTG
* * * * * * *
671662 TTCATCAA-TAATGATGAATTTCATGGTTTGCACACCTAGCGTCGAAAC-GAGTG
1 TTCATCAACTTATGATGAATTCCGTGGGTTGCACACATAGTGTCGAAACGGATTG
* * * *
671715 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGTTGAAACGGCTT-
1 TTCATCAACTTATGATGAATTCCGTGGGTTGCACACATAGTGTCGAAACGGATTG
** * *
671769 TTCATCAACATT-TGATGAATTTTGTGGGTTGCACACATAGTGCCAAAACGG-TTG
1 TTCATCAAC-TTATGATGAATTCCGTGGGTTGCACACATAGTGTCGAAACGGATTG
* *
671823 TTCATCAACATATGATGAATTACGTGGGTTGCACACATA
1 TTCATCAACTTATGATGAATTCCGTGGGTTGCACACATA
671862 TATAGTACAC
Statistics
Matches: 165, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 45 0.27
54 116 0.70
55 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (55 bp):
TTCATCAACTTATGATGAATTCCGTGGGTTGCACACATAGTGTCGAAACGGATTG
Found at i:671773 original size:107 final size:107
Alignment explanation
Indices: 671608--671861 Score: 307
Period size: 108 Copynumber: 2.4 Consensus size: 107
671598 CATACAGAAA
* * * ** *
671608 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACATAGTGTCGAAATTGTTGTTCATCAATA-
1 TTCATCAACATATGATGAATT-CGTGGGTTGCACACATAGTGTCGAAACGGTTGTTCATCAACAT
* * * *
671672 ATGATGAATTTCATGGTTTGCACACCTAGCGTCGAAACGAG-TG
65 ATGATGAATTTCATGGGTTGCACACATAGCGCCAAAACG-GTTG
*
671715 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGTTGAAACGGCTT-TTCATCAACA
1 TTCATCAACATATGATGAATTC-GTGGGTTGCACACATAGTGTCGAAACGG-TTGTTCATCAACA
* ** *
671779 TTTGATGAATTTTGTGGGTTGCACACATAGTGCCAAAACGGTTG
64 TATGATGAATTTCATGGGTTGCACACATAGCGCCAAAACGGTTG
671823 TTCATCAACATATGATGAATTACGTGGGTTGCACACATA
1 TTCATCAACATATGATGAATT-CGTGGGTTGCACACATA
671862 TATAGTACAC
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
106 1 0.01
107 53 0.42
108 72 0.57
109 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (107 bp):
TTCATCAACATATGATGAATTCGTGGGTTGCACACATAGTGTCGAAACGGTTGTTCATCAACATA
TGATGAATTTCATGGGTTGCACACATAGCGCCAAAACGGTTG
Found at i:674100 original size:2 final size:2
Alignment explanation
Indices: 674093--674137 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
674083 AGGTCACTCA
674093 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
674134 AT AT
1 AT AT
674138 TCTTTTAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:679203 original size:18 final size:18
Alignment explanation
Indices: 679180--679215 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
679170 TTCGTCTGGC
679180 TCAGCTCA-CCAAACTAGT
1 TCAGCTCATCC-AACTAGT
679198 TCAGCTCATCCAACTAGT
1 TCAGCTCATCCAACTAGT
679216 CCAACTTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (18 bp):
TCAGCTCATCCAACTAGT
Found at i:685198 original size:11 final size:13
Alignment explanation
Indices: 685166--685195 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
685156 TGGCCAAAGA
685166 TGAAAAGGTATGT
1 TGAAAAGGTATGT
685179 TGAAAAGGTATG-
1 TGAAAAGGTATGT
685191 TGAAA
1 TGAAA
685196 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:688360 original size:29 final size:30
Alignment explanation
Indices: 688318--688381 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
688308 ACAAGCCTTA
* * *
688318 GAAAAATTGGGGATCATTTCGTAAGTTTT-
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
*
688347 GAAAAGTTGGGGATAAATTCGTAAATTTTG
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
688377 GAAAA
1 GAAAA
688382 TTGATGAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATTCGTAAATTTTG
Found at i:689544 original size:7 final size:7
Alignment explanation
Indices: 689534--689569 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
689524 GGCTATTATC
689534 TATGGTT
1 TATGGTT
689541 TATGGTT
1 TATGGTT
689548 TATGGTT
1 TATGGTT
689555 TATGGTT
1 TATGGTT
689562 TATTGGTT
1 TA-TGGTT
689570 AATAAATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (7 bp):
TATGGTT
Found at i:702753 original size:2 final size:2
Alignment explanation
Indices: 702746--702810 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
702736 GAATTTCATT
702746 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
702788 TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC T
702811 GTATACAGCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:708494 original size:29 final size:28
Alignment explanation
Indices: 708437--708496 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
708427 CGTATGAATA
* *
708437 TAAAAAATATTAATTTGAAAAGTAATTT
1 TAAAAAATATTAATCTCAAAAGTAATTT
*
708465 TAAATAAATATTAATCTCATAAA-TATTTT
1 TAAA-AAATATTAATCTCA-AAAGTAATTT
708494 TAA
1 TAA
708497 TTAATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 20 0.74
30 3 0.11
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (28 bp):
TAAAAAATATTAATCTCAAAAGTAATTT
Found at i:718752 original size:2 final size:2
Alignment explanation
Indices: 718745--718779 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
718735 CCTCCTCGAT
718745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
718780 TTATTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:720409 original size:20 final size:21
Alignment explanation
Indices: 720384--720476 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
720374 TTTTCCCAAT
*
720384 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
720404 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
**
720425 TCGCAATGCGAA-TAAGTGAA
1 TCGCAATGCGAATTAAGAAAA
* **
720445 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
720466 TCGCAATGCGA
1 TCGCAATGCGA
720477 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:720427 original size:21 final size:21
Alignment explanation
Indices: 720401--720476 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
720391 GCGAATAAGT
720401 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* * *
720422 AAATCGCAATGCGAATAAGTG-
1 AAATCGCAACGCGAAT-TGGGA
720443 -AATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
720463 AAATCGCAATGCGA
1 AAATCGCAACGCGA
720477 TACTGACTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:720429 original size:41 final size:41
Alignment explanation
Indices: 720384--720476 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
720374 TTTTCCCAAT
720384 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
720425 TCGCAATGCGAATAAGTGAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
720466 TCGCAATGCGA
1 TCGCAATGCGA
720477 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:720489 original size:41 final size:41
Alignment explanation
Indices: 720403--720537 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
720393 GAATAAGTAA
*
720403 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTGA--
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-AT-ACTGACT
720444 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
720485 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
720526 TTCGCAACGCGA
1 ATCGCAACGCGA
720538 TACTGACTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 4 0.05
40 2 0.02
41 73 0.90
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:720490 original size:20 final size:20
Alignment explanation
Indices: 720465--720559 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
720455 AATTGGGAAA
*
720465 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
720485 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
720506 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
720526 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
720546 TTCGCAACGCGATA
1 ATCGCAACGCGATA
720560 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:720775 original size:22 final size:22
Alignment explanation
Indices: 720747--720790 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
720737 CACTCTCTCA
720747 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
**
720769 CCCATCTCCGGTGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
720791 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:721079 original size:20 final size:20
Alignment explanation
Indices: 721054--721091 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
721044 CGATTCTCTC
721054 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
721074 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
721092 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:722431 original size:18 final size:18
Alignment explanation
Indices: 722410--722454 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
722400 TCCACTTCGG
722410 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
722428 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
722446 GAGCCATCA
1 GAGCCATCA
722455 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.44, G:0.13, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:722996 original size:19 final size:20
Alignment explanation
Indices: 722942--723008 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
722932 TAGTTTACTT
* *
722942 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
722962 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
722982 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
723001 TCGCAACG
1 TCGCAACG
723009 ACAAAATCGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:723028 original size:13 final size:14
Alignment explanation
Indices: 722997--723054 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
722987 ATGCGAAATG
722997 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
723011 AAAATCGTAACGCAAA
1 AAAATCGCAACG--AC
*
723027 ATGAAATCACAACGAC
1 A--AAATCGCAACGAC
723043 AAAATCGCAACG
1 AAAATCGCAACG
723055 CGAAACACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 21 0.62
16 4 0.12
18 9 0.26
ACGTcount: A:0.52, C:0.24, G:0.14, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:723040 original size:32 final size:33
Alignment explanation
Indices: 722981--723055 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
722971 GGAAATGGCT
* * *
722981 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCAAAATGAAAATCACAACGACAAA
*
723014 ATCGTAACGCAAAATG-AAATCACAACGACAAA
1 ATCGCAACGCAAAATGAAAATCACAACGACAAA
723046 ATCGCAACGC
1 ATCGCAACGC
723056 GAAACACAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 24 0.65
33 13 0.35
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCAAAATGAAAATCACAACGACAAA
Found at i:723090 original size:14 final size:14
Alignment explanation
Indices: 723071--723126 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
723061 ACAAATCGCA
723071 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
* *
723085 TTGCGATTTCATTTCACA
1 TTGCGATTT--TGT--CG
723103 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
723117 TTGCGATTTT
1 TTGCGATTTT
723127 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 20 0.59
16 4 0.12
18 10 0.29
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:723138 original size:33 final size:32
Alignment explanation
Indices: 723066--723142 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
723056 GAAACACAAA
723066 TCGCATTGCGATTTTGTCGTTGCGATTTCATT
1 TCGCATTGCGATTTTGTCGTTGCGATTTCATT
*
723098 TCACATTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTGTCGTTGCGA-TTTCATT
723131 TCGCATTGCGAT
1 TCGCATTGCGAT
723143 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 24 0.57
33 18 0.43
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (32 bp):
TCGCATTGCGATTTTGTCGTTGCGATTTCATT
Found at i:725037 original size:14 final size:14
Alignment explanation
Indices: 725018--725053 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
725008 ATTGTTTAAT
725018 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
725032 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
725046 TGATTTGT
1 TGATTTGT
725054 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:725186 original size:33 final size:36
Alignment explanation
Indices: 725141--725256 Score: 139
Period size: 38 Copynumber: 3.2 Consensus size: 36
725131 AAAACAGACT
* ***
725141 ATCGCAACGCGAAATGGCTATCGCAA-CG-A-GAAA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
725174 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
725212 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
725250 ATCGCAA
1 ATCGCAA
725257 CGAGAAAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
33 22 0.30
35 2 0.03
37 1 0.01
38 49 0.66
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:725192 original size:19 final size:19
Alignment explanation
Indices: 725170--725275 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
725160 ATCGCAACGA
725170 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
725189 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
725208 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
725227 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
725246 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
725260 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
725276 TTTTCATTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 2 0.02
17 2 0.02
19 68 0.81
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:725337 original size:20 final size:20
Alignment explanation
Indices: 725282--725337 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
725272 GCGATTTTCA
* *
725282 TTTCGCATTGCGATAACCAT
1 TTTCGCGTTGCGATAGCCAT
725302 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
725322 TTTCGCGTTGCGATAG
1 TTTCGCGTTGCGATAG
725338 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:726424 original size:24 final size:24
Alignment explanation
Indices: 726397--726450 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
726387 GTATTCGAAA
* *
726397 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
726421 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
726445 TTTGAT
1 TTTGAT
726451 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:726642 original size:12 final size:12
Alignment explanation
Indices: 726625--726649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
726615 ATATAATCCT
726625 GAAGAAGAAAAA
1 GAAGAAGAAAAA
726637 GAAGAAGAAAAA
1 GAAGAAGAAAAA
726649 G
1 G
726650 TCCTCGGAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:728963 original size:19 final size:19
Alignment explanation
Indices: 728941--729071 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
728931 GGAAATTACT
728941 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
728960 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
728974 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
728993 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
729007 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
729026 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
729040 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
729059 ATCGCAACGCGAA
1 ATCGCAATGCGAA
729072 TTTAATTTCA
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:728983 original size:33 final size:33
Alignment explanation
Indices: 728941--729067 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
728931 GGAAATTACT
728941 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
728974 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
729006 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
729040 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
729068 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:729048 original size:66 final size:66
Alignment explanation
Indices: 728942--729074 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
728932 GAAATTACTA
*
728942 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
729007 T
66 T
*
729008 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
729073 T
66 T
729074 T
1 T
729075 AATTTCACGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:729089 original size:19 final size:20
Alignment explanation
Indices: 729067--729109 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
729057 AAATCGCAAC
729067 GCGAATTT-AATTTCACGTT
1 GCGAATTTCAATTTCACGTT
* * *
729086 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCACGTT
729106 GCGA
1 GCGA
729110 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCACGTT
Found at i:729269 original size:14 final size:14
Alignment explanation
Indices: 729250--729286 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
729240 CATCAATTAA
729250 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
729264 ACAAATCACCTTTT
1 ACAAATCAACTTTT
729278 ACAAATCAA
1 ACAAATCAA
729287 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:730712 original size:21 final size:21
Alignment explanation
Indices: 730646--730712 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
730636 GTGAATCGGG
*
730646 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
730666 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
730688 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
730709 CTCT
1 CTCT
730713 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:730731 original size:42 final size:41
Alignment explanation
Indices: 730646--730768 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
730636 GTGAATCGGG
* * * * *
730646 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
730688 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
730730 CTCTTCAACGATAGGAGTGGACTATTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
730769 CGAGTCAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:732851 original size:33 final size:33
Alignment explanation
Indices: 732794--732892 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
732784 ACGAGATAAT
*
732794 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
732828 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
732861 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
732893 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:732886 original size:19 final size:19
Alignment explanation
Indices: 732769--732972 Score: 212
Period size: 19 Copynumber: 11.1 Consensus size: 19
732759 TCTTTTGGTT
*
732769 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
732788 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
732808 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
732826 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
732842 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
732860 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
732875 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
732895 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
732914 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
732933 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
732952 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
732971 GA
1 GA
732973 TTTTGGTTTC
Statistics
Matches: 157, Mismatches: 15, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
14 19 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 81 0.52
20 45 0.29
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:733001 original size:19 final size:19
Alignment explanation
Indices: 732968--733048 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
732958 AAAATCGCAA
**
732968 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
732987 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
733006 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
733020 TGCGATCGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
733040 TGCGATTTT
1 TGCGATTTT
733049 CATTCTCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 23 0.46
20 11 0.22
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:733616 original size:20 final size:20
Alignment explanation
Indices: 733567--733619 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
733557 GCGCTATGTA
733567 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
*
733587 AATCGAGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
733607 TATCTCGTTGCGA
1 AATCGCGTTGCGA
733620 TTTTGTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:733653 original size:20 final size:20
Alignment explanation
Indices: 733628--733681 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
733618 GATTTTGTAT
733628 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
733648 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
733668 TATCGCATTGCGAT
1 TATCGCATTGCGAT
733682 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:733666 original size:61 final size:61
Alignment explanation
Indices: 733568--733684 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
733558 CGCTATGTAA
* * * *
733568 ATCGCGTTGCGAAAGTCAGAATCGAGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
733629 ATCGCATTGCGATAGTAAGTATCGCA-TTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCG-AGTTGCGAAAGTCAGTATCGCATTGCGATTTT
733685 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 47 0.98
62 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:733700 original size:61 final size:61
Alignment explanation
Indices: 733568--733702 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 61
733558 CGCTATGTAA
* * * * ** *
733568 ATCGCGTTGCGAAAGTCAGAATCGAGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
733629 ATCGCATTGCGATAGTAAGTATCGCA-TTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCG-AGTTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
733691 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
733703 TTACTTATTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
61 58 0.95
62 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:733792 original size:21 final size:21
Alignment explanation
Indices: 733752--733792 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
733742 ATTGTATACC
**
733752 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
733773 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
733793 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:735712 original size:71 final size:71
Alignment explanation
Indices: 735637--735770 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 71
735627 ACTTTGCAAC
* * *
735637 CTTCTCATTTTCATATTTTTTAAAAATTCGAAAGTATTAATATTTGGGGAAAAGTATCAATACAT
1 CTTCTCATTTTCATATTTTTTAAAAATTCAAAAGTATCAATATTTGGGGAAAACTATCAATACAT
735702 TGTAGT
66 TGTAGT
* *** * * *
735708 CTTCTCATTTTCATTTTTTTTTTCAATTTAAAAGTATCGATATTTGTGGAAAACTATCAATAC
1 CTTCTCATTTTCATATTTTTTAAAAATTCAAAAGTATCAATATTTGGGGAAAACTATCAATAC
735771 TTTAGAATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (71 bp):
CTTCTCATTTTCATATTTTTTAAAAATTCAAAAGTATCAATATTTGGGGAAAACTATCAATACAT
TGTAGT
Found at i:735948 original size:74 final size:74
Alignment explanation
Indices: 735858--736014 Score: 181
Period size: 74 Copynumber: 2.1 Consensus size: 74
735848 ATATAAATGA
* * * * * *
735858 AAAATTATCGAACATCATAATATAGGTATCGATA-TTTTAACTATCGATCATCTTCATTAACTTT
1 AAAAGTATCGAACATCATAACATAAGTATCAATATTTTTAAATATCGATC-TCTTCATAAACTTT
735922 TTCAATATAT
65 TTCAATATAT
* * * * *
735932 AAAAGTATCGATCATCATCACATAATTATCAATATTTTTAAATTTCGATCTTTTCATAAACTTTT
1 AAAAGTATCGAACATCATAACATAAGTATCAATATTTTTAAATATCGATCTCTTCATAAACTTTT
* *
735997 TTAATATTT
66 TCAATATAT
736006 AAAAGTATC
1 AAAAGTATC
736015 AATTATTACC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
74 56 0.81
75 13 0.19
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (74 bp):
AAAAGTATCGAACATCATAACATAAGTATCAATATTTTTAAATATCGATCTCTTCATAAACTTTT
TCAATATAT
Found at i:736041 original size:74 final size:73
Alignment explanation
Indices: 735877--736122 Score: 201
Period size: 74 Copynumber: 3.3 Consensus size: 73
735867 GAACATCATA
* * * * * * * * *
735877 ATATAGGTATCGATATTTTAACTATCGATCATCTTCATTAACTTTTTCAATATATAAAAGTATCG
1 ATATAAGTATCAATATTTTAAATTTCGATC-TTTTCATAAACTTTTTTAATATTTAAAAGTATCA
*
735942 ATCATCATC
65 ATCATCACC
* *
735951 ACATAATTATCAATATTTTTAAATTTCGATCTTTTCATAAACTTTTTTAATATTTAAAAGTATCA
1 ATATAAGTATCAATA-TTTTAAATTTCGATCTTTTCATAAACTTTTTTAATATTTAAAAGTATCA
* *
736016 ATTATTACC
65 ATCATCACC
* * * * * *
736025 GTATAAGTATCTATATTTTAAATTTCGATCTTATCTTCAA-TTTTTTCCGATATTTAAAAGTATC
1 ATATAAGTATCAATATTTTAAATTTCGATCTTTTCATAAACTTTTTT--AATATTTAAAAGTATC
* ** *
736089 GATCGCCA-A
64 AATCATCACC
*
736098 ATATTAAGTATCGATA-TTTAAATTT
1 ATA-TAAGTATCAATATTTTAAATTT
736123 TTGATTTTTT
Statistics
Matches: 138, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
72 6 0.04
73 33 0.24
74 86 0.62
75 13 0.09
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (73 bp):
ATATAAGTATCAATATTTTAAATTTCGATCTTTTCATAAACTTTTTTAATATTTAAAAGTATCAA
TCATCACC
Found at i:736530 original size:19 final size:19
Alignment explanation
Indices: 736506--736546 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
736496 AAAATTAACA
736506 TTCCATATTGCAACCTACT
1 TTCCATATTGCAACCTACT
736525 TTCCATATTGCAACCTACT
1 TTCCATATTGCAACCTACT
736544 TTC
1 TTC
736547 TTAGTGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.39
Consensus pattern (19 bp):
TTCCATATTGCAACCTACT
Found at i:736617 original size:24 final size:24
Alignment explanation
Indices: 736589--736637 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
736579 AATTTTTTTA
*
736589 TAGATATTGATAACATTTTGAGCT
1 TAGATATTCATAACATTTTGAGCT
*
736613 TAGATATTCATAATATTTTGAGCT
1 TAGATATTCATAACATTTTGAGCT
736637 T
1 T
736638 CTAAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (24 bp):
TAGATATTCATAACATTTTGAGCT
Found at i:738585 original size:2 final size:2
Alignment explanation
Indices: 738578--738750 Score: 100
Period size: 2 Copynumber: 90.5 Consensus size: 2
738568 GTTTTCAAAA
* * * * *
738578 AT AT AT AT AGT AT AT -T GT AT GT GT AT AT -T AT AT TT AA AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
738619 AT AT AT AT AT AT AT AT AT AT -T AA AA AT AT AT AT -T AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
738659 AGT AT AT AT A- AT AT AT AT TT TT A- AT AT AT -T TT TT AG A- AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
738698 AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AA AT AGT AGT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT
738739 AT AT AT AT -T AT A
1 AT AT AT AT AT AT A
738751 GTTTTTAGGC
Statistics
Matches: 139, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
1 12 0.09
2 118 0.85
3 9 0.06
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:741292 original size:28 final size:28
Alignment explanation
Indices: 741239--741313 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
741229 CTTGATTTTG
* *
741239 CATGAGATTTGATTCCGTCTTAATTCTA
1 CATGAGATTTGATCCCGTCCTAATTCTA
* * *
741267 CATGGGATTTGATCCCGTCCTGATTCTT
1 CATGAGATTTGATCCCGTCCTAATTCTA
* *
741295 TATGAGACTTGATCCCGTC
1 CATGAGATTTGATCCCGTC
741314 TTGTTTTTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (28 bp):
CATGAGATTTGATCCCGTCCTAATTCTA
Found at i:741537 original size:2 final size:2
Alignment explanation
Indices: 741530--741572 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
741520 TTTGTGTTGT
741530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
741572 T
1 T
741573 CTATTTTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:747523 original size:24 final size:25
Alignment explanation
Indices: 747479--747539 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
747469 TATTATTATT
747479 AAAATATTATATCTAAAATTAAAA-A
1 AAAATATTATATCT-AAATTAAAATA
*
747504 AAAATTATTATATCT-TATTAAAATA
1 AAAA-TATTATATCTAAATTAAAATA
*
747529 GAAATATTATA
1 AAAATATTATA
747540 ATTATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 14 0.44
25 8 0.25
26 10 0.31
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATATTATATCTAAATTAAAATA
Found at i:747588 original size:42 final size:42
Alignment explanation
Indices: 747523--747605 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
747513 ATATCTTATT
* *
747523 AAAATAGAAATATTATAATTATATTAAATATTTATTAAAATA
1 AAAATAGAAATATTATAAGTATATTAAATACTTATTAAAATA
* *
747565 AAAATA-ATATATTATTAAGTATATTAATTACTTATTAAAAT
1 AAAATAGAAATATTA-TAAGTATATTAAATACTTATTAAAAT
747606 GATAATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 7 0.19
42 29 0.81
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (42 bp):
AAAATAGAAATATTATAAGTATATTAAATACTTATTAAAATA
Found at i:747589 original size:35 final size:37
Alignment explanation
Indices: 747507--747579 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
747497 TTAAAAAAAA
* * *
747507 ATTATTATATCTTATTAAAATAGAAATATTATAATTAT
1 ATTAATATAT-TTATTAAAATAAAAATAATATAATTAT
747545 ATTAA-ATATTTATTAAAATAAAAATAATAT-ATTAT
1 ATTAATATATTTATTAAAATAAAAATAATATAATTAT
747580 TAAGTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 5 0.16
36 19 0.59
37 4 0.12
38 4 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTAATATATTTATTAAAATAAAAATAATATAATTAT
Found at i:752665 original size:20 final size:20
Alignment explanation
Indices: 752640--752678 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
752630 ATTCTCCCAA
*
752640 CCCAAAGAAGAAAAACAACT
1 CCCAAACAAGAAAAACAACT
*
752660 CCCAAACAAGGAAAACAAC
1 CCCAAACAAGAAAAACAAC
752679 CAACTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.28, G:0.10, T:0.03
Consensus pattern (20 bp):
CCCAAACAAGAAAAACAACT
Found at i:753515 original size:66 final size:66
Alignment explanation
Indices: 753438--753573 Score: 263
Period size: 66 Copynumber: 2.1 Consensus size: 66
753428 AAAATGTTTT
753438 TCCTCTTAAAAAGCATAGCAATCATGACTTGAAATTAGATGAGAATATTTCTTATTCTATGAAAA
1 TCCTCTTAAAAAGCATAGCAATCATGACTTGAAATTAGATGAGAATATTTCTTATTCTATGAAAA
753503 C
66 C
*
753504 TCCTCTTAAAAAGCATAGCAATCATGACTTGAAATTATATGAGAATATTTCTTATTCTATGAAAA
1 TCCTCTTAAAAAGCATAGCAATCATGACTTGAAATTAGATGAGAATATTTCTTATTCTATGAAAA
753569 C
66 C
753570 TCCT
1 TCCT
753574 AGAGATGATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (66 bp):
TCCTCTTAAAAAGCATAGCAATCATGACTTGAAATTAGATGAGAATATTTCTTATTCTATGAAAA
C
Found at i:758030 original size:21 final size:21
Alignment explanation
Indices: 758004--758085 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
757994 CAGAACCCCA
*
758004 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
758025 GGGGGGAATCGGTTCCCCT-T
1 GGGGGGAATCGATTCCCCTGT
* *
758045 CAAAGGGGGGAATCGGTTCCCTCAG-
1 ----GGGGGGAATCGATTCCC-CTGT
758070 GGGGGG-ATCGATTCCC
1 GGGGGGAATCGATTCCC
758086 TCTGCCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 10 0.20
21 23 0.45
24 17 0.33
25 1 0.02
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.22
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:764455 original size:25 final size:25
Alignment explanation
Indices: 764421--764471 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
764411 ATGATGAAGT
764421 AAGTTCCACTAGTGGGTATATTTTA
1 AAGTTCCACTAGTGGGTATATTTTA
764446 AAGTTCCACTAGTGGGTATATTTTA
1 AAGTTCCACTAGTGGGTATATTTTA
764471 A
1 A
764472 CTTTAGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (25 bp):
AAGTTCCACTAGTGGGTATATTTTA
Found at i:765036 original size:87 final size:88
Alignment explanation
Indices: 764920--765079 Score: 243
Period size: 87 Copynumber: 1.8 Consensus size: 88
764910 ACATATCGTG
*
764920 TACACCAATCTGTAAGGTTGAGTGTTATACTCTTAATGAATTCATAGCCTAAGATT-TGGGT-AG
1 TACACCAATCTGTAAGGTTGAATGTTATACTCTTAATGAATTCATAGCCTAAGATTGTGGGTGA-
764983 TCCTAGTGAAACAGCCTTGATGGA
65 TCCTAGTGAAACAGCCTTGATGGA
* * * * *
765007 TACACCGATCTGTAAGGTTTAATTTTATACTCTTAATGAATTCATAGTCTAAGTTTGTGGGTGAT
1 TACACCAATCTGTAAGGTTGAATGTTATACTCTTAATGAATTCATAGCCTAAGATTGTGGGTGAT
765072 CCTAGTGA
66 CCTAGTGA
765080 GACGGAATTG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
87 50 0.77
88 14 0.22
89 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (88 bp):
TACACCAATCTGTAAGGTTGAATGTTATACTCTTAATGAATTCATAGCCTAAGATTGTGGGTGAT
CCTAGTGAAACAGCCTTGATGGA
Found at i:768753 original size:25 final size:25
Alignment explanation
Indices: 768674--768755 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
768664 TGATTTGGTA
768674 ATATTTTCATTTATTTAAAGAAATT
1 ATATTTTCATTTATTTAAAGAAATT
* * **
768699 ATATATGTC--TAATTTAAATGATTTCTTT
1 ATAT-TTTCATTTATTTAAA-GA---AATT
768727 ATATTTTCATTTATTTAAAGAAATT
1 ATATTTTCATTTATTTAAAGAAATT
768752 ATAT
1 ATAT
768756 AGGTCTGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 8 0.19
25 12 0.29
26 3 0.07
27 3 0.07
28 8 0.19
29 8 0.19
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (25 bp):
ATATTTTCATTTATTTAAAGAAATT
Found at i:771777 original size:18 final size:18
Alignment explanation
Indices: 771756--771801 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
771746 CACTGGTTCA
*
771756 ATCGGTCGAATTGGTCCG
1 ATCGGTCGAATCGGTCCG
771774 ATCGGTCGAATCGGTCCG
1 ATCGGTCGAATCGGTCCG
771792 ATCGGTCGAA
1 ATCGGTCGAA
771802 AGAATCGGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (18 bp):
ATCGGTCGAATCGGTCCG
Found at i:771859 original size:22 final size:21
Alignment explanation
Indices: 771824--771867 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
771814 CATAATTATT
771824 TAAAAAATTAAATAAAAATAA
1 TAAAAAATTAAATAAAAATAA
*
771845 TAAAAATATTTAATAAAAATAA
1 TAAAAA-ATTAAATAAAAATAA
771867 T
1 T
771868 TTTTTATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAAAATTAAATAAAAATAA
Found at i:774294 original size:16 final size:16
Alignment explanation
Indices: 774273--774305 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
774263 TACTATTCAA
*
774273 GTGAATAGTGAATTTT
1 GTGAATAGTGAAATTT
774289 GTGAATAGTGAAATTT
1 GTGAATAGTGAAATTT
774305 G
1 G
774306 GTCGGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
GTGAATAGTGAAATTT
Found at i:776892 original size:16 final size:16
Alignment explanation
Indices: 776871--776903 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
776861 TACTATTCAA
*
776871 GTGAATAGTGAATTTT
1 GTGAATAGTGAAATTT
776887 GTGAATAGTGAAATTT
1 GTGAATAGTGAAATTT
776903 G
1 G
776904 GTCGGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
GTGAATAGTGAAATTT
Found at i:783476 original size:17 final size:17
Alignment explanation
Indices: 783443--783493 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
783433 TATGAAGCTT
**
783443 AGAGAAT-AAGAGCATG
1 AGAGAATAAAGAAAATG
783459 AGAGAATAAAGAAAATG
1 AGAGAATAAAGAAAATG
*
783476 A-AGAAAATAAGAAAATG
1 AGAGAATA-AAGAAAATG
783493 A
1 A
783494 AAAGAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.63, C:0.02, G:0.24, T:0.12
Consensus pattern (17 bp):
AGAGAATAAAGAAAATG
Found at i:788831 original size:20 final size:20
Alignment explanation
Indices: 788806--788856 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
788796 TTTTCTGAAT
788806 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGAATATG-ACAA
*
788826 TCGCAATGCGAATATGACTA
1 TCGCAATGCGAATATGACAA
788846 TCGCAATGCGA
1 TCGCAATGCGA
788857 TTCTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATATGACAA
Found at i:788867 original size:20 final size:20
Alignment explanation
Indices: 788825--788932 Score: 135
Period size: 20 Copynumber: 5.4 Consensus size: 20
788815 GAATATGTAA
* * *
788825 ATCGCAATGCGAATATGACT
1 ATCGCAACGCGATTCTGACT
* * *
788845 ATCGCAATGCGATTCTTATT
1 ATCGCAACGCGATTCTGACT
*
788865 ATCGCAACGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
788885 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
788905 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
788925 GTCGCAAC
1 ATCGCAAC
788933 ACTGAATTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:789780 original size:24 final size:24
Alignment explanation
Indices: 789748--789801 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
789738 GTATTCGAAA
789748 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
789772 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
789796 TTTGAT
1 TTTGAT
789802 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:789984 original size:6 final size:6
Alignment explanation
Indices: 789973--790007 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
789963 TATAACCCTC
* *
789973 AAAAAG AAAAAG AAGAAG AAAAAG AAGAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
790008 ATCCCCGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:789993 original size:12 final size:12
Alignment explanation
Indices: 789976--790007 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
789966 AACCCTCAAA
789976 AAGAAAAAGAAG
1 AAGAAAAAGAAG
789988 AAGAAAAAGAAG
1 AAGAAAAAGAAG
790000 AAGAAAAA
1 AAGAAAAA
790008 ATCCCCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:790017 original size:15 final size:15
Alignment explanation
Indices: 789999--790035 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
789989 AGAAAAAGAA
789999 GAAGAAAAAATCCCC
1 GAAGAAAAAATCCCC
*
790014 GAAG-AAAAGTCCCC
1 GAAGAAAAAATCCCC
790028 GAAGAAAA
1 GAAGAAAA
790036 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.05
Consensus pattern (15 bp):
GAAGAAAAAATCCCC
Found at i:791381 original size:140 final size:140
Alignment explanation
Indices: 791120--791389 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
791110 AAACGTTGTA
*
791120 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTACTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTACTA
* *
791185 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
791250 TATGTGTATT
131 TATGTGTATT
*
791260 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTACTA
* *
791325 TGATATGTTCAGTTGTTATCACTTATTACACATTTATTTGAATATCGGAACACGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
791390 CGCAACTCAA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTACTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
TATGTGTATT
Found at i:791431 original size:53 final size:54
Alignment explanation
Indices: 791360--791502 Score: 191
Period size: 53 Copynumber: 2.7 Consensus size: 54
791350 TTACACATTT
* * ** *
791360 ATTTGAATATCGGAACACGAATTTGACTATCGCAACTCAAAAATTGCAACGCGA
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGAAAAAATCGCAACGCGA
*
791414 A-TTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGAAAAAATCGCAACGCGA
** *
791467 ATTTGACTATCGCAATGCGAA-TTGATTATCGCAACG
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACG
791503 GGTTTTGACT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 60 0.77
54 18 0.23
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (54 bp):
ATTTGACTATCGCAACACGAATTTGACTATCGCAACGAAAAAATCGCAACGCGA
Found at i:791441 original size:20 final size:20
Alignment explanation
Indices: 791405--791635 Score: 153
Period size: 20 Copynumber: 12.6 Consensus size: 20
791395 CTCAAAAATT
791405 GCAACGCGAA-TTGACTATC
1 GCAACGCGAATTTGACTATC
* *
791424 GCAACACGAATATGACTATC
1 GCAACGCGAATTTGACTATC
**
791444 GCAA--CGAA----AAAATC
1 GCAACGCGAATTTGACTATC
791458 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* *
791478 GCAATGCGAA-TTGATTATC
1 GCAACGCGAATTTGACTATC
**
791497 GCAACG-GGTTTTGACTATC
1 GCAACGCGAATTTGACTATC
**
791516 GCAA--C-AA---GAAAATC
1 GCAACGCGAATTTGACTATC
*
791530 GCAACGCGAATTTGACCATC
1 GCAACGCGAATTTGACTATC
*
791550 GCAACGCGAATTTGATTATC
1 GCAACGCGAATTTGACTATC
* *
791570 GCAACGGGTATTTGACTATC
1 GCAACGCGAATTTGACTATC
*
791590 GCAACGAGAA----A--ATC
1 GCAACGCGAATTTGACTATC
* * *
791604 GCAAAGCGTATTAGACTATC
1 GCAACGCGAATTTGACTATC
791624 GCAACGCGAATT
1 GCAACGCGAATT
791636 AACTTTGCGT
Statistics
Matches: 161, Mismatches: 30, Indels: 41
0.69 0.13 0.18
Matches are distributed among these distances:
14 27 0.17
16 6 0.04
17 2 0.01
18 6 0.04
19 34 0.21
20 86 0.53
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (20 bp):
GCAACGCGAATTTGACTATC
Found at i:791468 original size:34 final size:35
Alignment explanation
Indices: 791421--791629 Score: 165
Period size: 34 Copynumber: 5.8 Consensus size: 35
791411 CGAATTGACT
* *
791421 ATCGCAACACGAATATGACTATCGCAACGAA-AAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
**
791455 ATCGCAACGCGAATTTGACTATCGCAATGCGAATTGATT
1 ATCGCAACGCGAATTTGACTATCGCAA--CGAA-T-AAA
** *
791494 ATCGCAACG-GGTTTTGACTATCGCAAC-AAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
* **
791527 ATCGCAACGCGAATTTGACCATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAA--CGAA--T-AAA
* * *
791567 ATCGCAACGGGTATTTGACTATCGCAACG-AGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
* * *
791601 ATCGCAAAGCGTATTAGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
791630 CGAATTAACT
Statistics
Matches: 139, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
33 10 0.07
34 66 0.47
35 2 0.01
36 6 0.04
37 3 0.02
38 17 0.12
39 10 0.07
40 25 0.18
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (35 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
Found at i:791846 original size:14 final size:14
Alignment explanation
Indices: 791809--791847 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
791799 TCAATATTAA
*
791809 ACAAATCAACTTTT
1 ACAAATCAATTTTT
791823 ACAAATCAATTTTT
1 ACAAATCAATTTTT
*
791837 ATAAATCAATT
1 ACAAATCAATT
791848 AAACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
ACAAATCAATTTTT
Found at i:793810 original size:18 final size:18
Alignment explanation
Indices: 793784--793846 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
793774 ACTAAAATCA
* *
793784 CAACACGAATGACTATTG
1 CAACGCGAATGACTATCG
793802 CAACGCGAAAATGACTATCG
1 CAACGCG--AATGACTATCG
*
793822 CAACGTGAATTTGACTATCG
1 CAACGCGAA--TGACTATCG
793842 CAACG
1 CAACG
793847 AGAGAATCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.21
20 30 0.79
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (18 bp):
CAACGCGAATGACTATCG
Found at i:793816 original size:20 final size:20
Alignment explanation
Indices: 793791--793846 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
793781 TCACAACACG
*
793791 AATGACTATTGCAACGCGAA
1 AATGACTATCGCAACGCGAA
*
793811 AATGACTATCGCAACGTGAA
1 AATGACTATCGCAACGCGAA
**
793831 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
793847 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:793909 original size:18 final size:19
Alignment explanation
Indices: 793883--793940 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
793873 CTTAAAATCA
793883 CAACACG-AATGACTATCG
1 CAACACGAAATGACTATCG
*
793901 CAACGCGAAAATGACTATCG
1 CAACACG-AAATGACTATCG
793921 CAACAC-AAATTTGACTATCG
1 CAACACGAAA--TGACTATCG
793941 GAACGAGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.26
20 25 0.74
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (19 bp):
CAACACGAAATGACTATCG
Found at i:793932 original size:99 final size:99
Alignment explanation
Indices: 793758--793957 Score: 330
Period size: 99 Copynumber: 2.0 Consensus size: 99
793748 TTTTCAGAAG
*
793758 AAGAATAGAATCTAAAACTAAAATCACAACACGAATGACTATTGCAACGCGAAAATGACTATCGC
1 AAGAATAGAATCTAAAACTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCGC
***
793823 AACGTGAATTTGACTATCGCAACGAGAGAATCGC
66 AACACAAATTTGACTATCGCAACGAGAGAATCGC
*
793857 AAGAATA-AATCTGAAACTTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCG
1 AAGAATAGAATCTAAAAC-TAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCG
*
793921 CAACACAAATTTGACTATCGGAACGAGAGAATCGC
65 CAACACAAATTTGACTATCGCAACGAGAGAATCGC
793956 AA
1 AA
793958 TGCGATTTCC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 9 0.10
99 85 0.90
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (99 bp):
AAGAATAGAATCTAAAACTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCGC
AACACAAATTTGACTATCGCAACGAGAGAATCGC
Found at i:793935 original size:20 final size:20
Alignment explanation
Indices: 793890--793940 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
793880 TCACAACACG
*
793890 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACACGAA
793910 AATGACTATCGCAACAC-AA
1 AATGACTATCGCAACACGAA
*
793929 ATTTGACTATCG
1 A-ATGACTATCG
793941 GAACGAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (20 bp):
AATGACTATCGCAACACGAA
Found at i:794014 original size:20 final size:20
Alignment explanation
Indices: 793987--794054 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
793977 GCGATTCTTT
**
793987 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
794007 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
794027 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
794047 CGTTGCGA
1 CGTTGCGA
794055 AAGAAACTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:794268 original size:20 final size:20
Alignment explanation
Indices: 794243--794327 Score: 127
Period size: 20 Copynumber: 4.3 Consensus size: 20
794233 AGTTTACTTT
794243 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
794263 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
794283 ACAACGCG-AAATGACTATC
1 GCAACGCGAAAATGACTATC
* **
794302 ACAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
794322 GCAACG
1 GCAACG
794328 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.32
20 41 0.68
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:794300 original size:39 final size:40
Alignment explanation
Indices: 794244--794327 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
794234 GTTTACTTTG
*
794244 CAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCACAACGCGAAAATGACTATCA
** *
794284 CAACGCG-AAATGACTATCACAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCACAACGCGAAAATGACTATCA
794323 CAACG
1 CAACG
794328 AGAGAATCGC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.82
40 7 0.17
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (40 bp):
CAACGCGAAAATGACTATCACAACGCGAAAATGACTATCA
Found at i:794424 original size:20 final size:20
Alignment explanation
Indices: 794370--794434 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
794360 GCGATTCTTT
**
794370 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
794390 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
794410 CGTTGCGATGGTCATTTT-G
1 CGTTGCGATAGTCATTTTCG
794429 CGTTGC
1 CGTTGC
794435 AAAAGTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Done.