Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008281.1 Hibiscus syriacus cultivar Beakdansim tig00110943_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: 2054746
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:759016 original size:59 final size:60
Alignment explanation
Indices: 758843--759016 Score: 210
Period size: 60 Copynumber: 2.9 Consensus size: 60
758833 GTCCCTGAAT
* * * * * * *
758843 TATGACTCTCATTTTAATTTAGTCCTTACATTTTTAAAT-ATTCTAATTTCATCCTTAAAC
1 TATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAGATCATTCAAATTTCATCC-CAAAC
* *
758903 TATGACTCTCATTCTAAATTAGTCCTTAAACTTTT-GAACATTCAAATTTTATCCCAAAC
1 TATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAGATCATTCAAATTTCATCCCAAAC
* * *
758962 TATGAATCTCATTCTAAATTAGTCCCTAAACTTTTAGATCTTTC-AATTTCATCCC
1 TATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAGATCATTCAAATTTCATCCC
759017 CCATATTAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
59 48 0.49
60 50 0.51
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (60 bp):
TATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAGATCATTCAAATTTCATCCCAAAC
Found at i:764723 original size:28 final size:28
Alignment explanation
Indices: 764688--764755 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
764678 TCAATACGAT
764688 AAGCTCAGATAAAGGATCAAACAAATAA
1 AAGCTCAGATAAAGGATCAAACAAATAA
764716 AAGCTCAGATAAAGGATCAAACAAATAA
1 AAGCTCAGATAAAGGATCAAACAAATAA
* *
764744 AAACTCAAATAA
1 AAGCTCAGATAA
764756 TCCCACTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (28 bp):
AAGCTCAGATAAAGGATCAAACAAATAA
Found at i:766454 original size:19 final size:20
Alignment explanation
Indices: 766416--766457 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
766406 TTTAGTCTAA
766416 TATCAACACATATGAGACAT
1 TATCAACACATATGAGACAT
766436 TATCAACACATAT-AGACAT
1 TATCAACACATATGAGACAT
766455 TAT
1 TAT
766458 AAGGGGCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (20 bp):
TATCAACACATATGAGACAT
Found at i:767305 original size:21 final size:21
Alignment explanation
Indices: 767279--767361 Score: 157
Period size: 21 Copynumber: 4.0 Consensus size: 21
767269 TAACCGAAGC
*
767279 ATAGCTTGCCAATCCTGACAA
1 ATAGCTTGCCAATCCTGACAT
767300 ATAGCTTGCCAATCCTGACAT
1 ATAGCTTGCCAATCCTGACAT
767321 ATAGCTTGCCAATCCTGACAT
1 ATAGCTTGCCAATCCTGACAT
767342 ATAGCTTGCCAATCCTGACA
1 ATAGCTTGCCAATCCTGACA
767362 CATATCTACC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (21 bp):
ATAGCTTGCCAATCCTGACAT
Found at i:768846 original size:17 final size:17
Alignment explanation
Indices: 768824--768880 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
768814 TTATATAATA
*
768824 TATAGTATAGCATATAT
1 TATAGTATAGAATATAT
* *
768841 TATAGTATATATTATAT
1 TATAGTATAGAATATAT
*
768858 TATTATTATAGTAATATAT
1 TA-TAGTATAG-AATATAT
768877 TATA
1 TATA
768881 CATTATAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 16 0.50
18 8 0.25
19 8 0.25
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (17 bp):
TATAGTATAGAATATAT
Found at i:768856 original size:5 final size:5
Alignment explanation
Indices: 768836--768906 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
768826 TAGTATAGCA
*
768836 TATAT TATAGT ATATAT TATAT TATTAT TATAG TA-A- TATAT TATACAT
1 TATAT TATA-T -TATAT TATAT TA-TAT TATAT TATAT TATAT TAT--AT
*
768884 TATAG TATA- TATAT T-TAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
768907 AGAATTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
3 2 0.04
4 10 0.18
5 27 0.49
6 7 0.13
7 9 0.16
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:768868 original size:23 final size:23
Alignment explanation
Indices: 768838--768904 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
768828 GTATAGCATA
768838 TATTATAGTATATATTATATTAT
1 TATTATAGTATATATTATATTAT
*
768861 TATTATAGTAATATATTATA-CAT
1 TATTATAGT-ATATATTATATTAT
768884 TA-TAGTA-TATATATT-TATTAT
1 TATTA-TAGTATATATTATATTAT
768905 ATAGAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 2 0.05
21 9 0.23
22 3 0.08
23 15 0.38
24 10 0.26
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTATAGTATATATTATATTAT
Found at i:768892 original size:12 final size:12
Alignment explanation
Indices: 768817--768895 Score: 78
Period size: 12 Copynumber: 7.0 Consensus size: 12
768807 TTTTATGTTA
* *
768817 TATAATATATAG
1 TATAGTATATAT
*
768829 TATAGCATATAT
1 TATAGTATATAT
768841 TATAGTATATAT
1 TATAGTATATAT
*
768853 TATATTAT-TAT
1 TATAGTATATAT
768864 TATAGTA-ATA-
1 TATAGTATATAT
*
768874 TAT--TATACAT
1 TATAGTATATAT
768884 TATAGTATATAT
1 TATAGTATATAT
768896 ATTTATTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 6 0.11
11 11 0.20
12 33 0.61
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (12 bp):
TATAGTATATAT
Found at i:768893 original size:36 final size:38
Alignment explanation
Indices: 768835--768905 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 38
768825 ATAGTATAGC
* *
768835 ATATATTATAGTATATATTATAT-TA-TTATTATAGTA
1 ATATATTATAATATATAGTATATATATTTATTATAGTA
768871 ATATATTATACAT-TATAGTATATATATTTATTATA
1 ATATATTATA-ATATATAGTATATATATTTATTATA
768906 TAGAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 19 0.63
37 3 0.10
38 8 0.27
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (38 bp):
ATATATTATAATATATAGTATATATATTTATTATAGTA
Found at i:771979 original size:13 final size:13
Alignment explanation
Indices: 771956--772007 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
771946 ATCTGAGTCA
771956 ACCGATTGACTTTG
1 ACCG-TTGACTTTG
771970 ACCGTTGACTTTG
1 ACCGTTGACTTTG
* *
771983 ACACATTGACATTG
1 AC-CGTTGACTTTG
*
771997 ATCGTTGACTT
1 ACCGTTGACTT
772008 CAACCAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 18 0.56
14 14 0.44
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (13 bp):
ACCGTTGACTTTG
Found at i:777607 original size:18 final size:19
Alignment explanation
Indices: 777584--777620 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
777574 TTGCACTTAT
777584 TTTTCAAAATCAAA-ATAG
1 TTTTCAAAATCAAAGATAG
777602 TTTTCAAAATCAAAGATAG
1 TTTTCAAAATCAAAGATAG
777621 ACTTTGGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTTCAAAATCAAAGATAG
Found at i:781156 original size:24 final size:24
Alignment explanation
Indices: 781129--781188 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
781119 TACCCTCATA
781129 TGGTACCGATACTACTATATATAG
1 TGGTACCGATACTACTATATATAG
*
781153 TGGTACTGATACTACTATATATAG
1 TGGTACCGATACTACTATATATAG
781177 TGGTACCGATAC
1 TGGTACCGATAC
781189 CCCTCTAACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (24 bp):
TGGTACCGATACTACTATATATAG
Found at i:783756 original size:26 final size:25
Alignment explanation
Indices: 783727--783781 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
783717 AGTTTTATTA
783727 AAGTTTTCTC-TTTTATTTTACTTTTC
1 AAGTTTT-TCATTTTATTTTA-TTTTC
*
783753 AAGTTTTTCATTTTTCTTTTATTTTC
1 AAGTTTTTCA-TTTTATTTTATTTTC
783779 AAG
1 AAG
783782 CTTTGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 2 0.08
26 15 0.58
27 9 0.35
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.64
Consensus pattern (25 bp):
AAGTTTTTCATTTTATTTTATTTTC
Found at i:783860 original size:12 final size:12
Alignment explanation
Indices: 783838--783869 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
783828 AAATTTTTCA
783838 TAAGCCGAAAGCT
1 TAAG-CGAAAGCT
783851 TAAGCGAAAGCT
1 TAAGCGAAAGCT
783863 TAAGCGA
1 TAAGCGA
783870 TGACTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.16
Consensus pattern (12 bp):
TAAGCGAAAGCT
Found at i:793539 original size:14 final size:14
Alignment explanation
Indices: 793472--793543 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
793462 TCAAACTGGT
* *
793472 CTCAACCGAATCAA
1 CTCATCCGAGTCAA
*
793486 CTCATCTGAGTCAA
1 CTCATCCGAGTCAA
* *
793500 CCCATATCGAGTCAA
1 CTCAT-CCGAGTCAA
*
793515 CTCATCAGAGTCAA
1 CTCATCCGAGTCAA
**
793529 CTTGTCCGAGTCAA
1 CTCATCCGAGTCAA
793543 C
1 C
793544 CCACTGACTT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
14 34 0.76
15 11 0.24
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (14 bp):
CTCATCCGAGTCAA
Found at i:796809 original size:17 final size:17
Alignment explanation
Indices: 796738--796796 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
796728 ATTCATGCAT
796738 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
796755 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
796773 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
796790 CTAGTTC
1 CTAGTTC
796797 CTTTATTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 23 0.64
18 13 0.36
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:804851 original size:35 final size:34
Alignment explanation
Indices: 804792--804903 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 34
804782 AAAACATTCC
*
804792 TCAATTTCATT-ATAAATCCCAAATTTCAAAGTAAT
1 TCAATTTCATTCA-AAA-CCCAAATTTCAAAATAAT
*
804827 TCAATTTCATTCAAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCAAAACCC-AAATTTCAAAATAAT
* * *
804862 TCAATTACATTCTAAACCCCAAA-TTCTAAAATACT
1 TCAATTTCATTC-AAAACCCAAATTTC-AAAATAAT
804897 TCAATTT
1 TCAATTT
804904 AAGGAGAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
34 5 0.08
35 54 0.82
36 7 0.11
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCAAAACCCAAATTTCAAAATAAT
Found at i:805151 original size:22 final size:22
Alignment explanation
Indices: 805115--805157 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
805105 ATTGACATCC
**
805115 TTATAATTTTTATTTATTTAAA
1 TTATAATTTAAATTTATTTAAA
*
805137 TTATAATTTAAATTTTTTTAA
1 TTATAATTTAAATTTATTTAA
805158 TAGTTTGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATAATTTAAATTTATTTAAA
Found at i:805978 original size:35 final size:34
Alignment explanation
Indices: 805929--806041 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
805919 AAAAAAGACA
* *
805929 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
805964 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
805999 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
806034 GAAATTGA
1 GAAATTGA
806042 GAATTGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:806490 original size:22 final size:24
Alignment explanation
Indices: 806462--806510 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
806452 GCTTTATGCA
806462 ATAATTAA-TTAATAA-TTT-AAAT
1 ATAATTAATTTAA-AATTTTAAAAT
806484 ATAATTAATTTAAAATTTTAAAAT
1 ATAATTAATTTAAAATTTTAAAAT
806508 ATA
1 ATA
806511 TATAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.42
23 7 0.29
24 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATTAATTTAAAATTTTAAAAT
Found at i:807193 original size:2 final size:2
Alignment explanation
Indices: 807090--807174 Score: 73
Period size: 2 Copynumber: 42.5 Consensus size: 2
807080 AAAATATGAC
* ** * * *
807090 AT AT AT A- AT AT AA AT AT AT AT AT AT GC AT CAT AC AT AT GT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
** *
807132 AT AT AT GC AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
807174 A
1 A
807175 CATGCATACA
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
1 1 0.02
2 60 0.95
3 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:807219 original size:12 final size:12
Alignment explanation
Indices: 807083--807231 Score: 79
Period size: 12 Copynumber: 12.1 Consensus size: 12
807073 AAAAAATAAA
807083 ATATGACATATAT
1 ATAT-ACATATAT
*
807096 AATATAAATATAT
1 -ATATACATATAT
*
807109 ATATATGCATCATAC
1 ATATA--CAT-ATAT
* *
807124 ATAT--GTACAT
1 ATATACATATAT
* *
807134 ATATGCATGTAT
1 ATATACATATAT
*
807146 ATATATATATAT
1 ATATACATATAT
*
807158 ATATATATATAT
1 ATATACATATAT
**
807170 ATATACATGCAT
1 ATATACATATAT
*
807182 ACATACATATAT
1 ATATACATATAT
* *
807194 -CATACATATGT
1 ATATACATATAT
807205 ATATACATGCATAT
1 ATATACAT--ATAT
* *
807219 ATGTACTTATAT
1 ATATACATATAT
807231 A
1 A
807232 CATGCATCAT
Statistics
Matches: 104, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
10 6 0.06
11 11 0.11
12 58 0.56
13 7 0.07
14 15 0.14
15 7 0.07
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (12 bp):
ATATACATATAT
Found at i:807233 original size:45 final size:45
Alignment explanation
Indices: 807184--807272 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
807174 ACATGCATAC
* * * *
807184 ATACATATATCATACATATGTATATACATGCATATATGTACTTAT
1 ATACATACATCATACATATGCACATACATGCATATATATACTTAT
* * *
807229 ATACATGCATCATACATATGCACATGCATTCATATATATACTTA
1 ATACATACATCATACATATGCACATACATGCATATATATACTTA
807273 GGGTCAGTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (45 bp):
ATACATACATCATACATATGCACATACATGCATATATATACTTAT
Found at i:808266 original size:21 final size:22
Alignment explanation
Indices: 808218--808266 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
808208 TCTCTACCTT
808218 TTTTTA-AAAAAAAGAAAAAAA
1 TTTTTATAAAAAAAGAAAAAAA
** *
808239 TGATTATAAAAAAAG-AAAAAG
1 TTTTTATAAAAAAAGAAAAAAA
808260 TTTTTAT
1 TTTTTAT
808267 TTATAGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (22 bp):
TTTTTATAAAAAAAGAAAAAAA
Found at i:808552 original size:114 final size:113
Alignment explanation
Indices: 808303--808552 Score: 315
Period size: 114 Copynumber: 2.2 Consensus size: 113
808293 CGTTTTAAGT
* * * * * *
808303 CCCCCAAACATTCCCGTGTTTTTGTAAAATGGTCACTTTCAGGGATTGTTTTTATAATTTTCCCA
1 CCCCCAAACTTTGCCGTGTTTTTGCAAAATAGTCACTGTCAAGGATTGTTTTTATAATTTTCCCA
* *
808368 TTTATATGTATGCTTTATATTTTGTTTTTGTAAAATCTCATTCCAGGT
66 TTTACATGTATGCTTTATATTTTGTTTTTGTAAAATCTCATTCCAGGG
* * * *
808416 CCCCCAAACTTTGTCGTATTTTTGCAAAATAGTCGCTGTCAATGACTT-TTTTTCATAATTTTCC
1 CCCCCAAACTTTGCCGTGTTTTTGCAAAATAGTCACTGTCAAGGA-TTGTTTTT-ATAATTTTCC
*
808480 CATTTACATGTATGCTTTGTATTTT-TTTTTGGTAAAATCTCATTCCAGGG
64 CATTTACATGTATGCTTTATATTTTGTTTTT-GTAAAATCTCATTCCAGGG
* **
808530 CCCCCTATGTTTGCCGTGTTTTT
1 CCCCCAAACTTTGCCGTGTTTTT
808553 ACTTTTTGGT
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
113 45 0.39
114 71 0.61
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (113 bp):
CCCCCAAACTTTGCCGTGTTTTTGCAAAATAGTCACTGTCAAGGATTGTTTTTATAATTTTCCCA
TTTACATGTATGCTTTATATTTTGTTTTTGTAAAATCTCATTCCAGGG
Found at i:808647 original size:22 final size:21
Alignment explanation
Indices: 808622--808662 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
808612 TTTTATTTGA
808622 ATTTAG-TCACTATTAATTTTTT
1 ATTTAGCT-ACTATT-ATTTTTT
808644 ATTTAGCTACTATTATTTT
1 ATTTAGCTACTATTATTTT
808663 AATTTTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 12 0.67
23 1 0.06
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTAGCTACTATTATTTTTT
Found at i:808733 original size:51 final size:50
Alignment explanation
Indices: 808627--808734 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 50
808617 TTTGAATTTA
* * *
808627 GTCACTATTAATTTTTTATTTAGCTACTATTATTTTAATTTTTACGTTTTG
1 GTCACTATTAATTTCTTATTTAACTACTA-TATTTTAATTTTTACATTTTG
* * * *
808678 GTCACTATTTATTTCTTATTTAACTACTA-ACTTTTATTTTCTTGCATTTTT
1 GTCACTATTAATTTCTTATTTAACTACTATA-TTTTAATTT-TTACATTTTG
808729 GTCACT
1 GTCACT
808735 GTTATTTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.02
50 8 0.17
51 39 0.81
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.57
Consensus pattern (50 bp):
GTCACTATTAATTTCTTATTTAACTACTATATTTTAATTTTTACATTTTG
Found at i:808778 original size:11 final size:10
Alignment explanation
Indices: 808762--808817 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 10
808752 AATTAGGTCC
808762 TTTTATTTTAT
1 TTTTATTTT-T
808773 TTTTATTTTAT
1 TTTTATTTT-T
*
808784 GTTTTATGTTT
1 -TTTTATTTTT
808795 TTTTATTTCTT
1 TTTTATTT-TT
808806 TTTTATTATTT
1 TTTTATT-TTT
808817 T
1 T
808818 AATTAAGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
10 7 0.17
11 24 0.60
12 9 0.22
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:811183 original size:110 final size:110
Alignment explanation
Indices: 810974--811171 Score: 270
Period size: 110 Copynumber: 1.8 Consensus size: 110
810964 TCAGGGACCG
* * * * * *
810974 TTTTTATCATTTTCCCATTTATATGTATTCTTTGTATTTTTTGGTAAAATCTCATTATAGCTCCC
1 TTTTTATAATTTTCCCACTTACATGTATGCTTTGTATTTTTTGGTAAAATCTCATTACAGCGCCC
* *
811039 TCAAACATTGTCGTGTTTTTGTAAAATACTCACTATCAAGGATTA
66 CCAAACATTGTCATGTTTTTGTAAAATACTCACTATCAAGGATTA
* *
811084 TTTTTATAATTTTCCCACTTACATGTATGCTTTGTATTTTTTGGTAAAATCTCATTCCAGGGCCC
1 TTTTTATAATTTTCCCACTTACATGTATGCTTTGTATTTTTTGGTAAAATCTCATTACAGCGCCC
* ***
811149 CCTATGTTTGTCATGTTTTTGTA
66 CCAAACATTGTCATGTTTTTGTA
811172 TTTTGGTCAC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
110 74 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (110 bp):
TTTTTATAATTTTCCCACTTACATGTATGCTTTGTATTTTTTGGTAAAATCTCATTACAGCGCCC
CCAAACATTGTCATGTTTTTGTAAAATACTCACTATCAAGGATTA
Found at i:811320 original size:51 final size:51
Alignment explanation
Indices: 811237--811361 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 51
811227 TTTATTTTAA
**
811237 TTTAGTCACTATTAATTTCTGATTTAGCTACTATTA-TTTTAATTT-TTGCAT
1 TTTAGTCACTATTAATTTCTTTTTTAGCTACTA--ACTTTTAATTTCTTGCAT
* * * *
811288 TTTGGTCACTATTTATTTCTTTTTTAAG-TACTAACTTTTATTTTCTTTCAT
1 TTTAGTCACTATTAATTTCTTTTTT-AGCTACTAACTTTTAATTTCTTGCAT
*
811339 TTTAGTCACTATTAATTTATTTT
1 TTTAGTCACTATTAATTTCTTTT
811362 ATTTAATTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
49 1 0.02
50 8 0.13
51 51 0.82
52 2 0.03
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.58
Consensus pattern (51 bp):
TTTAGTCACTATTAATTTCTTTTTTAGCTACTAACTTTTAATTTCTTGCAT
Found at i:811459 original size:21 final size:20
Alignment explanation
Indices: 811377--811461 Score: 88
Period size: 21 Copynumber: 4.3 Consensus size: 20
811367 ATTAGGTCCT
*
811377 TTTATTTTTATTTTTATTTAT
1 TTTATTTTTA-TTTTATTTAG
811398 TTTATTTTTATTTTATGTT-G
1 TTTATTTTTATTTTAT-TTAG
*
811418 TTT-TATTTA-TTTATTTA-
1 TTTATTTTTATTTTATTTAG
*
811435 TTTATTTTTATTTTAATTAAG
1 TTTATTTTTATTTT-ATTTAG
811456 TTTATT
1 TTTATT
811462 ATTAATTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
17 5 0.09
18 10 0.19
19 8 0.15
20 13 0.24
21 18 0.33
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTATTTTTATTTTATTTAG
Found at i:814809 original size:13 final size:14
Alignment explanation
Indices: 814774--814812 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
814764 ATCCAGTCAT
*
814774 TGAGTCAACTCAGC
1 TGAGTTAACTCAGC
*
814788 TGGGTTAACTCA-C
1 TGAGTTAACTCAGC
814801 TGAGTTAACTCA
1 TGAGTTAACTCA
814813 TTAACTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (14 bp):
TGAGTTAACTCAGC
Found at i:822958 original size:2 final size:2
Alignment explanation
Indices: 822951--823161 Score: 97
Period size: 2 Copynumber: 104.0 Consensus size: 2
822941 GGCCCGTCCT
* * * * * * * *
822951 TA TA TA TA TA TA TA TA CA TG CA TA TG TA CA TA CA TG TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * *
822993 TA TA TT TA TA TA TA TA AA TG TA TA TA TA TA CA TG CA TCA TG CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* * * * * *
823036 TA CA TCA TA TA TA TA TA TA TA CA TCA TA CA TA CA TCA AA CA TA
1 TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA TA T-A TA TA TA
* *
823079 TA TA TA TA TA TA TA T- TA AA CT- TA TA CA TA TA -A GTA 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
* *
823120 TA TA TG TA TG TA TA TA TA CT- 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
823162 CTAGCGGAGC
Statistics
Matches: 147, Mismatches: 51, Indels: 22
0.67 0.23 0.10
Matches are distributed among these distances:
1 4 0.03
2 134 0.91
3 9 0.06
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:823043 original size:11 final size:11
Alignment explanation
Indices: 823020--823078 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
823010 ATGTATATAT
*
823020 ATACATGCATC
1 ATACATACATC
*
823031 ATGCATACATC
1 ATACATACATC
*
823042 AT--ATATAT-
1 ATACATACATC
*
823050 ATATATACATC
1 ATACATACATC
823061 ATACATACATC
1 ATACATACATC
*
823072 AAACATA
1 ATACATA
823079 TATATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 2 0.05
9 5 0.13
10 5 0.13
11 27 0.69
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (11 bp):
ATACATACATC
Found at i:825529 original size:14 final size:15
Alignment explanation
Indices: 825512--825552 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
825502 TGATGAATTA
*
825512 TGTTTT-CTTATGAC
1 TGTTTTACTCATGAC
825526 TGTTTTACTCATGAC
1 TGTTTTACTCATGAC
*
825541 TGTTTTGCTCAT
1 TGTTTTACTCAT
825553 AGTTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.54
Consensus pattern (15 bp):
TGTTTTACTCATGAC
Found at i:841219 original size:49 final size:49
Alignment explanation
Indices: 841163--841270 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 49
841153 CCATGAGTGG
* *
841163 CACCTTTTATGCCGAAAGGCACCA-TTATCCATTTAACTTTCATTTGTGA
1 CACCTTTTACGCCAAAAGGCA-CAGTTATCCATTTAACTTTCATTTGTGA
* * * *
841212 CACCTTTTACGCCAAAATGTACAGTTATGCATTTAACTTTCATTTGTGT
1 CACCTTTTACGCCAAAAGGCACAGTTATCCATTTAACTTTCATTTGTGA
841261 CACCTTTTAC
1 CACCTTTTAC
841271 TCTCAATGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 2 0.04
49 50 0.96
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (49 bp):
CACCTTTTACGCCAAAAGGCACAGTTATCCATTTAACTTTCATTTGTGA
Found at i:843080 original size:12 final size:13
Alignment explanation
Indices: 843053--843083 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
843043 CAAAAAAAGG
843053 AAAAATAAGTCAA
1 AAAAATAAGTCAA
*
843066 AAAAATAATTCAA
1 AAAAATAAGTCAA
843079 AAAAA
1 AAAAA
843084 GCCAATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAAATAAGTCAA
Found at i:843718 original size:189 final size:188
Alignment explanation
Indices: 843392--843770 Score: 569
Period size: 189 Copynumber: 2.0 Consensus size: 188
843382 ATTTTTTGGG
* * * * * * *
843392 AAGTTCAGGGACTTAGTCCTGAGTTTTTCATTTTTGGGTTATAGATAAAATTTAAAAATGGCAAA
1 AAGTTCAGGGACTTAGTCATAAATTTTCCATTTTTGGGCTATAGAGAAAATTTAAAAATGGAAAA
* * *
843457 TATATGGCTATAGAGGCTTGAACCCGTGACATAGGGGATGGCCACCCATGCGTTAGCCATCTAGC
66 TATATGGCTATAGAGGCTTGAACCAGTGACACAGGGGATGGCCACCCATGCGTTAGCCATATAGC
843522 CTAGGTCACTACTCGTGATTATAATAATAAAAATAAATTTTAAGGGTTAGGTTCGGGTT
131 CTAGGTCACTACTCGTGATTATAATAATAAAAATAAATTTTAAGGGTTAGG-TCGGGTT
*
843581 AAGTTCAGGGACTTAGTCATAAATTTTCCATTTTTGGGCTGTAGAGAAAATTTAAAAATGGAAAA
1 AAGTTCAGGGACTTAGTCATAAATTTTCCATTTTTGGGCTATAGAGAAAATTTAAAAATGGAAAA
* * * *
843646 TATATGGTTCTAGAGGTTTGAACCAGTGACCCAGGGGATGGCCACCCATGCGTTAGCCATATAGC
66 TATATGGCTATAGAGGCTTGAACCAGTGACACAGGGGATGGCCACCCATGCGTTAGCCATATAGC
* ** * *
843711 GTAGGTCACTGTTGGTGATTATAATAATAAAATTAAATTTTAAGGGTTAGGTCGGGTT
131 CTAGGTCACTACTCGTGATTATAATAATAAAAATAAATTTTAAGGGTTAGGTCGGGTT
843769 AA
1 AA
843771 ATACCCAAAT
Statistics
Matches: 170, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
188 9 0.05
189 161 0.95
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (188 bp):
AAGTTCAGGGACTTAGTCATAAATTTTCCATTTTTGGGCTATAGAGAAAATTTAAAAATGGAAAA
TATATGGCTATAGAGGCTTGAACCAGTGACACAGGGGATGGCCACCCATGCGTTAGCCATATAGC
CTAGGTCACTACTCGTGATTATAATAATAAAAATAAATTTTAAGGGTTAGGTCGGGTT
Found at i:850144 original size:17 final size:17
Alignment explanation
Indices: 850120--850160 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
850110 TCAAAGAAAG
850120 ATGA-CCATCTCTTCCA
1 ATGATCCATCTCTTCCA
850136 ATGATCCATCTCTTCCA
1 ATGATCCATCTCTTCCA
850153 ATGATCCA
1 ATGATCCA
850161 CATAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.27, C:0.34, G:0.07, T:0.32
Consensus pattern (17 bp):
ATGATCCATCTCTTCCA
Found at i:855548 original size:33 final size:33
Alignment explanation
Indices: 855506--855573 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
855496 TCATAACAGT
855506 AACGACACTCTCAGTGTCCTCTATCAAAATTTG
1 AACGACACTCTCAGTGTCCTCTATCAAAATTTG
855539 AACGACACTCTCAGTGTCCTCTATCAAAATTTG
1 AACGACACTCTCAGTGTCCTCTATCAAAATTTG
855572 AA
1 AA
855574 GGTCTCAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (33 bp):
AACGACACTCTCAGTGTCCTCTATCAAAATTTG
Found at i:856813 original size:17 final size:15
Alignment explanation
Indices: 856786--856825 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
856776 TTCATTGATG
856786 ATTTTTTTATAAACAT
1 ATTTTTTTATAAA-AT
856802 ATTTTTTATATAAAAT
1 ATTTTTT-TATAAAAT
856818 ATTTTTTT
1 ATTTTTTT
856826 CATTTAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 16 0.70
17 6 0.26
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTTTATAAAAT
Found at i:856936 original size:51 final size:51
Alignment explanation
Indices: 856830--856961 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 51
856820 TTTTTTCATT
* * * * *
856830 TAGATCTAGATCTTATAAAATATAGTTTATTGTAAGTATTTTGTTTTCATT
1 TAGATCTAGATCTTATAAAATATAGTTTATTGTAAGTATCTAGTCTACATC
*
856881 TAGATCTAGATCTTATAAAATCTAGTTTATTGTAAG-ATCTAG-----ATC
1 TAGATCTAGATCTTATAAAATATAGTTTATTGTAAGTATCTAGTCTACATC
* * *
856926 TAGATCTAGATCTTATAAATTAAAGTATATTGTAAG
1 TAGATCTAGATCTTATAAAATATAGTTTATTGTAAG
856962 GTGATAATTA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 34 0.47
50 4 0.05
51 35 0.48
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (51 bp):
TAGATCTAGATCTTATAAAATATAGTTTATTGTAAGTATCTAGTCTACATC
Found at i:863895 original size:61 final size:61
Alignment explanation
Indices: 863800--863921 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
863790 AATGTTTTGA
863800 TGCTTAGGAGGTATCATTTGGACCCATCCCACATCATTCTATTATAGCATATCAAGGTATG
1 TGCTTAGGAGGTATCATTTGGACCCATCCCACATCATTCTATTATAGCATATCAAGGTATG
863861 TGCTTAGGAGGTATCATTTGGACCCATCCCACATCATTCTATTATAGCATATCAAGGTATG
1 TGCTTAGGAGGTATCATTTGGACCCATCCCACATCATTCTATTATAGCATATCAAGGTATG
863922 CCAAGATATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (61 bp):
TGCTTAGGAGGTATCATTTGGACCCATCCCACATCATTCTATTATAGCATATCAAGGTATG
Found at i:876820 original size:16 final size:16
Alignment explanation
Indices: 876789--876838 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
876779 ATAAATTCTA
876789 TTAATGTTTTTCTTAATT
1 TTAAT-TTTTT-TTAATT
876807 TTAATTTTTTTTAATT
1 TTAATTTTTTTTAATT
*
876823 TT-ATTATTTTATAATT
1 TTAATT-TTTTTTAATT
876839 CCATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 5 0.17
18 5 0.17
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTAATTTTTTTTAATT
Found at i:877292 original size:28 final size:27
Alignment explanation
Indices: 877226--877305 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
877216 TCTTAAATCT
* * *
877226 TAAATACTAAACTAAAATCTCTAATCCA
1 TAAATCCTAAACTATAATC-ATAATCCA
*
877254 TAAATCCTAAACCCTAT-ATCATAATCCC
1 TAAATCCTAAA--CTATAATCATAATCCA
**
877282 TAAATTTTAAACTATAATCATAAT
1 TAAATCCTAAACTATAATCATAAT
877306 TCTAATACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
26 4 0.09
27 8 0.19
28 25 0.58
29 3 0.07
30 3 0.07
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAATCCTAAACTATAATCATAATCCA
Found at i:881898 original size:26 final size:25
Alignment explanation
Indices: 881832--881906 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
881822 TTTTACAGTG
* *
881832 TTGGAATTAAGTGTAAAATTTCACTA
1 TTGGAATTAAGTGT-TAATTTCACCA
* * *
881858 GTGTAAGTTTA-TGTTAAGTTTCACCA
1 TTGGAA-TTAAGTGTTAA-TTTCACCA
881884 TTGGAATTAAGTGTTAATTTCAC
1 TTGGAATTAAGTGTTAATTTCAC
881907 TGATATAAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
25 11 0.29
26 24 0.63
27 3 0.08
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (25 bp):
TTGGAATTAAGTGTTAATTTCACCA
Found at i:881938 original size:102 final size:102
Alignment explanation
Indices: 881756--881994 Score: 318
Period size: 102 Copynumber: 2.3 Consensus size: 102
881746 ACTTACACCG
*** * *
881756 GTGTAAGTTTATGTTAAGTTTCATTGCTGGAATTAAGTGTTAATTTCACTGGTGTAAGTATGTGA
1 GTGTAAGTTTATGTTAAGTTTCACCACTGGAATTAAGTGTTAATTTCACTGATATAAGTATGTGA
881821 TTTTTACAGTGTTGGAATTAAGTGTAAAATTTCACTA
66 TTTTTACAGTGTTGGAATTAAGTGTAAAATTTCACTA
*
881858 GTGTAAGTTTATGTTAAGTTTCACCATTGGAATTAAGTGTTAATTTCACTGATATAAGTATGTGA
1 GTGTAAGTTTATGTTAAGTTTCACCACTGGAATTAAGTGTTAATTTCACTGATATAAGTATGTGA
* * * *
881923 TATTTT-CAGTTTTGGAATTATGTGTGAAATTTCACTG
66 T-TTTTACAGTGTTGGAATTAAGTGTAAAATTTCACTA
* ** * * *
881960 GTGTAAATAAATGGTATGTTTCACTACTGGAATTA
1 GTGTAAGTTTATGTTAAGTTTCACCACTGGAATTA
881995 TATGCATAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
102 115 0.97
103 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (102 bp):
GTGTAAGTTTATGTTAAGTTTCACCACTGGAATTAAGTGTTAATTTCACTGATATAAGTATGTGA
TTTTTACAGTGTTGGAATTAAGTGTAAAATTTCACTA
Found at i:881991 original size:52 final size:52
Alignment explanation
Indices: 881755--882023 Score: 208
Period size: 51 Copynumber: 5.2 Consensus size: 52
881745 TACTTACACC
* * * * ** *
881755 GGTGTAAGTTTATGTTAAGTTTCATTGCTGGAATTAAGTGT-TAATTTCACT
1 GGTGTAAGTATATGATATGTTTCACTATTGGAATTAAGTGTAAAATTTCACT
* * *
881806 GGTGTAAGTATGTGAT-T-TTTACAGTGTTGGAATTAAGTGTAAAATTTCACT
1 GGTGTAAGTATATGATATGTTT-CACTATTGGAATTAAGTGTAAAATTTCACT
* * * * * *
881857 AGTGTAAGTTTATGTTAAGTTTCACCATTGGAATTAAGTGT-TAATTTCACT
1 GGTGTAAGTATATGATATGTTTCACTATTGGAATTAAGTGTAAAATTTCACT
* * * * * * *
881908 GATATAAGTATGTGATAT-TTTCAGTTTTGGAATTATGTGTGAAATTTCACT
1 GGTGTAAGTATATGATATGTTTCACTATTGGAATTAAGTGTAAAATTTCACT
* * * * *
881959 GGTGTAAATAAATGGTATGTTTCACTACTGGAATTATA-TGCATAAAAGTTCACT
1 GGTGTAAGTATATGATATGTTTCACTATTGGAATTA-AGTG--TAAAATTTCACT
882013 GGTGTAAGTAT
1 GGTGTAAGTAT
882024 GAGTTGTAAA
Statistics
Matches: 167, Mismatches: 42, Indels: 15
0.75 0.19 0.07
Matches are distributed among these distances:
49 3 0.02
50 35 0.21
51 75 0.45
52 32 0.19
53 3 0.02
54 19 0.11
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (52 bp):
GGTGTAAGTATATGATATGTTTCACTATTGGAATTAAGTGTAAAATTTCACT
Found at i:884156 original size:29 final size:28
Alignment explanation
Indices: 884024--884186 Score: 146
Period size: 29 Copynumber: 5.7 Consensus size: 28
884014 AATTGTTGTT
* * * *
884024 AGGTGATATTCTGGGAAATATTTTGATAA
1 AGGTGACATTTTGGGAATTATTTCGA-AA
*
884053 AGGTGACATTTTGGGAATTATTTTGAAA
1 AGGTGACATTTTGGGAATTATTTCGAAA
* *
884081 AGGGTGACATTATGGGAAATATTTCGAAA
1 A-GGTGACATTTTGGGAATTATTTCGAAA
* *
884110 AGGTAACATATTGGGAATTATTTCGTAAA
1 AGGTGACATTTTGGGAATTATTTCG-AAA
* * * **
884139 AGGTGACACTCTGTGAATTATTTAAAAA
1 AGGTGACATTTTGGGAATTATTTCGAAA
* *
884167 ATGGTAACTTTTTGGGAATT
1 A-GGTGACATTTTGGGAATT
884187 TTCAAATGTT
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
28 27 0.25
29 82 0.75
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (28 bp):
AGGTGACATTTTGGGAATTATTTCGAAA
Found at i:884161 original size:57 final size:56
Alignment explanation
Indices: 884024--884186 Score: 182
Period size: 57 Copynumber: 2.8 Consensus size: 56
884014 AATTGTTGTT
* * * *
884024 AGGTGATATTCTGGGAAATATTTTGATAAAGGTGACATTTTGGGAATTATTTTGAAA
1 AGGTGACATTCTGGGAAATATTTAGA-AAAGGTAACATTTTGGGAATTATTTCGAAA
* * *
884081 AGGGTGACATTATGGGAAATATTTCGAAAAGGTAACATATTGGGAATTATTTCGTAAA
1 A-GGTGACATTCTGGGAAATATTTAGAAAAGGTAACATTTTGGGAATTATTTCG-AAA
* * * * *
884139 AGGTGACACTCTGTGAATTATTTAAAAAATGGTAACTTTTTGGGAATT
1 AGGTGACATTCTGGGAAATATTTAGAAAA-GGTAACATTTTGGGAATT
884187 TTCAAATGTT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 47 0.53
58 42 0.47
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (56 bp):
AGGTGACATTCTGGGAAATATTTAGAAAAGGTAACATTTTGGGAATTATTTCGAAA
Found at i:887222 original size:71 final size:70
Alignment explanation
Indices: 887074--887288 Score: 283
Period size: 71 Copynumber: 3.1 Consensus size: 70
887064 TTAAATCATG
* * *
887074 TCAAGA-AAA-TGTCTCGAGTGAGAGGAAATGTTTCAAGAGAAAATATTCAAGCGAGATGAAATT
1 TCAAGAGAAACTGTCTCGAGTGAGAGAAAATGTTTCAAGGGAAAATATTCAAGTGAGATGAAATT
887137 TTGTT
66 TTGTT
* * * * *
887142 TCGAGAGAAACTGTCTTGAGTGAGACAAAATGTTTTAAGGGAAAATATGTCAAGTGAGATGATAT
1 TCAAGAGAAACTGTCTCGAGTGAGAGAAAATGTTTCAAGGGAAAATAT-TCAAGTGAGATGAAAT
887207 TTTGTT
65 TTTGTT
* **
887213 TCAAGAGAAACTATCTCCTGTGAGATGAAAAT-TTTCAAGGGAAAATATCTCAAGTGAGATGAAA
1 TCAAGAGAAACTGTCTCGAGTGAGA-GAAAATGTTTCAAGGGAAAATAT-TCAAGTGAGATGAAA
887277 TTTTGTT
64 TTTTGTT
887284 TCAAG
1 TCAAG
887289 GGAAGAGAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
68 5 0.04
69 3 0.02
70 32 0.25
71 81 0.64
72 5 0.04
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (70 bp):
TCAAGAGAAACTGTCTCGAGTGAGAGAAAATGTTTCAAGGGAAAATATTCAAGTGAGATGAAATT
TTGTT
Found at i:887236 original size:37 final size:36
Alignment explanation
Indices: 887077--887453 Score: 193
Period size: 37 Copynumber: 10.4 Consensus size: 36
887067 AATCATGTCA
* * * *
887077 AGAAAATGTCTCGAGTGAGAGGAA--ATGTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAATTTTGTTTCAAG
* *
887111 AGAAAATAT-TCAAGCGAGATGAAATTTTGTTTCGAG
1 AGAAAATATCTCAAGTGAGATG-AATTTTGTTTCAAG
* * ** * ** *
887147 AGAAACTGTCTTGAGTGAGA-CAA-AATGTTTTAAG
1 AGAAAATATCTCAAGTGAGATGAATTTTGTTTCAAG
* *
887181 GGAAAATATGTCAAGTGAGATGATATTTTGTTTCAAG
1 AGAAAATATCTCAAGTGAGATGA-ATTTTGTTTCAAG
* ** **
887218 AGAAACTATCTCCTGTGAGATGAA-AAT-TTTCAAG
1 AGAAAATATCTCAAGTGAGATGAATTTTGTTTCAAG
*
887252 GGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAAGGGAAG
1 AGAAAATATCTCAAGTGAGATG-AATTTTGTTTC-----AAG
*
887294 AGAAAATATCTCAAGTGAAATGAAGTTTTGTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAA-TTTTGTTTCAAG
* * ** * *
887331 A-AGATTATCTCAAGTGAGACAAAATTTGTTTTTGAA-
1 AGAAAATATCTCAAGTGAGA-TGAATTT-TGTTTCAAG
*** *
887367 A-AAAAGTATCTCAAGTGAGAT-AAAAATATTTCAAG
1 AGAAAA-TATCTCAAGTGAGATGAATTTTGTTTCAAG
* * * ** * *
887402 AGAAACTATCTCGAGTGAAACAAATTTTGTTTTATG
1 AGAAAATATCTCAAGTGAGATGAATTTTGTTTCAAG
887438 -GAAAACTATCTCAAGT
1 AGAAAA-TATCTCAAGT
887454 AGGATAAAAT
Statistics
Matches: 252, Mismatches: 68, Indels: 44
0.69 0.19 0.12
Matches are distributed among these distances:
33 9 0.04
34 62 0.25
35 25 0.10
36 59 0.23
37 63 0.25
41 2 0.01
42 32 0.13
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (36 bp):
AGAAAATATCTCAAGTGAGATGAATTTTGTTTCAAG
Found at i:887287 original size:22 final size:22
Alignment explanation
Indices: 887262--887330 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
887252 GGAAAATATC
887262 TCAAGTGAGATGAAATTTTGTT
1 TCAAGTGAGATGAAATTTTGTT
* * * *
887284 TCAAGGGAAGA-GAAA--ATATC
1 TCAAGTG-AGATGAAATTTTGTT
* *
887304 TCAAGTGAAATGAAGTTTTGTT
1 TCAAGTGAGATGAAATTTTGTT
887326 TCAAG
1 TCAAG
887331 AAGATTATCT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
22 17 0.52
23 3 0.09
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (22 bp):
TCAAGTGAGATGAAATTTTGTT
Found at i:892362 original size:102 final size:102
Alignment explanation
Indices: 892244--892428 Score: 255
Period size: 102 Copynumber: 1.8 Consensus size: 102
892234 TCTATGTTAA
* * * * * *
892244 AGTTTCATCGCTGGAATTAAGTGTTAATTTCACTAGTGTAATTATTTAATATTTCTAA-TGTTGA
1 AGTTTCACCACTGGAATAAAGTGTTAATTTCACTAGTGTAAGTATGTAATATTT-TAAGTGCTGA
892308 AATTATGTGTGAAATTTCACTGGTGTAGGTTTATGTTG
65 AATTATGTGTGAAATTTCACTGGTGTAGGTTTATGTTG
* * * *
892346 AGTTTCACCACTGGAATAAAGTGTTAATTTTACTGGTGTAAGTATGTGATATTTTAAGTGCTGGA
1 AGTTTCACCACTGGAATAAAGTGTTAATTTCACTAGTGTAAGTATGTAATATTTTAAGTGCTGAA
*
892411 ATTATTTGTGAAATTTCA
66 ATTATGTGTGAAATTTCA
892429 TAGAAGTAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 3 0.04
102 68 0.96
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (102 bp):
AGTTTCACCACTGGAATAAAGTGTTAATTTCACTAGTGTAAGTATGTAATATTTTAAGTGCTGAA
ATTATGTGTGAAATTTCACTGGTGTAGGTTTATGTTG
Found at i:892454 original size:102 final size:102
Alignment explanation
Indices: 892229--892455 Score: 242
Period size: 102 Copynumber: 2.2 Consensus size: 102
892219 ATACACCAGT
* * * * *
892229 GTAAGTCTATGTTAAAGTTTCATCGCTGGAATTAAGTGTTAATTTCACTAGTGTAATTATTTAAT
1 GTAAGTCTATGTTAAA-TTTCACCACTGGAATAAAGTGTTAATTTCACTAGTGTAAGTATGTAAT
* **
892294 ATTTCTAATGTTGAAATTATGTGTGAAATTTCACTGGT
65 ATTTCTAATGCTGAAATTATGTGTGAAATTTCACTGAA
* * * * * * *
892332 GTAGGTTTATGTTGAGTTTCACCACTGGAATAAAGTGTTAATTTTACTGGTGTAAGTATGTGATA
1 GTAAGTCTATGTTAAATTTCACCACTGGAATAAAGTGTTAATTTCACTAGTGTAAGTATGTAATA
* *
892397 TTT-TAAGTGCTGGAATTATTTGTGAAATTTCA-TAGAA
66 TTTCTAA-TGCTGAAATTATGTGTGAAATTTCACT-GAA
* *
892434 GTAAGTCAATTTTAAATTTCAC
1 GTAAGTCTATGTTAAATTTCAC
892456 TACTATAATT
Statistics
Matches: 99, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
101 4 0.04
102 83 0.84
103 12 0.12
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (102 bp):
GTAAGTCTATGTTAAATTTCACCACTGGAATAAAGTGTTAATTTCACTAGTGTAAGTATGTAATA
TTTCTAATGCTGAAATTATGTGTGAAATTTCACTGAA
Found at i:897113 original size:19 final size:19
Alignment explanation
Indices: 897089--897140 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
897079 AATAGCCAGA
897089 GTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGGCTG
897108 GTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGGCTG
897127 GTGCATCGATGCAT
1 GTGCATCGATGCAT
897141 CAAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.17, C:0.21, G:0.35, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCATGGCTG
Found at i:897206 original size:84 final size:83
Alignment explanation
Indices: 897044--897206 Score: 206
Period size: 84 Copynumber: 2.0 Consensus size: 83
897034 TGGACCCTTA
* * *
897044 GTGCATCGATGCATGATATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTGG
*
897109 TGCATCGATGCATGGCTG
66 TGAATCGATGCATGGCTG
*
897127 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
* *
897189 TATGTGAATTGATGCATG
63 T-GGTGAATCGATGCATG
897207 AAATGCATTC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
83 29 0.42
84 37 0.54
85 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (83 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTGG
TGAATCGATGCATGGCTG
Found at i:897270 original size:65 final size:63
Alignment explanation
Indices: 897105--897272 Score: 171
Period size: 65 Copynumber: 2.6 Consensus size: 63
897095 CGATGCATGG
*
897105 CTGGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACT
1 CTGGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAACT
* * * * ** *
897169 CTGAGTGCATCGATGCATAGTAT-GTGAATTGATGCATGAAATGCATTCGATG-TTCA-ATTTAT
1 CTG-GTGCATCGATGCATGGT-TGGTGCATCGATGCATCAAATGCATTCGATGTTTCATA-AAAC
897231 T
63 T
*
897232 CCATGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 -C-TGGTGCATCGATGCATGG-TTGGTGCATCGATGCATCA
897273 CTTTGAAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 6 0.07
64 20 0.24
65 56 0.67
66 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (63 bp):
CTGGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAACT
Found at i:897665 original size:34 final size:34
Alignment explanation
Indices: 897627--897699 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
897617 TTATCATTTC
897627 TCCCCTTTAAAACATTTTAACACTTTAACACTTA
1 TCCCCTTTAAAACATTTTAACACTTTAACACTTA
* *
897661 TCCCCTTTAAAACATTTTAACACTTTAACATTTC
1 TCCCCTTTAAAACATTTTAACACTTTAACACTTA
897695 TCCCC
1 TCCCC
897700 CTTTTTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (34 bp):
TCCCCTTTAAAACATTTTAACACTTTAACACTTA
Found at i:897692 original size:16 final size:16
Alignment explanation
Indices: 897637--897693 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
897627 TCCCCTTTAA
897637 AACATTTTAACACTTT
1 AACATTTTAACACTTT
* * *
897653 AACA-CTTATCCCCTTT
1 AACATTTTA-ACACTTT
897669 AAAACATTTTAACACTTT
1 --AACATTTTAACACTTT
897687 AACATTT
1 AACATTT
897694 CTCCCCCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
15 3 0.10
16 16 0.52
18 9 0.29
19 3 0.10
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
AACATTTTAACACTTT
Found at i:899604 original size:21 final size:23
Alignment explanation
Indices: 899562--899604 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
899552 TAGATTTTCG
*
899562 ATTTTTTTTAATTTCGAGAATTCA
1 ATTTTTTTT-ATTTCGAAAATTCA
899586 ATTTTTTTT-TTT-GAAAATT
1 ATTTTTTTTATTTCGAAAATT
899605 TTTGAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 3 0.17
24 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTTTTTTTATTTCGAAAATTCA
Found at i:910221 original size:39 final size:39
Alignment explanation
Indices: 910178--910311 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
910168 TATCCTATGA
* *
910178 ACAAACCAGAGGAGCCTACAGTAAGGACTTAGCTTTAGC
1 ACAAAGCAGAGGAGCCTACAGTAAGGACTTACCTTTAGC
* * *
910217 ACAAAGCTGAGGAGCCAAC-GATAAGGTA-TTATCTTGT-GC
1 ACAAAGCAGAGGAGCCTACAG-TAAGG-ACTTACCTT-TAGC
** * *
910256 ATGAAGCAGAGGAGCCTATAGTAAGGACTTACCTTGAGC
1 ACAAAGCAGAGGAGCCTACAGTAAGGACTTACCTTTAGC
910295 ACAAAG-ATGAGGAGCCT
1 ACAAAGCA-GAGGAGCCT
910312 GCGGAAATCG
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
38 3 0.04
39 69 0.92
40 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (39 bp):
ACAAAGCAGAGGAGCCTACAGTAAGGACTTACCTTTAGC
Found at i:910249 original size:78 final size:78
Alignment explanation
Indices: 910139--910310 Score: 209
Period size: 78 Copynumber: 2.2 Consensus size: 78
910129 TACCCTATAT
* *** *
910139 ACAAAGCAGAGGAGCTTGCGATAAGGTTTTATCCTATGAACAAACCAGAGGAGCCTACAGTAAGG
1 ACAAAGCTGAGGAGCCAACGATAAGGTATTATCCTATGAACAAACCAGAGGAGCCTACAGTAAGG
* *
910204 ACTTAGCTTTAGC
66 ACTTACCTTGAGC
* * * ** * *
910217 ACAAAGCTGAGGAGCCAACGATAAGGTATTATCTTGTGCATGAAGCAGAGGAGCCTATAGTAAGG
1 ACAAAGCTGAGGAGCCAACGATAAGGTATTATCCTATGAACAAACCAGAGGAGCCTACAGTAAGG
910282 ACTTACCTTGAGC
66 ACTTACCTTGAGC
*
910295 ACAAAGATGAGGAGCC
1 ACAAAGCTGAGGAGCC
910311 TGCGGAAATC
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (78 bp):
ACAAAGCTGAGGAGCCAACGATAAGGTATTATCCTATGAACAAACCAGAGGAGCCTACAGTAAGG
ACTTACCTTGAGC
Found at i:912515 original size:16 final size:15
Alignment explanation
Indices: 912478--912525 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
912468 CTCGACTTTT
912478 TTAAAAGAAAATAAA
1 TTAAAAGAAAATAAA
912493 TTGAAAAGAAAAGTGAAA
1 TT-AAAAGAAAA-T-AAA
*
912511 TAAAAAGAAGAATAA
1 TTAAAAGAA-AATAA
912526 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 9 0.32
18 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.17
Consensus pattern (15 bp):
TTAAAAGAAAATAAA
Found at i:922418 original size:23 final size:23
Alignment explanation
Indices: 922388--922433 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
922378 TTTCCCAAAA
922388 ATACATCACCTGTAGATACAACT
1 ATACATCACCTGTAGATACAACT
922411 ATACATCACCTGTAGATACAACT
1 ATACATCACCTGTAGATACAACT
922434 TTATACGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (23 bp):
ATACATCACCTGTAGATACAACT
Found at i:927151 original size:44 final size:44
Alignment explanation
Indices: 927096--927179 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
927086 GTTGGAGGAA
*
927096 GTTTTTGAAGGCTCCTCTACTATGTGAAAGGGTAAGACCTTACC
1 GTTTCTGAAGGCTCCTCTACTATGTGAAAGGGTAAGACCTTACC
* *
927140 GTTTCTGAAGGCTCCTCTGCTATGTGGAAGGGTAAGACCT
1 GTTTCTGAAGGCTCCTCTACTATGTGAAAGGGTAAGACCT
927180 CACCTCTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (44 bp):
GTTTCTGAAGGCTCCTCTACTATGTGAAAGGGTAAGACCTTACC
Found at i:934102 original size:44 final size:44
Alignment explanation
Indices: 934052--934143 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
934042 GTTGGAGGAA
* * *
934052 GTTTCTGAAG-GCTCCTGTGCTATGTGCAAGGGTAAGACCTTGCC
1 GTTTCTGAAGAG-TCCTCTACTATGTGCAAGGGTAAGACCTTACC
*
934096 GTTTCTGAAGAGTCCTCTACTTTGTGCAAGGGTAAGACCTTACC
1 GTTTCTGAAGAGTCCTCTACTATGTGCAAGGGTAAGACCTTACC
934140 GTTT
1 GTTT
934144 TCCGCAGGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (44 bp):
GTTTCTGAAGAGTCCTCTACTATGTGCAAGGGTAAGACCTTACC
Found at i:934202 original size:39 final size:39
Alignment explanation
Indices: 934147--934225 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
934137 ACCGTTTTCC
* * *
934147 GCAGGCTCCTCAGCTTTGTGCTCAGGGTAAGTCCTTACT
1 GCAGGCTCCTCAGCTTTGTGCACAAGGTAAGCCCTTACT
** *
934186 GCAGGCTCCTTTGCTTTGTGCACAATGTAAGCCCTTACT
1 GCAGGCTCCTCAGCTTTGTGCACAAGGTAAGCCCTTACT
934225 G
1 G
934226 GGTGTAAAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (39 bp):
GCAGGCTCCTCAGCTTTGTGCACAAGGTAAGCCCTTACT
Found at i:941642 original size:17 final size:16
Alignment explanation
Indices: 941620--941653 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
941610 TTTTGCCAGA
941620 GCATTTTAATTTGTTTT
1 GCATTTTAATTT-TTTT
*
941637 GCATTTTTATTTTTTT
1 GCATTTTAATTTTTTT
941653 G
1 G
941654 TATAGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (16 bp):
GCATTTTAATTTTTTT
Found at i:947605 original size:19 final size:21
Alignment explanation
Indices: 947568--947610 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
947558 TAACTTTTTC
947568 TTTTATCTTTAATTATTAA-T
1 TTTTATCTTTAATTATTAACT
* *
947588 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTAATTATTAACT
947608 TTT
1 TTT
947611 ACCTTTTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTAATTATTAACT
Found at i:947616 original size:19 final size:20
Alignment explanation
Indices: 947567--947616 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
947557 TTAACTTTTT
*
947567 CTTTTATCTTTAATTATTAA
1 CTTTTACCTTTAATTATTAA
* *
947587 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTAATTATTAA
947606 CTTTTACCTTT
1 CTTTTACCTTT
947617 TCTGTTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTAATTATTAA
Found at i:951464 original size:17 final size:16
Alignment explanation
Indices: 951433--951466 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
951423 CACGTGAGGA
951433 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
951449 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
951466 T
1 T
951467 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:954433 original size:22 final size:22
Alignment explanation
Indices: 954408--954449 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
954398 AATCTAAAAG
*
954408 GGGAACCGATTCCCCTACTACA
1 GGGAACCGATTCCCCCACTACA
*
954430 GGGAATCGATTCCCCCACTA
1 GGGAACCGATTCCCCCACTA
954450 TTCACTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (22 bp):
GGGAACCGATTCCCCCACTACA
Found at i:958937 original size:12 final size:13
Alignment explanation
Indices: 958920--958952 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
958910 AGATAAAAAT
958920 TAAATAAAC-AAA
1 TAAATAAACTAAA
*
958932 TAAATAAACTAAT
1 TAAATAAACTAAA
958945 TAAATAAA
1 TAAATAAA
958953 GATAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAACTAAA
Found at i:959642 original size:72 final size:76
Alignment explanation
Indices: 959525--959715 Score: 248
Period size: 76 Copynumber: 2.6 Consensus size: 76
959515 TAAAACATCT
* * * * *
959525 TAAATCATAATTAATACACTTAAAA-CTATTTAAACTAAAATACCT-AAA-ATA-ATAATAT-TT
1 TAAATCATAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATA
**
959585 AAAATAATATTC
65 AAAATAATACCC
*
959597 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCATAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
959662 AAATAATACCC
66 AAATAATACCC
* *
959673 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
1 TAAATCATAATTAAAATACTAAAACCTATTTAAACTAAAATAC
959716 AAAGATAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
71 5 0.05
72 36 0.35
73 3 0.03
74 2 0.02
75 6 0.06
76 52 0.50
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.30
Consensus pattern (76 bp):
TAAATCATAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
AAATAATACCC
Found at i:961259 original size:5 final size:5
Alignment explanation
Indices: 961249--961350 Score: 68
Period size: 5 Copynumber: 20.8 Consensus size: 5
961239 TGTTCAGACA
* * *
961249 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT -AAAT -AAAT AGAAT GAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
* **** * *
961298 AAAGT TTTCT -AAA- AAAAT AAAAT AAAAAT AAAAC GAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
961347 AAAA
1 AAAA
961351 AATATAACGA
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
4 11 0.15
5 54 0.73
6 9 0.12
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:961351 original size:27 final size:26
Alignment explanation
Indices: 961311--961363 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
961301 GTTTTCTAAA
961311 AAAATAAAATAAAAATAAAACGAAAT
1 AAAATAAAATAAAAATAAAACGAAAT
*
961337 AAAATAAAATAAAAAATATAACGAAAT
1 AAAATAAAAT-AAAAATAAAACGAAAT
961364 GGGTTGCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (26 bp):
AAAATAAAATAAAAATAAAACGAAAT
Found at i:972189 original size:72 final size:75
Alignment explanation
Indices: 972097--972262 Score: 230
Period size: 76 Copynumber: 2.2 Consensus size: 75
972087 ACACTTAAAA
* * * *
972097 CTATTTAAACTAAAATACCTAAAAC-A-ATAATAT-TTAAAATAATATTCTAAATCCTAATTAAA
1 CTATTTAAACTAAAATACCTAAAACAAGATAAAATATAAAAATAATATCCTAAAACCTAATTAAA
*
972159 ATATTAAACC
66 ATACTAAACC
*
972169 CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTTAATTAA
1 CTATTTAAACTAAAATACCTAAAAC-AAGATAAAATATAAAAATAATATCCTAAAACCTAATTAA
**
972234 AATACTAAAGT
65 AATACTAAACC
972245 CTATTTAAACTAAAATAC
1 CTATTTAAACTAAAATAC
972263 AAAGATAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
72 25 0.30
74 1 0.01
75 6 0.07
76 50 0.61
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (75 bp):
CTATTTAAACTAAAATACCTAAAACAAGATAAAATATAAAAATAATATCCTAAAACCTAATTAAA
ATACTAAACC
Found at i:972286 original size:76 final size:73
Alignment explanation
Indices: 972097--972298 Score: 219
Period size: 76 Copynumber: 2.7 Consensus size: 73
972087 ACACTTAAAA
** * * *
972097 CTATTTAAACTAAAATACCTAAAACA-ATAATATTTAAAATAATATTCTAAATCCTAATTAAAAT
1 CTATTTAAACTAAAATACAAAAAAAATATAATATTTAAAATAATATCCTAAAACCTAATTAAAAT
*
972161 ATTAAACC
66 ACTAAACC
* * *
972169 CTATTTAAACTAAAATACCTAAAACAAAGATAAAATA-TAAAAATAATATCCTAAAACTTAATTA
1 CTATTTAAACTAAAATA-C-AAAA-AAA-ATATAATATTTAAAATAATATCCTAAAACCTAATTA
**
972233 AAATACTAAAGT
62 AAATACTAAACC
* *
972245 CTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATATTATCCTAAA
1 CTATTTAAACTAAAATACAAA-A-AAAATATAATATTTAAAATAATATCCTAAA
972299 CTTGAGTTTA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
72 17 0.16
73 1 0.01
74 11 0.10
75 23 0.21
76 50 0.47
77 5 0.05
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (73 bp):
CTATTTAAACTAAAATACAAAAAAAATATAATATTTAAAATAATATCCTAAAACCTAATTAAAAT
ACTAAACC
Found at i:974003 original size:21 final size:21
Alignment explanation
Indices: 973975--974062 Score: 131
Period size: 21 Copynumber: 4.2 Consensus size: 21
973965 TTTTAGAGAC
973975 ACTTACCAAGGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
*
973996 ATTTACCAAGGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
* *
974017 ACTTACCAAGGTACTTCTTAT
1 ACTTACCAAGGTACTTCATCT
* *
974038 AGTTACCAAGGTAATTCATCT
1 ACTTACCAAGGTACTTCATCT
974059 ACTT
1 ACTT
974063 TCACTTCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (21 bp):
ACTTACCAAGGTACTTCATCT
Found at i:974247 original size:114 final size:113
Alignment explanation
Indices: 974041--974262 Score: 329
Period size: 114 Copynumber: 2.0 Consensus size: 113
974031 TTCTTATAGT
* * *
974041 TACCAAGGTAATTCATCTACTTTCACTTCTTCTTCTACTCCACTTTCTACCACGGATACTGAACC
1 TACCAAGGTAATTCATCTACTTCCACTTCTTCTTCTACTCCACCTTCTACCACGGATACTAAACC
* *
974106 GGACAATGACATCAATGAATACAATGCTAGCAATATTGTAATAGAAGA
66 AGACAATGACATCAATGAATACAATGCTAGCAACATTGTAATAGAAGA
*
974154 TACCAATGGTAATTCATCTACTTCCACTTCTTCTTCTACTCCACCTTCTATCGA-GGATACTAAA
1 TACCAA-GGTAATTCATCTACTTCCACTTCTTCTTCTACTCCACCTTCTA-CCACGGATACTAAA
* * * *
974218 TCAGACAATGACATCGATGAATACGATGCTAGCAGCATTGTAATA
64 CCAGACAATGACATCAATGAATACAATGCTAGCAACATTGTAATA
974263 TAATATATTG
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
113 6 0.06
114 89 0.92
115 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (113 bp):
TACCAAGGTAATTCATCTACTTCCACTTCTTCTTCTACTCCACCTTCTACCACGGATACTAAACC
AGACAATGACATCAATGAATACAATGCTAGCAACATTGTAATAGAAGA
Found at i:978878 original size:7 final size:7
Alignment explanation
Indices: 978866--978899 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
978856 GTCAAAAGAA
978866 GTCAACG
1 GTCAACG
978873 GTCAACG
1 GTCAACG
978880 GTC-ACG
1 GTCAACG
*
978886 GTCAATG
1 GTCAACG
978893 GTCAACG
1 GTCAACG
978900 ATCGGGTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:978920 original size:14 final size:14
Alignment explanation
Indices: 978901--978928 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
978891 TGGTCAACGA
978901 TCGGGTCGGGTCAG
1 TCGGGTCGGGTCAG
978915 TCGGGTCGGGTCAG
1 TCGGGTCGGGTCAG
978929 ACCGGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
TCGGGTCGGGTCAG
Found at i:978949 original size:19 final size:19
Alignment explanation
Indices: 978925--978963 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
978915 TCGGGTCGGG
978925 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
978944 TCAGACTGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
978963 T
1 T
978964 TCCATCCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:986094 original size:14 final size:14
Alignment explanation
Indices: 986075--986103 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
986065 ACGGTCAACG
986075 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
986089 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
986103 G
1 G
986104 ACCGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.52, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:987159 original size:28 final size:28
Alignment explanation
Indices: 987119--987174 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
987109 CCTATAATAC
987119 GTGTTAGAATTTGTTATCAAAATTTTAT
1 GTGTTAGAATTTGTTATCAAAATTTTAT
*
987147 GTGTTAGAATTTGTTATCAAATTTTTAT
1 GTGTTAGAATTTGTTATCAAAATTTTAT
987175 ATTAATCTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (28 bp):
GTGTTAGAATTTGTTATCAAAATTTTAT
Found at i:989030 original size:24 final size:24
Alignment explanation
Indices: 989003--989065 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
988993 ATAATTTAGG
* *
989003 TCAGATATAAGATAAGAATTCAGA
1 TCAGATATCAGATAAGAATTCAAA
* *
989027 TCAGGTATCAGA-ACATAATTCAAA
1 TCAGATATCAGATA-AGAATTCAAA
*
989051 TCAGAAATCAGATAA
1 TCAGATATCAGATAA
989066 AGCATTCATG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (24 bp):
TCAGATATCAGATAAGAATTCAAA
Found at i:996498 original size:14 final size:14
Alignment explanation
Indices: 996479--996508 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
996469 TTGATCTTTT
996479 AAGTTTTATTAAGA
1 AAGTTTTATTAAGA
*
996493 AAGTTTTATTGAGA
1 AAGTTTTATTAAGA
996507 AA
1 AA
996509 CTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
AAGTTTTATTAAGA
Found at i:997199 original size:16 final size:16
Alignment explanation
Indices: 997180--997236 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
997170 TCAGATTAAA
*
997180 TTCAGTTCAGGTTGTT
1 TTCAGTTCAGGTTGAT
* * * *
997196 TTCAGATCGGGTTAAAA
1 TTCAGTTCAGGTT-GAT
*
997213 TTCAGTTCAGGTTGCT
1 TTCAGTTCAGGTTGAT
997229 TTCAGTTC
1 TTCAGTTC
997237 GAGTTAATTT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (16 bp):
TTCAGTTCAGGTTGAT
Found at i:997219 original size:33 final size:33
Alignment explanation
Indices: 997156--997243 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 33
997146 ATTTCTGTTT
* *
997156 AGGTTGCTTTCGGGTC-AGATT-AAATTCAGTTC
1 AGGTTGCTTTCAGATCGAG-TTAAAATTCAGTTC
* *
997188 AGGTTGTTTTCAGATCGGGTTAAAATTCAGTTC
1 AGGTTGCTTTCAGATCGAGTTAAAATTCAGTTC
*
997221 AGGTTGCTTTCAGTTCGAGTTAA
1 AGGTTGCTTTCAGATCGAGTTAA
997244 TTTCGATTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
32 15 0.32
33 32 0.68
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.39
Consensus pattern (33 bp):
AGGTTGCTTTCAGATCGAGTTAAAATTCAGTTC
Found at i:997292 original size:32 final size:32
Alignment explanation
Indices: 997122--997299 Score: 115
Period size: 32 Copynumber: 5.5 Consensus size: 32
997112 TAAATTAAAG
* * * * *
997122 TCGGTTTGCTTTCGGTTTGGGTTAATTTCTGT
1 TCGGGTTGCTTTCAGTTCGAGTTAATTTCGGT
** * * * *
997154 TTAGGTTGCTTTCGGGTC-AGATTAAATTCAGT
1 TCGGGTTGCTTTCAGTTCGAG-TTAATTTCGGT
* * * * * *
997186 TCAGGTTGTTTTCAGATCGGGTTAAAATTCAGT
1 TCGGGTTGCTTTCAGTTCGAGTT-AATTTCGGT
* *
997219 TCAGGTTGCTTTCAGTTCGAGTTAATTTCGAT
1 TCGGGTTGCTTTCAGTTCGAGTTAATTTCGGT
* ** **
997251 TTGTTTTGCTTTTGGTTCGAGTTAATTTCGGT
1 TCGGGTTGCTTTCAGTTCGAGTTAATTTCGGT
997283 TCGGGTTGCTTTCAGTT
1 TCGGGTTGCTTTCAGTT
997300 TCGCTAAATT
Statistics
Matches: 112, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
31 1 0.01
32 81 0.72
33 30 0.27
ACGTcount: A:0.15, C:0.13, G:0.25, T:0.47
Consensus pattern (32 bp):
TCGGGTTGCTTTCAGTTCGAGTTAATTTCGGT
Found at i:1006343 original size:11 final size:10
Alignment explanation
Indices: 1006327--1006386 Score: 59
Period size: 11 Copynumber: 5.6 Consensus size: 10
1006317 ATTGGAGTGC
1006327 AAAAAGAAAA
1 AAAAAGAAAA
1006337 GAAAAAGACAAA
1 -AAAAAGA-AAA
*
1006349 AAGAAGAAAA
1 AAAAAGAAAA
1006359 AAATCAA-AAAA
1 AAA--AAGAAAA
1006370 AAAAAGAAAA
1 AAAAAGAAAA
1006380 GAAAAAG
1 -AAAAAG
1006387 GGAAGTTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
9 2 0.05
10 9 0.21
11 26 0.62
12 5 0.12
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:1006350 original size:19 final size:18
Alignment explanation
Indices: 1006326--1006379 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
1006316 AATTGGAGTG
1006326 CAAAAAGAAAAGAAAAAGA
1 CAAAAAGAAAAGAAAAA-A
*
1006345 CAAAAAGAAGAA-AAAAAT
1 CAAAAAGAA-AAGAAAAAA
*
1006363 CAAAAAAAAAAAGAAAA
1 C-AAAAAGAAAAGAAAA
1006380 GAAAAAGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.10
19 25 0.83
20 2 0.07
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (18 bp):
CAAAAAGAAAAGAAAAAA
Found at i:1017261 original size:13 final size:15
Alignment explanation
Indices: 1017243--1017275 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1017233 TTCAGCCAAA
1017243 TTTTCT-TA-CCTTC
1 TTTTCTGTATCCTTC
1017256 TTTTCTGTATCCTTC
1 TTTTCTGTATCCTTC
1017271 TTTTC
1 TTTTC
1017276 ATTCTCTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 2 0.11
15 10 0.56
ACGTcount: A:0.06, C:0.27, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTCTGTATCCTTC
Found at i:1033449 original size:2 final size:2
Alignment explanation
Indices: 1033442--1033467 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1033432 ACATACATAA
1033442 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
1033468 CATTCGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1038290 original size:39 final size:39
Alignment explanation
Indices: 1038227--1038301 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
1038217 CTCTTTCCAT
* * *
1038227 AGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGC
1 AGGCTCCTCGGCTTTATGCACAGGGTAAGACCTTACTGC
*
1038266 AGGCTCCTCTGCTTTATGCACAGGGTAAGACCTTAC
1 AGGCTCCTCGGCTTTATGCACAGGGTAAGACCTTAC
1038302 AGGGTGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.29
Consensus pattern (39 bp):
AGGCTCCTCGGCTTTATGCACAGGGTAAGACCTTACTGC
Found at i:1044593 original size:21 final size:21
Alignment explanation
Indices: 1044565--1044650 Score: 118
Period size: 21 Copynumber: 4.1 Consensus size: 21
1044555 CTTCAGAGAC
*
1044565 ACTTACCAAGGTACTTTATCT
1 ACTTACCAAGGTACTTCATCT
*
1044586 ATTTACCAAGGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
* *
1044607 ACTTACCAAGGTACTTCTTAT
1 ACTTACCAAGGTACTTCATCT
* *
1044628 AGTTACCAAGGTAATTCATCT
1 ACTTACCAAGGTACTTCATCT
1044649 AC
1 AC
1044651 CTCCACTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
ACTTACCAAGGTACTTCATCT
Found at i:1044834 original size:114 final size:110
Alignment explanation
Indices: 1044631--1044849 Score: 278
Period size: 114 Copynumber: 2.0 Consensus size: 110
1044621 TTCTTATAGT
* * **
1044631 TACCAAGGTAATTCATCTACCTCCACTTTTTCTACTCCACTTTCTACCACAGATATTGAACCGGA
1 TACCAAGGTAATTCATCTACCTCCACTTTTTCTACTCCACTTTCTACCACAGATACTAAACCAAA
*
1044696 CAATGACATCAATGAATACAATGCTAGCAATATTGTAATAGAAGA
66 CAATGACATCAATGAATACAATGCTAGCAAAATTGTAATAGAAGA
* *
1044741 TACCAATGGTAATTCATCTACTTCCACTTCTTATTCTACTCCACTTTCTACCGA-GGATACTAAA
1 TACCAA-GGTAATTCATCTACCTCCAC-T-TT-TTCTACTCCACTTTCTACC-ACAGATACTAAA
* * ** *
1044805 TCAAACAATGACATCGATGAATATGATGCTATCAAAATTGTAATA
61 CCAAACAATGACATCAATGAATACAATGCTAGCAAAATTGTAATA
1044850 TAATTTATTG
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
110 6 0.07
111 19 0.21
112 1 0.01
113 2 0.02
114 63 0.68
115 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (110 bp):
TACCAAGGTAATTCATCTACCTCCACTTTTTCTACTCCACTTTCTACCACAGATACTAAACCAAA
CAATGACATCAATGAATACAATGCTAGCAAAATTGTAATAGAAGA
Found at i:1046534 original size:14 final size:12
Alignment explanation
Indices: 1046502--1046537 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1046492 AAAAACATGT
1046502 GATTATATATTC
1 GATTATATATTC
*
1046514 GATTATATATTT
1 GATTATATATTC
*
1046526 GATCATATATTC
1 GATTATATATTC
1046538 TCGAATTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
GATTATATATTC
Found at i:1053119 original size:20 final size:20
Alignment explanation
Indices: 1053071--1053120 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
1053061 TTGGTCACCC
*
1053071 AGTATCGATACTACTCTTGCT
1 AGTATCGATACTAC-CTAGCT
1053092 AGGTATCGATACTA-CTAGCAT
1 A-GTATCGATACTACCTAGC-T
1053113 AGTATCGA
1 AGTATCGA
1053121 GACTGCTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.42
21 3 0.12
22 12 0.46
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (20 bp):
AGTATCGATACTACCTAGCT
Found at i:1053676 original size:15 final size:15
Alignment explanation
Indices: 1053656--1053686 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1053646 ATTTAAAAAA
1053656 TGTTTTTGATTTAAT
1 TGTTTTTGATTTAAT
*
1053671 TGTTTTTTATTTAAT
1 TGTTTTTGATTTAAT
1053686 T
1 T
1053687 TAATTTTTTT
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:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (15 bp):
TGTTTTTGATTTAAT
Found at i:1054341 original size:2 final size:2
Alignment explanation
Indices: 1054334--1054376 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1054324 TCTTAGCAGC
1054334 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
1054376 T
1 T
1054377 CAATTGGCTA
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:1054614 original size:18 final size:17
Alignment explanation
Indices: 1054586--1054628 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
1054576 TAAATGAATT
*
1054586 TTAAGATTTTATATTTGA
1 TTAA-ATTTTATATTCGA
1054604 TTCAAATTTTATATTCGA
1 TT-AAATTTTATATTCGA
1054622 TTAAATT
1 TTAAATT
1054629 ATTCGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 16 0.70
19 2 0.09
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (17 bp):
TTAAATTTTATATTCGA
Found at i:1058051 original size:31 final size:31
Alignment explanation
Indices: 1058016--1058153 Score: 136
Period size: 31 Copynumber: 4.5 Consensus size: 31
1058006 CTAATGTGAC
* *
1058016 TCTTGGGTAAGCTCTGCGGACCC-GAGATCAT
1 TCTTGGGTAGGCTCTACGG-CCCTGAGATCAT
* * **
1058047 TCTTGAGTAGGCTCTACGGCCCTGGGATTTT
1 TCTTGGGTAGGCTCTACGGCCCTGAGATCAT
* ** * *
1058078 TCTTGGGTAGGCCCTGTGGCCCTGAGAACGT
1 TCTTGGGTAGGCTCTACGGCCCTGAGATCAT
* *
1058109 TC-TGGGTAGGCCCTATGGCCCTGAGATCAT
1 TCTTGGGTAGGCTCTACGGCCCTGAGATCAT
1058139 TCTTGGGTAGGCTCT
1 TCTTGGGTAGGCTCT
1058154 CAGGCCCCAA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
30 30 0.34
31 57 0.66
ACGTcount: A:0.14, C:0.25, G:0.31, T:0.30
Consensus pattern (31 bp):
TCTTGGGTAGGCTCTACGGCCCTGAGATCAT
Found at i:1062429 original size:31 final size:31
Alignment explanation
Indices: 1062358--1062522 Score: 134
Period size: 31 Copynumber: 5.3 Consensus size: 31
1062348 AATGTGACTA
* * * **
1062358 TTGGGTAGGCTCTGCGGCCCCGAGATAATTC
1 TTGGGTAGGCCCTACGGCCCTGAGATCTTTC
** * * *
1062389 TTGTATAGGCCCTGCGGCCGTGGGAAT-TTTC
1 TTGGGTAGGCCCTACGGCCCTGAG-ATCTTTC
* ** *
1062420 TTGGGTAGGCCTTGTGGCCCTGAGATCATTC
1 TTGGGTAGGCCCTACGGCCCTGAGATCTTTC
* *
1062451 TTGGGTAGGCCATACGACCCTGAGATCTTTC
1 TTGGGTAGGCCCTACGGCCCTGAGATCTTTC
* * * *
1062482 TTGGGTAGGCCCCATGGCCTTGAGAACTTTC
1 TTGGGTAGGCCCTACGGCCCTGAGATCTTTC
1062513 TTGGGTAGGC
1 TTGGGTAGGC
1062523 TCTCAGGCCC
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.96
32 2 0.02
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.30
Consensus pattern (31 bp):
TTGGGTAGGCCCTACGGCCCTGAGATCTTTC
Found at i:1064302 original size:25 final size:24
Alignment explanation
Indices: 1064273--1064321 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1064263 CTCAAATTAC
1064273 TATTTTATTCCATTTA-TTATTTTTT
1 TATTTT-TTCC-TTTACTTATTTTTT
1064298 TATTTTTTCCTTTATCTTATTTTT
1 TATTTTTTCCTTTA-CTTATTTTT
1064322 AAAGGGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 4 0.18
25 14 0.64
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.73
Consensus pattern (24 bp):
TATTTTTTCCTTTACTTATTTTTT
Found at i:1070249 original size:17 final size:17
Alignment explanation
Indices: 1070224--1070259 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1070214 CATATTAATC
*
1070224 TGTTTAAACTACTGATG
1 TGTTGAAACTACTGATG
1070241 TGTTGAAACTACTGATG
1 TGTTGAAACTACTGATG
1070258 TG
1 TG
1070260 CATAACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (17 bp):
TGTTGAAACTACTGATG
Found at i:1075372 original size:28 final size:28
Alignment explanation
Indices: 1075332--1075396 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
1075322 CCGGTTTAGA
*
1075332 TTGAACCGGACTAGGTAACGATTCCCGG
1 TTGAACCGGACTAGGCAACGATTCCCGG
1075360 TTGAACCGGACTAGGCAACGATTCCCGG
1 TTGAACCGGACTAGGCAACGATTCCCGG
1075388 TTGAACCGG
1 TTGAACCGG
1075397 CCGGTCCGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (28 bp):
TTGAACCGGACTAGGCAACGATTCCCGG
Found at i:1079768 original size:17 final size:17
Alignment explanation
Indices: 1079746--1079788 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1079736 CAACCGAGCA
1079746 AGGAGTCTAGTTGCATT
1 AGGAGTCTAGTTGCATT
1079763 AGGAGTCTAGTTGCATT
1 AGGAGTCTAGTTGCATT
*
1079780 AGGATTCTA
1 AGGAGTCTA
1079789 TTGTTAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.35
Consensus pattern (17 bp):
AGGAGTCTAGTTGCATT
Found at i:1080264 original size:2 final size:2
Alignment explanation
Indices: 1080257--1080282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1080247 TTATTCTTAT
1080257 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
1080283 ATTATCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1080410 original size:16 final size:15
Alignment explanation
Indices: 1080373--1080446 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
1080363 ATTCTTTTTC
*
1080373 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
1080390 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
1080405 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
1080421 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
1080437 TTATATATTT
1 ATATATATTT
1080447 CATTTTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:1080466 original size:14 final size:15
Alignment explanation
Indices: 1080367--1080481 Score: 58
Period size: 16 Copynumber: 7.3 Consensus size: 15
1080357 CTTTTAATTC
*
1080367 TTTTTCATATATCATTA
1 TTTTTTATATAT--TTA
*
1080384 TTATTTATATATATT-
1 TTTTTTATATAT-TTA
*
1080399 TTTATTACTATAATTATA
1 TTTTTTA-TAT-ATT-TA
* *
1080417 TGTTATATATATTTA
1 TTTTTTATATATTTA
1080432 TTATTTTATATATTTCA
1 TT-TTTTATATATTT-A
1080449 --TTTTATAT-TTTA
1 TTTTTTATATATTTA
* *
1080461 TTTTTTTTATCTTCTA
1 TTTTTTATATATT-TA
1080477 TTTTT
1 TTTTT
1080482 ATTTTTGTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
12 1 0.01
13 3 0.04
14 15 0.19
15 10 0.13
16 28 0.36
17 17 0.22
18 4 0.05
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTTTTATATATTTA
Found at i:1080479 original size:33 final size:32
Alignment explanation
Indices: 1080442--1080531 Score: 76
Period size: 36 Copynumber: 2.7 Consensus size: 32
1080432 TTATTTTATA
*
1080442 TATTTCATTTTATATTTTATTTTTTTTATCTTC
1 TATTT-ATTTTATATTTTATTTTTATTATCTTC
* *
1080475 TATTTTTATTTTTGTATTGTTATTGTTATTATCTTC
1 TA--TTTA-TTTTATATT-TTATTTTTATTATCTTC
1080511 --TTTATTTTATGTATTTTATTT
1 TATTTATTTTA--TATTTTATTT
1080532 ATATATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
31 4 0.09
32 9 0.20
33 6 0.13
34 1 0.02
35 11 0.24
36 15 0.33
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (32 bp):
TATTTATTTTATATTTTATTTTTATTATCTTC
Found at i:1080498 original size:36 final size:36
Alignment explanation
Indices: 1080429--1080520 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 36
1080419 TTATATATAT
* * * *
1080429 TTATTATTTTATATATTTCA-TTTTATATTTTATTT
1 TTATTATCTTCTATATTTTATTTTTATATTTTATTG
* *
1080464 TTTTTATCTTCTAT-TTTTATTTTTGTATTGTTATTG
1 TTATTATCTTCTATATTTTATTTTTATATT-TTATTG
*
1080500 TTATTATCTTCTTTATTTTAT
1 TTATTATCTTCTATATTTTAT
1080521 GTATTTTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 4 0.09
35 19 0.41
36 17 0.37
37 6 0.13
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (36 bp):
TTATTATCTTCTATATTTTATTTTTATATTTTATTG
Found at i:1080547 original size:32 final size:31
Alignment explanation
Indices: 1080475--1080553 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
1080465 TTTTATCTTC
1080475 TATTTTTATTTTTGTATTGTTATTGTTATTA
1 TATTTTTATTTTTGTATTGTTATTGTTATTA
*
1080506 TCTTCTTTATTTTATGTATT-TTATT-TATATATA
1 TATT-TTTATTTT-TGTATTGTTATTGT-TAT-TA
*
1080539 TATTTTTATATTTGT
1 TATTTTTATTTTTGT
1080554 TTTTGTGCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 7 0.17
32 23 0.56
33 11 0.27
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.70
Consensus pattern (31 bp):
TATTTTTATTTTTGTATTGTTATTGTTATTA
Found at i:1091107 original size:9 final size:9
Alignment explanation
Indices: 1091074--1091100 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1091064 GCCCTAAATT
1091074 GAAAAAAGA
1 GAAAAAAGA
1091083 GAAAAAAGA
1 GAAAAAAGA
1091092 GAAAAAAGA
1 GAAAAAAGA
1091101 ACAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
GAAAAAAGA
Found at i:1091999 original size:34 final size:34
Alignment explanation
Indices: 1091944--1092029 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
1091934 TACTTGGATT
* *
1091944 TCAACTTCACGATGAAGGATATCCAAGTCATGGC
1 TCAACTTCATGACGAAGGATATCCAAGTCATGGC
*
1091978 TCAACTTCATGACGAATGATATCCAAGTCATGGC
1 TCAACTTCATGACGAAGGATATCCAAGTCATGGC
1092012 TCAACTTCATGACGAAGG
1 TCAACTTCATGACGAAGG
1092030 GGTCATCCAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (34 bp):
TCAACTTCATGACGAAGGATATCCAAGTCATGGC
Found at i:1093776 original size:2 final size:2
Alignment explanation
Indices: 1093771--1093802 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1093761 TTATTCTTAT
1093771 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
1093803 ATTATCTTCA
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):
TA
Found at i:1093902 original size:17 final size:17
Alignment explanation
Indices: 1093880--1093912 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1093870 TATACTTTTA
1093880 ATTATTTTTCATATATC
1 ATTATTTTTCATATATC
*
1093897 ATTATTTTTTATATAT
1 ATTATTTTTCATATAT
1093913 ATTTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATTTTTCATATATC
Found at i:1093905 original size:77 final size:77
Alignment explanation
Indices: 1093751--1093905 Score: 174
Period size: 77 Copynumber: 2.0 Consensus size: 77
1093741 GTTACATGCA
*
1093751 TATTTTTTTATTATTCTTATTATATATATATATATATATATATATATATATAATTATCTTCATTT
1 TATTTTTTTATTATTCTTATTATATATATATATATATATATATATATATATAATTATCTTCATAT
* *
1093816 GGCTATTTTTTT
66 AGCTATTATTTT
* * * *
1093828 TATTTTTTTATT-TTCTATATTCTATCGT-TATATATATATATATATACT-TTTAATTATTTTTC
1 TATTTTTTTATTATTCT-TATTATAT-ATATATATATATATATATATA-TATATAATTA-TCTTC
*
1093890 ATATATC-ATTATTTT
62 ATATAGCTATTATTTT
1093905 T
1 T
1093906 TATATATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
76 4 0.06
77 52 0.79
78 10 0.15
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (77 bp):
TATTTTTTTATTATTCTTATTATATATATATATATATATATATATATATATAATTATCTTCATAT
AGCTATTATTTT
Done.