Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006743.1 Hibiscus syriacus cultivar Beakdansim tig00016935_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: 431342
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 3
Found at i:3890 original size:20 final size:20
Alignment explanation
Indices: 3865--3923 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
3855 TTTGGTGCAG
**
3865 AGGGAATCGATCCCCCCTTT
1 AGGGAATCGATCCCCCCTCA
* * *
3885 AGGGAACCGATTCTCCCCACA
1 AGGGAATCGA-TCCCCCCTCA
*
3906 AGGGAATCGATACCCCCT
1 AGGGAATCGATCCCCCCT
3924 GGGGTTCTGG
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.25, C:0.36, G:0.20, T:0.19
Consensus pattern (20 bp):
AGGGAATCGATCCCCCCTCA
Found at i:7934 original size:16 final size:17
Alignment explanation
Indices: 7913--7945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7903 TCAAGTACCT
7913 ACAAAAG-AAAATAAAA
1 ACAAAAGCAAAATAAAA
7929 ACAAAAGCAAAATAAAA
1 ACAAAAGCAAAATAAAA
7946 TAAAACTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (17 bp):
ACAAAAGCAAAATAAAA
Found at i:8510 original size:34 final size:35
Alignment explanation
Indices: 8453--8535 Score: 141
Period size: 34 Copynumber: 2.4 Consensus size: 35
8443 ATTGCCCAGA
8453 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
8488 GGGAACAGATTCCCCCCA-GGGGTATCGATTCCCT
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
8522 GGGTACAGATTCCC
1 GGGAACAGATTCCC
8536 TCTTGCATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 28 0.61
35 18 0.39
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.19
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:8733 original size:21 final size:21
Alignment explanation
Indices: 8699--8738 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
8689 TTTTTGCAGA
*
8699 AAAACCATTCCCAAACGGCTCC
1 AAAACCA-TCCCCAACGGCTCC
8721 AAAA-CATCCCCAACGGCT
1 AAAACCATCCCCAACGGCT
8739 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAACCATCCCCAACGGCTCC
Found at i:9907 original size:19 final size:20
Alignment explanation
Indices: 9883--9930 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9873 AACGATTTTC
*
9883 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
9902 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
9922 TTTTGAAAA
1 TTTTGAAAA
9931 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:11362 original size:34 final size:33
Alignment explanation
Indices: 11319--11402 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 33
11309 ATTACCCAGA
11319 GGGAACAGATTCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCA-GGGGTATCGATTCCCC
11353 GGGAACAGATTTCCCCCAGGGGTATCGATTCCCC
1 GGGAACAGA-TTCCCCCAGGGGTATCGATTCCCC
*
11387 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
11403 TTGCATGGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 7 0.15
34 33 0.69
35 8 0.17
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.19
Consensus pattern (33 bp):
GGGAACAGATTCCCCCAGGGGTATCGATTCCCC
Found at i:11397 original size:15 final size:15
Alignment explanation
Indices: 11345--11401 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
11335 AGGGGGTATC
*
11345 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
11360 GATTTCCCCCAGGGGTATC-
1 GA-TT-CCCC--GGGTA-CA
11379 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
11394 GATTCCCC
1 GATTCCCC
11402 CTTGCATGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 15 0.43
16 2 0.06
17 8 0.23
18 2 0.06
19 6 0.17
20 1 0.03
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:11542 original size:21 final size:21
Alignment explanation
Indices: 11516--11557 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11506 ATTTGAATAT
*
11516 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
11537 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
11558 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:11619 original size:21 final size:21
Alignment explanation
Indices: 11586--11625 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
11576 TTTTTGCATA
*
11586 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
11608 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
11626 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:11883 original size:34 final size:32
Alignment explanation
Indices: 11838--11909 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 32
11828 CCTTTTGTAA
*
11838 AGGGAAAAGGTTCTAGCTAATCCCGTGTAAAAGCT
1 AGGG-AAAGGTTCTAGCTAATCCCG-G-AAAAACT
* *
11873 AGGGAAAGGTTCTAGTTTATCCCGGAAAAACT
1 AGGGAAAGGTTCTAGCTAATCCCGGAAAAACT
11905 AGGGA
1 AGGGA
11910 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 18 0.53
35 4 0.12
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (32 bp):
AGGGAAAGGTTCTAGCTAATCCCGGAAAAACT
Found at i:16386 original size:103 final size:103
Alignment explanation
Indices: 16063--16378 Score: 578
Period size: 103 Copynumber: 3.1 Consensus size: 103
16053 GGGTCTACGC
* *
16063 GGTCCTTCGGGACATATATGTATTATTTGGAACATGTCTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
16128 CCTTGGCATATGTATATAATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
16166 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
16231 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
16269 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
16334 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
16372 GGTCCTT
1 GGTCCTT
16379 ATGGACATTA
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:16432 original size:23 final size:23
Alignment explanation
Indices: 16402--16462 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
16392 TATGGAACTA
16402 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTCTACGCGGCACTC
* *
16425 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTC
*
16448 CGGTGCAATTATACG
1 CGGTGCAATTCTACG
16463 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTC
Found at i:16843 original size:16 final size:16
Alignment explanation
Indices: 16792--16844 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
16782 TGTATGTGAT
16792 ATATGTATATGATGTGTG
1 ATATG-ATAT-ATGTGTG
* * **
16810 ATATGATGTGTGCATG
1 ATATGATATATGTGTG
16826 ATATGATATATGTGTG
1 ATATGATATATGTGTG
16842 ATA
1 ATA
16845 GGGGTTATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:37700 original size:30 final size:30
Alignment explanation
Indices: 37664--37729 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
37654 GTAATAGCTC
* * *
37664 AGTGACCCAAAAA-TTAAGTTTATTAAGTTT
1 AGTGA-CCAAAAAGTTAAATGTATAAAGTTT
37694 AGTGACCAAAAATGTTAAATGTATAAAGTTT
1 AGTGACCAAAAA-GTTAAATGTATAAAGTTT
37725 AGTGA
1 AGTGA
37730 GAAAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 5 0.16
31 19 0.61
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (30 bp):
AGTGACCAAAAAGTTAAATGTATAAAGTTT
Found at i:43043 original size:2 final size:2
Alignment explanation
Indices: 43036--43065 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43026 TCTACCAAAA
43036 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
43066 TTCAGCCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:47316 original size:90 final size:90
Alignment explanation
Indices: 47200--47557 Score: 555
Period size: 90 Copynumber: 4.0 Consensus size: 90
47190 GGAGGATTAG
*
47200 TTTT-TTTTGGTGATCTCGACCTCGGTGGTTTCGTATGTAAGATTTACTGTTTTGATTGTTGATG
1 TTTTGTTTTGGTGATCTCGACCTCGGTGGTTTCATATGTAAGATTTACTGTTTTGATTGTTGATG
*
47264 TTTGCGAGTCTCCTCCTTTTTCTGT
66 TTTGCGAGTCTCCTCCATTTTCTGT
* **
47289 TTTTGTTTTGGTGATCTCGTCGACGGTGGTTTCATATGTAAGATTTACTGTTTTGATTG-TGATG
1 TTTTGTTTTGGTGATCTCGACCTCGGTGGTTTCATATGTAAGATTTACTGTTTTGATTGTTGATG
*
47353 TTTGCGAGTCTCCTTCATTTTCTGT
66 TTTGCGAGTCTCCTCCATTTTCTGT
* *
47378 TTTGTGTTTTGTTGATCTCGACCTCGGTGGTTTCGTATGTAAGATTTACTGTTTTGATTGTTGAT
1 TTT-TGTTTTGGTGATCTCGACCTCGGTGGTTTCATATGTAAGATTTACTGTTTTGATTGTTGAT
47443 GTTTGCGAGTCTCCT---TTTTCTGT
65 GTTTGCGAGTCTCCTCCATTTTCTGT
* * **
47466 TTTTGTTTTGGTGATATCGTCGGCGGTGGTTTCATATGTAAGATTTACTGTTTTGATTGTTGATG
1 TTTTGTTTTGGTGATCTCGACCTCGGTGGTTTCATATGTAAGATTTACTGTTTTGATTGTTGATG
*
47531 TTTGCGAGTCTCCTTCATTTTCTGT
66 TTTGCGAGTCTCCTCCATTTTCTGT
47556 TT
1 TT
47558 CGAGATTTAT
Statistics
Matches: 246, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
87 70 0.28
88 11 0.04
89 35 0.14
90 111 0.45
91 19 0.08
ACGTcount: A:0.12, C:0.14, G:0.23, T:0.51
Consensus pattern (90 bp):
TTTTGTTTTGGTGATCTCGACCTCGGTGGTTTCATATGTAAGATTTACTGTTTTGATTGTTGATG
TTTGCGAGTCTCCTCCATTTTCTGT
Found at i:48113 original size:12 final size:12
Alignment explanation
Indices: 48096--48120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48086 CAATTAATTT
48096 TAATTCAATAAA
1 TAATTCAATAAA
48108 TAATTCAATAAA
1 TAATTCAATAAA
48120 T
1 T
48121 CTAACATTCA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATTCAATAAA
Found at i:50556 original size:36 final size:36
Alignment explanation
Indices: 50509--50580 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
50499 TTCGATGTTG
50509 CAATAAAATTATGAGACACTCTTTTCCTCCTTCCAA
1 CAATAAAATTATGAGACACTCTTTTCCTCCTTCCAA
50545 CAATAAAATTATGAGACACTCTTTTCCTCCTTCCAA
1 CAATAAAATTATGAGACACTCTTTTCCTCCTTCCAA
50581 TGCTCGACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (36 bp):
CAATAAAATTATGAGACACTCTTTTCCTCCTTCCAA
Found at i:59231 original size:31 final size:31
Alignment explanation
Indices: 59190--59256 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
59180 AAAAAATATA
*
59190 TAAAATATATTTACTTTTATTTTTAATTAAT
1 TAAAAAATATTTACTTTTATTTTTAATTAAT
* *
59221 TAAAAAATATTTATTTTTATTTTTATTTAAT
1 TAAAAAATATTTACTTTTATTTTTAATTAAT
59252 TAAAA
1 TAAAA
59257 TATGGTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TAAAAAATATTTACTTTTATTTTTAATTAAT
Found at i:59616 original size:19 final size:20
Alignment explanation
Indices: 59592--59630 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
59582 CTGTAGCCTA
*
59592 TTTATTAT-ATATTTTTATT
1 TTTATTATAAAATTTTTATT
*
59611 TTTATTTTAAAATTTTTATT
1 TTTATTATAAAATTTTTATT
59631 CATAATTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTATAAAATTTTTATT
Found at i:60001 original size:25 final size:23
Alignment explanation
Indices: 59973--60043 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 23
59963 CAAATTATAT
59973 AATATAATTTTATATATTAATTTA
1 AATAT-ATTTTATATATTAATTTA
59997 AA-ATATTTT-TATATTAACTTATTA
1 AATATATTTTATATATTAA--T-TTA
*
60021 AATATATTTTAT-TATTAACTTA
1 AATATATTTTATATATTAATTTA
60043 A
1 A
60044 TTTAAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
21 8 0.20
22 9 0.22
23 3 0.07
24 7 0.17
25 13 0.32
26 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATATTTTATATATTAATTTA
Found at i:60063 original size:30 final size:28
Alignment explanation
Indices: 59989--60069 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 28
59979 ATTTTATATA
59989 TTAATTTAAAATA-TTTTTA-TATTAAC
1 TTAATTTAAAATATTTTTTATTATTAAC
*
60015 TT-A-TT-AAATATATTTTATTATTAAC
1 TTAATTTAAAATATTTTTTATTATTAAC
60040 TTAATTTAAAAATATTTTTTTATTTATTAA
1 TTAATTT-AAAATA-TTTTTTA-TTATTAA
60070 AAGTATGACT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
23 5 0.11
24 7 0.16
25 10 0.22
26 3 0.07
27 2 0.04
29 5 0.11
30 6 0.13
31 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAATTTAAAATATTTTTTATTATTAAC
Found at i:61416 original size:23 final size:23
Alignment explanation
Indices: 61390--61435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61380 CACCACAGCT
*
61390 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
* *
61413 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
61436 TATAATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:61652 original size:149 final size:149
Alignment explanation
Indices: 61413--61717 Score: 565
Period size: 149 Copynumber: 2.0 Consensus size: 149
61403 CGAAGTGCCA
*
61413 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTACCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
61478 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 AATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
61543 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
* *
61562 CGTAGAATTGCACCGTAGTACCATATAATAATGTTCATAAGGACCATATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTACCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
61627 AATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACATAATATA
66 AATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
61692 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
61711 CGTAGAA
1 CGTAGAA
61718 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTACCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
AATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:66334 original size:16 final size:17
Alignment explanation
Indices: 66313--66364 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
66303 TTTTTAATTT
66313 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
66329 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
66344 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
66361 AATT
1 AATT
66365 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:67899 original size:23 final size:22
Alignment explanation
Indices: 67855--67899 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
67845 AATGTCATGG
*
67855 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
67877 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
67900 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:68676 original size:31 final size:31
Alignment explanation
Indices: 68592--68713 Score: 117
Period size: 31 Copynumber: 3.9 Consensus size: 31
68582 GAGTCGAGGG
68592 TACCTATGTTCTACGGAACATATGGACAGA-A
1 TACCTATGTTCTACGGAACATATGGACA-ATA
*
68623 TTACCTATG-TCTTTC-GAGACATATGGACAATA
1 -TACCTATGTTC-TACGGA-ACATATGGACAATA
* *
68655 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTACGGAACATATGGACAATA
* * *
68685 TCACCTAGGTTCTTCGGAACCTATGGACA
1 T-ACCTATGTTCTACGGAACATATGGACA
68714 GTTGCCGAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
30 1 0.01
31 49 0.64
32 26 0.34
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAATA
Found at i:68754 original size:30 final size:30
Alignment explanation
Indices: 68703--68774 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
68693 GTTCTTCGGA
* *
68703 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTATGGATAGTTACCGAGGATCTTTATG
*
68733 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTATGGATAGTTACCGAGGATCTTTATG
*
68763 ACCTTTGGATAG
1 ACCTATGGATAG
68775 GTCCTGCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
ACCTATGGATAGTTACCGAGGATCTTTATG
Found at i:73042 original size:23 final size:22
Alignment explanation
Indices: 72998--73042 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
72988 AATGTCATGG
*
72998 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
73020 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
73043 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:73859 original size:31 final size:30
Alignment explanation
Indices: 73735--73859 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 30
73725 GAGTCGAGGG
73735 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG--T
*
73767 TACCTATG-TCTTTC-GAGACATATGGACAGT
1 TACCTATGTTC-TACGGA-ACATATGGACAGT
*
73797 ATACCTATGTTCTAAGGAACATATGGACAGT
1 -TACCTATGTTCTACGGAACATATGGACAGT
* * *
73828 TCACCTAGGTTCTTCGGAACCTATGGACAGT
1 T-ACCTATGTTCTACGGAACATATGGACAGT
73859 T
1 T
73860 GCCGAGGATC
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.03
31 52 0.65
32 26 0.32
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
TACCTATGTTCTACGGAACATATGGACAGT
Found at i:73897 original size:30 final size:30
Alignment explanation
Indices: 73846--73917 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
73836 GTTCTTCGGA
* *
73846 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTATGGATAGTTACCGAGGATCTTTATG
*
73876 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTATGGATAGTTACCGAGGATCTTTATG
*
73906 ACCTTTGGATAG
1 ACCTATGGATAG
73918 GTCCTGCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
ACCTATGGATAGTTACCGAGGATCTTTATG
Found at i:78181 original size:23 final size:22
Alignment explanation
Indices: 78137--78181 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
78127 AATGTCATGG
*
78137 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
78159 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
78182 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:78996 original size:31 final size:30
Alignment explanation
Indices: 78872--78996 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 30
78862 GAGTCGAGGG
78872 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG--T
*
78904 TACCTATG-TCTTTC-GAGACATATGGACAGT
1 TACCTATGTTC-TACGGA-ACATATGGACAGT
*
78934 ATACCTATGTTCTAAGGAACATATGGACAGT
1 -TACCTATGTTCTACGGAACATATGGACAGT
* * *
78965 TCACCTAGGTTCTTCGGAACCTATGGACAGT
1 T-ACCTATGTTCTACGGAACATATGGACAGT
78996 T
1 T
78997 GCCGAGGATC
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.03
31 52 0.65
32 26 0.32
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
TACCTATGTTCTACGGAACATATGGACAGT
Found at i:79034 original size:30 final size:30
Alignment explanation
Indices: 78983--79054 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
78973 GTTCTTCGGA
* *
78983 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTATGGATAGTTACCGAGGATCTTTATG
*
79013 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTATGGATAGTTACCGAGGATCTTTATG
*
79043 ACCTTTGGATAG
1 ACCTATGGATAG
79055 GTCCTGCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
ACCTATGGATAGTTACCGAGGATCTTTATG
Found at i:83939 original size:20 final size:20
Alignment explanation
Indices: 83914--84004 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
83904 TAAATTAAAT
*
83914 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
83934 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
83954 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
83966 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
83986 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
84005 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:83991 original size:52 final size:52
Alignment explanation
Indices: 83913--84060 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
83903 CTAAATTAAA
*
83913 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
83965 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
84018 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
84061 ATGTTGCTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.37
53 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:84044 original size:20 final size:20
Alignment explanation
Indices: 84019--84058 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
84009 TCTATTAGTT
*
84019 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
84039 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
84059 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:88648 original size:20 final size:20
Alignment explanation
Indices: 88623--88713 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
88613 TAAATTAAAT
*
88623 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
88643 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
88663 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
88675 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
88695 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
88714 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:88700 original size:52 final size:52
Alignment explanation
Indices: 88622--88769 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
88612 CTAAATTAAA
*
88622 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
88674 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
88727 TATTAGATATGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
88770 ATGTTGCTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.38
53 50 0.54
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:88753 original size:20 final size:20
Alignment explanation
Indices: 88728--88767 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
88718 TCTATTAGTT
88728 ATTAGATATG-ATCATTTTTA
1 ATTAGATA-GAATCATTTTTA
88748 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
88768 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:94913 original size:17 final size:17
Alignment explanation
Indices: 94891--94925 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94881 TAGATCAAAC
*
94891 ATTAAAATATTATTATA
1 ATTAAAATATTATAATA
*
94908 ATTAAAATCTTATAATA
1 ATTAAAATATTATAATA
94925 A
1 A
94926 ATAATAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAAATATTATAATA
Found at i:95062 original size:29 final size:29
Alignment explanation
Indices: 95023--95081 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
95013 ATGTAAACAT
*
95023 CATACAATAAGAACCA-AACAGCAGGGAAA
1 CATACAATAAGAA-CAGAACAACAGGGAAA
*
95052 CATACATTAAGAACAGAACAACAGGGAAA
1 CATACAATAAGAACAGAACAACAGGGAAA
95081 C
1 C
95082 CAGTTTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.08
Consensus pattern (29 bp):
CATACAATAAGAACAGAACAACAGGGAAA
Found at i:100545 original size:20 final size:20
Alignment explanation
Indices: 100451--100819 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
100441 GATTTTCCAT
* ** *
100451 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
100471 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
100491 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
100511 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
100531 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
100551 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
100571 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
100591 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
100611 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
100631 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
100651 AATCGCAATGCGTATTCGTA
1 AATCGCAACGCGTATCCGTA
100671 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
100691 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
100711 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
100731 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
100751 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
100771 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
100791 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
100811 AATCACAAC
1 AATCGCAAC
100820 ACTTAAATTT
Statistics
Matches: 303, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
19 4 0.01
20 295 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:101541 original size:24 final size:24
Alignment explanation
Indices: 101502--101548 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
101492 AAATTTGGTC
101502 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
101526 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
101549 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:101740 original size:12 final size:12
Alignment explanation
Indices: 101723--101747 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101713 ATATAATCCT
101723 GAAGAAGAAAAA
1 GAAGAAGAAAAA
101735 GAAGAAGAAAAA
1 GAAGAAGAAAAA
101747 G
1 G
101748 TCCCCGAAGA
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:104049 original size:19 final size:19
Alignment explanation
Indices: 104027--104337 Score: 421
Period size: 19 Copynumber: 17.4 Consensus size: 19
104017 CGGAAAATAC
*
104027 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
104046 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
104060 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
104080 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
104094 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104113 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
104132 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
104146 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
104165 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104184 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104203 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104222 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104241 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104260 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104279 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
104293 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
104311 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104330 AATCGCAA
1 AATCGCAA
104338 CGAGATAATC
Statistics
Matches: 263, Mismatches: 8, Indels: 42
0.84 0.03 0.13
Matches are distributed among these distances:
14 38 0.14
15 1 0.00
16 14 0.05
17 12 0.05
18 19 0.07
19 166 0.63
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:104475 original size:19 final size:19
Alignment explanation
Indices: 104366--104467 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
104356 AAATTATAAA
104366 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
104385 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
104405 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
104421 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
104438 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
104457 CGCATTGCGAT
1 CGCATTGCGAT
104468 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:104593 original size:14 final size:14
Alignment explanation
Indices: 104574--104610 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
104564 CATCAATTAC
104574 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
104588 ACAAATCATCTTTT
1 ACAAATCAACTTTT
104602 ACAAATCAA
1 ACAAATCAA
104611 TTAAACAATC
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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:106586 original size:14 final size:14
Alignment explanation
Indices: 106567--106623 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
106557 GCGAAATGAA
*
106567 AATCGCAACGACAG
1 AATCGCAACGAAAG
106581 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
106598 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
106614 AATCGCAACG
1 AATCGCAACG
106624 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:106594 original size:33 final size:33
Alignment explanation
Indices: 106548--106640 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
106538 GCGAAACCAA
*
106548 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
106581 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
106614 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
106641 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:106605 original size:19 final size:19
Alignment explanation
Indices: 106511--106645 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
106501 TAGTTTACTT
* *
106511 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
106531 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
106550 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106569 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
106583 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
106602 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
106616 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106635 TCGCAATGCGA
1 TCGCAACGCGA
106646 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:106663 original size:19 final size:19
Alignment explanation
Indices: 106641--106769 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
106631 AAAATCGCAA
106641 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
106660 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
106674 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
106693 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
106707 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
106726 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
106745 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
106765 TGCGA
1 TGCGA
106770 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:106683 original size:33 final size:33
Alignment explanation
Indices: 106641--106732 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
106631 AAAATCGCAA
106641 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
106674 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
106707 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
106733 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:106983 original size:92 final size:93
Alignment explanation
Indices: 106813--107281 Score: 885
Period size: 92 Copynumber: 5.1 Consensus size: 93
106803 TTGAATGGAT
106813 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106878 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106906 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106970 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106998 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107062 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
107090 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107152 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
107180 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
107245 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
107273 AAATTTACT
1 AAATTTACT
107282 AAGCAATCTA
Statistics
Matches: 368, Mismatches: 3, Indels: 10
0.97 0.01 0.03
Matches are distributed among these distances:
89 2 0.01
90 84 0.23
91 4 0.01
92 177 0.48
93 101 0.27
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:109006 original size:14 final size:14
Alignment explanation
Indices: 108987--109076 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
108977 TTGAAATGAA
108987 AATCGCAACGAGAG
1 AATCGCAACGAGAG
109001 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
109018 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
109034 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
109053 AATCGCAACGAGAG
1 AATCGCAACGAGAG
109067 AATCGCAACG
1 AATCGCAACG
109077 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:109024 original size:33 final size:33
Alignment explanation
Indices: 108979--109093 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
108969 TCTTTTGGTT
108979 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
109012 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
109045 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
109078 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
109094 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:109025 original size:19 final size:18
Alignment explanation
Indices: 108986--109098 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
108976 GTTGAAATGA
108986 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
109001 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
109018 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
109034 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
109051 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
109067 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
109084 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
109099 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:109142 original size:33 final size:33
Alignment explanation
Indices: 109094--109164 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
109084 AAAATCGCAA
** *
109094 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCAATTCTCTCGT
109127 TGCGATTTTCATTTCGCGTTGCAATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCAATTCTCTCGT
109160 TGCGA
1 TGCGA
109165 CAGTCATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.10, C:0.23, G:0.24, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCAATTCTCTCGT
Found at i:109172 original size:33 final size:33
Alignment explanation
Indices: 109105--109182 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
109095 GCGATTTTGG
* ***
109105 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCAATTCTCTCGTTGCGACAGTCA
109138 TTTCGCGTTGCAATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCAATTCTCTCGTTGCGACAGTCA
*
109171 TTCTCTCGTTGC
1 TT-TCGCGTTGC
109183 GATTTTCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 31 0.79
34 8 0.21
ACGTcount: A:0.10, C:0.27, G:0.21, T:0.42
Consensus pattern (33 bp):
TTTCGCGTTGCAATTCTCTCGTTGCGACAGTCA
Found at i:109191 original size:20 final size:20
Alignment explanation
Indices: 109117--109205 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
109107 TCGCGTTGCG
109117 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
109137 ATT-TCGCGTTGC-A-----
1 ATTCTCTCGTTGCGATTTTC
***
109150 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
109170 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
109190 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
109206 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 8 0.15
15 1 0.02
18 1 0.02
19 8 0.15
20 21 0.38
21 13 0.24
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:109327 original size:33 final size:33
Alignment explanation
Indices: 109285--109355 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
109275 AATACTAACT
*
109285 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
109318 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
109351 TGAAA
1 TGAAA
109356 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:109589 original size:22 final size:22
Alignment explanation
Indices: 109537--109591 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
109527 TGGTTGTGAG
**
109537 GGATTTCGCCGGAGATGGGGAA
1 GGATTTCTTCGGAGATGGGGAA
** *
109559 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAA
109581 GGATTTCTTCG
1 GGATTTCTTCG
109592 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.15, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAA
Found at i:109762 original size:20 final size:20
Alignment explanation
Indices: 109737--109929 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
109727 CTTTAAATAT
109737 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
109757 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
109779 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
109798 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
109818 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
109838 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
109858 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
109878 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
109898 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
109918 CGCGTTGCGATT
1 CGCGTTGCGATT
109930 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:109924 original size:60 final size:60
Alignment explanation
Indices: 109737--109929 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
109727 CTTTAAATAT
**
109737 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
109798 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
109858 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
109918 CGCGTTGCGATT
1 CGCGTTGCGATT
109930 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:110010 original size:20 final size:20
Alignment explanation
Indices: 109985--110036 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
109975 AAGAATCGCG
*
109985 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
110005 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
110025 TTGCGATTCTGG
1 TTGCGATTCTGG
110037 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:110438 original size:20 final size:21
Alignment explanation
Indices: 110409--110448 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
110399 ATTGTTCAAA
*
110409 AAATATTAATGTTTT-TGTAG
1 AAATAATAATGTTTTATGTAG
110429 AAATAATAATGTTTTATGTA
1 AAATAATAATGTTTTATGTA
110449 ATTTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (21 bp):
AAATAATAATGTTTTATGTAG
Found at i:113585 original size:2 final size:2
Alignment explanation
Indices: 113580--113644 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
113570 TATACTTGTT
113580 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
113622 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
113645 GTACACACAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113708 original size:35 final size:35
Alignment explanation
Indices: 113666--113735 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
113656 CACAAACAAC
*
113666 AAAAACGAAAGTTAATGGCCCTTAAGAAAAGAAAA
1 AAAAACGAAAGTTAATCGCCCTTAAGAAAAGAAAA
113701 AAAAACGAAAGTTAATCGCCCTTAAGAAAAGAAAA
1 AAAAACGAAAGTTAATCGCCCTTAAGAAAAGAAAA
113736 GGGGAGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.57, C:0.13, G:0.16, T:0.14
Consensus pattern (35 bp):
AAAAACGAAAGTTAATCGCCCTTAAGAAAAGAAAA
Found at i:113814 original size:29 final size:29
Alignment explanation
Indices: 113773--113828 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
113763 CACACAAATC
113773 ATTTTTAGAAAATAAATCAGAACTATTTT
1 ATTTTTAGAAAATAAATCAGAACTATTTT
113802 ATTTTT-GACAAATAAATCAGAACTATT
1 ATTTTTAGA-AAATAAATCAGAACTATT
113829 ACTCCAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (29 bp):
ATTTTTAGAAAATAAATCAGAACTATTTT
Found at i:119674 original size:35 final size:37
Alignment explanation
Indices: 119629--119703 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 37
119619 GTTTAAAATA
119629 TAGCAAAATTCTATCCTATTTTAG-GA-GTTGAATCC
1 TAGCAAAATTCTATCCTATTTTAGAGATGTTGAATCC
* * *
119664 TAGCAGAATTCTATCCTATTTTTGAGATTTTGAATCC
1 TAGCAAAATTCTATCCTATTTTAGAGATGTTGAATCC
119701 TAG
1 TAG
119704 TAGGACGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 22 0.63
36 2 0.06
37 11 0.31
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (37 bp):
TAGCAAAATTCTATCCTATTTTAGAGATGTTGAATCC
Found at i:120933 original size:204 final size:203
Alignment explanation
Indices: 120245--121544 Score: 1397
Period size: 210 Copynumber: 6.2 Consensus size: 203
120235 CGCCCCTTTG
* * * *
120245 CTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTGAACGAAA-T-CT
1 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----CGAAATTGCT
* * * * *
120308 TGTTGACAATCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCATT
62 TGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTGTCTTGGGTCCAATATCCTT
** * * *
120373 CGCTACGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAACCAGCCGTCCCTTCG
126 CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCG
120438 TTGTGAAGTTGAA
191 TTGTGAAGTTGAA
* * * * *
120451 CTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTCATG-G-AGTTGAAATCGCGGATGAAACTGA
1 CTTGTGTTGTCTCGAGT--C-CAATATCCTTCG-C-TGTGAAGTTGAAAT--TGGCT----CCG-
** * * *
120514 AAAGTTG-TTCGTTGACAACCAACCGTCCCTTCGTTGTGATGTTGAACTTGTGTTGTCTCGGGTA
54 AAA-TTGCTT-GTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTGTCTTGGGT-
* * * * *
120578 GCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGACAAC
115 -C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
120642 CAGCCGTCCCTTCGCTGTGAAGTTGAA
177 CAGCCGTCCCTTCGTTGTGAAGTTGAA
* *
120669 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTGTC
1 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGCTTGTT
* *
120734 GACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCCTTCGCT
66 GACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTGTCTTGGGTCCAATATCCTTCGCT
* * * *
120799 GTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGCTGT
130 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
120864 GAAGTTGAA
195 GAAGTTGAA
* *
120873 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTGTC
1 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGCTTGTT
* * *
120938 GACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCT
66 GACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTGTCTTGGGTCCAATATCCTTCGCT
* * *
121003 GTGAAGTTGAAATTGGCCCTGAAACTGGGAAATT-ATTGTTGACAACCAGCCGTCCCTTCGTTGT
130 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
121067 GAAGTTGAA
195 GAAGTTGAA
* *
121076 CTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
1 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC--CGA-----AA-T
* **
121141 TG-TTGTTGACAAG-CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTC-TGGAGTCCAAT
58 TGCTTGTTGAC-AGTCAGCCGTCCCTTCGT-GTGAAGTTGAACTTGTGTTGTCTTGG-GTCCAAT
* * * * *
121203 ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAGCAGCGGTC
120 ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTC
*
121267 CCTTCGTCGTGAAGTTGAA
185 CCTTCGTTGTGAAGTTGAA
* * * *
121286 CTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTGAAATTGAGAAT
1 CTTGTGTTGTCTCG-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATT--G---
* * *
121350 TTGTTGTTGACAAG-CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAAT
60 --CTTGTTGAC-AGTCAGCCGTCCCTTCGT-GTGAAGTTGAACTTGTGTTGTCTTGG-GTCCAAT
* * *
121413 ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTC
120 ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTC
121478 CCTTCGTTGTGAAGTTGAA
185 CCTTCGTTGTGAAGTTGAA
* * *
121497 CTTGCGTTGTCTCGAGTGCCACAATATCCTCCG-TCGTGGAGTTGAAAT
1 CTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAAT
121545 CGCGGATGGC
Statistics
Matches: 959, Mismatches: 84, Indels: 94
0.84 0.07 0.08
Matches are distributed among these distances:
202 2 0.00
203 88 0.09
204 242 0.25
205 4 0.00
206 16 0.02
207 47 0.05
208 8 0.01
209 24 0.03
210 269 0.28
211 60 0.06
212 4 0.00
213 7 0.01
214 27 0.03
215 67 0.07
216 1 0.00
217 2 0.00
218 91 0.09
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (203 bp):
CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGCTTGTT
GACAGTCAGCCGTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGGGTCCAATATCCTTCGCTG
TGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTG
AAGTTGAA
Found at i:121087 original size:105 final size:104
Alignment explanation
Indices: 120944--121544 Score: 808
Period size: 105 Copynumber: 5.7 Consensus size: 104
120934 TGTCGACAGT
* * * * *
120944 CAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAA
1 CAGCCGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTC-TGGGTCCAATATCCTTCGTTGTGAA
* * * * *
121008 GTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAAC
64 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* * * * *
121049 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAG
1 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GGGTCCAATATCCTTCGTTGTGAAG
*
121114 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
65 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* *
121154 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG-GTCCAATATCCTTCGTTGTGAAG
*
121219 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
65 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* * *
121259 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTTTGAAG
1 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG-GGTCCAATATCCTTCGTTGTGAAG
* *
121324 TTGAAATTGGCTCTGAAATTGAGAATTTGTTGTTGACAAG
65 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
121364 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG-GTCCAATATCCTTCGTTGTGAAG
* *
121429 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
65 TTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAG
* * * *
121470 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTGCCACAATATCCTCCGTCGTG
1 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G-G-GTC-CAATATCCTTCGTTGTG
*
121535 GAGTTGAAAT
62 AAGTTGAAAT
121545 CGCGGATGGC
Statistics
Matches: 451, Mismatches: 36, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
104 2 0.00
105 374 0.83
106 47 0.10
107 1 0.00
108 3 0.01
109 24 0.05
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (104 bp):
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
Found at i:122143 original size:33 final size:33
Alignment explanation
Indices: 122106--122171 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
122096 GTCTTGAAAG
*
122106 AGATAGAAT-TTGTTTCAAGGGAAACGATCTCAA
1 AGATA-AATGTTGTTTCAAGAGAAACGATCTCAA
* * *
122139 AGATATATGTTGTTTCATGAGAAACGGTCTCAA
1 AGATAAATGTTGTTTCAAGAGAAACGATCTCAA
122172 GGGAAACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (33 bp):
AGATAAATGTTGTTTCAAGAGAAACGATCTCAA
Found at i:122262 original size:36 final size:36
Alignment explanation
Indices: 122217--122597 Score: 298
Period size: 36 Copynumber: 10.9 Consensus size: 36
122207 GAAGATTTTG
* *
122217 TGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
122253 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
122290 AGTTCCAAAAGAAACTGTCTCAAGGGGGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
122326 TGTTTCAA-AGAAAACATAT-T-----TA-A-ATATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
*
122355 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
122389 TATTTCAAGGGAAAATGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
122425 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
122462 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATT
* * * * *
122499 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
122527 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
122564 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
122598 CTCTTCTAGT
Statistics
Matches: 278, Mismatches: 40, Indels: 54
0.75 0.11 0.15
Matches are distributed among these distances:
28 4 0.01
29 31 0.11
30 5 0.02
32 1 0.00
34 33 0.12
35 4 0.01
36 115 0.41
37 81 0.29
38 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:122312 original size:37 final size:36
Alignment explanation
Indices: 122229--122313 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 36
122219 TTTCAAGAGT
* * * *
122229 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGA
1 AACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAGA
122265 AACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGA
1 AACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAAGA
122302 AACTGTCTCAAG
1 AACTGTCTCAAG
122314 GGGGACGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 21 0.48
37 23 0.52
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (36 bp):
AACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAGA
Found at i:122464 original size:136 final size:137
Alignment explanation
Indices: 122217--122469 Score: 357
Period size: 136 Copynumber: 1.8 Consensus size: 137
122207 GAAGATTTTG
* * * *
122217 TGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAATTTATTTCAAGAGAAAATGTCTCAAGAGAGA
* * *
122282 CAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGGGACGAAATTTGTTTCAAAGAAAACATATTT
65 CAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACATATTT
122347 AAATATTT
130 AAATATTT
* *
122355 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AATTTATTTCAAGGGAAAATGTCTCAAGAGAGAC
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTATTTCAAGAGAAAATGTCTCAAGAGAGAC
* * **
122419 AAAATTTA-TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAA
66 AAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAA
122470 GGGAAATTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
135 26 0.26
136 48 0.48
138 27 0.27
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (137 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTATTTCAAGAGAAAATGTCTCAAGAGAGAC
AAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACATATTTA
AATATTT
Found at i:123573 original size:22 final size:22
Alignment explanation
Indices: 123548--123591 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
123538 CATTTTTGTT
123548 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
123570 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
123592 TGGGGGTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:124206 original size:23 final size:24
Alignment explanation
Indices: 124180--124232 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
124170 TTTGCATGTG
*
124180 CTTTTTGTCCCTTTTT-CTTTTTT
1 CTTTTTGTCCCTTTTTGCTTTTAT
* *
124203 CTTTTTGTTCTTTTTTGCTTTTAT
1 CTTTTTGTCCCTTTTTGCTTTTAT
124227 -TTTTTG
1 CTTTTTG
124233 CTTCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.02, C:0.15, G:0.08, T:0.75
Consensus pattern (24 bp):
CTTTTTGTCCCTTTTTGCTTTTAT
Found at i:124218 original size:24 final size:24
Alignment explanation
Indices: 124191--124243 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
124181 TTTTTGTCCC
*
124191 TTTTTCTTTTTTCTTTTTG-TTCTT
1 TTTTTCTTTTAT-TTTTTGCTTCTT
*
124215 TTTTGCTTTTATTTTTTGCTTCTT
1 TTTTTCTTTTATTTTTTGCTTCTT
124239 TTTTT
1 TTTTT
124244 TTTGCCCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTTCTTTTATTTTTTGCTTCTT
Found at i:127305 original size:35 final size:37
Alignment explanation
Indices: 127235--127334 Score: 118
Period size: 35 Copynumber: 2.8 Consensus size: 37
127225 GTGCTTGTGG
* *
127235 ATCCTATCTTTAG-GAGTTTAAAAT-ATAGCAAAATTCT
1 ATCCTAT-TTTAGAGAGTTT-GAATCCTAGCAAAATTCT
*
127272 ATCCTATTTTAG-GAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGAGAGTTTGAATCCTAGCAAAATTCT
*
127307 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAGAGAGTTTGAATCCTAG
127335 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
34 3 0.05
35 24 0.43
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTAGAGAGTTTGAATCCTAGCAAAATTCT
Found at i:128002 original size:14 final size:15
Alignment explanation
Indices: 127978--128007 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
127968 CTTAAAACTT
127978 AATCTCTAAACCCTA
1 AATCTCTAAACCCTA
127993 AATCTC-AAACCCTA
1 AATCTCTAAACCCTA
128007 A
1 A
128008 TTTAAGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
AATCTCTAAACCCTA
Found at i:128377 original size:22 final size:22
Alignment explanation
Indices: 128325--128380 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 22
128315 GCAACGCGAT
* * *
128325 TTTGAAAAATGTGTTGCGATAG
1 TTTGAAAAATGTGTTACAAGAG
128347 -TT--AAAATGTGTTACAAGAG
1 TTTGAAAAATGTGTTACAAGAG
128366 TTTGAAAAATGTGTT
1 TTTGAAAAATGTGTT
128381 GTTGCGATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 14 0.50
20 2 0.07
21 2 0.07
22 10 0.36
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (22 bp):
TTTGAAAAATGTGTTACAAGAG
Found at i:128925 original size:19 final size:19
Alignment explanation
Indices: 128901--128937 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
128891 CGCAATACTG
*
128901 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
128920 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
128938 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:130752 original size:21 final size:21
Alignment explanation
Indices: 130726--130770 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
130716 GATTTCTGGG
* *
130726 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
130747 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
130768 CAA
1 CAA
130771 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:132193 original size:23 final size:23
Alignment explanation
Indices: 132167--132257 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
132157 ATTATTATAT
132167 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
*
132190 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
132213 GGCACTAT-GGTGCAATTCTACGT
1 GGCACT-TCGGTGCATTTCTACGC
*
132236 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
132258 AGCTGTGGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
22 1 0.02
23 59 0.98
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:135621 original size:17 final size:17
Alignment explanation
Indices: 135586--135625 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
135576 GGTAATTAAA
135586 GATTGA-TAAGGAATTT
1 GATTGATTAAGGAATTT
* *
135602 GATTGATTAATGATTTT
1 GATTGATTAAGGAATTT
135619 GATTGAT
1 GATTGAT
135626 AAGAACTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (17 bp):
GATTGATTAAGGAATTT
Found at i:136544 original size:21 final size:21
Alignment explanation
Indices: 136518--136562 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
136508 GATTTCTGGG
* *
136518 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
136539 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
136560 CAA
1 CAA
136563 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:138008 original size:23 final size:23
Alignment explanation
Indices: 137982--138049 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
137972 ATTATTATAT
137982 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
138005 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
138028 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
138050 AGTTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:138303 original size:20 final size:21
Alignment explanation
Indices: 138280--138319 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
138270 AAATGATTGT
138280 ATATAA-ATATGTATGTTTTG
1 ATATAAGATATGTATGTTTTG
*
138300 ATATAATGATATGTGTGTTT
1 ATATAA-GATATGTATGTTT
138320 CTCGTGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (21 bp):
ATATAAGATATGTATGTTTTG
Found at i:148578 original size:14 final size:14
Alignment explanation
Indices: 148559--148585 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
148549 GATATTATAA
148559 TTCATAATAAATAC
1 TTCATAATAAATAC
148573 TTCATAATAAATA
1 TTCATAATAAATA
148586 TTTTTAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
TTCATAATAAATAC
Found at i:153952 original size:21 final size:21
Alignment explanation
Indices: 153926--153970 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
153916 GATTTCTGGG
* *
153926 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
153947 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
153968 CAA
1 CAA
153971 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:154663 original size:18 final size:18
Alignment explanation
Indices: 154640--154674 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
154630 CTAGGGGATT
154640 TGAACGTA-AATGATAAGA
1 TGAACGTATAA-GATAAGA
154658 TGAACGTATAAGATAAG
1 TGAACGTATAAGATAAG
154675 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.23
Consensus pattern (18 bp):
TGAACGTATAAGATAAGA
Found at i:155546 original size:13 final size:13
Alignment explanation
Indices: 155528--155590 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
155518 TCTACGGGCA
155528 CTACGGTGCAATT
1 CTACGGTGCAATT
155541 CTACGG-GC-A--
1 CTACGGTGCAATT
155550 CTACGGTGCAATT
1 CTACGGTGCAATT
155563 CTACGG-GC-A--
1 CTACGGTGCAATT
155572 CTACGGTGCAATT
1 CTACGGTGCAATT
155585 CTACGG
1 CTACGG
155591 GCACTTCGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
9 12 0.29
10 4 0.10
11 4 0.10
12 4 0.10
13 18 0.43
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:155611 original size:22 final size:22
Alignment explanation
Indices: 155516--155603 Score: 167
Period size: 22 Copynumber: 4.0 Consensus size: 22
155506 TATGGACATC
155516 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
155538 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
155560 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
*
155582 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTACGGTGCA
155604 TTTATACGAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (22 bp):
ATTCTACGGGCACTACGGTGCA
Found at i:158764 original size:21 final size:21
Alignment explanation
Indices: 158738--158782 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
158728 GATTTCTGGG
* *
158738 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
158759 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
158780 CAA
1 CAA
158783 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:159478 original size:18 final size:18
Alignment explanation
Indices: 159455--159489 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
159445 CTAGGGGATT
159455 TGAACGTA-AATGATAAGA
1 TGAACGTATAA-GATAAGA
159473 TGAACGTATAAGATAAG
1 TGAACGTATAAGATAAG
159490 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.23
Consensus pattern (18 bp):
TGAACGTATAAGATAAGA
Found at i:160359 original size:22 final size:22
Alignment explanation
Indices: 160332--160375 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
160322 TATGGACATC
160332 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
*
160354 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTACGGTGCA
160376 TTTATACGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTACGGTGCA
Found at i:160383 original size:22 final size:22
Alignment explanation
Indices: 160336--160383 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
160326 GACATCATTC
*
160336 TACGGGCACTACGGTGCAATTC
1 TACGGGCACTACGGTGCAATTA
* *
160358 TACGGGCACTTCGGTGCATTTA
1 TACGGGCACTACGGTGCAATTA
160380 TACG
1 TACG
160384 AGCTGTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (22 bp):
TACGGGCACTACGGTGCAATTA
Found at i:162165 original size:54 final size:53
Alignment explanation
Indices: 162105--162271 Score: 192
Period size: 54 Copynumber: 3.1 Consensus size: 53
162095 CAACCTAAGA
* * * *
162105 AATTTATAATAAGTCACTATGTGTGTAACTTAAGAAATTCATAATAAGTTTATG
1 AATTTAT-ATATGACACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATG
* * *
162159 AATTTATGTATTGACACTGTGTGTGCAACCTAAGAAATTCATAATAAATTTATG
1 AATTTATATA-TGACACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATG
** * *
162213 AACTTCCGTAT-TGACACTGTATGTGCAACTTAAGAAATTCATAATAAGATTATG
1 AA-TT-TATATATGACACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATG
162267 AATTT
1 AATTT
162272 TCGTATTGAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
53 4 0.04
54 87 0.92
55 2 0.02
56 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (53 bp):
AATTTATATATGACACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATG
Found at i:162277 original size:54 final size:54
Alignment explanation
Indices: 162126--162285 Score: 234
Period size: 54 Copynumber: 3.0 Consensus size: 54
162116 AGTCACTATG
* * *
162126 TGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTAT-GTATTGACACTGTG
1 TGTGCAACTTAAGAAATTCATAATAAGATTATGAATTT-TCGTATTGACACTGTA
* * *
162180 TGTGCAACCTAAGAAATTCATAATAA-ATTTATGAACTTCCGTATTGACACTGTA
1 TGTGCAACTTAAGAAATTCATAATAAGA-TTATGAATTTTCGTATTGACACTGTA
162234 TGTGCAACTTAAGAAATTCATAATAAGATTATGAATTTTCGTATTGACACTG
1 TGTGCAACTTAAGAAATTCATAATAAGATTATGAATTTTCGTATTGACACTG
162286 AGTATACAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
54 93 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (54 bp):
TGTGCAACTTAAGAAATTCATAATAAGATTATGAATTTTCGTATTGACACTGTA
Found at i:162760 original size:6 final size:6
Alignment explanation
Indices: 162749--162781 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
162739 ATTTTTTGTT
162749 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA
162782 TAGTATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:164095 original size:20 final size:20
Alignment explanation
Indices: 164070--164124 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
164060 ACTTCGATTA
164070 TCGCATTGCGATTTACATA-T
1 TCGCATTGCGATTTACA-AGT
* *
164090 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGAT-TTACAAGT
164111 TCGCATTGCGATTT
1 TCGCATTGCGATTT
164125 TCCAAATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAGT
Found at i:164115 original size:21 final size:21
Alignment explanation
Indices: 164089--164211 Score: 128
Period size: 21 Copynumber: 6.0 Consensus size: 21
164079 GATTTACATA
164089 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
** *
164110 TTCGCATTGCGATTTTCCAAA
1 TTCGCATTGCGATAGTCCAAG
*
164131 TT--CATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
164150 TTTGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
164171 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCATTGCGA--TAGTCCAAG
164194 TTCG--TTGCGATAGTCCAA
1 TTCGCATTGCGATAGTCCAA
164212 AATCGCAACG
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
19 22 0.26
21 52 0.60
23 12 0.14
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:164151 original size:40 final size:41
Alignment explanation
Indices: 164070--164162 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 41
164060 ACTTCGATTA
*
164070 TCGCATTGCGA-TTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTTACAAATTC-CATTGCGATAGTCCAAGT
* *
164111 TCGCATTGCGATTTTCCAAATT-CATTGCGATAGTCGAAGT
1 TCGCATTGCGATTTTACAAATTCCATTGCGATAGTCCAAGT
* *
164151 TTGCGTTGCGAT
1 TCGCATTGCGAT
164163 AGTCCAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 27 0.59
41 11 0.24
42 8 0.17
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
TCGCATTGCGATTTTACAAATTCCATTGCGATAGTCCAAGT
Found at i:164169 original size:40 final size:41
Alignment explanation
Indices: 164088--164212 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 41
164078 CGATTTACAT
* * **
164088 ATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTTCCAA
1 ATTC-CATTGCGATAGTCCAAGTTTGCGTTGCGATAGTCCAA
*
164130 ATT-CATTGCGATAGTCGAAGTTTGCGTTGCGATAGTCCAA
1 ATTCCATTGCGATAGTCCAAGTTTGCGTTGCGATAGTCCAA
* * *
164170 GTTCGCGTTGCGATTTATTCCAAG-TT-CGTTGCGATAGTCCAA
1 ATTC-CATTGCGA--TAGTCCAAGTTTGCGTTGCGATAGTCCAA
164212 A
1 A
164213 ATCGCAACGA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
40 34 0.49
42 26 0.38
43 2 0.03
44 7 0.10
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (41 bp):
ATTCCATTGCGATAGTCCAAGTTTGCGTTGCGATAGTCCAA
Found at i:164948 original size:21 final size:21
Alignment explanation
Indices: 164922--165030 Score: 81
Period size: 19 Copynumber: 5.4 Consensus size: 21
164912 ATTTTGGACT
164922 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
164943 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
164964 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
164983 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
165004 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
165023 ATCGCAAC
1 ATCGCAAC
165031 ACGAACTTCG
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
19 30 0.44
21 28 0.41
23 10 0.15
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:164996 original size:40 final size:40
Alignment explanation
Indices: 164918--165052 Score: 234
Period size: 40 Copynumber: 3.3 Consensus size: 40
164908 TGCGATTTTG
*
164918 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
164960 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
*
165000 GACTATCGCAACGAATTTGGAAAATCGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
165040 GACTATCGCAACG
1 GACTATCGCAACG
165053 CGAACTTCGA
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 70 0.77
41 1 0.01
42 20 0.22
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (40 bp):
GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
Found at i:165009 original size:61 final size:61
Alignment explanation
Indices: 164943--165117 Score: 192
Period size: 61 Copynumber: 2.9 Consensus size: 61
164933 TTTGGAATAA
** * *
164943 ATCGCAACGCGAACTTGGACTATCGC-A-ACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAACTTGGAAAATCGCAACACGAACTTCGAAAATCGCAACGCGAACTTCGACT
* **
165004 ATCGCAACGAATTTGGAAAATCGCAACACGAACTTCGACTATCGCAACGCGAACTTCGACT
1 ATCGCAACGAACTTGGAAAATCGCAACACGAACTTCGAAAATCGCAACGCGAACTTCGACT
* * * * ** *
165065 ATCGCAATGAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAATGCGAA
1 ATCGCAACGAACTTGGAAAATCGCAACACGAACTTCGAAAATCGCAACGCGAA
165118 TATGTAAATC
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
59 14 0.14
60 1 0.01
61 86 0.85
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (61 bp):
ATCGCAACGAACTTGGAAAATCGCAACACGAACTTCGAAAATCGCAACGCGAACTTCGACT
Found at i:165155 original size:21 final size:21
Alignment explanation
Indices: 165126--165178 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
165116 AATATGTAAA
*
165126 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
165147 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
165168 TCGCGTTGCGA
1 TCGCGTTGCGA
165179 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:165714 original size:60 final size:60
Alignment explanation
Indices: 165619--165809 Score: 206
Period size: 60 Copynumber: 3.1 Consensus size: 60
165609 ACATCATATG
* *
165619 TCCCCAAACACTATGGCTCTCATTTTAAATTAGTCCATAAACTTTTAGATATTCCAATTTAA
1 TCCCC-AA-ACTATGACTCTCATTTTAAATTAGTCCATAAACTTTTAGATATTCTAATTTAA
* * *
165681 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTT-GAATATTCTATTTTCA
1 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCATAAACTTTTAG-ATATTCTAATTTAA
* * * * * * * *
165741 TCCCTAAATTATGACCCT-TTTTCTAAATTAATCCCTAAACTTTTAAATATTCTAATTTTA
1 TCCCCAAACTATGACTCTCATTT-TAAATTAGTCCATAAACTTTTAGATATTCTAATTTAA
*
165801 TCCCAAAAC
1 TCCCCAAAC
165810 CCAAAACTCG
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 4 0.04
60 99 0.90
61 2 0.02
62 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (60 bp):
TCCCCAAACTATGACTCTCATTTTAAATTAGTCCATAAACTTTTAGATATTCTAATTTAA
Found at i:168194 original size:16 final size:16
Alignment explanation
Indices: 168173--168205 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
168163 AGCTACTTTT
168173 AGATGGTACAGAGTTG
1 AGATGGTACAGAGTTG
168189 AGATGGTACAGAGTTG
1 AGATGGTACAGAGTTG
168205 A
1 A
168206 CCATACTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.36, T:0.24
Consensus pattern (16 bp):
AGATGGTACAGAGTTG
Found at i:177075 original size:36 final size:36
Alignment explanation
Indices: 177015--177191 Score: 209
Period size: 36 Copynumber: 5.0 Consensus size: 36
177005 ACGAAAGAAT
177015 GCATCG-CACTTCCGA-TCAAGTCGAACGGAAGGAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
* * *
177049 GTATTGACACTTCCGATTCAAGTCGAACGG-AGAAAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAG-GAA
* * * * *
177085 GCGTCGGCACTCCCAATTCAAGTCGAACGGAGGGAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
**
177121 GCATCGGTACTTCCGATTCAAGTCGAACGGAAGGAA
1 GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
*
177157 GCATC-AGCACTTCCGATTCAAGTTGAACGGAAGGA
1 GCATCGA-CACTTCCGATTCAAGTCGAACGGAAGGA
177192 TGTATCGCAT
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
34 4 0.03
35 11 0.09
36 103 0.87
37 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.18
Consensus pattern (36 bp):
GCATCGACACTTCCGATTCAAGTCGAACGGAAGGAA
Found at i:181784 original size:18 final size:17
Alignment explanation
Indices: 181745--181787 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
181735 ATTATATAGA
181745 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
181761 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
181779 TATTATTAT
1 TATTATTAT
181788 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:184907 original size:8 final size:8
Alignment explanation
Indices: 184894--184932 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
184884 GAACATTTCA
*
184894 TGCATTCT
1 TGCATTTT
184902 TGCA-TTT
1 TGCATTTT
184909 TGCATTTT
1 TGCATTTT
*
184917 TGCCTTTT
1 TGCATTTT
184925 TGCATTTT
1 TGCATTTT
184933 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:186799 original size:22 final size:22
Alignment explanation
Indices: 186771--186826 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
186761 AGCTACCCCA
186771 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
186793 TCAAACCATTT-AGCATCAAATG
1 TCAAACC-TTTGAGCATCAAATG
*
186815 CCAAACCTTTGA
1 TCAAACCTTTGA
186827 CCAAACACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:187816 original size:36 final size:36
Alignment explanation
Indices: 187769--188031 Score: 263
Period size: 36 Copynumber: 7.4 Consensus size: 36
187759 ATTGAAAACA
* *
187769 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
187805 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * * *
187842 TTTCTCTTTAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
187878 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
187907 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
187943 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
187980 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
188016 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
188032 ATCTTTGAAT
Statistics
Matches: 186, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 1 0.01
36 98 0.53
37 64 0.34
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:187880 original size:138 final size:138
Alignment explanation
Indices: 187703--188094 Score: 466
Period size: 138 Copynumber: 2.8 Consensus size: 138
187693 ACTCATGATT
* * *
187703 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAACATTTGAAA
* * *
187766 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
64 ACATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTC
187831 TCTTGAGACA
129 TCTTGAGACA
* * * * *
187841 GTTTCTCTTTAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAAAAC
* * * ** * * *
187906 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
187971 TTGAGACA
131 TTGAGACA
* * **
187979 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATC-TTTGAATT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-CATTTGAAAA
* * * * * * *
188043 TATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACA
65 CATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
188095 CAAAATCTTC
Statistics
Matches: 216, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
137 5 0.02
138 211 0.98
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (138 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAAAAC
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
TTGAGACA
Found at i:187917 original size:102 final size:101
Alignment explanation
Indices: 187811--187995 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 101
187801 ATAGTTTCCC
* *
187811 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTT-AAATAAATTTTGTCTCTCTTGAGA
1 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCT-TTTGAAATAAATTTTGTCTCTCTTGAGA
187875 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
64 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* *
187913 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTT-GAAATAAATTTTGTCTCTCTTGAGAC
*
187978 AGTTTCTCTTGAAACAAA
65 AGTTTCCCTTGAAACAAA
187996 TTTCGTCTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 3 0.04
101 26 0.34
102 47 0.62
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (101 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGAAATAAATTTTGTCTCTCTTGAGACA
GTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:188093 original size:65 final size:67
Alignment explanation
Indices: 187989--188146 Score: 203
Period size: 65 Copynumber: 2.4 Consensus size: 67
187979 GTTTCTCTTG
* ** * * **
187989 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
188052 TA
66 TA
* *
188054 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
188119 TA
66 TA
*
188121 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
188147 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 30 0.38
66 2 0.03
67 29 0.36
68 19 0.24
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:188992 original size:105 final size:104
Alignment explanation
Indices: 188792--189308 Score: 727
Period size: 105 Copynumber: 5.0 Consensus size: 104
188782 GCACTCGAGG
* * * * * *
188792 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAG
* *
188857 AGCCAATTTCAACTTCACAACGAATGATATTGGACTCCATA
64 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
188898 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGA
*
188963 GCCAATTTCAACTTCACAACGAAGCATATTGGACTCCAGA
65 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
189003 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGA
189068 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
189108 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAG
* *
189169 TCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * **
189208 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAG
* *
189273 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
64 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
189309 TGGAACAATG
Statistics
Matches: 375, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
100 83 0.22
101 4 0.01
102 3 0.01
103 4 0.01
104 4 0.01
105 202 0.54
106 75 0.20
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (104 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAG
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Done.