Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 88 of 284
Found at i:29133989 original size:29 final size:30
Alignment explanation
Indices: 29133947--29134032 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 30
29133937 ACATTTCTTG
* *
29133947 GAAT-TGATTCGGG-CTAGATGGGCCATAT
1 GAATATGATTTGGGCCTAGATGGGTCATAT
29133975 GAATATGATTTGGGCCTA-ATGGGTCATAT
1 GAATATGATTTGGGCCTAGATGGGTCATAT
29134004 GAATGA-GA-TTGGGCCTAG-TGGGTCATAT
1 GAAT-ATGATTTGGGCCTAGATGGGTCATAT
29134032 G
1 G
29134033 CATGTATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
28 24 0.46
29 24 0.46
30 4 0.08
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (30 bp):
GAATATGATTTGGGCCTAGATGGGTCATAT
Found at i:29146802 original size:18 final size:18
Alignment explanation
Indices: 29146783--29146818 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29146773 CTCTTTGGTA
29146783 TTGTTCTTGAACTCTTTAT
1 TTGTT-TTGAACTCTTTAT
*
29146802 TTGTTTTGAGCTCTTTA
1 TTGTTTTGAACTCTTTA
29146819 AGTAACTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (18 bp):
TTGTTTTGAACTCTTTAT
Found at i:29154678 original size:13 final size:14
Alignment explanation
Indices: 29154650--29154679 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29154640 TTTTCCTTTT
29154650 TTTTCTTTTCTCCC
1 TTTTCTTTTCTCCC
29154664 TTTTCTTTT-TCCC
1 TTTTCTTTTCTCCC
29154677 TTT
1 TTT
29154680 CTTCTCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCTTTTCTCCC
Found at i:29154767 original size:13 final size:13
Alignment explanation
Indices: 29154749--29154773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29154739 TGTTTTAGTT
29154749 ATATTATTATATA
1 ATATTATTATATA
29154762 ATATTATTATAT
1 ATATTATTATAT
29154774 TATAATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTATTATATA
Found at i:29156695 original size:15 final size:16
Alignment explanation
Indices: 29156666--29156695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29156656 CAAACATGCT
29156666 TTAACACATTATCAAA
1 TTAACACATTATCAAA
29156682 TTAACACA-TATCAA
1 TTAACACATTATCAA
29156696 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:29161476 original size:21 final size:21
Alignment explanation
Indices: 29161452--29161499 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29161442 TCTTGAATTG
* *
29161452 TTTTATTTATAAGATTGTTAA
1 TTTTATTTATAAAATTATTAA
*
29161473 TTTTATTTATAAAATTATTAT
1 TTTTATTTATAAAATTATTAA
29161494 TTTTAT
1 TTTTAT
29161500 AATTAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTATTTATAAAATTATTAA
Found at i:29161587 original size:20 final size:20
Alignment explanation
Indices: 29161543--29161587 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
29161533 TTATTCAAAA
*
29161543 ATATTTTTATAATTTTGTAT
1 ATATTTTTATAAATTTGTAT
*
29161563 CTATTTTTATAAAATTT-TAT
1 ATATTTTTAT-AAATTTGTAT
29161583 ATATT
1 ATATT
29161588 CCTATCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATATTTTTATAAATTTGTAT
Found at i:29161749 original size:35 final size:35
Alignment explanation
Indices: 29161703--29161775 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
29161693 GTTAAATTTG
29161703 CTGAATTTTTAAAATTAAAACTAAATTGATAAAAT
1 CTGAATTTTTAAAATTAAAACTAAATTGATAAAAT
*
29161738 CTGAATTTTTAAAATTAAAATTAAATTGATAAAAT
1 CTGAATTTTTAAAATTAAAACTAAATTGATAAAAT
29161773 CTG
1 CTG
29161776 TAAATATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.38
Consensus pattern (35 bp):
CTGAATTTTTAAAATTAAAACTAAATTGATAAAAT
Found at i:29161770 original size:20 final size:20
Alignment explanation
Indices: 29161712--29161772 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
29161702 GCTGAATTTT
*
29161712 TAAAATTAAAACTAAATTGA
1 TAAAATTAAAATTAAATTGA
*
29161732 TAAAATCT-GAATT---TT--
1 TAAAAT-TAAAATTAAATTGA
29161747 TAAAATTAAAATTAAATTGA
1 TAAAATTAAAATTAAATTGA
29161767 TAAAAT
1 TAAAAT
29161773 CTGTAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
14 1 0.03
15 10 0.32
17 2 0.06
18 2 0.06
20 15 0.48
21 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAATTAAAATTAAATTGA
Found at i:29162237 original size:30 final size:30
Alignment explanation
Indices: 29162203--29162265 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
29162193 ACTTAACAAG
* *
29162203 CAAATG-CTTCTAAAATAATTATAAAATTAA
1 CAAATGCCTT-TAAAATAATAAGAAAATTAA
29162233 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
29162263 CAA
1 CAA
29162266 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:29171902 original size:13 final size:13
Alignment explanation
Indices: 29171884--29171915 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
29171874 TAGGCCACTC
29171884 GGCCCGGTCCGAA
1 GGCCCGGTCCGAA
29171897 GGCCCGGTCCGAA
1 GGCCCGGTCCGAA
29171910 GGCCCG
1 GGCCCG
29171916 CCCCGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.41, G:0.41, T:0.06
Consensus pattern (13 bp):
GGCCCGGTCCGAA
Found at i:29172227 original size:22 final size:22
Alignment explanation
Indices: 29172196--29172251 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
29172186 GTGTTGTTGG
* *
29172196 TGGTGATGTTTTTTGTGCTGTT
1 TGGTGCTGTTTTTTGTACTGTT
29172218 TGGTGCTGTTTTTTGTACTGTT
1 TGGTGCTGTTTTTTGTACTGTT
29172240 TGGTGCTGTTTT
1 TGGTGCTGTTTT
29172252 AATGTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.04, C:0.07, G:0.30, T:0.59
Consensus pattern (22 bp):
TGGTGCTGTTTTTTGTACTGTT
Found at i:29172282 original size:22 final size:22
Alignment explanation
Indices: 29172170--29172284 Score: 81
Period size: 22 Copynumber: 5.2 Consensus size: 22
29172160 TTTTGCAGGT
* *
29172170 TTTTGGTGCTATTTTGGTGTTG
1 TTTTGGTGCTATTTTTGTGCTG
* * *
29172192 TTGGTGGTGATGTTTTTTGTGCTG
1 TT-TTGGTGCT-ATTTTTGTGCTG
* *
29172216 -TTTGGTGCTGTTTTTTGTACTG
1 TTTTGGTGCT-ATTTTTGTGCTG
* ** *
29172238 -TTTGGTGCTGTTTTAATGTTG
1 TTTTGGTGCTATTTTTGTGCTG
*
29172259 TTTTGGTGCTATTTTTGTGGTG
1 TTTTGGTGCTATTTTTGTGCTG
29172281 TTTT
1 TTTT
29172285 ATTGTTCTTT
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.10
22 50 0.68
23 7 0.10
24 9 0.12
ACGTcount: A:0.05, C:0.05, G:0.30, T:0.59
Consensus pattern (22 bp):
TTTTGGTGCTATTTTTGTGCTG
Found at i:29172662 original size:23 final size:25
Alignment explanation
Indices: 29172636--29172683 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
29172626 CTTAACTTAT
*
29172636 TTTATTAAAT-AAA-AAATTTAAAA
1 TTTAATAAATCAAATAAATTTAAAA
*
29172659 TTTAATAAATCAAATACATTTAAAA
1 TTTAATAAATCAAATAAATTTAAAA
29172684 ACATAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 3 0.14
25 9 0.43
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTAATAAATCAAATAAATTTAAAA
Found at i:29172972 original size:25 final size:24
Alignment explanation
Indices: 29172944--29172991 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
29172934 ACAGCATCAA
29172944 AACAACACCAAACAACACAAAAAAT
1 AACAACACC-AACAACACAAAAAAT
* *
29172969 AACATCACCAACAACACCAAAAA
1 AACAACACCAACAACACAAAAAA
29172992 CTTGCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.65, C:0.31, G:0.00, T:0.04
Consensus pattern (24 bp):
AACAACACCAACAACACAAAAAAT
Found at i:29174890 original size:11 final size:11
Alignment explanation
Indices: 29174874--29174900 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29174864 TCAAAAGTAG
29174874 TTAATTTAAAT
1 TTAATTTAAAT
29174885 TTAATTTAAAT
1 TTAATTTAAAT
29174896 TTAAT
1 TTAAT
29174901 ATGCAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:29180846 original size:80 final size:80
Alignment explanation
Indices: 29180704--29180861 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 80
29180694 CTCCATATGG
* *
29180704 AGAAAAGAGAGCACGTTGATGTATTGAGTGTGAGACTTTGAAATTTCTATTGGAAAATGATCTAA
1 AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATTGGAAAATGATCTAA
29180769 CAGTCCATTTTCAGC
66 CAGTCCATTTTCAGC
29180784 AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATTGGGAAAA-GATCTA
1 AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATT-GGAAAATGATCTA
*
29180848 ACATTCCATTTTCA
65 ACAGTCCATTTTCA
29180862 ATTACATCAG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
80 68 0.92
81 6 0.08
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (80 bp):
AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATTGGAAAATGATCTAA
CAGTCCATTTTCAGC
Found at i:29184396 original size:23 final size:22
Alignment explanation
Indices: 29184365--29184422 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
29184355 ATGACATTAA
*
29184365 TATAT-ATTTTAAA-ATTTTAT
1 TATATGATTTTAAATAATTTAT
29184385 ATGATATGATTTGTAAATAATTTAT
1 -T-ATATGATTT-TAAATAATTTAT
29184410 TATAATGATTTTA
1 TAT-ATGATTTTA
29184423 TTTAGGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.03
22 4 0.13
23 8 0.26
24 12 0.39
25 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATATGATTTTAAATAATTTAT
Found at i:29213522 original size:20 final size:21
Alignment explanation
Indices: 29213484--29213525 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29213474 ATACATGAAA
*
29213484 TTAAAAAAAATAACTCTTAAT
1 TTAAAAAAAATAACACTTAAT
*
29213505 TTAAAGAAAATAA-ACTTAAT
1 TTAAAAAAAATAACACTTAAT
29213525 T
1 T
29213526 ATCTAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAAAAAATAACACTTAAT
Found at i:29214117 original size:17 final size:18
Alignment explanation
Indices: 29214091--29214130 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
29214081 TACTCAACCA
*
29214091 ATTATTTATTTTAA-TTT
1 ATTATATATTTTAATTTT
29214108 ATTATATATTTTAATTTT
1 ATTATATATTTTAATTTT
29214126 ATTAT
1 ATTAT
29214131 GTACATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTATATATTTTAATTTT
Found at i:29223667 original size:56 final size:54
Alignment explanation
Indices: 29223604--29224096 Score: 197
Period size: 52 Copynumber: 9.1 Consensus size: 54
29223594 GGGTTTATGA
*
29223604 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTGTAAATAAATTAAGTTAGTG
1 TTTTAAATAGATTAAGTAAATTAGGGTT-TAGGGTT-TAAATAAATTAAGTTAGTG
* * * *
29223660 TTTTAAATA-ACT---TAAATTAGGGTTTAGGGTTT-ATTAAATTAGGATTTATGTT
1 TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTA--AGTTA-GTG
*
29223712 TTTTAAATAGATTGAGTAAATTAGGGCTTTAGGGTTTTAAATAAATTAAGTTAG-G
1 TTTTAAATAGATTAAGTAAATTAGGG-TTTAGGG-TTTAAATAAATTAAGTTAGTG
* * * * * * * * *
29223767 TTTT-AA-A-ATAAATTAAATTAGCGTTTTGGATTT-ATTAAATTAGGGTTTATATT
1 TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTA-AG-TTA-GTG
*** * * * *
29223820 TTTTGGTTAAAACTAATTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAG-G
1 TTTTAAAT-AGATTAAGTAAATTAGGGTT-TAGG-GTTTAAATAAATTAAGTTAGTG
* * * * * * * * *
29223876 GTTT-AA-A-ATAAATTAAATTAGGGTTTTGTGTTT-ATTAAATTAGGGCTTATATT
1 TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTA-AG-TTA-GTG
* * *
29223929 TTTGGTTAA-A-ATTAATTAAATTAGGTTTCTAGGGTTTTAAATAAATTAAGTTAG-G
1 TTT--TAAATAGATTAAGTAAATTAGGGTT-TAGGG-TTTAAATAAATTAAGTTAGTG
* * * * *
29223984 GTTTAAACT--A--AATTAAATTAGGGTTTTGGGTTT--ATCAAATTAGGGCTTATGTTT
1 TTTTAAA-TAGATTAAGTAAATTAGGGTTTAGGGTTTAAAT-AAATTA-AG-TTA-G-TG
* *
29224038 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAG
1 TTTTAAATAGATTAAGTAAATTAGGGTT-TAGGG-TTTAAATAAATTAAGTTAGTG
29224094 TTT
1 TTT
29224097 AGGGTTTAAG
Statistics
Matches: 326, Mismatches: 64, Indels: 94
0.67 0.13 0.19
Matches are distributed among these distances:
48 2 0.01
49 30 0.09
50 13 0.04
51 30 0.09
52 66 0.20
53 14 0.04
54 9 0.03
55 10 0.03
56 46 0.14
57 47 0.14
58 20 0.06
59 23 0.07
60 14 0.04
61 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (54 bp):
TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTAAGTTAGTG
Found at i:29223669 original size:22 final size:22
Alignment explanation
Indices: 29223641--29223684 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29223631 TCTAGGATTG
* *
29223641 TAAATAAATTAAGTTAGTGTTT
1 TAAATAAATTAAATTAGGGTTT
*
29223663 TAAATAACTTAAATTAGGGTTT
1 TAAATAAATTAAATTAGGGTTT
29223685 AGGGTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
TAAATAAATTAAATTAGGGTTT
Found at i:29223768 original size:21 final size:22
Alignment explanation
Indices: 29223744--29223793 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
29223734 AGGGCTTTAG
*
29223744 GGTTTT-AAATAAATTAAGTTA
1 GGTTTTAAAATAAATTAAATTA
29223765 GGTTTTAAAATAAATTAAATTA
1 GGTTTTAAAATAAATTAAATTA
29223787 GCGTTTT
1 G-GTTTT
29223794 GGATTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.23
22 15 0.58
23 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (22 bp):
GGTTTTAAAATAAATTAAATTA
Found at i:29223778 original size:217 final size:214
Alignment explanation
Indices: 29223550--29224097 Score: 645
Period size: 217 Copynumber: 2.5 Consensus size: 214
29223540 AAGGTTAATT
* ** ** * *
29223550 GTTTT-AAATAAATTAAGTTAGGGTTTTAAATAAATTAGGGATTGGGGTTTATGATTTTAAATAG
1 GTTTTAAAATAAATTAAATTAGGGTTTTGGATTTATTA--AATTAGGGTTTATGATTTTAAATAG
* * * *
29223614 ATTAAGTAAATTAGGGTTCTAGGATTGTAAATAAATTAAGTTAGTGTTTTAAATAACTTAAATTA
64 ATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTAAAATAAATTAAATTA
* * *
29223679 GGGTTTAGGGTTTATTAAATTAGGATTTATGTTTTT-TAAATAGATTGAGTAAATTAGGGCTT-T
129 GGGTTTAGGGTTTATTAAATTAGGACTTATATTTTTGTAAA-A-ATTAAGTAAATTA-GGCTTCT
29223742 AGGGTTTTAAATAAATTAAGTTAG
191 AGGGTTTTAAATAAATTAAGTTAG
* ***
29223766 GTTTTAAAATAAATTAAATTAGCGTTTTGGATTTATTAAATTAGGGTTTAT-ATTTTTTGGTTAA
1 GTTTTAAAATAAATTAAATTAGGGTTTTGGATTTATTAAATTAGGGTTTATGA--TTTTAAAT-A
* * * *
29223830 AACTAATTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATT
63 GATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTAAAATAAATTAAATT
* * * * * *
29223895 AGGGTTTTGTGTTTATTAAATTAGGGCTTATATTTTTGGTTAAAATTAATTAAATTAGGTTTCTA
128 AGGGTTTAGGGTTTATTAAATTAGGACTTATATTTTT-GTAAAAATTAAGTAAATTAGGCTTCTA
29223960 GGGTTTTAAATAAATTAAGTTAG
192 GGGTTTTAAATAAATTAAGTTAG
* * * * * *
29223983 GGTTTAAACTAAATTAAATTAGGGTTTTGGGTTTATCAAATTAGGGCTTATGTTTTTTTAAATAG
1 GTTTTAAAATAAATTAAATTAGGGTTTTGGATTTATTAAATTAGGGTTTATG--ATTTTAAATAG
* *
29224048 ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAGTTTA
64 ATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTA
29224098 GGGTTTAAGG
Statistics
Matches: 279, Mismatches: 43, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
214 1 0.00
215 11 0.04
216 14 0.05
217 244 0.87
218 6 0.02
219 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (214 bp):
GTTTTAAAATAAATTAAATTAGGGTTTTGGATTTATTAAATTAGGGTTTATGATTTTAAATAGAT
TAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTAAAATAAATTAAATTAGG
GTTTAGGGTTTATTAAATTAGGACTTATATTTTTGTAAAAATTAAGTAAATTAGGCTTCTAGGGT
TTTAAATAAATTAAGTTAG
Found at i:29223881 original size:109 final size:109
Alignment explanation
Indices: 29223614--29224097 Score: 636
Period size: 108 Copynumber: 4.5 Consensus size: 109
29223604 TTTTAAATAG
* * * * *
29223614 ATTAAGTAAATTAGGGTTCTAGGATTGTAAATAAATTAAGTTAGTGTTTTAAATAACTTAAATTA
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
* ** * *** *
29223679 GGGTTTAGGGTTTATTAAATTAGGATTTATGTTTTTTAAAT-AG
66 GGGTTTTGGGTTTATTAAATTAGGGCTTATATTTTTTGGTTAAA
* *
29223722 ATTGAGTAAATTAGGGCTT-TAGGGTTTTAAATAAATTAAGTTAGGTTTTAAAATAAATTAAATT
1 ATTAAGTAAATTAGGG-TTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATT
* * *
29223786 AGCGTTTTGGATTTATTAAATTAGGGTTTATATTTTTTGGTTAAA
65 AGGGTTTTGGGTTTATTAAATTAGGGCTTATATTTTTTGGTTAAA
* * *
29223831 ACTAATTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
*
29223896 GGGTTTTGTGTTTATTAAATTAGGGCTTATA-TTTTTGGTTAAA
66 GGGTTTTGGGTTTATTAAATTAGGGCTTATATTTTTTGGTTAAA
* * *
29223939 ATTAATTAAATTAGGTTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAACTAAATTAAATTA
1 ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
* * *
29224004 GGGTTTTGGGTTTATCAAATTAGGGCTTATGTTTTTT--TAAATA
66 GGGTTTTGGGTTTATTAAATTAGGGCTTATATTTTTTGGTTAA-A
* *
29224047 GATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAGTTTA
1 -ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTA
29224098 GGGTTTAAGG
Statistics
Matches: 333, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
107 3 0.01
108 192 0.58
109 138 0.41
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (109 bp):
ATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
GGGTTTTGGGTTTATTAAATTAGGGCTTATATTTTTTGGTTAAA
Found at i:29223884 original size:22 final size:22
Alignment explanation
Indices: 29223850--29223901 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
29223840 ATTAGGGTTC
* * *
29223850 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
29223872 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
29223894 TAGGGTTT
1 TAGGGTTT
29223902 TGTGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:29223986 original size:22 final size:23
Alignment explanation
Indices: 29223958--29224010 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
29223948 ATTAGGTTTC
*
29223958 TAGGGTTTTAAA-TAAATTAAGT
1 TAGGGTTTTAAACTAAATTAAAT
29223980 TAGGG-TTTAAACTAAATTAAAT
1 TAGGGTTTTAAACTAAATTAAAT
29224002 TAGGGTTTT
1 TAGGGTTTT
29224011 GGGTTTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.21
22 19 0.68
23 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (23 bp):
TAGGGTTTTAAACTAAATTAAAT
Found at i:29224123 original size:35 final size:37
Alignment explanation
Indices: 29224058--29224133 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 37
29224048 ATTAAGTAAA
* *
29224058 TTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAGT
1 TTAGGGTTCTAAGGTTTAAAATAAATTAAATTAGAGT
* *
29224095 TTAGGGTT-TAAGG-TTAAAATTAATTAAATTAGGGT
1 TTAGGGTTCTAAGGTTTAAAATAAATTAAATTAGAGT
29224130 TTAG
1 TTAG
29224134 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 23 0.66
36 4 0.11
37 8 0.23
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (37 bp):
TTAGGGTTCTAAGGTTTAAAATAAATTAAATTAGAGT
Found at i:29224330 original size:126 final size:127
Alignment explanation
Indices: 29224188--29224510 Score: 412
Period size: 119 Copynumber: 2.6 Consensus size: 127
29224178 TATTTTACCT
* *
29224188 TAAAAAAATAATTTTGAGAAGACGTTTCTAAATAAATAGTGTTAAAAACGCTTCAAGCAGGATGC
1 TAAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * *
29224253 ATTGTCGGCAAAAATAT-AGAAAAAAGCTCCCACATGGACGCTCTTTTGCTATAGTAGTTCC
66 AATGTCAGCAAAAATATCAGAAAAAAGCTCCCACATAGACGCTCTTTTGCTACAGCAGTTCC
* *
29224314 TAAAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACG--T-----AGGATGC
1 TAAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * * *
29224372 AATGCCAGC-AAAATTTCTGAAAAAAGCTCCCACGTAGACGCTCTTTTTCTACAGCAGTTCT
66 AATGTCAGCAAAAATATCAGAAAAAAGCTCCCACATAGACGCTCTTTTGCTACAGCAGTTCC
* * * *
29224433 TGAAAAAATAATTTTGAGAAGACGTTTCCAAACAAATAGTGTCAAAAACGCTTCAAGCAAGTTGC
1 TAAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
29224498 AATGTCAGCAAAA
66 AATGTCAGCAAAA
29224511 TTTCTAAAAA
Statistics
Matches: 166, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
118 6 0.04
119 96 0.58
121 1 0.01
124 1 0.01
126 59 0.36
127 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (127 bp):
TAAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
AATGTCAGCAAAAATATCAGAAAAAAGCTCCCACATAGACGCTCTTTTGCTACAGCAGTTCC
Found at i:29230462 original size:18 final size:18
Alignment explanation
Indices: 29230439--29230474 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
29230429 AAAAAGGAAA
*
29230439 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
29230457 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
29230475 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:29231828 original size:26 final size:26
Alignment explanation
Indices: 29231799--29231883 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 26
29231789 ATAAAAAAAT
29231799 ATAAAATAAAAATTAATTAAAATTAC
1 ATAAAATAAAAATTAATTAAAATTAC
* * *
29231825 ATAAATGAAAAAAATATTAAATAATATT-C
1 AT-AA--AATAAAA-ATTAATTAAAATTAC
*
29231854 A-AAAATTAAAATTAATTAAAATTAC
1 ATAAAATAAAAATTAATTAAAATTAC
29231879 ATAAA
1 ATAAA
29231884 TGGAAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
24 11 0.24
25 7 0.15
26 5 0.11
27 4 0.09
29 8 0.17
30 11 0.24
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (26 bp):
ATAAAATAAAAATTAATTAAAATTAC
Found at i:29240306 original size:17 final size:17
Alignment explanation
Indices: 29240278--29240311 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
29240268 AACTTTTTAG
29240278 CTTTTTTACATT-ATTT
1 CTTTTTTACATTGATTT
29240294 CTTTTTTACCATTGATTT
1 CTTTTTTA-CATTGATTT
29240312 GAAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.65
Consensus pattern (17 bp):
CTTTTTTACATTGATTT
Found at i:29253776 original size:18 final size:19
Alignment explanation
Indices: 29253749--29253791 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
29253739 GTACTCTTGA
* *
29253749 ATAAACAACCAATT-TCAG
1 ATAAATAACCAATTAACAG
*
29253767 ATAAATAACCACTTAACAG
1 ATAAATAACCAATTAACAG
29253786 ATAAAT
1 ATAAAT
29253792 CAATTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.19, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAAATAACCAATTAACAG
Found at i:29263339 original size:48 final size:48
Alignment explanation
Indices: 29263242--29263375 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
29263232 TATGTATGAA
* *
29263242 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATTTACGAT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATTAACGAT
* * *
29263290 CCCACGTAGGACCATGTCTGGGACATGGTATTGGCATCGA-TAAGTGAT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATTAA-CGAT
* * * * * *
29263338 CCCATGTAAAACCATATTTGGGATATGACATTGGCATC
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATC
29263376 CTACCATGTG
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 2 0.03
48 70 0.97
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (48 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATTAACGAT
Found at i:29270117 original size:48 final size:48
Alignment explanation
Indices: 29270065--29270201 Score: 166
Period size: 48 Copynumber: 2.9 Consensus size: 48
29270055 ATCGATATGT
* * **
29270065 GATCCCTTGTAAGACCATGTTTGGGACATGGCATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAATAGAC
* * * **
29270113 GATCCCATGTAAGACCATGTCTGGCACATGGAATTGGCATCAATAGGT
1 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAATAGAC
* * *
29270161 GATCCCATGTAAGACTATATTTGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATC
29270202 CTACCATGTG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAATAGAC
Found at i:29271755 original size:37 final size:37
Alignment explanation
Indices: 29271705--29271775 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
29271695 GCTCAGATGA
* *
29271705 AATCTCCACACGTAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAATCATCGGGTCTTACCCGGACAT
29271742 AATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAATCATCGGGTCTTACCCGGA
29271776 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAATCATCGGGTCTTACCCGGACAT
Found at i:29272052 original size:50 final size:48
Alignment explanation
Indices: 29271922--29272056 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
29271912 GCACATCGCC
* *
29271922 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTCA
* *
29271970 TACAGACTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTC--A
* *
29272020 TATATATTTCACATTAACCATTCGGCTTTACCACATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATA
29272057 TNNNNNNNNN
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 43 0.56
50 34 0.44
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTCA
Found at i:29288108 original size:52 final size:52
Alignment explanation
Indices: 29288030--29288134 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
29288020 AACTTAAATA
29288030 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
1 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
29288082 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
1 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
29288134 A
1 A
29288135 TGAACTTACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.40
Consensus pattern (52 bp):
ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
Found at i:29295278 original size:27 final size:26
Alignment explanation
Indices: 29295239--29295378 Score: 133
Period size: 27 Copynumber: 5.2 Consensus size: 26
29295229 GGAAGCGTCC
*
29295239 TGGTGGCTATGCCATAATTATCTGATT
1 TGGTGGCTCTGCCA-AATTATCTGATT
*
29295266 TGGTGGCTCTGCCACATATATCTG-TCT
1 TGGTGGCTCTGCCAAAT-TATCTGAT-T
*
29295293 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCA-AATTATCTGATT
* *
29295320 TGGTGGCTCAGCCACATATATCTG-TT
1 TGGTGGCTCTGCCAAAT-TATCTGATT
*
29295346 CTGGTGGCTCTGCCACAA-TATCTGTATC
1 -TGGTGGCTCTGCCA-AATTATCTG-ATT
29295374 TGGTG
1 TGGTG
29295379 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
26 13 0.14
27 76 0.81
28 5 0.05
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCAAATTATCTGATT
Found at i:29295321 original size:54 final size:54
Alignment explanation
Indices: 29295238--29295378 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
29295228 AGGAAGCGTC
* *
29295238 CTGGTGGCTATGCCATAATTATCTGATTTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCTGTT
29295291 CTTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCTGTT
* *
29295346 CTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATTTGGTG
29295379 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
53 7 0.09
54 72 0.89
55 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCTGTT
Found at i:29295389 original size:27 final size:26
Alignment explanation
Indices: 29295238--29295396 Score: 119
Period size: 27 Copynumber: 5.9 Consensus size: 26
29295228 AGGAAGCGTC
* * *
29295238 CTGGTGGCTATGCCATAATTATCTGATT
1 CTGGTGACTCTGCCACAA-TATCTG-TT
*
29295266 -TGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGACTCTGCCACA-ATATCTGTT
* *
29295291 CTTGGTGGCTATGCCACAATTATCTGATT
1 C-TGGTGACTCTGCCACAA-TATCTG-TT
* *
29295320 -TGGTGGCTCAGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
29295346 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
29295373 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
29295397 GCAGCCTCGT
Statistics
Matches: 113, Mismatches: 8, Indels: 21
0.80 0.06 0.15
Matches are distributed among these distances:
25 1 0.01
26 12 0.11
27 97 0.86
28 2 0.02
29 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:29296345 original size:33 final size:33
Alignment explanation
Indices: 29296303--29296368 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
29296293 TTTGGGGTGT
*
29296303 TACATTTAGTGGTATCAGATCCTAGGTTGCAAC
1 TACATTTAGTGGTATCAGAGCCTAGGTTGCAAC
29296336 TACATTTAGTGGTATCAGAGCCTAGGTTGCAAC
1 TACATTTAGTGGTATCAGAGCCTAGGTTGCAAC
29296369 AACTCGGCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (33 bp):
TACATTTAGTGGTATCAGAGCCTAGGTTGCAAC
Found at i:29301617 original size:26 final size:26
Alignment explanation
Indices: 29301588--29301695 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
29301578 TGGTACAAAT
29301588 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
29301614 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29301640 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
29301666 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29301692 TGAT
1 TGAT
29301696 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:29302888 original size:8 final size:8
Alignment explanation
Indices: 29302875--29302904 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
29302865 AGATCGGCAC
29302875 AAGCCGAA
1 AAGCCGAA
29302883 AAGCCGAA
1 AAGCCGAA
*
29302891 ATGCCGAA
1 AAGCCGAA
29302899 AAGCCG
1 AAGCCG
29302905 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:29303381 original size:27 final size:27
Alignment explanation
Indices: 29303295--29303383 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
29303285 GGAAGCGTCC
* *
29303295 TGGTGGCTATGCCATAATTATTTGATT
1 TGGTGGCTATGCCACAATTATCTGATT
* * *
29303322 TGGTGGCTCTACCAC-ATATATCTG-TCC
1 TGGTGGCTATGCCACAAT-TATCTGAT-T
*
29303349 TAGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTATGCCACAATTATCTGATT
29303376 TGGTGGCT
1 TGGTGGCT
29303384 CAGTGGTGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
26 3 0.06
27 42 0.88
28 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATTATCTGATT
Found at i:29313014 original size:8 final size:8
Alignment explanation
Indices: 29312987--29313020 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
29312977 AATTAAGAAT
29312987 TATTATTA
1 TATTATTA
* *
29312995 TGTTAATA
1 TATTATTA
29313003 TATTATTA
1 TATTATTA
29313011 TATTATTA
1 TATTATTA
29313019 TA
1 TA
29313021 ATATAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:29314171 original size:12 final size:12
Alignment explanation
Indices: 29314156--29314180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29314146 TAAATAAATG
29314156 AATTGATAATTA
1 AATTGATAATTA
29314168 AATTGATAATTA
1 AATTGATAATTA
29314180 A
1 A
29314181 TGTGAATTTG
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATTGATAATTA
Found at i:29315322 original size:19 final size:20
Alignment explanation
Indices: 29315292--29315330 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
29315282 AAAGGGACAT
29315292 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
29315312 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
29315331 GTTATTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:29315691 original size:2 final size:2
Alignment explanation
Indices: 29315684--29315826 Score: 286
Period size: 2 Copynumber: 71.5 Consensus size: 2
29315674 AAAATAAGAT
29315684 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
29315726 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
29315768 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
29315810 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
29315827 AAGATGATTA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 141 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29316175 original size:19 final size:20
Alignment explanation
Indices: 29316141--29316180 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
29316131 AAACCATAAA
29316141 TTTATTTTTTCTAAAATTATT
1 TTTATTTTTTCTAAAA-TATT
29316162 TTTA-TTTTTC-AAAATATT
1 TTTATTTTTTCTAAAATATT
29316180 T
1 T
29316181 ACCGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 6 0.32
21 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATTTTTTCTAAAATATT
Found at i:29317717 original size:14 final size:14
Alignment explanation
Indices: 29317644--29317711 Score: 109
Period size: 14 Copynumber: 4.9 Consensus size: 14
29317634 CATGCTTGCG
29317644 GATTCATAGATGCA
1 GATTCATAGATGCA
*
29317658 GATTCATAGATGTA
1 GATTCATAGATGCA
**
29317672 GATTCATAGATATA
1 GATTCATAGATGCA
29317686 GATTCATAGATGCA
1 GATTCATAGATGCA
29317700 GATTCATAGATG
1 GATTCATAGATG
29317712 AGGATTATCC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (14 bp):
GATTCATAGATGCA
Found at i:29317717 original size:28 final size:28
Alignment explanation
Indices: 29317617--29317717 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
29317607 TCACATTCAA
* * * *
29317617 ATTCATGGATGTGGATTCAT-GCTTGCGG
1 ATTCATAGATGAGGATTCATAG-ATGCAG
*
29317645 ATTCATAGATGCA-GATTCATAGATGTAG
1 ATTCATAGATG-AGGATTCATAGATGCAG
*
29317673 ATTCATAGAT-ATAGATTCATAGATGCAG
1 ATTCATAGATGA-GGATTCATAGATGCAG
29317701 ATTCATAGATGAGGATT
1 ATTCATAGATGAGGATT
29317718 ATCCTACGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.02
28 58 0.95
29 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (28 bp):
ATTCATAGATGAGGATTCATAGATGCAG
Found at i:29322568 original size:13 final size:13
Alignment explanation
Indices: 29322552--29322581 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29322542 AAGAGCCATC
*
29322552 AGCAAAGGAGCGA
1 AGCAAAGGAACGA
29322565 AGCAAAGGAACGA
1 AGCAAAGGAACGA
29322578 AGCA
1 AGCA
29322582 GCCTCGTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (13 bp):
AGCAAAGGAACGA
Found at i:29323366 original size:356 final size:356
Alignment explanation
Indices: 29322713--29323424 Score: 1415
Period size: 356 Copynumber: 2.0 Consensus size: 356
29322703 TTAATTTTAT
*
29322713 TTAAGCTAGGATGATTGCTTTGATTAAATAATATTTATTAGATTCATGCTTATAATGTTTATGCC
1 TTAAGCTAGGATGATTACTTTGATTAAATAATATTTATTAGATTCATGCTTATAATGTTTATGCC
29322778 TCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTTGTTCATACATGATTGAAATGCACC
66 TCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTTGTTCATACATGATTGAAATGCACC
29322843 TAAATTAGCTGAGCGATCCTAACCAGACGATGGCTAGTGGACGCATAATTGAAATGTGCATGCTC
131 TAAATTAGCTGAGCGATCCTAACCAGACGATGGCTAGTGGACGCATAATTGAAATGTGCATGCTC
29322908 AACTTAGATCCCAGCTCGATTAAATTGCAGGTTGCATAACAACCTTAACCAGGCTCTATTATATG
196 AACTTAGATCCCAGCTCGATTAAATTGCAGGTTGCATAACAACCTTAACCAGGCTCTATTATATG
29322973 CATAGTTTTTAGATTTGTGTGATTAAACTGTTTCAAACCTAACACGTCCCTGTTACCTCGCACGA
261 CATAGTTTTTAGATTTGTGTGATTAAACTGTTTCAAACCTAACACGTCCCTGTTACCTCGCACGA
29323038 ATGCTAATAAGCCCTTAGTAAATAAGGATCA
326 ATGCTAATAAGCCCTTAGTAAATAAGGATCA
29323069 TTAAGCTAGGATGATTACTTTGATTAAATAATATTTATTAGATTCATGCTTATAATGTTTATGCC
1 TTAAGCTAGGATGATTACTTTGATTAAATAATATTTATTAGATTCATGCTTATAATGTTTATGCC
29323134 TCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTTGTTCATACATGATTGAAATGCACC
66 TCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTTGTTCATACATGATTGAAATGCACC
29323199 TAAATTAGCTGAGCGATCCTAACCAGACGATGGCTAGTGGACGCATAATTGAAATGTGCATGCTC
131 TAAATTAGCTGAGCGATCCTAACCAGACGATGGCTAGTGGACGCATAATTGAAATGTGCATGCTC
29323264 AACTTAGATCCCAGCTCGATTAAATTGCAGGTTGCATAACAACCTTAACCAGGCTCTATTATATG
196 AACTTAGATCCCAGCTCGATTAAATTGCAGGTTGCATAACAACCTTAACCAGGCTCTATTATATG
29323329 CATAGTTTTTAGATTTGTGTGATTAAACTGTTTCAAACCTAACACGTCCCTGTTACCTCGCACGA
261 CATAGTTTTTAGATTTGTGTGATTAAACTGTTTCAAACCTAACACGTCCCTGTTACCTCGCACGA
29323394 ATGCTAATAAGCCCTTAGTAAATAAGGATCA
326 ATGCTAATAAGCCCTTAGTAAATAAGGATCA
29323425 GTAAAATGCG
Statistics
Matches: 355, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
356 355 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (356 bp):
TTAAGCTAGGATGATTACTTTGATTAAATAATATTTATTAGATTCATGCTTATAATGTTTATGCC
TCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTTGTTCATACATGATTGAAATGCACC
TAAATTAGCTGAGCGATCCTAACCAGACGATGGCTAGTGGACGCATAATTGAAATGTGCATGCTC
AACTTAGATCCCAGCTCGATTAAATTGCAGGTTGCATAACAACCTTAACCAGGCTCTATTATATG
CATAGTTTTTAGATTTGTGTGATTAAACTGTTTCAAACCTAACACGTCCCTGTTACCTCGCACGA
ATGCTAATAAGCCCTTAGTAAATAAGGATCA
Found at i:29330933 original size:19 final size:19
Alignment explanation
Indices: 29330898--29330976 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
29330888 AGATTATAAG
29330898 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
29330919 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
29330936 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
29330955 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
29330974 ATC
1 ATC
29330977 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:29330953 original size:36 final size:38
Alignment explanation
Indices: 29330898--29330970 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
29330888 AGATTATAAG
29330898 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
29330936 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
29330971 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:29330985 original size:36 final size:35
Alignment explanation
Indices: 29330899--29330986 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
29330889 GATTATAAGA
29330899 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
29330935 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
29330971 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
29330987 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:29333042 original size:171 final size:171
Alignment explanation
Indices: 29332757--29333098 Score: 666
Period size: 171 Copynumber: 2.0 Consensus size: 171
29332747 GAGTCAACAG
29332757 ATGAAACTGAGACTGAAGCTAATTCAGTTGCAGACACAGAAGAGGAAGAATCTGATAAAGAACCG
1 ATGAAACTGAGACTGAAGCTAATTCAGTTGCAGACACAGAAGAGGAAGAATCTGATAAAGAACCG
29332822 AATAGTTCTAAACCAGTTGAAGGATCTGAAAACCCTGAACCAAGGGTTGAGCCAGAAGAAGAACT
66 AATAGTTCTAAACCAGTTGAAGGATCTGAAAACCCTGAACCAAGGGTTGAGCCAGAAGAAGAACT
29332887 AGTCAAGCTAAGTGTTGAACCTAAATCTGCAACTCCTATGC
131 AGTCAAGCTAAGTGTTGAACCTAAATCTGCAACTCCTATGC
*
29332928 ATGAAACTGAGACTGAAGCTAATTCAGTTGCAGACATAGAAGAGGAAGAATCTGATAAAGAACCG
1 ATGAAACTGAGACTGAAGCTAATTCAGTTGCAGACACAGAAGAGGAAGAATCTGATAAAGAACCG
*
29332993 AATAGTTCTAAACCAGTTGAAGGATCTGAAAACCCTGAACCAAGGGTTGAGCCAGAAGAAGAATT
66 AATAGTTCTAAACCAGTTGAAGGATCTGAAAACCCTGAACCAAGGGTTGAGCCAGAAGAAGAACT
29333058 AGTCAAGCTAAGTGTTGAACCTAAATCTGCAACTCCTATGC
131 AGTCAAGCTAAGTGTTGAACCTAAATCTGCAACTCCTATGC
29333099 CGACTTCTGC
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 169 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (171 bp):
ATGAAACTGAGACTGAAGCTAATTCAGTTGCAGACACAGAAGAGGAAGAATCTGATAAAGAACCG
AATAGTTCTAAACCAGTTGAAGGATCTGAAAACCCTGAACCAAGGGTTGAGCCAGAAGAAGAACT
AGTCAAGCTAAGTGTTGAACCTAAATCTGCAACTCCTATGC
Found at i:29335560 original size:7 final size:7
Alignment explanation
Indices: 29335548--29335572 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29335538 ACATTTCTAA
29335548 TCATCCC
1 TCATCCC
29335555 TCATCCC
1 TCATCCC
29335562 TCATCCC
1 TCATCCC
29335569 TCAT
1 TCAT
29335573 TCATCATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:29335579 original size:14 final size:14
Alignment explanation
Indices: 29335547--29335580 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29335537 CACATTTCTA
29335547 ATCATCCCTCATCC
1 ATCATCCCTCATCC
* *
29335561 CTCATCCCTCATTC
1 ATCATCCCTCATCC
29335575 ATCATC
1 ATCATC
29335581 ATTCTCTCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.21, C:0.47, G:0.00, T:0.32
Consensus pattern (14 bp):
ATCATCCCTCATCC
Found at i:29338087 original size:22 final size:22
Alignment explanation
Indices: 29338059--29338103 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29338049 CGAAGATTGA
29338059 AAGACAATTGGAGAGTCAACAC
1 AAGACAATTGGAGAGTCAACAC
29338081 AAGACAATTGGAGAGTCAACAC
1 AAGACAATTGGAGAGTCAACAC
29338103 A
1 A
29338104 CTATCATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (22 bp):
AAGACAATTGGAGAGTCAACAC
Found at i:29338448 original size:28 final size:28
Alignment explanation
Indices: 29338400--29338456 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
29338390 CATAATTGGC
*
29338400 AATGAGTTATAATAATGAGACAATCTTG
1 AATGAGTTATAAGAATGAGACAATCTTG
* *
29338428 AATGTGTTATAAGACAT-AGACATTCTTG
1 AATGAGTTATAAGA-ATGAGACAATCTTG
29338456 A
1 A
29338457 TACAAGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (28 bp):
AATGAGTTATAAGAATGAGACAATCTTG
Found at i:29340974 original size:41 final size:41
Alignment explanation
Indices: 29340885--29341045 Score: 182
Period size: 41 Copynumber: 3.9 Consensus size: 41
29340875 AATACTCAAT
* * *
29340885 ATCTCGCACACTAAGTGCCAATACCTAG-TCGGAGCTATTATA
1 ATCTCGCACATTAAGTGCC-ATACATAGCT-GAAGCTATTATA
* *
29340927 GTCTCGCACATTAAGTGCCTTACATAGCTGAAGCTATTATA
1 ATCTCGCACATTAAGTGCCATACATAGCTGAAGCTATTATA
* **
29340968 ATCTCGCACATTAAGTGCCTTACATAGCTGAAGCTATCT-CG
1 ATCTCGCACATTAAGTGCCATACATAGCTGAAGCTAT-TATA
* * *
29341009 GTCTCGCACATTAAGTGCCATATATAGCCGAAGCTAT
1 ATCTCGCACATTAAGTGCCATACATAGCTGAAGCTAT
29341046 ATTGAATCGA
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 86 0.82
42 19 0.18
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
ATCTCGCACATTAAGTGCCATACATAGCTGAAGCTATTATA
Found at i:29353904 original size:55 final size:55
Alignment explanation
Indices: 29353843--29354102 Score: 362
Period size: 55 Copynumber: 4.7 Consensus size: 55
29353833 ATATTAAGTC
* * * *
29353843 CGCACACTCAGTGCTATATAATC-AGCTCGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATC-AACT
*
29353898 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCA-ACT
* *
29353953 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAACT
* *
29354008 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAACT
* * * *
29354063 CGCACACTTAGTGCTGCACAATTTAAACCCGCACACTTAG
1 CGCACACTTAGTGCTACATAA-TCAAACTCGCACACTTAG
29354103 CGCCAATCTC
Statistics
Matches: 190, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
54 1 0.01
55 146 0.77
56 43 0.23
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:29353909 original size:28 final size:28
Alignment explanation
Indices: 29353843--29354102 Score: 357
Period size: 28 Copynumber: 9.4 Consensus size: 28
29353833 ATATTAAGTC
* * *
29353843 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
29353870 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
29353898 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
29353925 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
29353953 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
29353981 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
29354008 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
29354036 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
29354063 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
29354092 CGCACACTTAG
1 CGCACACTTAG
29354103 CGCCAATCTC
Statistics
Matches: 209, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
27 93 0.44
28 103 0.49
29 13 0.06
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:29353979 original size:83 final size:82
Alignment explanation
Indices: 29353843--29354077 Score: 391
Period size: 83 Copynumber: 2.9 Consensus size: 82
29353833 ATATTAAGTC
* * * * *
29353843 CGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
29353908 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
29353925 CGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
29353990 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
*
29354008 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
29354072 AGTGCT
65 AGTGCT
29354078 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
82 40 0.28
83 104 0.72
84 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:29366536 original size:43 final size:42
Alignment explanation
Indices: 29366483--29366600 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
29366473 TGACGTATCG
* *
29366483 TACCAATGCCATGTCCCAGACATGGTCTTACATAGAAATCTCA
1 TACCGATGCCATGTCCCAGACATGGTCTTACA-AGAAACCTCA
** * **
29366526 TATTGATGCCAATAG-CCCAG-CTATGGTCTTACACGATCCCTCA
1 TACCGATGCC-AT-GTCCCAGAC-ATGGTCTTACAAGAAACCTCA
* *
29366569 TGCCGATGCCATGTCCCAAACATGGTCTTACA
1 TACCGATGCCATGTCCCAGACATGGTCTTACA
29366601 CTGGCTCACA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
41 1 0.02
42 17 0.29
43 22 0.37
44 18 0.31
45 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (42 bp):
TACCGATGCCATGTCCCAGACATGGTCTTACAAGAAACCTCA
Found at i:29366646 original size:48 final size:47
Alignment explanation
Indices: 29366572--29366841 Score: 360
Period size: 48 Copynumber: 5.6 Consensus size: 47
29366562 TCCCTCATGC
* * *
29366572 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATAATG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* * *
29366619 TCGATGCCATGTCCCAGACATGTTCTTACACTGGCTTACGTAATAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
*
29366667 CTGATGCCATGTCCCAGACATGCTCTTACACTGGCTCACGTAACAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* * *
29366715 CCGATGCTATGTCCCAGACATGCTCTTACACTGGCTTACGTAACAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* *
29366763 CTGATGACATGTCCCAGACATGGTCTTACACTGGATCACGTAACAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* * *
29366811 CCATTTCCATGTCCCAAACATGGTCTTACAC
1 CGA-TGCCATGTCCCAGACATGGTCTTACAC
29366842 GGTTACACAT
Statistics
Matches: 200, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 3 0.01
48 196 0.98
49 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
Found at i:29369295 original size:27 final size:28
Alignment explanation
Indices: 29369211--29369308 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
29369201 CATGAGATTG
* * * *
29369211 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29369240 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29369268 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29369295 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29369309 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29369319 original size:27 final size:27
Alignment explanation
Indices: 29369239--29369321 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
29369229 TAAATTGTAC
* *
29369239 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
29369267 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
29369294 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
29369321 A
1 A
29369322 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:29369322 original size:29 final size:27
Alignment explanation
Indices: 29369211--29369322 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
29369201 CATGAGATTG
** * *
29369211 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
29369240 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
29369268 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
29369295 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
29369323 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:29384740 original size:126 final size:126
Alignment explanation
Indices: 29384515--29384766 Score: 495
Period size: 126 Copynumber: 2.0 Consensus size: 126
29384505 CCATGTCCTG
29384515 CTCGCCCACGACCATAGCTACCACTAGAGATCATATCCTTTTGGCACAGGACTTATGGCCTAATG
1 CTCGCCCACGACCATAGCTACCACTAGAGATCATATCCTTTTGGCACAGGACTTATGGCCTAATG
29384580 AACCTCTACGACCACCGGAGTATCCTCCTCCACTCTCAAACTGATTACTCTCCAGAACTCT
66 AACCTCTACGACCACCGGAGTATCCTCCTCCACTCTCAAACTGATTACTCTCCAGAACTCT
*
29384641 CTCGCCCACGACCATAGCTACCACTAGAGATCATATCCTTTTGGCGCAGGACTTATGGCCTAATG
1 CTCGCCCACGACCATAGCTACCACTAGAGATCATATCCTTTTGGCACAGGACTTATGGCCTAATG
29384706 AACCTCTACGACCACCGGAGTATCCTCCTCCACTCTCAAACTGATTACTCTCCAGAACTCT
66 AACCTCTACGACCACCGGAGTATCCTCCTCCACTCTCAAACTGATTACTCTCCAGAACTCT
29384767 AGTTCAAGGA
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.25
Consensus pattern (126 bp):
CTCGCCCACGACCATAGCTACCACTAGAGATCATATCCTTTTGGCACAGGACTTATGGCCTAATG
AACCTCTACGACCACCGGAGTATCCTCCTCCACTCTCAAACTGATTACTCTCCAGAACTCT
Found at i:29393950 original size:91 final size:91
Alignment explanation
Indices: 29393791--29393971 Score: 299
Period size: 91 Copynumber: 2.0 Consensus size: 91
29393781 AGAGTCTAAG
29393791 CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGACGAGTTAAAACTCCTCATTCCTGCAA
1 CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGACGAGTTAAAACTCCTCATTCCTGCAA
29393856 TCAATCTTATCAAAATAAGGTTTTAA
66 TCAATCTTATCAAAATAAGGTTTTAA
* * * * * * *
29393882 CTCGACTTACCTCGTATTTGTACGGTCATGGTGGCTCGAGGAGTTGAAACTCCTTATTCTTGCTA
1 CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGACGAGTTAAAACTCCTCATTCCTGCAA
29393947 TCAATCTTATCAAAATAAGGTTTTA
66 TCAATCTTATCAAAATAAGGTTTTA
29393972 GATGAGTACT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (91 bp):
CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGACGAGTTAAAACTCCTCATTCCTGCAA
TCAATCTTATCAAAATAAGGTTTTAA
Found at i:29397304 original size:12 final size:12
Alignment explanation
Indices: 29397287--29397311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29397277 ATGTAAGTGA
29397287 TCTTGATGATTT
1 TCTTGATGATTT
29397299 TCTTGATGATTT
1 TCTTGATGATTT
29397311 T
1 T
29397312 TATATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:29398088 original size:46 final size:45
Alignment explanation
Indices: 29398030--29398198 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 45
29398020 AGGGCATTGT
*
29398030 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGA
* * * * *
29398076 GAGCTAGAGTAAGACCATTTTTGGGACATGGCATCGAAG-TAGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG--GCCACAGATGA
** * *
29398124 GTCCTAGTGTAAGACATGTCTAGGACATGCATCGGCTA-AGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
**
29398167 TTTTGCTAGTGTAAGACCATGTCTGGGACATG
1 --GAGCTAGTGTAAGA-CATGTCTGGGACATG
29398199 GCATTAGCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
43 2 0.02
44 4 0.04
45 14 0.14
46 33 0.33
47 23 0.23
48 21 0.21
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
Found at i:29398241 original size:40 final size:40
Alignment explanation
Indices: 29398186--29398268 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
29398176 TGTAAGACCA
*
29398186 TGTCTGGGACATGGCATTAGCACACATATACGAGAGCTAG
1 TGTCTGGGACATGGCATTAGAACACATATACGAGAGCTAG
29398226 TGTCTGGGACATGGCATTAGAACACATATACGAGAGCTAG
1 TGTCTGGGACATGGCATTAGAACACATATACGAGAGCTAG
29398266 TGT
1 TGT
29398269 AAGACTATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (40 bp):
TGTCTGGGACATGGCATTAGAACACATATACGAGAGCTAG
Found at i:29404874 original size:12 final size:12
Alignment explanation
Indices: 29404857--29404881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29404847 ATGTAAGTGA
29404857 TCTTGATGATTT
1 TCTTGATGATTT
29404869 TCTTGATGATTT
1 TCTTGATGATTT
29404881 T
1 T
29404882 TATATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:29405712 original size:47 final size:46
Alignment explanation
Indices: 29405602--29405824 Score: 179
Period size: 47 Copynumber: 4.8 Consensus size: 46
29405592 GGCATTGTTA
* * * ** *
29405602 GCTAGTGTAAGACATGTTTAGGACATGCATCAACCATA-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGCATAGAGATGAGT
* * *
29405648 GCCAGAGTAAGACCATGTTTGGGACATGGCATCAGCATAGAGATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATAGAGATGAGT
* *
29405696 GCTAGTGTAAGACATGTCTGGGACATGCATC-GTCCTCGATGATGA-T
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATAGA-GATGAGT
* * **
29405742 AGCCAGTGTAAGACATGTCTGGGACATGCAT-TGTC-TAAGAGAT-TTT
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CAT-AGAGATGAGT
29405788 GCTAGTGTAAGACGATGTCTGGGACATGGCATCAGCA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCA
29405825 CACATATACG
Statistics
Matches: 147, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
45 13 0.09
46 38 0.26
47 75 0.51
48 21 0.14
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATAGAGATGAGT
Found at i:29405765 original size:94 final size:92
Alignment explanation
Indices: 29405602--29405821 Score: 241
Period size: 94 Copynumber: 2.3 Consensus size: 92
29405592 GGCATTGTTA
* * * *
29405602 GCTAGTGTAAGACATGTTTAGGACATGCATCAACCATATTATGAGAGCCAGAGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCATATGATGAGAGCCAGAGTAAGACCATGTC
29405667 TGGGACATGGCATCAG-C-ATAGAGATGAGT
66 TGGGACAT-GCAT-AGTCTA-AGAGAT-AGT
** * *
29405696 GCTAGTGTAAGACATGTCTGGGACATGCATCGTCC-TCGATGATGATAGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCAT--ATGATGAGAGCCAGAGTAAGACCATG
* **
29405759 TCTGGGACATGCATTGTCTAAGAGATTTT
64 TCTGGGACATGCATAGTCTAAGAGATAGT
29405788 GCTAGTGTAAGACGATGTCTGGGACATGGCATCA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCA
29405822 GCACACATAT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
92 15 0.14
93 25 0.23
94 50 0.46
95 18 0.17
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAACCATATGATGAGAGCCAGAGTAAGACCATGTC
TGGGACATGCATAGTCTAAGAGATAGT
Found at i:29411008 original size:412 final size:412
Alignment explanation
Indices: 29410244--29411067 Score: 1648
Period size: 412 Copynumber: 2.0 Consensus size: 412
29410234 ACGATATTCA
29410244 AACCACAACCGAGGAGATGGTTGAAAACCAAGAAAATCTGCTACCTCCTGCAATAGCTGTTAATC
1 AACCACAACCGAGGAGATGGTTGAAAACCAAGAAAATCTGCTACCTCCTGCAATAGCTGTTAATC
29410309 AAAATCCTATTCCGCGCACTATGTATTATTATGCTAAACCTAATTTAACAGGAACTGAGTCAAGT
66 AAAATCCTATTCCGCGCACTATGTATTATTATGCTAAACCTAATTTAACAGGAACTGAGTCAAGT
29410374 ATAGTTAGACCTGCTATTGCTGCAAATAATTTTTAATTGAAACCTAACACAATTCAAATGATACA
131 ATAGTTAGACCTGCTATTGCTGCAAATAATTTTTAATTGAAACCTAACACAATTCAAATGATACA
29410439 ACAGTTTGTTCAGTTTGATGGTTTGTAGGACGAGGATCCCAATGCTCACTTGACAAATTTCCTAG
196 ACAGTTTGTTCAGTTTGATGGTTTGTAGGACGAGGATCCCAATGCTCACTTGACAAATTTCCTAG
29410504 AATTTTGCGATACCTTTAAAATTAATGGCATTTCTGATGACGCCATCCGCCTTCTATTGTTTCCC
261 AATTTTGCGATACCTTTAAAATTAATGGCATTTCTGATGACGCCATCCGCCTTCTATTGTTTCCC
29410569 TTTTCGTTAAGGAATAAGACTAAACAATGGTTGAACTCGTTACCACGACGGTCAATCACTACTTG
326 TTTTCGTTAAGGAATAAGACTAAACAATGGTTGAACTCGTTACCACGACGGTCAATCACTACTTG
29410634 GGAACAAATGACCAAAAAAAAT
391 GGAACAAATGACCAAAAAAAAT
29410656 AACCACAACCGAGGAGATGGTTGAAAACCAAGAAAATCTGCTACCTCCTGCAATAGCTGTTAATC
1 AACCACAACCGAGGAGATGGTTGAAAACCAAGAAAATCTGCTACCTCCTGCAATAGCTGTTAATC
29410721 AAAATCCTATTCCGCGCACTATGTATTATTATGCTAAACCTAATTTAACAGGAACTGAGTCAAGT
66 AAAATCCTATTCCGCGCACTATGTATTATTATGCTAAACCTAATTTAACAGGAACTGAGTCAAGT
29410786 ATAGTTAGACCTGCTATTGCTGCAAATAATTTTTAATTGAAACCTAACACAATTCAAATGATACA
131 ATAGTTAGACCTGCTATTGCTGCAAATAATTTTTAATTGAAACCTAACACAATTCAAATGATACA
29410851 ACAGTTTGTTCAGTTTGATGGTTTGTAGGACGAGGATCCCAATGCTCACTTGACAAATTTCCTAG
196 ACAGTTTGTTCAGTTTGATGGTTTGTAGGACGAGGATCCCAATGCTCACTTGACAAATTTCCTAG
29410916 AATTTTGCGATACCTTTAAAATTAATGGCATTTCTGATGACGCCATCCGCCTTCTATTGTTTCCC
261 AATTTTGCGATACCTTTAAAATTAATGGCATTTCTGATGACGCCATCCGCCTTCTATTGTTTCCC
29410981 TTTTCGTTAAGGAATAAGACTAAACAATGGTTGAACTCGTTACCACGACGGTCAATCACTACTTG
326 TTTTCGTTAAGGAATAAGACTAAACAATGGTTGAACTCGTTACCACGACGGTCAATCACTACTTG
29411046 GGAACAAATGACCAAAAAAAAT
391 GGAACAAATGACCAAAAAAAAT
29411068 TTATTAAAAT
Statistics
Matches: 412, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
412 412 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (412 bp):
AACCACAACCGAGGAGATGGTTGAAAACCAAGAAAATCTGCTACCTCCTGCAATAGCTGTTAATC
AAAATCCTATTCCGCGCACTATGTATTATTATGCTAAACCTAATTTAACAGGAACTGAGTCAAGT
ATAGTTAGACCTGCTATTGCTGCAAATAATTTTTAATTGAAACCTAACACAATTCAAATGATACA
ACAGTTTGTTCAGTTTGATGGTTTGTAGGACGAGGATCCCAATGCTCACTTGACAAATTTCCTAG
AATTTTGCGATACCTTTAAAATTAATGGCATTTCTGATGACGCCATCCGCCTTCTATTGTTTCCC
TTTTCGTTAAGGAATAAGACTAAACAATGGTTGAACTCGTTACCACGACGGTCAATCACTACTTG
GGAACAAATGACCAAAAAAAAT
Found at i:29418942 original size:22 final size:22
Alignment explanation
Indices: 29418912--29418957 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
29418902 TAGACTCACA
*
29418912 CGCGTTACGTTAGTCCTAGAAT
1 CGCGCTACGTTAGTCCTAGAAT
29418934 CGCGCTACGTTAGTCCTAGAAT
1 CGCGCTACGTTAGTCCTAGAAT
29418956 CG
1 CG
29418958 ACAAAACCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
CGCGCTACGTTAGTCCTAGAAT
Found at i:29421076 original size:20 final size:20
Alignment explanation
Indices: 29421051--29421092 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
29421041 TTAAGTACGT
29421051 CTATTTGCTTATAAACTTAC
1 CTATTTGCTTATAAACTTAC
*
29421071 CTATTTGCTTATAAATTTAC
1 CTATTTGCTTATAAACTTAC
29421091 CT
1 CT
29421093 CGGACGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (20 bp):
CTATTTGCTTATAAACTTAC
Found at i:29423492 original size:25 final size:26
Alignment explanation
Indices: 29423455--29423507 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
29423445 TCAAACATGC
29423455 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
29423481 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
29423507 A
1 A
29423508 AAACTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:29430699 original size:26 final size:26
Alignment explanation
Indices: 29430668--29430775 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
29430658 TGAAATGCCC
*
29430668 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
29430694 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
29430720 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
29430746 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29430772 ATCA
1 ATCA
29430776 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29433374 original size:228 final size:228
Alignment explanation
Indices: 29432977--29433635 Score: 690
Period size: 228 Copynumber: 2.9 Consensus size: 228
29432967 TCCAATTAAG
* * ** *
29432977 ATGCAGATCTTCGTTAAGACCCTGACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGACAC
1 ATGCAGATCTTCGTCAAGACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * *
29433042 GATCGACAACGTTAAGGCGAAA-ATCCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTCTC
66 GATCGACAACGTTAAGGC-AAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGCTC
* * * *
29433106 ATCTTCGCCGGAAAACAGCTCGAAGATGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
130 ATATTCGCCGGAAAACAACTCGAAGACGGCCGCACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * *
29433171 CACCCTCCATCTCGTCCTCCGTCTACGTGGTGGC
195 CACCCTCCATCTCGTACTCAGGCTACGTGGTGGC
* * * *
29433205 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAAAGCTCTGACAC
1 ATGCAGATCTTCGTCAAGACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * *
29433270 CATTGACAACGTCAAGGCAAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTCA
66 GATCGACAACGTTAAGGCAAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGCTCA
* * * * *
29433335 TATTTGCCGGGAAACAACTCGAGGACGGTCGCACCTTGGCCGATTACAACATCCAGAAGGAGTCG
131 TATTCGCCGGAAAACAACTCGAAGACGGCCGCACCTTGGCCGATTACAACATCCAGAAGGAGTCC
* * * * * *
29433400 ACCCTCCATTTGGTATTGAGGCTTCGTGGTGGG
196 ACCCTCCATCTCGTACTCAGGCTACGTGGTGGC
* ** * * * * * *
29433433 ATGCAGATTTTCGTCAAGACGTTGACTGGGAAAACCATAACTTTGGAGGTGGAGAGTTCCGATAC
1 ATGCAGATCTTCGTCAAGACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * * * * *
29433498 GATCGACAATGTTAAGGCGAAGATTCAGGACAAAGAAGGAATTCCACCAGATCAGCAAAGGTTGA
66 GATCGACAACGTTAAGGCAAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGCTCA
* * * * * * ** * * * * * *
29433563 TTTTCGCTGGGAAACAATTGGAAGATGGAAGGACTTTGGCTGATTACAATATTCAGAAGGAATCC
131 TATTCGCCGGAAAACAACTCGAAGACGGCCGCACCTTGGCCGATTACAACATCCAGAAGGAGTCC
*
29433628 ACTCTCCA
196 ACCCTCCA
29433636 CCTTGTCTTG
Statistics
Matches: 353, Mismatches: 77, Indels: 2
0.82 0.18 0.00
Matches are distributed among these distances:
227 3 0.01
228 350 0.99
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAGACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAGAGTTCCGACAC
GATCGACAACGTTAAGGCAAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGCTCA
TATTCGCCGGAAAACAACTCGAAGACGGCCGCACCTTGGCCGATTACAACATCCAGAAGGAGTCC
ACCCTCCATCTCGTACTCAGGCTACGTGGTGGC
Found at i:29442486 original size:18 final size:18
Alignment explanation
Indices: 29442463--29442500 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
29442453 CTTTGTAGAG
29442463 TTAAAGTTTGGTAGGAGA
1 TTAAAGTTTGGTAGGAGA
29442481 TTAAAGTTTGGTAGGAGA
1 TTAAAGTTTGGTAGGAGA
29442499 TT
1 TT
29442501 TGGTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (18 bp):
TTAAAGTTTGGTAGGAGA
Found at i:29446232 original size:33 final size:33
Alignment explanation
Indices: 29446190--29446255 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
29446180 GGGCAAAATG
29446190 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
1 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
29446223 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
1 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
29446256 TGATGATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.27, T:0.18
Consensus pattern (33 bp):
GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
Found at i:29446326 original size:31 final size:31
Alignment explanation
Indices: 29446284--29446349 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
29446274 TTTATAGTTA
*
29446284 TTTAATTAGATAAT-TATTATT-TATTTAATAT
1 TTTAATAAGAT-ATGTATTATTAT-TTTAATAT
*
29446315 TTTAATAAGATATGTATTATTATTTTATTAT
1 TTTAATAAGATATGTATTATTATTTTAATAT
29446346 TTTA
1 TTTA
29446350 CTTAGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.90
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (31 bp):
TTTAATAAGATATGTATTATTATTTTAATAT
Found at i:29446372 original size:2 final size:2
Alignment explanation
Indices: 29446367--29446416 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
29446357 TATATATATA
*
29446367 TG TG TG TG TG TG TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
29446409 TG TG TG TG
1 TG TG TG TG
29446417 AAAGAAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.02, G:0.50, T:0.48
Consensus pattern (2 bp):
TG
Found at i:29449345 original size:20 final size:21
Alignment explanation
Indices: 29449320--29449368 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
29449310 ATTATTTAAT
*
29449320 TATAATTAACTTAA-TTAACC
1 TATAATTAACTAAACTTAACC
*
29449340 TATAATTAACTAAACTTAAGC
1 TATAATTAACTAAACTTAACC
29449361 T-TAATTAA
1 TATAATTAA
29449369 AAAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAATTAACTAAACTTAACC
Found at i:29454593 original size:58 final size:58
Alignment explanation
Indices: 29454503--29454620 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
29454493 ATCCAAACAT
* *
29454503 TGGAATCACGATACCTACAATAGACGTGAAGATTGGTGATCACCTCTCAATGGTATCG
1 TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCACCTCTCAATGGTATCG
*
29454561 TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCGCCTCTCAATGGTATCG
1 TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCACCTCTCAATGGTATCG
29454619 TG
1 TG
29454621 ATATCCACCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (58 bp):
TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCACCTCTCAATGGTATCG
Found at i:29463513 original size:44 final size:44
Alignment explanation
Indices: 29463460--29463551 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
29463450 CTGAAGTAAT
* * *
29463460 AGTAGCAGTACAACACACGTGGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTC-AAGGTCGA
* **
29463504 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGA
29463548 AGTA
1 AGTA
29463552 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:29470194 original size:23 final size:25
Alignment explanation
Indices: 29470168--29470214 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
29470158 TATCATTCAT
*
29470168 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
29470191 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
29470215 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:29470535 original size:46 final size:47
Alignment explanation
Indices: 29470475--29470642 Score: 243
Period size: 46 Copynumber: 3.6 Consensus size: 47
29470465 TTTGACGTGA
* * * *
29470475 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
29470521 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * *
29470567 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
29470613 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
29470643 ACACAGGTTG
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 5 0.05
46 106 0.95
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
Found at i:29470643 original size:46 final size:46
Alignment explanation
Indices: 29470475--29470693 Score: 242
Period size: 46 Copynumber: 5.0 Consensus size: 46
29470465 TTTGACGTGA
* * * * * *
29470475 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
29470521 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
29470567 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
29470613 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
29470651 TGCCATGGTATCTATCAACTAT-GTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
29470694 AGAGCACACT
Statistics
Matches: 151, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.03
38 25 0.17
39 4 0.03
41 1 0.01
42 1 0.01
44 4 0.03
45 7 0.05
46 104 0.69
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:29470659 original size:38 final size:37
Alignment explanation
Indices: 29470608--29470682 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 37
29470598 CATTTCATAT
*
29470608 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTATCAACCAT-GTCTTACACA
*
29470646 CAGGTTGCCATGGTATCTATCAACTATGTCTTACACA
1 CAGGTTGCCATGGTATCTATCAACCATGTCTTACACA
29470683 TTTCATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (37 bp):
CAGGTTGCCATGGTATCTATCAACCATGTCTTACACA
Found at i:29471880 original size:26 final size:26
Alignment explanation
Indices: 29471844--29471896 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
29471834 TTCACCAAAA
29471844 ATTAATTATCTCCTCATACAGAATTC
1 ATTAATTATCTCCTCATACAGAATTC
* *
29471870 ATTAATTATCTCCTCATATAGGATTC
1 ATTAATTATCTCCTCATACAGAATTC
29471896 A
1 A
29471897 AATGATGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.40
Consensus pattern (26 bp):
ATTAATTATCTCCTCATACAGAATTC
Found at i:29480431 original size:32 final size:32
Alignment explanation
Indices: 29480390--29480455 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
29480380 ATGGACATGT
29480390 TTTAATTATTTTTATAAGTTATATAGTAAAGG
1 TTTAATTATTTTTATAAGTTATATAGTAAAGG
29480422 TTTAATTATTTTTATAAGTTATATAGTAAAGG
1 TTTAATTATTTTTATAAGTTATATAGTAAAGG
29480454 TT
1 TT
29480456 AAAAGTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TTTAATTATTTTTATAAGTTATATAGTAAAGG
Found at i:29481384 original size:10 final size:10
Alignment explanation
Indices: 29481369--29481397 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29481359 GAAATGTTTG
29481369 ATGATATAAT
1 ATGATATAAT
29481379 ATGATATAAT
1 ATGATATAAT
29481389 A-GATATAAT
1 ATGATATAAT
29481398 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:29485441 original size:30 final size:30
Alignment explanation
Indices: 29485407--29485468 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
29485397 ACTTCATGAA
29485407 AAGTTTGGTGCATATGTAATGTATCTTATG
1 AAGTTTGGTGCATATGTAATGTATCTTATG
29485437 AAGTTTGGTGCATATGTAATGTATCTTATG
1 AAGTTTGGTGCATATGTAATGTATCTTATG
29485467 AA
1 AA
29485469 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (30 bp):
AAGTTTGGTGCATATGTAATGTATCTTATG
Found at i:29486219 original size:42 final size:42
Alignment explanation
Indices: 29486172--29486251 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
29486162 CAAGTTAGAC
* * * * * *
29486172 TTACACGGCCTGGCACACGGGCGTGTGTGGCAACTCAAAGAG
1 TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAAAGAG
29486214 TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAA
1 TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAA
29486252 TGAGCTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (42 bp):
TTACACAGCCTAGCACAAGGACATGTGGGGCAACTCAAAGAG
Found at i:29489581 original size:39 final size:39
Alignment explanation
Indices: 29489538--29489615 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
29489528 TAATTCGTCT
29489538 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
1 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
29489577 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
1 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
29489616 CTTAGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.18
Consensus pattern (39 bp):
AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
Found at i:29492428 original size:60 final size:57
Alignment explanation
Indices: 29492353--29492526 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 57
29492343 TTGTTATTAA
* *
29492353 ATTTTAATAAGATTATTATTAAATATAATTTCATAAAATAATAATAAATAATTTAATCAT
1 ATTTTAATAATATTATTATTAAATATAA-TT-ATAAAATAATAATAAATAATATAAT-AT
*
29492413 ATTTTAATAATATTATTATTAAATATAA-TATAATATAAT-ATAATATAATATAATAT
1 ATTTTAATAATATTATTATTAAATATAATTATAAAATAATAATAA-ATAATATAATAT
* * * *
29492469 AATATAATAACTAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATAT
1 ATTTTAATAA-T-ATTATTATT-AAATAT-AATT-AT-AAAATAATAATAAATAATAT
29492527 TAGAAAAATA
Statistics
Matches: 97, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
56 14 0.14
57 19 0.20
58 10 0.10
59 6 0.06
60 29 0.30
61 1 0.01
62 2 0.02
63 13 0.13
64 3 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (57 bp):
ATTTTAATAATATTATTATTAAATATAATTATAAAATAATAATAAATAATATAATAT
Found at i:29492444 original size:5 final size:5
Alignment explanation
Indices: 29492434--29492477 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
29492424 ATTATTATTA
29492434 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
29492478 ACTAATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:29494080 original size:86 final size:90
Alignment explanation
Indices: 29493984--29494198 Score: 235
Period size: 91 Copynumber: 2.4 Consensus size: 90
29493974 AAACAGTAGG
29493984 AATAAATCCCGAAACAAATTTAATTTAA-TTTAATTTCTCG-TTTTT-GACAACAAAATCAAAA-
1 AATAAATCCCGAAACAAATTTAATTTAACTTTAATTTCTCGTTTTTTGGA-AACAAAATCAAAAT
* * *
29494045 TGTAAT-AAATCCATTGAACGGCAGA
65 TGGAATAAAATACATTAAACGGCAGA
* * * * *
29494070 AATAAATCCCGAAACAAATTTTATTTTAATTTTAA-TACTCGTTTTTTTGGAAATAAAATGAAAA
1 AATAAATCCCGAAACAAA-TTTAATTTAACTTTAATTTCTCG-TTTTTTGGAAACAAAATCAAAA
* *
29494134 TTGGAATAAAATACATTAAACGGCGGG
64 TTGGAATAAAATACATTAAACGGCAGA
* * * *
29494161 AGTAAATCTCGAAACAGATTTTATTTAACTTTAATTTC
1 AATAAATCCCGAAACAAATTTAATTTAACTTTAATTTC
29494199 CCATTTGGAA
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
86 18 0.17
87 14 0.13
88 5 0.05
89 16 0.15
90 20 0.19
91 32 0.30
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (90 bp):
AATAAATCCCGAAACAAATTTAATTTAACTTTAATTTCTCGTTTTTTGGAAACAAAATCAAAATT
GGAATAAAATACATTAAACGGCAGA
Found at i:29494253 original size:86 final size:84
Alignment explanation
Indices: 29493771--29494283 Score: 365
Period size: 84 Copynumber: 6.0 Consensus size: 84
29493761 TACGTCTTTG
* * * * * * * *
29493771 TTTGGAAACAAAACAATATCGAATAAAATCTTTTTAAACAACGGGAATAAATC-CTAAAATAGAT
1 TTTGGAAATAAAATAAAATCGAATAAAATC-TGTTAAACAGCAGGAATAAATCTC-GAAACAGAT
29493835 TTTATTTAATTTAA-TTCTAA
64 TTTATTTAATTTAATTTCTAA
* * * * * * *
29493855 TTTAGAAACAAAATAAAATCAAATAAAATATTGTTAAACGGCAGGAATAAATCTTGAAATAGATT
1 TTTGGAAATAAAATAAAATCGAATAAAAT-CTGTTAAACAGCAGGAATAAATCTCGAAACAGATT
*
29493920 TTATTTAATTTAA-CTCTAA
65 TTATTTAATTTAATTTCTAA
* * * * *
29493939 TTTGGAAATAAAATGAAATCAAATAAAATCTTGTTAAACAGTAGGAATAAATCCCGAAACAAATT
1 TTTGGAAATAAAATAAAATCGAATAAAATC-TGTTAAACAGCAGGAATAAATCTCGAAACAGATT
* **
29494004 TAATTTAATTTAATTTCTCGT
65 TTATTTAATTTAATTTCT-AA
* * ** * * * * *
29494025 TTTTGACAACAAAATCAAAAT-GTAAT-AAATCCATTGAACGGCAGAAATAAATCCCGAAACAAA
1 TTTGGA-AATAAAAT-AAAATCG-AATAAAATCTGTTAAACAGCAGGAATAAATCTCGAAACAGA
* **
29494088 TTTTATTTTAATTTTAATACTCGTTTT
63 TTTTA-TTTAA-TTTAAT-TTC--TAA
* * * * *
29494115 TTTGGAAATAAAATGAAAATTGGAATAAAATAC-ATTAAACGGCGGGAGTAAATCTCGAAACAGA
1 TTTGGAAATAAAAT-AAAA-TCGAATAAAAT-CTGTTAAACAGCAGGAATAAATCTCGAAACAGA
**
29494179 TTTTATTTAACTTTAATTTCCCA
63 TTTTATTTAA-TTTAATTTCTAA
* * **
29494202 TTTGGAAATAAAATAAAAAAT-GAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGAT
1 TTTGGAAATAAAAT--AAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCTCGAAACAGAT
*
29494266 TTTATTTACTTTTAATTT
64 TTTATTTA-ATTTAATTT
29494284 GGAAACAAAA
Statistics
Matches: 348, Mismatches: 61, Indels: 38
0.78 0.14 0.09
Matches are distributed among these distances:
84 136 0.39
85 4 0.01
86 86 0.25
87 32 0.09
88 17 0.05
89 15 0.04
90 21 0.06
91 36 0.10
92 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (84 bp):
TTTGGAAATAAAATAAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCTCGAAACAGATTT
TATTTAATTTAATTTCTAA
Found at i:29494341 original size:73 final size:72
Alignment explanation
Indices: 29494218--29494354 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 72
29494208 AATAAAATAA
*** *
29494218 AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGATTTTATTTACTTTTAATT
1 AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAACAAATTTTATATACTTTTAATT
29494283 TGGAAAC
66 TGGAAAC
* *
29494290 AAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATCCT-GAAACAAATTTTATATAGTTTTAA
1 AAAAT-GAATAAAATCTGTTAAACAGCGGGAATAAAT-CTAGAAACAAATTTTATATACTTTTAA
29494354 T
64 T
29494355 ATTCGTTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
72 5 0.09
73 50 0.88
74 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (72 bp):
AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAACAAATTTTATATACTTTTAATT
TGGAAAC
Found at i:29504077 original size:246 final size:245
Alignment explanation
Indices: 29503645--29504123 Score: 791
Period size: 246 Copynumber: 2.0 Consensus size: 245
29503635 CAGTTTATCG
29503645 AAGAAACAGAGGTGATTGGTTTTATCATTTTTTTTATTCAGAATATATACATATAAAAAGAAACT
1 AAGAAACAGAGGTGATTGGTTTTATCATTTTTTTTATTCAGAATATATACATATAAAAAGAAACT
*
29503710 AAAAAGTAATAAAAGATTATTACCTCTCTATTCGCTGTAAAAAGCGAAACTTTTTCGAATTCCGA
66 AAAAAGTAATAAAAGATTATTACCTCTCTATTCGCTGTAAAAAGCAAAACTTTTTCGAATTCCGA
*
29503775 CCGCCGTACATGGCAGAGTCGACGGTGGCTCGTGGGCGCGTGAGAGCCCGATGACGGAGGCTCGA
131 CCGCCATACATGGCAGAGTCGACGGTGGCTCGTGGGCGCGTGAGAGCCCGATGACGGAGGCTCGA
* *
29503840 CGGAGCTCCGA-GGGCCTGTTCTCTGTCCCCTTCAGAGCTTTCTTCAGTT
196 CGGAGCTCCGAGGGGCCTGCTCTCCGTCCCCTTCAGAGCTTTCTTCAGTT
*
29503889 AAGAAACAGAGGTGATTGGTTTTATCCTTTTTCTTTTATTCAGAATATATACATATAAAAAGAAA
1 AAGAAACAGAGGTGATTGGTTTTAT-CATTTT-TTTTATTCAGAATATATACATATAAAAAGAAA
* * *
29503954 CTAAGAAGTAATAAAAGATTATTACCTCTTTATTCGCTGTAAAAAGCAAAACTTTTTTGAATTCC
64 CTAAAAAGTAATAAAAGATTATTACCTCTCTATTCGCTGTAAAAAGCAAAACTTTTTCGAATTCC
* * ** *
29504019 GACCGCCATACATGGCGGCGTCGGTGGTGG-TACGTGGGCGCGTGGGAGCCCGATGACGGAGGCT
129 GACCGCCATACATGGCAGAGTCGACGGTGGCT-CGTGGGCGCGTGAGAGCCCGATGACGGAGGCT
*
29504083 CGACGGAGCTCCGAGGGGCCTGCTCTCCGTCCCTTTCAGAG
193 CGACGGAGCTCCGAGGGGCCTGCTCTCCGTCCCCTTCAGAG
29504124 TCTCCGAGGG
Statistics
Matches: 217, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
244 25 0.12
245 6 0.03
246 163 0.75
247 23 0.11
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (245 bp):
AAGAAACAGAGGTGATTGGTTTTATCATTTTTTTTATTCAGAATATATACATATAAAAAGAAACT
AAAAAGTAATAAAAGATTATTACCTCTCTATTCGCTGTAAAAAGCAAAACTTTTTCGAATTCCGA
CCGCCATACATGGCAGAGTCGACGGTGGCTCGTGGGCGCGTGAGAGCCCGATGACGGAGGCTCGA
CGGAGCTCCGAGGGGCCTGCTCTCCGTCCCCTTCAGAGCTTTCTTCAGTT
Found at i:29504151 original size:34 final size:33
Alignment explanation
Indices: 29504091--29504156 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
29504081 CTCGACGGAG
29504091 CTCCGAGGGGCCTGCTCTCCGTCCCTTTCAGAGT
1 CTCCGAGGGGCCTGCTCTCCGTCCCTTT-AGAGT
* *
29504125 CTCCGA-GGGCTTGCTTTCCGTCCCCTTTAGAG
1 CTCCGAGGGGCCTGCTCTCCGT-CCCTTTAGAG
29504157 CTTTCTTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.09, C:0.36, G:0.26, T:0.29
Consensus pattern (33 bp):
CTCCGAGGGGCCTGCTCTCCGTCCCTTTAGAGT
Found at i:29504651 original size:29 final size:28
Alignment explanation
Indices: 29504619--29504677 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
29504609 AATCCTTTTT
*
29504619 TATATATA-TATTTAATTTATTTTAAATAC
1 TATATATATTATTT-ATTT-TTTTAAACAC
*
29504648 TATATGTATTATTTATTTTTTTAAACAC
1 TATATATATTATTTATTTTTTTAAACAC
29504676 TA
1 TA
29504678 GTTATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 11 0.41
30 5 0.19
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
TATATATATTATTTATTTTTTTAAACAC
Found at i:29505345 original size:76 final size:76
Alignment explanation
Indices: 29505219--29505370 Score: 241
Period size: 76 Copynumber: 2.0 Consensus size: 76
29505209 ACCAATTTTG
* * *
29505219 GGCGCTGCGAGGGTACTAATCCTTCCTCGTACATAATCGACTTCCGAACCCATTTTCTCACAATT
1 GGCGCTGCAAGAGTACTAATCCTTCCTCGTACATAATCGACTCCCGAACCCATTTTCTCACAATT
29505284 CCGTAGACCAA
66 CCGTAGACCAA
* * *
29505295 GGCGCTGCAAGAGTGCTAATCCTTCCTCGTACCTAATCGACTCCCGAACCCGTTTTCTCACAATT
1 GGCGCTGCAAGAGTACTAATCCTTCCTCGTACATAATCGACTCCCGAACCCATTTTCTCACAATT
*
29505360 TCGTAGACCAA
66 CCGTAGACCAA
29505371 AATGTTTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.26
Consensus pattern (76 bp):
GGCGCTGCAAGAGTACTAATCCTTCCTCGTACATAATCGACTCCCGAACCCATTTTCTCACAATT
CCGTAGACCAA
Found at i:29508294 original size:8 final size:8
Alignment explanation
Indices: 29508275--29508328 Score: 65
Period size: 8 Copynumber: 6.9 Consensus size: 8
29508265 AAATTAACAA
*
29508275 AGAGAGAG
1 AGAGAAAG
*
29508283 AGAGAAAA
1 AGAGAAAG
29508291 AGAGAAAG
1 AGAGAAAG
29508299 AGAGAAAG
1 AGAGAAAG
**
29508307 AGAGAGTG
1 AGAGAAAG
29508315 AGAGAAAG
1 AGAGAAAG
29508323 AG-GAAA
1 AGAGAAA
29508329 CCTGGAAGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
7 4 0.10
8 35 0.90
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (8 bp):
AGAGAAAG
Found at i:29508317 original size:14 final size:14
Alignment explanation
Indices: 29508277--29508324 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
29508267 ATTAACAAAG
*
29508277 AGAGAGAGAGAAAA
1 AGAGAGAGAGAGAA
*
29508291 AGAGAAAGAGAGAA
1 AGAGAGAGAGAGAA
29508305 AGAGAGAGTGAGAGAA
1 AGAGAGA--GAGAGAA
29508321 AGAG
1 AGAG
29508325 GAAACCTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.62
16 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (14 bp):
AGAGAGAGAGAGAA
Found at i:29508322 original size:16 final size:16
Alignment explanation
Indices: 29508275--29508324 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
29508265 AAATTAACAA
*
29508275 AGAGAGAGAGAGAAAA
1 AGAGAGAGAGAGAAAG
*
29508291 AGAGAAAGAGAGAAAG
1 AGAGAGAGAGAGAAAG
*
29508307 AGAGAGTGAGAGAAAG
1 AGAGAGAGAGAGAAAG
29508323 AG
1 AG
29508325 GAAACCTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (16 bp):
AGAGAGAGAGAGAAAG
Found at i:29516444 original size:44 final size:44
Alignment explanation
Indices: 29516341--29516676 Score: 456
Period size: 44 Copynumber: 7.6 Consensus size: 44
29516331 TCTAGAAGGT
* * * * *
29516341 AGATTTGGTGTCTCTGTTATTGACAGGGAGCGGATCAAAGATAGT
1 AGATTTGGCGTCTCTG-TATTGACAGAGAGCAGATCGAAGATAGC
* *
29516386 AGATTTGGCGTCTCTGTATCGACGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
29516430 AGATGTGGCATCTCTGTATTGACAGAGAGCTGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
29516474 AGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
29516518 AGATTTGGCGTCTCTATATTGACAGAGGGCAGGTCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
29516562 TGATTTGGCTTCTCTGTATTGACAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * *
29516606 AGATTTGGCGTCTCTGTATCGACGGGGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
29516650 AGATTTGGCGTCTCTGTATTGACAGAG
1 AGATTTGGCGTCTCTGTATTGACAGAG
29516677 GATAGCAGAT
Statistics
Matches: 255, Mismatches: 36, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
44 240 0.94
45 15 0.06
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
Found at i:29516597 original size:132 final size:132
Alignment explanation
Indices: 29516341--29516918 Score: 679
Period size: 132 Copynumber: 4.5 Consensus size: 132
29516331 TCTAGAAGGT
* * * * *
29516341 AGATTTGGTGTCTCTGTTATTGACAGGGAGCGGATCAAAGATAGTAGATTTGGCGTCTCTGTATC
1 AGATTTGGCGTCTCTG-TATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * *
29516406 GACGGAGAGCAGATCGAAGATAGCAGATGTGGCATCTCTGTATTGACAGAGAGCTGATCGAAGAT
65 GACAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT
29516471 AGC
130 AGC
* * * * *
29516474 AGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTATATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
* * * *
29516539 ACAGAGGGCAGGTCGAAGATAGCTGATTTGGCTTCTCTGTATTGACAGAGGGCAGATCGAAGATA
66 ACAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATA
29516604 GC
131 GC
* * *
29516606 AGATTTGGCGTCTCTGTATCGACGGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT-
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
* *
29516670 ---GA---CAGA--G--GATAGCAGATTTGACGAT-TCTGTATTAACAGAGAGCAGATCGAAGAT
66 ACAGAGGGCAGATCGAAGATAGCAGATTTGGC-ATCTCTGTATTGACAGAGAGCAGATCGAAGAT
29516724 AGC
130 AGC
* * * * *
29516727 AGATTTGGCATCTCTATATTGATAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
* * *
29516792 ACAGAGGGCAGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTGAC--AGAGTAGATCGAATAT
66 ACAGAGGGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT
29516854 -GAC
130 AG-C
* *
29516857 AGATTTGGCGTCTCTATATTGACAGAG-GACAGATCAAAGAT-GACAGATTTGGTGTCTCTGTA
1 AGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCAAAGATAG-CAGATTTGGCGTCTCTGTA
29516919 CTTGCCGGGA
Statistics
Matches: 380, Mismatches: 48, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
121 99 0.26
122 1 0.00
123 1 0.00
125 5 0.01
128 6 0.02
129 3 0.01
130 69 0.18
131 2 0.01
132 180 0.47
133 14 0.04
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (132 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
ACAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATA
GC
Found at i:29516686 original size:33 final size:33
Alignment explanation
Indices: 29516644--29516709 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
29516634 GCAGATCAAA
* *
29516644 GATAGCAGATTTGGCG-TCTCTGTATTGACAGAG
1 GATAGCAGATTTGACGAT-TCTGTATTAACAGAG
29516677 GATAGCAGATTTGACGATTCTGTATTAACAGAG
1 GATAGCAGATTTGACGATTCTGTATTAACAGAG
29516710 AGCAGATCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (33 bp):
GATAGCAGATTTGACGATTCTGTATTAACAGAG
Found at i:29516727 original size:44 final size:44
Alignment explanation
Indices: 29516682--29516918 Score: 288
Period size: 44 Copynumber: 5.4 Consensus size: 44
29516672 CAGAGGATAG
* *
29516682 CAGATTTGACGAT-TCTGTATTAACAGAGAGCAGATCGAAGAT-A
1 CAGATTTGGCG-TCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
29516725 GCAGATTTGGCATCTCTATATTGATAGAGAGCAGATCGAAGAT-A
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
29516769 GCAGATTTGGCGTCTTTGTATTGACAGAGGGCAGATCGAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
29516814 CAGATTTGGCGTCTCTGTATTGAC--AGAGTAGATCGAATATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
29516856 CAGATTTGGCGTCTCTATATTGACAGAG-GACAGATCAAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAAGATGA
*
29516900 CAGATTTGGTGTCTCTGTA
1 CAGATTTGGCGTCTCTGTA
29516919 CTTGCCGGGA
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
42 38 0.23
43 2 0.01
44 127 0.76
45 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
Found at i:29516770 original size:121 final size:121
Alignment explanation
Indices: 29516574--29516918 Score: 360
Period size: 121 Copynumber: 2.8 Consensus size: 121
29516564 ATTTGGCTTC
* * * * * *
29516574 TCTGTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGGGGAGCAGA
1 TCTGTATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCGACAGAGAGCAGA
29516639 TCAAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGATAGCAGATTTGACGAT
66 TCAAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGATAGCAGATTTGACGAT
* *
29516695 TCTGTATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATTGATAGAGAGCAGA
1 TCTGTATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCGACAGAGAGCAGA
* * *
29516760 TCGAAGATAGCAGATTTGGCGTCTTTGTATTGACAGAGGGCAGATCGAAGATGACAGATTTGGCG
66 TCAAAGATAGCAGATTTGGCGTCTCTGTATTGACAGA--G--GAT-----A-G-CAGATTTGACG
29516825 -T
120 AT
* * * * *
29516826 CTCTGTATTGAC--AGAGTAGATCGAATAT-GACAGATTTGGCGTCTCTATATTGACAGAG-GAC
1 -TCTGTATTAACAGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTATATCGACAGAGAG-C
*
29516887 AGATCAAAGAT-GACAGATTTGGTGTCTCTGTA
63 AGATCAAAGATAG-CAGATTTGGCGTCTCTGTA
29516919 CTTGCCGGGA
Statistics
Matches: 190, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
121 92 0.48
123 1 0.01
125 3 0.02
129 3 0.02
130 69 0.36
131 2 0.01
132 20 0.11
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (121 bp):
TCTGTATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCGACAGAGAGCAGA
TCAAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGATAGCAGATTTGACGAT
Found at i:29516805 original size:165 final size:165
Alignment explanation
Indices: 29516512--29516841 Score: 477
Period size: 165 Copynumber: 2.0 Consensus size: 165
29516502 GTAGATCGAA
* * * * * * *
29516512 GATAGTAGATTTGGCGTCTCTATATTGACAGAGGGCAGGTCGAAGATAGCTGATTTGGCTTCTCT
1 GATAGCAGATTTGACGTCTCTATATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCT
* * *
29516577 GTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGGGGAGCAGATCA
66 ATATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGAGGAGCAGATCA
29516642 AAGAT-AGCAGATTTGGCGTCTCTGTATTGACAGAG
131 AAGATGA-CAGATTTGGCGTCTCTGTATTGACAGAG
*
29516677 GATAGCAGATTTGACGAT-TCTGTATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
1 GATAGCAGATTTGACG-TCTCTATATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
* * *
29516741 TATATTGATAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGACAGAGG-GCAGAT
65 TATATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGAC-GAGGAGCAGAT
*
29516805 CGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAG
129 CAAAGATGACAGATTTGGCGTCTCTGTATTGACAGAG
29516842 TAGATCGAAT
Statistics
Matches: 147, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
165 142 0.97
166 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (165 bp):
GATAGCAGATTTGACGTCTCTATATTAACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCT
ATATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGAGGAGCAGATCA
AAGATGACAGATTTGGCGTCTCTGTATTGACAGAG
Done.