Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 32 of 185
Found at i:9519529 original size:18 final size:18
Alignment explanation
Indices: 9519506--9519540 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9519496 GTAATTGAAC
9519506 ATATATGAAA-ATGTGTAT
1 ATATAT-AAATATGTGTAT
9519524 ATATATAAATATGTGTA
1 ATATATAAATATGTGTA
9519541 ATTGAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (18 bp):
ATATATAAATATGTGTAT
Found at i:9522248 original size:22 final size:22
Alignment explanation
Indices: 9522208--9522249 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9522198 ATTTGTTTCA
*
9522208 TTTTTTCGAAAACTGTTTTAAT
1 TTTTTTCGAAAACTATTTTAAT
* *
9522230 TTTTTTCGAATATTATTTTA
1 TTTTTTCGAAAACTATTTTA
9522250 GTAAAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTTTTCGAAAACTATTTTAAT
Found at i:9526939 original size:10 final size:10
Alignment explanation
Indices: 9526917--9526949 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9526907 CTAGTTCAAG
9526917 TTTTTATGA-
1 TTTTTATGAT
9526926 TTTTTATGAT
1 TTTTTATGAT
*
9526936 TTTTTATAAT
1 TTTTTATGAT
9526946 TTTT
1 TTTT
9526950 ATAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (10 bp):
TTTTTATGAT
Found at i:9526941 original size:19 final size:19
Alignment explanation
Indices: 9526917--9526988 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
9526907 CTAGTTCAAG
* *
9526917 TTTTTATGATTTTTATGAT
1 TTTTTATAATTTTTATAAT
9526936 TTTTTATAATTTTTATAAT
1 TTTTTATAATTTTTATAAT
* *
9526955 TTTATATCAATTTTAAT-AT
1 TTTTTAT-AATTTTTATAAT
* *
9526974 TTTTAATACTTTTTA
1 TTTTTATAATTTTTA
9526989 AAGAATTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 6 0.14
19 30 0.68
20 8 0.18
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:9526958 original size:8 final size:9
Alignment explanation
Indices: 9526917--9527190 Score: 82
Period size: 9 Copynumber: 29.4 Consensus size: 9
9526907 CTAGTTCAAG
*
9526917 TTTTTATGA
1 TTTTTATAA
*
9526926 TTTTTATGAT
1 TTTTTAT-AA
9526936 TTTTTATAA
1 TTTTTATAA
9526945 TTTTTATAA
1 TTTTTATAA
9526954 TTTTATATCAA
1 TTTT-TAT-AA
*
9526965 TTTTAAT-A
1 TTTTTATAA
*
9526973 TTTTTAATAC
1 TTTTT-ATAA
*
9526983 TTTTTAAAGA
1 TTTTTATA-A
* * *
9526993 ATTCTAAAA
1 TTTTTATAA
9527002 CCTTTTT-TAA
1 --TTTTTATAA
*
9527012 -CTTTA-AA
1 TTTTTATAA
9527019 TATTTTCAATAA
1 T-TTTT--ATAA
*
9527031 GTTTTATTAA
1 TTTTTA-TAA
* *
9527041 TTTATAAAAA
1 TTT-TTATAA
***
9527051 AAATTATAA
1 TTTTTATAA
*
9527060 TTTATTA-GA
1 TTT-TTATAA
*
9527069 TTTCTAT-A
1 TTTTTATAA
9527077 TTTTTATAA
1 TTTTTATAA
*
9527086 TATTTATAA
1 TTTTTATAA
9527095 GTTTTTAT-A
1 -TTTTTATAA
9527104 TTTTTATAA
1 TTTTTATAA
*
9527113 TTTTAATAA
1 TTTTTATAA
*
9527122 GTTTATATTAA
1 -TTTTTA-TAA
*
9527133 TTTTAAT-A
1 TTTTTATAA
* *
9527141 TTTTAAT-T
1 TTTTTATAA
9527149 TTTTTATAA
1 TTTTTATAA
* *
9527158 CTTTTTTTTAT
1 --TTTTTATAA
9527169 TTTTTAATAA
1 TTTTT-ATAA
9527179 TTTTTAT-A
1 TTTTTATAA
9527187 TTTT
1 TTTT
9527191 AGTTAACGTC
Statistics
Matches: 194, Mismatches: 44, Indels: 55
0.66 0.15 0.19
Matches are distributed among these distances:
7 5 0.03
8 40 0.21
9 65 0.34
10 56 0.29
11 26 0.13
12 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9526977 original size:20 final size:19
Alignment explanation
Indices: 9526934--9526978 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9526924 GATTTTTATG
*
9526934 ATTTTT-TATAATTTTTAT
1 ATTTTTATATAATTTTAAT
*
9526952 AATTTTATATCAATTTTAAT
1 ATTTTTATAT-AATTTTAAT
9526972 ATTTTTA
1 ATTTTTA
9526979 ATACTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 5 0.23
19 3 0.14
20 14 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTATATAATTTTAAT
Found at i:9527106 original size:27 final size:27
Alignment explanation
Indices: 9527059--9527125 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
9527049 AAAAATTATA
*
9527059 ATTTATTAGATTTCTATATTTTTATAAT
1 ATTTATAAG-TTTCTATATTTTTATAAT
*
9527087 ATTTATAAGTTTTTATATTTTTATAAT
1 ATTTATAAGTTTCTATATTTTTATAAT
9527114 -TTTAATAAGTTT
1 ATTT-ATAAGTTT
9527126 ATATTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.08
27 25 0.69
28 8 0.22
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
ATTTATAAGTTTCTATATTTTTATAAT
Found at i:9527128 original size:35 final size:35
Alignment explanation
Indices: 9527054--9527121 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
9527044 ATAAAAAAAA
*
9527054 TTATAATTTATTAGATTTCTATATTTTTATAATAT
1 TTATAATTTATTAGATTTCTATATTTTAATAATAT
* *
9527089 TTATAAGTTT-TTATATTTTTATAATTTTAATAA
1 TTATAA-TTTATTAGATTTCTAT-ATTTTAATAA
9527122 GTTTATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 16 0.57
36 12 0.43
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (35 bp):
TTATAATTTATTAGATTTCTATATTTTAATAATAT
Found at i:9527163 original size:19 final size:19
Alignment explanation
Indices: 9527136--9527183 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
9527126 ATATTAATTT
* *
9527136 TAATATTTTAATTTTTTTA
1 TAATTTTTTAATTTTTTAA
*
9527155 TAACTTTTTTTTATTTTTTAA
1 TAA--TTTTTTAATTTTTTAA
9527176 TAATTTTT
1 TAATTTTT
9527184 ATATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TAATTTTTTAATTTTTTAA
Found at i:9527165 original size:21 final size:20
Alignment explanation
Indices: 9527141--9527183 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
9527131 AATTTTAATA
*
9527141 TTTTAATTTTTTTATAACTTT
1 TTTTAATTTTTTAATAA-TTT
*
9527162 TTTTTATTTTTTAATAATTT
1 TTTTAATTTTTTAATAATTT
9527182 TT
1 TT
9527184 ATATTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTAATTTTTTAATAATTT
Found at i:9527190 original size:27 final size:27
Alignment explanation
Indices: 9527068--9527190 Score: 94
Period size: 27 Copynumber: 4.5 Consensus size: 27
9527058 AATTTATTAG
*
9527068 ATTTCTATATTTTTATA-ATATTT-ATA
1 ATTTTTATATTTTTATATAT-TTTAATA
9527094 AGTTTTTATATTTTTATA-ATTTTAATA
1 A-TTTTTATATTTTTATATATTTTAATA
* *
9527121 AGTTTATATTAATTTTA-ATATTTTAAT-
1 A-TTTTTA-TATTTTTATATATTTTAATA
* * *
9527148 TTTTTTATAACTTTTTTTTATTTTTTAATA
1 ATTTTTAT-A--TTTTTATATATTTTAATA
9527178 ATTTTTATATTTT
1 ATTTTTATATTTT
9527191 AGTTAACGTC
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
25 1 0.01
26 10 0.13
27 32 0.41
28 19 0.24
29 10 0.13
30 7 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTTATATTTTTATATATTTTAATA
Found at i:9528298 original size:38 final size:38
Alignment explanation
Indices: 9528249--9528327 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
9528239 TAGGCAGAAA
9528249 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
1 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
9528287 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
1 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
9528325 ATA
1 ATA
9528328 AATAACAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (38 bp):
ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
Found at i:9532073 original size:218 final size:218
Alignment explanation
Indices: 9531695--9532131 Score: 874
Period size: 218 Copynumber: 2.0 Consensus size: 218
9531685 AATATATATA
9531695 AGGGAAATGGAACTGGCAGTGTAGGGGAAGAGAGGGAGAACTGAGAAGGGAAATTAAGGGTGGGA
1 AGGGAAATGGAACTGGCAGTGTAGGGGAAGAGAGGGAGAACTGAGAAGGGAAATTAAGGGTGGGA
9531760 AGGGAAAGCCTTTGGAGGGTTTTAAAGGCAACAAAAAGGGTTGAAATCAAACTCAAGGGTAAGGA
66 AGGGAAAGCCTTTGGAGGGTTTTAAAGGCAACAAAAAGGGTTGAAATCAAACTCAAGGGTAAGGA
9531825 GGGTTGAGTTAACTTGGTTTAGGGATTACATCATATTTATAATTTTTTTAATATTTAAATCTGAA
131 GGGTTGAGTTAACTTGGTTTAGGGATTACATCATATTTATAATTTTTTTAATATTTAAATCTGAA
9531890 TTCGCACACTAATTATTCACCTT
196 TTCGCACACTAATTATTCACCTT
9531913 AGGGAAATGGAACTGGCAGTGTAGGGGAAGAGAGGGAGAACTGAGAAGGGAAATTAAGGGTGGGA
1 AGGGAAATGGAACTGGCAGTGTAGGGGAAGAGAGGGAGAACTGAGAAGGGAAATTAAGGGTGGGA
9531978 AGGGAAAGCCTTTGGAGGGTTTTAAAGGCAACAAAAAGGGTTGAAATCAAACTCAAGGGTAAGGA
66 AGGGAAAGCCTTTGGAGGGTTTTAAAGGCAACAAAAAGGGTTGAAATCAAACTCAAGGGTAAGGA
9532043 GGGTTGAGTTAACTTGGTTTAGGGATTACATCATATTTATAATTTTTTTAATATTTAAATCTGAA
131 GGGTTGAGTTAACTTGGTTTAGGGATTACATCATATTTATAATTTTTTTAATATTTAAATCTGAA
9532108 TTCGCACACTAATTATTCACCTT
196 TTCGCACACTAATTATTCACCTT
9532131 A
1 A
9532132 ATTAATATCG
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 219 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (218 bp):
AGGGAAATGGAACTGGCAGTGTAGGGGAAGAGAGGGAGAACTGAGAAGGGAAATTAAGGGTGGGA
AGGGAAAGCCTTTGGAGGGTTTTAAAGGCAACAAAAAGGGTTGAAATCAAACTCAAGGGTAAGGA
GGGTTGAGTTAACTTGGTTTAGGGATTACATCATATTTATAATTTTTTTAATATTTAAATCTGAA
TTCGCACACTAATTATTCACCTT
Found at i:9535091 original size:74 final size:74
Alignment explanation
Indices: 9534970--9535116 Score: 294
Period size: 74 Copynumber: 2.0 Consensus size: 74
9534960 CCATAACTTA
9534970 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
1 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
9535035 ATTCTTAGT
66 ATTCTTAGT
9535044 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
1 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
9535109 ATTCTTAG
66 ATTCTTAG
9535117 GAGTTTTAGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (74 bp):
CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
ATTCTTAGT
Found at i:9537784 original size:11 final size:11
Alignment explanation
Indices: 9537752--9537785 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9537742 GTCATAGTGA
9537752 TGGTCCTACGG
1 TGGTCCTACGG
* *
9537763 TGGTACGACGG
1 TGGTCCTACGG
9537774 TGGTCCTACGG
1 TGGTCCTACGG
9537785 T
1 T
9537786 TGTTTGGCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (11 bp):
TGGTCCTACGG
Found at i:9539958 original size:40 final size:40
Alignment explanation
Indices: 9539914--9540004 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
9539904 AATGGAAAAA
9539914 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
1 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
9539954 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
1 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
* *
9539994 GAAGTCAATGG
1 GGAGTAAATGG
9540005 TGAAGTTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.37, C:0.05, G:0.35, T:0.22
Consensus pattern (40 bp):
GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
Found at i:9545295 original size:30 final size:30
Alignment explanation
Indices: 9545259--9545319 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9545249 ATTGAGGCAA
**
9545259 AAGAAAATCAAGATTCAAAATCTTGGTTTC
1 AAGAAAATCAAGAAACAAAATCTTGGTTTC
* *
9545289 AAGAAAATTACGAAACAAAATCTTGGTTTC
1 AAGAAAATCAAGAAACAAAATCTTGGTTTC
9545319 A
1 A
9545320 TACAAACTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (30 bp):
AAGAAAATCAAGAAACAAAATCTTGGTTTC
Found at i:9555652 original size:27 final size:26
Alignment explanation
Indices: 9555566--9555662 Score: 126
Period size: 25 Copynumber: 3.8 Consensus size: 26
9555556 TCCTGTACAT
*
9555566 GTATGCTCACACGAGCTGTG-AATTG
1 GTATGCTCACACGAGCTGTGAAAATG
*
9555591 GTATGCTCACACGAGCTGT-AAACTG
1 GTATGCTCACACGAGCTGTGAAAATG
*
9555616 GTATGCTCACATGAGCTGTGAAAATGG
1 GTATGCTCACACGAGCTGTGAAAAT-G
* *
9555643 GTCTGCTCACACGAGTTGTG
1 GTATGCTCACACGAGCTGTG
9555663 GGTCAGAACA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
25 41 0.65
26 4 0.06
27 18 0.29
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (26 bp):
GTATGCTCACACGAGCTGTGAAAATG
Found at i:9557248 original size:54 final size:54
Alignment explanation
Indices: 9557107--9557222 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
9557097 TCAAGTTAGT
* * * * *
9557107 GAGTTACATGACCTAGTACATGGCTTGGCACACGGGCGTGTGTGGCAACTCAAA
1 GAGTTACACGACCTAGCACACGGCTTGGAACACGGGCGTGTGGGGCAACTCAAA
* * **
9557161 GAGTTACACGACCTAGCACACGGCCTGGAACACGGGCGTGTGGGGCTACTCAGT
1 GAGTTACACGACCTAGCACACGGCTTGGAACACGGGCGTGTGGGGCAACTCAAA
9557215 GAGTTACA
1 GAGTTACA
9557223 TGGGTGAGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (54 bp):
GAGTTACACGACCTAGCACACGGCTTGGAACACGGGCGTGTGGGGCAACTCAAA
Found at i:9559442 original size:22 final size:23
Alignment explanation
Indices: 9559402--9559444 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
9559392 TCGATTTCTT
9559402 TTCCTATCTTTTTGCGAAAAAAA
1 TTCCTATCTTTTTGCGAAAAAAA
9559425 TTCCTAT-TTTTCTG-GAAAAA
1 TTCCTATCTTTT-TGCGAAAAA
9559445 TACCATGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (23 bp):
TTCCTATCTTTTTGCGAAAAAAA
Found at i:9568410 original size:52 final size:52
Alignment explanation
Indices: 9568337--9568445 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
9568327 AAATTTATTA
*
9568337 GTGACAATTCAATAAAGCTGTCAATTTTCAATCTCAAAAGATTACTCAATTT
1 GTGACAATTCAATAAAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
* *
9568389 GTGACAATTCAA-ACAAGCTGTCAATTTTCAAGCTCAAAAGATTAGTTAATTT
1 GTGACAATTCAATA-AAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
9568441 GTGAC
1 GTGAC
9568446 TATTTGGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
51 1 0.02
52 52 0.98
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (52 bp):
GTGACAATTCAATAAAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
Found at i:9581186 original size:10 final size:10
Alignment explanation
Indices: 9581171--9581195 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9581161 ATGCCAAAAG
9581171 AAGAACAACA
1 AAGAACAACA
9581181 AAGAACAACA
1 AAGAACAACA
9581191 AAGAA
1 AAGAA
9581196 TAATAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.16, G:0.12, T:0.00
Consensus pattern (10 bp):
AAGAACAACA
Found at i:9582501 original size:39 final size:39
Alignment explanation
Indices: 9582457--9582548 Score: 150
Period size: 38 Copynumber: 2.4 Consensus size: 39
9582447 TGTCCTAAAC
* *
9582457 TATGACATAATTAAAAACTCTTATTAAAGATGTTCAGAT
1 TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
*
9582496 TATGACATAATT-AAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
9582534 TATGACATAATTAAA
1 TATGACATAATTAAA
9582549 GACTTAAACT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 35 0.71
39 14 0.29
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (39 bp):
TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
Found at i:9588722 original size:46 final size:43
Alignment explanation
Indices: 9588670--9588758 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 43
9588660 ATAGAATTAC
**
9588670 AATGGAATAGAGTTGTAATCAATAATTCAGTTG-TTTGGTTGAATGA
1 AATGGAATAGAACTGTAAT-AAT-ATT-A-TTGATTTGGTTGAATGA
9588716 AATGGAATAGAACTGTAATAATATTATTGTATTTGGTTGAATG
1 AATGGAATAGAACTGTAATAATATTATTG-ATTTGGTTGAATG
9588759 GAATAGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 1 0.03
44 15 0.38
45 3 0.08
46 17 0.44
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38
Consensus pattern (43 bp):
AATGGAATAGAACTGTAATAATATTATTGATTTGGTTGAATGA
Found at i:9590063 original size:8 final size:8
Alignment explanation
Indices: 9590050--9590076 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9590040 AGGTTGAACT
9590050 TTAAATAA
1 TTAAATAA
9590058 TTAAATAA
1 TTAAATAA
9590066 TTAAATAA
1 TTAAATAA
9590074 TTA
1 TTA
9590077 TTATAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:9594085 original size:34 final size:35
Alignment explanation
Indices: 9594041--9594107 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9594031 CAGTAAAATG
*
9594041 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
9594075 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
9594108 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:9600066 original size:25 final size:25
Alignment explanation
Indices: 9600038--9600109 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
9600028 AGCTTCATTG
9600038 AGCTGAAATACGGTAAGCTCATAA-A
1 AGCTGAAAT-CGGTAAGCTCATAACA
* *
9600063 AGCTGAGAATTGGTAAGCTC-TAACG
1 AGCTGA-AATCGGTAAGCTCATAACA
*
9600088 AGCTGAAATCGGTAAGATCATA
1 AGCTGAAATCGGTAAGCTCATA
9600110 CGAAATGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 14 0.35
25 23 0.57
26 3 0.08
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (25 bp):
AGCTGAAATCGGTAAGCTCATAACA
Found at i:9600112 original size:24 final size:24
Alignment explanation
Indices: 9600024--9600112 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 24
9600014 AACCATAATT
*
9600024 GGTAAGCTTCAT-TGAGCTGAAATAC
1 GGTAAGC-TCATACGAGCTGAAAT-C
** *
9600049 GGTAAGCTCATAAAAGCTGAGAATT
1 GGTAAGCTCATACGAGCTGA-AATC
9600074 GGTAAGCTC-TAACGAGCTGAAATC
1 GGTAAGCTCAT-ACGAGCTGAAATC
*
9600098 GGTAAGATCATACGA
1 GGTAAGCTCATACGA
9600113 AATGTGGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
24 20 0.38
25 30 0.57
26 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (24 bp):
GGTAAGCTCATACGAGCTGAAATC
Found at i:9605695 original size:85 final size:84
Alignment explanation
Indices: 9605583--9605740 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 84
9605573 TGTAACTTCA
*
9605583 ATCTACTCTGCTGTAACTCCATGGGGAT-GAGAT-TGGTATCTTCAACCTGCTCCACTGCAACTT
1 ATCTACTCTACTGTAACTCCATGGGGATAGAGATGTGGT-T-TT-AACCTGCTCCACTGCAACTT
*
9605646 TAGGGAGATAAGGCTTGATGCG
63 CAGGGAGATAAGGCTTGATGCG
* *
9605668 ATCTACTCTACTGTAACTCCATGGGGATAAGATATGTGGTTTTAATCTGCTCCACTGCAACTTCA
1 ATCTACTCTACTGTAACTCCATGGGGAT-AGAGATGTGGTTTTAACCTGCTCCACTGCAACTTCA
9605733 GGGAGATA
65 GGGAGATA
9605741 GGATTGGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
85 55 0.83
86 2 0.03
87 5 0.08
88 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (84 bp):
ATCTACTCTACTGTAACTCCATGGGGATAGAGATGTGGTTTTAACCTGCTCCACTGCAACTTCAG
GGAGATAAGGCTTGATGCG
Found at i:9605764 original size:44 final size:43
Alignment explanation
Indices: 9605713--9605958 Score: 164
Period size: 44 Copynumber: 5.7 Consensus size: 43
9605703 GTGGTTTTAA
*
9605713 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTCTG
* * * * *
9605757 TCTGCTCCGCTGCATCTTCAGGGAGATAAGACTGG--ATGC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCTG
* * * * * **
9605797 ATCTACTCTACTGCAACTTTAGAGAGATAAGATTTGTGGTTTT-AA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-GTTTTTCTG
* * *
9605842 TCCGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTTTTTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTTTTCTG
* * ** * * *
9605886 TCTGCTCCATTGCAATTTCAAAGAGATAAGACTGG---ATGTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCTG
* *
9605926 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
9605959 CTATGGTTTT
Statistics
Matches: 156, Mismatches: 37, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
40 4 0.03
41 54 0.35
42 3 0.02
43 8 0.05
44 86 0.55
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCTG
Found at i:9605826 original size:129 final size:129
Alignment explanation
Indices: 9605629--9606010 Score: 507
Period size: 129 Copynumber: 3.0 Consensus size: 129
9605619 TATCTTCAAC
* * * * * * *
9605629 CTGCTCCACTGCAACTTTAGGGAGATAAGGCTTGATGCGATCTACTCTACTGTAACTCCATG-GG
1 CTGCTCCACTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCA-GAGA
*
9605693 GATAAGATATGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
65 GATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
* *
9605758 CTGCTCCGCTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTTAGAGAG
1 CTGCTCCACTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAG
* * * * *
9605823 ATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTTTTTTTGT
66 ATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
* ** * *
9605887 CTGCTCCATTGCAAT-TTCAAAGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
1 CTGCTCCACTGC-ATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGA
* * * * *
9605951 GATAAGATCTATGGTTTTAATCCACTCCACTTCAACTTCAGGGAGATAGAATTGGTTTCT
65 GATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT
9606011 GATTTGTTCT
Statistics
Matches: 221, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
128 1 0.00
129 218 0.99
130 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (129 bp):
CTGCTCCACTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAG
ATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
Found at i:9620517 original size:20 final size:19
Alignment explanation
Indices: 9620488--9620528 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
9620478 ATATATGTAT
9620488 ATATGGATAAGTTATGATAA
1 ATATGGATAAGTTA-GATAA
*
9620508 ATATGTATAAGTTAGATAA
1 ATATGGATAAGTTAGATAA
9620527 AT
1 AT
9620529 GCATGTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (19 bp):
ATATGGATAAGTTAGATAA
Found at i:9621459 original size:50 final size:50
Alignment explanation
Indices: 9621403--9621521 Score: 211
Period size: 50 Copynumber: 2.4 Consensus size: 50
9621393 CTTTGGGAGT
9621403 GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
1 GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
** *
9621453 GCATGTTATTTGTTAACCAGCCTGGTGATTTGAGTTTTGCCATTAGTAGG
1 GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
9621503 GCATGTTATTTGTTAACCA
1 GCATGTTATTTGTTAACCA
9621522 TAGAATAATG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (50 bp):
GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
Found at i:9626142 original size:2 final size:2
Alignment explanation
Indices: 9626137--9626198 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
9626127 TCACGAATAC
* * *
9626137 AT AT AT AT AC AT ACT -T AT AT AT AT AT AT A- AT TT TT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9626178 AT AT AC AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
9626199 CTTACATAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.94
3 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9626521 original size:20 final size:20
Alignment explanation
Indices: 9626485--9626522 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9626475 TTGCTCATAT
*
9626485 TATTTTTATTCATATTATCG
1 TATTTTTATTCACATTATCG
9626505 TATTTATTATTC-CATTAT
1 TATTT-TTATTCACATTAT
9626523 GCATATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTTTTATTCACATTATCG
Found at i:9626842 original size:106 final size:107
Alignment explanation
Indices: 9626555--9626981 Score: 544
Period size: 107 Copynumber: 4.0 Consensus size: 107
9626545 AAAGGAAAAT
*
9626555 TTTTCAAAGTAAGGCAATATTTTACGTTTGTAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
9626620 TCGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATTAAA
66 TCGA-TTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
* * * *
9626663 ATTTC--A--AAGGCAATGTTTTACATTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
9626724 TTGATTTTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAA
66 TCGA---TTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
* * * *
9626769 TTTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTACCCTAATGTGCTGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
9626834 TCGATTTTTTTGTTTGACCAAATAGCCAAATCA-CCTTTTAAA
66 TCGATTTTTTCGTTCGACCAAATAGCCAAAT-ATCCTTTTAAA
* * * * * *
9626876 ATTTCAAAGTAAGACTATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGATGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* * *
9626940 TCGA-TTTCTCGTTCGACCAAATAGCCAAATATCATCTTAAA
66 TCGATTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
9626981 T
1 T
9626982 CTTAATCCAT
Statistics
Matches: 277, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
104 55 0.20
105 30 0.11
106 67 0.24
107 68 0.25
108 6 0.02
110 51 0.18
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (107 bp):
TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
TCGATTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
Found at i:9626897 original size:107 final size:107
Alignment explanation
Indices: 9626556--9626972 Score: 553
Period size: 106 Copynumber: 3.9 Consensus size: 107
9626546 AAGGAAAATT
*
9626556 TTTCAAAGTAAGGCAATATTTTACGTTTGTAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAA-GCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
9626621 CGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATTAAAA
65 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
9626664 TTTCAAAG---GCAATGTTTTACATTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTT
1 TTTCAAAGTAAGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
* *
9626726 GATTTTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAAT
66 GA--TTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
9626770 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTACCCTAATGTGCTGGGTTT
1 TTTCAAAGTAA-GCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
9626835 CGATTTTTTT-GTTTGACCAAATAGCCAAATCA-CCTTTTAAAA
65 CGATTTTTTTCGTTCGACCAAATAGCCAAAT-ATCCTTTTAAAA
* * * *
9626877 TTTCAAAGTAAGACTATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGATGGGTTT
1 TTTCAAAGTAAG-CAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
9626941 CGA--TTTCTCGTTCGACCAAATAGCCAAATATC
65 CGATTTTTTTCGTTCGACCAAATAGCCAAATATC
9626973 ATCTTAAATC
Statistics
Matches: 272, Mismatches: 27, Indels: 23
0.84 0.08 0.07
Matches are distributed among these distances:
104 56 0.21
105 20 0.07
106 71 0.26
107 61 0.22
108 16 0.06
110 48 0.18
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (107 bp):
TTTCAAAGTAAGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
GATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:9638594 original size:45 final size:45
Alignment explanation
Indices: 9638536--9638715 Score: 243
Period size: 45 Copynumber: 4.0 Consensus size: 45
9638526 ACAGATCAGT
** * * * *
9638536 GAAGATAGCAGATCTTACCTTCTTGTACTGACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* *
9638581 GAAGATAGCAGATCTTGTATTCCTATATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* *
9638626 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAATGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* * *
9638671 AAAGATAGCAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
9638716 AAAGCTAGGA
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 118 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
Found at i:9638830 original size:85 final size:85
Alignment explanation
Indices: 9638738--9639179 Score: 421
Period size: 85 Copynumber: 5.2 Consensus size: 85
9638728 TCCTATCTTT
* * *
9638738 CTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* *
9638803 TCGCATCCAGTCTTATCTCC
66 TAGAATCCAGTCTTATCTCC
*
9638823 CTGAAGTTGCAGTGGAGCGGATCAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* *
9638888 TTGCATCCAGTCTTATCTCC
66 TAGAATCCAGTCTTATCTCC
* *** ** * * * *
9638908 CTGAAGTTACAGTGGAATAGA-CAAAAGAAACCA-ATCCTATCTCCCT-AGAGTTGCAGTGGAGT
1 CTGAAGTTGCAGTGGAGCGGATCAAAA-CCA-CAGATCTTATCTCTCTGA-AGTTGCAGTAGAGC
* * * *
9638970 GGATTAAAACCACAGATCTTATCTCT
63 AGA-TAGAATC-CAG-TCTTATCTCC
* * ** * *
9638996 CTGAAGTTGCAGTAGAGCAGATC-GCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG-
* * *
9639058 CAGA-AGAAACCAATCCTATCTCC
62 CAGATAGAATCCAGTCTTATCTCC
*
9639081 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* * * *
9639146 TCGTATCTAGTCTTATCTCA
66 TAGAATCCAGTCTTATCTCC
9639166 CTGAAGTTGCAGTG
1 CTGAAGTTGCAGTG
9639180 TAGCAGACTG
Statistics
Matches: 287, Mismatches: 53, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
84 10 0.03
85 201 0.70
86 12 0.04
87 11 0.04
88 50 0.17
89 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (85 bp):
CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
TAGAATCCAGTCTTATCTCC
Found at i:9638871 original size:44 final size:43
Alignment explanation
Indices: 9638738--9639186 Score: 357
Period size: 44 Copynumber: 10.5 Consensus size: 43
9638728 TCCTATCTTT
* * * *
9638738 CTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* **
9638782 CTGAAGTTGCAGTAGAGCAGATC-GCATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
* * *
9638823 CTGAAGTTGCAGTGGAGCGGATCAAAACCGCAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* ***
9638867 CTGAAGTTGCAGTAGAGCAGAT-TGCATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
* ** * *
9638908 CTGAAGTTACAGTGGAATAGA-CAAAAGAAACCA-ATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATC--AA-AATCCAGATCTTATCTCC
** * * *
9638952 CT-AGAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
1 CTGA-AGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* **
9638996 CTGAAGTTGCAGTAGAGCAGATC-GCATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
* *
9639037 CTGAAGTTGCAGTGGAGCAGA-CAGAAGAAACCA-ATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATC--AA-AATCCAGATCTTATCTCC
* * *
9639081 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* * ** * *
9639125 CAGAAGTTGCAGTAGAGCAGATC-GTATCTAG-TCTTATCTCA
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
*
9639166 CTGAAGTTGCAGTGTAGCAGA
1 CTGAAGTTGCAGTGGAGCAGA
9639187 CTGAAGATAG
Statistics
Matches: 320, Mismatches: 64, Indels: 45
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 112 0.35
42 19 0.06
43 21 0.07
44 165 0.52
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
Found at i:9639179 original size:214 final size:212
Alignment explanation
Indices: 9638726--9639141 Score: 536
Period size: 214 Copynumber: 1.9 Consensus size: 212
9638716 AAAGCTAGGA
** * *
9638726 AATCCTATCTTTCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
9638791 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCGCAG
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAACGCAG
* * *** * *
9638856 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTACAGT
131 ATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAACCCAGTCTTATCTCCCAGAAGTTACAGT
*
9638921 GGAATAGACAAAAGAAACC
196 -G-AGAGACAAAAGAAACC
* *
9638940 AATCCTATCTCCCT-AGAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCACTGA-AGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
9639004 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAAC
65 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC--AA-AAAC
* * *
9639068 -CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCAGAAG
127 GCAGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGAT-AAAACC-CAG-TCTTATCTCCCAGAAG
*
9639131 TTGCAGT-AGAG
189 TTACAGTGAGAG
9639142 CAGATCGTAT
Statistics
Matches: 176, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
213 2 0.01
214 142 0.81
215 6 0.03
216 6 0.03
217 20 0.11
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (212 bp):
AATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAACGCAG
ATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAACCCAGTCTTATCTCCCAGAAGTTACAGT
GAGAGACAAAAGAAACC
Found at i:9639185 original size:129 final size:129
Alignment explanation
Indices: 9638816--9639193 Score: 614
Period size: 129 Copynumber: 2.9 Consensus size: 129
9638806 CATCCAGTCT
*
9638816 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
* * ** *
9638881 GAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTACAGTGGAATAGACAAAAGAAACCAATCC
66 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* *
9638945 TATCTCCCT-AGAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
1 TATCTCCCTGA-AGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
9639009 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
65 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
*
9639074 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCAGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
* * * * *
9639139 GAGCAGATCGTATCTAGTCTTATCTCACTGAAGTTGCAGTGTAGCAGACTGAAGA
66 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGA
9639194 TAGCAAGTGT
Statistics
Matches: 231, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
128 1 0.00
129 229 0.99
130 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (129 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:9641221 original size:107 final size:108
Alignment explanation
Indices: 9640873--9641299 Score: 646
Period size: 108 Copynumber: 4.0 Consensus size: 108
9640863 AAGGAAAATT
* *
9640873 TTTCAAAGTAAGGCAATATTTTACGTTTGTAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
9640938 CGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATTAAAA
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * *
9640981 TTTCAAAGTAAGGCAATGTTTTGCGCTTGGAAATTCGAGAAAACGTGCCCTAATGTACTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
9641046 CGATTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAAT
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* *
9641089 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
9641154 CGATTTTTTT-GTTTGACCAAATAGCCAAATAACCTTTTAAAA
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
9641196 TTTCAAAGTAAGACTATATTTTGCGTTTGAAAATTCGAG-AAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
9641260 CG--GTTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
9641300 TCTTAATCCA
Statistics
Matches: 290, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
104 4 0.01
105 28 0.10
106 26 0.09
107 62 0.21
108 170 0.59
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (108 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:9645907 original size:20 final size:20
Alignment explanation
Indices: 9645882--9645919 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9645872 TTTCACCTAA
9645882 AGTATCAAAGAAAGTTGAGG
1 AGTATCAAAGAAAGTTGAGG
9645902 AGTATCAAAGAAAGTTGA
1 AGTATCAAAGAAAGTTGA
9645920 ATTTAGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.21
Consensus pattern (20 bp):
AGTATCAAAGAAAGTTGAGG
Found at i:9647884 original size:29 final size:29
Alignment explanation
Indices: 9647823--9647885 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
9647813 GTGCTCTCTG
* * *
9647823 TTCTAAATACGCACTTCGGTGCTATCCTG
1 TTCTAAATACACACTTCGGTGCTATACTA
*
9647852 TTCTAAATACACACTTCGGTGCTTTACTA
1 TTCTAAATACACACTTCGGTGCTATACTA
9647881 TTCTA
1 TTCTA
9647886 TATTTTCACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
TTCTAAATACACACTTCGGTGCTATACTA
Found at i:9649130 original size:12 final size:12
Alignment explanation
Indices: 9649105--9649143 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9649095 ACTCGCTTCT
* *
9649105 TTACTTACTCAC
1 TTACTTGCTTAC
*
9649117 TTACTTGTTTAC
1 TTACTTGCTTAC
9649129 TTACTTGCTTAC
1 TTACTTGCTTAC
9649141 TTA
1 TTA
9649144 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:9656503 original size:12 final size:12
Alignment explanation
Indices: 9656478--9656516 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9656468 ACTCGCTTCT
* *
9656478 TTACTTACTCAC
1 TTACTTGCTTAC
*
9656490 TTACTTGTTTAC
1 TTACTTGCTTAC
9656502 TTACTTGCTTAC
1 TTACTTGCTTAC
9656514 TTA
1 TTA
9656517 AATAACCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:9656840 original size:50 final size:50
Alignment explanation
Indices: 9656766--9656956 Score: 220
Period size: 50 Copynumber: 3.7 Consensus size: 50
9656756 TTTTGTACTA
* * **
9656766 CCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTG
* * * *
9656816 CCCATGCCATGTCCCAGAGATGGTCTTACAGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
9656866 CCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
*
9656922 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGA
9656957 TCTCATTCCC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.68
53 2 0.02
56 35 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:9663763 original size:27 final size:27
Alignment explanation
Indices: 9663745--9663920 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
9663735 GGTATAATAA
*
9663745 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTTAG
*
9663772 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTTAG
* **
9663799 TCATTTTACCTTATGGGGAAATTTT-G
1 TCATTTTACCCTATGGGGGTATTTTAG
* *
9663825 TTCATTTTACCCTATGGGGTTATTTCAG
1 -TCATTTTACCCTATGGGGGTATTTTAG
* * * *
9663853 TCATTCTACCCTGTGAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTTAG
* **
9663880 TCATTTTACCTTATGATGGTATTTT-G
1 TCATTTTACCCTATGGGGGTATTTTAG
9663906 ATCATTTTACCCTAT
1 -TCATTTTACCCTAT
9663921 TTTGGGGTCT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 123 0.98
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTTAG
Found at i:9663904 original size:81 final size:81
Alignment explanation
Indices: 9663744--9663920 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 81
9663734 GGGTATAATA
** * *
9663744 ATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
9663809 TTATGGGGAAATTTTG
66 TTATGGGGAAATTTTG
* * *
9663825 TTCATTTTACCCTATGGGGTTATTTCAGTCATTCTACCCTGTGAGGGTATTTCAGTCATTTTACC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
* *
9663890 TTATGATGG-TATTTTG
66 TTATG-GGGAAATTTTG
9663906 ATCATTTTACCCTAT
1 ATCATTTTACCCTAT
9663921 TTTGGGGTCT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 83 0.98
82 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.45
Consensus pattern (81 bp):
ATCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
TTATGGGGAAATTTTG
Found at i:9666041 original size:147 final size:148
Alignment explanation
Indices: 9665820--9666155 Score: 335
Period size: 146 Copynumber: 2.3 Consensus size: 148
9665810 AAGGACTTCG
* * * *
9665820 TTTGATCTTATATTTAGTGGCGCTTTACTTAAAATGCCGC--AACATTGTTCTAACATTTATAGA
1 TTTGAT-TTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAAATTGTTCTAACATTTATAGA
** * * ** * *
9665883 AACGCTACCGTTTT-TTAAATGTTATTAGTGGCGATTT-TTTTAAAACGCCACGGGTTTGAGGTA
65 AACGAGACCGTTTTGCT--ATATTATTAGTGGCG-TTTATTAAAAAACGCCACAGGTGTGAGGTA
**
9665946 AGTGTTGATGAAGTGACTGCGT
127 AGTGTTGATGAAACGACTGCGT
* * *
9665968 TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCACAAAAAATT-TT-TAACATTTATCGAT
1 TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAAATTGTTCTAACATTTATAGAA
* * * * * * **
9666031 ACGAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTAAAAAATGCCACATGTGTGCGTTATTTG
66 ACGAGACCGTTTTGCTATATTATTAGTGGCGTTTATTAAAAAACGCCACAGGTGTGAGGTAAGTG
9666096 TTGATGAAACGACTGCGT
131 TTGATGAAACGACTGCGT
* *
9666114 TTTGACTTATAGTTAGTGGCGC-TTATTTATAAACGCCGCAAA
1 TTTGATTTATAGTTAGTGGCGCTTTAATTA-AAACGCCGCAAA
9666156 TGGTTAATTT
Statistics
Matches: 155, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
145 9 0.06
146 81 0.52
147 51 0.33
148 9 0.06
149 5 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (148 bp):
TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAAATTGTTCTAACATTTATAGAA
ACGAGACCGTTTTGCTATATTATTAGTGGCGTTTATTAAAAAACGCCACAGGTGTGAGGTAAGTG
TTGATGAAACGACTGCGT
Found at i:9666882 original size:10 final size:10
Alignment explanation
Indices: 9666856--9666886 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
9666846 TTGCAAAATA
9666856 ATTTTTTAAT
1 ATTTTTTAAT
9666866 ATCTTTTTAAT
1 AT-TTTTTAAT
9666877 ATTTTTTAAT
1 ATTTTTTAAT
9666887 TTAACTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:9668599 original size:13 final size:13
Alignment explanation
Indices: 9668571--9668622 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
9668561 ACTTACTACT
9668571 AATATATATA-TTA
1 AATATAT-TACTTA
*
9668584 AATTTATTACTTA
1 AATATATTACTTA
*
9668597 AATATGTTACTTA
1 AATATATTACTTA
*
9668610 AATACATTACTTA
1 AATATATTACTTA
9668623 CTAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:9668693 original size:36 final size:36
Alignment explanation
Indices: 9668651--9668762 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 36
9668641 TACTTATATG
9668651 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
* *
9668687 TAAAATTTAAGTA----AGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTA-C
9668714 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
9668750 TAAAATTTAAGTA
1 TAAAATTTAAGTA
9668763 AGTTTACATA
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
26 2 0.03
27 13 0.21
28 3 0.05
29 3 0.05
31 3 0.05
32 3 0.05
34 3 0.05
35 3 0.05
36 26 0.43
37 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (36 bp):
TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
Found at i:9668698 original size:63 final size:63
Alignment explanation
Indices: 9668594--9668775 Score: 346
Period size: 63 Copynumber: 2.9 Consensus size: 63
9668584 AATTTATTAC
*
9668594 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
9668657 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
*
9668720 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATAT
9668776 TATATAATAC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 117 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (63 bp):
TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
Found at i:9668818 original size:39 final size:38
Alignment explanation
Indices: 9668767--9668887 Score: 102
Period size: 39 Copynumber: 3.1 Consensus size: 38
9668757 TAAGTAAGTT
*
9668767 TACATATA-TTATATAA-TACATTACTTTTAACTTACATAA
1 TACATA-ACTTATA-AATTACATTA-TATTAACTTACATAA
***
9668806 TACATAACTTATAAATTTTTTTTATATTAACTTACATAA
1 TACATAACTTATAAA-TTACATTATATTAACTTACATAA
* *** **
9668845 TACATAACTTATAATTTTTTTTATACAAACTTACATAA
1 TACATAACTTATAAATTACATTATATTAACTTACATAA
9668883 TACAT
1 TACAT
9668888 TTAACTTACA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
38 29 0.40
39 39 0.54
40 4 0.06
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (38 bp):
TACATAACTTATAAATTACATTATATTAACTTACATAA
Found at i:9668876 original size:38 final size:39
Alignment explanation
Indices: 9668795--9668887 Score: 161
Period size: 38 Copynumber: 2.4 Consensus size: 39
9668785 CATTACTTTT
**
9668795 AACTTACATAATACATAACTTATAAATTTTTTTTATATT
1 AACTTACATAATACATAACTTATAAATTTTTTTTATACA
9668834 AACTTACATAATACATAACTTAT-AATTTTTTTTATACA
1 AACTTACATAATACATAACTTATAAATTTTTTTTATACA
9668872 AACTTACATAATACAT
1 AACTTACATAATACAT
9668888 TTAACTTACA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
38 29 0.56
39 23 0.44
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (39 bp):
AACTTACATAATACATAACTTATAAATTTTTTTTATACA
Found at i:9668903 original size:9 final size:9
Alignment explanation
Indices: 9668868--9669396 Score: 384
Period size: 9 Copynumber: 58.6 Consensus size: 9
9668858 ATTTTTTTTA
9668868 TACA-AACT
1 TACATAACT
9668876 TACATAA--
1 TACATAACT
9668883 TACATTTAACT
1 TACA--TAACT
9668894 TACATAACT
1 TACATAACT
9668903 TACATAACT
1 TACATAACT
*
9668912 TACACAACT
1 TACATAACT
9668921 TACATAACCT
1 TACATAA-CT
9668931 T-CATAA--
1 TACATAACT
9668937 TACATTTAACT
1 TACA--TAACT
9668948 TACATAACT
1 TACATAACT
9668957 TACATAACT
1 TACATAACT
9668966 TACATAA--
1 TACATAACT
* *
9668973 TGCAAAACT
1 TACATAACT
9668982 TACATAACAACT
1 TACAT---AACT
*
9668994 TACATAACA
1 TACATAACT
*
9669003 TACATTACT
1 TACATAACT
**
9669012 TTGATAACT
1 TACATAACT
9669021 TACATAACT
1 TACATAACT
9669030 TACATAA--
1 TACATAACT
* *
9669037 TGCAAAACT
1 TACATAACT
9669046 TACATAACAACT
1 TACAT---AACT
*
9669058 TACATAACA
1 TACATAACT
*
9669067 TACATTACT
1 TACATAACT
**
9669076 TTGATAACT
1 TACATAACT
9669085 TACATAACT
1 TACATAACT
9669094 TACATAA--
1 TACATAACT
* *
9669101 TGCAAAACT
1 TACATAACT
9669110 TACATAAC-
1 TACATAACT
* *
9669118 AAC-TTACT
1 TACATAACT
*
9669126 TACATAACA
1 TACATAACT
*
9669135 TACATTACT
1 TACATAACT
* * *
9669144 TAAATTATT
1 TACATAACT
9669153 TACATAA--
1 TACATAACT
9669160 TACATAACTT
1 TACATAAC-T
*
9669170 AGTACATAATT
1 --TACATAACT
9669181 TACATAA--
1 TACATAACT
9669188 TACATAACTT
1 TACATAAC-T
9669198 AGTACATAACT
1 --TACATAACT
*
9669209 TACATAATTTT
1 TACATAA--CT
*
9669220 TTC-TAAATTGCT
1 TACAT-AA---CT
*
9669232 TACATAAAT
1 TACATAACT
*
9669241 TATATAACT
1 TACATAACT
9669250 TACATAACT
1 TACATAACT
9669259 TACATTAA-T
1 TACA-TAACT
*
9669268 TAAATAACT
1 TACATAACT
9669277 TACATAACT
1 TACATAACT
9669286 TACATAACT
1 TACATAACT
*
9669295 TAAATAACT
1 TACATAACT
9669304 TACATAACT
1 TACATAACT
*
9669313 TACATATCT
1 TACATAACT
9669322 TACATAACT
1 TACATAACT
9669331 TACATAACT
1 TACATAACT
*
9669340 TACATAAAT
1 TACATAACT
9669349 TACATAACT
1 TACATAACT
9669358 TACATAACT
1 TACATAACT
9669367 TACATAA--
1 TACATAACT
9669374 TACATAACCT
1 TACATAA-CT
*
9669384 T-CCTAACT
1 TACATAACT
9669392 TACAT
1 TACAT
9669397 TATTGTTTAA
Statistics
Matches: 414, Mismatches: 61, Indels: 91
0.73 0.11 0.16
Matches are distributed among these distances:
6 1 0.00
7 45 0.11
8 14 0.03
9 291 0.70
10 8 0.02
11 15 0.04
12 39 0.09
13 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:9669023 original size:55 final size:56
Alignment explanation
Indices: 9668960--9669170 Score: 190
Period size: 64 Copynumber: 3.4 Consensus size: 56
9668950 CATAACTTAC
9668960 ATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGATAACTTA
1 ATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTG-------A
9669023 CATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGATAACTTA
1 -ATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTG-------A
*
9669087 CATAACTTACATAATGCAAAACTTACATAACAACTTACTTACATAACATACATTAC-TTAA
1 -ATAACTTACATAATGCAAAACTTACATAAC-A---ACTTACATAACATACATTACTTTGA
* * * *
9669147 ATTATTTACATAATACATAACTTA
1 ATAACTTACATAATGCAAAACTTA
9669171 GTACATAATT
Statistics
Matches: 138, Mismatches: 5, Indels: 13
0.88 0.03 0.08
Matches are distributed among these distances:
59 20 0.14
60 1 0.01
64 94 0.68
65 1 0.01
67 2 0.01
68 20 0.14
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.32
Consensus pattern (56 bp):
ATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
Found at i:9669030 original size:64 final size:64
Alignment explanation
Indices: 9668889--9669144 Score: 369
Period size: 64 Copynumber: 4.0 Consensus size: 64
9668879 ATAATACATT
* *
9668889 TAACTTACATAACTTACATAACTTACACAACTTACATAAC--CTT-CAT-A-ATACATTTAACTT
1 TAACTTACATAACTTACATAA--TGCAAAACTTACATAACAACTTACATAACATACA-TT-ACTT
**
9668949 ACA
62 TGA
9668952 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
9669016 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
9669080 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACTTACATAACATACATTACTT
1 TAACTTACATAACTTACATAATGCAAAACTTACATAAC-A---ACTTACATAACATACATTACTT
9669145 AAATTATTTA
Statistics
Matches: 180, Mismatches: 4, Indels: 13
0.91 0.02 0.07
Matches are distributed among these distances:
61 15 0.08
63 24 0.13
64 110 0.61
65 4 0.02
66 5 0.03
68 22 0.12
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (64 bp):
TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
Found at i:9669188 original size:28 final size:28
Alignment explanation
Indices: 9669150--9669216 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
9669140 TACTTAAATT
9669150 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
9669178 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
*
9669206 ACTTACATAAT
1 ATTTACATAAT
9669217 TTTTTCTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (28 bp):
ATTTACATAATACATAACTTAGTACATA
Found at i:9672574 original size:30 final size:30
Alignment explanation
Indices: 9672538--9672597 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9672528 CAGTTTACTT
*
9672538 TCCATTCAATAGGTTTGGAGTGGGAAGAGC
1 TCCATTCAATAGGTTTGGAGCGGGAAGAGC
9672568 TCCATTCAATAGGTTTGGAGCGGGAAGAGC
1 TCCATTCAATAGGTTTGGAGCGGGAAGAGC
9672598 GTAAACGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (30 bp):
TCCATTCAATAGGTTTGGAGCGGGAAGAGC
Found at i:9675010 original size:12 final size:12
Alignment explanation
Indices: 9674995--9675028 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9674985 GGCCACAGTA
9674995 AGAGAAGCAGCG
1 AGAGAAGCAGCG
9675007 AGAGAAGCAGCG
1 AGAGAAGCAGCG
*
9675019 ATAGAAGCAG
1 AGAGAAGCAG
9675029 AGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.38, T:0.03
Consensus pattern (12 bp):
AGAGAAGCAGCG
Found at i:9675523 original size:42 final size:42
Alignment explanation
Indices: 9675464--9675748 Score: 281
Period size: 42 Copynumber: 6.7 Consensus size: 42
9675454 TTTGTAAAAT
* *
9675464 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCATTTTTGA-A
1 AAGCGCCGCTAAAGAACACGATCT-TTAGCGGCATTTTTTACA
* ** * * *
9675505 CAAGCGCCGCTATAGAACATTA-CTTTTAGCGGTATTTTCCTCCA
1 -AAGCGCCGCTAAAGAACACGATC-TTTAGCGGCATTTT-TTACA
* * *
9675549 AAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
* *
9675591 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCCT
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
* *
9675633 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CA
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
* * * * * *
9675674 TAAGCACCGCTAAAGAACATGATCTTTAGCAGCGTTTATTTCCT
1 -AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTT-TTTACA
* *
9675718 TAGCGCCGCTAAAGAACATGATCTTTAGCGG
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGG
9675749 TGTTTTTTCT
Statistics
Matches: 209, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.00
42 144 0.69
43 61 0.29
44 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
Found at i:9675649 original size:127 final size:126
Alignment explanation
Indices: 9675464--9675757 Score: 344
Period size: 127 Copynumber: 2.3 Consensus size: 126
9675454 TTTGTAAAAT
* ** * *
9675464 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCATTTTTGAACAAGCGCCGCTATAGAACATTA-
1 AAGCGCCGCTAAAGAACACGATCT-TTAGCGGCATTTTT-TCCAAGCGCCGCTAAAGAACATGAT
* * ** *
9675527 CTTTTAGCGGTATTTTCCTCCA-AAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTT-TTTTC
64 C-TTTAGCGGCATTTT--TCCATAAGCACCGCTAAAGAACACGATCTTTAGCAGCGTTTATTTCC
9675590 A
126 A
9675591 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCC-AAGCGCCGCTAAAGAACATGATC
* * * *
9675656 TTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACATGATCTTTAGCAGCGTTTATTTCCT
65 TTTAGCGGCATTTTTCCATAAGCACCGCTAAAGAACACGATCTTTAGCAGCGTTTATTTCCA
* * **
9675718 TAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTC
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTC
9675758 TGTAAGCACC
Statistics
Matches: 144, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
125 3 0.02
126 33 0.23
127 105 0.73
128 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCCAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCATTTTTCCATAAGCACCGCTAAAGAACACGATCTTTAGCAGCGTTTATTTCCA
Found at i:9675756 original size:85 final size:84
Alignment explanation
Indices: 9675463--9675774 Score: 335
Period size: 85 Copynumber: 3.7 Consensus size: 84
9675453 GTTTGTAAAA
* ** * * * **
9675463 TAAGCGCCGCTAAAGAACACT-A-CTATTAGCGGCATTTTTGAACAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACACG
* * *
9675526 A-CTTTTAGCGGTATTTTCCTCC
64 ATC-TTTAGCAGCATTTT-TTCC
* * * *
9675548 AAAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTTTTTTCA-AAGCGCCGCTAAAGAACACGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCATAAGCACCGCTAAAGAACACGA
*
9675612 TCTTTAGCGGCATTTTTTCC
65 TCTTTAGCAGCATTTTTTCC
*
9675632 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACACGAT
*
9675697 CTTTAGCAGCGTTTATTTCC
66 CTTTAGCAGCATTT-TTTCC
* * * *
9675717 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTCTGTAAGCACCGCAAAAG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC-ATAAGCACCGCTAAAG
9675775 TTAGCGACGT
Statistics
Matches: 198, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
83 8 0.04
84 66 0.33
85 101 0.51
86 23 0.12
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACACGAT
CTTTAGCAGCATTTTTTCC
Found at i:9683208 original size:200 final size:200
Alignment explanation
Indices: 9682865--9683264 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
9682855 AAACTAAGAG
9682865 AGAAAATAAGGGTTTAAAGCTTTGGAAAAATTCGGCACTTTCAAGCTTGGATTAAGGTATGAATT
1 AGAAAATAAGGGTTTAAAGCTTTGGAAAAATTCGGCACTTTCAAGCTTGGATTAAGGTATGAATT
9682930 TTGTTCGGTTTTTGATGATTTTTATGTTTTTGAGATCGTTGCTTCGAGTACTATCCGACCCATGC
66 TTGTTCGGTTTTTGATGATTTTTATGTTTTTGAGATCGTTGCTTCGAGTACTATCCGACCCATGC
9682995 TTGAATTTTTGATTTTGATGAATATTTTGAGCTATTCCATTGATGAATAATTGTGTTTTGTGATG
131 TTGAATTTTTGATTTTGATGAATATTTTGAGCTATTCCATTGATGAATAATTGTGTTTTGTGATG
9683060 TTTGA
196 TTTGA
9683065 AGAAAATAAGGGTTTAAAGCTTTGGAAAAATTCGGCACTTTCAAGCTTGGATTAAGGTATGAATT
1 AGAAAATAAGGGTTTAAAGCTTTGGAAAAATTCGGCACTTTCAAGCTTGGATTAAGGTATGAATT
9683130 TTGTTCGGTTTTTGATGATTTTTATGTTTTTGAGATCGTTGCTTCGAGTACTATCCGACCCATGC
66 TTGTTCGGTTTTTGATGATTTTTATGTTTTTGAGATCGTTGCTTCGAGTACTATCCGACCCATGC
*
9683195 TTGAATTTTTGATTTTGATGAATATTTTGAGCTATTCCATTGATTAATAATTGTGTTTTGTGATG
131 TTGAATTTTTGATTTTGATGAATATTTTGAGCTATTCCATTGATGAATAATTGTGTTTTGTGATG
9683260 TTTGA
196 TTTGA
9683265 TAATGAATAA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (200 bp):
AGAAAATAAGGGTTTAAAGCTTTGGAAAAATTCGGCACTTTCAAGCTTGGATTAAGGTATGAATT
TTGTTCGGTTTTTGATGATTTTTATGTTTTTGAGATCGTTGCTTCGAGTACTATCCGACCCATGC
TTGAATTTTTGATTTTGATGAATATTTTGAGCTATTCCATTGATGAATAATTGTGTTTTGTGATG
TTTGA
Found at i:9684833 original size:41 final size:41
Alignment explanation
Indices: 9684703--9684815 Score: 208
Period size: 41 Copynumber: 2.8 Consensus size: 41
9684693 GACTTTAAGT
*
9684703 CTAGCAGGCTACGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
9684744 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
9684785 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
9684816 TGCTATAAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:9692587 original size:41 final size:41
Alignment explanation
Indices: 9692429--9692579 Score: 266
Period size: 41 Copynumber: 3.7 Consensus size: 41
9692419 TTTAAGTCTT
*
9692429 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTAGAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
*
9692470 GCAGGCTACGTGCCGATGATCTGAATCAGGTTATAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
* *
9692511 GCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACTTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
9692552 GCAGGCTACGTGCCGGTGATCTGAATCA
1 GCAGGCTACGTGCCGGTGATCTGAATCA
9692580 TGCTATAAGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (41 bp):
GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
Found at i:9692594 original size:41 final size:41
Alignment explanation
Indices: 9692429--9692616 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
9692419 TTTAAGTCTT
* *
9692429 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTAGAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
* *
9692470 GCAGGCTACGTGCCGATGATCTGAATCAGGTTATAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
*
9692511 GCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACTTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
* * **
9692552 GCAGGCTACGTGCCGGTGATCTGAATCATGCTATAAGTTTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
* * *
9692593 GCAGGTTATGTGCCGTTGAATCTG
1 GCAGGCTACGTGCCGGTG-ATCTG
9692617 TTTAAATTAA
Statistics
Matches: 133, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 128 0.96
42 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
Found at i:9694743 original size:27 final size:27
Alignment explanation
Indices: 9694713--9694773 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
9694703 CCTAAATCTG
9694713 AATGTAAAAACCTTATGGTTTCATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
9694740 AATGTAAAAACCTTATGGTTTCATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
9694767 AATGTAA
1 AATGTAA
9694774 CACCTACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (27 bp):
AATGTAAAAACCTTATGGTTTCATTAA
Found at i:9698285 original size:24 final size:24
Alignment explanation
Indices: 9698250--9698303 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
9698240 TAAAAAATAT
*
9698250 ATTTTTTATTTTT-TAAAATCTAAA
1 ATTTTTTATTTTTAAAAAATC-AAA
9698274 ATTTCTTT-TTTTTAAAAAATCAAA
1 ATTT-TTTATTTTTAAAAAATCAAA
9698298 ATTTTT
1 ATTTTT
9698304 CCAAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 16 0.59
25 9 0.33
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTTATTTTTAAAAAATCAAA
Found at i:9698321 original size:147 final size:147
Alignment explanation
Indices: 9698044--9698321 Score: 337
Period size: 147 Copynumber: 1.9 Consensus size: 147
9698034 GTTTTGTTAA
* *
9698044 AAAAAATCAAAACTTTGTTTTAGAAATTTAAACATTCCTTTAAAATGACTAAAAAAAAGATTATT
1 AAAAAATCAAAACTTTGTTTTAAAAATTTAAACATTCCCTTAAAATGACTAAAAAAAAGATTATT
* ** * *
9698109 ATTTTTCAAAATCTAAACTTTCTCCATTTAAAAAAAATACTATTTTTCTTAAAGATTAAAGCTTT
66 ATTTTTCAAAATCTAAAATTTCTCCATTTAAAAAAAATAAAATTTTTCTCAAAGAATAAAGCTTT
9698174 TACTTTGAAATAGTTGG
131 TACTTTGAAATAGTTGG
* * * * * *
9698191 AAAAAATTAAAACTTTGTTTTAAAAATTTAAACTTTCCCTTAAAATTACTAAAAAATATATTTTT
1 AAAAAATCAAAACTTTGTTTTAAAAATTTAAACATTCCCTTAAAATGACTAAAAAAAAGA-TTAT
* ** ** *
9698256 TATTTTTTAAAATCTAAAATTTCT-TTTTTTTAAAAAATCAAAATTTTTC-CAAA-AATCAAGCC
65 TATTTTTCAAAATCTAAAATTTCTCCATTTAAAAAAAAT-AAAATTTTTCTCAAAGAATAAAG-C
9698318 TTTT
128 TTTT
9698322 TTTAAAAAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
146 5 0.05
147 71 0.65
148 33 0.30
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (147 bp):
AAAAAATCAAAACTTTGTTTTAAAAATTTAAACATTCCCTTAAAATGACTAAAAAAAAGATTATT
ATTTTTCAAAATCTAAAATTTCTCCATTTAAAAAAAATAAAATTTTTCTCAAAGAATAAAGCTTT
TACTTTGAAATAGTTGG
Found at i:9698714 original size:15 final size:14
Alignment explanation
Indices: 9698694--9698726 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
9698684 TGACAGGCTC
9698694 AAAAAAGAAAGAAGA
1 AAAAAAGAAA-AAGA
9698709 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
9698723 AAAA
1 AAAA
9698727 TAAAGGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:9703124 original size:51 final size:52
Alignment explanation
Indices: 9702925--9703149 Score: 214
Period size: 51 Copynumber: 4.4 Consensus size: 52
9702915 TTCGGTGGTT
*
9702925 TGCACATAGTACCT-CCCATGTGACCATT-GTCATCCGATACATGTAGTAGCC
1 TGCACATAGTA-CTACACATGTGACCATTAGTCATCCGATACATGTAGTAGCC
* * * * * * * *
9702976 TACACATAGTACTACACACGTGATCA--AG-CTTTCTGGTTCATGTAGTAGCT
1 TGCACATAGTACTACACATGTGACCATTAGTC-ATCCGATACATGTAGTAGCC
* * * **
9703026 TGCACATAGTACTACACACGTGACCA--AGGCCATCCGGTACACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTA-GTCATCCGATACATGTAGTAGCC
* *
9703077 TGCACATAGTACTACACATGTGACCATTATTTAT-CGATACATGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTAGTCATCCGATACATGTAGTAGCC
*
9703128 TGCACTTAGTACTACACATGTG
1 TGCACATAGTACTACACATGTG
9703150 TTCATAGGTA
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 43 0.30
51 94 0.66
52 3 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (52 bp):
TGCACATAGTACTACACATGTGACCATTAGTCATCCGATACATGTAGTAGCC
Found at i:9710481 original size:4 final size:4
Alignment explanation
Indices: 9710472--9710502 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
9710462 TTTTAATATT
*
9710472 ATTA ATTA ATTA ATTA ACTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
9710503 CACTGAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:9716955 original size:27 final size:27
Alignment explanation
Indices: 9716922--9717121 Score: 210
Period size: 27 Copynumber: 7.4 Consensus size: 27
9716912 CCCTAAAATA
* *
9716922 GGTAAAATGACAGAAATACCCTCACAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
9716949 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * *
9716976 GGTAGAATGACCAAAATA-GCTCCATAG
1 GGTAAAATGACCGAAATACCCT-CATAG
* *
9717003 AGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
9717030 GGTAAAATGATCGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
* ** *
9717057 GGTAGAATGATTGAAATACCC-CTATAA
1 GGTAAAATGACCGAAATACCCTC-ATAG
*
9717084 GGTAAAATGACCGAAATA-ACTCCATAG
1 GGTAAAATGACCGAAATACCCT-CATAG
9717111 GGTAAAATGAC
1 GGTAAAATGAC
9717122 TATTATACCC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 141 0.97
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:9717058 original size:81 final size:81
Alignment explanation
Indices: 9716919--9717121 Score: 268
Period size: 81 Copynumber: 2.5 Consensus size: 81
9716909 ATACCCTAAA
* * *
9716919 ATAG-GTAAAATGACAGAAATACCCTCACAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
1 ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
*
9716983 TGACCAAAATAGCTCC-
66 TGACCAAAATA-CCCCT
* *
9716999 ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAGAA
1 ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
***
9717064 TGATTGAAATACCCCT
66 TGACCAAAATACCCCT
* *
9717080 ATA-AGGTAAAATGACCGAAATAACTCCATAGGGTAAAATGAC
1 ATAGA-GTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
9717122 TATTATACCC
Statistics
Matches: 108, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 8 0.07
81 100 0.93
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (81 bp):
ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
TGACCAAAATACCCCT
Found at i:9717134 original size:54 final size:53
Alignment explanation
Indices: 9716921--9717121 Score: 240
Period size: 54 Copynumber: 3.7 Consensus size: 53
9716911 ACCCTAAAAT
* *
9716921 AGGTAAAATGACAGAAATACCCTCACAGGGTAAAATGACCGAAATACCCCCATA
1 AGGTAAAATGACCGAAATACCC-CATAGGGTAAAATGACCGAAATACCCCCATA
* * * * *
9716975 GGGTAGAATGACCAAAATAGCTCCATAGAGTAAAATGACCGAAATACCCCCATA
1 AGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCCATA
* * * ** *
9717029 GGGTAAAATGATCGAAATACCCCTATAGGGTAGAATGATTGAAATACCCCTATA
1 AGGTAAAATGACCGAAATACCCC-ATAGGGTAAAATGACCGAAATACCCCCATA
*
9717083 AGGTAAAATGACCGAAATAACTCCATAGGGTAAAATGAC
1 AGGTAAAATGACCGAAAT-ACCCCATAGGGTAAAATGAC
9717122 TATTATACCC
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.02
54 114 0.93
55 6 0.05
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (53 bp):
AGGTAAAATGACCGAAATACCCCATAGGGTAAAATGACCGAAATACCCCCATA
Found at i:9719540 original size:16 final size:16
Alignment explanation
Indices: 9719521--9719566 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9719511 CGTCAGTCTA
9719521 CAAGCTCATTAGTTTG
1 CAAGCTCATTAGTTTG
**
9719537 CAAGCTTGTTAGTTGTG
1 CAAGCTCATTAGTT-TG
9719554 --AGCTCATTAGTTT
1 CAAGCTCATTAGTTT
9719567 ACCTTAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 10 0.40
16 12 0.48
17 2 0.08
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (16 bp):
CAAGCTCATTAGTTTG
Found at i:9724123 original size:20 final size:18
Alignment explanation
Indices: 9724098--9724134 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
9724088 ACCTAACACA
9724098 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAA-CATATT
9724118 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
9724135 CAACATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:9724986 original size:10 final size:10
Alignment explanation
Indices: 9724973--9724997 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9724963 GAAATTGTCA
9724973 AAAATAAATC
1 AAAATAAATC
9724983 AAAATAAATC
1 AAAATAAATC
9724993 AAAAT
1 AAAAT
9724998 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:9725039 original size:27 final size:27
Alignment explanation
Indices: 9725009--9725063 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9724999 TATTATAAAA
*
9725009 TTAATTAAAATTCAA-TATTTTAATAAT
1 TTAAGTAAAATTCAATTATTTT-ATAAT
* *
9725036 TTAAGTACAATTTAATTATTTTATAAT
1 TTAAGTAAAATTCAATTATTTTATAAT
9725063 T
1 T
9725064 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAAGTAAAATTCAATTATTTTATAAT
Found at i:9737788 original size:124 final size:122
Alignment explanation
Indices: 9737539--9737788 Score: 351
Period size: 124 Copynumber: 2.0 Consensus size: 122
9737529 TCCTAATTAT
*
9737539 ATATGTTCAATCGATCCTTCTGCTAACTTGAGATAACCAAAATTGCATGTAGAACAAATAGAAAG
1 ATATGTCCAATCGATCCTTCTGCTAACTTGAGATAACCAAAATTGCATGTAGAACAAATAGAAAG
*
9737604 AATTGAATAAAAATGAAGTAAGAGAAATAGATCACACGTATCATTATTCATAGTATTAA
66 AAATGAATAAAAATGAAGTAAGAGAAATAGATCACACGTATCATTATTCATAG--TTAA
* * * * *
9737663 ATATGTCCAATCGGTTCC-TCTGCTAGCTTGAGATAACTAGAATTGCATGTAGAACAAATAGATA
1 ATATGTCCAATC-GATCCTTCTGCTAACTTGAGATAACCAAAATTGCATGTAGAACAAATAGAAA
* *
9737727 GAAATGAATGAAAACAATGAAGTAAGATAAATAGATCACATGTATCATTATTCATAG-TAA
65 GAAATGAAT--AAA-AATGAAGTAAGAGAAATAGATCACACGTATCATTATTCATAGTTAA
9737787 AT
1 AT
9737789 GCATTTTCTT
Statistics
Matches: 113, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
124 66 0.58
125 4 0.04
126 3 0.03
127 40 0.35
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (122 bp):
ATATGTCCAATCGATCCTTCTGCTAACTTGAGATAACCAAAATTGCATGTAGAACAAATAGAAAG
AAATGAATAAAAATGAAGTAAGAGAAATAGATCACACGTATCATTATTCATAGTTAA
Found at i:9744635 original size:17 final size:17
Alignment explanation
Indices: 9744615--9744651 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9744605 TATCTAGTCA
* *
9744615 ATATTGTCCACTAGGGG
1 ATATTATCCACTAGGCG
9744632 ATATTATCCACTAGGCG
1 ATATTATCCACTAGGCG
9744649 ATA
1 ATA
9744652 CTGTTTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (17 bp):
ATATTATCCACTAGGCG
Found at i:9744927 original size:78 final size:78
Alignment explanation
Indices: 9744798--9744951 Score: 238
Period size: 78 Copynumber: 2.0 Consensus size: 78
9744788 TCATAAGGTG
*
9744798 TGACCCTGTAGATTCTTGTAACGTTGTTAGTAATACTAGAACATTTTTAATGTTACAAGCAATAA
1 TGACCCTGTAGATTCTTGTAACGTTGTTAGTAATACTAGAACATTTTTAATGTTACAAGAAATAA
*
9744863 GTGGCGTCTAGTA
66 GTGGCATCTAGTA
* * * *
9744876 TGACCCTGTAGGTTCTTGTAATGTT-TGTAGTAATACTAGAACATTTTTAATGTTATAAGAAATG
1 TGACCCTGTAGATTCTTGTAACGTTGT-TAGTAATACTAGAACATTTTTAATGTTACAAGAAATA
9744940 AGTGGCATCTAG
65 AGTGGCATCTAG
9744952 CAACGCATCA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 1 0.01
78 68 0.99
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (78 bp):
TGACCCTGTAGATTCTTGTAACGTTGTTAGTAATACTAGAACATTTTTAATGTTACAAGAAATAA
GTGGCATCTAGTA
Found at i:9747536 original size:75 final size:75
Alignment explanation
Indices: 9747413--9747561 Score: 217
Period size: 75 Copynumber: 2.0 Consensus size: 75
9747403 TTTGGGTAAA
*
9747413 TCAAGAATAAGGCATGCCCACACCTTATTATTGCAGAACATCAGGAAGTACAAAATTTTTGTTCA
1 TCAAGAATAAGGCATGCCCACACCTTATTATTGCAGAACATCAAGAAGTACAAAATTTTTGTTCA
9747478 CAAAAGAAAT
66 CAAAAGAAAT
** * * * *
9747488 TCAAGAATAAGGCATGCCCATGCCTTATTATTGTAGAACATTAAGAAGTACAACATTTTTTTTCA
1 TCAAGAATAAGGCATGCCCACACCTTATTATTGCAGAACATCAAGAAGTACAAAATTTTTGTTCA
* *
9747553 TAGAAGAAA
66 CAAAAGAAA
9747562 CTCTAAAACA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (75 bp):
TCAAGAATAAGGCATGCCCACACCTTATTATTGCAGAACATCAAGAAGTACAAAATTTTTGTTCA
CAAAAGAAAT
Found at i:9747590 original size:75 final size:75
Alignment explanation
Indices: 9747413--9747591 Score: 189
Period size: 75 Copynumber: 2.4 Consensus size: 75
9747403 TTTGGGTAAA
* * * *
9747413 TCAAGAATAAGGCATGCCCACACCTTATTATTGCAGAACATCAGGAAGTACAAAATTTTTGTTCA
1 TCAAGAACAAGACATGCCCATACCTTATTATTGCAGAACATCAAGAAGTACAAAATTTTTGTTCA
*
9747478 CAAAAGAAAT
66 CAAAAGAAAC
* * * * * * *
9747488 TCAAGAATAAGGCATGCCCATGCCTTATTATTGTAGAACATTAAGAAGTACAACATTTTTTTTCA
1 TCAAGAACAAGACATGCCCATACCTTATTATTGCAGAACATCAAGAAGTACAAAATTTTTGTTCA
* *
9747553 TAGAAGAAAC
66 CAAAAGAAAC
* * *
9747563 TCTAA-AACAATACGTGCCCATAACTTATT
1 TC-AAGAACAAGACATGCCCATACCTTATT
9747592 CTTAAACTCC
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 85 0.98
76 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (75 bp):
TCAAGAACAAGACATGCCCATACCTTATTATTGCAGAACATCAAGAAGTACAAAATTTTTGTTCA
CAAAAGAAAC
Found at i:9753326 original size:3 final size:3
Alignment explanation
Indices: 9753318--9753342 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9753308 TGGTGACTCT
9753318 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
9753343 CAATTTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9758851 original size:18 final size:17
Alignment explanation
Indices: 9758823--9758856 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9758813 CATTTTTCTT
9758823 ATAATTAATTAATTTTA
1 ATAATTAATTAATTTTA
9758840 ATAATGTAATTAATTTT
1 ATAAT-TAATTAATTTT
9758857 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATAATTAATTAATTTTA
Found at i:9771292 original size:44 final size:43
Alignment explanation
Indices: 9771240--9771944 Score: 284
Period size: 44 Copynumber: 16.2 Consensus size: 43
9771230 GATCGCATCT
9771240 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* **
9771284 AGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * * * * **
9771329 AATCTTATCTCCTTGAGGTTGCAATGGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
9771372 TAATCCTATTTCCCTGAAGTTACAGTGGAGCAGATTAA-AATCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
9771416 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
*
9771457 CGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* * * **
9771501 AGTCTTATC-CTCCTAAAGTTGCAGT-AAGGCAGACTGAATATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * **
9771546 AATCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
9771589 TAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
9771633 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
* *
9771674 AGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* **
9771718 AGTCTTATC-CTTCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * * * **
9771763 AATCTTATCTCCCTGAGGTTGCAATGGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
9771806 TAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAA-AATCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * * * *
9771850 GGATCTTATCTCTCTGAAGTTGTAG-AGAGTAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
* * * *
9771891 AGTCTTATCTCCCTGAAGCTGCATTTGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
9771935 AGTCTTATCT
1 AGTCTTATCT
9771945 TTCTGAAATC
Statistics
Matches: 507, Mismatches: 110, Indels: 88
0.72 0.16 0.12
Matches are distributed among these distances:
40 59 0.12
41 27 0.05
42 20 0.04
43 34 0.07
44 269 0.53
45 90 0.18
46 8 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
Found at i:9771533 original size:217 final size:217
Alignment explanation
Indices: 9771141--9771943 Score: 1363
Period size: 217 Copynumber: 3.7 Consensus size: 217
9771131 CCCTAAAGAA
* *
9771141 CAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAACCTTGGATCTT
1 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTT
*
9771206 ATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
*
9771271 GACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTA
131 GACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTA
*
9771336 TCTCCTTGAGGTTGCAATGGAG
196 TCTCCCTGAGGTTGCAATGGAG
* * * *
9771358 CAGATTAAAGCCGATAATCCTATTTCCCTGAAGTTACAGTGGAGCAGATTAAAATCTTGGATCTT
1 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTT
*
9771423 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTCGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * *
9771488 GACTAAGTAAACAAGTCTTATCCTCCTAAAGTTGCAGTAAGGCAGACTGAATATGGCAAATCTTA
131 GACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTA
* *
9771553 TCTCCCTAAGGTTGCAGTGGAG
196 TCTCCCTGAGGTTGCAATGGAG
*
9771575 CAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTT
1 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTT
* *
9771640 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTAGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
*
9771705 GACTAAGTAAACAAGTCTTATCCTTCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTA
131 GACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTA
9771770 TCTCCCTGAGGTTGCAATGGAG
196 TCTCCCTGAGGTTGCAATGGAG
* *
9771792 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCTTGGATCTT
1 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTT
* * * * *
9771857 ATCTCTCTGAAGTTGTAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGCTGCATTTGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
*
9771922 GACTAAGTAAGCAAGTCTTATC
131 GACTAAGTAAACAAGTCTTATC
9771944 TTTCTGAAAT
Statistics
Matches: 547, Mismatches: 39, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 547 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (217 bp):
CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTT
ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
GACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTA
TCTCCCTGAGGTTGCAATGGAG
Found at i:9771724 original size:84 final size:85
Alignment explanation
Indices: 9771202--9771750 Score: 248
Period size: 84 Copynumber: 6.4 Consensus size: 85
9771192 AAACCTTGGA
* * * *
9771202 TCTTATCTCTCTGAAGTTGTAGAGAGCAGA-TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGGGAGCAGATTAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTA
9771266 GAGCAGACTAAGTAAACAAG
66 GAGCAGACTAAGTAAACAAG
* * * * * * *
9771286 TCTTATC-CTCCTGAAGTTGTAGTGAGGCAGACTGAAG-ATGGCAAATCTTATCTCCTTGAGGTT
1 TCTTATCTCT-CTGAAGTTGCAGGGA-GCAGA-T-TAGCAT--CTAGTCTTATCTCCCTGAAGTT
* * * *** *
9771349 GCAATGGAGCAGATTAAAGCCGATAA-
60 GCAGTAGAGCAGACT-AAGTAAACAAG
* * * * ** * *
9771375 TCCTATTTCCCTGAAGTTACAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAG-GGAGCAGATTAGCATC-TAG-TCTTATCTCCCTGAAGTTGCA
* * * **
9771440 G-AGAGCAGA-T-CG-CATCTCG
63 GTAGAGCAGACTAAGTAAACAAG
* * * * * *
9771459 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATC-CTCCTAAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAG-GGAGCAGA-TTAG-CATCTAGTCTTATCTC-CCTGAAGTTGC
** *
9771523 AGTA-AGGCAGACTGAA-TATGGCAAA
62 AGTAGA-GCAGACT-AAGTA-AACAAG
* *** * * *
9771548 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGC
1 TCTTATCTCTCTGAA-GTTGCAG-GGAGCAGATT--AGCATCTAGTCTTATCTCCCTGAAGTTGC
* * * * **
9771612 AGTGGAGCGGATTAA--AACCTTGG
62 AGTAGAGCAGACTAAGTAAAC-AAG
* * *
9771635 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGA-TCGCATCTAGTCTTATCTCCCTAAAGTTGCAGT
1 -TCTTATCTCTCTGAAGTTGCAGGGAGCAGATTAGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
9771699 AGAGCAGACTAAGTAAACAAG
65 AGAGCAGACTAAGTAAACAAG
*
9771720 TCTTATC-CTTCTGAAGTTGCAGTGAGGCAGA
1 TCTTATCTC-TCTGAAGTTGCAGGGA-GCAGA
9771751 CTGAAGATGG
Statistics
Matches: 342, Mismatches: 87, Indels: 71
0.68 0.17 0.14
Matches are distributed among these distances:
83 5 0.01
84 124 0.36
85 20 0.06
86 11 0.03
87 18 0.05
88 45 0.13
89 107 0.31
90 12 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (85 bp):
TCTTATCTCTCTGAAGTTGCAGGGAGCAGATTAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTA
GAGCAGACTAAGTAAACAAG
Found at i:9772322 original size:32 final size:33
Alignment explanation
Indices: 9772262--9772324 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
9772252 AACAGTCCTT
*
9772262 TTACAATAAAATGGGCCCAAAACCCAAACCCAA
1 TTACAATAAAATAGGCCCAAAACCCAAACCCAA
*
9772295 TTACAATAAAATAGGTCC-AAACCCAAACCC
1 TTACAATAAAATAGGCCCAAAACCCAAACCC
9772325 GATTTTGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.48, C:0.30, G:0.08, T:0.14
Consensus pattern (33 bp):
TTACAATAAAATAGGCCCAAAACCCAAACCCAA
Found at i:9773327 original size:56 final size:56
Alignment explanation
Indices: 9773260--9773370 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
9773250 TCCCTTCAAT
*
9773260 TTTTCTTTGATTTCAATTTAACCCTATTTGAAACGACTCTGTTTTGGAGGAGAAGC
1 TTTTCTTTGATTTCAATTTAACCCTATTTGAAACGACTCCGTTTTGGAGGAGAAGC
*
9773316 TTTTCTTTGATTTCAATTTAACCCTATTTGAAATGACTCCGTTTTGGAGGAGAAG
1 TTTTCTTTGATTTCAATTTAACCCTATTTGAAACGACTCCGTTTTGGAGGAGAAG
9773371 GGATAATTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (56 bp):
TTTTCTTTGATTTCAATTTAACCCTATTTGAAACGACTCCGTTTTGGAGGAGAAGC
Found at i:9775317 original size:29 final size:30
Alignment explanation
Indices: 9775268--9775327 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
9775258 TGTTTAATCA
9775268 TATACATAAACTTTGATTTTG-TGTAATTT
1 TATACATAAACTTTGATTTTGATGTAATTT
* *
9775297 TATACATAAAATTTTGA-TTTGATTTAATTT
1 TATACAT-AAACTTTGATTTTGATGTAATTT
9775327 T
1 T
9775328 TGTAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.53
Consensus pattern (30 bp):
TATACATAAACTTTGATTTTGATGTAATTT
Found at i:9776567 original size:14 final size:14
Alignment explanation
Indices: 9776548--9776595 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
9776538 TTTGCCCGTT
9776548 TTTAGGTTTTAGGG
1 TTTAGGTTTTAGGG
9776562 TTTAGGGTTTTAGGG
1 TTTA-GGTTTTAGGG
* *
9776577 TTT-GGGTTTGGGG
1 TTTAGGTTTTAGGG
9776590 TTTAGG
1 TTTAGG
9776596 GTTAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 11 0.37
14 6 0.20
15 13 0.43
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (14 bp):
TTTAGGTTTTAGGG
Found at i:9776590 original size:7 final size:7
Alignment explanation
Indices: 9776548--9776598 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
9776538 TTTGCCCGTT
*
9776548 TTTAGGT
1 TTTAGGG
9776555 TTTAGGG
1 TTTAGGG
9776562 TTTAGGG
1 TTTAGGG
9776569 TTTTAGGG
1 -TTTAGGG
9776577 TTT-GGG
1 TTTAGGG
*
9776583 TTTGGGG
1 TTTAGGG
9776590 TTTAGGG
1 TTTAGGG
9776597 TT
1 TT
9776599 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 6 0.15
7 27 0.68
8 7 0.17
ACGTcount: A:0.10, C:0.00, G:0.41, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:9776866 original size:37 final size:39
Alignment explanation
Indices: 9776800--9776874 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 39
9776790 AATAAATACC
9776800 AAAAATTATTTTAAAAATAAAAAGAATAAAAAAGTATTTT
1 AAAAATTATTTTAAAAATAAAAAGAATAAAAAA-TATTTT
*
9776840 AAAAA-TATTTT-AAAAT-TAAAGAATAAAAAATATTT
1 AAAAATTATTTTAAAAATAAAAAGAATAAAAAATATTT
9776875 ATTGATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 5 0.15
37 13 0.38
38 5 0.15
39 6 0.18
40 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (39 bp):
AAAAATTATTTTAAAAATAAAAAGAATAAAAAATATTTT
Found at i:9777218 original size:18 final size:19
Alignment explanation
Indices: 9777195--9777231 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9777185 TTAGATTAGG
9777195 GTTAGGGTT-AGGGTTTTT
1 GTTAGGGTTAAGGGTTTTT
9777213 GTTAGGGTTAAGGGTTTTT
1 GTTAGGGTTAAGGGTTTTT
9777232 AAGGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.49
Consensus pattern (19 bp):
GTTAGGGTTAAGGGTTTTT
Found at i:9777526 original size:225 final size:223
Alignment explanation
Indices: 9777056--9777720 Score: 1010
Period size: 225 Copynumber: 3.0 Consensus size: 223
9777046 TACTTTAAGG
*
9777056 TTTGTCAATTAAATTATTTAAAAAAATTTCAAAATTGGATTAGTTTTCGTGTTTATTATTTTTTA
1 TTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTATTATTTTTTA
*
9777121 AG-AAAAATCAATTAAATTAGGGTTTAGAGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAA
66 AGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAA
*
9777185 TTAGATTAGGGTTA-GG-----GTTAGGGTTTTTG---TTAGGGTTAAGGGTTTTTAAGGAAAAA
131 TTAGATTAGGGTTAGGGTTTTTGTTAGGGTTTTTGTTTTTA-AGTTAAGGGTTTTTAAGGAAAAA
* *
9777241 TTACATAAGTTAGGGTTTAGAGTTTAGGG
195 TTAAATAAGTTAGGGTTTAGAGTTTAGGA
*
9777270 TTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTCGTTTTCGTGTTTATTATTTTTTA
1 TTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTATTATTTTTTA
*
9777335 AGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGTGTAATTTAATTTAAAAAAA-TTTAAAA
66 AGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAA-TTAAAAAAATTTTAAAA
9777399 ATTAGATTAGGGTTAGGGTTTTTGTTAGGGTTTTAATGTTTTTAAGTTAAGGGTTTTTAAGGAAA
130 ATTAGATTAGGGTTAGGGTTTTTGTTAGGGTTTT--TGTTTTTAAGTTAAGGGTTTTTAAGGAAA
* *
9777464 AATCAAATAAGTTAGGGTTTAAAGTTTAGGA
193 AATTAAATAAGTTAGGGTTTAGAGTTTAGGA
* * *
9777495 TTTGTCAATTAAATTATTTATAAATTTTTCAAAATTGGATTAGTTTTCGTGCTTATTATTTTTTA
1 TTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTATTATTTTTTA
*
9777560 AGAAAAAATCAATTATATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAA
66 AGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTT--AAA
* *
9777625 TCAGATTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTAAGGATTTTTAA
129 --A-ATTA-GATTAGGGTTAGGGTTTTTGTTAGGGTTTT--TGTTTTTAAGTTAAGGGTTTTTAA
9777690 GGAAAAATTAAATAAGTTAGGGTTTAGAGTT
188 GGAAAAATTAAATAAGTTAGGGTTTAGAGTT
9777721 ATTTCCAAAT
Statistics
Matches: 410, Mismatches: 21, Indels: 23
0.90 0.05 0.05
Matches are distributed among these distances:
214 65 0.16
215 64 0.16
216 11 0.03
221 11 0.03
223 2 0.00
224 9 0.02
225 156 0.38
226 3 0.01
227 3 0.01
229 1 0.00
230 4 0.01
231 81 0.20
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (223 bp):
TTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTATTATTTTTTA
AGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAA
TTAGATTAGGGTTAGGGTTTTTGTTAGGGTTTTTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAAT
TAAATAAGTTAGGGTTTAGAGTTTAGGA
Found at i:9779097 original size:18 final size:18
Alignment explanation
Indices: 9779076--9779112 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9779066 GAAAAGGAAC
* *
9779076 CATATAAGGGTTAGGATA
1 CATAAAAGGGCTAGGATA
9779094 CATAAAAGGGCTAGGATA
1 CATAAAAGGGCTAGGATA
9779112 C
1 C
9779113 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
CATAAAAGGGCTAGGATA
Found at i:9780970 original size:11 final size:11
Alignment explanation
Indices: 9780951--9781046 Score: 76
Period size: 11 Copynumber: 9.0 Consensus size: 11
9780941 GGATTTAAGA
9780951 GAAATTTGAGAG
1 GAAA-TTGAGAG
9780963 GAAATTGAGAG
1 GAAATTGAGAG
* *
9780974 TAAATTGAGAT
1 GAAATTGAGAG
*
9780985 TAAA-T-AG-G
1 GAAATTGAGAG
*
9780993 G-ATTTGAGA-
1 GAAATTGAGAG
*
9781002 GAAATTTAGAAG
1 GAAATTGAG-AG
9781014 GAAATTGAGAG
1 GAAATTGAGAG
*
9781025 CAAATTGAGAG
1 GAAATTGAGAG
*
9781036 GACATTGAGAG
1 GAAATTGAGAG
9781047 AATAATAGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 5 0.07
10 6 0.09
11 42 0.63
12 12 0.18
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:9780991 original size:51 final size:51
Alignment explanation
Indices: 9780935--9781034 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
9780925 AATAATTAAA
*
9780935 AAATAGGGATTTAAGAGAAATTT-GAGAGGAAATTGAGAGTAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
*
9780986 AAATAGGGATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
9781035 GGACATTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 44 0.96
52 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.28, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:9781896 original size:30 final size:33
Alignment explanation
Indices: 9781841--9781901 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
9781831 TCTAAAACAT
9781841 TTTATTATTAAATATTTATAAATTATAATATATA
1 TTTATTATTAAATA-TTATAAATTATAATATATA
9781875 TTTATTATTAAA-A-TA-AAATTATAATAT
1 TTTATTATTAAATATTATAAATTATAATAT
9781902 TAAATAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.44
31 2 0.07
33 1 0.04
34 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TTTATTATTAAATATTATAAATTATAATATATA
Found at i:9781934 original size:30 final size:29
Alignment explanation
Indices: 9781858--9781934 Score: 73
Period size: 34 Copynumber: 2.5 Consensus size: 29
9781848 TTAAATATTT
* * **
9781858 ATAAATTATAATATATATTTATTATTAAA
1 ATAAATTATATTAAATATTTATTAAAAAA
9781887 ATAAAATTATAATATTAAATAGTTTATTAAAAAA
1 AT-AAA-T-T-ATATTAAATA-TTTATTAAAAAA
9781921 ATAAATTATATTAA
1 ATAAATTATATTAA
9781935 TTATGTCACA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
29 2 0.05
30 10 0.26
31 2 0.05
32 2 0.05
33 11 0.28
34 12 0.31
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
ATAAATTATATTAAATATTTATTAAAAAA
Found at i:9783822 original size:9 final size:9
Alignment explanation
Indices: 9783808--9783853 Score: 56
Period size: 9 Copynumber: 4.7 Consensus size: 9
9783798 GAAGATGGAT
9783808 AAATAAATA
1 AAATAAATA
9783817 AAATAAATA
1 AAATAAATA
9783826 AAATAGAATA
1 AAATA-AATA
9783836 TAAATAAGATA
1 -AAATAA-ATA
9783847 AAGATAA
1 AA-ATAA
9783854 GGCAGGAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.42
10 7 0.21
11 12 0.36
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:9797218 original size:70 final size:70
Alignment explanation
Indices: 9797091--9797359 Score: 376
Period size: 70 Copynumber: 3.8 Consensus size: 70
9797081 GTATCACTTA
* ** * * *
9797091 CACTAGTTGAATAAATCGACAAATAATTGTGCCTAGCGCTATTCGAATAACCAACAATAGTTGTG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAGCGCTAGTCGAATAACCGACAATAGTTGTG
*
9797156 CCCTG
66 ACCTG
** * * *
9797161 CACTAGTCGAATAAATCGACAAATAATTGTGCCCAGTGCTAGTCGGATAATCGACAATAGTTGTG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAGCGCTAGTCGAATAACCGACAATAGTTGTG
9797226 ACCTG
66 ACCTG
* * *
9797231 CACTAGTCGAGTAAATCGACAAATAATTGCACCCAGCACTAGACGAATAACCGACAATAGTTGTG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAGCGCTAGTCGAATAACCGACAATAGTTGTG
9797296 ACCTG
66 ACCTG
* * *
9797301 CACTAGTCGAATAAATCGACAAATAATCGCACCCAGCTCTAGTCGGATAACCGACAATA
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAGCGCTAGTCGAATAACCGACAATA
9797360 TCAATTACAC
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 178 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (70 bp):
CACTAGTCGAATAAATCGACAAATAATTGCACCCAGCGCTAGTCGAATAACCGACAATAGTTGTG
ACCTG
Found at i:9797344 original size:36 final size:36
Alignment explanation
Indices: 9797091--9797387 Score: 198
Period size: 36 Copynumber: 8.4 Consensus size: 36
9797081 GTATCACTTA
* ** *
9797091 CACTAGTTGAATAAATCGACAAATAATTGTGCCTAG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAG
* * * * * ** *
9797127 CGCTATTCGAAT-AACCAAC-AATAGTTGTGCCCTG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAG
**
9797161 CACTAGTCGAATAAATCGACAAATAATTGTGCCCAG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAG
** * * * *
9797197 TGCTAGTCGGAT-AATCGAC-AATAGTTGTGA-CCTG
1 CACTAGTCGAATAAATCGACAAATAATTG-CACCCAG
*
9797231 CACTAGTCGAGTAAATCGACAAATAATTGCACCCAG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAG
* * * * *
9797267 CACTAGACGAAT-AACCGAC-AATAGTTGTGA-CCTG
1 CACTAGTCGAATAAATCGACAAATAATTG-CACCCAG
*
9797301 CACTAGTCGAATAAATCGACAAATAATCGCACCCAG
1 CACTAGTCGAATAAATCGACAAATAATTGCACCCAG
* * * *
9797337 CTCTAGTCGGAT-AACCGACAATATCAATTACACCCAG
1 CACTAGTCGAATAAATCGACAA-AT-AATTGCACCCAG
* *
9797374 CTCTAGTCGGATAA
1 CACTAGTCGAATAA
9797388 CCGACAATAT
Statistics
Matches: 203, Mismatches: 45, Indels: 24
0.75 0.17 0.09
Matches are distributed among these distances:
34 61 0.30
35 47 0.23
36 72 0.35
37 22 0.11
38 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (36 bp):
CACTAGTCGAATAAATCGACAAATAATTGCACCCAG
Found at i:9799250 original size:39 final size:39
Alignment explanation
Indices: 9799155--9799416 Score: 293
Period size: 39 Copynumber: 6.6 Consensus size: 39
9799145 TTGAATGATG
*
9799155 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
9799193 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
9799234 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
9799273 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
9799312 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
9799351 TCTGAGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
9799390 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
9799417 AACGAGGAGC
Statistics
Matches: 194, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
39 127 0.65
40 55 0.28
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:9807280 original size:39 final size:40
Alignment explanation
Indices: 9807185--9807446 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
9807175 TTGAATGATG
*
9807185 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
9807223 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
9807264 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
9807303 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
9807342 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
9807381 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
9807420 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
9807447 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:9811796 original size:5 final size:5
Alignment explanation
Indices: 9811786--9811818 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
9811776 TTTTTATTCA
9811786 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9811819 TTAATCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:9823077 original size:18 final size:19
Alignment explanation
Indices: 9823054--9823090 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9823044 AAACTCCATC
9823054 TCCTCATCCTC-CTTTCTT
1 TCCTCATCCTCGCTTTCTT
*
9823072 TCCTCATCTTCGCTTTCTT
1 TCCTCATCCTCGCTTTCTT
9823091 CACTTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.05, C:0.41, G:0.03, T:0.51
Consensus pattern (19 bp):
TCCTCATCCTCGCTTTCTT
Found at i:9833543 original size:27 final size:27
Alignment explanation
Indices: 9833513--9833578 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
9833503 CATCCAAATG
9833513 TATTTAAATGTTAATGTGGTACTATTT
1 TATTTAAATGTTAATGTGGTACTATTT
9833540 TATTTAAATGTTAATGTGGTACTATTT
1 TATTTAAATGTTAATGTGGTACTATTT
*
9833567 TATCTTATATGT
1 TAT-TTAAATGT
9833579 CAGTAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 30 0.81
28 7 0.19
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (27 bp):
TATTTAAATGTTAATGTGGTACTATTT
Found at i:9833812 original size:23 final size:23
Alignment explanation
Indices: 9833782--9833832 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
9833772 GATTGAGCTC
9833782 GCATTAGTTTCAAGTTTTTGGAT
1 GCATTAGTTTCAAGTTTTTGGAT
9833805 GCATTAGTTTCAAGTTTTTGGAT
1 GCATTAGTTTCAAGTTTTTGGAT
9833828 GCATT
1 GCATT
9833833 TAAGTTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.47
Consensus pattern (23 bp):
GCATTAGTTTCAAGTTTTTGGAT
Found at i:9834773 original size:15 final size:16
Alignment explanation
Indices: 9834753--9834785 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9834743 TGATGATTTT
9834753 AAAATAATT-TTTTAA
1 AAAATAATTATTTTAA
9834768 AAAATAATTATTTTAA
1 AAAATAATTATTTTAA
9834784 AA
1 AA
9834786 TTATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATAATTATTTTAA
Found at i:9844705 original size:2 final size:2
Alignment explanation
Indices: 9844700--9844724 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9844690 GGTATATATA
9844700 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9844725 ACTTAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9845292 original size:41 final size:41
Alignment explanation
Indices: 9845248--9845407 Score: 257
Period size: 41 Copynumber: 3.9 Consensus size: 41
9845238 CAAGTTTATT
*
9845248 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
* * *
9845289 GCCGGGGAAACATTTTAGACTTTAAGTTTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
9845330 GCCGATGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
* *
9845371 GCCGGTGAAACATTTCAGACTTTATGTCTAACAGGCT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCT
9845408 AAGTGTCAGT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
Found at i:9846810 original size:53 final size:54
Alignment explanation
Indices: 9846728--9846837 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 54
9846718 TCGTGGCACT
* * * * *
9846728 AAAGAATACCATATCGTGTAAGACCGTAACTGATGAGTTATGGCATCATAT-GG
1 AAAGAAGACCATATCATGTAAAACAGTAACTGAGGAGTTATGGCATCATATAGG
* * *
9846781 AAAGAAGACCATATCATGTAAAATAGTAACTGGGGGGTTATGGCATCATATAGG
1 AAAGAAGACCATATCATGTAAAACAGTAACTGAGGAGTTATGGCATCATATAGG
9846835 AAA
1 AAA
9846838 ATTTAAGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 43 0.90
54 5 0.10
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.25
Consensus pattern (54 bp):
AAAGAAGACCATATCATGTAAAACAGTAACTGAGGAGTTATGGCATCATATAGG
Found at i:9846979 original size:28 final size:28
Alignment explanation
Indices: 9846947--9847036 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
9846937 AAAACACTAG
9846947 TAAAAGAACAGCCTTTATGGAAAAACTC
1 TAAAAGAACAGCCTTTATGGAAAAACTC
* ** * *
9846975 TAAAA-AGACAAGCCTTTGTGGCGAACCTG
1 TAAAAGA-AC-AGCCTTTATGGAAAAACTC
* * * *
9847004 TTACAGGACAACCTTTATGGAAAAACTC
1 TAAAAGAACAGCCTTTATGGAAAAACTC
9847032 TAAAA
1 TAAAA
9847037 AAGCAAGCTT
Statistics
Matches: 43, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
27 1 0.02
28 23 0.53
29 19 0.44
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (28 bp):
TAAAAGAACAGCCTTTATGGAAAAACTC
Done.