Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 29 of 226
Found at i:10113702 original size:7 final size:7
Alignment explanation
Indices: 10113692--10113749 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
10113682 AAAGTTAAAA
10113692 TATATAT
1 TATATAT
10113699 TATAATAT
1 TAT-ATAT
*
10113707 TATATCT
1 TATATAT
10113714 TA-ATTAT
1 TATA-TAT
*
10113721 TAAATA-
1 TATATAT
10113727 TATATA-
1 TATATAT
10113733 T-TATAT
1 TATATAT
10113739 TATATAT
1 TATATAT
10113746 TATA
1 TATA
10113750 ATAAGTAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
5 4 0.09
6 8 0.19
7 23 0.53
8 8 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:10113745 original size:34 final size:35
Alignment explanation
Indices: 10113686--10113762 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
10113676 AAACTTAAAG
*
10113686 TTAAA-ATATATATTATAATATTATATCT-TAATTA
1 TTAAATATATATATTATAATATTATAT-TATAATAA
*
10113720 TTAAATATATATATTATATTA-TATATTATAATAA
1 TTAAATATATATATTATAATATTATATTATAATAA
*
10113754 GTAAATATA
1 TTAAATATA
10113763 ATAAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.03
34 23 0.61
35 14 0.37
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (35 bp):
TTAAATATATATATTATAATATTATATTATAATAA
Found at i:10117062 original size:44 final size:44
Alignment explanation
Indices: 10116999--10117097 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
10116989 ACTTCTGATC
*
10116999 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
10117043 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
10117087 AGTGACAAGTG
1 AGTGATAAGTG
10117098 ATAAGTGATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:10117141 original size:57 final size:57
Alignment explanation
Indices: 10117031--10117220 Score: 317
Period size: 57 Copynumber: 3.3 Consensus size: 57
10117021 TGCACTTATC
* *
10117031 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAG
* *
10117089 TGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
10117146 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
* *
10117203 AGATAAATGATAAGTGAT
1 TGATAAGTGATAAGTGAT
10117221 TCCATGTAAG
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 99 0.80
58 25 0.20
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (57 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
Found at i:10117153 original size:7 final size:7
Alignment explanation
Indices: 10117132--10117168 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
10117122 TACACTTATC
*
10117132 TGATTAG
1 TGATAAG
*
10117139 TGACAAG
1 TGATAAG
10117146 TGATAAG
1 TGATAAG
10117153 TGATAAG
1 TGATAAG
10117160 TGATAAG
1 TGATAAG
10117167 TG
1 TG
10117169 GTAGCTTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:10118861 original size:41 final size:39
Alignment explanation
Indices: 10118816--10118949 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
10118806 ACTTCAAGTC
*
10118816 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATTT
1 GATGAGACACTGGGTGTCAA-TTATTACTTCGGATT-ATCT
* * * *
10118857 GATGATG-CACTAGGTGCCAA-T-TTACTTCGGTTTAGCT
1 GATGA-GACACTGGGTGTCAATTATTACTTCGGATTATCT
* * *
10118894 GATGAGACACTGGGTGTCAAATTATTACTTTGAATTATCC
1 GATGAGACACTGGGTGTC-AATTATTACTTCGGATTATCT
*
10118934 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
10118950 CCAAACTGAT
Statistics
Matches: 75, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
36 1 0.01
37 16 0.21
38 13 0.17
39 2 0.03
40 26 0.35
41 16 0.21
42 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTATTACTTCGGATTATCT
Found at i:10121469 original size:60 final size:60
Alignment explanation
Indices: 10121379--10121497 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
10121369 ATTTTTGAAA
* * * * **
10121379 TTTTTAGAATTATAATTAAATTGACAAATTTTATAAATGTTGAGGGTTAAATTTATTAAT
1 TTTTTAGAATTATAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAAT
10121439 TTTTTAGAATT-TGAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAA
1 TTTTTAGAATTAT-AACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAA
10121498 ATTTAAAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (60 bp):
TTTTTAGAATTATAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAAT
Found at i:10121503 original size:22 final size:21
Alignment explanation
Indices: 10121463--10121518 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
10121453 ACTAAAATGA
10121463 CAAATTTTATAAATATTAACAGT
1 CAAA-TTTATAAATATTAA-AGT
*
10121486 TAAATTTATTAAAT-TTAAAGT
1 CAAATTTA-TAAATATTAAAGT
*
10121507 CAAATTAATAAA
1 CAAATTTATAAA
10121519 ATAGGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 9 0.31
22 8 0.28
23 8 0.28
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (21 bp):
CAAATTTATAAATATTAAAGT
Found at i:10127787 original size:28 final size:27
Alignment explanation
Indices: 10127756--10127814 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
10127746 AAGGCCGGTT
10127756 TTTTTCAA-AATTTACCGAAATGGGCCGA
1 TTTTT-AATAATTTACCGAAATGGGCC-A
* *
10127784 TTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTAATAATTTACCGAAATGGGCCA
10127811 TTTT
1 TTTT
10127815 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TTTTTAATAATTTACCGAAATGGGCCA
Found at i:10146071 original size:81 final size:81
Alignment explanation
Indices: 10145984--10146155 Score: 251
Period size: 81 Copynumber: 2.1 Consensus size: 81
10145974 GGGGCGAAAT
* *
10145984 TTTTTAGAGGGTC-GGAATTAAATTATAATTTTTATGATTGTAAAAATATAATTATTAAA-GTAT
1 TTTTTAG-GGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATG-AT
*
10146047 TAACTAAAAAATTTATCA
64 TAAATAAAAAATTTATCA
10146065 TTTTTAGGTGG-CTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATT
1 TTTTTAGG-GGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATT
* *
10146129 AAATCAAAATTTTATCA
65 AAATAAAAAATTTATCA
10146146 TTTTTAGGGG
1 TTTTTAGGGG
10146156 GTCAAAATGT
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
80 4 0.05
81 78 0.94
82 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (81 bp):
TTTTTAGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATTA
AATAAAAAATTTATCA
Found at i:10146853 original size:31 final size:31
Alignment explanation
Indices: 10146803--10146873 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
10146793 AAAAAAAATT
* *
10146803 AATTTCACT-TTTTTTAAATGTTAATG-GTCA
1 AATTTAACTCTTTTTAAAATGTTAA-GAGTCA
* *
10146833 AATTTGACTCTTTTTAAAATGTTGAGAGTCA
1 AATTTAACTCTTTTTAAAATGTTAAGAGTCA
10146864 AATTTAACTC
1 AATTTAACTC
10146874 AAGAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.26
31 26 0.74
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
AATTTAACTCTTTTTAAAATGTTAAGAGTCA
Found at i:10153632 original size:45 final size:45
Alignment explanation
Indices: 10153564--10153657 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
10153554 AACAAATACT
* * *
10153564 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
* * *
10153609 CGGTGGAATCAGCACATAACAACCACCTTACTAATTAATGATGTT
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
10153654 CGGT
1 CGGT
10153658 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
Found at i:10153721 original size:51 final size:51
Alignment explanation
Indices: 10153659--10153799 Score: 194
Period size: 51 Copynumber: 2.8 Consensus size: 51
10153649 ATGTTCGGTT
* * *
10153659 CACATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
* * * *
10153710 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATA
*
10153761 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
10153800 CACTTTCACT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.03
51 74 0.95
52 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
Found at i:10156193 original size:23 final size:23
Alignment explanation
Indices: 10156167--10156211 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10156157 GACCCGAGAA
*
10156167 TTAACAATAAAAAATTTAAAATT
1 TTAAAAATAAAAAATTTAAAATT
** *
10156190 TTAAAAATCTAATATTTAAAAT
1 TTAAAAATAAAAAATTTAAAAT
10156212 CTAAAACAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAAAAATAAAAAATTTAAAATT
Found at i:10156197 original size:16 final size:15
Alignment explanation
Indices: 10156176--10156217 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
10156166 ATTAACAATA
*
10156176 AAAAATTTAAAATTTT
1 AAAAATCTAAAA-TTT
*
10156192 AAAAATCTAATATTT
1 AAAAATCTAAAATTT
10156207 -AAAATCTAAAA
1 AAAAATCTAAAA
10156218 CAACAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
16 10 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATCTAAAATTT
Found at i:10156759 original size:49 final size:48
Alignment explanation
Indices: 10156659--10156764 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 48
10156649 GGGTGGCCCA
10156659 ACAATGAT-GACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
1 ACAATGATGGACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
* *
10156706 ACAATGATGGA-TTTCACTATTTGCATATTTTATCATCCTGAGT-GTCCTG
1 ACAATGATGGACTTTCACTATTT--ACATTCTATCATCCTGAGTGGTCC-G
10156755 ACAATGATGG
1 ACAATGATGG
10156765 TTTTAAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
47 19 0.36
48 6 0.11
49 28 0.53
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (48 bp):
ACAATGATGGACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
Found at i:10168957 original size:42 final size:42
Alignment explanation
Indices: 10168858--10169016 Score: 196
Period size: 43 Copynumber: 3.7 Consensus size: 42
10168848 AGCTCGTACA
** *
10168858 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAAT-ACG
* *
10168901 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAATACG
* *
10168943 ATGCCAATGTCCCAGACATGATCTTACACGTAAATCTCAAATA-G
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AA--TCAAATACG
10168987 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
10169017 ATATCACATA
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
42 30 0.30
43 34 0.34
44 30 0.30
45 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATACG
Found at i:10170109 original size:13 final size:13
Alignment explanation
Indices: 10170091--10170115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10170081 ACAAACGATA
10170091 AAATTTTCACACG
1 AAATTTTCACACG
10170104 AAATTTTCACAC
1 AAATTTTCACAC
10170116 ATTTTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:10170597 original size:20 final size:18
Alignment explanation
Indices: 10170547--10170598 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
10170537 CTACAAGATA
10170547 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
10170564 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
*
10170584 AGTATTAAATTAATA
1 AATATTAAATTAATA
10170599 AAATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:10170658 original size:68 final size:71
Alignment explanation
Indices: 10170514--10170658 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 71
10170504 TATTAAATCT
*
10170514 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATATTTATCTA-AAGATAAATATTAAATTAAATTTAATATTAAGATAATC
*** *
10170579 ACTTTAG
65 AAAATAA
** *
10170586 TATTAAATTAATAAAATATTT-T-T-AAGATACGTATTAAATTAAATTTAATATTAA-ATCAATT
1 TATTAAATTAATAAAATATTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAGAT-AATC
10170647 AAAATAA
65 AAAATAA
10170654 TATTA
1 TATTA
10170659 TTTTTGGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 2 0.03
68 40 0.62
70 1 0.02
71 1 0.02
72 20 0.31
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (71 bp):
TATTAAATTAATAAAATATTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAGATAATCA
AAATAA
Found at i:10172923 original size:25 final size:25
Alignment explanation
Indices: 10172836--10172924 Score: 133
Period size: 25 Copynumber: 3.6 Consensus size: 25
10172826 ACAAACTATA
* *
10172836 AACGGGAAGCTCCTTCGAGCTGAAT
1 AACGGGAAGCTCATGCGAGCTGAAT
* *
10172861 AACGGGAAGCTCTTGCGAGCTGTAT
1 AACGGGAAGCTCATGCGAGCTGAAT
*
10172886 AACAGGAAGCTCATGCGAGCTGAAT
1 AACGGGAAGCTCATGCGAGCTGAAT
10172911 AACGGGAAGCTCAT
1 AACGGGAAGCTCAT
10172925 TTGAGAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.19
Consensus pattern (25 bp):
AACGGGAAGCTCATGCGAGCTGAAT
Found at i:10183245 original size:47 final size:48
Alignment explanation
Indices: 10183193--10183362 Score: 150
Period size: 47 Copynumber: 3.5 Consensus size: 48
10183183 TGGTTGGACC
* *
10183193 ATGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATAATTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAATTGGGAT
* * *
10183240 ATGGCATC-GATGTGATGTGATTATGAGTTTCCGTATAAGACTATATTTGGGAT
1 ATGGCATCAG-TGTGA--T-A-TGTGA-TTTTCGTATAAGACTATAATTGGGAT
* * ** * *
10183293 ATGGCATTAGTGTGATATGTGCTACT-GTGTAGGACTAT-ATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAAT-TGGGAT
10183340 ATGGCATCAGTGTGATATGTGAT
1 ATGGCATCAGTGTGATATGTGAT
10183363 CCGTATAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
46 1 0.01
47 44 0.45
48 6 0.06
49 3 0.03
50 2 0.02
51 2 0.02
52 4 0.04
53 35 0.36
54 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (48 bp):
ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAATTGGGAT
Found at i:10183307 original size:53 final size:53
Alignment explanation
Indices: 10183201--10183308 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 53
10183191 CCATGGCAAC
* * *
10183201 ATGTGATATGTGATTTTCGTATAAGACCATAATTGGGATATGGCATCGATGTG
1 ATGTGATATGAGATTTCCGTATAAGACCATAATTGGGATATGGCATAGATGTG
* *
10183254 ATGTGATTATGAG-TTTCCGTATAAGACTATATTTGGGATATGGCATTAG-TGTG
1 ATGTGA-TATGAGATTTCCGTATAAGACCATAATTGGGATATGGCA-TAGATGTG
10183307 AT
1 AT
10183309 ATGTGCTACT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 41 0.85
54 7 0.15
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (53 bp):
ATGTGATATGAGATTTCCGTATAAGACCATAATTGGGATATGGCATAGATGTG
Found at i:10183567 original size:24 final size:24
Alignment explanation
Indices: 10183530--10183580 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
10183520 TGGCACTATG
10183530 AATGTAAAGAATGAATTAACGGAA
1 AATGTAAAGAATGAATTAACGGAA
* *
10183554 AATGTAAA-AGATGAATTGACGGCA
1 AATGTAAAGA-ATGAATTAACGGAA
10183578 AAT
1 AAT
10183581 TACCCAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.51, C:0.06, G:0.22, T:0.22
Consensus pattern (24 bp):
AATGTAAAGAATGAATTAACGGAA
Found at i:10191743 original size:57 final size:59
Alignment explanation
Indices: 10191632--10191779 Score: 194
Period size: 57 Copynumber: 2.5 Consensus size: 59
10191622 AATTGACGGT
*
10191632 AAAAAGGATCTAGCCTGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
10191695 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* * *
10191751 AAAATAGATTTAGCCCAGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
10191780 GAATTAGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
56 5 0.06
57 46 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.25
63 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:10192006 original size:67 final size:67
Alignment explanation
Indices: 10191898--10192032 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
10191888 TGAATTTATA
* *
10191898 TTACAGGGGATTTAGTCTGGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGGGAGTGTGCTC
1 TTACAGGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
10191963 TC
66 TC
* * *
10191965 TTACAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTC
1 TTACAGGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
10192030 TC
66 TC
10192032 T
1 T
10192033 GAATTGGAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (67 bp):
TTACAGGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
TC
Found at i:10199994 original size:21 final size:20
Alignment explanation
Indices: 10199949--10199995 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 20
10199939 AGTTAATTAA
10199949 TTTAATTAAT--TTT-AATT
1 TTTAATTAATCATTTGAATT
10199966 TTTAATTAATCATTTGAATT
1 TTTAATTAATCATTTGAATT
*
10199986 ATTTGATTAA
1 -TTTAATTAA
10199996 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
19 3 0.12
20 4 0.16
21 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTAATTAATCATTTGAATT
Found at i:10208722 original size:23 final size:22
Alignment explanation
Indices: 10208671--10208722 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
10208661 CCTCGTCTTT
*
10208671 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
10208693 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
10208716 TTCTTTT
1 TTCTTTT
10208723 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:10208731 original size:12 final size:12
Alignment explanation
Indices: 10208680--10208734 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
10208670 TTTCTTTTGT
10208680 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
10208693 -TCATTTTC-TC
1 TTCTTTTTCAAC
10208703 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
10208716 TTCTTTTTCAAT
1 TTCTTTTTCAAC
10208728 TTCTTTT
1 TTCTTTT
10208735 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:10208741 original size:17 final size:18
Alignment explanation
Indices: 10208716--10208753 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10208706 TTTCTTCAAC
* *
10208716 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
10208733 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
10208751 TTC
1 TTC
10208754 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:10213885 original size:18 final size:18
Alignment explanation
Indices: 10213864--10213902 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10213854 TATATCTATT
10213864 ATACATTATAAACTATAA
1 ATACATTATAAACTATAA
10213882 ATACATTATAAACTATAA
1 ATACATTATAAACTATAA
10213900 ATA
1 ATA
10213903 TATCGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
ATACATTATAAACTATAA
Found at i:10215509 original size:41 final size:41
Alignment explanation
Indices: 10215447--10215721 Score: 487
Period size: 41 Copynumber: 6.7 Consensus size: 41
10215437 CTTAATTTAA
* *
10215447 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
10215489 CAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
10215530 CAGATCACCGGCACTTAGCCTGCTAGGTTCATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
10215571 CAGATCACCAGCACTTAGCCTGCTAGGTTCATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
10215612 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
10215653 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
10215694 CAGATCACCGGCACTTAGCCTGCTAGGT
1 CAGATCACCGGCACTTAGCCTGCTAGGT
10215722 ATAGTCTGAA
Statistics
Matches: 225, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
41 222 0.99
42 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:10235944 original size:10 final size:9
Alignment explanation
Indices: 10235856--10235948 Score: 52
Period size: 9 Copynumber: 10.1 Consensus size: 9
10235846 AATTATCTTT
10235856 TTTTAAAAA
1 TTTTAAAAA
* *
10235865 TATAAAAAA
1 TTTTAAAAA
10235874 TTATT-AAAA
1 TT-TTAAAAA
10235883 TCATTTAAAAA
1 T--TTTAAAAA
*
10235894 TTGTAAAAA
1 TTTTAAAAA
10235903 ---T-AAAA
1 TTTTAAAAA
10235908 TTGTTACAAAA
1 TT-TTA-AAAA
10235919 GTTTTAAAAA
1 -TTTTAAAAA
*
10235929 CTTTAAAAA
1 TTTTAAAAA
10235938 TTGTTAAAAA
1 TT-TTAAAAA
10235948 T
1 T
10235949 CAATTAATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 23
0.68 0.07 0.24
Matches are distributed among these distances:
5 4 0.06
6 1 0.02
9 30 0.46
10 15 0.23
11 13 0.20
12 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:10246037 original size:20 final size:19
Alignment explanation
Indices: 10245996--10246038 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
10245986 TATTTTTTAC
*
10245996 TTTTTATTTTTAAAATATT
1 TTTTTATTTTTAAAATAAT
10246015 TTTTTATTTTTAAAATAAAT
1 TTTTTATTTTTAAAAT-AAT
10246035 TTTT
1 TTTT
10246039 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTATTTTTAAAATAAT
Found at i:10255119 original size:115 final size:115
Alignment explanation
Indices: 10254970--10255210 Score: 482
Period size: 115 Copynumber: 2.1 Consensus size: 115
10254960 GGCTTATAAT
10254970 AGAAAAAAGAAATTAGAGATCTGAGAAATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATG
1 AGAAAAAAGAAATTAGAGATCTGAGAAATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATG
10255035 GAGAATGAATGCTTATTATCATTATCTTTTTACTCTTCATGACCGAACCC
66 GAGAATGAATGCTTATTATCATTATCTTTTTACTCTTCATGACCGAACCC
10255085 AGAAAAAAGAAATTAGAGATCTGAGAAATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATG
1 AGAAAAAAGAAATTAGAGATCTGAGAAATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATG
10255150 GAGAATGAATGCTTATTATCATTATCTTTTTACTCTTCATGACCGAACCC
66 GAGAATGAATGCTTATTATCATTATCTTTTTACTCTTCATGACCGAACCC
10255200 AGAAAAAAGAA
1 AGAAAAAAGAA
10255211 GAAAGGAAGA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 126 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (115 bp):
AGAAAAAAGAAATTAGAGATCTGAGAAATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATG
GAGAATGAATGCTTATTATCATTATCTTTTTACTCTTCATGACCGAACCC
Found at i:10255174 original size:58 final size:58
Alignment explanation
Indices: 10254997--10255179 Score: 182
Period size: 58 Copynumber: 3.2 Consensus size: 58
10254987 GATCTGAGAA
10254997 ATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATGGAGAATGAATGCTTATTATC
1 ATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATGGAGAATGAATGCTTATTATC
* * * * * * * * *
10255055 ATTATCTTTTTACTCTTCATGACCGAACCCAGAAAAAAGAAAT-TAG-A-G-AT-CTGA-GA-A
1 ATTATCTTTTAAGT-TTGAAGA--GAA---AGAAAGAAGAAATGGAGAATGAATGCTTATTATC
10255112 ATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATGGAGAATGAATGCTTATTATC
1 ATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATGGAGAATGAATGCTTATTATC
10255170 ATTATCTTTT
1 ATTATCTTTT
10255180 TACTCTTCAT
Statistics
Matches: 94, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
51 12 0.13
52 2 0.02
53 1 0.01
54 4 0.04
55 2 0.02
56 8 0.09
57 13 0.14
58 23 0.24
59 8 0.09
60 2 0.02
61 4 0.04
62 1 0.01
63 2 0.02
64 12 0.13
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.32
Consensus pattern (58 bp):
ATTATCTTTTAAGTTTGAAGAGAAAGAAAGAAGAAATGGAGAATGAATGCTTATTATC
Found at i:10257342 original size:21 final size:21
Alignment explanation
Indices: 10257296--10257342 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
10257286 ATTTACAACT
*
10257296 TTATTTTTAGAAATTTAATCC
1 TTATTTTTAGAAATTTAATCA
* *
10257317 CTATTTCTTAGACATTTAAT-A
1 TTATTT-TTAGAAATTTAATCA
10257338 TTATT
1 TTATT
10257343 AAATTACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (21 bp):
TTATTTTTAGAAATTTAATCA
Found at i:10263463 original size:18 final size:18
Alignment explanation
Indices: 10263411--10263471 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
10263401 CAATCCCAAC
*
10263411 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
10263429 TACCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
* *
10263447 TGCTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
10263465 TACTGTA
1 TACTGTA
10263472 AACGGTCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:10266732 original size:30 final size:30
Alignment explanation
Indices: 10266696--10266761 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10266686 TGTTAATCGA
** * *
10266696 TAAAAAATTGTAAA-AATTTATGAAAATTAT
1 TAAAAAATACTAAATAA-TTATAAAAATAAT
10266726 TAAAAAATACTAAATAATTATAAAAATAAT
1 TAAAAAATACTAAATAATTATAAAAATAAT
10266756 TAAAAA
1 TAAAAA
10266762 GTGGTCTCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
TAAAAAATACTAAATAATTATAAAAATAAT
Found at i:10266957 original size:19 final size:20
Alignment explanation
Indices: 10266923--10266960 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10266913 AATGTAATAT
*
10266923 ATTTAAAATTTTATAAAAAA
1 ATTTAAAATATTATAAAAAA
10266943 ATTTAAAA-ATTATAAAAA
1 ATTTAAAATATTATAAAAA
10266961 CATATACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTAAAATATTATAAAAAA
Found at i:10266958 original size:29 final size:29
Alignment explanation
Indices: 10266903--10266959 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
10266893 GTTGTTGAAA
*
10266903 TTTATAAAAAAATGTAATATATTTAAAAT
1 TTTATAAAAAAATGTAATAAATTTAAAAT
*
10266932 TTTATAAAAAAATTTAA-AAATTATAAAA
1 TTTATAAAAAAATGTAATAAATT-TAAAA
10266960 ACATATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
TTTATAAAAAAATGTAATAAATTTAAAAT
Found at i:10269849 original size:20 final size:20
Alignment explanation
Indices: 10269824--10269873 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10269814 TGGCTTAAAA
10269824 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10269844 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10269861 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10269874 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10274488 original size:20 final size:20
Alignment explanation
Indices: 10274463--10274512 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10274453 TGGCTTAAAA
10274463 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10274483 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10274500 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10274513 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10285599 original size:2 final size:2
Alignment explanation
Indices: 10285592--10285622 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10285582 ATAGTAGGTT
*
10285592 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10285623 TTTCTTGCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10287847 original size:43 final size:43
Alignment explanation
Indices: 10287798--10288107 Score: 381
Period size: 43 Copynumber: 7.2 Consensus size: 43
10287788 CAGAAAAAAT
* ***
10287798 GCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTTTTACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
*
10287841 GCCGCTAAAGACCACGACCTTTAGCGGCGCTCTTCCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
10287884 GCCGCTAAAGACCACGACCTTTAGCAGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
*
10287927 GCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
10287970 GCCGCTATAA-ACCACGACATTTAGCGACACTTTTCCCGCAAAC
1 GCCGCTA-AAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
10288013 ACCACTAAAGACCACGACCTTTAGCGGCGCTTTTTTCTACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGC-TTTTCCCACAAAC
* * * * ** *
10288057 GCCGCTAAAGAACA-AACATTTAGCGGCGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
10288099 GCCGCTAAA
1 GCCGCTAAA
10288108 AATATAATCT
Statistics
Matches: 230, Mismatches: 34, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
42 19 0.08
43 188 0.82
44 23 0.10
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:10290817 original size:10 final size:10
Alignment explanation
Indices: 10290802--10290832 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10290792 CTAATAATGT
10290802 AAGTTAAGCA
1 AAGTTAAGCA
10290812 AAGTTAAGCA
1 AAGTTAAGCA
*
10290822 AAGTCAAGCA
1 AAGTTAAGCA
10290832 A
1 A
10290833 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:10294182 original size:13 final size:14
Alignment explanation
Indices: 10294155--10294229 Score: 89
Period size: 14 Copynumber: 5.4 Consensus size: 14
10294145 CTAATTAATA
10294155 TAACCCTTAATCCC
1 TAACCCTTAATCCC
*
10294169 TAACCTTTAA-CCC
1 TAACCCTTAATCCC
* *
10294182 TAACCCTAAATCCA
1 TAACCCTTAATCCC
* *
10294196 TAACTCTTAATCTC
1 TAACCCTTAATCCC
*
10294210 TAACCCTTAACCCC
1 TAACCCTTAATCCC
10294224 TAACCC
1 TAACCC
10294230 ATAAACCTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
13 11 0.22
14 38 0.78
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (14 bp):
TAACCCTTAATCCC
Found at i:10294199 original size:41 final size:43
Alignment explanation
Indices: 10294154--10294234 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
10294144 ACTAATTAAT
*
10294154 ATAACCCTTAATCCCTAACCTTTAA-CCCTAACCC-TAAATCC
1 ATAACCCTTAATCCCTAACCCTTAACCCCTAACCCATAAATCC
* *
10294195 ATAACTCTTAATCTCTAACCCTTAACCCCTAACCCATAAA
1 ATAACCCTTAATCCCTAACCCTTAACCCCTAACCCATAAA
10294235 CCTTAAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 22 0.63
42 9 0.26
43 4 0.11
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.27
Consensus pattern (43 bp):
ATAACCCTTAATCCCTAACCCTTAACCCCTAACCCATAAATCC
Found at i:10294222 original size:7 final size:7
Alignment explanation
Indices: 10294155--10294254 Score: 53
Period size: 7 Copynumber: 14.4 Consensus size: 7
10294145 CTAATTAATA
10294155 TAACCCT
1 TAACCCT
10294162 TAATCCC-
1 TAA-CCCT
*
10294169 TAACCTT
1 TAACCCT
10294176 TAACCC-
1 TAACCCT
10294182 TAACCCT
1 TAACCCT
* * *
10294189 AAATCCA
1 TAACCCT
*
10294196 TAACTCT
1 TAACCCT
*
10294203 TAA-TCT
1 TAACCCT
10294209 CTAACCCT
1 -TAACCCT
*
10294217 TAACCCC
1 TAACCCT
*
10294224 TAACCCA
1 TAACCCT
*
10294231 TAAACCT
1 TAACCCT
** *
10294238 TAAATCA
1 TAACCCT
10294245 TAACCCT
1 TAACCCT
10294252 TAA
1 TAA
10294255 ATCAGAATCC
Statistics
Matches: 69, Mismatches: 19, Indels: 10
0.70 0.19 0.10
Matches are distributed among these distances:
6 11 0.16
7 53 0.77
8 5 0.07
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (7 bp):
TAACCCT
Found at i:10294232 original size:35 final size:35
Alignment explanation
Indices: 10294176--10294254 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
10294166 CCCTAACCTT
* *
10294176 TAACCC-TAACCCTAAATCCAT-AACTCTT-AATCTC
1 TAACCCTTAACCCTAAACCCATAAAC-CTTAAATC-A
10294210 TAACCCTTAACCCCT-AACCCATAAACCTTAAATCA
1 TAACCCTTAA-CCCTAAACCCATAAACCTTAAATCA
10294245 TAACCCTTAA
1 TAACCCTTAA
10294255 ATCAGAATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
34 6 0.15
35 22 0.56
36 11 0.28
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (35 bp):
TAACCCTTAACCCTAAACCCATAAACCTTAAATCA
Found at i:10294246 original size:14 final size:14
Alignment explanation
Indices: 10294229--10294258 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10294219 ACCCCTAACC
10294229 CATAAACCTTAAAT
1 CATAAACCTTAAAT
*
10294243 CATAACCCTTAAAT
1 CATAAACCTTAAAT
10294257 CA
1 CA
10294259 GAATCCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAT
Found at i:10294716 original size:41 final size:41
Alignment explanation
Indices: 10294671--10294788 Score: 182
Period size: 41 Copynumber: 2.9 Consensus size: 41
10294661 AAATGTTTTT
10294671 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
10294712 GCGGCGCATTTTCAGAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
10294753 GAGGCGCTTTTTTTAAAAACGCCGCTAAAGACCTGA
1 GCGGCGC-TTTTTTAAAAACGCCGCTAAAGATCTGA
10294789 AAGGTACAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 44 0.65
42 24 0.35
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:10295321 original size:22 final size:23
Alignment explanation
Indices: 10295275--10295322 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10295265 GTGTTCTTGA
* *
10295275 TTTTGATCTTTTCTATTTACTTT
1 TTTTCATCTTTTCTATTTACATT
*
10295298 TTTTCATCTTTT-TATTTCCATT
1 TTTTCATCTTTTCTATTTACATT
10295320 TTT
1 TTT
10295323 GTATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTCATCTTTTCTATTTACATT
Found at i:10296170 original size:14 final size:13
Alignment explanation
Indices: 10296151--10296198 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
10296141 GTTACTACTA
*
10296151 TTATATCATTAGTT
1 TTATATTATTA-TT
10296165 TTATATTATTATT
1 TTATATTATTATT
*
10296178 GTTATATTTTTATT
1 -TTATATTATTATT
10296192 TTATATT
1 TTATATT
10296199 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:10296311 original size:20 final size:20
Alignment explanation
Indices: 10296258--10296312 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
10296248 TAACTATTTA
* *
10296258 TATATATCTTTATATCTTAT
1 TATATATCTATATGTCTTAT
*
10296278 TATATATCTATATGTCTTGT
1 TATATATCTATATGTCTTAT
*
10296298 TATATATATATATGT
1 TATATATCTATATGT
10296313 ATCTCTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATGTCTTAT
Found at i:10296319 original size:24 final size:23
Alignment explanation
Indices: 10296274--10296319 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
10296264 TCTTTATATC
* *
10296274 TTATTATATATCTATATGTCTTG
1 TTATTATATATATATATCTCTTG
*
10296297 TTATATATATATATGTATCTCTT
1 TTAT-TATATATATATATCTCTT
10296320 TATAAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (23 bp):
TTATTATATATATATATCTCTTG
Found at i:10296323 original size:22 final size:22
Alignment explanation
Indices: 10296255--10296316 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
10296245 TTATAACTAT
* * *
10296255 TTATATATATCTTTATATCTTA
1 TTATATATATATATGTATCTTA
* *
10296277 TTATATATCTATATG--TCTTG
1 TTATATATATATATGTATCTTA
10296297 TTATATATATATATGTATCT
1 TTATATATATATATGTATCT
10296317 CTTTATAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 18 0.56
22 14 0.44
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (22 bp):
TTATATATATATATGTATCTTA
Found at i:10298709 original size:19 final size:19
Alignment explanation
Indices: 10298685--10298731 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10298675 ACGTCTCTTT
*
10298685 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
10298704 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
10298723 TATGCATTA
1 TTTGCATTA
10298732 GATTTTCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:10300838 original size:8 final size:8
Alignment explanation
Indices: 10300825--10300869 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 8
10300815 GAGTCAAACA
10300825 AAAAAATG
1 AAAAAATG
10300833 AAAAAATG
1 AAAAAATG
*
10300841 -AAAAATA
1 AAAAAATG
10300848 AAAAAAT-
1 AAAAAATG
10300855 AAAAAA-G
1 AAAAAATG
*
10300862 TAAAAATG
1 AAAAAATG
10300870 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 17 0.53
8 15 0.47
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:10300846 original size:15 final size:15
Alignment explanation
Indices: 10300826--10300869 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
10300816 AGTCAAACAA
10300826 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
*
10300841 AAAAATAAAAAAAT-
1 AAAAATGAAAAAATG
* *
10300855 AAAAAAGTAAAAATG
1 AAAAATGAAAAAATG
10300870 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:10300852 original size:7 final size:7
Alignment explanation
Indices: 10300825--10300867 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 7
10300815 GAGTCAAACA
10300825 AAAAAAT
1 AAAAAAT
10300832 GAAAAAAT
1 -AAAAAAT
*
10300840 GAAAAAT
1 AAAAAAT
10300847 AAAAAAAT
1 -AAAAAAT
10300855 AAAAAAGT
1 AAAAAA-T
10300863 AAAAA
1 AAAAA
10300868 TGGAGAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:10302240 original size:50 final size:50
Alignment explanation
Indices: 10302186--10302866 Score: 741
Period size: 50 Copynumber: 13.7 Consensus size: 50
10302176 GCAATTAAAA
* * * *
10302186 AGATTGAAGCTACAACAGTGGATCTTACTTTCATAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
* * ** *
10302236 AGATTGAAGCTACAATAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGTGGAAC
* * * *
10302286 AGATTGAAGCTACAACAGCGGGTCTTACTTTCCTAGCGTTGCAGTGTAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
* ** *
10302336 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGTGGAAC
* *
10302386 AGATTGAAGCTACAACAGCGGGTCTTACTTTCCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
* * ** *
10302436 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTACAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGTGGAAC
* * * *
10302486 ATATTGAAGCTACAACAGCAGATCTTACTTTCCTAGCATTACAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
* ** *
10302536 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGTGGAAC
* * * * *
10302586 AGATTGAAGCTACAATAGCGGGTCTTACTTTCCTAGCGTTGCTGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
* * ** *
10302636 AGATTGAAGCTACAACAACGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGTGGAAC
* *
10302686 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
* * * *
10302736 AGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAAT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGTGGAAC
* * * *
10302785 AGATTGAGGCCACAACGGCGGATCTTACTT-CCAAGCGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGC-ATTGCAGTGGAAC
* * *
10302834 AGATTGAAGCTACAACGGCGAATCTCACTTCCC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCC
10302867 CGATATTGCA
Statistics
Matches: 520, Mismatches: 96, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
48 8 0.02
49 64 0.12
50 443 0.85
51 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTGGAAC
Found at i:10302346 original size:100 final size:100
Alignment explanation
Indices: 10302173--10302992 Score: 1209
Period size: 100 Copynumber: 8.2 Consensus size: 100
10302163 GAAACCATAG
* *
10302173 ATTGCAATTAAAAAGATTGAAGCTACAACAGTGGATCTTACTTTCATAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
10302238 ATTGAAGCTACAATAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* *
10302273 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGGTCTTACTTTCCTAGCGTTGCAGTGTAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
10302338 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* *
10302373 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGGTCTTACTTTCCTAGCATTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
10302438 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * *
10302473 ATTACAATTAAAAATATTGAAGCTACAACAGCAGATCTTACTTTCCTAGCATTACAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
10302538 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * *
10302573 ATTGCAATTAAAAAGATTGAAGCTACAATAGCGGGTCTTACTTTCCTAGCGTTGCTGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
10302638 ATTGAAGCTACAACAACGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
10302673 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
10302738 ATTGAAGCTACAACAGCGAATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * *
10302773 ATTGCAATT-AAAAGATTGAGGCCACAACGGCGGATCTTAC-TTCCAAGCGATGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
* * * * *
10302836 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAT
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * * **
10302871 ATTGCAAGTT-AAAAGATTAAAG-TCACAACGGCGAATCTTA-TTTCCCAGCGATGCAGAAGAAC
1 ATTGCAA-TTAAAAAGATTGAAGCT-ACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * * * *
10302933 ATATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
64 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
10302970 ATGGCAATTAAAATAGATTGAAG
1 ATTGCAATTAAAA-AGATTGAAG
10302993 TCACGACGGC
Statistics
Matches: 668, Mismatches: 47, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
98 61 0.09
99 116 0.17
100 491 0.74
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
Found at i:10303082 original size:101 final size:98
Alignment explanation
Indices: 10302683--10303091 Score: 318
Period size: 99 Copynumber: 4.1 Consensus size: 98
10302673 ATTGCAATTA
* * * * ** * *
10302683 AAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCT
1 AAAAGATTGAAGTC-ACAACGGCGAATCTTAC-TTCCCAGCGATGCAGAAGAACAGATTCAAACT
* * * ** * *
10302747 ACAACAGCGAATCTTACTTCCCTGACATTGCAATT
64 ACGACGGCGAATCTAACTTCCCCAACATCGCAGTT
* * * * ** * *
10302782 AAAAGATTGAGGCCACAACGGCGGATCTTACTTCCAAGCGATGCAGTGGAACAGATTGAAGCTAC
1 AAAAGATTGAAGTCACAACGGCGAATCTTACTTCCCAGCGATGCAGAAGAACAGATTCAAACTAC
* * * * *
10302847 AACGGCGAATCTCACTTCCCCGATATTGCAAGTT
66 GACGGCGAATCTAACTTCCCCAACATCGC-AGTT
* * * * *
10302881 AAAAGATTAAAGTCACAACGGCGAATCTTATTTCCCAGCGATGCAGAAGAACATATTGAAGCTAC
1 AAAAGATTGAAGTCACAACGGCGAATCTTACTTCCCAGCGATGCAGAAGAACAGATTCAAACTAC
* * * *
10302946 GACGGCGAATCTCACTTCCCCGACATGGCAATT
66 GACGGCGAATCTAACTTCCCCAACATCGCAGTT
* * *
10302979 AAAATAGATTGAAGTCACGACGGCGAATCTTACTTCTCAGGCGATGCAGTAGAACAGATTCAAAC
1 -AAA-AGATTGAAGTCACAACGGCGAATCTTACTTCCCA-GCGATGCAGAAGAACAGATTCAAAC
* * * * * *
10303044 TAC-AGTGGTGAATCTAATTTCTCTAACATCGTAGTT
63 TACGA-CGGCGAATCTAACTTCCCCAACATCGCAGTT
10303080 AAACAGATTGAA
1 AAA-AGATTGAA
10303092 AATCGCAGAT
Statistics
Matches: 263, Mismatches: 41, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
98 60 0.23
99 115 0.44
100 43 0.16
101 45 0.17
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (98 bp):
AAAAGATTGAAGTCACAACGGCGAATCTTACTTCCCAGCGATGCAGAAGAACAGATTCAAACTAC
GACGGCGAATCTAACTTCCCCAACATCGCAGTT
Found at i:10303201 original size:44 final size:44
Alignment explanation
Indices: 10303100--10303389 Score: 208
Period size: 44 Copynumber: 6.7 Consensus size: 44
10303090 AAAATCGCAG
*
10303100 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC----GTATCCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-CAGAAGAATCCA
* * * * * *
10303141 GTTTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACAGAAGAATCCA
* * * **
10303185 ATCCTATCTCTCTGAAGTTACAGTAGAGCGGA-TTAA-AATCACA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACAGAAGAATC-CA
* *
10303228 GATCTTATCTCTCTGAAGTTTCAGTAGAGCAGATC----GCATCCA
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-CAGAAGAATCCA
* * * * *
10303270 GTATTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACAGAAGAATCCA
* * * * **
10303314 ATCCTATCTCTCTAAAGTTACAGTAGAGCGGA-TTAA-AATCACA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACAGAAGAATC-CA
*
10303357 GATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
10303390 TCGCATCCAG
Statistics
Matches: 189, Mismatches: 45, Indels: 27
0.72 0.17 0.10
Matches are distributed among these distances:
40 2 0.01
41 54 0.29
42 8 0.04
43 11 0.06
44 114 0.60
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACAGAAGAATCCA
Found at i:10303320 original size:129 final size:129
Alignment explanation
Indices: 10303085--10303425 Score: 585
Period size: 129 Copynumber: 2.6 Consensus size: 129
10303075 TAGTTAAACA
* * * *
10303085 GATTGAAAATCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCAGTTTTATCT
1 GATT-AAAATCACAGATCTTATCTCTCTGAAGTTTCAGTAGAGCAGATCGCATCCAGTATTATCT
* *
10303150 CCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTACAGTAGAGCG
65 CCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTACAGTAGAGCG
10303215 GATTAAAATCACAGATCTTATCTCTCTGAAGTTTCAGTAGAGCAGATCGCATCCAGTATTATCTC
1 GATTAAAATCACAGATCTTATCTCTCTGAAGTTTCAGTAGAGCAGATCGCATCCAGTATTATCTC
10303280 CCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTACAGTAGAGCG
66 CCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTACAGTAGAGCG
*
10303344 GATTAAAATCACAGATCTTATCTCTCTGAAGTTGT-AGTAGAGCAGATCGCATCCAGTCTTATCT
1 GATTAAAATCACAGATCTTATCTCTCTGAAGTT-TCAGTAGAGCAGATCGCATCCAGTATTATCT
*
10303408 TCCTGAAGTTGCAGTGGA
65 CCCTGAAGTTGCAGTGGA
10303426 TGTAACACCC
Statistics
Matches: 202, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
129 197 0.98
130 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (129 bp):
GATTAAAATCACAGATCTTATCTCTCTGAAGTTTCAGTAGAGCAGATCGCATCCAGTATTATCTC
CCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTACAGTAGAGCG
Found at i:10303407 original size:85 final size:84
Alignment explanation
Indices: 10303083--10303422 Score: 267
Period size: 85 Copynumber: 4.0 Consensus size: 84
10303073 CGTAGTTAAA
* * *
10303083 CAGATTGAAAATCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCAGTTTTAT
1 CAGATT-AAAATC-CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTAT
* ** *
10303148 CTCCCTGAAGTTGTAGTGGAG
64 CTCTCTGAAGTTACAGTAGAG
** * * * * *
10303169 CAGACAGAAGAAACCA-ATCCTATCTCTCTGAAGTTACAGTAGAGCGGATTAAAATCACAGATCT
1 CAGA-TTAA-AATCCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TAGAATC-CAG-TCT
*
10303233 TATCTCTCTGAAGTTTCAGTAGAG
61 TATCTCTCTGAAGTTACAGTAGAG
*** * * * * *
10303257 CAGA-TCGCATCCAG-TATTATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCCT
1 CAGATTAAAATCCAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG-CAGATAGAATCCAGTCTT
*
10303319 ATCTCTCTAAAGTTACAGTAGAG
62 ATCTCTCTGAAGTTACAGTAGAG
* * * *
10303342 CGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATC
1 CAGATTAAAATC-CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATC
*
10303407 T-TCCTGAAGTTGCAGT
65 TCT-CTGAAGTTACAGT
10303423 GGATGTAACA
Statistics
Matches: 195, Mismatches: 44, Indels: 31
0.72 0.16 0.11
Matches are distributed among these distances:
84 5 0.03
85 104 0.53
86 20 0.10
87 15 0.08
88 48 0.25
89 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (84 bp):
CAGATTAAAATCCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCT
CTCTGAAGTTACAGTAGAG
Found at i:10304897 original size:104 final size:104
Alignment explanation
Indices: 10304639--10304997 Score: 587
Period size: 104 Copynumber: 3.5 Consensus size: 104
10304629 TAACCGTTAT
* * *
10304639 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
10304704 AATCAGCACTTAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
**
10304742 TAATGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10304807 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
10304846 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCATCATTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10304911 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* *
10304951 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCAC
10304998 ACAACAACCC
Statistics
Matches: 238, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
103 83 0.35
104 95 0.40
105 59 0.25
106 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:10310326 original size:28 final size:29
Alignment explanation
Indices: 10310269--10310324 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
10310259 CCGAGCCTTG
*
10310269 GGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10310298 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
10310325 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (29 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10310554 original size:13 final size:13
Alignment explanation
Indices: 10310536--10310567 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10310526 TTTCCAGCAA
10310536 TTATGAATTTATT
1 TTATGAATTTATT
10310549 TTATGAATTTATT
1 TTATGAATTTATT
*
10310562 TGATGA
1 TTATGA
10310568 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10310775 original size:50 final size:50
Alignment explanation
Indices: 10310662--10310903 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10310652 ATTTGGGTAA
* * *
10310662 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10310718 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10310768 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10310818 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10310868 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10310904 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10310851 original size:100 final size:103
Alignment explanation
Indices: 10310662--10310911 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10310652 ATTTGGGTAA
10310662 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10310727 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10310768 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10310830 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10310868 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10310912 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10315249 original size:104 final size:104
Alignment explanation
Indices: 10315001--10315371 Score: 566
Period size: 104 Copynumber: 3.6 Consensus size: 104
10314991 TAACCGTTAT
* * * *
10315001 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
10315066 AATCAGCACTTAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*** *
10315104 CAATGGATATCGCACTTAGCACCACCAATGAACTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10315169 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
10315208 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
10315273 AATCAGCACATAGCAACCCCCTTTTCACATTTCAATGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* * * **
10315313 TGGTGGATCA-CACACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
10315372 TTATATACAA
Statistics
Matches: 245, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
103 80 0.33
104 95 0.39
105 69 0.28
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:10315737 original size:31 final size:30
Alignment explanation
Indices: 10315706--10315763 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10315696 CCACTCAACT
10315706 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
10315736 TTTTGCATAATTACATTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
10315764 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:10316666 original size:44 final size:43
Alignment explanation
Indices: 10316603--10316933 Score: 235
Period size: 44 Copynumber: 7.7 Consensus size: 43
10316593 AAACAAATCC
** *
10316603 TATCTCTCTAAAGTTGCAGTAGAGTGGATTAAAATCATAGATCT
1 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAATC-CAGATCT
***
10316647 TATCTCTCTAAAGTTGCAGTAGAGCAGA-TCGCATCCAG-TCT
1 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAATCCAGATCT
* * * * * ** * *
10316688 TATCTCCCTGAAGTTGCGGTGGAGCAAACAGAAGAAACCA-ATCC
1 TATCTCTCTAAAGTTGCAGTAGAGCAGA-TTAA-AATCCAGATCT
* * *
10316732 TATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCATAGATCT
1 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAATC-CAGATCT
* ***
10316776 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCCAG-TCT
1 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAATCCAGATCT
* * * * *
10316817 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAGT-CA-ATCC
1 TATCTCTCTAAAGTTGCAGTAGAGCAGAT-TAA-AA-TCCAGATCT
* * * * * *
10316861 TATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACCGCAGATAT
1 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAATC-CAGATCT
*
10316905 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCTCTAAAGTTGCAGTAGAGCAGAT
10316934 CGCATCAGAT
Statistics
Matches: 224, Mismatches: 49, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
41 55 0.25
42 9 0.04
43 15 0.07
44 144 0.64
45 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAATCCAGATCT
Found at i:10316807 original size:129 final size:129
Alignment explanation
Indices: 10316575--10316939 Score: 577
Period size: 129 Copynumber: 2.8 Consensus size: 129
10316565 CGGGCTGTTA
* * * *
10316575 CAGTGGAGTAGACAGAAGAAACAAATCCTATCTCTCTAAAGTTGCAGTAGAGTGGATTAAAATCA
1 CAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCA
*
10316640 TAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
66 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* *
10316704 CGGTGGAGCAAACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCA
1 CAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCA
10316769 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
66 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* ** * * * * *
10316833 CAGTGGAGCAGATAGAAGAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACCG
1 CAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCA
* *
10316898 CAGATATTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
66 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
10316940 AGATTTTATT
Statistics
Matches: 217, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 217 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (129 bp):
CAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCA
TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
Found at i:10317009 original size:129 final size:129
Alignment explanation
Indices: 10316598--10317010 Score: 355
Period size: 129 Copynumber: 3.2 Consensus size: 129
10316588 AGAAGAAACA
* * * * * * * * * *
10316598 AATCCTATCTCTCTAAAGTTGCAGTAGAGTGGATTAAAATCATAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCGCACTGAAGTAGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTG
* * * ** * * * **
10316663 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCGGTGGAGCAAACAGAAGAAACC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGATGCAGTAAAACAGATAGAAGAAGTC
* * * * * * * *
10316727 AATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAATCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCGCACTGAAGTAGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTG
* * ** *
10316792 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAGTC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGATGCAGTAAAACAGATAGAAGAAGTC
* * * * *
10316856 AATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACCGCAGATATTATCTCTCTGAAGTTG
1 AATCCTATCGCACTGAAGTAGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTG
* * * * * **
10316921 CAGTAGAGCAGATCGCAT-CAGATTTTATTTTCTTAAAGATGCAGTAAAACA-AGTTGAAGCTG-
66 CAGTAGAGCAGATCGCATCCAG-TCTTATCTCCCTAAAGATGCAGTAAAACAGA-TAGAAGAAGT
10316983 C
129 C
* *
10316984 AAGTCTTATCGCACTGAGGTAGCAGTG
1 AA-TCCTATCGCACTGAAGTAGCAGTG
10317011 TAGAAGACTG
Statistics
Matches: 249, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
128 7 0.03
129 242 0.97
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
AATCCTATCGCACTGAAGTAGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGATGCAGTAAAACAGATAGAAGAAGTC
Found at i:10317884 original size:22 final size:23
Alignment explanation
Indices: 10317838--10317885 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10317828 GTGTTCTTGA
* *
10317838 TTTTGATCTTTTCTATTTACTTT
1 TTTTCATCTTTTCTATTTACATT
*
10317861 TTTTCATCTTTT-TATTTCCATT
1 TTTTCATCTTTTCTATTTACATT
10317883 TTT
1 TTT
10317886 GTATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTCATCTTTTCTATTTACATT
Found at i:10318750 original size:14 final size:13
Alignment explanation
Indices: 10318731--10318778 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
10318721 GTTACTACTA
*
10318731 TTATATCATTAGTT
1 TTATATTATTA-TT
10318745 TTATATTATTATT
1 TTATATTATTATT
*
10318758 GTTATATTTTTATT
1 -TTATATTATTATT
10318772 TTATATT
1 TTATATT
10318779 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:10318863 original size:20 final size:20
Alignment explanation
Indices: 10318838--10318894 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
10318828 TAACTATTTA
*
10318838 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
10318858 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
* *
10318878 TATATATATATGTATCT
1 TATATATCTATATATCT
10318895 CTTTATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:10319675 original size:7 final size:8
Alignment explanation
Indices: 10319645--10319674 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
10319635 GCACACGAAT
10319645 TTTTTTTA
1 TTTTTTTA
10319653 TTTTTTTA
1 TTTTTTTA
10319661 TTTTTTTA
1 TTTTTTTA
10319669 TTTTTT
1 TTTTTT
10319675 AACTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10322884 original size:125 final size:124
Alignment explanation
Indices: 10322671--10322943 Score: 420
Period size: 125 Copynumber: 2.2 Consensus size: 124
10322661 GTTTATGCGT
*
10322671 TTTTGCTACAGTAGGTCCTAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAT
1 TTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAT
* * * * *
10322736 CGCTTCTAGCAAAATGATGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGGACGCGC
66 CGCTTCAAACAAAATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGC
*
10322795 TTTTGCTACGGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA
1 TTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA
** * * *
10322860 TCGCTTCAAACAGGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGATGCGC
65 TCGCTTCAAACAAAATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGC
*
10322920 TTTTGCTACAGTAAGTCCTGAAAA
1 TTTTGCTACAGTAGGTCCTGAAAA
10322944 TTGAGAGGAA
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
124 23 0.17
125 111 0.83
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (124 bp):
TTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAT
CGCTTCAAACAAAATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGC
Found at i:10332973 original size:21 final size:21
Alignment explanation
Indices: 10332939--10332979 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10332929 AGAAGAAGAA
*
10332939 CCCAAGAAGTCTAATATCAAG
1 CCCAAGAAGTCTAAGATCAAG
10332960 CCCAAGAAAG-CTAAGATCAA
1 CCCAAG-AAGTCTAAGATCAA
10332980 CTAGTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (21 bp):
CCCAAGAAGTCTAAGATCAAG
Found at i:10342915 original size:10 final size:11
Alignment explanation
Indices: 10342884--10342916 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
10342874 CGACCCACCC
10342884 ATATTAATGTTT
1 ATATTAAT-TTT
10342896 ATATTAATTTT
1 ATATTAATTTT
10342907 ATA-TAATTTT
1 ATATTAATTTT
10342917 TAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:10344756 original size:49 final size:48
Alignment explanation
Indices: 10344684--10344846 Score: 202
Period size: 49 Copynumber: 3.4 Consensus size: 48
10344674 TGTTAAGCCA
* * *
10344684 TGTG-GGGGCACACGGTGTGTGTGATTACACGGGTAAATCAGGTAGGT
1 TGTGTGGGGCACAAGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
* *
10344731 TGTGTGGGGCACATGGGCGTGTGTGATTACATGGGTAAATCAGGTAGGC
1 TGTGTGGGGCACA-AGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
* * * *
10344780 CGTGTGAGGCACACAGGCGTATGCGATTACATGGGTAAATCAGGTAGGT
1 TGTGTGGGGCACA-AGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
*
10344829 TGTGTAGGGCACACAGGC
1 TGTGTGGGGCACA-AGGC
10344847 AAATTAGGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 4 0.04
48 8 0.08
49 88 0.88
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (48 bp):
TGTGTGGGGCACAAGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
Found at i:10345943 original size:22 final size:21
Alignment explanation
Indices: 10345911--10345958 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
10345901 CAAAAATAAC
10345911 AAAAA-TAACAAAATAAAAAT
1 AAAAATTAACAAAATAAAAAT
10345931 AAAAATTATACAAAATAAAAAT
1 AAAAATTA-ACAAAATAAAAAT
10345953 AAAAAT
1 AAAAAT
10345959 AAAATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.19
21 2 0.08
22 19 0.73
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAAATTAACAAAATAAAAAT
Found at i:10345957 original size:23 final size:22
Alignment explanation
Indices: 10345902--10345957 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
10345892 ACATGTATAC
10345902 AAAAATAACAAAAATAACAAAAT
1 AAAAATAA-AAAAATAACAAAAT
*
10345925 AAAAAT-AAAAATTATACAAAAT
1 AAAAATAAAAAAATA-ACAAAAT
10345947 AAAAATAAAAA
1 AAAAATAAAAA
10345958 TAAAATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 6 0.20
22 14 0.47
23 10 0.33
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAAAATAACAAAAT
Found at i:10345963 original size:5 final size:6
Alignment explanation
Indices: 10345920--10345962 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
10345910 CAAAAATAAC
10345920 AAAATA AAAATAA AAATTATA CAAAATA AAAATA AAAATA AAA
1 AAAATA AAAAT-A AAA--ATA -AAAATA AAAATA AAAATA AAA
10345963 TTATAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 20 0.61
7 7 0.21
8 1 0.03
9 5 0.15
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:10353021 original size:25 final size:25
Alignment explanation
Indices: 10352944--10353038 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
10352934 AGACTCACCA
*
10352944 CAGCTCGTATGAGCTTACCGGT-TTG
1 CAGCTCGTATGAGCTTACC-GTATTT
* * **
10352969 CAGCTCGTAAGAACTTATAG-ATTCT
1 CAGCTCGTATGAGCTTACCGTATT-T
*
10352994 CAGTTCGTATGAGCTTACCGTATTT
1 CAGCTCGTATGAGCTTACCGTATTT
* *
10353019 CAGCTCGGAGGAGCTTACCG
1 CAGCTCGTATGAGCTTACCG
10353039 ATTATGGCTC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 3 0.06
25 48 0.89
26 3 0.06
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTATTT
Found at i:10353056 original size:24 final size:25
Alignment explanation
Indices: 10352944--10353056 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
10352934 AGACTCACCA
* *
10352944 CAGCTCGTATGAGCTTACCGGT-TTG
1 CAGCTCGTAAGAGCTTACC-GTATTT
* **
10352969 CAGCTCGTAAGAACTTATAG-ATTCT
1 CAGCTCGTAAGAGCTTACCGTATT-T
* *
10352994 CAGTTCGTATGAGCTTACCGTATTT
1 CAGCTCGTAAGAGCTTACCGTATTT
* *
10353019 CAGCTCGGAGGAGCTTACCG-ATTAT
1 CAGCTCGTAAGAGCTTACCGTATT-T
*
10353044 -GGCTCGTAAGAGC
1 CAGCTCGTAAGAGC
10353057 ATACATGTAC
Statistics
Matches: 68, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
24 16 0.24
25 49 0.72
26 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACCGTATTT
Found at i:10357997 original size:18 final size:17
Alignment explanation
Indices: 10357964--10358002 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10357954 TTGTATAAAT
10357964 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
10357982 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
10357999 TGTG
1 TGTG
10358003 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:10358241 original size:23 final size:23
Alignment explanation
Indices: 10358214--10358289 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
10358204 AGTGTTATTG
*
10358214 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
10358237 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10358260 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10358283 ATCAGTG
1 ATCAGTG
10358290 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:10367818 original size:25 final size:26
Alignment explanation
Indices: 10367756--10367820 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
10367746 AAAAAATAAC
*
10367756 CAAAATATTATAATTTTTTTATTTAT
1 CAAAATATTATAAATTTTTTATTTAT
10367782 CAAAATATTATAAATTTTTTATTTAT
1 CAAAATATTATAAATTTTTTATTTAT
10367808 CAAAATA-TATAAA
1 CAAAATATTATAAA
10367821 AACAAAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 6 0.16
26 32 0.84
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
CAAAATATTATAAATTTTTTATTTAT
Found at i:10368524 original size:15 final size:15
Alignment explanation
Indices: 10368504--10368533 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10368494 ATTACCAAAA
10368504 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
10368519 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
10368534 GAGAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
TAGAGTTTATTAAAT
Found at i:10371803 original size:25 final size:25
Alignment explanation
Indices: 10371775--10371827 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
10371765 CGCGAAAGCT
10371775 GATCGTAAAGTTTGTCAAAGTCGCG
1 GATCGTAAAGTTTGTCAAAGTCGCG
10371800 GATCGTAAAGTTTGTCAAAGTCGCG
1 GATCGTAAAGTTTGTCAAAGTCGCG
10371825 GAT
1 GAT
10371828 TTAACTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (25 bp):
GATCGTAAAGTTTGTCAAAGTCGCG
Found at i:10371930 original size:13 final size:14
Alignment explanation
Indices: 10371904--10371936 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10371894 TCCAAGTCAC
10371904 ATAAAAAAGTTAAA
1 ATAAAAAAGTTAAA
*
10371918 ATAAATAAG-TAAA
1 ATAAAAAAGTTAAA
10371931 ATAAAA
1 ATAAAA
10371937 CAATAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
ATAAAAAAGTTAAA
Found at i:10372158 original size:25 final size:25
Alignment explanation
Indices: 10372129--10372179 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10372119 AAACTCTTCT
*
10372129 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTATTA
10372154 AAAAGAAACTCAAGAGAAATTATTA
1 AAAAGAAACTCAAGAGAAATTATTA
10372179 A
1 A
10372180 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTA
Found at i:10373447 original size:52 final size:52
Alignment explanation
Indices: 10373339--10373453 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 52
10373329 CTTTTAAAAT
* * * * *** *
10373339 TTTAAAAAAATTGGATGTTGGGACACTGACGTCCGACATCTTTATACCAGTT
1 TTTAAAAAAATTGGATATTGGGACACTGACGGCCAACACCCCAATACCAGTA
*
10373391 TTTAAAAAAATTGGGATATTGGGACACTGATGGCCAACACCCCAATACCAG-A
1 TTTAAAAAAATT-GGATATTGGGACACTGACGGCCAACACCCCAATACCAGTA
10373443 TTTAAAAAAAT
1 TTTAAAAAAAT
10373454 AATGTTGGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 23 0.43
53 30 0.57
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (52 bp):
TTTAAAAAAATTGGATATTGGGACACTGACGGCCAACACCCCAATACCAGTA
Found at i:10376113 original size:13 final size:14
Alignment explanation
Indices: 10376069--10376113 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
10376059 TTTTTTTAAA
10376069 TTAAATTCTATTCTT
1 TTAAATT-TATTCTT
*
10376084 TTAAATTTATTCAT
1 TTAAATTTATTCTT
*
10376098 TTAAA-TTATTTTT
1 TTAAATTTATTCTT
10376111 TTA
1 TTA
10376114 TTAAACTCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 9 0.33
14 11 0.41
15 7 0.26
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAAATTTATTCTT
Found at i:10376337 original size:17 final size:18
Alignment explanation
Indices: 10376315--10376350 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10376305 ATTTTTTATC
10376315 TTTAC-ATACAAAATTGA
1 TTTACAATACAAAATTGA
10376332 TTTACAGATACAAAATTGA
1 TTTACA-ATACAAAATTGA
10376351 ATCACAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (18 bp):
TTTACAATACAAAATTGA
Found at i:10376357 original size:19 final size:19
Alignment explanation
Indices: 10376320--10376358 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10376310 TTATCTTTAC
* *
10376320 ATACAAAATTGATTTACAG
1 ATACAAAATTGAATCACAG
10376339 ATACAAAATTGAATCACAG
1 ATACAAAATTGAATCACAG
10376358 A
1 A
10376359 GATAAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (19 bp):
ATACAAAATTGAATCACAG
Found at i:10380321 original size:126 final size:126
Alignment explanation
Indices: 10380096--10380459 Score: 613
Period size: 126 Copynumber: 2.9 Consensus size: 126
10380086 CCAAACATGT
* * *
10380096 GCCACTGTAACAAAAGTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
10380161 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAG-A
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT-AAGAA
10380222 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
10380287 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTTAGAA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAAGAA
* * *
10380348 GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTTCAGTACTTCTGTTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
10380413 GCTTAAAACGTTTCTGACACTATTTGCTCAGAAACGTCTACTCGAAA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAA
10380460 GTCTACTCGA
Statistics
Matches: 225, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
125 2 0.01
126 223 0.99
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (126 bp):
GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAAGAA
Found at i:10380465 original size:12 final size:13
Alignment explanation
Indices: 10380443--10380471 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10380433 TATTTGCTCA
10380443 GAAACGTCTACTC
1 GAAACGTCTACTC
10380456 GAAA-GTCTACTC
1 GAAACGTCTACTC
10380468 GAAA
1 GAAA
10380472 TTATTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (13 bp):
GAAACGTCTACTC
Found at i:10380733 original size:95 final size:93
Alignment explanation
Indices: 10380574--10380773 Score: 244
Period size: 95 Copynumber: 2.1 Consensus size: 93
10380564 AACCTTAATT
* *
10380574 ATTTAAGT-TTTTACTTAAAACCCTAAACACTAACCCCTAATCAAATTTTATAAAAATTTATAAT
1 ATTTAATTATTTTACTTAAAACCCTAAACACTAAACCCTAATCAAATTTTATAAAAATTTATAAT
* * *
10380638 TAATTTACTCAAGTAATCCTGAACCCTA
66 TAAATTACTCAAGTAACCCTAAACCCTA
* * * * * *
10380666 ATTTATTTGATTTTCCTTAAAAACCCTTAACTCTAAACCCTTATCTAATTTT-TAAATAATATT-
1 ATTTAATT-ATTTTACTT-AAAACCCTAAACACTAAACCCTAATCAAATTTTATAAA-AAT-TTA
10380729 TAATTAAATTACTCAAGTAACCCTAAACCCTA
62 TAATTAAATTACTCAAGTAACCCTAAACCCTA
10380761 ATTTAATTATTTT
1 ATTTAATTATTTT
10380774 TTTATTAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
92 6 0.07
94 16 0.18
95 67 0.74
96 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.40
Consensus pattern (93 bp):
ATTTAATTATTTTACTTAAAACCCTAAACACTAAACCCTAATCAAATTTTATAAAAATTTATAAT
TAAATTACTCAAGTAACCCTAAACCCTA
Found at i:10381277 original size:25 final size:24
Alignment explanation
Indices: 10381249--10381308 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
10381239 ATTATAAAGT
**
10381249 AAATATTAAAATATAGTTAAATATA
1 AAATATTAAAA-ATAGAAAAATATA
* *
10381274 AAATTTTAATAAATAGAAAAATATT
1 AAATATTAA-AAATAGAAAAATATA
10381299 AAATATTAAA
1 AAATATTAAA
10381309 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 26 0.90
26 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (24 bp):
AAATATTAAAAATAGAAAAATATA
Found at i:10389605 original size:38 final size:37
Alignment explanation
Indices: 10389562--10389675 Score: 92
Period size: 37 Copynumber: 3.0 Consensus size: 37
10389552 TTATAAAAAT
10389562 TTATTTTAAAATATATAAAAATGTAAAAAATATTTAAA
1 TTATTTTAAAATATATAAAAAT-TAAAAAATATTTAAA
* * *
10389600 TTA-TTTAAAAAAT-TAAATATT-ATAAATATTTATTAA
1 TTATTTTAAAATATATAAAAATTAAAAAATATTTA--AA
* *
10389636 ATATTTTAAAAT-TATTAAAAATCATAAAAGATTATTTAAA
1 TTATTTTAAAATATA-TAAAAAT--TAAAA-AATATTTAAA
10389676 ATTTGTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
34 10 0.17
35 1 0.02
36 11 0.19
37 16 0.27
38 9 0.15
40 3 0.05
41 2 0.03
42 7 0.12
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (37 bp):
TTATTTTAAAATATATAAAAATTAAAAAATATTTAAA
Found at i:10389625 original size:45 final size:45
Alignment explanation
Indices: 10389570--10389656 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
10389560 ATTTATTTTA
10389570 AAATATATAAAAATGTAAAAAATA-TTT-AAATTATTTAAAAAATT
1 AAATATATAAAAATGTAAAAAATATTTTAAAATTA-TTAAAAAATT
* * **
10389614 AAATATTATAAATATTTATTAAATATTTTAAAATTATTAAAAA
1 AAATA-TATAAAAATGTAAAAAATATTTTAAAATTATTAAAAA
10389657 TCATAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 5 0.14
45 15 0.42
46 10 0.28
47 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (45 bp):
AAATATATAAAAATGTAAAAAATATTTTAAAATTATTAAAAAATT
Found at i:10389636 original size:20 final size:18
Alignment explanation
Indices: 10389611--10389712 Score: 71
Period size: 20 Copynumber: 5.3 Consensus size: 18
10389601 TATTTAAAAA
10389611 ATTAAATATTATAAATATTT
1 ATTAAATATTATAAA-A-TT
*
10389631 ATTAAATATTTTAAAATT
1 ATTAAATATTATAAAATT
* *
10389649 ATTAAAAATCATAAAAGATT
1 ATTAAATATTAT-AAA-ATT
*
10389669 ATTTAAA-ATTTGTAAAAATT
1 A-TTAAATA-TTAT-AAAATT
* *
10389689 ATTAAATATTGTGAAATCT
1 ATTAAATATTATAAAAT-T
10389708 ATTAA
1 ATTAA
10389713 TAAAAGTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
18 15 0.22
19 19 0.28
20 24 0.35
21 11 0.16
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (18 bp):
ATTAAATATTATAAAATT
Found at i:10389656 original size:10 final size:10
Alignment explanation
Indices: 10389536--10389694 Score: 67
Period size: 10 Copynumber: 16.3 Consensus size: 10
10389526 TTATCAGACC
10389536 AAAAATT-TAT
1 AAAAATTAT-T
10389546 AAAAATT-TAT
1 AAAAATTAT-T
10389556 AAAAATTTATTT
1 AAAAA-TTA-TT
*
10389568 TAAAA-TATAT
1 AAAAATTAT-T
10389578 AAAAATGTA--
1 AAAAAT-TATT
10389587 AAAAA-TATT
1 AAAAATTATT
*
10389596 -TAAATTATTT
1 AAAAATTA-TT
10389606 AAAAA--ATT
1 AAAAATTATT
*
10389614 AAATATTA-T
1 AAAAATTATT
*
10389623 AAATATTTATT
1 AAA-AATTATT
*
10389634 AAATATT-TT
1 AAAAATTATT
10389643 -AAAATTATT
1 AAAAATTATT
*
10389652 AAAAATCA-T
1 AAAAATTATT
10389661 AAAAGATTATT
1 AAAA-ATTATT
*
10389672 TAAAATT-TGT
1 AAAAATTAT-T
10389682 AAAAATTATT
1 AAAAATTATT
10389692 AAA
1 AAA
10389695 TATTGTGAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 42
0.67 0.08 0.25
Matches are distributed among these distances:
7 2 0.02
8 14 0.12
9 23 0.20
10 53 0.46
11 14 0.12
12 7 0.06
13 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (10 bp):
AAAAATTATT
Found at i:10390015 original size:10 final size:10
Alignment explanation
Indices: 10389981--10390069 Score: 75
Period size: 10 Copynumber: 9.5 Consensus size: 10
10389971 ATATTTATAT
10389981 TTTTTAATAA
1 TTTTTAATAA
*
10389991 TTATTT-ATGA
1 TT-TTTAATAA
10390001 TTTTTAATAA
1 TTTTTAATAA
10390011 TTTTTAA-AA
1 TTTTTAATAA
* *
10390020 -ATTT-ATGA
1 TTTTTAATAA
10390028 TTTTTAATAA
1 TTTTTAATAA
10390038 TTTTTAA-AA
1 TTTTTAATAA
* *
10390047 -ATTT-ATGA
1 TTTTTAATAA
10390055 TTTTTAATAA
1 TTTTTAATAA
10390065 TTTTT
1 TTTTT
10390070 TTACAATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
7 2 0.03
8 8 0.13
9 13 0.21
10 35 0.57
11 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:10390023 original size:27 final size:27
Alignment explanation
Indices: 10389993--10390069 Score: 154
Period size: 27 Copynumber: 2.9 Consensus size: 27
10389983 TTTAATAATT
10389993 ATTTATGATTTTTAATAATTTTTAAAA
1 ATTTATGATTTTTAATAATTTTTAAAA
10390020 ATTTATGATTTTTAATAATTTTTAAAA
1 ATTTATGATTTTTAATAATTTTTAAAA
10390047 ATTTATGATTTTTAATAATTTTT
1 ATTTATGATTTTTAATAATTTTT
10390070 TTACAATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTTATGATTTTTAATAATTTTTAAAA
Found at i:10390057 original size:17 final size:17
Alignment explanation
Indices: 10390010--10390067 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
10390000 ATTTTTAATA
10390010 ATTTTTAAAAATTTATG
1 ATTTTTAAAAATTTATG
10390027 ATTTTT---AA--TA--
1 ATTTTTAAAAATTTATG
10390037 ATTTTTAAAAATTTATG
1 ATTTTTAAAAATTTATG
*
10390054 ATTTTTAATAATTT
1 ATTTTTAAAAATTT
10390068 TTTTACAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
10 6 0.18
12 2 0.06
13 2 0.06
14 2 0.06
15 2 0.06
17 19 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTTAAAAATTTATG
Found at i:10390081 original size:20 final size:20
Alignment explanation
Indices: 10390056--10390112 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
10390046 AATTTATGAT
*
10390056 TTTTAATAATTTTTTTACAA
1 TTTTAATAATTTTTTAACAA
10390076 TTTTAA-AATATTTTTAACAA
1 TTTTAATAAT-TTTTTAACAA
* *
10390096 TATTTGATAATTATTTA
1 T-TTTAATAATTTTTTA
10390113 CATATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 16 0.52
21 9 0.29
22 3 0.10
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTAATAATTTTTTAACAA
Found at i:10390125 original size:35 final size:34
Alignment explanation
Indices: 10390084--10390153 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
10390074 AATTTTAAAA
*
10390084 TATTTTTAACAATATTTGATA-ATTATTTACATATT
1 TATTTTTAACAAT-TTTGATATATT-TTTAAATATT
* *
10390119 TATTTTTTACAATTTTTATATATTTTTAAATATT
1 TATTTTTAACAATTTTGATATATTTTTAAATATT
10390153 T
1 T
10390154 TACGATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (34 bp):
TATTTTTAACAATTTTGATATATTTTTAAATATT
Found at i:10390144 original size:20 final size:20
Alignment explanation
Indices: 10390066--10390145 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
10390056 TTTTAATAAT
* *
10390066 TTTTTTACAATTTTAAAATA
1 TTTTTTACAATTTTTATATA
* *
10390086 TTTTTAACAATATTTGATA-A
1 TTTTTTACAAT-TTTTATATA
* *
10390106 TTATTTAC-A----TATTTA
1 TTTTTTACAATTTTTATATA
10390121 TTTTTTACAATTTTTATATA
1 TTTTTTACAATTTTTATATA
10390141 TTTTT
1 TTTTT
10390146 AAATATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 2 0.05
15 8 0.18
16 1 0.02
19 1 0.02
20 27 0.61
21 5 0.11
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTTTACAATTTTTATATA
Found at i:10392210 original size:24 final size:25
Alignment explanation
Indices: 10392168--10392217 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
10392158 GGCCTTGAGT
10392168 CGGTGTTATCTATCAGGCTTTGTGC
1 CGGTGTTATCTATCAGGCTTTGTGC
* *
10392193 CGGTG-TATTTATCGGGCTTTGTGC
1 CGGTGTTATCTATCAGGCTTTGTGC
10392217 C
1 C
10392218 TAGCAGGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.10, C:0.20, G:0.30, T:0.40
Consensus pattern (25 bp):
CGGTGTTATCTATCAGGCTTTGTGC
Found at i:10392244 original size:40 final size:40
Alignment explanation
Indices: 10392181--10392272 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
10392171 TGTTATCTAT
* ** *
10392181 CAGGCTTTGTGCCGGTGTATTTATCGGGCTTTGTGCCTAG
1 CAGGCTTTGTGTCAATGTATTTATCGGGCTCTGTGCCTAG
* * *
10392221 CAGGCTTTGTGTCAATGTGTTTATTGGGCTCTGTGTCTAG
1 CAGGCTTTGTGTCAATGTATTTATCGGGCTCTGTGCCTAG
*
10392261 TAGGCTTTGTGT
1 CAGGCTTTGTGT
10392273 TGGTGTTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.11, C:0.16, G:0.32, T:0.41
Consensus pattern (40 bp):
CAGGCTTTGTGTCAATGTATTTATCGGGCTCTGTGCCTAG
Found at i:10392290 original size:25 final size:25
Alignment explanation
Indices: 10392273--10392332 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
10392263 GGCTTTGTGT
10392273 TGGTGTTATCTATCAGGCCTTGAGC
1 TGGTGTTATCTATCAGGCCTTGAGC
* * *
10392298 TGGTGTTGTCTATCAAGCATTGAGC
1 TGGTGTTATCTATCAGGCCTTGAGC
10392323 TGGTGGTTAT
1 TGGT-GTTAT
10392333 TTAGCAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.17, C:0.15, G:0.30, T:0.38
Consensus pattern (25 bp):
TGGTGTTATCTATCAGGCCTTGAGC
Found at i:10413995 original size:40 final size:41
Alignment explanation
Indices: 10413881--10413995 Score: 128
Period size: 40 Copynumber: 2.8 Consensus size: 41
10413871 AGCGGAATTT
* **
10413881 TTAGTGGCGTTTGGCCAAAAAAGCGCCGCTAAAAATCGAGCA
1 TTAGCGGCGTTTTTCCAAAAAA-CGCCGCTAAAAATCGAGCA
* *
10413923 TTAGCGGCG-CTTTACATAAAAA-GCCGCTAAAAAT-GAGCA
1 TTAGCGGCGTTTTTCCA-AAAAACGCCGCTAAAAATCGAGCA
* *
10413962 TTAGCGGCGTTTTTCCAAAAAACGCTGCAAAAAA
1 TTAGCGGCGTTTTTCCAAAAAACGCCGCTAAAAA
10413996 CCTAAGCCGA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
39 19 0.31
40 26 0.43
41 3 0.05
42 13 0.21
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGTTTTTCCAAAAAACGCCGCTAAAAATCGAGCA
Found at i:10414137 original size:20 final size:19
Alignment explanation
Indices: 10414109--10414154 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
10414099 CCGCAAAAAC
*
10414109 ATTTTATTTGTCTATTTACT
1 ATTTAATTTGTCTATTTA-T
*
10414129 ATTTAATTTGTTTATTTAT
1 ATTTAATTTGTCTATTTAT
10414148 A-TTAATT
1 ATTTAATT
10414155 AAAATTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTAATTTGTCTATTTAT
Done.