Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 298 of 322
Found at i:99001449 original size:12 final size:12
Alignment explanation
Indices: 99001432--99001464 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
99001422 TTTTCTTTTA
99001432 TATTTATTTACT
1 TATTTATTTACT
*
99001444 TATTTATTTAGT
1 TATTTATTTACT
99001456 TA-TTATTTA
1 TATTTATTTA
99001465 TCATGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTTATTTACT
Found at i:99001629 original size:56 final size:60
Alignment explanation
Indices: 99001557--99001700 Score: 161
Period size: 64 Copynumber: 2.4 Consensus size: 60
99001547 TATTTCTCAT
* * *
99001557 ATACTTGAATCTAATATCACTTATTT-TATTTATTTA-T-TTATTCTTTTA-CTTTTAAA
1 ATACTTAAATTTAATATTACTTATTTCTATTTATTTATTATTATTCTTTTATCTTTTAAA
* * *
99001613 ATACTTAAATTTAATATTATTTGTTTTGCCTATTTATTTATTTATTATTCTTTTATTTTTTAAA
1 ATACTTAAATTTAATATTACTT-ATTT--CTATTTATTTA-TTATTATTCTTTTATCTTTTAAA
*
99001677 ATATTTAAATTTAATATTACTTAT
1 ATACTTAAATTTAATATTACTTAT
99001701 ACTTCCCTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 18 0.25
57 3 0.04
60 10 0.14
62 1 0.01
63 12 0.17
64 27 0.38
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (60 bp):
ATACTTAAATTTAATATTACTTATTTCTATTTATTTATTATTATTCTTTTATCTTTTAAA
Found at i:99014160 original size:16 final size:15
Alignment explanation
Indices: 99014139--99014169 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
99014129 ATTAACCATA
99014139 TATTTAGTTATTTTTT
1 TATTTAGTT-TTTTTT
99014155 TATTTAGTTTTTTTT
1 TATTTAGTTTTTTTT
99014170 ATATAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (15 bp):
TATTTAGTTTTTTTT
Found at i:99014833 original size:35 final size:35
Alignment explanation
Indices: 99014762--99014835 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
99014752 TTTTTTCTTG
* *
99014762 TTATGTTATGCTTGAAAGTGTTGTTAAGGGATTAC
1 TTATGTTATGCTTGAAAGTGTTGTTAAGGAACTAC
99014797 TTATGTT-TGCTTGAAAGT-TTGTTAAGGAAAACTAC
1 TTATGTTATGCTTGAAAGTGTTGTTAAGG--AACTAC
99014832 TTAT
1 TTAT
99014836 ATTTATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 9 0.26
34 11 0.31
35 15 0.43
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (35 bp):
TTATGTTATGCTTGAAAGTGTTGTTAAGGAACTAC
Found at i:99014863 original size:11 final size:11
Alignment explanation
Indices: 99014832--99014865 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
99014822 GGAAAACTAC
99014832 TTATATTTATA
1 TTATATTTATA
*
99014843 TTAAATTTATA
1 TTATATTTATA
*
99014854 TTATAGTTATA
1 TTATATTTATA
99014865 T
1 T
99014866 CATCAATGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
TTATATTTATA
Found at i:99022233 original size:288 final size:287
Alignment explanation
Indices: 99021718--99022243 Score: 1007
Period size: 288 Copynumber: 1.8 Consensus size: 287
99021708 AATGATCTAG
99021718 AAACCAAGGAAAATTGATGAATAAGGACCAAATTGAATAGGTGAAGAATTATGAGGGAATAAATT
1 AAACCAAGGAAAATTGATGAATAAGGACCAAATTGAATAGGTGAAGAATTATGAGGGAATAAATT
99021783 ACAATTTTACCAAATTAAGTGATGACTCAAGAATAAAATTTAAAAGATCACAAAGGGCAAAATGG
66 ACAATTTTACCAAATTAAGTGATGACTCAAGAATAAAATTTAAAAGATCACAAAGGGCAAAATGG
*
99021848 TCAATTGGAAGAGAGAGAAGTCTAGAAAGTAATGATGATGTTGGTGATATTTTATAGTTATTTAA
131 TCAATTGGAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATATTTTATAGTTATTTAA
99021913 TTAGATAATTATTATTTATTTAATATTTTAATAAGATATTTTATTATTTTATTTAGTCTATATAT
196 TTAGATAATTATTATTTATTTAATATTTTAATAAGATATTTTATTATTTTATTTAGTCTATATAT
99021978 ATATATGTGTGTGTGTGTGTGGAAAAA
261 ATATATGTGTGTGTGTGTGTGGAAAAA
99022005 AAACCAAGGAAAATTGATGAATAAGGACCAAATTGAATAGGTGAAGAATTATGAGGGAATAAATT
1 AAACCAAGGAAAATTGATGAATAAGGACCAAATTGAATAGGTGAAGAATTATGAGGGAATAAATT
* *
99022070 ACAATTTTACCAAATTAAGTGATGACTCAAGAATGGAATTTTAAAAGATCACAAAGGGCAAAATG
66 ACAATTTTACCAAATTAAGTGATGACTCAAGAAT-AAAATTTAAAAGATCACAAAGGGCAAAATG
99022135 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATATTTTATAGTTATTTA
130 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATATTTTATAGTTATTTA
*
99022200 ATTAGATAATTCTTATTTATTTAATATTTTAATAAGATATTTTA
195 ATTAGATAATTATTATTTATTTAATATTTTAATAAGATATTTTA
99022244 ATAAGATATT
Statistics
Matches: 234, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
287 99 0.42
288 135 0.58
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (287 bp):
AAACCAAGGAAAATTGATGAATAAGGACCAAATTGAATAGGTGAAGAATTATGAGGGAATAAATT
ACAATTTTACCAAATTAAGTGATGACTCAAGAATAAAATTTAAAAGATCACAAAGGGCAAAATGG
TCAATTGGAAGAGAGAGAAATCTAGAAAGTAATGATGATGTTGGTGATATTTTATAGTTATTTAA
TTAGATAATTATTATTTATTTAATATTTTAATAAGATATTTTATTATTTTATTTAGTCTATATAT
ATATATGTGTGTGTGTGTGTGGAAAAA
Found at i:99022241 original size:13 final size:13
Alignment explanation
Indices: 99022223--99022256 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
99022213 TATTTATTTA
99022223 ATATTTTAATAAG
1 ATATTTTAATAAG
99022236 ATATTTTAATAAG
1 ATATTTTAATAAG
99022249 ATATTTTA
1 ATATTTTA
99022257 TTATTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:99031922 original size:16 final size:16
Alignment explanation
Indices: 99031901--99031936 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
99031891 CTTATTTATA
99031901 AAGTTTGTAAAATGGG
1 AAGTTTGTAAAATGGG
99031917 AAGTTTGTAAAATGGG
1 AAGTTTGTAAAATGGG
99031933 AAGT
1 AAGT
99031937 AAGATGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (16 bp):
AAGTTTGTAAAATGGG
Found at i:99032910 original size:19 final size:19
Alignment explanation
Indices: 99032886--99032923 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
99032876 TGAAAATGTG
99032886 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
99032905 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
99032924 CATGATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:99052931 original size:26 final size:26
Alignment explanation
Indices: 99052842--99053109 Score: 191
Period size: 26 Copynumber: 10.3 Consensus size: 26
99052832 GATAATAGTA
*
99052842 CCTGCT-AATAATTCACTGGCTTCAA-G
1 CCTGCTAAATAA-TCACCGGC-TCAAGG
* * * *
99052868 CCTACTAAAATAAACACCAGCTCATGG
1 CCTGCT-AAATAATCACCGGCTCAAGG
*** * *
99052895 CCTTAGAAATAACCATCGGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* *
99052921 CCTGCTTAATAGTCACCGGCTCATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* ** * *
99052947 CATGCTACTTAAGCACCGGTTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* **
99052973 CCTACTAAATAATCACCTACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* *
99052999 CTTGCTAAATAATCACCGACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * *
99053025 ACTCCTAAATAAACACCGGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* *
99053051 CCTGCTAAATAACCACCGACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * * *
99053077 CCTCCTAAATAAACATCGGCTCATGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
99053103 CTTGCTA
1 CCTGCTA
99053110 GATATCATAT
Statistics
Matches: 184, Mismatches: 53, Indels: 10
0.74 0.21 0.04
Matches are distributed among these distances:
25 1 0.01
26 168 0.91
27 10 0.05
28 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAGG
Found at i:99052989 original size:52 final size:52
Alignment explanation
Indices: 99052875--99053109 Score: 215
Period size: 52 Copynumber: 4.5 Consensus size: 52
99052865 AAGCCTACTA
* * * * *
99052875 AAATAAACACCAGCTCATGGCCTTAG--AAATAACCATCGGCTCAAGGCCTGCT
1 AAATAAACACCGGCTCAAGG-CTT-GCTAAATAACCACCGACTCAAGGCCTCCT
* ** * ** * ** *
99052927 TAATAGTCACCGGCTCATA-GCATGCTACTTAAGCACCGGTTCAAGGCCTACT
1 AAATAAACACCGGCTCA-AGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
* ** * *
99052979 AAATAATCACCTACTCAAGGCTTGCTAAATAATCACCGACTCAAGGACTCCT
1 AAATAAACACCGGCTCAAGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
*
99053031 AAATAAACACCGGCTCAAGGCCTGCTAAATAACCACCGACTCAAGGCCTCCT
1 AAATAAACACCGGCTCAAGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
* *
99053083 AAATAAACATCGGCTCATGGCTTGCTA
1 AAATAAACACCGGCTCAAGGCTTGCTA
99053110 GATATCATAT
Statistics
Matches: 146, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
50 1 0.01
51 3 0.02
52 142 0.97
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.21
Consensus pattern (52 bp):
AAATAAACACCGGCTCAAGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
Found at i:99052996 original size:78 final size:78
Alignment explanation
Indices: 99052875--99053088 Score: 225
Period size: 78 Copynumber: 2.7 Consensus size: 78
99052865 AAGCCTACTA
* * * * * * *
99052875 AAATAAACACCAGCTCATGGCCTTA-GAAATAACCATCGGCTCAAGGCCTGCTTAATAGTCACCG
1 AAATAAACACCGGCTCAAGGCC-TACTAAATAACCACCGACTCAAGGCCTGCTAAATAATCACCG
* *
99052939 GCTCATAGCA-TGCT
65 ACTCA-AGCACTCCT
** * * * * *
99052953 ACTTAAGCACCGGTTCAAGGCCTACTAAATAATCACCTACTCAAGGCTTGCTAAATAATCACCGA
1 AAATAAACACCGGCTCAAGGCCTACTAAATAACCACCGACTCAAGGCCTGCTAAATAATCACCGA
*
99053018 CTCAAGGACTCCT
66 CTCAAGCACTCCT
* *
99053031 AAATAAACACCGGCTCAAGGCCTGCTAAATAACCACCGACTCAAGGCCTCCTAAATAA
1 AAATAAACACCGGCTCAAGGCCTACTAAATAACCACCGACTCAAGGCCTGCTAAATAA
99053089 ACATCGGCTC
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
77 5 0.05
78 103 0.95
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (78 bp):
AAATAAACACCGGCTCAAGGCCTACTAAATAACCACCGACTCAAGGCCTGCTAAATAATCACCGA
CTCAAGCACTCCT
Found at i:99057335 original size:43 final size:42
Alignment explanation
Indices: 99057270--99057431 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
99057260 AGCTCGTACA
* * *
99057270 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-ATATCG
* * *
99057312 ATGCCACTGTCCCAGACAAGGTCTTACATATAATCAATTAAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAA-T-ATCG
* *
99057355 ATGCCAATGTCCCAAACATGGTCTTACATGTAATC-ATAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAT-AT-CG
*
99057398 ATGCCAATGTCCCAGACATTGTCTTACATGTAAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAT
99057432 TTCATCTCAG
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
41 4 0.04
42 7 0.07
43 89 0.87
44 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATATCG
Found at i:99059523 original size:49 final size:49
Alignment explanation
Indices: 99059459--99059670 Score: 183
Period size: 49 Copynumber: 4.4 Consensus size: 49
99059449 CAAAGTAGAA
*
99059459 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGCCGAT
* * * * *
99059508 GTCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGAT
* * * * * *
99059557 GCCATGTCCTAGACAGGTCTTACACT-A---ACATATAACA-AGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGAT
* *
99059601 GCCATGTCCCAGATAGGTCTTACACT-AGCTCGT-ATATCTCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTC-TCATATATC-AGTGCCGAT
*
99059650 G-CATGTCCCAGACATGTCTTA
1 GCCATGTCCCAGACAGGTCTTA
99059671 TAGTAGCCCA
Statistics
Matches: 129, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 28 0.22
45 7 0.05
48 25 0.19
49 69 0.53
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGAT
Found at i:99059608 original size:98 final size:97
Alignment explanation
Indices: 99059415--99059608 Score: 214
Period size: 98 Copynumber: 2.0 Consensus size: 97
99059405 GTCGACGCCA
99059415 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTAGAAGCCATGTCCCAGACAGGTCTT
1 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTAGAAGCCATGTCCCAGACAGGTCTT
* * * * * *
99059480 ACACTGACTTTCATATATCGAGGCCGATGTCG
66 ACACTAACTATAACATAGCGACGCCGATGTCG
** ** * * *
99059512 TGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCTAGACAGGTC
1 TGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTAGAAGCCATGTCCCAGACAGGTC
99059576 TTACACTAACATATAACA-AGCTGACGCC-ATGTC
64 TTACACTAAC-TATAACATAGC-GACGCCGATGTC
99059609 CCAGATAGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
96 17 0.21
97 12 0.15
98 42 0.52
99 9 0.11
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (97 bp):
TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTAGAAGCCATGTCCCAGACAGGTCTT
ACACTAACTATAACATAGCGACGCCGATGTCG
Found at i:99071203 original size:51 final size:49
Alignment explanation
Indices: 99071143--99071284 Score: 194
Period size: 49 Copynumber: 2.9 Consensus size: 49
99071133 ATAGCTTTGA
* * *
99071143 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AGACTATTGG
*
99071194 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTGG
* * * *
99071243 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
99071285 TAGCTTCGGC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 45 0.54
51 38 0.46
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTGG
Found at i:99077726 original size:26 final size:26
Alignment explanation
Indices: 99077646--99077869 Score: 125
Period size: 26 Copynumber: 8.6 Consensus size: 26
99077636 GATAATAGTA
* *
99077646 CCTGCT-AATAATTCACCGGCTTAAAG
1 CCTGCTAAATAA-TCACCGGCTCAAGG
* * * * *
99077672 CCTACTAAAATAAACACCGACTTATGG
1 CCTGCT-AAATAATCACCGGCTCAAGG
* *
99077699 CCTGCTAAATAACCACCAGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * *
99077725 CCTGTTAAATAATCATCGGCTCATA-T
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * *
99077751 CTTGCTAAATAATTACCTGCTTAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
99077777 CTTGCTAAATAATCACCGGCTCATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * * *
99077803 TCTACTAATTAATCATCGGCTTATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * *
99077829 CCTACTAATTAATCATCGGCTCATGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
99077855 CCTGCTAGAT-ATCAC
1 CCTGCTAAATAATCAC
99077870 ATCATATACT
Statistics
Matches: 153, Mismatches: 39, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
25 5 0.03
26 126 0.82
27 17 0.11
28 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAGG
Found at i:99077825 original size:52 final size:52
Alignment explanation
Indices: 99077703--99077852 Score: 151
Period size: 52 Copynumber: 2.9 Consensus size: 52
99077693 TTATGGCCTG
* * * * *
99077703 CTAAATAACCACCAGCTCAAGGCCTGTTAAATAATCATCGGCTCATATCTTG
1 CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATATCTTA
* * * *
99077755 CTAAATAATTACCTGCTTAAGGCTTGCTAAATAATCACCGGCTCATAGTC-TA
1 CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATA-TCTTA
* * * *
99077807 CTAATTAATCATCGGCTTATA-GCCTACTAATTAATCATCGGCTCAT
1 CTAAATAATCACCGGCTTA-AGGCCTGCTAAATAATCATCGGCTCAT
99077853 GGCCTGCTAG
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 77 0.96
53 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (52 bp):
CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATATCTTA
Found at i:99077861 original size:78 final size:78
Alignment explanation
Indices: 99077652--99077869 Score: 197
Period size: 78 Copynumber: 2.8 Consensus size: 78
99077642 AGTACCTGCT
* * * * *
99077652 AATAATTCACCGGCTTAAAGCCTACTAAAATAAACACCGACTTATGGCCTGCTAAATAACCACCA
1 AATAA-TCATCGGCTTATAGCCTACT-AAATAATCACCGGCTTATGGCCTGCTAAATAATCACCA
**
99077717 GCTCAAGGCCTGTTA
64 GCTCAAGGCCTACTA
* * * * * * * * *
99077732 AATAATCATCGGCTCATATCTTGCTAAATAATTACCTGCTTAAGGCTTGCTAAATAATCACCGGC
1 AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTATGGCCTGCTAAATAATCACCAGC
*
99077797 TCATA-GTCTACTA
66 TCA-AGGCCTACTA
* * * * *
99077810 ATTAATCATCGGCTTATAGCCTACTAATTAATCATCGGCTCATGGCCTGCTAGAT-ATCAC
1 AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTATGGCCTGCTAAATAATCAC
99077870 ATCATATACT
Statistics
Matches: 107, Mismatches: 30, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
77 5 0.05
78 82 0.77
79 15 0.14
80 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (78 bp):
AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTATGGCCTGCTAAATAATCACCAGC
TCAAGGCCTACTA
Found at i:99080881 original size:13 final size:13
Alignment explanation
Indices: 99080863--99080888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99080853 TTAACCTTAA
99080863 ACATTTCATCTTC
1 ACATTTCATCTTC
99080876 ACATTTCATCTTC
1 ACATTTCATCTTC
99080889 TTGTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
ACATTTCATCTTC
Found at i:99092014 original size:24 final size:23
Alignment explanation
Indices: 99091987--99092046 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
99091977 ATTTATAAAT
**
99091987 TAAAAATATACATGATTATGTACA
1 TAAAAATATACAT-AAAATGTACA
*
99092011 TAAAAGTAT-CGATAAAATGTACA
1 TAAAAATATAC-ATAAAATGTACA
99092034 TAAAAAT-TACATA
1 TAAAAATATACATA
99092047 TGATAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.13
23 16 0.53
24 10 0.33
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.30
Consensus pattern (23 bp):
TAAAAATATACATAAAATGTACA
Found at i:99092900 original size:27 final size:27
Alignment explanation
Indices: 99092869--99092924 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
99092859 TCATTGCACA
99092869 TAGAACATCTCATGGAGATCAACTAAT
1 TAGAACATCTCATGGAGATCAACTAAT
* *
99092896 TAGAACGTCTCATGGAGGTCAACTAAT
1 TAGAACATCTCATGGAGATCAACTAAT
99092923 TA
1 TA
99092925 AATGAGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
TAGAACATCTCATGGAGATCAACTAAT
Found at i:99103252 original size:39 final size:39
Alignment explanation
Indices: 99103209--99103333 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
99103199 GGTCTTTAAC
** * * *
99103209 CCGGATA-ATTTCCTAGCACGTAGCCTACGGACCTCAAGT
1 CCGGATATATTT-CTAGCATATAGCCTGCGGATCTCATGT
99103248 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
99103287 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
99103326 CCGGATAT
1 CCGGATAT
99103334 TTCCAATCTC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 76 0.95
40 4 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
Found at i:99109759 original size:38 final size:38
Alignment explanation
Indices: 99109717--99109791 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
99109707 TGACATGGAA
*
99109717 CCCTGTTTAAGTTCAAGAAATTCTTTTCATTTCTGATG
1 CCCTGTTTAAGCTCAAGAAATTCTTTTCATTTCTGATG
*
99109755 CCCTGTTTAAGCTCAAGAAATTCTTTTCGTTTCTGAT
1 CCCTGTTTAAGCTCAAGAAATTCTTTTCATTTCTGAT
99109792 CAATGAACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (38 bp):
CCCTGTTTAAGCTCAAGAAATTCTTTTCATTTCTGATG
Found at i:99111454 original size:39 final size:39
Alignment explanation
Indices: 99111358--99111462 Score: 133
Period size: 39 Copynumber: 2.7 Consensus size: 39
99111348 TCCCAGCACG
*
99111358 TAGCCTGCGGA-CCTCAAG-TCTGGATATATTTCAAGCATA
1 TAGCCTGCGGATCC-CATGTTC-GGATATATTTCAAGCATA
* * *
99111397 TAGCCTGCAGATCTCATGTTCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCCCATGTTCGGATATATTTCAAGCATA
*
99111436 TAGCCTGCGGATCCCATGTCCGGATAT
1 TAGCCTGCGGATCCCATGTTCGGATAT
99111463 TTCCAATCTC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 54 0.95
40 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGATCCCATGTTCGGATATATTTCAAGCATA
Found at i:99123911 original size:50 final size:50
Alignment explanation
Indices: 99123830--99124124 Score: 446
Period size: 50 Copynumber: 5.9 Consensus size: 50
99123820 TACTAGGGTA
* * * *
99123830 ATATGTGAGCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCTCCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
99123880 ATACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
99123930 ATATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGACACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* * * **
99123980 ATATGAGAACCAGTATAAGACCATGTCTGGGACATGACATCGGCACTAAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
*
99124030 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
99124080 ATATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATTGGCA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
99124125 TGTTACCCTT
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 223 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
Found at i:99126130 original size:46 final size:45
Alignment explanation
Indices: 99125984--99126296 Score: 214
Period size: 47 Copynumber: 6.7 Consensus size: 45
99125974 ATTTGTGTGC
*
99125984 CAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGAGAG
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGAGAG
* ** * *
99126029 CCAGTGTAAGATCATGTCTCGGACATGGCATCGGTATTGAGACGAGAG
1 -CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAG
99126077 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AG
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAG
* * * * *
99126123 TCAGTGTAAGACATGTCT--GACATGCATCAG-TTGCAAGATGTG-T
1 -CAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAG
* *
99126166 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGAGAG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAG
* * * *
99126215 CTAGTGTAAGACCATGTCTGAGACATGACATC-GACTTGATGGATGAG-C
1 C-AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGA--GATGAGAG
99126263 CAGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
99126297 ATTATACCCT
Statistics
Matches: 212, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
42 10 0.05
43 8 0.04
44 17 0.08
45 5 0.02
46 50 0.24
47 55 0.26
48 29 0.14
49 10 0.05
50 27 0.13
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAG
Found at i:99126162 original size:44 final size:42
Alignment explanation
Indices: 99126079--99126184 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 42
99126069 GACGAGAGCT
* *
99126079 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGTC
1 AGTGTAAGACATGTCT--GACATGCATCAGCCTCAAGATGT--GTC
*
99126125 AGTGTAAGACATGTCTGACATGCATCAG-TTGCAAGATGTGTC
1 AGTGTAAGACATGTCTGACATGCATCAGCCT-CAAGATGTGTC
99126167 AGTGTAAGACCATGTCTG
1 AGTGTAAGA-CATGTCTG
99126185 GGACATGGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
42 12 0.22
43 9 0.16
44 18 0.33
46 16 0.29
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (42 bp):
AGTGTAAGACATGTCTGACATGCATCAGCCTCAAGATGTGTC
Found at i:99142907 original size:14 final size:14
Alignment explanation
Indices: 99142888--99142924 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
99142878 GAATAGATCA
99142888 GATCCTTCACACGT
1 GATCCTTCACACGT
99142902 GATCCTTCACACGT
1 GATCCTTCACACGT
*
99142916 GATTCTTCA
1 GATCCTTCA
99142925 TACTGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (14 bp):
GATCCTTCACACGT
Found at i:99144583 original size:20 final size:20
Alignment explanation
Indices: 99144555--99144595 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99144545 TTTCGTTTAG
99144555 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* * *
99144575 CTCATATGAGTTTTAGTTAA
1 CTCACATGAGCTTCAGTTAA
99144595 C
1 C
99144596 CCTAATGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:99148107 original size:5 final size:5
Alignment explanation
Indices: 99148097--99148126 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
99148087 TATGTTATTA
99148097 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
99148127 CTTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:99157458 original size:15 final size:15
Alignment explanation
Indices: 99157431--99157471 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
99157421 CTTGTATTTA
*
99157431 TTTT-ATTAATAATG
1 TTTTCATTATTAATG
99157445 TTTTCATTATTAATG
1 TTTTCATTATTAATG
99157460 -TTTCAATTATTA
1 TTTTC-ATTATTA
99157472 TCAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTTCATTATTAATG
Found at i:99160402 original size:40 final size:40
Alignment explanation
Indices: 99160295--99160511 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
99160285 TGGATGATAA
* * *
99160295 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
99160335 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
99160374 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
99160414 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
99160454 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
99160494 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
99160512 TACTTGGCTT
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 46 0.30
40 108 0.70
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:99160497 original size:80 final size:79
Alignment explanation
Indices: 99160295--99160511 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 79
99160285 TGGATGATAA
* * *
99160295 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAGTTCCGGGCTAAG-CCCGAAGGCAATT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTA-TTCCGGGCTAAGTCCCGAAGGCAATT
*
99160358 GTGCGAGTTATTATAC
64 GTGCGAGTTACTATAC
*
99160374 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTAT-TCCGGGCTAAGTCCCGAAGGCAAT
*
99160436 TGGTGCGAGTTACTATAT
63 T-GTGCGAGTTACTATAC
* * *
99160454 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTAT-TCCGGGCTAAGTCCCGAAGG
99160512 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 11, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
78 1 0.01
79 60 0.50
80 58 0.49
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATTCCGGGCTAAGTCCCGAAGGCAATTGT
GCGAGTTACTATAC
Found at i:99160507 original size:119 final size:119
Alignment explanation
Indices: 99160295--99160511 Score: 289
Period size: 119 Copynumber: 1.8 Consensus size: 119
99160285 TGGATGATAA
* * *
99160295 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGTTCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAGTTCCGGGCTAAGCCCGAAGGCAATTGA
* *
99160360 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* *
99160414 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAGT-TCCGGGCTAAG-CCCGAAGGCAATT
* *
99160477 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
99160512 TACTTGGCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
118 1 0.01
119 63 0.74
120 21 0.25
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAGTTCCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:99166337 original size:28 final size:28
Alignment explanation
Indices: 99166299--99166356 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
99166289 ACTAAGTTAC
99166299 AAAACTCGACTGTGGATTTGGGTTTTAA
1 AAAACTCGACTGTGGATTTGGGTTTTAA
*
99166327 AAAACTTGACTGTGGATTTGGGTTTTAA
1 AAAACTCGACTGTGGATTTGGGTTTTAA
99166355 AA
1 AA
99166357 CTTAGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAACTCGACTGTGGATTTGGGTTTTAA
Found at i:99179617 original size:18 final size:19
Alignment explanation
Indices: 99179583--99179619 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
99179573 ATACAACTAA
*
99179583 TTTAATTATTATTTTATTT
1 TTTAATAATTATTTTATTT
99179602 TTTAATAATT-TTTTATTT
1 TTTAATAATTATTTTATTT
99179620 GTAATTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATAATTATTTTATTT
Found at i:99192124 original size:53 final size:53
Alignment explanation
Indices: 99192066--99192173 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
99192056 TTGGTAATAG
99192066 TTGTAAATGAACATGGGTTATAAAACTTGAATGATTTATCAAAACGACTCTGT
1 TTGTAAATGAACATGGGTTATAAAACTTGAATGATTTATCAAAACGACTCTGT
99192119 TTGTAAATGAACATGGGTTATAAAACTTGAATGATTTATCAAAACGACTCTGT
1 TTGTAAATGAACATGGGTTATAAAACTTGAATGATTTATCAAAACGACTCTGT
99192172 TT
1 TT
99192174 TCAAAACCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (53 bp):
TTGTAAATGAACATGGGTTATAAAACTTGAATGATTTATCAAAACGACTCTGT
Found at i:99195061 original size:5 final size:5
Alignment explanation
Indices: 99195051--99195082 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
99195041 GATGCCAACC
99195051 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
99195083 TTTATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:99195358 original size:28 final size:28
Alignment explanation
Indices: 99195318--99195371 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
99195308 TAACATAGTC
99195318 CAAATTCGTACTAATAGACACTTATATT
1 CAAATTCGTACTAATAGACACTTATATT
99195346 CAAATTCGTACTAATAGACACTTATA
1 CAAATTCGTACTAATAGACACTTATA
99195372 CCTTTTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (28 bp):
CAAATTCGTACTAATAGACACTTATATT
Found at i:99199001 original size:15 final size:15
Alignment explanation
Indices: 99198981--99199015 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
99198971 AAAGGCAAAT
*
99198981 GAAATCCTTTGTTTG
1 GAAATCCATTGTTTG
99198996 GAAATCCATTGTTTG
1 GAAATCCATTGTTTG
*
99199011 CAAAT
1 GAAAT
99199016 TTGACATCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (15 bp):
GAAATCCATTGTTTG
Found at i:99205617 original size:130 final size:130
Alignment explanation
Indices: 99205385--99205772 Score: 494
Period size: 130 Copynumber: 3.0 Consensus size: 130
99205375 CATGTGAAAT
* * *
99205385 AACTCACTGATTTACGATCACGATTGATATTATCAAGGCTCGTTGA-TTACGATCACAGCCTAAG
1 AACTCACTGATTTACGATCACGATTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAAG
* * * *
99205449 TTCAGTGATTTACGATCATAAACAATTTCTTTTGAGTTAGCTAATTTACGATCGCAACTCCAAAC
66 TTCATTGATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAAC
* * * *
99205514 AACTCACTGATTTATGATCACGACTGATATTATTAAAGCGT-GTTGATTTACAATCACACCCTAA
1 AACTCACTGATTTACGATCACGATTGATATTATTAAGGC-TCGTTGATTTACAATCACAACCTAA
* *
99205578 GTTCATTAATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCACAACTCCAAA
65 GTTCATTGATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAA
99205643 C
130 C
*** * * * * *
99205644 AACTTGTTAATTTACGATCATTG-TTGATATTATTAAGGCTCGTTGGTTTAGAGTCACAACCTAA
1 AACTCACTGATTTACGATCA-CGATTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAA
* * * * * *
99205708 GTTTATTGATTTATGATCATGAACAATTTCTTTTAAGTTTGTTGATTTATGATTGCAACTCCAAA
65 GTTCATTGATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAA
99205773 TAGCTTGCTG
Statistics
Matches: 223, Mismatches: 32, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
129 41 0.18
130 181 0.81
131 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (130 bp):
AACTCACTGATTTACGATCACGATTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAAG
TTCATTGATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAAC
Found at i:99206096 original size:130 final size:130
Alignment explanation
Indices: 99205874--99206206 Score: 402
Period size: 130 Copynumber: 2.6 Consensus size: 130
99205864 TGATTGCAAT
* * * *
99205874 TGATATTATTAAGACTCGCTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAAAA
1 TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
* * * * ** *
99205939 ATTTCTTCTAAGTTAGCTGATTTATGAT-AGCAACTCCAAACAACTGGCTGACTTATGATTAC-G
66 ATTTCTTCCAAGTAAGCTAATTTATGATCA-CAACTCCAAACAAATGGCTGACTTACAATCACAG
99206002 AC
130 -C
*
99206004 TGATATTATTGAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
1 TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
* * * * * * *
99206069 ATTTCTTCCGAGTAAGTTAATTTATGATCACAACTTCAAACAAATTGTTGATTTACAATCACAGT
66 ATTTCTTCCAAGTAAGCTAATTTATGATCACAACTCCAAACAAATGGCTGACTTACAATCACAGC
* * * * *
99206134 TGTTATTATTAAGGCTCGCTAATTTACGATCACAA-TTAAGTTCATTGATTTACAATCATGGACA
1 TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
*
99206198 ATTTATTCC
66 ATTTCTTCC
99206207 CAAATTCAAA
Statistics
Matches: 175, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
129 34 0.19
130 139 0.79
131 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (130 bp):
TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
ATTTCTTCCAAGTAAGCTAATTTATGATCACAACTCCAAACAAATGGCTGACTTACAATCACAGC
Found at i:99210321 original size:6 final size:6
Alignment explanation
Indices: 99210310--99210339 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
99210300 TGCTAGTTTC
99210310 CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT
99210340 TGGAAACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:99213022 original size:25 final size:25
Alignment explanation
Indices: 99212994--99213063 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
99212984 TTTAAATAAT
99212994 TGGGGCAAAGCCCTTTTCCATAAAC
1 TGGGGCAAAGCCCTTTTCCATAAAC
**
99213019 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCCATAAAC
* * *
99213044 TAGGGTAAAGCCTTTTTCCA
1 TGGGGCAAAGCCCTTTTCCA
99213064 CATTTCCTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCCATAAAC
Found at i:99213133 original size:21 final size:21
Alignment explanation
Indices: 99213109--99213190 Score: 119
Period size: 21 Copynumber: 3.9 Consensus size: 21
99213099 TATAGTGAAT
* *
99213109 ATATCATAGCATATCATGTTC
1 ATATCATAACATATCATGTGC
*
99213130 ATATCATAATATATCATGTGC
1 ATATCATAACATATCATGTGC
99213151 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
**
99213172 ATATCATGTCATATCATGT
1 ATATCATAACATATCATGT
99213191 ATATCAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:99213136 original size:5 final size:5
Alignment explanation
Indices: 99213109--99213188 Score: 63
Period size: 5 Copynumber: 15.4 Consensus size: 5
99213099 TATAGTGAAT
* * *
99213109 ATATC ATAGC ATATC ATGTTC ATATC ATAAT- ATATC ATGTGC ATATC
1 ATATC ATATC ATATC AT-ATC ATATC AT-ATC ATATC ATAT-C ATATC
* * *
99213156 ATAAC ATATC ATGTGC ATATC ATGTC ATATC AT
1 ATATC ATATC ATAT-C ATATC ATATC ATATC AT
99213189 GTATATCAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 2 0.03
5 42 0.72
6 14 0.24
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (5 bp):
ATATC
Found at i:99213200 original size:10 final size:10
Alignment explanation
Indices: 99213109--99213196 Score: 83
Period size: 10 Copynumber: 8.6 Consensus size: 10
99213099 TATAGTGAAT
99213109 ATATCATAG-C
1 ATATCAT-GTC
99213119 ATATCATGTTC
1 ATATCATG-TC
*
99213130 ATATCATAAT-
1 ATATCAT-GTC
99213140 ATATCATGTGC
1 ATATCATGT-C
**
99213151 ATATCATAAC
1 ATATCATGTC
99213161 ATATCATGTGC
1 ATATCATGT-C
99213172 ATATCATGTC
1 ATATCATGTC
99213182 ATATCATGT-
1 ATATCATGTC
99213191 ATATCA
1 ATATCA
99213197 ATGTTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
9 8 0.12
10 32 0.48
11 26 0.39
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (10 bp):
ATATCATGTC
Found at i:99220920 original size:6 final size:6
Alignment explanation
Indices: 99220909--99220997 Score: 144
Period size: 6 Copynumber: 14.7 Consensus size: 6
99220899 TCCAAATTTG
99220909 GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA
*
99220957 GAATCA GAATCA GAATCA GGTAA-CA GAATCA AAATCA GAAT
1 GAATCA GAATCA GAATCA -G-AATCA GAATCA GAATCA GAAT
99220998 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
5 2 0.03
6 71 0.91
7 3 0.04
8 2 0.03
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.17
Consensus pattern (6 bp):
GAATCA
Found at i:99221415 original size:27 final size:27
Alignment explanation
Indices: 99221385--99221764 Score: 431
Period size: 27 Copynumber: 14.1 Consensus size: 27
99221375 ACACCCTAAA
* *
99221385 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
** *
99221412 GGTAAAACGGTAATTTTGTAAATC-AA
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
99221438 TGTAAAATAGTAATTTTGTAAATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
** * *
99221465 GGTAAAACGGTAA-TTTATCAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
99221491 GGTAAAATAATAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
99221518 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
99221545 GGTAAAACAGTAATTTTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
99221572 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* ** *
99221599 GGTAAAACAGTAATCCTGTCAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
99221626 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
99221653 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
99221680 GGTAAAATAGTAACTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
99221707 GGTAAAATAGTAATTCTGTATATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
99221734 GGTAAAATGGTAATTCTGTAAATCGGG
1 GGTAAAATAGTAATTTTGTAAATCGAG
99221761 GGTA
1 GGTA
99221765 CTTTGGTAAT
Statistics
Matches: 299, Mismatches: 52, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 42 0.14
27 257 0.86
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GGTAAAATAGTAATTTTGTAAATCGAG
Found at i:99221567 original size:54 final size:54
Alignment explanation
Indices: 99221385--99221764 Score: 494
Period size: 54 Copynumber: 7.1 Consensus size: 54
99221375 ACACCCTAAA
* * * * *
99221385 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATC-AA
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
* * * * *
99221438 TGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACGGTAATT-TATCAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
*
99221491 GGTAAAATAATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
* * * * *
99221545 GGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
* ** * *
99221599 GGTAAAACAGTAATCCTGTCAATCGAGGGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
* * *
99221653 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAACTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
* * * *
99221707 GGTAAAATAGTAATTCTGTATATCAAGGGTAAAATGGTAATTCTGTAAATCGGG
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
99221761 GGTA
1 GGTA
99221765 CTTTGGTAAT
Statistics
Matches: 287, Mismatches: 38, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
52 6 0.02
53 77 0.27
54 204 0.71
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
Found at i:99221758 original size:81 final size:81
Alignment explanation
Indices: 99221385--99221764 Score: 485
Period size: 81 Copynumber: 4.7 Consensus size: 81
99221375 ACACCCTAAA
* ** **
99221385 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATC-AATGTAAAATAGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGT
* *
99221449 AATTTTGTAAATCAAG
66 AATTCTGTAAATCGAG
* * * *
99221465 GGTAAAACGGTAATT-TATCAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAATGGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGT
99221529 AATTCTGTAAATCGAG
66 AATTCTGTAAATCGAG
** * * * * *
99221545 GGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGT
* *
99221610 AATCCTGTCAATCGAG
66 AATTCTGTAAATCGAG
*
99221626 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGT
*
99221691 AACTCTGTAAATCGAG
66 AATTCTGTAAATCGAG
* * * * * * *
99221707 GGTAAAATAGTAATTCTGTATATCAAGGGTAAAATGGTAATTCTGTAAATCGGGGGTA
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
99221765 CTTTGGTAAT
Statistics
Matches: 259, Mismatches: 39, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
79 31 0.12
80 52 0.20
81 176 0.68
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGT
AATTCTGTAAATCGAG
Found at i:99221790 original size:27 final size:27
Alignment explanation
Indices: 99221760--99221883 Score: 112
Period size: 27 Copynumber: 4.6 Consensus size: 27
99221750 TGTAAATCGG
*
99221760 GGGTACTTTGGTAATTTTACAAGTC-GA
1 GGGTATTTTGGTAATTTTACAA-TCTGA
* *
99221787 GGGTATTTTAGTAATTTCACAAATCTGA
1 GGGTATTTTGGTAATTTTAC-AATCTGA
* * *
99221815 -GGTATTTTGGTAACTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAATCTGA
*
99221841 GGGTATGTTGGTAATTTTACAA-CT-A
1 GGGTATTTTGGTAATTTTACAATCTGA
**
99221866 GGGGTATTTCAGTAATTT
1 -GGGTATTTTGGTAATTT
99221884 GGTAAACTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 21 0.26
27 54 0.68
28 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAATCTGA
Found at i:99225388 original size:39 final size:39
Alignment explanation
Indices: 99225334--99225412 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
99225324 GTTTTCATGA
*
99225334 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATGTTC
1 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
99225373 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
1 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
99225412 T
1 T
99225413 TTCAGTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (39 bp):
TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
Found at i:99241599 original size:26 final size:25
Alignment explanation
Indices: 99241557--99241613 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
99241547 ACACACTGCA
* *
99241557 GCTCTTATGAGCATCCTG-TTATATG
1 GCTCTTACGAGCATCCTGATTA-AAG
*
99241582 GCTCTTCACGAGCTTCCTGATTAAAG
1 GCTCTT-ACGAGCATCCTGATTAAAG
99241608 GCTCTT
1 GCTCTT
99241614 TGTGAGCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 18 0.67
27 3 0.11
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTTACGAGCATCCTGATTAAAG
Found at i:99241742 original size:24 final size:24
Alignment explanation
Indices: 99241690--99241776 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
99241680 TGGCTATCTG
* *
99241690 GAGCTTCCCGATTAATGGCTCTTCA-
1 GAGCTTCCCG-TTATTGGCTC-GCAT
*
99241715 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
* **
99241739 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGCAT
99241763 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
99241777 ATAGCCTGGA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
23 5 0.10
24 34 0.67
25 12 0.24
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:99241756 original size:73 final size:73
Alignment explanation
Indices: 99241577--99241772 Score: 166
Period size: 73 Copynumber: 2.7 Consensus size: 73
99241567 GCATCCTGTT
* * * * * * *
99241577 ATATGGCTCTTCACGAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCCTGACTAATGGCTCTGAG
1 ATATGGCTC-GCATGAGCTTCCTGATT-ATGGCTATCTGTGAGCTTCCCGACTAATGGCTCTCAG
*
99241642 GAGCTTCCCA
64 GAGCTACCCA
* * * *
99241652 ATATGGCTCGCTTGAACTT-CTAGATACATGGCTATCTG-GAGCTTCCCGATTAATGGCTCTTCA
1 ATATGGCTCGCATGAGCTTCCT-GAT-TATGGCTATCTGTGAGCTTCCCGACTAATGGCTC-TCA
*
99241715 -GAGCTACCCG
63 GGAGCTACCCA
* * *
99241725 TTATTGGCTCGCATGAGCTTCCTGATTATGGCTCT-TATGAGCTTCCCG
1 ATA-TGGCTCGCATGAGCTTCCTGATTATGGCTATCTGTGAGCTTCCCG
99241773 TTATATAGCC
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
72 1 0.01
73 48 0.50
74 36 0.38
75 11 0.11
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (73 bp):
ATATGGCTCGCATGAGCTTCCTGATTATGGCTATCTGTGAGCTTCCCGACTAATGGCTCTCAGGA
GCTACCCA
Found at i:99241793 original size:49 final size:49
Alignment explanation
Indices: 99241691--99241794 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 49
99241681 GGCTATCTGG
* *
99241691 AGCTTCCCGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCGCATG
1 AGCTTCCCGATTAATGGCTCTTCAGAGCTACCCGTTATTGCCTCGCATA
* * *
99241740 AGCTTCCTGATT-ATGGCTCTT-ATGAGCTTCCCGTTATATAGCCT-GGATA
1 AGCTTCCCGATTAATGGCTCTTCA-GAGCTACCCGTTAT-T-GCCTCGCATA
99241789 AGCTTC
1 AGCTTC
99241795 TAGTTATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
47 1 0.02
48 22 0.47
49 21 0.45
50 3 0.06
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (49 bp):
AGCTTCCCGATTAATGGCTCTTCAGAGCTACCCGTTATTGCCTCGCATA
Found at i:99241794 original size:25 final size:25
Alignment explanation
Indices: 99241764--99241828 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
99241754 GGCTCTTATG
* **
99241764 AGCTTCCCGTTATATAGC-CTGGATA
1 AGCTTCCAGTTATATAGCTC-ACATA
*
99241789 AGCTTCTAGTTATATAGCTCACATA
1 AGCTTCCAGTTATATAGCTCACATA
*
99241814 AGCTTCCTGTTATAT
1 AGCTTCCAGTTATAT
99241829 GGCTTGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (25 bp):
AGCTTCCAGTTATATAGCTCACATA
Found at i:99246216 original size:3 final size:3
Alignment explanation
Indices: 99246208--99246245 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
99246198 CACATGTGAA
*
99246208 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
99246246 GATGAGCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:99246474 original size:81 final size:81
Alignment explanation
Indices: 99246339--99246583 Score: 456
Period size: 81 Copynumber: 3.0 Consensus size: 81
99246329 AAAGTTAGGG
99246339 TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTATCTTTAGCCTAGCCCTATTACAA
1 TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTATCTTTAGCCTAGCCCTATTACAA
99246404 CCTAGTAAAAGACCTA
66 CCTAGTAAAAGACCTA
99246420 TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTATCTTTAGCCTAGCCCTATTACAA
1 TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTATCTTTAGCCTAGCCCTATTACAA
99246485 CCTAGTAAAAGACCTA
66 CCTAGTAAAAGACCTA
*
99246501 TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTACCTTTAGCCTAGCACC-ATTACA
1 TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTATCTTTAGCCTAGC-CCTATTACA
*
99246565 ACCTAGAAAAAGACCTA
65 ACCTAGTAAAAGACCTA
99246582 TT
1 TT
99246584 GATTGGATGA
Statistics
Matches: 161, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
81 159 0.99
82 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (81 bp):
TTAAGATGTTTTGAACCTAAAAATCACTTCTCTTTATTCCTATCTTTAGCCTAGCCCTATTACAA
CCTAGTAAAAGACCTA
Found at i:99251095 original size:13 final size:13
Alignment explanation
Indices: 99251077--99251103 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99251067 TCATAGTCTG
99251077 AAAAATCAAAATT
1 AAAAATCAAAATT
99251090 AAAAATCAAAATT
1 AAAAATCAAAATT
99251103 A
1 A
99251104 GCAACTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATCAAAATT
Found at i:99252438 original size:110 final size:106
Alignment explanation
Indices: 99252249--99252458 Score: 330
Period size: 110 Copynumber: 1.9 Consensus size: 106
99252239 GCTAGTGAGC
*
99252249 TTCAAGCGACGATTCGAAGATTGGCACGGTGGATCAATACCCATTGATGAGTAGAAGATACCTTA
1 TTCAAGCGACGATTCGAAGATTGGCACGGTGGATCAATACCCATCGATGAGTAGAAGATACCTTA
* *
99252314 GATCTAAGTCGATCTAACAGTTAGTGTTGGAGATCAAAGAA
66 GATCTAAGTCGATCTAACAGTTAATGTCGGAGATCAAAGAA
* * *
99252355 TTCAAGCGATGATTCGAAGATTGGCATGGTGCATGGATCAATACCCATCGATGAGTAGAATATAC
1 TTCAAGCGACGATTCGAAGATTGGCA-CG-G--TGGATCAATACCCATCGATGAGTAGAAGATAC
99252420 CTTAGATCTAAGTCGATCTAACAGTTAATGTCGGAGATC
62 CTTAGATCTAAGTCGATCTAACAGTTAATGTCGGAGATC
99252459 GAATAAGAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
106 25 0.27
107 1 0.01
108 1 0.01
110 67 0.71
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (106 bp):
TTCAAGCGACGATTCGAAGATTGGCACGGTGGATCAATACCCATCGATGAGTAGAAGATACCTTA
GATCTAAGTCGATCTAACAGTTAATGTCGGAGATCAAAGAA
Found at i:99252843 original size:3 final size:3
Alignment explanation
Indices: 99252835--99252859 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
99252825 GGTTTTCGTT
99252835 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
99252860 ACACCTTTAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99256044 original size:45 final size:45
Alignment explanation
Indices: 99255980--99256087 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
99255970 TTGTCAAAGA
* * * * *
99255980 GCTGTGAATGCACATCAAGAACACCGCAGGTGGAATCTGCCTATG
1 GCTGTGAGTACACAACAAGAACACCACAGATGGAATCTGCCTATG
* * * *
99256025 GCTGTGAGTACACAACAAGATCATCATAGATGGAATCTGTCTATG
1 GCTGTGAGTACACAACAAGAACACCACAGATGGAATCTGCCTATG
* *
99256070 GTTGTGGGTACACAACAA
1 GCTGTGAGTACACAACAA
99256088 AAATAAATAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (45 bp):
GCTGTGAGTACACAACAAGAACACCACAGATGGAATCTGCCTATG
Found at i:99257811 original size:20 final size:19
Alignment explanation
Indices: 99257786--99257834 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
99257776 TTATTTTAGT
99257786 ATACCAAAACTTCT-AACCAG
1 ATACCAAAA-TTCTGAA-CAG
*
99257806 ATACCAAAATTTTGAACAG
1 ATACCAAAATTCTGAACAG
99257825 ATACCAAAAT
1 ATACCAAAAT
99257835 ATTTAACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.22
Consensus pattern (19 bp):
ATACCAAAATTCTGAACAG
Found at i:99259819 original size:28 final size:28
Alignment explanation
Indices: 99259779--99259900 Score: 98
Period size: 28 Copynumber: 4.4 Consensus size: 28
99259769 AAAATGTTTT
99259779 ATTATTATCATTTACTTTAATTTTTTATAC
1 ATTATT-T-ATTTACTTTAATTTTTTATAC
*
99259809 ATTATTTATTTCAC-TT-A-TTTTGA-AC
1 ATTATTTATTT-ACTTTAATTTTTTATAC
* *
99259834 -TCTATTTATTTA-TTTCAAAATGTTTTAT-T
1 AT-TATTTATTTACTTT---AATTTTTTATAC
99259863 ATTA-TTATTTACTTTAATTTTTTATAC
1 ATTATTTATTTACTTTAATTTTTTATAC
99259890 ATTATTTATTT
1 ATTATTTATTT
99259901 CATACTTTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
24 4 0.05
25 11 0.15
26 14 0.19
27 5 0.07
28 20 0.27
29 12 0.16
30 7 0.10
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTATTTATTTACTTTAATTTTTTATAC
Found at i:99259826 original size:81 final size:81
Alignment explanation
Indices: 99259741--99259902 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
99259731 CTTTATATAC
99259741 CTTATTTTGAACTCTATTTATTTACTTCAAAATGTTTTATTATTATCATTTACTTTAATTTTTTA
1 CTTATTTTGAACTCTATTTATTTACTTCAAAATGTTTTATTATTATCATTTACTTTAATTTTTTA
99259806 TACATTATTTATTTCA
66 TACATTATTTATTTCA
* *
99259822 CTTATTTTGAACTCTATTTATTTATTTCAAAATGTTTTATTATTATTATTTACTTTAATTTTTTA
1 CTTATTTTGAACTCTATTTATTTACTTCAAAATGTTTTATTATTATCATTTACTTTAATTTTTTA
99259887 TACATTATTTATTTCA
66 TACATTATTTATTTCA
99259903 TACTTTTGTG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.59
Consensus pattern (81 bp):
CTTATTTTGAACTCTATTTATTTACTTCAAAATGTTTTATTATTATCATTTACTTTAATTTTTTA
TACATTATTTATTTCA
Found at i:99259884 original size:25 final size:26
Alignment explanation
Indices: 99259755--99259900 Score: 72
Period size: 28 Copynumber: 5.3 Consensus size: 26
99259745 TTTTGAACTC
*
99259755 TATTTATTTACTTCAAAATGTTTTATTAT
1 TATTTATTTACTT--TAAT-TTTTATTAT
* *
99259784 TA-TCATTTACTTTAATTTTTTATACAT
1 TATTTATTTACTTTAA-TTTTTAT-TAT
*
99259811 TATTTATTTCAC-TT-ATTTTGA--ACT
1 TATTTATTT-ACTTTAATTTTTATTA-T
99259835 CTATTTATTTA-TTTCAAAATGTTTTATTAT
1 -TATTTATTTACTTT---AAT-TTTTATTAT
*
99259865 TA-TTATTTACTTTAATTTTTTATACAT
1 TATTTATTTACTTTAA-TTTTTAT-TAT
99259892 TATTTATTT
1 TATTTATTT
99259901 CATACTTTTG
Statistics
Matches: 92, Mismatches: 7, Indels: 37
0.68 0.05 0.27
Matches are distributed among these distances:
23 1 0.01
24 4 0.04
25 9 0.10
26 21 0.23
27 11 0.12
28 31 0.34
29 13 0.14
30 1 0.01
31 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTTATTTACTTTAATTTTTATTAT
Found at i:99263829 original size:19 final size:20
Alignment explanation
Indices: 99263800--99263837 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99263790 TTTTGCACTT
*
99263800 ATTTCATTCATTTGCATTAC
1 ATTTCATTCATATGCATTAC
99263820 ATTTCA-TCATATGCATTA
1 ATTTCATTCATATGCATTA
99263838 AGTTTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTTCATTCATATGCATTAC
Found at i:99271990 original size:44 final size:44
Alignment explanation
Indices: 99271914--99272086 Score: 168
Period size: 44 Copynumber: 3.8 Consensus size: 44
99271904 ATGGCGAATC
* * * *
99271914 TTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCCACAAATT
1 TTATCTCCCTAAAGTTGCAGTAGAGCATATTGAAGCCACAAATT
* * *
99271958 TTATCTCCCTAAAGTTACAGTAGAGCATATTGAAGTTACCATGGCGAATC
1 TTATCTCCCTAAAGTTGCAGTAGAGCATATTGAAG---CCA---CAAATT
* * *
99272008 TTATCTCCCTGAAGTTGCAGCCA-AGCAAATTGAAGCCACAAATT
1 TTATCTCCCTAAAGTTGCAG-TAGAGCATATTGAAGCCACAAATT
* *
99272052 TTATCTCCCTAAAGTTGCAGTGGAGCATATCGAAG
1 TTATCTCCCTAAAGTTGCAGTAGAGCATATTGAAG
99272087 TTATCATGGA
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
44 63 0.61
47 6 0.06
50 33 0.32
51 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTGCAGTAGAGCATATTGAAGCCACAAATT
Found at i:99272065 original size:94 final size:94
Alignment explanation
Indices: 99271904--99272119 Score: 290
Period size: 94 Copynumber: 2.3 Consensus size: 94
99271894 GCTACAAATT
* * *** * *
99271904 ATGGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAGCCACAAATTTTATCTCCCTA
1 ATGGCGAATCTTATCTCCCTGAAGTTGCAGCCAAGCAAATTGAAGCCACAAATTTTATCTCCCTA
*
99271969 AAGTTACAGTAGAGCATATTGAAGTTACC
66 AAGTTACAGTAGAGCATATCGAAGTTACC
99271998 ATGGCGAATCTTATCTCCCTGAAGTTGCAGCCAAGCAAATTGAAGCCACAAATTTTATCTCCCTA
1 ATGGCGAATCTTATCTCCCTGAAGTTGCAGCCAAGCAAATTGAAGCCACAAATTTTATCTCCCTA
* * *
99272063 AAGTTGCAGTGGAGCATATCGAAGTTATC
66 AAGTTACAGTAGAGCATATCGAAGTTACC
** **
99272092 ATGGAAAAT-TTATCTTTCTGAAGTTGCA
1 ATGGCGAATCTTATCTCCCTGAAGTTGCA
99272120 ATAGAGCAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 17 0.16
94 90 0.84
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (94 bp):
ATGGCGAATCTTATCTCCCTGAAGTTGCAGCCAAGCAAATTGAAGCCACAAATTTTATCTCCCTA
AAGTTACAGTAGAGCATATCGAAGTTACC
Found at i:99272299 original size:45 final size:44
Alignment explanation
Indices: 99272143--99272299 Score: 127
Period size: 44 Copynumber: 3.4 Consensus size: 44
99272133 AAGCTATAAA
* * * * *
99272143 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGATACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGACT---GA-A-GTTACAAGT
* * * * **
99272192 CATATCTCCCTGAAGCTACAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGTTACAAGT
99272236 CTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGTTACCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGTTA-C-AAGT
* *
99272281 CTTATTTTCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGC
99272300 TGTGGAACAG
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
44 40 0.44
45 20 0.22
46 4 0.04
49 27 0.30
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGTTACAAGT
Found at i:99272458 original size:44 final size:44
Alignment explanation
Indices: 99272380--99272463 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
99272370 TATCATGACA
* * * * *
99272380 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCATT
1 AATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAGCCATT
*
99272424 AATCTTATCTCTCTAAAGTTACAATAGAGCAGATTAAAGC
1 AATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAGC
99272464 TACAAGTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAGCCATT
Found at i:99273937 original size:42 final size:42
Alignment explanation
Indices: 99273840--99273939 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 42
99273830 ATTTTCTAAA
* * *
99273840 AAAAACGCTGCTAAAGATCGTGACCTTTAGCGGCACTTTCTCC
1 AAAAACGC-GCTAAAGATCATGACCTTTAGCGACACTTTCCCC
* *
99273883 AAAAGCAC-CGCTAAAGA-CATGATCTTTAGCGACGCTTTCCCC
1 AAAA--ACGCGCTAAAGATCATGACCTTTAGCGACACTTTCCCC
99273925 AAAAACGTCGCTAAA
1 AAAAACG-CGCTAAA
99273940 TATCCCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
40 2 0.04
42 31 0.65
43 12 0.25
44 1 0.02
45 2 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
AAAAACGCGCTAAAGATCATGACCTTTAGCGACACTTTCCCC
Found at i:99274466 original size:23 final size:23
Alignment explanation
Indices: 99274440--99274541 Score: 159
Period size: 23 Copynumber: 4.4 Consensus size: 23
99274430 ACACAAAGAA
*
99274440 CATTTAAACACTTCAATATACAG
1 CATTTAAACACTTCAATTTACAG
* * * *
99274463 CATTTAAATACTTCAGTTTGCAA
1 CATTTAAACACTTCAATTTACAG
99274486 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
99274509 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
99274532 CATTTAAACA
1 CATTTAAACA
99274542 GCAGCAACCA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:99280872 original size:40 final size:39
Alignment explanation
Indices: 99280682--99280865 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
99280672 CGAATGATGT
* * * *
99280682 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
99280722 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
99280762 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
99280800 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
99280841 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
99280866 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:99280887 original size:79 final size:79
Alignment explanation
Indices: 99280734--99280898 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
99280724 GGACTAAGAT
* **
99280734 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
99280799 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
99280813 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
99280876 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
99280892 CCGAAGG
1 CCGAAGG
99280899 TGCGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:99283776 original size:41 final size:41
Alignment explanation
Indices: 99283717--99283795 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
99283707 AAATTTTGGG
*
99283717 CCAAAAACGCCGTGATTGCTCTA-TTTTTAGCTGCGTTTGAA
1 CCAAAAACGCCGTGATTGCTC-AGTTTTTAGCGGCGTTTGAA
* *
99283758 CCAAAAACGCCGTTATTGCTCAGTTTTTTGCGGCGTTT
1 CCAAAAACGCCGTGATTGCTCAGTTTTTAGCGGCGTTT
99283796 TATCGCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (41 bp):
CCAAAAACGCCGTGATTGCTCAGTTTTTAGCGGCGTTTGAA
Found at i:99284312 original size:48 final size:48
Alignment explanation
Indices: 99284258--99284355 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
99284248 ATATATATTA
99284258 TTTATATTAAAACTGTTTTGCCTTTTATTATCCATTTTAAAATTCTTT
1 TTTATATTAAAACTGTTTTGCCTTTTATTATCCATTTTAAAATTCTTT
*
99284306 TTTATATTAAAACTGTTTTGCTTTTTATTATCCATTTTAAAATTCTTT
1 TTTATATTAAAACTGTTTTGCCTTTTATTATCCATTTTAAAATTCTTT
99284354 TT
1 TT
99284356 ACACATCATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (48 bp):
TTTATATTAAAACTGTTTTGCCTTTTATTATCCATTTTAAAATTCTTT
Found at i:99284593 original size:24 final size:23
Alignment explanation
Indices: 99284548--99284647 Score: 70
Period size: 24 Copynumber: 4.5 Consensus size: 23
99284538 TGTTATTATA
*
99284548 TATTATTTA-TTTAAAATCGTTT
1 TATTACTTATTTTAAAATCGTTT
*
99284570 TGATTACTTATTTTAAAATTGTTT
1 T-ATTACTTATTTTAAAATCGTTT
* *
99284594 TATATACCTTATTTTGAACTC-TATT
1 TAT-TA-CTTATTTTAAAATCGT-TT
*
99284619 TA-T--TTATTTCAAAAT-GTTT
1 TATTACTTATTTTAAAATCGTTT
99284638 TATTA-TTATT
1 TATTACTTATT
99284648 ATTTACTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
19 4 0.06
20 11 0.18
21 5 0.08
22 1 0.02
23 10 0.16
24 16 0.26
25 15 0.24
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (23 bp):
TATTACTTATTTTAAAATCGTTT
Found at i:99286058 original size:57 final size:57
Alignment explanation
Indices: 99285965--99286076 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
99285955 TGTGGATGAA
* *
99285965 AAAAACATTTCAAGTAAAAGAAACTTTTTTAAAATTTATTCAGCAATAATCAATTGT
1 AAAAACATTTCAAGTAAAAGAAACTTTTTCAAAATTTATTCAACAATAATCAATTGT
* ** * *
99286022 AAAAACATTTCATGTAAATTAAA-TTCTTTCACAATTTTTTCAACAATAATCAATT
1 AAAAACATTTCAAGTAAAAGAAACTT-TTTCAAAATTTATTCAACAATAATCAATT
99286077 ATGAAGTATC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 2 0.04
57 45 0.96
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (57 bp):
AAAAACATTTCAAGTAAAAGAAACTTTTTCAAAATTTATTCAACAATAATCAATTGT
Found at i:99286362 original size:37 final size:37
Alignment explanation
Indices: 99286312--99286386 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
99286302 TTCTTGTGTC
99286312 TATTTTTATTTTTAATAGTCTAGTTGTTCATTTATAG
1 TATTTTTATTTTTAATAGTCTAGTTGTTCATTTATAG
* * *
99286349 TATTTTTATTTTTACTATTTTAGTTGTTCATTTATAG
1 TATTTTTATTTTTAATAGTCTAGTTGTTCATTTATAG
99286386 T
1 T
99286387 TGCAACTGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (37 bp):
TATTTTTATTTTTAATAGTCTAGTTGTTCATTTATAG
Found at i:99286806 original size:15 final size:15
Alignment explanation
Indices: 99286786--99286815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99286776 CACTTTGGAG
99286786 TTAAAATTATATTTT
1 TTAAAATTATATTTT
*
99286801 TTAAAATTCTATTTT
1 TTAAAATTATATTTT
99286816 ATCATCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAAAATTATATTTT
Found at i:99287727 original size:31 final size:31
Alignment explanation
Indices: 99287689--99287754 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
99287679 TTATAAAATG
*
99287689 GTCATTGAACTATTCCAAAGGTTTCATTTAA
1 GTCATTGAACTATTCAAAAGGTTTCATTTAA
* *
99287720 GTCATTGAACTATTCAAAAGTTTTTATTTAA
1 GTCATTGAACTATTCAAAAGGTTTCATTTAA
99287751 GTCA
1 GTCA
99287755 CATGATTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAGGTTTCATTTAA
Found at i:99289249 original size:18 final size:19
Alignment explanation
Indices: 99289219--99289256 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
99289209 GTATATATTA
99289219 TATATATTATGAAAAAAAT
1 TATATATTATGAAAAAAAT
99289238 TATATA-TATGAAAAAAAT
1 TATATATTATGAAAAAAAT
99289256 T
1 T
99289257 TAAAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
TATATATTATGAAAAAAAT
Found at i:99289254 original size:21 final size:21
Alignment explanation
Indices: 99289215--99289254 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99289205 GATTGTATAT
* **
99289215 ATTATATATATTATGAAAAAA
1 ATTATATATATGAAAAAAAAA
99289236 ATTATATATATGAAAAAAA
1 ATTATATATATGAAAAAAA
99289255 TTTAAAAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTATATATATGAAAAAAAAA
Found at i:99289563 original size:43 final size:42
Alignment explanation
Indices: 99289515--99289601 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 42
99289505 ATTTAGTGAT
* *
99289515 TTAAATAAAAAACTTTTGAATAGTTTAACGATCATTTTTTAAC
1 TTAAAT-AAAAACTTTTGAATAGTTTAACAATCATTTTCTAAC
*
99289558 TTAAATGAAAACTTTTGAATAGTTTAACAATCATTTTCTAAC
1 TTAAATAAAAACTTTTGAATAGTTTAACAATCATTTTCTAAC
99289600 TT
1 TT
99289602 TTTGAAGTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 35 0.85
43 6 0.15
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (42 bp):
TTAAATAAAAACTTTTGAATAGTTTAACAATCATTTTCTAAC
Found at i:99291491 original size:131 final size:132
Alignment explanation
Indices: 99291322--99291807 Score: 479
Period size: 131 Copynumber: 3.7 Consensus size: 132
99291312 ATTTTTAGAA
* * * *
99291322 TTTTAAAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-AGGAAATTGT
1 TTTTAGAAAACATGAGTGAAATTCAAAAGGAATCTTCGATTATTTTGAACAAACGA-GAAATTGC
* * *
99291386 AACCCAGCACGATAGGGCACGATTCCCCGAGTTGCCAAACATCGAGTATTACCTTCATTTTGAAG
65 AACCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCATTTTAAAG
99291451 AGT
130 AGT
* * * * * * *
99291454 TTTTA-AAGATATGAGTGGAATTCCAAAGGAATCTTCGATTGTTTCGAACAAACGAGAAATCGCA
1 TTTTAGAAAACATGAGTGAAATTCAAAAGGAATCTTCGATTATTTTGAACAAACGAGAAATTGCA
* * * * * * *
99291518 ACTCAACACGATAGGGCATGATT-CTCGAATTGCCAAGCACCGAGTATTGCCTTCGTTTTAAAGA
66 ACCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCATTTTAAAGA
99291582 GT
131 GT
* * * * *
99291584 TTTTAGAAAACGTAAGTGAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAGATTGCA
1 TTTTAGAAAACATGAGTGAAATTCAAAAGGAATCTTCGATTATTTTGAACAAACGAGAAATTGCA
* * ** ** * *
99291649 ACCCAACACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCC-T--TTATATAG-
66 ACCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCATTTTAAAGA
99291710 G-
131 GT
* * * * **
99291711 ATTTAGAAAAACACGAGTGAGATTCTAAAGGAA-CATTCGATTATTTTGAACAAACGAGAAATCA
1 TTTTAG-AAAACATGAGTGAAATTCAAAAGGAATC-TTCGATTATTTTGAACAAACGAGAAATTG
* * * *
99291775 AAACCCAGCATGATAGGGCATGATT-CCCGAATT
64 CAACCCAACACGATAGGGCACGATTCCCCGAATT
99291808 TTCAAGCAAT
Statistics
Matches: 292, Mismatches: 57, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
127 13 0.04
128 68 0.23
129 6 0.02
130 41 0.14
131 137 0.47
132 27 0.09
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (132 bp):
TTTTAGAAAACATGAGTGAAATTCAAAAGGAATCTTCGATTATTTTGAACAAACGAGAAATTGCA
ACCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCATTTTAAAGA
GT
Found at i:99294468 original size:26 final size:26
Alignment explanation
Indices: 99294431--99294514 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
99294421 TGATGCAAAT
* *
99294431 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
99294457 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
99294483 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
99294509 TGATAA
1 TGATAA
99294515 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:99296031 original size:26 final size:26
Alignment explanation
Indices: 99296002--99296054 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
99295992 TTTACAGTTT
99296002 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
99296028 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
99296054 T
1 T
99296055 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:99298995 original size:15 final size:15
Alignment explanation
Indices: 99298958--99298999 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
99298948 TTATTTATGC
99298958 TTTTATTAT-TATTA
1 TTTTATTATCTATTA
99298972 TTACCTTATTATCTATTA
1 TT---TTATTATCTATTA
99298990 TTTTATTATC
1 TTTTATTATC
99299000 GTCTATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
17 7 0.29
18 7 0.29
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTATTATCTATTA
Found at i:99300216 original size:127 final size:127
Alignment explanation
Indices: 99299990--99300229 Score: 315
Period size: 127 Copynumber: 1.9 Consensus size: 127
99299980 TAATTTTAAA
* *
99299990 TAAAACAAAAGCGATGTTTGATGTTTAGAAATTCGAGGGATCATGCCCTAACGTATTGGGTTTCG
1 TAAAACAAAAGCGATGGTTGATGTTTAGAAATTCGAGGAATCATGCCCTAACGTATTGGGTTTCG
* * * ** *
99300055 ATCTTTCGTTTATTTAAATAATTAAATTTCCCTTTGAAATCTCGTCTGTGTTTTCTAAGCTT
66 ATCTTTCGTTTATCTAAAGAATCAAACATCCCTTTAAAATCTCGTCTGTGTTTTCTAAGCTT
* * * *
99300117 TAAAATAAAAGCGATGGTTGATGTTT-GAGAATTCG-GGAAATCGTGCCCTAATGTGTTGGGTTT
1 TAAAACAAAAGCGATGGTTGATGTTTAGA-AATTCGAGG-AATCATGCCCTAACGTATTGGGTTT
*
99300180 CGAT-TTTCTGTTTATCTAAAGAATCAAACATCCCTTTAAAATTTCGTCTG
64 CGATCTTTC-GTTTATCTAAAGAATCAAACATCCCTTTAAAATCTCGTCTG
99300230 CATTTTTCTT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
126 8 0.08
127 89 0.92
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (127 bp):
TAAAACAAAAGCGATGGTTGATGTTTAGAAATTCGAGGAATCATGCCCTAACGTATTGGGTTTCG
ATCTTTCGTTTATCTAAAGAATCAAACATCCCTTTAAAATCTCGTCTGTGTTTTCTAAGCTT
Found at i:99301249 original size:19 final size:19
Alignment explanation
Indices: 99301225--99301276 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
99301215 AACATGAAAC
99301225 TAAAATTTTTAATTAATAT
1 TAAAATTTTTAATTAATAT
*
99301244 TAAAATTTATAACTTAATAT
1 TAAAATTTTTAA-TTAATAT
*
99301264 CAAAATTTTTAAT
1 TAAAATTTTTAAT
99301277 GTGATACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAAATTTTTAATTAATAT
Found at i:99306538 original size:180 final size:179
Alignment explanation
Indices: 99306077--99306900 Score: 1007
Period size: 180 Copynumber: 4.6 Consensus size: 179
99306067 ACCTTTAGGA
* * * * *
99306077 AGATAAGGTT-GATAGGTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCATCATTTTC
1 AGATAAGGTTAG-T-GGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGC
* * * * * * * *
99306141 --A-ATTTGCTCCACTGCAACTTCAGGGAGCTAATATCCTCAATCCTCAGTCTGCTTCCTTACTA
64 GAAGATCTGCTCCGCTTCAACTTCAGGGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTA
*
99306203 CCTCAGGAAGATAAGACTCATTCTTCAACCTACTCTCTTGCTACCTCAGAG
129 CCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * ** * * * * *
99306254 AAATGAGACTGGTGGTAAAATTTGCTCCATTACAGATACATGGAGATAAAATTCACCATCTGCGA
1 AGATAAGGTTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGA
* * * * * * *
99306319 AGATCTGCTTCACTGCCA-TCTCAGGGATATAAGATCTTCAATTCTTAGTCTGCTTCTTTGCTAC
66 AGATCTGCTCCGCTTCAACT-TCAGGGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTAC
* * *
99306383 CTCAGGAAAATAAAACTCATTCTTCAACCTGCTCTCTTACTACCTCAGAG
130 CTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
* ** *
99306433 AGATAAGGTTATTGGCTAAAATCTGCTCCATCACCGATACATAGAGATAAGATTCACCATCTGCG
1 AGATAAGGTTAGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCG
* * * *
99306498 AAAATCTGCTCCGCTTCAA-TCTCAGAGAGATAAAATCTTCAATTCTCAGTTTGCTTCCTTGCTA
65 AAGATCTGCTCCGCTTCAACT-TCAGGGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTA
*
99306562 CCTCAAGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
129 CCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
* ** *
99306613 AGATAAGGCTTAGTGGTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACTGTCTGTG
1 AGATAAGG-TTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCG
* * * *
99306678 AAGATCTACTCTG-TTGCAACTTCAGGGAGATAAGATCTTTAATTCCCAGTCTGCTTCCTTGCTA
65 AAGATCTGCTCCGCTT-CAACTTCAGGGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTA
* *
99306742 CCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCATGCTACCTCAGAA
129 CCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * * *
99306793 AGATGAGGTTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCATCTACGA
1 AGATAAGGTTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGA
*
99306858 AGATCTGCTCCG-TTGCAACTTCAAGGAGATAAGATCTTCAATT
66 AGATCTGCTCCGCTT-CAACTTCAGGGAGATAAGATCTTCAATT
99306901 TTTACCTAAT
Statistics
Matches: 553, Mismatches: 85, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
176 41 0.07
177 7 0.01
178 3 0.01
179 195 0.35
180 300 0.54
181 7 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (179 bp):
AGATAAGGTTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGA
AGATCTGCTCCGCTTCAACTTCAGGGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTACC
TCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
Found at i:99306610 original size:88 final size:87
Alignment explanation
Indices: 99306518--99306796 Score: 224
Period size: 88 Copynumber: 3.1 Consensus size: 87
99306508 CCGCTTCAAT
*
99306518 CTCAGAGAGATAAAATCTTCAATTCTCAGTTTGCTTCCTTGCTACCTCAAGAAGATAAGACTCAT
1 CTCAGAGAGATAAAATCTT-AATTCTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCAT
99306583 TCTTCAACCTGCTCTCTTGCTAC
65 TCTTCAACCTGCTCTCTTGCTAC
** * ** * * * * *
99306606 CTCAGAGAGAT-AAGGCTTAGTGGTAAAATCTGC-TCCATTGCTGA--TACATGGAGATAAGATT
1 CTCAGAGAGATAAAATCTTAATTCT-CAGTCTGCTTCC-TTGCT-ACCT-CAAGAAGATAAGACT
* * * * *
99306667 CACTGTCTGTGAAGATCTACTCTGTTGCAAC
62 CA-T-TCT-T-CA-ACCTGCTCTCTTGCTAC
* * * * *
99306698 TTCAGGGAGATAAGATCTTTAATTCCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT
1 CTCAGAGAGATAAAATC-TTAATTCTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCAT
*
99306763 TCTTCAACCTGCTCTCATGCTAC
65 TCTTCAACCTGCTCTCTTGCTAC
*
99306786 CTCAGAAAGAT
1 CTCAGAGAGAT
99306797 GAGGTTGGTG
Statistics
Matches: 138, Mismatches: 39, Indels: 28
0.67 0.19 0.14
Matches are distributed among these distances:
86 7 0.05
87 29 0.21
88 33 0.24
89 4 0.03
90 2 0.01
91 4 0.03
92 24 0.17
93 27 0.20
94 8 0.06
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (87 bp):
CTCAGAGAGATAAAATCTTAATTCTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCATT
CTTCAACCTGCTCTCTTGCTAC
Found at i:99306889 original size:359 final size:357
Alignment explanation
Indices: 99306076--99306900 Score: 1054
Period size: 359 Copynumber: 2.3 Consensus size: 357
99306066 CACCTTTAGG
* * * *
99306076 AAGATAAGGTTGATAGGTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCATCATTTTC
1 AAGATAAGGTTGAT-GGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCATCTAC
* ** * * * * *
99306141 --AATTTGCTCCACTGCAACTTCAGGGAGCTAATATCCTCAATCCTCAGTCTGCTTCCTTACTAC
65 GAAATCTGCTCCGTTGCAACTTCAAGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTACTAC
* * *
99306204 CTCAGGAAGATAAGACTCATTCTTCAACCTACTCTCTTGCTACCTCAGAGAAATGAGACTGGTGG
130 CTCAAGAAGATAAGACTCATTCTTCAACCTACTCTCTTGCTACCTCAGAGAAATAAGACTAGTGG
* *
99306269 TAAAATTTGCTCCATTACAGATACATGGAGATAAAATTCACCATCTGCGAAGATCTGCTTCACTG
195 TAAAATCTGCTCCATTACAGATACATGGAGATAAAATTCACCATCTGCGAAGATCTACTTCACTG
* * ** *
99306334 CCATCTCAGGGATATAAGATCTTCAATTCTTAGTCTGCTTCTTTGCTACCTCAGGAAAATAAAAC
260 CAATCTCAGGGAGATAAGATCTTCAATTCCCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAAAC
*
99306399 TCATTCTTCAACCTGCTCTCTTACTACCTCAGA
325 TCATTCTTCAACCTGCTCTCATACTACCTCAGA
* ** * * *
99306432 GAGATAAGGTT-ATTGGCTAAAATCTGCTCCATCACCGATACATAGAGATAAGATTCACCATCTG
1 AAGATAAGGTTGA-TGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCATCTA
*
99306496 CGAAAATCTGCTCCGCTT-CAA-TCTC-AGAGAGATAAAATCTTCAATTCTCAGTTTGCTTCCTT
64 CG-AAATCTGCTCCG-TTGCAACT-TCAAG-GAGATAAAATCTTCAATTCTCAGTCTGCTTCCTT
* * * *
99306558 GCTACCTCAAGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT
125 ACTACCTCAAGAAGATAAGACTCATTCTTCAACCTACTCTCTTGCTACCTCAGAGAAATAAGAC-
* * * ** *
99306623 TAGTGGTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACTGTCTGTGAAGATCTAC-
189 TAGTGGTAAAATCTGCTCCATTACAGATACATGGAGATAAAATTCACCATCTGCGAAGATCTACT
** *
99306687 TCTGTTGCAA-CTTCAGGGAGATAAGATCTTTAATTCCCAGTCTGCTTCCTTGCTACCTCAGGAA
254 TC-ACTGCAATC-TCAGGGAGATAAGATCTTCAATTCCCAGTCTGCTTCCTTGCTACCTCAGGAA
* * *
99306751 GATAAGACTCATTCTTCAACCTGCTCTCATGCTACCTCAGA
317 AATAAAACTCATTCTTCAACCTGCTCTCATACTACCTCAGA
* *
99306792 AAGATGAGGTTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCATCTACG
1 AAGATAAGGTTGATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCATCTACG
*
99306857 AAGATCTGCTCCGTTGCAACTTCAAGGAGATAAGATCTTCAATT
66 AA-ATCTGCTCCGTTGCAACTTCAAGGAGATAAAATCTTCAATT
99306901 TTTACCTAAT
Statistics
Matches: 399, Mismatches: 54, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
355 3 0.01
356 51 0.13
358 6 0.02
359 180 0.45
360 159 0.40
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (357 bp):
AAGATAAGGTTGATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCATCTACG
AAATCTGCTCCGTTGCAACTTCAAGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTACTACC
TCAAGAAGATAAGACTCATTCTTCAACCTACTCTCTTGCTACCTCAGAGAAATAAGACTAGTGGT
AAAATCTGCTCCATTACAGATACATGGAGATAAAATTCACCATCTGCGAAGATCTACTTCACTGC
AATCTCAGGGAGATAAGATCTTCAATTCCCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAAACT
CATTCTTCAACCTGCTCTCATACTACCTCAGA
Found at i:99308073 original size:23 final size:23
Alignment explanation
Indices: 99308043--99308087 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
99308033 GTCTCAAAGC
99308043 GCCCTTTGCGGGTTTTCACTTTG
1 GCCCTTTGCGGGTTTTCACTTTG
99308066 GCCCTTTGCGGGTTTTCACTTT
1 GCCCTTTGCGGGTTTTCACTTT
99308088 AACCCCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.04, C:0.27, G:0.24, T:0.44
Consensus pattern (23 bp):
GCCCTTTGCGGGTTTTCACTTTG
Found at i:99321331 original size:19 final size:19
Alignment explanation
Indices: 99321307--99321347 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
99321297 TTAAATTGTT
*
99321307 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
99321326 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
99321345 TTA
1 TTA
99321348 ATATTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Found at i:99323132 original size:39 final size:39
Alignment explanation
Indices: 99323077--99323168 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
99323067 ATAATGGAGA
99323077 ATTATATCCGGGCTAAGT-CTCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCT-GAAGGCATTCGTGCTGGT
*
99323116 GTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGT
99323155 ATTATATCCGGGCT
1 ATTATATCCGGGCT
99323169 TAAAGTCCCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 48 0.96
40 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGT
Found at i:99326173 original size:39 final size:39
Alignment explanation
Indices: 99326130--99326210 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
99326120 TATTTTATTT
99326130 ATTCATCAACAATATTAATACCAACCAAATTAAAACTTA
1 ATTCATCAACAATATTAATACCAACCAAATTAAAACTTA
99326169 ATTCATCAACAATATTAATACCAACCAAATTAAAACTTA
1 ATTCATCAACAATATTAATACCAACCAAATTAAAACTTA
99326208 ATT
1 ATT
99326211 GAAAATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.30
Consensus pattern (39 bp):
ATTCATCAACAATATTAATACCAACCAAATTAAAACTTA
Found at i:99327080 original size:131 final size:130
Alignment explanation
Indices: 99326767--99327092 Score: 437
Period size: 131 Copynumber: 2.5 Consensus size: 130
99326757 GAAAAACCAA
* * * * * * * *
99326767 AACCCAGCAC-AGTAGGGCACGATTCCTCAAATTTCTAGACATTGTACATTGCCTT-GTTTT--A
1 AACCCAGCACGA-TAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAA
* * * *
99326828 GAGTTTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTACTTTGAACAAACGGGAAATTG
65 GAATTTAGAAAACATGAGTGAAATTCCAAAGGAATATTCGATTACTTTGAACAAACGAGAAATTG
99326893 C
130 C
* *
99326894 AACCTAGCACGATAAGGCAAGATTCCCCGAATTGCCAAACATCGAACACTT-CCTTCGTTTTAAA
1 AACCCAGCACGATAAGGCACGATTCCCCGAATTGCCAAACATCGAACA-TTGCCTTCGTTTTAAA
** *
99326958 GAATTTCTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATT
65 GAATTTAGAAA-ACATGAGTGAAATTCCAAAGGAATATTCGATTACTTTGAACAAACGAGAAATT
99327023 GC
129 GC
99327025 AACCCAGCACGATAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
99327090 AAT
66 AAT
99327093 CTTTAAATGA
Statistics
Matches: 173, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
127 40 0.23
128 8 0.05
130 11 0.06
131 114 0.66
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (130 bp):
AACCCAGCACGATAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
AATTTAGAAAACATGAGTGAAATTCCAAAGGAATATTCGATTACTTTGAACAAACGAGAAATTGC
Found at i:99329697 original size:16 final size:14
Alignment explanation
Indices: 99329677--99329825 Score: 142
Period size: 15 Copynumber: 10.0 Consensus size: 14
99329667 TTTTTTGGTT
99329677 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGG-AA
99329692 TTTTTTT--TGGAA
1 TTTTTTTGCTGGAA
*
99329704 TTTTCTTTGCTAGAA
1 TTTT-TTTGCTGGAA
99329719 TTCTTTTTGGCTGGAA
1 TT-TTTTT-GCTGGAA
99329735 TTTTTTTGCTGGGAA
1 TTTTTTTGCT-GGAA
99329750 TTTTTTTGCTGGGAA
1 TTTTTTTGCT-GGAA
99329765 TTTTTTGCTGCTGGAA
1 TTTTTT--TGCTGGAA
99329781 -TTTTTTGCTGGAAAA
1 TTTTTTTGCTGG--AA
*
99329796 TTTTTTGCTGCTAGAA
1 TTTTTT--TGCTGGAA
*
99329812 TTTTTTTGTTGGAA
1 TTTTTTTGCTGGAA
99329826 AATTTTTTTT
Statistics
Matches: 116, Mismatches: 5, Indels: 27
0.78 0.03 0.18
Matches are distributed among these distances:
12 6 0.05
13 12 0.10
14 9 0.08
15 53 0.46
16 27 0.23
17 4 0.03
18 5 0.04
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.54
Consensus pattern (14 bp):
TTTTTTTGCTGGAA
Found at i:99330264 original size:25 final size:25
Alignment explanation
Indices: 99330233--99330280 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
99330223 TCTTTACTCA
99330233 TTGTCGTGTAACGAGAACAGAGTTG
1 TTGTCGTGTAACGAGAACAGAGTTG
*
99330258 TTGTCGTGTAACGAGAATAGAGT
1 TTGTCGTGTAACGAGAACAGAGT
99330281 AAAGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.29
Consensus pattern (25 bp):
TTGTCGTGTAACGAGAACAGAGTTG
Found at i:99330944 original size:54 final size:54
Alignment explanation
Indices: 99330862--99331127 Score: 395
Period size: 54 Copynumber: 5.0 Consensus size: 54
99330852 ATGTGACCCG
99330862 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
99330916 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
99330970 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGGAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
99331024 AGG-T----TCA--ACTCGCAATATGAGTTGATTTTTGAAAAACATG-AATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-GAAATTAAA
*
99331071 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAA
99331127 A
1 A
99331128 CAAAAATTGA
Statistics
Matches: 194, Mismatches: 7, Indels: 20
0.88 0.03 0.09
Matches are distributed among these distances:
47 39 0.20
48 2 0.01
49 3 0.02
52 3 0.02
53 1 0.01
54 125 0.64
55 17 0.09
56 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:99331054 original size:47 final size:47
Alignment explanation
Indices: 99330985--99331081 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
99330975 CAACTCACCT
* *
99330985 CTCGCAATATGAGTTGATTTTTGAAAAATAGGAATTAAAAGGTTCAA
1 CTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAGGCTCAA
*
99331032 CTCGCAATATGAGTTGATTTTTGAAAAACATGAATTAAAAGGCTCAA
1 CTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAGGCTCAA
99331079 CTC
1 CTC
99331082 ACCTCTCGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (47 bp):
CTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAGGCTCAA
Found at i:99331089 original size:101 final size:104
Alignment explanation
Indices: 99330862--99331127 Score: 403
Period size: 101 Copynumber: 2.5 Consensus size: 104
99330852 ATGTGACCCG
99330862 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCT--A-TC
*
99330927 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAA
63 A-CACTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAA
* * *
99330970 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGGAATTAAAAGG-T-TCA-A
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTATCACA
*
99331032 CTCGCAATATGAGTTGATTTTTGAAAAACATGAATTAAA
66 CTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAA
*
99331071 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAA
99331128 CAAAAATTGA
Statistics
Matches: 147, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
101 69 0.47
102 16 0.11
103 7 0.05
107 1 0.01
108 54 0.37
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (104 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTATCACA
CTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAA
Found at i:99331126 original size:14 final size:14
Alignment explanation
Indices: 99331107--99331140 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
99331097 AGTTGATTTT
*
99331107 TTGAAAAACATAAA
1 TTGAAAAACAAAAA
99331121 TTG-AAAACAAAAA
1 TTGAAAAACAAAAA
99331134 TTGAAAA
1 TTGAAAA
99331141 TACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:99331227 original size:89 final size:89
Alignment explanation
Indices: 99331074--99331459 Score: 394
Period size: 89 Copynumber: 4.4 Consensus size: 89
99331064 AATTAAAAGG
*
99331074 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTGAAAACAAAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACATAAATTGAAAACAGAAATTGA
99331138 AAATACCTCAGCATGTGACCTGAGA
65 AAATACCTCAGCATGTGACCTGAGA
* * * **
99331163 CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTG-AAACTTAATTTGAAAAGCAGATTTTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAA-CAGAAATTGA
* * *
99331227 AAATACCTCA--ATGTGTCTTGAGG
65 AAATACCTCAGCATGTGACCTGAGA
** * * *
99331250 CTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAACAGAAACTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAACAGAAATTGAA
** ** * *
99331313 AATAGTTCAGCACATGAGCT-AAA
66 AATACCTCAGCATGTGACCTGAGA
* * * * * **
99331336 GCTCAACTCACTTCTCGCAATGTGAGTTGATCTTTTTG-AAACTTAATTTGAAAAGCAGATTTTG
1 -CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAA-CAGAAATTG
* * *
99331400 AAAATACCTC-GATATGTGACCCGAGG
64 AAAATACCTCAG-CATGTGACCTGAGA
99331426 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
99331460 GAAAAACAGA
Statistics
Matches: 237, Mismatches: 49, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
85 20 0.08
86 14 0.06
87 67 0.28
88 28 0.12
89 100 0.42
90 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (89 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAACAGAAATTGAA
AATACCTCAGCATGTGACCTGAGA
Found at i:99331300 original size:13 final size:13
Alignment explanation
Indices: 99331282--99331314 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
99331272 GAGTTGAATT
99331282 TTGAAAACAGAAA
1 TTGAAAACAGAAA
99331295 TTGAAAACAGAAA
1 TTGAAAACAGAAA
*
99331308 CTGAAAA
1 TTGAAAA
99331315 TAGTTCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.61, C:0.09, G:0.15, T:0.15
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:99331364 original size:174 final size:177
Alignment explanation
Indices: 99331071--99331473 Score: 589
Period size: 174 Copynumber: 2.3 Consensus size: 177
99331061 ATGAATTAAA
* *
99331071 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAACAAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAACAAAAACT
** * * *
99331136 GAAAATACCTCAGCATGTGACCTGAGACTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGA
65 GAAAATACCTCAGCACATGACCTAAGACTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGA
* **
99331201 AACTTAATTTGAAAAGCAGATTTTGAAAATACCTC-A-ATGTGTCTTG
130 AACTTAATTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACCCG
** * *
99331247 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAACAGAAACTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAACAAAAACTG
** * * *
99331311 AAAATAGTTCAGCACATGAGCTAA-AGCTCAACTCACTTCTCGCAATGTGAGTTGATCTTTTTGA
66 AAAATACCTCAGCACATGACCTAAGA-CTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGA
99331375 AACTTAATTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACCCG
130 AACTTAATTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACCCG
99331423 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
99331474 AAATGCAATA
Statistics
Matches: 201, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
173 1 0.00
174 110 0.55
175 6 0.03
176 72 0.36
177 12 0.06
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (177 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAACAAAAACTG
AAAATACCTCAGCACATGACCTAAGACTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGAA
ACTTAATTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACCCG
Found at i:99331580 original size:110 final size:112
Alignment explanation
Indices: 99331382--99331583 Score: 309
Period size: 110 Copynumber: 1.8 Consensus size: 112
99331372 TGAAACTTAA
**
99331382 TTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
99331447 TGAGTTGATTTTTGAAAAACAGAAATTAAATGCAATATGAGTTGAAT
66 TGAGTTGAATTTTGAAAAACAGAAATTAAATGCAATATGAGTTGAAT
* ** **
99331494 TTTGAAAAGCAGAAATTGAAAATACCTC-A-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
99331557 TGAGTTGAATTTTGAAAAGCAGAAATT
66 TGAGTTGAATTTTGAAAAACAGAAATT
99331584 GAAAATACCT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
110 54 0.67
111 1 0.01
112 26 0.32
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (112 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGAATTTTGAAAAACAGAAATTAAATGCAATATGAGTTGAAT
Found at i:99331597 original size:73 final size:73
Alignment explanation
Indices: 99331478--99332017 Score: 935
Period size: 73 Copynumber: 7.4 Consensus size: 73
99331468 GAAATTAAAT
99331478 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331543 CATTTCTC
66 CATTTCTC
99331551 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331616 CATTTCTC
66 CATTTCTC
* *
99331624 GCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATGCCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
*
99331689 CATTTCTT
66 CATTTCTC
* * *
99331697 GCAATATGAGTTGAATTTTGAAAA-CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331761 CATTTCTC
66 CATTTCTC
*
99331769 GCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331834 CATTTCTC
66 CATTTCTC
* * * *
99331842 GCAATATGAGTTAAATTTTGAAAA-CAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331906 CATTTCTC
66 CATTTCTC
*
99331914 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331979 CATTTCTC
66 CATTTCTC
99331987 GCAATATGAGTTGAATTTTTG-AAA-CAGAAAT
1 GCAATATGAGTTGAA-TTTTGAAAAGCAGAAAT
99332018 AAAAGCATCA
Statistics
Matches: 444, Mismatches: 20, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
72 141 0.32
73 298 0.67
74 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (73 bp):
GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
CATTTCTC
Found at i:99331861 original size:218 final size:218
Alignment explanation
Indices: 99331477--99332017 Score: 962
Period size: 218 Copynumber: 2.5 Consensus size: 218
99331467 AGAAATTAAA
*
99331477 TGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAAC
1 TGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
99331542 TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGA
66 TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGA
* * *
99331607 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATGCCTCAATG
131 GGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAAA-CAAAAATTGAAAATACCTCAACG
99331672 TGTCTTGAGGCTCAACTCATTTCT
195 TGTCTTGAGGCTCAACTCATTTCT
* *
99331696 TGCAATATGAGTTGAATTTTGAAAA-CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
1 TGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
*
99331760 TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGA
66 TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGA
*
99331825 GGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAAACAAAAATTGAAATTACCTCAACGT
131 GGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAAACAAAAATTGAAAATACCTCAACGT
99331890 GTCTTGAGGCTCAACTCATTTCT
196 GTCTTGAGGCTCAACTCATTTCT
*
99331913 CGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
1 TGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
99331978 TCATTTCTCGCAATATGAGTTGAATTTTTG-AAA-CAGAAAT
66 TCATTTCTCGCAATATGAGTTGAA-TTTTGAAAAGCAGAAAT
99332018 AAAAGCATCA
Statistics
Matches: 308, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
217 74 0.24
218 204 0.66
219 30 0.10
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (218 bp):
TGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGA
GGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAAACAAAAATTGAAAATACCTCAACGT
GTCTTGAGGCTCAACTCATTTCT
Found at i:99332012 original size:145 final size:145
Alignment explanation
Indices: 99331478--99332017 Score: 965
Period size: 145 Copynumber: 3.7 Consensus size: 145
99331468 GAAATTAAAT
99331478 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
* *
99331543 CATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAG
66 CATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAG
99331608 GCTCAACTCATTTCTC
130 GCTCAACTCATTTCTC
* *
99331624 GCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATGCCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
* *
99331689 CATTTCTTGCAATATGAGTTGAATTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
66 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
99331754 CTCAACTCATTTCTC
131 CTCAACTCATTTCTC
*
99331769 GCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
* *
99331834 CATTTCTCGCAATATGAGTTAAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGG
66 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
99331899 CTCAACTCATTTCTC
131 CTCAACTCATTTCTC
*
99331914 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
99331979 CATTTCTCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
66 CATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAGAAAT
99332018 AAAAGCATCA
Statistics
Matches: 377, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
145 278 0.74
146 99 0.26
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (145 bp):
GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
CTCAACTCATTTCTC
Found at i:99334237 original size:25 final size:25
Alignment explanation
Indices: 99334197--99334254 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
99334187 TGGCATTTGA
99334197 TTTCTTTTTTTGTTTTGTCCTTTTT
1 TTTCTTTTTTTGTTTTGTCCTTTTT
* **
99334222 TTTCTTTTTATT-TTTTTTTGTTTTT
1 TTTCTTTTT-TTGTTTTGTCCTTTTT
99334247 TTTCTTTT
1 TTTCTTTT
99334255 CATGACTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (25 bp):
TTTCTTTTTTTGTTTTGTCCTTTTT
Found at i:99334254 original size:16 final size:16
Alignment explanation
Indices: 99334201--99334246 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
99334191 ATTTGATTTC
**
99334201 TTTTTTTGTTTTGTCCT
1 TTTTTTTGTTTT-TATT
*
99334218 TTTTTTTCTTTTTATT
1 TTTTTTTGTTTTTATT
99334234 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
99334247 TTTCTTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTTTGTTTTTATT
Found at i:99364400 original size:36 final size:36
Alignment explanation
Indices: 99364353--99364425 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
99364343 AGGAGAATGG
99364353 AAGAAGAACTAGTATGGAAAGCATTGGGGATATCTT
1 AAGAAGAACTAGTATGGAAAGCATTGGGGATATCTT
99364389 AAGAAGAACTAGTATGGAAAGCATTGGGGATATCTT
1 AAGAAGAACTAGTATGGAAAGCATTGGGGATATCTT
99364425 A
1 A
99364426 TAGGCCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (36 bp):
AAGAAGAACTAGTATGGAAAGCATTGGGGATATCTT
Found at i:99365376 original size:22 final size:21
Alignment explanation
Indices: 99365324--99365383 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 21
99365314 GAAAAATATA
*
99365324 TAAAAATACAT-AAAT-ATTT
1 TAAAAATACATAAAATAAATT
99365343 TCAAAAAT--ATAATAATAAATT
1 T-AAAAATACATAA-AATAAATT
99365364 TAAAAATACATAAGAATAAA
1 TAAAAATACATAA-AATAAA
99365384 AAAAATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 15 0.45
21 4 0.12
22 10 0.30
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAAAATACATAAAATAAATT
Found at i:99365454 original size:9 final size:9
Alignment explanation
Indices: 99365442--99365524 Score: 51
Period size: 10 Copynumber: 8.6 Consensus size: 9
99365432 ATATAAAAAT
99365442 AAATATTAA
1 AAATATTAA
*
99365451 AAATTTTAA
1 AAATATTAA
*
99365460 ATTTATATTAA
1 A--AATATTAA
99365471 TAAATATAATAA
1 -AAATAT--TAA
*
99365483 AAAT-TTTA
1 AAATATTAA
* *
99365491 AATTTTTAA
1 AAATATTAA
99365500 TAAATATTAA
1 -AAATATTAA
99365510 AAATATATAA
1 AAATAT-TAA
99365520 AAATA
1 AAATA
99365525 AAAATTCCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
8 5 0.09
9 18 0.32
10 20 0.35
11 10 0.18
12 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAATATTAA
Done.