Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3507_ERROPOS4234955
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: 199999
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:385 original size:21 final size:21
Alignment explanation
Indices: 315--385 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
305 AAATCTTCAA
315 AAAAGATTAATGCCATAATGTC
1 AAAA-ATTAATGCCATAATGTC
** *
337 AAAAATTGGTACC-T-A-GT-
1 AAAAATTAATGCCATAATGTC
354 AAATTAATTAATGCCATAATGTC
1 AAA--AATTAATGCCATAATGTC
377 AAAAATTAA
1 AAAAATTAA
386 AGATTTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
17 3 0.08
18 2 0.05
19 8 0.22
20 2 0.05
21 13 0.35
22 6 0.16
23 3 0.08
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAAATTAATGCCATAATGTC
Found at i:1174 original size:10 final size:10
Alignment explanation
Indices: 1148--1203 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
1138 TATATGTAAG
1148 TATGTATATA
1 TATGTATATA
*
1158 TA--CATATA
1 TATGTATATA
1166 TATGTATATA
1 TATGTATATA
* *
1176 AAT-TA-AAA
1 TATGTATATA
1184 TATGTATATA
1 TATGTATATA
1194 TATGTATATA
1 TATGTATATA
1204 AAAATTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
8 11 0.31
9 4 0.11
10 21 0.58
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (10 bp):
TATGTATATA
Found at i:1192 original size:28 final size:29
Alignment explanation
Indices: 1161--1238 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 29
1151 GTATATATAC
1161 ATATATATGTATATAAATT-AAAATATGT
1 ATATATATGTATATAAATTAAAAATATGT
1189 ATATATATGTATATAAAAATTAAAAAATATGT
1 ATATATATGTATAT--AAATT-AAAAATATGT
* *
1221 ATGTATATATATTATAAA
1 ATATATATGTA-TATAAA
1239 AATGTATTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 14 0.33
30 5 0.12
31 3 0.07
32 18 0.42
33 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (29 bp):
ATATATATGTATATAAATTAAAAATATGT
Found at i:1303 original size:3 final size:3
Alignment explanation
Indices: 1295--1322 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1285 TAAATGACTA
1295 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1323 CAAGATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2341 original size:34 final size:34
Alignment explanation
Indices: 2293--2374 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
2283 GTGAAGCAAG
* * *
2293 TGCGGCGGTGGCAGAGGGCAGGTTGGCAGAGGCA
1 TGCGACGGTGGCAGAAGGCAGGTGGGCAGAGGCA
*
2327 TGCGACGGTGGCAGAAGGTAGGTGGGCAGAGGCA
1 TGCGACGGTGGCAGAAGGCAGGTGGGCAGAGGCA
*
2361 TGCGACAGTGGCAG
1 TGCGACGGTGGCAG
2375 TTGCTAGGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.21, C:0.17, G:0.50, T:0.12
Consensus pattern (34 bp):
TGCGACGGTGGCAGAAGGCAGGTGGGCAGAGGCA
Found at i:2986 original size:82 final size:82
Alignment explanation
Indices: 2634--2971 Score: 469
Period size: 82 Copynumber: 4.1 Consensus size: 82
2624 TAAAACCTAA
* * * * * * *
2634 TTCGGGATTTATTCCTGTCGTTCAGCAGATTTTAATCCATTTTGATTTTGTTTCTAAGCAAGAAT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
*
2699 TAATTGAATAGTTCTGT
66 TAATTGAATAATTCTGT
* * * * *
2716 TTCGGGATTTATTCCCGTCGCTTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAACGAGAAT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
*
2781 TAATTGAATAATTATGT
66 TAATTGAATAATTCTGT
* * *
2798 TTCGGGATTTATTCCCGCCGTTTCATAGATTTTATTCGATTTTGATTTTGTTTCTAAACGAGAAT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
2863 TAATTGAATAATTCTGT
66 TAATTGAATAATTCTGT
* * * *
2880 TTCGAGATTTATTCCCCCCGTTTAACAGATTTTATTCAATTTTGATTTTGTTTCTAAACAAGATT
1 TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
* *
2945 TAATTAAATAATTTTGT
66 TAATTGAATAATTCTGT
2962 TTCGGGATTT
1 TTCGGGATTT
2972 CATCTTTTCG
Statistics
Matches: 227, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 227 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (82 bp):
TTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGAAT
TAATTGAATAATTCTGT
Found at i:3444 original size:82 final size:82
Alignment explanation
Indices: 3325--3670 Score: 417
Period size: 82 Copynumber: 4.2 Consensus size: 82
3315 AATTTAATAA
* * * * *
3325 AATT-TGTTTCGGGATTTATTCCTGCAATTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
1 AATTCTGTTTCGGGATTTATTCCCGCCATTTAATAGATTTTATTCGATTTTGATTTTGTTTCCAA
3389 ACGAGAATTAATTGAAT
66 ACGAGAATTAATTGAAT
* * * * * *
3406 AATTCTATTTCGGGATTTACTCTCGCCATTTAATAGATTTTATTTGATTTTAATTTTGTTTTCAA
1 AATTCTGTTTCGGGATTTATTCCCGCCATTTAATAGATTTTATTCGATTTTGATTTTGTTTCCAA
* *
3471 ACGAAAATTAATTGATT
66 ACGAGAATTAATTGAAT
* * * * *
3488 AATTCTGTTTCAGGATTTATTCCCGCCGTTTAATAGATTTAATTTGATTTTGATTTTGCTTCCAA
1 AATTCTGTTTCGGGATTTATTCCCGCCATTTAATAGATTTTATTCGATTTTGATTTTGTTTCCAA
*
3553 ACGATAATTAATTGAAT
66 ACGAGAATTAATTGAAT
* * *
3570 AATTCTGTTTCGGGATTTATTCCCTCC-TTTGAATATATTTTATTCGATTTTGATTTTATTTCCA
1 AATTCTGTTTCGGGATTTATTCCCGCCATTT-AATAGATTTTATTCGATTTTGATTTTGTTTCCA
* * *
3634 AACAAGATTTAATTAAAT
65 AACGAGAATTAATTGAAT
* * *
3652 GATTTTGTTTCGAGATTTA
1 AATTCTGTTTCGGGATTTA
3671 GTCCTGCCGT
Statistics
Matches: 225, Mismatches: 38, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
81 7 0.03
82 218 0.97
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (82 bp):
AATTCTGTTTCGGGATTTATTCCCGCCATTTAATAGATTTTATTCGATTTTGATTTTGTTTCCAA
ACGAGAATTAATTGAAT
Found at i:13411 original size:20 final size:21
Alignment explanation
Indices: 13386--13428 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
13376 TGTTTTATGC
*
13386 TTCAGAAATTTTTCAAAA-TT
1 TTCAGAAATATTTCAAAAGTT
13406 TTCAGAAATATTTCAAAAGTT
1 TTCAGAAATATTTCAAAAGTT
13427 TT
1 TT
13429 AGTCTCTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (21 bp):
TTCAGAAATATTTCAAAAGTT
Found at i:14316 original size:18 final size:19
Alignment explanation
Indices: 14280--14316 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14270 AATTATCAGA
14280 ATAGTGTCTTTACACACCAC
1 ATAGTGTCTTTA-ACACCAC
14300 ATAGTGTCTTT-ACACCA
1 ATAGTGTCTTTAACACCA
14317 TGTGGGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (19 bp):
ATAGTGTCTTTAACACCAC
Found at i:14733 original size:16 final size:16
Alignment explanation
Indices: 14712--14752 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
14702 AGAATTTCGG
14712 GCCCACATGCCCGTGT
1 GCCCACATGCCCGTGT
14728 GCCCACATGCCCGTGT
1 GCCCACATGCCCGTGT
14744 GCCCACATG
1 GCCCACATG
14753 TCCAAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.15, C:0.44, G:0.24, T:0.17
Consensus pattern (16 bp):
GCCCACATGCCCGTGT
Found at i:14887 original size:15 final size:17
Alignment explanation
Indices: 14852--14895 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
14842 ACTTACTTGT
14852 CACACGACCGTGTGCCA
1 CACACGACCGTGTGCCA
14869 CACACGACCGTGTGCCA
1 CACACGACCGTGTGCCA
14886 CACACGACCG
1 CACACGACCG
14896 ACCACATGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.25, C:0.43, G:0.23, T:0.09
Consensus pattern (17 bp):
CACACGACCGTGTGCCA
Found at i:17289 original size:81 final size:81
Alignment explanation
Indices: 17194--17568 Score: 448
Period size: 82 Copynumber: 4.6 Consensus size: 81
17184 TCAATAAAAC
* * * * * * *
17194 CTGTTTCGGGATTTATTCCTACCGTTCAGCAGATTTT-TTCCATTTTTATTTTGTCTCCAAGCGA
1 CTGTTTCGGGATTTATT-CTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGA
17258 GAATTAATTGAATAATT
65 GAATTAATTGAATAATT
* * * * *
17275 CTGTTTCGGGATTTATTC-CCGCTGTTTAACATATTTTATTCAAATTTGATTTTGTTTCCAAACG
1 CTGTTTCGGGATTTATTCTAC-C-ATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACG
17339 AGAATTAATTGAATAATT
64 AGAATTAATTGAATAATT
* *
17357 ATGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATGA
1 CTGTTTCGGGATTTATTCT-ACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGA
17422 GAATTAATTGAATAATT
65 GAATTAATTGAATAATT
* * **
17439 CTTTTTCTGGATTTATTCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATAAG
1 CTGTTTCGGGATTTATTCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAG
** *
17504 TTTTAATTAAATAATT
66 AATTAATTGAATAATT
* * * * *
17520 TTGTTTCGGGATTTAATCTTATCGTTTAACAGAATTTATTTCGATTTTG
1 CTGTTTCGGGATTTATTC-TACCATTTAACAGATTTTA-TTCGATTTTG
17569 GTTCAGAATT
Statistics
Matches: 257, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.00
80 2 0.01
81 100 0.39
82 142 0.55
83 11 0.04
84 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (81 bp):
CTGTTTCGGGATTTATTCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAG
AATTAATTGAATAATT
Found at i:17476 original size:163 final size:164
Alignment explanation
Indices: 17195--17568 Score: 468
Period size: 163 Copynumber: 2.3 Consensus size: 164
17185 CAATAAAACC
* * * * *
17195 TGTTTCGGGATTTATTC-CTACCGTTCAGCAGATTTT-TTCCATTTTTATTTTGTCTCCAAGCGA
1 TGTTTCGGGATTTATTCTC-ACCGTTTAACAGATTTTATTCGATTTTGATTTTGTCTCCAAACGA
* * *
17258 GAATTAATTGAATAATTCTGTTTCGGGATTTATTCCCGCTGTTTAACATATTTTATTCAAATTTG
65 GAATTAATTGAATAATTCTGTTTCGGGATTTATTCACGCTATTTAACAGATTTTATTCAAATTTG
* *
17323 ATTTTGTTTCCAAACGAGAATTAATTGAATAATTA
130 ATTTTGTTTCCAAACAAGAATTAATTAAATAATTA
* * *
17358 TGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAG
1 TGTTTCGGGATTTATTCTCACCGTTTAACAGATTTTATTCGATTTTGATTTTGTCTCCAAACGAG
* * * *
17423 AATTAATTGAATAATTCTTTTTCTGGATTTATTCTAC-C-ATTTAACAGATTTTATTCGATTTTG
66 AATTAATTGAATAATTCTGTTTCGGGATTTATTC-ACGCTATTTAACAGATTTTATTCAAATTTG
* ** *
17486 ATTTTGTTTCCAAATAAGTTTTAATTAAATAATTT
130 ATTTTGTTTCCAAACAAGAATTAATTAAATAATTA
* * * *
17521 TGTTTCGGGATTTAATCTTATCGTTTAACAGAATTTATTTCGATTTTG
1 TGTTTCGGGATTTATTCTCACCGTTTAACAGATTTTA-TTCGATTTTG
17569 GTTCAGAATT
Statistics
Matches: 181, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
163 113 0.62
164 67 0.37
165 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (164 bp):
TGTTTCGGGATTTATTCTCACCGTTTAACAGATTTTATTCGATTTTGATTTTGTCTCCAAACGAG
AATTAATTGAATAATTCTGTTTCGGGATTTATTCACGCTATTTAACAGATTTTATTCAAATTTGA
TTTTGTTTCCAAACAAGAATTAATTAAATAATTA
Found at i:27463 original size:40 final size:40
Alignment explanation
Indices: 27408--27674 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
27398 AACATTGGAT
27408 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
27448 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
27488 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
27528 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
27568 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
27608 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
27648 TATGTCTGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
27675 ATGTGTTTGC
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:37087 original size:82 final size:82
Alignment explanation
Indices: 36969--37308 Score: 439
Period size: 82 Copynumber: 4.1 Consensus size: 82
36959 ATAAAACCTT
* * * * * *
36969 TTTCGGGATTTTTTCCTGTC-TTTCAATAGATTTTATTCTATTTTGATTTTGTTTCCAAGCGAGA
1 TTTCGGGATTTATTCCCGCCGTTT-AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGA
*
37033 ATTAATTGAATAATTTTA
65 ATTAATTGAATAATTCTA
* * * * * * * * *
37051 TTTCAGGATTTATTCTCGCCGTTTAACATATTTTATTCGGTTATGATTTTATTTCAAAATGAGGA
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
*
37116 TTAATTGAATAACTCTA
66 TTAATTGAATAATTCTA
*
37133 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAGAA
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
37198 TTAATTGAATAATTCTA
66 TTAATTGAATAATTCTA
* * * *
37215 TTTCGGGATTTATTCCCGCCGTTTAAAAGATTTTATTCGATCTTGATTTTGTTTCCAAACAAGAT
1 TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
* * *
37280 TTAATTAAATAATTTTG
66 TTAATTGAATAATTCTA
37297 TTTCGGGATTTA
1 TTTCGGGATTTA
37309 ATTCTATCGT
Statistics
Matches: 223, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
82 220 0.99
83 3 0.01
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (82 bp):
TTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACGAGAA
TTAATTGAATAATTCTA
Found at i:46859 original size:18 final size:17
Alignment explanation
Indices: 46826--46876 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
46816 AAGTATGTGT
*
46826 ACCCTATTTATCATGCTA
1 ACCCTATATATCATGC-A
*
46844 ACCCTATATATTATGCA
1 ACCCTATATATCATGCA
*
46861 AGCCCCATATATCATG
1 A-CCCTATATATCATG
46877 GAAACCCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (17 bp):
ACCCTATATATCATGCA
Found at i:47125 original size:27 final size:27
Alignment explanation
Indices: 47088--47218 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
47078 TACTATGTGG
* *
47088 AACCC-TATGTGTGAGCCCTAGGTACA
1 AACCCATATGTGCGAACCCTAGGTACA
* ** *
47114 AACCCATATGTGCGAGCTTTAGGTACG
1 AACCCATATGTGCGAACCCTAGGTACA
* *
47141 AACCCATATGTGCGAACCCTGTATGTGCA
1 AACCCATATGTGCGAACCC--TAGGTACA
* * *
47170 AACCCTACATGTGTGAAACCCAAGGTACA
1 AACCC-ATATGTGCG-AACCCTAGGTACA
*
47199 AACCCATATGTGCAAACCCT
1 AACCCATATGTGCGAACCCT
47219 TCTTATGTAT
Statistics
Matches: 81, Mismatches: 19, Indels: 9
0.74 0.17 0.08
Matches are distributed among these distances:
26 5 0.06
27 38 0.47
28 6 0.07
29 20 0.25
30 7 0.09
31 5 0.06
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (27 bp):
AACCCATATGTGCGAACCCTAGGTACA
Found at i:47158 original size:14 final size:14
Alignment explanation
Indices: 47141--47217 Score: 66
Period size: 15 Copynumber: 5.4 Consensus size: 14
47131 TTTAGGTACG
*
47141 AACCCATATGTGCG
1 AACCCATATGTGCA
*
47155 AACCCTGTATGTGCA
1 AACCC-ATATGTGCA
* *
47170 AACCCTACATGTGTGA
1 AACCC-ATATGTG-CA
* *
47186 AACCCA-AGGTACA
1 AACCCATATGTGCA
47199 AACCCATATGTGCA
1 AACCCATATGTGCA
47213 AACCC
1 AACCC
47218 TTCTTATGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
13 7 0.14
14 18 0.36
15 19 0.38
16 6 0.12
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (14 bp):
AACCCATATGTGCA
Found at i:48987 original size:12 final size:12
Alignment explanation
Indices: 48970--48994 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48960 TTTAACTTTA
48970 ATCTCAAAATTG
1 ATCTCAAAATTG
48982 ATCTCAAAATTG
1 ATCTCAAAATTG
48994 A
1 A
48995 AATTGTGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCTCAAAATTG
Found at i:50439 original size:15 final size:15
Alignment explanation
Indices: 50387--50440 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
50377 TAATGAACAC
* *
50387 CCCCATATAGGTGAG
1 CCCCATGTAGGTGAA
**
50402 CCCCATGTATATGAAA
1 CCCCATGTAGGTG-AA
*
50418 CCGCATGTAGGTGAA
1 CCCCATGTAGGTGAA
50433 CCCCATGT
1 CCCCATGT
50441 GAACCCCTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (15 bp):
CCCCATGTAGGTGAA
Found at i:50488 original size:16 final size:15
Alignment explanation
Indices: 50441--50507 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
50431 AACCCCATGT
* *
50441 GAACCCCTTGCATAC
1 GAACCCCTTGTATGC
* **
50456 AAACCCCTTACATGC
1 GAACCCCTTGTATGC
50471 GAACCCTCTTGTATGC
1 GAACCC-CTTGTATGC
*
50487 GAA-CCCTTGTATGT
1 GAACCCCTTGTATGC
50501 GAACCCC
1 GAACCCC
50508 GATAAGCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.26
15 22 0.51
16 10 0.23
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.24
Consensus pattern (15 bp):
GAACCCCTTGTATGC
Found at i:50495 original size:14 final size:14
Alignment explanation
Indices: 50467--50506 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
50457 AACCCCTTAC
50467 ATGCGAACCCTCTTGT
1 ATGCGAA-CC-CTTGT
50483 ATGCGAACCCTTGT
1 ATGCGAACCCTTGT
*
50497 ATGTGAACCC
1 ATGCGAACCC
50507 CGATAAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 2 0.09
16 7 0.30
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (14 bp):
ATGCGAACCCTTGT
Found at i:50576 original size:30 final size:30
Alignment explanation
Indices: 50540--50602 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
50530 AACCCCTTGC
** *
50540 ATGCAAACCTTCTTGCATGCGAACACCTAT
1 ATGCAAACCCCCTTGCATGCGAACACCCAT
* *
50570 ATGCAAACCCCCTTTCATGCGAACCCCCAT
1 ATGCAAACCCCCTTGCATGCGAACACCCAT
50600 ATG
1 ATG
50603 TGAACCCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.24
Consensus pattern (30 bp):
ATGCAAACCCCCTTGCATGCGAACACCCAT
Found at i:50576 original size:59 final size:58
Alignment explanation
Indices: 50455--50579 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 58
50445 CCCTTGCATA
* * * * * *
50455 CAAACCCCTTACATGCGAACCCTCTTGTATGCGAACCCTTGTATGTGAACCCCGATAAG
1 CAAA-CCCATACATGCGAACCCTCTTGCATGCAAACCCTTGCATGCGAACACCGATAAG
* * *
50514 CAAACCCATACATGTGAACCC-CTTGCATGCAAACCTTCTTGCATGCGAACACCTATATG
1 CAAACCCATACATGCGAACCCTCTTGCATGCAAACC--CTTGCATGCGAACACCGATAAG
50573 CAAACCC
1 CAAACCC
50580 CCTTTCATGC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 12 0.22
58 15 0.27
59 28 0.51
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (58 bp):
CAAACCCATACATGCGAACCCTCTTGCATGCAAACCCTTGCATGCGAACACCGATAAG
Found at i:55272 original size:79 final size:82
Alignment explanation
Indices: 55161--55345 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
55151 GCTACTCGTT
* * *
55161 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
55224 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
55241 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55304 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55321 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55346 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55345 original size:40 final size:40
Alignment explanation
Indices: 55142--55345 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
55132 CGGAATTTAA
** *
55142 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55182 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55222 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55261 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55301 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55341 CCGGA
1 CCGGA
55346 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59020 original size:37 final size:36
Alignment explanation
Indices: 58970--59047 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
58960 TTATTACGGA
* * *
58970 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATC-G
*
59007 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
59043 GTCTT
1 GTCTT
59048 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 6 0.16
37 31 0.84
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
Found at i:59292 original size:47 final size:47
Alignment explanation
Indices: 59166--59835 Score: 1079
Period size: 47 Copynumber: 14.1 Consensus size: 47
59156 CCCTTCGGGA
* * * * * *
59166 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59213 CCTGTCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59262 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59309 CCTATCACATATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59358 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59407 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59454 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59501 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59548 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59595 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59642 CCTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59689 CTTATCACGTATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59785 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59832 CTTA
1 CTTA
59836 CTATCATTTC
Statistics
Matches: 584, Mismatches: 33, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 409 0.70
49 175 0.30
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62478 original size:39 final size:40
Alignment explanation
Indices: 62385--62500 Score: 162
Period size: 39 Copynumber: 2.9 Consensus size: 40
62375 CGAATACACG
* * *
62385 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
62425 ACACCAGCACGAATGCTCTTCGGAACTTAG-CCGGATACA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
62464 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
62501 TTAGTAACTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 34 0.52
40 31 0.48
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:62960 original size:29 final size:29
Alignment explanation
Indices: 62921--62999 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
62911 CTTAATAATC
*
62921 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62951 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
62980 AGCCCGCGCACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
63000 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:63042 original size:43 final size:43
Alignment explanation
Indices: 62981--63083 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
62971 TGCATTTCAA
*
62981 GCCCGCGCACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
63024 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
63067 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
63084 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:64998 original size:37 final size:37
Alignment explanation
Indices: 64948--65026 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
64938 TTATTACGAA
* * *
64948 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
64985 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
65022 GTCTT
1 GTCTT
65027 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:65239 original size:37 final size:37
Alignment explanation
Indices: 65189--65267 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65179 TTATTACGAA
* * *
65189 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
65226 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
65263 GTCTT
1 GTCTT
65268 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:65311 original size:241 final size:241
Alignment explanation
Indices: 64888--65369 Score: 955
Period size: 241 Copynumber: 2.0 Consensus size: 241
64878 TATAAACTTG
64888 GAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGAAGTCTT
1 GAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGAAGTCTT
64953 ACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCCCCACACGTAGTCA
66 ACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCCCCACACGTAGTCA
*
65018 TCGGGTCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTATGGACATTAATCAGTGATAATAT
131 TCGGGTCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATAT
65083 TCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
196 TCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
65129 GAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGAAGTCTT
1 GAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGAAGTCTT
65194 ACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCCCCACACGTAGTCA
66 ACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCCCCACACGTAGTCA
65259 TCGGGTCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATAT
131 TCGGGTCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATAT
65324 TCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
196 TCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
65370 CAAATGCCCT
Statistics
Matches: 240, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 240 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (241 bp):
GAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACGAAGTCTT
ACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCCCCACACGTAGTCA
TCGGGTCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATAT
TCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
Found at i:65512 original size:47 final size:47
Alignment explanation
Indices: 65386--65724 Score: 489
Period size: 47 Copynumber: 7.1 Consensus size: 47
65376 CCCTTCGGGA
* * * * * *
65386 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65433 CCTGTCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65482 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65529 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65578 CCTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65625 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65672 CTTATCACATATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65721 CTTA
1 CTTA
65725 CTATCATTTC
Statistics
Matches: 265, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 141 0.53
49 124 0.47
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65551 original size:96 final size:96
Alignment explanation
Indices: 65386--65721 Score: 514
Period size: 96 Copynumber: 3.5 Consensus size: 96
65376 CCCTTCGGGA
* * * * * * * *
65386 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
65451 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65482 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
65547 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
65578 CCTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--GTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
65641 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65672 CTTATCACATATATATACACTTTCACATTCATCGCATCGGCCATTAGGCC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
65722 TTACTATCAT
Statistics
Matches: 221, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
94 44 0.20
96 177 0.80
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65646 original size:143 final size:144
Alignment explanation
Indices: 65388--65721 Score: 530
Period size: 143 Copynumber: 2.3 Consensus size: 144
65378 CTTCGGGACT
* * * * * * *
65388 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
65451 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65516 TCAGCCATTAGGCCC
130 TCAGCCATTAGGCCC
*
65531 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTC-ATATATACA
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
*
65595 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
65660 CGGCCATTAGGCCT
131 CAGCCATTAGGCCC
*
65674 TATCACATATATATACACTTTCACATTCATCGCATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
65722 TTACTATCAT
Statistics
Matches: 177, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
143 139 0.79
144 1 0.01
145 37 0.21
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (144 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CAGCCATTAGGCCC
Found at i:69840 original size:28 final size:28
Alignment explanation
Indices: 69800--69854 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
69790 CTGATCCAAG
69800 TAAAATTTCAGCTATTTTGGATTGGAAT
1 TAAAATTTCAGCTATTTTGGATTGGAAT
*
69828 TAAAATTTTAGCTATTTTGGATTGGAA
1 TAAAATTTCAGCTATTTTGGATTGGAA
69855 ACCTCCGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (28 bp):
TAAAATTTCAGCTATTTTGGATTGGAAT
Found at i:73134 original size:40 final size:40
Alignment explanation
Indices: 73078--73183 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
73068 TATAATGATA
* *
73078 TTCGACTATAATTGGCACTAAGTGTGC-AGTTTAATATAGC
1 TTCGACTATAAATGGCACTAAGTGTGCGAG-TTAACATAGC
**
73118 TTCGACTATAAATGGCACTAAGTGTGCGAGTTGGCATAGC
1 TTCGACTATAAATGGCACTAAGTGTGCGAGTTAACATAGC
* *
73158 TTCCATTATAGAA-GGCACTAAGTGTG
1 TTCGACTATA-AATGGCACTAAGTGTG
73184 TGATACCGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
40 54 0.93
41 4 0.07
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (40 bp):
TTCGACTATAAATGGCACTAAGTGTGCGAGTTAACATAGC
Found at i:74929 original size:68 final size:66
Alignment explanation
Indices: 74855--75026 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
74845 CATCATGTGT
* * * *
74855 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
74918 TGTAG
62 TGTAG
** * *
74923 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
74988 AG
65 AG
* * * *
74990 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
75027 AGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:74960 original size:64 final size:64
Alignment explanation
Indices: 74879--75062 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
74869 AGACATTATG
* * * *
74879 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGAGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
74943 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGAGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
75008 AA
63 AA
* * *
75010 AT-TGGCTAGGTCACATGAGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGAGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
75063 CGAACTACAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGAGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:81540 original size:27 final size:27
Alignment explanation
Indices: 81510--81563 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
81500 TGTCAGAACA
81510 GTAAAATTTTGAACTTTTTCTTGAAAT
1 GTAAAATTTTGAACTTTTTCTTGAAAT
81537 GTAAAATTTTGAACTTTTTCTTGAAAT
1 GTAAAATTTTGAACTTTTTCTTGAAAT
81564 AAAGATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (27 bp):
GTAAAATTTTGAACTTTTTCTTGAAAT
Found at i:82271 original size:37 final size:37
Alignment explanation
Indices: 82221--82299 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
82211 TTATTACGAA
* * *
82221 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
82258 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
82295 GTCTT
1 GTCTT
82300 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:82496 original size:47 final size:47
Alignment explanation
Indices: 82418--82734 Score: 544
Period size: 47 Copynumber: 6.7 Consensus size: 47
82408 CCCTTCGGGA
* * * * * *
82418 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
82465 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82512 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82559 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82702 CTTATCACATATATACACTTTCACATTCATCAC
1 CTTATCACATATATACACTTTCACATTCATCAC
82735 GTAGAATCCT
Statistics
Matches: 258, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 211 0.82
49 47 0.18
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84443 original size:13 final size:13
Alignment explanation
Indices: 84425--84449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84415 TACTAAATTT
84425 TCATGGATTCAAA
1 TCATGGATTCAAA
84438 TCATGGATTCAA
1 TCATGGATTCAA
84450 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:85436 original size:85 final size:85
Alignment explanation
Indices: 85293--85460 Score: 336
Period size: 85 Copynumber: 2.0 Consensus size: 85
85283 GGGCTGTCAC
85293 ATGCACTAAGTGTGCGAATTTGATACTGACCATTAAGTGTGCGAGTTGGATTTAAGCACTATGTG
1 ATGCACTAAGTGTGCGAATTTGATACTGACCATTAAGTGTGCGAGTTGGATTTAAGCACTATGTG
85358 TGTGAATTAATTTCTGAGGG
66 TGTGAATTAATTTCTGAGGG
85378 ATGCACTAAGTGTGCGAATTTGATACTGACCATTAAGTGTGCGAGTTGGATTTAAGCACTATGTG
1 ATGCACTAAGTGTGCGAATTTGATACTGACCATTAAGTGTGCGAGTTGGATTTAAGCACTATGTG
85443 TGTGAATTAATTTCTGAG
66 TGTGAATTAATTTCTGAG
85461 CACTAAGTGT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (85 bp):
ATGCACTAAGTGTGCGAATTTGATACTGACCATTAAGTGTGCGAGTTGGATTTAAGCACTATGTG
TGTGAATTAATTTCTGAGGG
Found at i:85518 original size:63 final size:63
Alignment explanation
Indices: 85414--85538 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 63
85404 TGACCATTAA
* *
85414 GTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
1 GTGTACGAGTTGGATTTAAGCACTATGTGTATGAATTAATTTCTGAGCACTAAGTGTGCGAAT
*
85477 GTGTACGAGTTGGATTTAAGTACTATGTGTATGAATTAATTTCTGAGCACTAAGTGTGCGAA
1 GTGTACGAGTTGGATTTAAGCACTATGTGTATGAATTAATTTCTGAGCACTAAGTGTGCGAA
85539 GTCAGTTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.35
Consensus pattern (63 bp):
GTGTACGAGTTGGATTTAAGCACTATGTGTATGAATTAATTTCTGAGCACTAAGTGTGCGAAT
Found at i:86132 original size:38 final size:38
Alignment explanation
Indices: 86078--86194 Score: 171
Period size: 38 Copynumber: 3.1 Consensus size: 38
86068 TAAGATTTCA
*
86078 GGTTATAATTCCGCAGGCTTCGTGCTGGTCTTATATCCG
1 GGTTA-AATCCCGCAGGCTTCGTGCTGGTCTTATATCCG
*
86117 GGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATATCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATATCCG
* * * *
86155 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATTCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATATCCG
86193 GG
1 GG
86195 CCTTTAGGCC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 66 0.93
39 5 0.07
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.33
Consensus pattern (38 bp):
GGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATATCCG
Found at i:88324 original size:46 final size:46
Alignment explanation
Indices: 88257--88432 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
88247 TGTAACCCGC
*
88257 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGTAT
* **
88303 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTC-GTAT
* *** * * * *
88349 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGTAT
* *
88396 CCATAAGTGAACCCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88433 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGTAT
Found at i:88375 original size:93 final size:93
Alignment explanation
Indices: 88265--88435 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
88255 GCCCATAAGT
* * * *
88265 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
88330 CGAGCTCGGATGCCCAGTTACATCTCTC
66 CGAGCTCGGATGCCCAGTTACATCTCTC
* *
88358 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACCCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
*
88423 CGAGTTCGGATGC
66 CGAGCTCGGATGC
88436 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
CGAGCTCGGATGCCCAGTTACATCTCTC
Found at i:89964 original size:40 final size:40
Alignment explanation
Indices: 89919--90190 Score: 341
Period size: 40 Copynumber: 6.8 Consensus size: 40
89909 ATAACCACAA
* * * *
89919 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
89959 GCACAAATGCCTTCGGGTCTTGGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
** * *
89999 GCACAAATGCCTTCGGGTCTTAGCCTTGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
90039 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
90079 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
90119 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
90159 GCATAAAGGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
90191 CATTCAAATG
Statistics
Matches: 201, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.02
40 189 0.94
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:90131 original size:120 final size:120
Alignment explanation
Indices: 89899--90186 Score: 461
Period size: 120 Copynumber: 2.4 Consensus size: 120
89889 TCTTCGGAAT
* * * *
89899 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCAC
*
89963 AAATGCCTTCGGGTCTTGGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
**
90018 TTAGCCTTGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCAC
90083 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* ** * *
90138 TTAGCCCGGATAAAATCACTAGCATAAAGGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
90187 ATATCATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 4 0.03
120 150 0.97
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTAGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:92083 original size:18 final size:18
Alignment explanation
Indices: 92062--92103 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
92052 TCGGTGATAG
*
92062 TTCATACTCATCAAGTAA
1 TTCACACTCATCAAGTAA
92080 TTCACACTCATCAAGTAA
1 TTCACACTCATCAAGTAA
92098 TTCACA
1 TTCACA
92104 TAATTACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (18 bp):
TTCACACTCATCAAGTAA
Found at i:95484 original size:20 final size:20
Alignment explanation
Indices: 95455--95497 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
95445 TTTGTGACAT
*
95455 ATTATGATTTTGCCCCTAAA
1 ATTATAATTTTGCCCCTAAA
95475 ATTATAATTTTGCCCCTAAA
1 ATTATAATTTTGCCCCTAAA
95495 ATT
1 ATT
95498 TTACAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTATAATTTTGCCCCTAAA
Found at i:100865 original size:23 final size:23
Alignment explanation
Indices: 100839--100884 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
100829 ACCTGTAGAG
*
100839 ATTAAATAAAACT-AATCAAATTA
1 ATTAAA-AAAACTAAACCAAATTA
*
100862 ATTAAAATAACTAAACCAAATTA
1 ATTAAAAAAACTAAACCAAATTA
100885 CACCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAAAAACTAAACCAAATTA
Found at i:106336 original size:21 final size:18
Alignment explanation
Indices: 106291--106338 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
106281 TAACTTGATC
106291 TTTTCT-AATTCTTTCCA
1 TTTTCTCAATTCTTTCCA
106308 TTTCTCTCAATTCTTTTCTCA
1 TTT-TCTCAATTC-TTTC-CA
106329 TTCTTCTCAA
1 TT-TTCTCAA
106339 GGTTTTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 5 0.19
20 4 0.15
21 10 0.38
22 1 0.04
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTCTCAATTCTTTCCA
Found at i:109476 original size:23 final size:23
Alignment explanation
Indices: 109421--109478 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
109411 ATCCCAGCGT
*
109421 AGCTGCTAACAGTAACACAGCAA
1 AGCTGCTAATAGTAACACAGCAA
*
109444 AGCTGCTAATAGTAACGCAGCAA
1 AGCTGCTAATAGTAACACAGCAA
*
109467 AGCTACTAATAG
1 AGCTGCTAATAG
109479 CGGTAAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.17
Consensus pattern (23 bp):
AGCTGCTAATAGTAACACAGCAA
Found at i:109501 original size:27 final size:27
Alignment explanation
Indices: 109463--109526 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
109453 TAGTAACGCA
* *
109463 GCAAAGCTACTAATAGCGGTAA-ACGTG
1 GCAAAGCCACTAATAGCAG-AATACGTG
* *
109490 GCATAGCCACTAATATCAGAATACGTG
1 GCAAAGCCACTAATAGCAGAATACGTG
109517 GCAAAGCCAC
1 GCAAAGCCAC
109527 CAGAACAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
GCAAAGCCACTAATAGCAGAATACGTG
Found at i:111054 original size:27 final size:27
Alignment explanation
Indices: 110991--111067 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
110981 AGAGCACCAA
* * ** *
110991 AAAGGCTTCCTTTTCATAGTTTTTCAT
1 AAAGGCTTCATTTTCATAGATTGCCAC
* *
111018 AAATGTTTCATTTTCATAGATTGCCAC
1 AAAGGCTTCATTTTCATAGATTGCCAC
*
111045 AAAGGCTTCATTTTCATAAATTG
1 AAAGGCTTCATTTTCATAGATTG
111068 TTTCTAGTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (27 bp):
AAAGGCTTCATTTTCATAGATTGCCAC
Found at i:115974 original size:43 final size:44
Alignment explanation
Indices: 115884--115975 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
115874 GGACATGGTC
* * * *
115884 ATGTGGCTAGAGCATGTACAATTCAAAAATAGGGTCACATGGCT
1 ATGTCGCTAGACCATGTACAATTCAAAAATAAGGTCACACGGCT
* * *
115928 ATGTCGCTAGACCATGTGCAATTC-GAAATAAGGTCACACGGTT
1 ATGTCGCTAGACCATGTACAATTCAAAAATAAGGTCACACGGCT
115971 ATGTC
1 ATGTC
115976 ATCAAGCTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 20 0.49
44 21 0.51
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
ATGTCGCTAGACCATGTACAATTCAAAAATAAGGTCACACGGCT
Found at i:121416 original size:49 final size:49
Alignment explanation
Indices: 121363--121644 Score: 368
Period size: 49 Copynumber: 5.7 Consensus size: 49
121353 CTGGTACGCA
121363 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
121412 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
121461 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
121511 TAGTAGCCTGCACTTAGTAGTAACACACGTGATCGAAGTTA-CCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACT-ACACATGTGA-CCAA-TTATCC-GGTACACG
* * *
121563 TAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
121612 TAGTAGCCTGCACTTAGTACTGCACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
121645 TCACAATAGA
Statistics
Matches: 200, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
49 118 0.59
50 36 0.18
51 20 0.10
52 26 0.13
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:121626 original size:151 final size:148
Alignment explanation
Indices: 121363--121645 Score: 415
Period size: 151 Copynumber: 1.9 Consensus size: 148
121353 CTGGTACGCA
* * *
121363 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAATAGCCTACACTTA
* * *
121428 GTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGAC
66 GTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGAC
121493 CTAACCATCTGATACACG
131 CTAACCATCTGATACACG
* * * *
121511 TAGTAGCCTGCACTTAGTAGTAACACACGTGATCGAAGTTA-CCGGGTACGCATAATAGCCTGCA
1 TAGTAGCCTGCACTTAGTACT-ACACACGTGA-CCAA-TTATCC-GGTACACATAATAGCCTACA
* *
121575 CTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCACTTAGTACTGCACACG
62 CTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACG
121640 TGACCT
127 TGACCT
121646 CACAATAGAT
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
148 20 0.17
149 9 0.08
150 5 0.04
151 85 0.71
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (148 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAATAGCCTACACTTA
GTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGAC
CTAACCATCTGATACACG
Found at i:127280 original size:40 final size:40
Alignment explanation
Indices: 127196--127379 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
127186 TTGAATGCTG
* * * *
127196 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
127235 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
127276 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
127316 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
127356 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
127380 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:127333 original size:80 final size:81
Alignment explanation
Indices: 127196--127376 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
127186 TTGAATGCTG
* * *
127196 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
127260 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
127276 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
127337 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
127356 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
127377 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:127400 original size:39 final size:38
Alignment explanation
Indices: 127277--127426 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
127267 GTTATTAATT
* ** * *
127277 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
127317 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
127356 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
127396 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
127427 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:135601 original size:36 final size:37
Alignment explanation
Indices: 135541--135618 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
135531 TTATTACGAA
* * *
135541 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
135578 GTCTTA-CCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
135614 GTCTT
1 GTCTT
135619 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:135817 original size:47 final size:47
Alignment explanation
Indices: 135737--136388 Score: 980
Period size: 46 Copynumber: 14.1 Consensus size: 47
135727 CCCTTCGGGA
* * * * *
135737 CTTATCACATTATTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACA-TA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
135786 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
135832 CTTATCACATATATACACTTT--CATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
135877 C-TATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
135923 CCTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
135971 CTTATCACGATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
136019 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
136065 CTTATCA-ATATATATACTTTCACATTCATCACATCGG-CATTA--C
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
136108 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
136154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
136201 C---T--CATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
136242 CTTATCACGTATATACACTTT-ACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
136288 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
136337 CTTATCACATATATTACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
136385 CTTA
1 CTTA
136389 CTATCATTTC
Statistics
Matches: 558, Mismatches: 22, Indels: 47
0.89 0.04 0.07
Matches are distributed among these distances:
41 3 0.01
42 37 0.07
43 7 0.01
44 77 0.14
45 57 0.10
46 119 0.21
47 115 0.21
48 66 0.12
49 77 0.14
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:135890 original size:46 final size:46
Alignment explanation
Indices: 135750--136386 Score: 758
Period size: 47 Copynumber: 13.8 Consensus size: 46
135740 ATCACATTAT
* * * * * *
135750 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTC-ACATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGG-CCTATCAACATA
* *
135797 TATATACTTTCACATTCATCACATCGGCCATTAGGCTTATC-ACATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCCTATCAACATA
*
135843 TATACACTTT-CATTCATCACATCGGCCATTAGGCCTATC-ATATA
1 TATACACTTTACATTCATCACATCGGCCATTAGGCCTATCAACATA
*
135887 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGG-CCTATCA-ACATA
* *
135936 TATACACTTTCATATTCATCACATCGGCCATTAGGCTTATC-ACGATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCCTATCAAC-ATA
135983 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC-ACATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCC-TATCAACATA
*
136030 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATC-A-ATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCCTATCAACATA
*
136075 TATATACTTTCACATTCATCACATCGG-CATTA--CCTTATC-ACATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCC-TATCAACATA
*
136119 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATC-ACATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCCTATCAACATA
136165 TATACACTTTCACATTCATCACATCGGCCATTAGGCC--T---CATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCCTATCAACATA
*
136207 TATACACTTTCACATTCATCACATCGGCCATTA-GCCTTATC-ACGTA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCC-TATCAACATA
*
136253 TATACACTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTACATTCATCACATCGGCCATTAGGCC-TATCA-ACATA
136301 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC-ACATA
1 TATACACTTT-ACATTCATCACATCGGCCATTAGGCC-TATCAACATA
*
136348 TATTACACTTTCACGTTCATCACATCGGCCATTAGGCCT
1 TA-TACACTTT-ACATTCATCACATCGGCCATTAGGCCT
136387 TACTATCATT
Statistics
Matches: 541, Mismatches: 27, Indels: 44
0.88 0.04 0.07
Matches are distributed among these distances:
41 3 0.01
42 38 0.07
43 5 0.01
44 78 0.14
45 56 0.10
46 113 0.21
47 120 0.22
48 58 0.11
49 70 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (46 bp):
TATACACTTTACATTCATCACATCGGCCATTAGGCCTATCAACATA
Found at i:136227 original size:88 final size:90
Alignment explanation
Indices: 135750--136389 Score: 875
Period size: 94 Copynumber: 7.0 Consensus size: 90
135740 ATCACATTAT
* * * * * * * *
135750 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTCA
*
135815 TCACATCGGCCATTAGGCTTATCACATA
65 TCACATCGGCCATTAGGCCT-T-ACATA
* *
135843 TATACACTTT--CATTCATCACATCGGCCATTAGGCCTATCATATATATACACTTTCACATTCAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCAT
135906 CACATCGGCCATTAGGCCCTATCACATATA
66 CACATCGGCCATTAGG-CCT-T-AC--ATA
*
135936 TATACACTTTCATATTCATCACATCGGCCATTAGGCTTATCACGATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCAC-ATATATACACTTTCACATTCA
136001 TCACATCGGCCATTAGGCCTTATCACATA
65 TCACATCGGCCATTAGGCC-T-T-ACATA
*
136030 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCA-ATATATATACTTTCACATTCAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCAT
136094 CACATCGG-CATTA--CCTTATCACATA
66 CACATCGGCCATTAGGCC-T-T-ACATA
136119 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCAT
136184 CACATCGGCCATTAGGCC-T-CATA
66 CACATCGGCCATTAGGCCTTACATA
* *
136207 TATACACTTTCACATTCATCACATCGGCCATTAGCCTTATCACGTATATACACTTT-ACATTCAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCAT
136271 CACATCGGCCATTAGGCCTTATCACATATA
66 CACATCGGCCATTAGGCC-T-T-AC--ATA
*
136301 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTACACTTTCACGTTC
1 TATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATA-TACACTTTCACATTC
136366 ATCACATCGGCCATTAGGCCTTAC
64 ATCACATCGGCCATTAGGCCTTAC
136390 TATCATTTCA
Statistics
Matches: 506, Mismatches: 20, Indels: 41
0.89 0.04 0.07
Matches are distributed among these distances:
87 26 0.05
88 58 0.11
89 54 0.11
90 74 0.15
91 35 0.07
92 30 0.06
93 25 0.05
94 83 0.16
95 43 0.08
96 53 0.10
97 25 0.05
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (90 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTACATA
Found at i:138752 original size:23 final size:26
Alignment explanation
Indices: 138712--138761 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
138702 AAGGAATTCG
138712 CACACACACAGTGCCTCTAATT-ATT
1 CACACACACAGTGCCTCTAATTCATT
* *
138737 CACA-ACATAGTG-CTCTTATTCATT
1 CACACACACAGTGCCTCTAATTCATT
138761 C
1 C
138762 GTTAATACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (26 bp):
CACACACACAGTGCCTCTAATTCATT
Found at i:139023 original size:39 final size:39
Alignment explanation
Indices: 138927--139038 Score: 138
Period size: 39 Copynumber: 2.9 Consensus size: 39
138917 GAATACACGT
* *
138927 CACCAGCATGATTGCTCTTC-GACCTAGCCCGGATATAA
1 CACCAGCATGAATGCTCTTCGGACTTAGCCCGGATATAA
* *
138965 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CA
1 CACCAGCATGAATGCTCTTCGG-ACTTAGCCCGGATATAA
* *
139004 TACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 CACCAGCATGAATGCTCTTC-GGACTTAGCCCGGA
139039 GTAACTCGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 18 0.28
39 31 0.48
40 15 0.23
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CACCAGCATGAATGCTCTTCGGACTTAGCCCGGATATAA
Found at i:139093 original size:37 final size:40
Alignment explanation
Indices: 139042--139152 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
139032 GCCCGGAGTA
*
139042 ACTCGCCACCAATGCCTTCGG-CTTAGCCCGGAAT-TAGT-
1 ACTCG-CACAAATGCCTTCGGACTTAGCCCGGAATATAGTC
* *
139080 ACTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGA-CTTAGCCCGGAATATAGTC
*
139120 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTC-GGACTTAGCCCGGA
139153 CATCATTCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
37 14 0.23
38 7 0.11
39 12 0.20
40 17 0.28
41 11 0.18
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGACTTAGCCCGGAATATAGTC
Found at i:139574 original size:43 final size:43
Alignment explanation
Indices: 139513--139615 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
139503 TGCATTTCAA
139513 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
139556 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
139599 GCCCACACACTTAGTGC
1 GCCCGCACACTTAGTGC
139616 TGAAAACCAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:141408 original size:37 final size:37
Alignment explanation
Indices: 141358--141436 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
141348 TTATTACGAA
* * *
141358 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
141395 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
141432 GTCTT
1 GTCTT
141437 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:141701 original size:47 final size:47
Alignment explanation
Indices: 141555--142172 Score: 940
Period size: 47 Copynumber: 13.1 Consensus size: 47
141545 CCCTTCGGGA
* * * * * *
141555 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
141602 CCTGTCACATATATATACTTTCACA-T--TCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
141646 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
141694 CTT-TCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
141742 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
141791 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
141838 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
141885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
141932 TTTATCACATATATACACTTTCACATTCATCACATCGGCCCTTAGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GGC
*
141980 C-TATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
142026 CTTATCACGTATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
142073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
142122 CTTATCACATATATACAGTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
142169 CTTA
1 CTTA
142173 CTATCATTTC
Statistics
Matches: 526, Mismatches: 34, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.07
45 1 0.00
46 4 0.01
47 344 0.65
48 10 0.02
49 132 0.25
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:149297 original size:79 final size:82
Alignment explanation
Indices: 149186--149370 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
149176 GCTACTCGTT
* * *
149186 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
149249 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
149266 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
149329 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
149346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
149371 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:149370 original size:40 final size:40
Alignment explanation
Indices: 149167--149370 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
149157 CGGAATTTAA
** *
149167 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
149207 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
149247 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
149286 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
149326 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
149366 CCGGA
1 CCGGA
149371 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:157325 original size:30 final size:30
Alignment explanation
Indices: 157289--157399 Score: 80
Period size: 30 Copynumber: 3.7 Consensus size: 30
157279 TAGGGTGAGT
* *
157289 CAAAAGCTGATGACTGCTGATTGCATATGA
1 CAAAAGCTGATGACTGCCGATTGCATACGA
* ** *
157319 CAAAAGCCT-ATGACTACCGATTGTGTCCGA
1 CAAAAG-CTGATGACTGCCGATTGCATACGA
* * ** * *
157349 CAGAAGCTGATGACTGCCAATTGTGTCCAA
1 CAAAAGCTGATGACTGCCGATTGCATACGA
* *
157379 TAGAAGCTGATGACTGCCGAT
1 CAAAAGCTGATGACTGCCGAT
157400 GCCGGTAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 2 0.03
30 63 0.94
31 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (30 bp):
CAAAAGCTGATGACTGCCGATTGCATACGA
Found at i:164790 original size:15 final size:15
Alignment explanation
Indices: 164770--164804 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
164760 AATGAGACAT
164770 GTGAGGGCAAATATG
1 GTGAGGGCAAATATG
164785 GTGAGGGCAAATATG
1 GTGAGGGCAAATATG
164800 GTGAG
1 GTGAG
164805 TGCTAGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.43, T:0.20
Consensus pattern (15 bp):
GTGAGGGCAAATATG
Found at i:191249 original size:11 final size:11
Alignment explanation
Indices: 191233--191258 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
191223 TTTGTTTTTT
191233 TATCATATTCA
1 TATCATATTCA
191244 TATCATATTCA
1 TATCATATTCA
191255 TATC
1 TATC
191259 GAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (11 bp):
TATCATATTCA
Found at i:193785 original size:10 final size:11
Alignment explanation
Indices: 193770--193820 Score: 65
Period size: 10 Copynumber: 4.9 Consensus size: 11
193760 CAACTCTAAC
193770 ATATTTT-TTT
1 ATATTTTATTT
193780 ATATTTTATTT
1 ATATTTTATTT
193791 -TATTTTATTT
1 ATATTTTATTT
193801 AT-TTTTATTT
1 ATATTTTATTT
193811 A-ATTTATATT
1 ATATTT-TATT
193821 AAATTTAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 29 0.78
11 8 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATATTTTATTT
Found at i:193791 original size:5 final size:5
Alignment explanation
Indices: 193771--193820 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
193761 AACTCTAACA
*
193771 TATTT T-TTT ATATTT TATTT TATTT TA-TT TATTTT TATTT AATTT ATATT
1 TATTT TATTT -TATTT TATTT TATTT TATTT TA-TTT TATTT TATTT -TATT
193821 AAATTTAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
4 7 0.18
5 21 0.55
6 10 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:196716 original size:9 final size:9
Alignment explanation
Indices: 196702--196733 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
196692 TATCAAGTAA
196702 AATAAAATT
1 AATAAAATT
196711 AATAAAATT
1 AATAAAATT
196720 AATTAAAATT
1 AA-TAAAATT
196730 AATA
1 AATA
196734 TAATATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATAAAATT
Found at i:196728 original size:10 final size:10
Alignment explanation
Indices: 196704--196732 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
196694 TCAAGTAAAA
196704 TAAAATTAA-
1 TAAAATTAAT
196713 TAAAATTAAT
1 TAAAATTAAT
196723 TAAAATTAAT
1 TAAAATTAAT
196733 ATAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATTAAT
Found at i:197267 original size:68 final size:70
Alignment explanation
Indices: 197149--197309 Score: 179
Period size: 68 Copynumber: 2.3 Consensus size: 70
197139 TTTTAATAGT
* * * *
197149 TTAATATTAAATTTAATTTAATGCTTCTCTTAATAGTATTTTATTAATTTAGTATTAAA-GTGAT
1 TTAATATTAAATTTAATTTAATGCTTATCTTAATA-TATTTTATAAATTTAATATTAAATGTAAT
197213 -T-ATA
65 CTAATA
* *
197217 TTAATATTAAATTTAATTTAATGTTTATC-TACAT-TATTTTAATAAGATTTAATATTAAATTTA
1 TTAATATTAAATTTAATTTAATGCTTATCTTA-ATATATTTT-ATAA-ATTTAATATTAAATGTA
197280 ATCTAATA
63 ATCTAATA
* *
197288 TTAATATTAGATTAAATTTAAT
1 TTAATATTAAATTTAATTTAAT
197310 ATTAAAGTGA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
66 6 0.08
67 5 0.06
68 41 0.52
69 3 0.04
70 1 0.01
71 23 0.29
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (70 bp):
TTAATATTAAATTTAATTTAATGCTTATCTTAATATATTTTATAAATTTAATATTAAATGTAATC
TAATA
Found at i:197291 original size:23 final size:23
Alignment explanation
Indices: 197265--197314 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
197255 TTAATAAGAT
*
197265 TTAATATTAAATTTAATCTAATA
1 TTAATATTAAATTAAATCTAATA
* *
197288 TTAATATTAGATTAAATTTAATA
1 TTAATATTAAATTAAATCTAATA
197311 TTAA
1 TTAA
197315 AGTGATTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATATTAAATTAAATCTAATA
Found at i:197468 original size:23 final size:25
Alignment explanation
Indices: 197420--197466 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
197410 AGTTGTAGAG
197420 AGAAAATTCTCTAAAGAGATTATTTC
1 AGAAAATTCTCT-AAGAGATTATTTC
197446 AGAAAATT-TCT-AGAGA-TATTT
1 AGAAAATTCTCTAAGAGATTATTT
197467 TCCTGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
25 3 0.14
26 8 0.38
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (25 bp):
AGAAAATTCTCTAAGAGATTATTTC
Done.