Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000611.1 Hibiscus syriacus cultivar Beakdansim tig00001185_pilon, whole genome shotgun sequence
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: 72696
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2435 original size:21 final size:20
Alignment explanation
Indices: 2411--2464 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2401 GAAAATATTT
* *
2411 ATTTTAGGTAGCGAAATTAAC
1 ATTTTAGGTAG-AAAAATAAC
**
2432 ATTTCCGGTAGAAAAATAAC
1 ATTTTAGGTAGAAAAATAAC
*
2452 ATTTTAGATAGAA
1 ATTTTAGGTAGAA
2465 CTCTATCGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (20 bp):
ATTTTAGGTAGAAAAATAAC
Found at i:2615 original size:21 final size:21
Alignment explanation
Indices: 2586--2643 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
2576 ACAACATAAT
* *
2586 ATAACATTTTCGGTAGGGAAA
1 ATAACATTTTAGGTAGGAAAA
* *
2607 ATAATATTTTTGGTAGGAAAA
1 ATAACATTTTAGGTAGGAAAA
2628 ATAACATTTTAGGTAG
1 ATAACATTTTAGGTAG
2644 TGTTCTACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (21 bp):
ATAACATTTTAGGTAGGAAAA
Found at i:4506 original size:22 final size:22
Alignment explanation
Indices: 4478--4536 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
4468 TAGACTCACT
4478 AGAATGATAAGTGTTAATGGGA
1 AGAATGATAAGTGTTAATGGGA
4500 AGAATGATAAGTGTTAATGGGA
1 AGAATGATAAGTGTTAATGGGA
*
4522 AGAATGATGAGTGTT
1 AGAATGATAAGTGTT
4537 GACGAAGGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
AGAATGATAAGTGTTAATGGGA
Found at i:5912 original size:2 final size:2
Alignment explanation
Indices: 5907--5950 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
5897 AAACGTGAAG
5907 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5948 AT A
1 AT A
5951 ACTGTTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8810 original size:32 final size:32
Alignment explanation
Indices: 8769--8829 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
8759 ATGGAAAGTG
8769 CCCATTTCTTTTTCAATCTCTATTGAAAATTT
1 CCCATTTCTTTTTCAATCTCTATTGAAAATTT
8801 CCCATTTCTTTTTCAATCTCTATTGAAAA
1 CCCATTTCTTTTTCAATCTCTATTGAAAA
8830 CGGACTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.48
Consensus pattern (32 bp):
CCCATTTCTTTTTCAATCTCTATTGAAAATTT
Found at i:10967 original size:84 final size:84
Alignment explanation
Indices: 10519--11344 Score: 654
Period size: 83 Copynumber: 9.9 Consensus size: 84
10509 ACCATGCGGT
* * * * * * * * * * *
10519 TGATATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTC-TTTGATGACAGATAGCTCTTTTCG
1 TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
* * *
10583 CCTTGAGCTATACTGTAAA
66 CCTTGAGTTATGCTGCAAA
* * * * * * * *
10602 TTTGATATGCCCTTCAACTGAATGTAATCGGACTCGAAGG---TTTGTTGACAAATAACGCTTCT
1 --TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT
* * **
10664 CGCCTTGAGTTCTGCTATAAA
64 AGCCTTGAGTTATGCTGCAAA
** * ** * * *
10685 TTTGACATGCCTCTGAGTTGAATGTAATCGAACTCAAAGG---TTTGTTGACAGATAACCCTTCT
1 --TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT
* * *
10747 CGCCTTGAGTTATGTTGTAAA
64 AGCCTTGAGTTATGCTGCAAA
** * ** * * * ** *
10768 TTTGACATGCCTCTGAGTTCAATGTAATCGAACTCGAAGGT-ATTTGTTGATAGGTAACCCTTCT
1 --TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT
* * * *
10832 CGCCTTGAGTTACGCTGTAACT
64 AGCCTTGAGTTATGCTGCAA-A
* * * * *
10854 TAAATATGACTTTGAGA-TGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTTT
1 T-GATGTGCCTTTGA-ACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT
10918 AGCCTTGAGTTATGCTGCAAA
64 AGCCTTGAGTTATGCTGCAAA
* * * * * *
10939 TAATGTGCCTTTGAACTGAGTGTAATCGAGCTCGAA-GTTTTTTGGTTAGCAGATAGCCCTTCTC
1 TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTT-GTTGGCAGATAACCCTTCTA
* * *
11003 GACTTAAGCTATGCTGCAAA
65 GCCTTGAGTTATGCTGCAAA
* *
11023 TGATTTGCCTTT-AAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGG-AGATAACCCTTCTA
1 TGATGTGCCTTTGAA-CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTA
*
11086 GCCTTGAGTGATGCTGCAAA
65 GCCTTGAGTTATGCTGCAAA
* * * * * *
11106 TGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCG
1 TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
* *
11171 ACTTAAGTTATGCTGCAAA
66 CCTTGAGTTATGCTGCAAA
* * * * *
11190 TGATGTGCCTTTGAGCTGAGTATAATTGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTTTAG
1 TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
* * *
11254 CCTTGAGATATGTTGTAAA
66 CCTTGAGTTATGCTGCAAA
* * *
11273 TGATGTGCCTTTGAGA-TGAGTGTAATCGAACTCGAAGGTCTTTTGTTAGCAGATAGCCCTTCTT
1 TGATGTGCCTTTGA-ACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTA
11337 GCCTTGAG
65 GCCTTGAG
11345 CTAAGTTACA
Statistics
Matches: 621, Mismatches: 106, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
83 289 0.47
84 189 0.30
85 109 0.18
86 34 0.05
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (84 bp):
TGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
CCTTGAGTTATGCTGCAAA
Found at i:11359 original size:167 final size:167
Alignment explanation
Indices: 10692--11359 Score: 683
Period size: 167 Copynumber: 4.0 Consensus size: 167
10682 AAATTTGACA
* * * * *
10692 TGCCTCTGAGTTGAATGTAATCGAACTCAAAGG---TTTGTTGACAGATAACCCTTCTCGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTAGCCTTG
* * ** * * * * *
10754 AGTTATGTTGTAAATTTGACATGCCTCTGAGTTCAATGTAATCGAACTCGAAGGT-ATTTGTT-G
66 AGTTATGCTGCAAA--TGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTAG
* * * * * * *
10817 ATAGGTAACCCTTCTCGCCTTGAGTTACGCTGTAACTTAAAT-A-
129 -CAGATAGCCCTTCTCGACTTAAGCTATGC--T-AC--AAATGAT
* * * * * *
10860 TGACTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTTTAGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTAGCCTTG
* * *
10925 AGTTATGCTGCAAATAATGTGCCTTTGA-ACTGAGTGTAATCGAGCTCGAA-GTTTTTTGGTTAG
66 AGTTATGCTGCAAATGATGTGCCTTTGAGA-TGAGTGTAATCGAACTCGAAGGTCTTTT-GTTAG
*
10988 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATT
129 CAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGA-T
* *
11028 TGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTG-GAGATAACCCTTCTAGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTAGCCTTG
* * * * *
11092 AGTGATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCA
66 AGTTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTAGCA
* * *
11157 AATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGAT
131 GATAGCCCTTCTCGACTTAAGCTATGCTACAAATGAT
* * *
11194 GTGCCTTTGAGCTGAGTATAATTGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTTTAGCCTT
1 -TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTAGCCTT
* * *
11258 GAGATATGTTGTAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTAGC
65 GAGTTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTAGC
* * * * *
11323 AGATAGCCCTTCTTGCCTTGAGCTAAGTTACAAATGA
130 AGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGA
11360 GCACGATATC
Statistics
Matches: 420, Mismatches: 66, Indels: 29
0.82 0.13 0.06
Matches are distributed among these distances:
165 4 0.01
166 10 0.02
167 239 0.57
168 74 0.18
169 30 0.07
170 25 0.06
171 38 0.09
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (167 bp):
TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTAGCCTTG
AGTTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTAGCA
GATAGCCCTTCTCGACTTAAGCTATGCTACAAATGAT
Found at i:11359 original size:251 final size:250
Alignment explanation
Indices: 10519--11359 Score: 762
Period size: 251 Copynumber: 3.4 Consensus size: 250
10509 ACCATGCGGT
* * * * *
10519 TGATATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTC-TTTGATGACAGATAGCTCTT-TTC
1 TGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTT-
* * * * * *
10582 GCCTTGAGCTATACTGTA-AATTTGATATGCCCTTCAACTGAA-TGTAATCGGACTCGAAGG--T
65 GCCTTGAGCTA-AGTGTACAA-ATGAT-TGCCTTTGAGCT-AAGTGTAATCGAACTCGAAGGTCT
* * * ** ** * * *
10643 TTGTTGACAAATAACGCTTCTCGCCTTGAGTTCTGCTATAAATTTGACATGCCTCTGAGTTGAAT
126 TTGTTGGCAAATAACCCTTCTCGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGT
* *
10708 GTAATCGAACTCAAAGG--TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAA
189 GTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGATATGTTGTAAA
* * * * * * *
10768 TTTGACATGCCTCTGAGTTCAATGTAATCGAACTCGAAGGT-ATTTGTTGATAGGTAACCCTTCT
1 --TGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCT
* * * * * *
10832 CGCCTTGAGTTACGCTGTAACTTAAAT-A-TGACTTTGAGATGAGTGTAATCGAACTCGAAGGTC
64 TGCCTTGAGCTAAG-TGT-AC--AAATGATTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTC
* * * * * *
10895 TTTTATTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAACTGAGT
125 -TTTGTTGGCAAATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* * * * * * * *
10960 GTAATCGAGCTCGAAGTTTTTTGGTT-AGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
189 GTAATCGAACTCGAAGGTTTTT-GTTGA-CAGATAACCCTTCTCGCCTTGAGATATGTTGTAAA
* * * * * *
11023 TGATTTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTG-GAGATAACCCTTCTAG
1 TGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTG
* *
11087 CCTTGAG-TGA-TGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTG
66 CCTTGAGCTAAGTG-TACAAATGAT-TGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTT-
* * * *
11150 GTTGGCAAATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTATAA
128 GTTGGCAAATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAA
* * *
11215 TTGAACTCGAAGGTTTTTGTTGACAGATAACCCTTTTAGCCTTGAGATATGTTGTAAA
193 TCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGATATGTTGTAAA
* * * *
11273 TGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTT-AGCAGATAGCCCTTCTT
1 TGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGA-CAGATAACCCTTCTT
11337 GCCTTGAGCTAAGT-TACAAATGA
65 GCCTTGAGCTAAGTGTACAAATGA
11360 GCACGATATC
Statistics
Matches: 469, Mismatches: 95, Indels: 52
0.76 0.15 0.08
Matches are distributed among these distances:
248 4 0.01
249 1 0.00
250 80 0.17
251 217 0.46
252 33 0.07
253 54 0.12
254 46 0.10
255 34 0.07
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (250 bp):
TGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTG
CCTTGAGCTAAGTGTACAAATGATTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTGTT
GGCAAATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
AACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGATATGTTGTAAA
Found at i:11575 original size:121 final size:121
Alignment explanation
Indices: 11361--11581 Score: 343
Period size: 121 Copynumber: 1.8 Consensus size: 121
11351 TACAAATGAG
* * * * *
11361 CACGATATCTTTCGTCGTGAAGTTGAAATCATGAATGACCCCTTCGTTGTGAAGTTGAGCCTCGA
1 CACGATATCCTTCGTCATGAAGTTGAAATCATGAATGACCCCTTCATCGTGAAGTTGAACCTCGA
11426 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGTTGGTGGA
66 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGTTGGTGGA
* * * *
11482 CACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAACCTTGA
1 CACGATATCCTTCGTCATGAAGTTGAAATCATGAATGACCCCTTCATCGTGAAGTTGAACCTCGA
**
11547 ATTGGATATCCTTTGTCGTGAAGTTGAAATCCAAG
66 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAAG
11582 TTAAGTTGCT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 89 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (121 bp):
CACGATATCCTTCGTCATGAAGTTGAAATCATGAATGACCCCTTCATCGTGAAGTTGAACCTCGA
ATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGTTGGTGGA
Found at i:11837 original size:42 final size:43
Alignment explanation
Indices: 11729--11856 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 43
11719 GGATGTTGCT
* * * *
11729 TGTGTGTACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATG
1 TGTGGGTACGATAT-CCTCCGTCGTGGAGTTGAAATCGTGGATG
* * *
11772 TGTGGGCACGATATCCTCTGTCGTGGAGTTAAAATCGTGGATCG
1 TGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT-G
*
11816 T-T-GGTACGATATCCTCCGTCGTGGAGTTGAAATCATGGATG
1 TGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATG
11857 GCCCCTTCGT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.47
43 34 0.47
44 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
TGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATG
Found at i:12001 original size:43 final size:42
Alignment explanation
Indices: 11954--12061 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
11944 ATTCCCTTAA
* * *
11954 TCGTGAAGTTGAAACCGTGGTTATGTGGGCACGATATCCTCCG
1 TCGTG-AGTTGAAATCGTGGATACGTGGGCACGATATCCTCCG
* *
11997 TCGTGGAGTTGAAATCGTGGATCCGTGGGTACGATATCCTCCG
1 TCGT-GAGTTGAAATCGTGGATACGTGGGCACGATATCCTCCG
12040 TCGTTGAGTTGAAATCGTGGAT
1 TCG-TGAGTTGAAATCGTGGAT
12062 GGCCCCTTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (42 bp):
TCGTGAGTTGAAATCGTGGATACGTGGGCACGATATCCTCCG
Found at i:12437 original size:33 final size:32
Alignment explanation
Indices: 12362--12424 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
12352 TTGCATCAAG
* * *
12362 ATGTTGAATCCCCAAATATTCCCCAATATTCA
1 ATGTTGAATCTCCAAATATCCCCCAACATTCA
12394 ATGTTGAATCTCCAAATATACCCCCAACATT
1 ATGTTGAATCTCCAAATAT-CCCCCAACATT
12425 TGCTGTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (32 bp):
ATGTTGAATCTCCAAATATCCCCCAACATTCA
Found at i:13432 original size:13 final size:13
Alignment explanation
Indices: 13414--13455 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
13404 TGCGTCATAA
*
13414 ATTTATGATGCGC
1 ATTTATGACGCGC
*
13427 ATTTATGACGCGT
1 ATTTATGACGCGC
*
13440 ATTTATGACGCTC
1 ATTTATGACGCGC
13453 ATT
1 ATT
13456 GCACGTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:13619 original size:2 final size:2
Alignment explanation
Indices: 13612--13636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13602 TGTCGTAAAT
13612 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13637 TGTAGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17255 original size:19 final size:20
Alignment explanation
Indices: 17233--17275 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
17223 TTACTTCACT
17233 TTTTTCTTTG-TT-TTTTCTC
1 TTTTT-TTTGCTTCTTTTCTC
17252 -TTTTTTTGCTTCTTTTCTC
1 TTTTTTTTGCTTCTTTTCTC
17271 TTTTT
1 TTTTT
17276 GTTCTGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 6 0.29
19 7 0.33
20 4 0.19
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTTTGCTTCTTTTCTC
Found at i:20284 original size:21 final size:21
Alignment explanation
Indices: 20240--20285 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
20230 AAAGGGAGTG
* *
20240 AAAAAGAATTTATAAAAAAAT
1 AAAAAGAAATTAGAAAAAAAT
* *
20261 AAAAAGAAATTAGAAATAATT
1 AAAAAGAAATTAGAAAAAAAT
20282 AAAA
1 AAAA
20286 TTCACGGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAAAGAAATTAGAAAAAAAT
Found at i:21321 original size:15 final size:15
Alignment explanation
Indices: 21301--21333 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21291 TAAAAATCAT
21301 AATTAAAGTAAAAAA
1 AATTAAAGTAAAAAA
*
21316 AATTAAAGTACAAAA
1 AATTAAAGTAAAAAA
21331 AAT
1 AAT
21334 GACTAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AATTAAAGTAAAAAA
Found at i:21893 original size:16 final size:16
Alignment explanation
Indices: 21860--21900 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
21850 CATTCATTTA
21860 ATAAAT-AA-ACGAAC
1 ATAAATGAACACGAAC
*
21874 ATAAATGAACACGAAT
1 ATAAATGAACACGAAC
*
21890 ATAAACGAACA
1 ATAAATGAACA
21901 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
16 15 0.65
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.15
Consensus pattern (16 bp):
ATAAATGAACACGAAC
Found at i:21987 original size:16 final size:16
Alignment explanation
Indices: 21966--22024 Score: 109
Period size: 16 Copynumber: 3.7 Consensus size: 16
21956 AATTTAATAA
21966 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
21982 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
21998 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
22014 ATAAACGAACA
1 ATAAACGAACA
22025 TAAACGTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:23074 original size:10 final size:10
Alignment explanation
Indices: 23059--23106 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
23049 ATAAAAGAAT
23059 GAACATAAAC
1 GAACATAAAC
23069 GAACATAACCGAAC
1 GAACAT-A---AAC
23083 GAACATAAAC
1 GAACATAAAC
*
23093 GAACATAACC
1 GAACATAAAC
23103 GAAC
1 GAAC
23107 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:23075 original size:24 final size:24
Alignment explanation
Indices: 23046--23100 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
23036 TATTGGGTTA
*
23046 AACATAAAAGAATGAACATAAACG
1 AACATAAAAGAACGAACATAAACG
**
23070 AACATAACCGAACGAACATAAACG
1 AACATAAAAGAACGAACATAAACG
23094 AACATAA
1 AACATAA
23101 CCGAACGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.18, G:0.11, T:0.11
Consensus pattern (24 bp):
AACATAAAAGAACGAACATAAACG
Found at i:23083 original size:14 final size:14
Alignment explanation
Indices: 23066--23107 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
23056 AATGAACATA
23066 AACGAACATAACCG
1 AACGAACATAACCG
23080 AACGAACAT-A---
1 AACGAACATAACCG
23090 AACGAACATAACCG
1 AACGAACATAACCG
23104 AACG
1 AACG
23108 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:23101 original size:24 final size:24
Alignment explanation
Indices: 23059--23107 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23049 ATAAAAGAAT
23059 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
23083 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
23107 G
1 G
23108 TTCACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:24517 original size:83 final size:83
Alignment explanation
Indices: 24293--24679 Score: 431
Period size: 85 Copynumber: 4.6 Consensus size: 83
24283 ATATGTTATC
* * * *
24293 GAGCTGAATGGAATCGAACTCGGCA-GTTTTT-TTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTC-GAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* *
24356 TTGTAAATTTGATATG-CTCTT
65 CTGTAAA--TGATGTGCCTC-T
* * * * * *
24377 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTCACAAATAGCCCTTCTCGCCTTGAGCTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
24442 TGTAAATGATGTGCCTCT
66 TGTAAATGATGTGCCTCT
* * * * *
24460 AAGCTGAGTGTAATCAAACT-GAAAGGTTTTTGTTGACAGATAACCCCTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCG-AAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
24524 CTGTAAATGATGTGCCTTT
65 CTGTAAATGATGTGCCTCT
* * * *
24543 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTAGTTGGCAGATATCCCTTCTCGACTTAAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTT-GTTGACAGATAACCCTTCTCGCCTTGAGCTAT
* *
24608 GCTGCAAATGATGTGCCTTT
64 GCTGTAAATGATGTGCCTCT
* * *
24628 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTAGGCAGATAACCCTTCTC
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTC
24680 TGAGTTGGAT
Statistics
Matches: 265, Mismatches: 31, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
82 1 0.00
83 101 0.38
84 51 0.19
85 112 0.42
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATGATGTGCCTCT
Found at i:24608 original size:168 final size:167
Alignment explanation
Indices: 24318--24674 Score: 443
Period size: 168 Copynumber: 2.1 Consensus size: 167
24308 GAACTCGGCA
* * * *
24318 GTTTTT-TTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCTCTTGAGCT
1 GTTTTTGTTGACAGATAACCCCTCTAGCCTTGAGCTATGCTGTAAA-TTGATATGCTCTTGAGCT
* * * *
24382 GAATGTAATCGAACTCGAAGGTCTTTGTTCACAAATAGCCCTTCTCGCCTTGAGCTATGTTGTAA
65 GAATGTAATCGAACTCGAAGGTCTTTGTTCACAAATAGCCCTTCTCGACTTAAGCTATGCTGCAA
24447 ATGATGTGCCTCTAAGCTGAGTGTAATCAAACT-GAAAG
130 ATGATGTGCCTCTAAGCTGAGTGTAATCAAACTCG-AAG
* *
24485 GTTTTTGTTGACAGATAACCCCTCTAGCCTTGAGTTATGCTGTAAA-TGATGTGC-CTTTGAGCT
1 GTTTTTGTTGACAGATAACCCCTCTAGCCTTGAGCTATGCTGTAAATTGATATGCTC-TTGAGCT
* ** * *
24548 GAGTGTAATCGAACTCGAAGGTCTTTTAGTTGGCAGATATCCCTTCTCGACTTAAGCTATGCTGC
65 GAATGTAATCGAACTCGAAGGTC-TTT-GTTCACAAATAGCCCTTCTCGACTTAAGCTATGCTGC
* * **
24613 AAATGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAG
128 AAATGATGTGCCTCTAAGCTGAGTGTAATCAAACTCGAAG
* *
24653 GTCTTTTGTAGGCAGATAACCC
1 GT-TTTTGTTGACAGATAACCC
24675 TTCTCTGAGT
Statistics
Matches: 163, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
165 1 0.01
166 36 0.22
167 9 0.06
168 99 0.61
169 18 0.11
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (167 bp):
GTTTTTGTTGACAGATAACCCCTCTAGCCTTGAGCTATGCTGTAAATTGATATGCTCTTGAGCTG
AATGTAATCGAACTCGAAGGTCTTTGTTCACAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
TGATGTGCCTCTAAGCTGAGTGTAATCAAACTCGAAG
Found at i:25192 original size:43 final size:43
Alignment explanation
Indices: 25098--25195 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
25088 TTCGTTGTGA
* * * * *
25098 AGTTGAAACCGTGGATCTGTGGGCACGATATCCTCCGTTGTGG
1 AGTTGAAATCGTGGATCCGTGGGCACGACATCATCCGTCGTGG
* *
25141 AGTTGAAATCGTGGATCCGTTGGTACGACATCATCCGTCGTGG
1 AGTTGAAATCGTGGATCCGTGGGCACGACATCATCCGTCGTGG
25184 AGTTGAAATCGT
1 AGTTGAAATCGT
25196 AGATGACCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
AGTTGAAATCGTGGATCCGTGGGCACGACATCATCCGTCGTGG
Found at i:25326 original size:34 final size:34
Alignment explanation
Indices: 25278--25363 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 34
25268 AGCAAATTGT
*
25278 TTCGAGTTTA-ATATCCTTCG-CTTTGAAGTTAGGC
1 TTCGAG-TTAGATATCCTTCGTC-ATGAAGTTAGGC
* *
25312 TTCGAGTTAGATATCATTCGTCATGAAGTTTGGC
1 TTCGAGTTAGATATCCTTCGTCATGAAGTTAGGC
25346 TTCGAGTTAGATATCCTT
1 TTCGAGTTAGATATCCTT
25364 AATCGTGAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 3 0.07
34 42 0.91
35 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (34 bp):
TTCGAGTTAGATATCCTTCGTCATGAAGTTAGGC
Found at i:25373 original size:34 final size:34
Alignment explanation
Indices: 25301--25375 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
25291 TCCTTCGCTT
**
25301 TGAAGTTAGGCTTCGAGTTAGATATCATTCGTCA
1 TGAAGTTAGGCTTCGAGTTAGATATCATTAATCA
* * *
25335 TGAAGTTTGGCTTCGAGTTAGATATCCTTAATCG
1 TGAAGTTAGGCTTCGAGTTAGATATCATTAATCA
25369 TGAAGTT
1 TGAAGTT
25376 GAAATCTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (34 bp):
TGAAGTTAGGCTTCGAGTTAGATATCATTAATCA
Found at i:25621 original size:2 final size:2
Alignment explanation
Indices: 25611--25647 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
25601 GCTGCAAAAA
*
25611 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25648 AAATGATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25856 original size:32 final size:32
Alignment explanation
Indices: 25782--25843 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
25772 TTGCATCAGG
* * * *
25782 ATGTTTAATCCCCAAATATTCCCCAATATTCA
1 ATGTTAAATCTCCAAATATGCCCCAACATTCA
*
25814 ATGTTGAATCTCCAAATATGCCCCAACATT
1 ATGTTAAATCTCCAAATATGCCCCAACATT
25844 TGCTGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGTTAAATCTCCAAATATGCCCCAACATTCA
Found at i:26920 original size:15 final size:15
Alignment explanation
Indices: 26900--26938 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
26890 TATCTTCCCT
*
26900 TTTTCTTTTTGTTTC
1 TTTTCTTTTTGATTC
26915 TTTTCTTTTTGATTC
1 TTTTCTTTTTGATTC
26930 TTATTCTTT
1 TT-TTCTTT
26939 GCTTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTGATTC
Found at i:27123 original size:2 final size:2
Alignment explanation
Indices: 27116--27145 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27106 ACAATAAGGG
*
27116 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27146 GGATAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30514 original size:3 final size:3
Alignment explanation
Indices: 30506--30551 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
30496 GTAAATATGT
* * *
30506 TAA TAA TAA TAA TAA TAA TAG TAA GAA TAA TTA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30552 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:31884 original size:23 final size:23
Alignment explanation
Indices: 31837--31885 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
31827 AATAACATAT
**
31837 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGTTTATATAATAAAA
*
31860 TAGGTAGTGTTTATATAATAAAA
1 TAGGTAGCGTTTATATAATAAAA
31883 TAG
1 TAG
31886 ACATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (23 bp):
TAGGTAGCGTTTATATAATAAAA
Found at i:31946 original size:87 final size:87
Alignment explanation
Indices: 31800--31962 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
31790 TATGTTATAT
*
31800 CATTTAACCGAAAATATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGCACAATAACATATTAGGTAACGTTTATATAATGTAATAGGT
*
31865 AGTGTTTATATAATAAAATAGA
66 AGTGCTTATATAATAAAATAGA
* *
31887 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGTTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGCACAATAACATATTAGGTAACGTTTATATAATGTAATAGGT
31952 AGTGCTTATAT
66 AGTGCTTATAT
31963 TAACATTGTA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGCACAATAACATATTAGGTAACGTTTATATAATGTAATAGGT
AGTGCTTATATAATAAAATAGA
Found at i:32620 original size:182 final size:181
Alignment explanation
Indices: 32307--32984 Score: 920
Period size: 182 Copynumber: 3.7 Consensus size: 181
32297 ATGTTGATCT
* * * * * * * *
32307 ATTTTCTCATATTTTTAGCTGTTATATTATTATCGATCGATACA-TTTTCATAAATTGTCGGCAC
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTA-AAAGTATCGACAC
*
32371 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATC
65 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGTATC
32436 GACACTTTCAACATATCCGGTAGTGTTTTACCGGTTTTGTCATTTTGAGACCG
130 GACACTTTCAACATATCCGGTAGT-TTTTACCGGTTTTGTCATTTTGAGACCG
* *
32489 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGACACATTTTTTAAAAGTATCGACACT
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACT
* *
32554 TTATAGGCGCTATAACTTCTTCTATTTTAAATTTCA-AAAGTGTCGATACTTATATTAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAA-TTCAGAAAGTGTCGATACTTATATTAAAGTATC
* * ** *
32618 GACACTTTCAATATATCTGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAG
130 GACACTTTCAACATATCCGGTAGTT-TTTACCGGTTTTGTCATTTTGAGACCG
* * * *
32671 GTTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCTT-AAAGTGTCGACAC
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAAGTATCGACAC
* * *
32735 TTTTTAGGCTCTATAA---CTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATC
65 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGTATC
* * * * * *
32797 GGCACTTTCAACATATTCGATAGCATTTTACCGATTTTATCATTTTGAGACCG
130 GACACTTTCAACATATCCGGTAG-TTTTTACCGGTTTTGTCATTTTGAGACCG
* *
32850 ATTTTGTCATATTTTTACCTGTAATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACT
* * *
32915 TTTTAGGCACTATAACTTCTTCTCTTTTTATTTCCA-AAAGTGTCGATACTTATATTAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAAGTATC
32979 GACACT
130 GACACT
32985 GTTAATTTAT
Statistics
Matches: 436, Mismatches: 49, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
178 6 0.01
179 150 0.34
180 1 0.00
181 1 0.00
182 265 0.61
183 13 0.03
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (181 bp):
ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGGTAGTTTTTACCGGTTTTGTCATTTTGAGACCG
Found at i:32980 original size:361 final size:362
Alignment explanation
Indices: 32308--32984 Score: 1106
Period size: 361 Copynumber: 1.9 Consensus size: 362
32298 TGTTGATCTA
* * *
32308 TTTTCTCATATTTTTAGCTGTTATATTATTATCGATCGATACATTTTCATAAATTGTCGGCACTT
1 TTTTCTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
32373 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAA--TCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* ** * *
32438 CACTTTCAACATATCCGGTAGTGTTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCATATTT
129 CACTTTCAACATATCCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTT
* *
32503 TTACCTATTATATTGTTATGGATCGACACATTTTTTAAAAGTATCGACACTTTATAGGCGCTATA
194 TTACCTATAATATTGTTATGGATCGACACATTTTTTAAAAGTATCGACACTTTATAGGCACTATA
32568 ACTTCTTCTATTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATA
259 ACTTCTTCTATTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATA
32633 TCTGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAGG
324 TCTGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAGG
* * *
32672 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCTTAAAGTGTCGACACTT
1 TTTTCTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
* * *
32737 TTTAGGCTCTATAA-CTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGGCA
66 TTTAGGCGCTATAATCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACA
*
32801 CTTTCAACATATTCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTTTT
131 CTTTCAACATATCCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTTTT
* * * *
32866 ACCTGTAATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTTTAGGCACTATAAC
196 ACCTATAATATTGTTATGGATCGACACATTTTTTAAAAGTATCGACACTTTATAGGCACTATAAC
* *
32931 TTCTTCTCTTTT-TATTTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACT
261 TTCTTCTATTTTAAATTT-CAAAAGTGTCGATACTTATATTAAAGTATCGACACT
32985 GTTAATTTAT
Statistics
Matches: 289, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
360 4 0.01
361 213 0.74
364 72 0.25
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (362 bp):
TTTTCTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAGGCGCTATAATCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACA
CTTTCAACATATCCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTTTT
ACCTATAATATTGTTATGGATCGACACATTTTTTAAAAGTATCGACACTTTATAGGCACTATAAC
TTCTTCTATTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATC
TGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAGG
Found at i:36932 original size:201 final size:198
Alignment explanation
Indices: 36451--36996 Score: 693
Period size: 201 Copynumber: 2.7 Consensus size: 198
36441 GCGTAATTTT
* * * *
36451 AAAAAGTGTCGACACATTATGTT-GACCTATTTTCT-ATTTACACCGGTAAATTTCAACCGGTTA
1 AAAAAGTGTCGATACATTAT-TTAGACCTATTTTCTCA-TAAAACCGGTAAATTTAAACCGGTTA
* * *
36514 CATTGTAAATTGACCTATTACATTATAATTTATGGTCTCGATGTATTTGGGGTCGATACTTTTTA
64 CATTGTAAATTAACCTATTACATTATAATTTTTAGTCTCGATGTATTTGGGGTCGATAC-TTTTA
* * * * * *
36579 TAAATGTATCGAAACGTTATGCGTGAACATCGGTTGGTATTAATTATGGACATAAGTATCGACAC
128 TAAATGTATCGAAACTTTAAGCGTGAACATAGGTTGGAATTAATTATGGAAAAAAGTATCGACAC
*
36644 AAATGT
193 AAATGA
* * *
36650 AAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAACCGGTAAATTTAAACCGGTTACA
1 AAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACA
* **
36715 TTGTAAAGTAACCTATTACATTATAATTTTTAGTCTATATGTATTTGGGGTCGATACTTTTAATA
66 TTGTAAATTAACCTATTACATTATAATTTTTAGTCTCGATGTATTTGGGGTCGATACTTTT-ATA
* * * *
36780 AATGTATCGACACTTTAAGCGTGCACATAGTTTGGGAATTCATTATGGATAAAAAGTATCGACAC
130 AATGTATCGAAACTTTAAGCGTGAACATAGGTT-GGAATTAATTATGGA-AAAAAGTATCGACAC
36845 AAAT-A
193 AAATGA
* *
36850 AATAAAGTGTCAATACATTATTTAGACCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTAC
1 AA-AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTAC
* * * * * * * *
36915 ACTGTAAATTTACCTATTAGATTATAATTATGAGTTTCGATGTTTTTGGGATCGATACTTGTTAT
65 ATTGTAAATTAACCTATTACATTATAATTTTTAGTCTCGATGTATTTGGGGTCGATACTT-TTAT
36980 AAATGTATCGAAACTTT
129 AAATGTATCGAAACTTT
36997 GTTGTGCACT
Statistics
Matches: 299, Mismatches: 41, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
198 5 0.02
199 135 0.45
200 16 0.05
201 141 0.47
202 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (198 bp):
AAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACA
TTGTAAATTAACCTATTACATTATAATTTTTAGTCTCGATGTATTTGGGGTCGATACTTTTATAA
ATGTATCGAAACTTTAAGCGTGAACATAGGTTGGAATTAATTATGGAAAAAAGTATCGACACAAA
TGA
Found at i:38417 original size:12 final size:12
Alignment explanation
Indices: 38396--38425 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38386 GTTTGGATCA
*
38396 TCATTATCATCT
1 TCATTGTCATCT
38408 TCATTGTCATCT
1 TCATTGTCATCT
38420 TCATTG
1 TCATTG
38426 ATCGCTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.50
Consensus pattern (12 bp):
TCATTGTCATCT
Found at i:39606 original size:15 final size:15
Alignment explanation
Indices: 39586--39629 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
39576 AGGAGATTGT
39586 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
*
39601 GGTTGAGAAGAGGTG
1 GGTTGAGAAGAGCTG
39616 GGTTGAGAAGAGCT
1 GGTTGAGAAGAGCT
39630 TTGAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.27, C:0.05, G:0.48, T:0.20
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:40265 original size:200 final size:198
Alignment explanation
Indices: 39973--41451 Score: 1668
Period size: 199 Copynumber: 7.5 Consensus size: 198
39963 TTTTCAAATT
* * * *
39973 AAACCGGTATTTTTATATCGGTTACATTGTTAATTTACCTATTATATTATAATTAT-AGGTTTCG
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGA-GTTTCG
* *
40037 ATGTTTTTGGGATTGACACTTGTTATAAATGTATCGAAACTTTGTT-GTGCACTTGGTTTTTAAA
65 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTAGTGCACTTGG-TTTTAAA
* * * * *
40101 ATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATGTT
128 ATACATTCTGGACCAAAAGTATCGACACTTGTT-TATTTGTGTCGATACTTTTTGTACACATGTT
*
40166 TTCTCAT
192 TTCTCAA
** *
40173 AAACCGGTATATTTAGATTGGTTATATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
* * * * *
40238 TATTTTTGGGATCGAAACTTCTTATAAATGTATCGACACTTTTTAGTGCAATTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTAAAATA
*
40303 CATTCTGGACCAAAGGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACA-ACTGTTTT
131 CATTCTGGACCAAAAGTATCGACACTTG-TTTATTTGTGTCGATACTTTTTGTACACA-TGTTTT
40367 CTCAA
194 CTCAA
** * * *
40372 AAACCGGTATATTTAGACTAGTTAAATTGTTAATTTACCTTTTAC-TTCATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATT-ATAATTATGAGTTTCG
* * *
40436 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGG-TTAAGAAA
65 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTA-AAA
* * * *
40500 TACATTCTGGACCAACAGTATCGACACTTGTTTTTGTTGTTTCGATACTTTTTGTACACCTGTTT
129 TACATTCTGGACCAAAAGTATCGACACTTGTTTAT-TTGTGTCGATACTTTTTGTACACATG-TT
* *
40565 TTATAAAAA
192 TTCT--CAA
* * *
40574 AAACTGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
* * * * * * * * ***
40639 TGTTTTTGGGATCGACACTT-TT-T-AGTGCACTTG---GTTTTGAAATACATTCTGG-ACCAAA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTA-TCGACACTTTT-TAGTGCACT-TGGTTTTAAA
* *
40697 AGT--A-TC--GA-C---ACT-T-G-----T-TTTATTTGTGTCGATATTTTTTGTACACATGTT
128 A-TACATTCTGGACCAAAAGTATCGACACTTGTTTATTTGTGTCGATACTTTTTGTACACATGTT
40745 TTCTCAA
192 TTCTCAA
* * * * * *
40752 AAACTGGTATATTTAGACCGATTAAATTGTTAATTTATCTATTACATCATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
* * ** *
40817 TATTTCTGGGATCGACACTTGTTATAAATGTATCGACACTTTTCCGTGCACTTGG-TTCAGAAAT
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTA-AAAT
* * * * *
40881 ACATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTATGTCGACACTTTTTGTACACCTATTTT
130 ACATTCTGGACCAAAAGTATCGACACTTG-TTTATTTGTGTCGATACTTTTTGTACACATGTTTT
40946 CTCAA
194 CTCAA
* * * *
40951 AAACCAGTATATTTAGACCGTTTACATTGTTAATTTAACTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
* * * *
41016 TGTTTTTGGGATTGACATTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTAAAATA
* * *
41081 CATTCTAGACCAAAAGTATTGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACTTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTG-TTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
41146 TCAA
195 TCAA
* * * **
41150 AAACCGGTATATTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTTAA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
* * *
41215 TGTTTTTGGGATCGATACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTAAAATA
* * * * * *
41280 CATTCTAGACCAAAAGTATCGACACTTGTTTTAGTTGTGTAGATATTTTTTGTACACCTATTTTC
131 CATTCTGGACCAAAAGTATCGACACTTG-TTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
41345 TCAA
195 TCAA
** *
41349 AAACCAATATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
* ** * *
41414 TGATTTTAAGATCTACACTTCTTATAAATGTATCGACA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACA
41452 TATAAGTTTA
Statistics
Matches: 1094, Mismatches: 143, Indels: 85
0.83 0.11 0.06
Matches are distributed among these distances:
178 80 0.07
179 2 0.00
180 8 0.01
181 33 0.03
182 11 0.01
183 6 0.01
184 2 0.00
186 2 0.00
187 1 0.00
188 1 0.00
189 1 0.00
190 4 0.00
191 1 0.00
192 1 0.00
193 1 0.00
194 2 0.00
196 2 0.00
197 6 0.01
198 15 0.01
199 716 0.65
200 116 0.11
201 3 0.00
202 78 0.07
203 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (198 bp):
AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTAAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCT
CAA
Found at i:41850 original size:19 final size:19
Alignment explanation
Indices: 41826--41875 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
41816 TTACATTCAC
*
41826 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
41845 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
41864 ATACAAAATTAA
1 ATACAAAATTAA
41876 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:43383 original size:21 final size:18
Alignment explanation
Indices: 43345--43383 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
43335 TTCTCCGCAT
43345 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
43363 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTTTCTTC
43381 TTC
1 TTC
43384 AAATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:44082 original size:22 final size:21
Alignment explanation
Indices: 44054--44109 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
44044 AACCTGAATT
*
44054 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
44076 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
44100 TATAA-AAAAC
1 TATAATAAAAC
44110 AAAAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:44583 original size:12 final size:13
Alignment explanation
Indices: 44566--44596 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
44556 CATTGTTTGA
44566 CATCAAATTGTT-
1 CATCAAATTGTTC
44578 CATCAAATTGTTC
1 CATCAAATTGTTC
44591 CATCAA
1 CATCAA
44597 GGATCGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
CATCAAATTGTTC
Found at i:45397 original size:19 final size:19
Alignment explanation
Indices: 45369--45436 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
45359 CATTTATACA
* *
45369 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTTT
45388 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
45407 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
*
45426 ACATATAATAT
1 ACCTATAATAT
45437 TAAATAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
ACCTATAATATCATTTTTT
Found at i:46150 original size:181 final size:182
Alignment explanation
Indices: 45823--46911 Score: 1593
Period size: 182 Copynumber: 6.0 Consensus size: 182
45813 TACGCGTACT
* * * *
45823 TATTAAAGTATTGACACTTTCAACATATCTGGTAG-CACTTTACCGGTTTTTTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTA-TTTACCGGTTTTGTCATTTTGAGACC
*
45887 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACAC
** * *
45951 TTTAAAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAATTGTCGATACTTA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* **
46004 TATTAAAGTATCGACAGTTTCAACATATCCGGTAGTTATTTACATGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
** *
46069 GTTTTGTCATATTTTTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
*
46134 TTTTAGGTGC-ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
46185 TATTAAATTATCGACACTTTCAACATATCCGGTA-TCTTTTTACCGGTTTTGTCATTTTTTAGAC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGT-TATTTACCGGTTTTGTCA-TTTTGAGAC
** * * **
46249 CTCTTTTGTTATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACA
64 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
*
46314 CTTTATT-GGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTA
129 CTTT-TTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
46368 TATTCAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
* *
46433 GTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACA-TTTCATAAAGTGTCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
*
46497 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAATGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * * *
46549 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGT-TTGACCGGTTTTGTCATTTTGATACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAG-TTATTTACCGGTTTTGTCATTTTGAGACC
* ** *
46613 GGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACAC
* *
46678 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
46731 TATTAAAATATCGACACTTTCAACATATCCAGTAGTTATTTACCTGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
* * * * * *
46796 GTTTTGTCATATTTTTAGCTGTTACATTATTATGGATCGATATATTCTCATAAAGTTTCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
*
46861 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTT
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTT
46912 TCTAGAAATT
Statistics
Matches: 812, Mismatches: 82, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
180 5 0.01
181 352 0.43
182 362 0.45
183 92 0.11
184 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:46514 original size:364 final size:363
Alignment explanation
Indices: 45823--46911 Score: 1797
Period size: 364 Copynumber: 3.0 Consensus size: 363
45813 TACGCGTACT
* * * * *
45823 TATTAAAGTATTGACACTTTCAACATATCTGGTAGCACTTTACCGGTTTTTTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCG
45888 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTTAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* * *
45952 TTAAAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAATTGTCGATACTTATATTAAAGTATCG
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
* *
46017 ACAGTTTCAACATATCCGGTAGTTATTTACATGTTTTGTCATTTTGAGACCGGTTTTGTCATATT
196 ACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATT
* *
46082 TTTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGTGC-AT
261 TTTAGCTGTTATATTGTTATGGATCGATACA-TTTCATAAAGTGTCGACACTTTTTAGGCGCTAT
46146 AACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
325 AACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTA
* * *
46185 TATTAAATTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCATTTTACCGGTTTTGTCA-TTTTGAGACC
** * *
46250 TCTTTTGTTATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
* * *
46315 TTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTATATTCAAGTATC
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
46380 GACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATAT
195 GACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATAT
46445 TTTTAGCTGTTATATTGTTATGGATCGATACATTTCATAAAGTGTCGACACTTTTTAGGCGCTAT
260 TTTTAGCTGTTATATTGTTATGGATCGATACATTTCATAAAGTGTCGACACTTTTTAGGCGCTAT
*
46510 AACTTCTTCTCTTTTAAATTCAGAAAATGTCGATACTTA
325 AACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * *
46549 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTGACCGGTTTTGTCATTTTGATACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCG
* *
46614 GTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* *
46679 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCG
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
*
46744 ACACTTTCAACATATCCAGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATT
196 ACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATT
* * * * *
46809 TTTAGCTGTTACATTATTATGGATCGATATATTCTCATAAAGTTTCGACACTTTTTAAGCGCTAT
261 TTTAGCTGTTATATTGTTATGGATCGATACATT-TCATAAAGTGTCGACACTTTTTAGGCGCTAT
46874 AACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTT
325 AACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTT
46912 TCTAGAAATT
Statistics
Matches: 676, Mismatches: 46, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
362 47 0.07
363 303 0.45
364 326 0.48
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (363 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATT
TTTAGCTGTTATATTGTTATGGATCGATACATTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:46873 original size:545 final size:545
Alignment explanation
Indices: 45823--46911 Score: 1616
Period size: 545 Copynumber: 2.0 Consensus size: 545
45813 TACGCGTACT
* * *
45823 TATTAAAGTATTGACACTTTCAACATATCTGGTAGCACTTTACCGGTTTTTTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCACTTTACCGGTTTTGTCATTTTGAGACCG
**
45888 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTATCGACACTT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTCATAAAGTATCGACACTT
*
45953 TAAAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAATTGTCGATACTTATATTAAAGTATCGA
131 TAAAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAATGTCGATACTTATATTAAAGTATCGA
* * * *
46018 CAGTTTCAACATATCCGGTAGTTATTTACATGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
196 CACTTTCAACATATCCGGTAGGTATTGACAGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
* * * * * *
46083 TTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGTGCATAA
261 TTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCAACACTTTATAGGCGCATAA
* *
46148 CTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATAT
326 CTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAACATAT
* * * * * *
46213 CCGGTATCTTTTTACCGGTTTTGTCATTTTTTAGACCTCTTTTGTTATATTTTTACCTGTTATAT
391 CCAGTATCTATTTACCGGTTTTGTCATTTTTGAGACCGCTTTTGTCATATTTTTACCTGTTACAT
* * ** *
46278 TGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTT
456 TATTATAGATCGATACATTCTCATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTT
*
46343 TAAATTCCA-AAAGTGTTGATACTTA
521 TAAATT-CAGAAAGTGTCGATACTTA
* * *
46368 TATTCAAGTATCGACACTTTCAACATATCCGGTAGTTA-TTTACCTGTTTTGTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAG-CACTTTACCGGTTTTGTCATTTTGAGACC
* *
46432 GGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTCATAAAGTGTCGACACT
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTCATAAAGTATCGACACT
** * *
46497 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAATGTCGATACTTATATTAAATTATC
130 TTAAAGGCACTATAACTTCTTCTCTTTTAAATTCCA-AAAATGTCGATACTTATATTAAAGTATC
* *
46561 GACACTTTCAACATATCCGGTAGCGT-TTGACCGGTTTTGTCATTTTGATACCGGTTTTGTCATA
194 GACACTTTCAACATATCCGGTAG-GTATTGACAGGTTTTGTCATTTTGAGACCGGTTTTGTCATA
* **
46625 TTTTTACCTATTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACACTTTATAGGCGCT
258 TTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCAACACTTTATAGGCGC-
46690 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAAC
322 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAAC
* * *
46755 ATATCCAGTAGT-TATTTACCTGTTTTGTCA-TTTTGAGACCGGTTTTGTCATATTTTTAGCTGT
387 ATATCCAGTA-TCTATTTACCGGTTTTGTCATTTTTGAGACCGCTTTTGTCATATTTTTACCTGT
* * *
46818 TACATTATTATGGATCGATATATTCTCATAAAGTTTCGACACTTT-TTAAGCGCTATAACTTCTT
451 TACATTATTATAGATCGATACATTCTCATAAAGTATCGACACTTTATT-AGCGCTATAACTTCTT
46882 CTCTTTTAAATTCAGAAAGTGTCGATACTT
515 CTCTTTTAAATTCAGAAAGTGTCGATACTT
46912 TCTAGAAATT
Statistics
Matches: 487, Mismatches: 50, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
544 6 0.01
545 390 0.80
546 90 0.18
547 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (545 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGCACTTTACCGGTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTCATAAAGTATCGACACTT
TAAAGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAATGTCGATACTTATATTAAAGTATCGA
CACTTTCAACATATCCGGTAGGTATTGACAGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
TTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCAACACTTTATAGGCGCATAA
CTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAACATAT
CCAGTATCTATTTACCGGTTTTGTCATTTTTGAGACCGCTTTTGTCATATTTTTACCTGTTACAT
TATTATAGATCGATACATTCTCATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTT
TAAATTCAGAAAGTGTCGATACTTA
Found at i:47458 original size:2 final size:2
Alignment explanation
Indices: 47451--47479 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47441 CAAACCTGAA
47451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47480 CCACCTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48370 original size:31 final size:31
Alignment explanation
Indices: 48332--48487 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
48322 CCCGAAGGAC
* * *
48332 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
48363 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
48394 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
48425 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
48456 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
48487 C
1 C
48488 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:48691 original size:23 final size:24
Alignment explanation
Indices: 48665--48711 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
48655 ATATACTTGT
*
48665 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
48688 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
48712 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:55827 original size:21 final size:21
Alignment explanation
Indices: 55781--55854 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
55771 GGGTTAAGTC
* *
55781 CTTTCGATGAAAGAACTT-AT
1 CTTTTGATGAAAGGACTTAAT
55801 CCTTTTGATGAAAGGACTTAAT
1 -CTTTTGATGAAAGGACTTAAT
* *
55823 TTTTTCG-TGAAAGGATTTAAT
1 CTTTT-GATGAAAGGACTTAAT
*
55844 CTTTTCATGAA
1 CTTTTGATGAA
55855 GAGAATTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 41 0.93
22 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (21 bp):
CTTTTGATGAAAGGACTTAAT
Found at i:55952 original size:35 final size:35
Alignment explanation
Indices: 55904--55975 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
55894 TAAACTAAAA
55904 AATAAGTTCATTCACCAAGTAACATGACTTATTAT
1 AATAAGTTCATTCACCAAGTAACATGACTTATTAT
* *
55939 AATAAGTTTATTCACCAAGTGACATGACTTATTAT
1 AATAAGTTCATTCACCAAGTAACATGACTTATTAT
55974 AA
1 AA
55976 ATAGCATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (35 bp):
AATAAGTTCATTCACCAAGTAACATGACTTATTAT
Found at i:60337 original size:21 final size:21
Alignment explanation
Indices: 60311--60351 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
60301 CTATAGGTTC
60311 CTTTTTTCAT-TTATTTTATTA
1 CTTTTTT-ATGTTATTTTATTA
60332 CTTTTTTATGTTATTTTATT
1 CTTTTTTATGTTATTTTATT
60352 TTTTCCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
CTTTTTTATGTTATTTTATTA
Found at i:64277 original size:106 final size:106
Alignment explanation
Indices: 64092--65214 Score: 1922
Period size: 106 Copynumber: 10.6 Consensus size: 106
64082 ATATTGCTCG
*
64092 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
64157 AGAAGGGACCGCTGGTTGTCAACAAACAATTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
64198 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACTA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
** *
64263 CGAAGGGACCGCTGGTTGTCAATTAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
64304 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
64369 CGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
64410 AGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
64475 AGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
64516 AGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
** *
64581 CGAAGGGACCGCTGGTTGTCAATTAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
64622 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
64687 CGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
64728 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
64793 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
64834 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTACAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
64899 CGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
64940 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
65005 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
65046 AGAGCCAATTTCAAATTCACAGCGAAGGATATTGGACTCCAGACAAAGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
65111 AGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
65152 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGCTCAACTTCAC
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
65215 AACAAATGAG
Statistics
Matches: 963, Mismatches: 54, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 963 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
Found at i:65438 original size:4 final size:4
Alignment explanation
Indices: 65431--65464 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
65421 AATATTATTG
65431 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
65465 ATTATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:65475 original size:16 final size:19
Alignment explanation
Indices: 65425--65470 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
65415 AAAAAAAATA
*
65425 TTATTGTTTATTTATTTAT
1 TTATTATTTATTTATTTAT
65444 TTATTTATTTATTTATTTA-
1 TTA-TTATTTATTTATTTAT
65463 TTATTATT
1 TTATTATT
65471 ATTATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 6 0.24
20 14 0.56
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTATTTATTTATTTAT
Found at i:65475 original size:20 final size:20
Alignment explanation
Indices: 65423--65486 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
65413 TTAAAAAAAA
*
65423 TATTATTGTTTATTTATTTATT
1 TATTATTATTTATTTA-TTA-T
65445 TATTTATTTATTTATTTATTAT
1 TA-TTA-TTATTTATTTATTAT
* *
65467 TATTATTATATATTTTTTAT
1 TATTATTATTTATTTATTAT
65487 CTTTGTAGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.35
21 3 0.08
22 5 0.14
23 6 0.16
24 10 0.27
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TATTATTATTTATTTATTAT
Found at i:66726 original size:21 final size:21
Alignment explanation
Indices: 66700--66740 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66690 CTATAGGTTC
66700 CTTTTTTCAT-TTATTTTATTA
1 CTTTTTT-ATGTTATTTTATTA
66721 CTTTTTTATGTTATTTTATT
1 CTTTTTTATGTTATTTTATT
66741 TTTTCCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
CTTTTTTATGTTATTTTATTA
Found at i:67806 original size:2 final size:2
Alignment explanation
Indices: 67799--67835 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
67789 TCATTCAAAA
67799 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
67836 CCATTAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Done.