Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000170.1 Hibiscus syriacus cultivar Beakdansim tig00000299_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: 93106
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:1352 original size:84 final size:81
Alignment explanation
Indices: 1214--1376 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 81
1204 TTGAATCGGG
* * *
1214 TAGTTTTGTAATATTTTAAAATGGTGCCTCATGTAATTAATTTATGTTATGGTGAT-ATTATGTA
1 TAGTTTTGTAATATTTTAAAAGGGTGCCTAATGTAATTAATTTATGTTAGGGTGATAATTATGTA
1278 AAATC-GTTGACCGTGC
66 AAA-CAGTTGACCGTGC
1294 TAGTTTTGTAAATATTTTTAAAAGGGTGCCTAATTTGTAATTAA-TTACTGTTAGGGTGATAATT
1 TAGTTTTGT-AATA-TTTTAAAAGGGTGCCTAA--TGTAATTAATTTA-TGTTAGGGTGATAATT
*
1358 GTGTAAAACAGTTGACCGT
61 ATGTAAAACAGTTGACCGT
1377 TAACCGTAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
80 9 0.12
81 4 0.06
82 16 0.22
83 3 0.04
84 21 0.29
85 19 0.26
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
TAGTTTTGTAATATTTTAAAAGGGTGCCTAATGTAATTAATTTATGTTAGGGTGATAATTATGTA
AAACAGTTGACCGTGC
Found at i:2326 original size:42 final size:42
Alignment explanation
Indices: 2281--2715 Score: 569
Period size: 42 Copynumber: 10.7 Consensus size: 42
2271 ATTCCAGTTC
* * * *
2281 CCTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCTCAGGTC
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
2323 CCTTTGCTATGTGCAAGGGTAAGCCTT--A------CA-G--
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* * *
2354 -CTTTGCTGTGTGCAAGGGTAAGACTTACAATTTCCCAGGTC
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
2395 CCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
2437 CC-TTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
2478 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCTAGG-T
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
2519 -C-TTGCTGTGTGCAATGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
2559 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
2601 CCTTTGCTGTGTACAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* * *
2643 CCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCTAGGCT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCCAGGTT
* * * *
2686 CCTCTGCTTTGTGCATATGTTAAGCCTTAC
1 CCTTTGCTGTGTGCA-AGGGTAAGCCTTAC
2716 TGGTGTACAG
Statistics
Matches: 352, Mismatches: 23, Indels: 34
0.86 0.06 0.08
Matches are distributed among these distances:
30 24 0.07
32 1 0.00
33 1 0.00
34 2 0.01
38 2 0.01
39 36 0.10
40 3 0.01
41 42 0.12
42 208 0.59
43 21 0.06
44 12 0.03
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (42 bp):
CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
Found at i:2360 original size:30 final size:30
Alignment explanation
Indices: 2324--2382 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2314 TCTCAGGTCC
*
2324 CTTTGCTATGTGCAAGGGTAAGCCTTACAG
1 CTTTGCTATGTGCAAGGGTAAGACTTACAG
*
2354 CTTTGCTGTGTGCAAGGGTAAGACTTACA
1 CTTTGCTATGTGCAAGGGTAAGACTTACA
2383 ATTTCCCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (30 bp):
CTTTGCTATGTGCAAGGGTAAGACTTACAG
Found at i:2599 original size:123 final size:125
Alignment explanation
Indices: 2354--2715 Score: 559
Period size: 123 Copynumber: 2.9 Consensus size: 125
2344 AGCCTTACAG
* *
2354 CTTTGCTGTGTGCAAGGGTAAGACTTACAATTTCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGC
1 CTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGT-CCTTTGTTGTGTGCAAGGGTAAGC
2419 CTTACAGTTTCCCAGGTTCC-TTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTC
65 CTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTC
* * *
2479 CTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCTAGGT-C-TTGCTGTGTGCAATGGTAAGCC
1 CTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCTTTGTTGTGTGCAAGGGTAAGCC
2542 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTC
66 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTC
*
2602 CTTTGCTGTGTACAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGC
1 CTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGG-TCCTTTGTTGTGTGCAAGGGTAAGC
* * * * * *
2667 CTTACAGTTTTCCTAGGCTCCTCTGCTTTGTGCATATGTTAAGCCTTAC
65 CTTACAG-TTTCCCAGGTTCCTTTGCTGTGTGCA-AGGGTAAGCCTTAC
2716 TGGTGTACAG
Statistics
Matches: 216, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
122 39 0.18
123 78 0.36
124 1 0.00
125 38 0.18
126 26 0.12
127 22 0.10
128 12 0.06
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (125 bp):
CTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCTTTGTTGTGTGCAAGGGTAAGCC
TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTC
Found at i:2604 original size:164 final size:165
Alignment explanation
Indices: 2281--2715 Score: 629
Period size: 164 Copynumber: 2.7 Consensus size: 165
2271 ATTCCAGTTC
* * * * *
2281 CCTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCTCAGGTCCCTTTGCTATGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
* * *
2346 CCTTACAG----C----T-TTGCTGTGTGCAAGGGTAAGACTTACAATTTCCCAGGTCCCTTTGT
66 CCTTACAGTTTCCTAGGTCTTGCTGTGTGCAATGGTAAGCCTTACAATTTCCCAGGTCCCTTTGC
2402 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
131 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
2437 CC-TTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
* *
2501 CCTTACAGTTTCCTAGGTCTTGCTGTGTGCAATGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGC
66 CCTTACAGTTTCCTAGGTCTTGCTGTGTGCAATGGTAAGCCTTACAATTTCCCAGGTCCCTTTGC
2566 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
131 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* *
2601 CCTTTGCTGTGTACAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
* *
2666 CCTTACAGTTTTCCTAGGCTCCTCTGCTTTGTGCATATGTTAAGCCTTAC
66 CCTTACAG-TTTCCTAGG-T-CT-TGCTGTGTGCA-ATGGTAAGCCTTAC
2716 TGGTGTACAG
Statistics
Matches: 250, Mismatches: 14, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
155 65 0.26
156 2 0.01
159 1 0.00
163 1 0.00
164 78 0.31
165 68 0.27
166 9 0.04
167 1 0.00
168 2 0.01
169 10 0.04
170 13 0.05
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (165 bp):
CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
CCTTACAGTTTCCTAGGTCTTGCTGTGTGCAATGGTAAGCCTTACAATTTCCCAGGTCCCTTTGC
TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
Found at i:3868 original size:21 final size:21
Alignment explanation
Indices: 3841--3926 Score: 120
Period size: 21 Copynumber: 4.1 Consensus size: 21
3831 GGGGTTATAT
3841 GTCCTTCGGGACAAATATGTG
1 GTCCTTCGGGACAAATATGTG
* *
3862 ATCCTTCGGGATAAATATGTG
1 GTCCTTCGGGACAAATATGTG
* *
3883 GTTCTTTGGGACAAATATGTG
1 GTCCTTCGGGACAAATATGTG
*
3904 GT-CATCGGGACAAATATGTG
1 GTCCTTCGGGACAAATATGTG
3924 GTC
1 GTC
3927 TTTCAGGATA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.32
21 38 0.68
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (21 bp):
GTCCTTCGGGACAAATATGTG
Found at i:3922 original size:41 final size:41
Alignment explanation
Indices: 3848--3929 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
3838 TATGTCCTTC
* *
3848 GGGACAAATATGTGATCCTTCGGGATAAATATGTGGTTCTTT
1 GGGACAAATATGTGATCCATCGGGACAAATATGTGG-TCTTT
*
3890 GGGACAAATATGTGGT-CATCGGGACAAATATGTGGTCTTT
1 GGGACAAATATGTGATCCATCGGGACAAATATGTGGTCTTT
3930 CAGGATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 5 0.14
41 17 0.46
42 15 0.41
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (41 bp):
GGGACAAATATGTGATCCATCGGGACAAATATGTGGTCTTT
Found at i:6349 original size:13 final size:13
Alignment explanation
Indices: 6331--6358 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6321 ATTACAGACG
6331 TGCATATGAAGAT
1 TGCATATGAAGAT
6344 TGCATATGAAGAT
1 TGCATATGAAGAT
6357 TG
1 TG
6359 TCCAACTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (13 bp):
TGCATATGAAGAT
Found at i:7061 original size:54 final size:54
Alignment explanation
Indices: 6960--7062 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
6950 GTCACTCAAT
* * * * *
6960 ATTAATAGTCATTACTGTGGGTGATGGAAAGCTATTGTGGCATGTTAATCTGAC
1 ATTAATAGTCATTACTGTGGGAGATGAAAAGCTAGTGTGACACGTTAATCTGAC
* * *
7014 ATTAATAGTCATTATTGTGGGAGATGAAAAGTTGGTGTGACACGTTAAT
1 ATTAATAGTCATTACTGTGGGAGATGAAAAGCTAGTGTGACACGTTAAT
7063 TTGATTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (54 bp):
ATTAATAGTCATTACTGTGGGAGATGAAAAGCTAGTGTGACACGTTAATCTGAC
Found at i:10625 original size:86 final size:85
Alignment explanation
Indices: 10329--10674 Score: 446
Period size: 85 Copynumber: 4.1 Consensus size: 85
10319 GTTCCTCGCT
* * * *
10329 CTGAATAG-AATCAAACTTGAAGGTTTTTGTTGACAAATAGCCCTTCTCGCCTT-AGCTATGGTA
1 CTGAAT-GTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGCTA
*
10392 TAAATTTGATATGCCCTTTAG
65 TAAATTTGATATGCCCTTGAG
* * * * * *
10413 CTGAATGTAATCAAACTCGAAGGTTTTCATTGACATGTAGCCCATCCCGCCTTAAGCTATGCTAC
1 CTGAATGTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
10478 AAATTTGATATGCCCTTGAG
66 AAATTTGATATGCCCTTGAG
* * * * * * *
10498 CTGAATGGAATCGAACTCGAAGGTTTTTGTCGACAGATAGCCCTTCTTGCCTTGAGCTATACTAT
1 CTGAATGTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
* *
10563 AAATTTGATATTCCCCCTGAG
66 AAATTTGATA-TGCCCTTGAG
* * *
10584 TTGAATGTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGTTGT
1 CTGAATGTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
10649 -AATTTGATATGCCCTTGAG
66 AAATTTGATATGCCCTTGAG
10668 CTGAATG
1 CTGAATG
10675 AAATAGCCCT
Statistics
Matches: 221, Mismatches: 38, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
83 1 0.00
84 58 0.26
85 99 0.45
86 63 0.29
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (85 bp):
CTGAATGTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
AAATTTGATATGCCCTTGAG
Found at i:10795 original size:86 final size:85
Alignment explanation
Indices: 10691--11052 Score: 442
Period size: 85 Copynumber: 4.3 Consensus size: 85
10681 CCCTTCTCAT
* * * *
10691 CTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTAAACAGAATTGAACTCGAAGGTTTTTGT
1 CTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGAAGGTTTTTGT
10756 TGACAGATAGTCCCTTATTGC
66 TGACAGATAG-CCCTTATTGC
* * * * * *
10777 CTTGAACTATGCTATAAATTTGATGTTCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGT
1 CTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGAAGGTTTTTGT
** * * * *
10842 TGATGGATAGTCTTTCTCGC
66 TGACAGATAGCCCTTATTGC
* *
10862 CTTGAGTTATTCTGTAAATTTG--ATGCCCTTGAGCTGAACGGAATCGAACTCGAAGGTTTTTGT
1 CTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGAAGGTTTTTGT
10925 TGAC-GAATAGCCCTTATTGC
66 TGACAG-ATAGCCCTTATTGC
* * * * * * *
10945 CCTGAACTATAATGTAAATTAGATATGCCCTTAAACTGAATGGAATCGAACTCGAAGGTTTTTGT
1 CTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGAAGGTTTTTGT
* *
11010 TGACAGATAGCCCTTCTGGC
66 TGACAGATAGCCCTTATTGC
11030 CTTGAGCTATACTGTAAATTTGA
1 CTTGAGCTATACTGTAAATTTGA
11053 ATGTAATCAA
Statistics
Matches: 231, Mismatches: 41, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
82 1 0.00
83 67 0.29
85 97 0.42
86 66 0.29
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (85 bp):
CTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGAAGGTTTTTGT
TGACAGATAGCCCTTATTGC
Found at i:10864 original size:228 final size:227
Alignment explanation
Indices: 10467--10899 Score: 611
Period size: 228 Copynumber: 1.9 Consensus size: 227
10457 TCCCGCCTTA
* **
10467 AGCTATGCTACAAATTTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTCGAC
1 AGCTATGCTACAAATTTGATATGCCCTTGAGCTAAACAGAATCGAACTCGAAGGTTTTTGTCGAC
* * * *
10532 AGATAGCCCTTCTTGCCTTGAGCTATACTATAAATTTGATATTCCCCCTGAGTTGAATGTAATCA
66 AGATAGCCCTTATTGCCTTGAACTATACTATAAATTTGATATTCCCCCTGAGCTGAATGGAATCA
*
10597 AACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGT-TGT-AATTTGATATG
131 AACTCGAAGGTTTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTAT-TCTGTAAATTTG--ATG
10660 CCCTTGAGCTGAATGAAATAGCCCTTCTCATCTTG
193 CCCTTGAGCTGAATGAAATAGCCCTTCTCATCTTG
** * *
10695 AGCTATGCTGTAAATTTGATATGCCCTTGAGCTAAACAGAATTGAACTCGAAGGTTTTTGTTGAC
1 AGCTATGCTACAAATTTGATATGCCCTTGAGCTAAACAGAATCGAACTCGAAGGTTTTTGTCGAC
* * *
10760 AGATAGTCCCTTATTGCCTTGAACTATGCTATAAATTTGATGTT-CCCTTGAGCTGAATGGAATC
66 AGATAG-CCCTTATTGCCTTGAACTATACTATAAATTTGATATTCCCCCTGAGCTGAATGGAATC
* * ** * * *
10824 GAACTCGAAGGTTTTTGTTGATGGATAGTCTTTCTCGCCTTGAGTTATTCTGTAAATTTGATGCC
130 AAACTCGAAGGTTTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATTCTGTAAATTTGATGCC
10889 CTTGAGCTGAA
195 CTTGAGCTGAA
10900 CGGAATCGAA
Statistics
Matches: 180, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
227 17 0.09
228 124 0.69
229 39 0.22
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (227 bp):
AGCTATGCTACAAATTTGATATGCCCTTGAGCTAAACAGAATCGAACTCGAAGGTTTTTGTCGAC
AGATAGCCCTTATTGCCTTGAACTATACTATAAATTTGATATTCCCCCTGAGCTGAATGGAATCA
AACTCGAAGGTTTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATTCTGTAAATTTGATGCCC
TTGAGCTGAATGAAATAGCCCTTCTCATCTTG
Found at i:10995 original size:168 final size:169
Alignment explanation
Indices: 10677--11052 Score: 513
Period size: 168 Copynumber: 2.2 Consensus size: 169
10667 GCTGAATGAA
** * *
10677 ATAGCCCTTCTCATCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTAAACAGAATTGAAC
1 ATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTG--ATGCCCTTGAGCTAAACAGAATCGAAC
* ** * * *
10742 TCGAAGGTTTTTGTTGACAGATAGTCCCTTATTGCCTTGAACTATGCTATAAATTTGATGTTCCC
64 TCGAAGGTTTTTGTTGACAGATAGTCCCTTATTGCCCTGAACTATAATATAAATTAGATATGCCC
* * **
10807 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGATGG
129 TTAAACTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAG
* * * * * *
10848 ATAGTCTTTCTCGCCTTGAGTTATTCTGTAAATTTGATGCCCTTGAGCTGAACGGAATCGAACTC
1 ATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGATGCCCTTGAGCTAAACAGAATCGAACTC
*
10913 GAAGGTTTTTGTTGAC-GAATAG-CCCTTATTGCCCTGAACTATAATGTAAATTAGATATGCCCT
66 GAAGGTTTTTGTTGACAG-ATAGTCCCTTATTGCCCTGAACTATAATATAAATTAGATATGCCCT
10976 TAAACTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAG
130 TAAACTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAG
*
11016 ATAGCCCTTCTGGCCTTGAGCTATACTGTAAATTTGA
1 ATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGA
11053 ATGTAATCAA
Statistics
Matches: 179, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
168 103 0.58
169 46 0.26
171 30 0.17
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (169 bp):
ATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGATGCCCTTGAGCTAAACAGAATCGAACTC
GAAGGTTTTTGTTGACAGATAGTCCCTTATTGCCCTGAACTATAATATAAATTAGATATGCCCTT
AAACTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAG
Found at i:11093 original size:69 final size:69
Alignment explanation
Indices: 10981--11111 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
10971 GCCCTTAAAC
* * *
10981 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTGGCCTTGAGCTATACTGTA
1 TGAATGGAATCAAACTCGAAGGTTTTTGTTGACAAATAACCCTTCTGGCCTTGAGCTATACTGTA
11046 AATT
66 AATT
* *
11050 TGAATGTAATCAAACTCGAAGGTTTTTGTTGACAAATAACCCTTCTTGCCTTGAGCTATACT
1 TGAATGGAATCAAACTCGAAGGTTTTTGTTGACAAATAACCCTTCTGGCCTTGAGCTATACT
11112 ATAATAGGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (69 bp):
TGAATGGAATCAAACTCGAAGGTTTTTGTTGACAAATAACCCTTCTGGCCTTGAGCTATACTGTA
AATT
Found at i:11284 original size:34 final size:31
Alignment explanation
Indices: 11193--11284 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 31
11183 GGGCACGATA
* *
11193 TCCTTCGTTGTGAAGTTGAAATCGTGGATGGC
1 TCCTTCGTTGTGAAGTTGAAAT-TTGAATGGC
* * **
11225 TCATTCGCTGTGAAGTTGAGCTTTGAATTGGAC
1 TCCTTCGTTGTGAAGTTGAAATTTGAA-TGG-C
*
11258 GTCCTTCGTTGTGAAGCTGAAATTTGA
1 -TCCTTCGTTGTGAAGTTGAAATTTGA
11285 CCTGAATGAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
31 3 0.07
32 21 0.46
33 1 0.02
34 21 0.46
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (31 bp):
TCCTTCGTTGTGAAGTTGAAATTTGAATGGC
Found at i:13245 original size:99 final size:99
Alignment explanation
Indices: 13128--13307 Score: 263
Period size: 99 Copynumber: 1.8 Consensus size: 99
13118 CTATTGTCTG
* * *
13128 GCTAGCTGAATCTTATCCATAAA-TCTGTGGCGTTTAACCAATTACTCTAGAAGGACAGCTCAAA
1 GCTAGCAGAATCTTATCCATAAAGTC-GGGGCGTTTAACCAATTACTCTAGAAGGACAACTCAAA
*
13192 CTTTATTGTATAGATATTATAATCACCTTTATCAA
65 CTTTATTGTATACATATTATAATCACCTTTATCAA
* * * * *
13227 GCTAGCAGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGGCAACTCAAGC
1 GCTAGCAGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTACTCTAGAAGGACAACTCAAAC
13292 TTTATTGTATACATAT
66 TTTATTGTATACATAT
13308 AATATTATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 69 0.97
100 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (99 bp):
GCTAGCAGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTACTCTAGAAGGACAACTCAAAC
TTTATTGTATACATATTATAATCACCTTTATCAA
Found at i:21336 original size:19 final size:20
Alignment explanation
Indices: 21314--21351 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21304 ATGTTTCTTA
21314 TTTTGAAT-TATTAATTTTT
1 TTTTGAATATATTAATTTTT
*
21333 TTTTGAATATTTTAATTTT
1 TTTTGAATATATTAATTTT
21352 AAACTAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTGAATATATTAATTTTT
Found at i:26108 original size:20 final size:19
Alignment explanation
Indices: 26069--26114 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
26059 GAATCGAGAG
* *
26069 AAATTAAATATATTTGTTT
1 AAATTAAATATAATTATTT
26088 AAATATAAATATAATTATTT
1 AAAT-TAAATATAATTATTT
26108 ATAATTA
1 A-AATTA
26115 TATGATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATTAAATATAATTATTT
Found at i:26392 original size:2 final size:2
Alignment explanation
Indices: 26385--26415 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26375 ATCACAACTC
26385 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 A
26416 CTTATTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40255 original size:262 final size:257
Alignment explanation
Indices: 39725--40472 Score: 1104
Period size: 253 Copynumber: 2.9 Consensus size: 257
39715 CCGAGACTCA
*
39725 AATATATGAATTAGAAACCTGACC-CGC-CCCGAAATAATAAAAAAAATTATTTTTATTCAATAA
1 AATATATGAATTAGAAA-CTGACCACCCACCCGAAATAAT-AAAAAAA-TATTTTTATTCAATAA
39788 AAACAATGACTTAATTGAAAAA-A-TATATATAGAGGGGTATTATTGTAATTATTCCTAAATATA
63 AAAC-ATGACTTAATTGAAAAATATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATA
* * *
39851 TAAGGTAAAATTATATATTTTTTGGGTCGGGTCGGGTATTTTTCACCCGAAACCCGAACCCGACC
127 TAAGGTAAAATTATATA-TATTT---TCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACC
* * *
39916 CGACCCAAATATCACACTTAAAAAAAACTGACCCGAACCGACCAAAATAAAGTTTCACCCGACCC
188 CGACCCGAATATCACACTT-AAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCC
39981 AACCCG
252 AACCCG
39987 AATATATGAATTAGAAATCTGACCCTACCCTACCCGAAATAATAAAAAAATATTTTTATTCAATA
1 AATATATGAATTAGAAA-CTGA-CC-ACCC-ACCCGAAATAATAAAAAAATATTTTTATTCAATA
* *
40052 AAAACGATGACTTAATTGAAAAATATTATATATAGAGGGGTATAATTATAATTATTCCTAAATAT
62 AAAAC-ATGACTTAATTGAAAAATATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATAT
* * *
40117 ATAAGTTAAAATTATATATATTTCCGGGTCAGGTATTTTTCACCCTAAACCCGAACTCGACCCGA
126 ATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGA
*
40182 ACCGAATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCAACC
191 CCCGAATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCAACC
*
40247 CT
256 CG
* **
40249 AATATATGAATTAG-AA---A-C-CCGACCCGAAATAATAAAAATTTTATTTTTATTCAATAAAA
1 AATATATGAATTAGAAACTGACCACCCACCCGAAATAATAAAAA-AATATTTTTATTCAATAAAA
*
40308 ACAGTGACTTAATTGAAAAATATTATATATAGAGGGGTATTATTGTAATTATTCATAAATATATA
65 ACA-TGACTTAATTGAAAAATATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATA
40373 AGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCC
129 AGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCC
*
40438 GAATATCACACTTAAAAAAA-CGACGCGACCCGACC
194 GAATATCACACTTAAAAAAACCGACCCGACCCGACC
40473 TGAATATATG
Statistics
Matches: 450, Mismatches: 27, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
252 32 0.07
253 161 0.36
255 1 0.00
257 1 0.00
261 2 0.00
262 83 0.18
263 54 0.12
265 39 0.09
266 12 0.03
267 65 0.14
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (257 bp):
AATATATGAATTAGAAACTGACCACCCACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAA
CATGACTTAATTGAAAAATATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAG
GTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCGA
ATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCAACCCG
Found at i:40604 original size:23 final size:23
Alignment explanation
Indices: 40578--40629 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
40568 ATCAAATTTC
40578 AATTCCCTCCAACAAGGGAATTG
1 AATTCCCTCCAACAAGGGAATTG
*
40601 AATTCCTTCCAACAAGGGAATTG
1 AATTCCCTCCAACAAGGGAATTG
40624 AATTCC
1 AATTCC
40630 ATCATAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (23 bp):
AATTCCCTCCAACAAGGGAATTG
Found at i:41489 original size:18 final size:18
Alignment explanation
Indices: 41461--41502 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
41451 TAATGTTCGT
41461 GAAACAACAAAGGAAGAAG
1 GAAA-AACAAAGGAAGAAG
41480 GAAAAACAAAGGAAGAAG
1 GAAAAACAAAGGAAGAAG
41498 GAAAA
1 GAAAA
41503 GAAATAGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.67, C:0.07, G:0.26, T:0.00
Consensus pattern (18 bp):
GAAAAACAAAGGAAGAAG
Found at i:46001 original size:21 final size:21
Alignment explanation
Indices: 45977--46017 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45967 GAGAAAAAAG
* *
45977 TTATTATTTGTGTTTATTATT
1 TTATTATTTCTATTTATTATT
*
45998 TTATTTTTTCTATTTATTAT
1 TTATTATTTCTATTTATTAT
46018 ACTGTTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
TTATTATTTCTATTTATTATT
Found at i:60960 original size:19 final size:20
Alignment explanation
Indices: 60936--60989 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
60926 TTGGAATATG
*
60936 TATGTGGTCTTTCGAGACA-
1 TATGTGGTCATTCGAGACAC
*
60955 TATGTGGTCATTCGGGACATC
1 TATGTGGTCATTCGAGACA-C
60976 TATGTGGTCATTCG
1 TATGTGGTCATTCG
60990 GGATAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
21 14 0.45
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (20 bp):
TATGTGGTCATTCGAGACAC
Found at i:60980 original size:40 final size:42
Alignment explanation
Indices: 60883--60989 Score: 103
Period size: 40 Copynumber: 2.6 Consensus size: 42
60873 TACGTGGTTC
* * *
60883 TTCGGGACATATATGTGGTACTTTGGTACACCTATTTGGTCTA
1 TTCGGGACATATATGTGGT-CTTTCGTACACATATGTGGTCTA
* * * *
60926 TT-GGAATATGTATGTGGTCTTTCG-AGACATATGTGGTC-A
1 TTCGGGACATATATGTGGTCTTTCGTACACATATGTGGTCTA
* *
60965 TTCGGGACATCTATGTGGTCATTCG
1 TTCGGGACATATATGTGGTCTTTCG
60990 GGATAAATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
39 3 0.06
40 29 0.56
41 5 0.10
42 13 0.25
43 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (42 bp):
TTCGGGACATATATGTGGTCTTTCGTACACATATGTGGTCTA
Found at i:60981 original size:21 final size:21
Alignment explanation
Indices: 60883--60992 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
60873 TACGTGGTTC
*
60883 TTCGGGACATATATGTGGT-A
1 TTCGGGACATCTATGTGGTCA
* * * *
60903 CTTTGGTACACCTATTTGGTCTA
1 -TTCGGGACATCTATGTGGTC-A
* * * *
60926 TT-GGAATATGTATGTGGTCT
1 TTCGGGACATCTATGTGGTCA
*
60946 TTCGAGACA--TATGTGGTCA
1 TTCGGGACATCTATGTGGTCA
60965 TTCGGGACATCTATGTGGTCA
1 TTCGGGACATCTATGTGGTCA
60986 TTCGGGA
1 TTCGGGA
60993 TAAATTTCAT
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
19 17 0.25
20 2 0.03
21 46 0.68
22 2 0.03
23 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (21 bp):
TTCGGGACATCTATGTGGTCA
Found at i:61866 original size:17 final size:17
Alignment explanation
Indices: 61825--61876 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
61815 ATAGTGTTAG
* *
61825 AGGATTTCCACTATTCC
1 AGGATTTTCACTGTTCC
61842 AGGATTTTCACTGTTCC
1 AGGATTTTCACTGTTCC
*
61859 AGGATTTTCATTGTTCC
1 AGGATTTTCACTGTTCC
61876 A
1 A
61877 AAGTGGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (17 bp):
AGGATTTTCACTGTTCC
Found at i:68966 original size:20 final size:20
Alignment explanation
Indices: 68938--68986 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
68928 GTATAAGCAA
*
68938 TATCGATACTGATA-GAATAG
1 TATCAATACTGATATGAAT-G
*
68958 TATCAATACTGATATGGATG
1 TATCAATACTGATATGAATG
68978 TATCAATAC
1 TATCAATAC
68987 CAAGAGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TATCAATACTGATATGAATG
Found at i:69692 original size:21 final size:23
Alignment explanation
Indices: 69644--69709 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
69634 GTCGAGGGTT
*
69644 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
69667 CTATGTGGTCATTCGGGA-AAAA
1 CTATGTGGTCATTCGGGACAAAA
*
69689 -TATGTGG-CACTTCGGTACAAA
1 CTATGTGGTCA-TTCGGGACAAA
69710 TTTTATGAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.05
21 13 0.33
22 7 0.18
23 17 0.44
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:69710 original size:21 final size:22
Alignment explanation
Indices: 69645--69710 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
69635 TCGAGGGTTC
69645 TATGTGGTC-CTTCGGGACAAAA
1 TATGTGGTCACTTCGGGAC-AAA
*
69667 CTATGTGGTCA-TTCGGGAAAAA
1 -TATGTGGTCACTTCGGGACAAA
*
69689 TATGTGG-CACTTCGGTACAAA
1 TATGTGGTCACTTCGGGACAAA
69710 T
1 T
69711 TTTATGAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 3 0.08
23 16 0.42
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (22 bp):
TATGTGGTCACTTCGGGACAAA
Found at i:72677 original size:45 final size:46
Alignment explanation
Indices: 72599--72724 Score: 166
Period size: 45 Copynumber: 2.8 Consensus size: 46
72589 TTAACACATC
* * * **
72599 CATTT-ATACATTTAAATTATGGCATCCTTTCATGTTTTAATGCAT
1 CATTTCATGCATTTTAATTATGGCATCATTTCATGCCTTAATGCAT
*
72644 CATTTCATGCATTTTAGTTATGGCAT-ATTTCATGCCTTAATGCAT
1 CATTTCATGCATTTTAATTATGGCATCATTTCATGCCTTAATGCAT
* *
72689 CATTTCATGCATTTTAATTATGGCATCCTTTTATGC
1 CATTTCATGCATTTTAATTATGGCATCATTTCATGC
72725 ATTTTAATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 46 0.66
46 24 0.34
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.46
Consensus pattern (46 bp):
CATTTCATGCATTTTAATTATGGCATCATTTCATGCCTTAATGCAT
Found at i:72698 original size:20 final size:20
Alignment explanation
Indices: 72620--72698 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
72610 TTAAATTATG
* *
72620 GCATCCTTTCATGTTTTAAT
1 GCATCATTTCATGCTTTAAT
72640 GCATCATTTCATGCATTTTAGTTAT
1 GCATCATTTCATGC--TTTA---AT
*
72665 GGCAT-ATTTCATGCCTTAAT
1 -GCATCATTTCATGCTTTAAT
72685 GCATCATTTCATGC
1 GCATCATTTCATGC
72699 ATTTTAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
19 4 0.08
20 23 0.47
22 4 0.08
23 3 0.06
25 11 0.22
26 4 0.08
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (20 bp):
GCATCATTTCATGCTTTAAT
Found at i:72714 original size:26 final size:26
Alignment explanation
Indices: 72607--72842 Score: 189
Period size: 26 Copynumber: 10.0 Consensus size: 26
72597 TCCATTTATA
*
72607 CATTTAAATTATGGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
*
72633 --TTTT-A--AT-GCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
* *
72653 CATTTTAGTTATGGCAT-ATTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
* *
72678 C--CTT-A--AT-GCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
*
72698 CATTTTAATTATGGCATCCTTTTATG
1 CATTTTAATTATGGCATCCTTTCATG
72724 CATTTTAATTATGGCATCCTTTCAT-
1 CATTTTAATTATGGCATCCTTTCATG
** *
72749 -ACCTT-A--AT-GTATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
72770 CATTTTAATTATGGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
*
72796 C--CTT-A--AT-GCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
*
72816 CATTTTAATTATGACATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATG
72842 C
1 C
72843 CGTAATGCAT
Statistics
Matches: 167, Mismatches: 18, Indels: 50
0.71 0.08 0.21
Matches are distributed among these distances:
19 4 0.02
20 48 0.29
21 6 0.04
22 11 0.07
23 8 0.05
24 8 0.05
25 17 0.10
26 65 0.39
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (26 bp):
CATTTTAATTATGGCATCCTTTCATG
Found at i:72763 original size:46 final size:46
Alignment explanation
Indices: 72711--72874 Score: 274
Period size: 46 Copynumber: 3.6 Consensus size: 46
72701 TTTAATTATG
* *
72711 GCATCCTTTTATGCATTTTAATTATGGCATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
*
72757 GTATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* *
72803 GCATCCTTTCATGCATTTTAATTATGACATCCTTTCATGCCGTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
*
72849 GCATACTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCATTTTAATTATG
72875 AATATGATTT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
Found at i:72772 original size:72 final size:71
Alignment explanation
Indices: 72640--72796 Score: 242
Period size: 72 Copynumber: 2.2 Consensus size: 71
72630 ATGTTTTAAT
* * *
72640 GCATCATTTCATGCATTTTAGTTATGGCATATTTCATGCCTTAATGCATCATTTCATGCATTTTA
1 GCATCCTTTCATGCATTTTAATTATGGCATATTTCATACCTTAATGCATCATTTCATGCATTTTA
72705 ATTATG
66 ATTATG
* * * *
72711 GCATCCTTTTATGCATTTTAATTATGGCATCCTTTCATACCTTAATGTATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAATTATGGCAT-ATTTCATACCTTAATGCATCATTTCATGCATTTT
72776 AATTATG
65 AATTATG
72783 GCATCCTTTCATGC
1 GCATCCTTTCATGC
72797 CTTAATGCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 27 0.35
72 50 0.65
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (71 bp):
GCATCCTTTCATGCATTTTAATTATGGCATATTTCATACCTTAATGCATCATTTCATGCATTTTA
ATTATG
Found at i:72808 original size:20 final size:20
Alignment explanation
Indices: 72737--72862 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
72727 TTTAATTATG
*
72737 GCATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
72757 GTATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
72782 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
72803 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
72828 GACATCCTTTCATGCCGTAAT
1 G-CATCCTTTCATGCCTTAAT
*
72849 GCATACTTTCATGC
1 GCATCCTTTCATGC
72863 ATTTTAATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
20 38 0.45
21 5 0.06
22 4 0.05
23 4 0.05
24 3 0.04
25 5 0.06
26 26 0.31
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:78672 original size:20 final size:20
Alignment explanation
Indices: 78647--78698 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
78637 TTAAATTATG
78647 GCATCCTTTCATGCCTCAAT
1 GCATCCTTTCATGCCTCAAT
78667 GCATCCTTTCATGCCTCAAT
1 GCATCCTTTCATGCCTCAAT
*
78687 GCATCTTTTCAT
1 GCATCCTTTCAT
78699 ACATTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.38
Consensus pattern (20 bp):
GCATCCTTTCATGCCTCAAT
Found at i:78734 original size:46 final size:46
Alignment explanation
Indices: 78667--78896 Score: 345
Period size: 46 Copynumber: 5.0 Consensus size: 46
78657 ATGCCTCAAT
* * *
78667 GCATCCTTTCATGCCTCAATGCATCTTTTCATACATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAATTATG
* *
78713 GCATCCTTTCTTGCCTTAATGCATCTTTTCATGCATTCTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAATTATG
* * *
78759 GTATCCTTTCATGCCTTAAAGCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAATTATG
* *
78805 GCATCCTTTCATGCCTTAATGCATCATTTCAAGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAATTATG
*
78851 GCATCCTTTCATGCCTTAATGCATAC-TCTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCAT-CTTTTCATGCATTTTAATTATG
78897 AATCATATTT
Statistics
Matches: 167, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 166 0.99
47 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAATTATG
Found at i:78768 original size:26 final size:25
Alignment explanation
Indices: 78687--78864 Score: 116
Period size: 26 Copynumber: 7.6 Consensus size: 25
78677 ATGCCTCAAT
* * *
78687 GCATCTTTTCATACATTTTATTTATG
1 GCATCCTTTCATGCA-TTTAATTATG
* *
78713 GCATCCTTTCTTGC-CTT-A--AT-
1 GCATCCTTTCATGCATTTAATTATG
*
78733 GCATCTTTTCATGCATTCTAATTATG
1 GCATCCTTTCATGCATT-TAATTATG
* *
78759 GTATCCTTTCATGC-CTTAA--A--
1 GCATCCTTTCATGCATTTAATTATG
78779 GCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCA-TTTAATTATG
*
78805 GCATCCTTTCATGC-CTT-A--AT-
1 GCATCCTTTCATGCATTTAATTATG
* *
78825 GCATCATTTCAAGCATTTTAATTATG
1 GCATCCTTTCATGCA-TTTAATTATG
78851 GCATCCTTTCATGC
1 GCATCCTTTCATGC
78865 CTTAATGCAT
Statistics
Matches: 115, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
20 37 0.32
21 5 0.04
22 8 0.07
23 3 0.03
24 8 0.07
25 5 0.04
26 49 0.43
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (25 bp):
GCATCCTTTCATGCATTTAATTATG
Found at i:78786 original size:20 final size:20
Alignment explanation
Indices: 78761--78835 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
78751 TAATTATGGT
78761 ATCCTTTCATGCCTTAAAGC
1 ATCCTTTCATGCCTTAAAGC
*
78781 ATCCTTTCATGCATTTTAATTATGGC
1 ATCCTTTCATGC--CTTAA--A--GC
*
78807 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAAAGC
*
78827 ATCATTTCA
1 ATCCTTTCA
78836 AGCATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
20 22 0.49
22 4 0.09
24 5 0.11
26 14 0.31
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.41
Consensus pattern (20 bp):
ATCCTTTCATGCCTTAAAGC
Found at i:81849 original size:53 final size:54
Alignment explanation
Indices: 81755--81876 Score: 183
Period size: 53 Copynumber: 2.3 Consensus size: 54
81745 TTAAATGACT
*
81755 AAGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTAACAC
1 AAGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTAAAAC
* * * * *
81809 AAGGGTATCTGTACCCGTTTGG-ATTCTGTTTTTCTCGGAGCCAAAATTAAAAT
1 AAGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTAAAAC
81862 AAGGGTATCGGTACC
1 AAGGGTATCGGTACC
81877 TATGACTTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 42 0.69
54 19 0.31
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (54 bp):
AAGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTAAAAC
Found at i:83909 original size:15 final size:15
Alignment explanation
Indices: 83884--83918 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
83874 TTTTAAGAAA
*
83884 ATATA-TTAATATCT
1 ATATATTTAATATAT
83898 ATATATTTAATATAT
1 ATATATTTAATATAT
83913 ATATAT
1 ATATAT
83919 ATATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTTAATATAT
Found at i:83909 original size:23 final size:23
Alignment explanation
Indices: 83883--83927 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
83873 ATTTTAAGAA
*
83883 AATATAT-TAATATCTATATATTT
1 AATATATAT-ATATATATATATTT
83906 AATATATATATATATATATATT
1 AATATATATATATATATATATT
83928 AAGTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATATATATATATATATATTT
Found at i:84292 original size:155 final size:152
Alignment explanation
Indices: 84055--84334 Score: 373
Period size: 155 Copynumber: 1.8 Consensus size: 152
84045 CTAAAAATAA
* * *
84055 TAAATTAAATTAATATATATAATTTATAAAAAGTATGATATTTATTTATTTAAAAATATCAGAAA
1 TAAATTAAATTAATATATATAATATATAAAAAGCATGATATTTATTTATTTAAAAATACCAGAAA
*
84120 AGGACATCCAGTTATTTTAAGACTGTCATCTCTTAATATAAAAAAAATAAATAAATATTAAAACA
66 AGGACATCCAGTTATTTTAAGACTGCCATCTCTTAATATAAAAAAAATAAATAAATATTAAAACA
84185 TAATTAAAATAATTTATAAAAT
131 TAATTAAAATAATTTATAAAAT
* * * **
84207 TAAATTAAATATATATATATATATATATATTATAAGCATGATATTTA-TTATTTTTAGGATACCA
1 TAAATTAAAT-TA-ATATATATA-ATATATAAAAAGCATGATATTTATTTA-TTTAAAAATACCA
* * * * ***
84271 GAATAGGACATCTAGTTATTTTAAGACTGCCCTTTCTTAATATTTTAAAAATAAATAAATATTA
62 GAAAAGGACATCCAGTTATTTTAAGACTGCCATCTCTTAATATAAAAAAAATAAATAAATATTA
84335 TTAACTTATA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
152 10 0.09
153 2 0.02
154 12 0.11
155 84 0.78
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (152 bp):
TAAATTAAATTAATATATATAATATATAAAAAGCATGATATTTATTTATTTAAAAATACCAGAAA
AGGACATCCAGTTATTTTAAGACTGCCATCTCTTAATATAAAAAAAATAAATAAATATTAAAACA
TAATTAAAATAATTTATAAAAT
Found at i:84369 original size:155 final size:152
Alignment explanation
Indices: 84049--84369 Score: 341
Period size: 155 Copynumber: 2.1 Consensus size: 152
84039 ATTTCTCTAA
* *
84049 AAATAATA-AATTAAATTAATATATATAATTTATAAAAAGTATGATATTTATTTATTTAAAAATA
1 AAATAATATAATTAAATTAATATATATAATATATAAAAAGCATGATATTTATTTATTTAAAAATA
* *
84113 TCAGAAAAGGACATCCAGTTATTTTAAGACTGTCATCTCTTAATATAAAAAAAATAAATAAATAT
66 CCAGAAAAGGACATCCAGTTATTTTAAGACTGCCATCTCTTAATATAAAAAAAATAAATAAATAT
*
84178 TAAAACATAATTAAAATAATTT
131 TAAAACATAATTAAAATAATTC
* * *
84200 ATAA-AAT-TAAATTAAATATATATATATATATATATATTATAAGCATGATATTTA-TTATTTTT
1 A-AATAATAT-AATTAAAT-TA-ATATATATA-ATATATAAAAAGCATGATATTTATTTA-TTTA
** * * * * ***
84262 AGGATACCAGAATAGGACATCTAGTTATTTTAAGACTGCCCTTTCTTAATATTTTAAAAATAAAT
60 AAAATACCAGAAAAGGACATCCAGTTATTTTAAGACTGCCATCTCTTAATATAAAAAAAATAAAT
* *
84327 AAATATTATTAAC-TTA-TAAAATTAA-TC
125 AAATATTA-AAACATAATTAAAA-TAATTC
84354 AAATAATATATATTAA
1 AAATAATATA-ATTAA
84370 TATGATTAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
151 4 0.03
152 10 0.07
153 4 0.03
154 23 0.17
155 95 0.68
156 3 0.02
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.39
Consensus pattern (152 bp):
AAATAATATAATTAAATTAATATATATAATATATAAAAAGCATGATATTTATTTATTTAAAAATA
CCAGAAAAGGACATCCAGTTATTTTAAGACTGCCATCTCTTAATATAAAAAAAATAAATAAATAT
TAAAACATAATTAAAATAATTC
Found at i:84405 original size:13 final size:13
Alignment explanation
Indices: 84374--84425 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
84364 TATTAATATG
*
84374 ATTAAAATAAAATA
1 ATTAAAATATAA-A
**
84388 ATTAAAATATTGA
1 ATTAAAATATAAA
84401 ATTAAAATATAAA
1 ATTAAAATATAAA
84414 ATTAAAATATAA
1 ATTAAAATATAA
84426 CTAAACATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATTAAAATATAAA
Found at i:85646 original size:3 final size:3
Alignment explanation
Indices: 85638--85694 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
85628 GTCTGAAATG
85638 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
85684 TAA TAA -AA TAA
1 TAA TAA TAA TAA
85695 AAAAACAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:85958 original size:17 final size:17
Alignment explanation
Indices: 85936--85997 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
85926 GTTGAACAAA
*
85936 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* * *
85953 TTCTTCTTCTTTTTAGATAAG
1 TTCTTC-TCATTAT-G--AAC
85974 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
85991 TTCTTCT
1 TTCTTCT
85998 GAAAATGTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 15 0.43
18 5 0.14
19 2 0.06
20 5 0.14
21 8 0.23
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:86609 original size:123 final size:123
Alignment explanation
Indices: 86059--86755 Score: 953
Period size: 123 Copynumber: 5.7 Consensus size: 123
86049 GAATTAAGGC
* *
86059 AAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTATTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
86124 GAAC-ACTTCTGGAAATGTTTATGCTGATCTATCTCCTTCTGTGATAGCGTCATGCAA
66 GAACTACCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
*
86181 AAGGTTGAAC--GTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
86244 GAAC-ACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCGA-GTAA
66 GAACTACCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTC-ATGCAA
* ** *
86301 AAGGTTGAAGAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * * *
86366 AAACTTCCTCTGGAAATGTTGGTGTTGATTTATCT-CTTCTG-GATAGAATCAAGCAA
66 GAACTACCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
* *
86422 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
86487 GAACTCCCTCTAGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
66 GAACTACCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
* * * * *
86545 CAGGTTGAACAAATTCTTCTCATTATAAACTTATTCTTCCTCTTCAGATAAGTTCTTCTTATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* ** * * * *
86610 AAACTTTCTCTGGCAAA-G-TGTATGATGATCTATCTCCTTTTGTGATATAGTAATGCAA
66 GAACTACCTCTGG-AAATGTTG-ATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
86668 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
86733 GAACTCCCTCTGGAAATATTGAT
66 GAACTACCTCTGGAAATGTTGAT
86756 CCATTGAGTG
Statistics
Matches: 510, Mismatches: 54, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
120 110 0.22
121 103 0.20
122 81 0.16
123 211 0.41
124 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (123 bp):
AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTACCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
Found at i:88641 original size:75 final size:75
Alignment explanation
Indices: 88511--88677 Score: 201
Period size: 75 Copynumber: 2.2 Consensus size: 75
88501 AAGATGATAT
* * * * *
88511 GGGCCTTCAGCATGCCCCAATATTTGCTGATACAGACATTCAAAATGCACCAATATTCCTGA-TT
1 GGGCTTTCAGCATGCCCCAACATTTACTGATACAAACATTCAAAATGCACCAATATT-CTAATTT
88575 CTGATTGAAAG
65 CTGATTGAAAG
* ***
88586 GGGCTTTCAGCATGCCCCAACATTTACTGATATAAACATTCAAAATGCGTTAATATTCTAATTTC
1 GGGCTTTCAGCATGCCCCAACATTTACTGATACAAACATTCAAAATGCACCAATATTCTAATTTC
*
88651 TGATTGAAAT
66 TGATTGAAAG
* * *
88661 GAGTTTTCAACATGCCC
1 GGGCTTTCAGCATGCCC
88678 TAGCATTTGC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 3 0.04
75 75 0.96
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (75 bp):
GGGCTTTCAGCATGCCCCAACATTTACTGATACAAACATTCAAAATGCACCAATATTCTAATTTC
TGATTGAAAG
Found at i:88836 original size:39 final size:39
Alignment explanation
Indices: 88736--88836 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 39
88726 TATTGTTGTT
88736 AGCCTTCAAAATGCCCCAACATTATATTTCTGTTGAAATG
1 AGCCTTCAAAATGCCCCAACATTATATTTCTG-TGAAATG
* * * * *
88776 AGCTTTCAAGATGTCCC-ACATTGATCTTTC-G-GAATTG
1 AGCCTTCAAAATGCCCCAACATT-ATATTTCTGTGAAATG
*
88813 GGCCTTCAAAAATGCCCCAACATT
1 AGCCTTC-AAAATGCCCCAACATT
88837 CTAAACTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
37 10 0.20
38 8 0.16
39 11 0.22
40 20 0.41
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (39 bp):
AGCCTTCAAAATGCCCCAACATTATATTTCTGTGAAATG
Found at i:91218 original size:65 final size:63
Alignment explanation
Indices: 91101--91308 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
91091 TTTCAGAGTG
* * *
91101 ATGCACCGATGCAATAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGCAT
1 ATGCATCGATGC-ACAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGCAT
91163 TTC
61 TTC
*
91166 ATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATTT
91230 C
63 C
* * * * *
91231 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTC
* *
91295 ATACATCAATGCAC
1 ATGCATCGATGCAC
91309 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 45 0.37
65 69 0.56
66 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTC
Found at i:91307 original size:17 final size:18
Alignment explanation
Indices: 91274--91309 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
91264 TCTGGCTATT
91274 TTGAAACATCGAATGCAC
1 TTGAAACATCGAATGCAC
*
91292 TTGATACATC-AATGCAC
1 TTGAAACATCGAATGCAC
91309 T
1 T
91310 CTTAGTGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (18 bp):
TTGAAACATCGAATGCAC
Done.