Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005788.1 Hibiscus syriacus cultivar Beakdansim tig00013565_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: 403709
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 3
Found at i:17142 original size:23 final size:23
Alignment explanation
Indices: 17116--17208 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
17106 AGGCAGAGAA
*
17116 AAACGTGCCACAAAGGTAAAAAT
1 AAACGTGCCACAAAGGCAAAAAT
* *
17139 AAACGTTCCATAAAGGCAAAAAT
1 AAACGTGCCACAAAGGCAAAAAT
* * *
17162 AAACGTTCCATAAAGACAAAAAT
1 AAACGTGCCACAAAGGCAAAAAT
* *
17185 AAACATGCCACAAAAGCAAAAAT
1 AAACGTGCCACAAAGGCAAAAAT
17208 A
1 A
17209 TTCTTATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (23 bp):
AAACGTGCCACAAAGGCAAAAAT
Found at i:27801 original size:2 final size:2
Alignment explanation
Indices: 27794--27832 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27784 TTTATTTAGT
27794 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
27833 TCAAATTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37645 original size:15 final size:16
Alignment explanation
Indices: 37622--37670 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
37612 ATTATTTACA
37622 CTTTAATTAC-ATGACT
1 CTTT-ATTACTATGACT
37638 CTTTATTACTTATGACT
1 CTTTATTAC-TATGACT
*
37655 TTTTATTACTTATGAC
1 CTTTATTAC-TATGAC
37671 ACATGTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.17
16 4 0.13
17 21 0.70
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (16 bp):
CTTTATTACTATGACT
Found at i:37654 original size:17 final size:17
Alignment explanation
Indices: 37632--37670 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
37622 CTTTAATTAC
37632 ATGACTCTTTATTACTT
1 ATGACTCTTTATTACTT
*
37649 ATGACTTTTTATTACTT
1 ATGACTCTTTATTACTT
37666 ATGAC
1 ATGAC
37671 ACATGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (17 bp):
ATGACTCTTTATTACTT
Found at i:38446 original size:22 final size:22
Alignment explanation
Indices: 38418--38462 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38408 CTTTATTCTA
38418 CATAGGTTATCATTGACGCTGG
1 CATAGGTTATCATTGACGCTGG
*
38440 CATAGGTTATCATTGACGTTGG
1 CATAGGTTATCATTGACGCTGG
38462 C
1 C
38463 GGCACACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (22 bp):
CATAGGTTATCATTGACGCTGG
Found at i:41315 original size:17 final size:17
Alignment explanation
Indices: 41290--41336 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
41280 TTCTCTAATA
* *
41290 TATTAAAATTTTATTTT
1 TATTTAAATTTTATTAT
*
41307 TATTTAAA-TTTAATAT
1 TATTTAAATTTTATTAT
*
41323 AATTTAAATTTTAT
1 TATTTAAATTTTAT
41337 CTAAACACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTAAATTTTATTAT
Found at i:45330 original size:10 final size:10
Alignment explanation
Indices: 45299--45335 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
45289 ATCGTCTTTG
45299 TTTATCTTC-
1 TTTATCTTCA
45308 TTTATCTTTCA
1 TTTATC-TTCA
45319 TTTATCTTCA
1 TTTATCTTCA
45329 TTT-TCTT
1 TTTATCTT
45336 AATATTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 10 0.38
11 6 0.23
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATCTTCA
Found at i:49058 original size:38 final size:37
Alignment explanation
Indices: 48968--49059 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 37
48958 AACAAAGTTA
* *
48968 ATTTCTAGAGAAACAACCTTATGAAAGATAATGCTGAG
1 ATTTCTAGAGAAACGACCTTAAGAAAGATAAT-CTGAG
*
49006 ATTTCTAG-GAAAACGATCTTAAGAAAGATTAAAT-TGAG
1 ATTTCTAGAG-AAACGACCTTAAGAAAGA-T-AATCTGAG
*
49044 GTTTCTAGAGAAACGA
1 ATTTCTAGAGAAACGA
49060 GCATGAGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
37 1 0.02
38 40 0.87
39 2 0.04
40 3 0.07
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (37 bp):
ATTTCTAGAGAAACGACCTTAAGAAAGATAATCTGAG
Found at i:49301 original size:38 final size:38
Alignment explanation
Indices: 49238--49342 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 38
49228 TCAGGTTGTG
* * * **
49238 GTTTCTAGGGAAATGGTCTTAAGAAAGATTAAATTGAA
1 GTTTCTAGGGAAACGATCTTAAGAAAGACTAAAACGAA
* *
49276 GTTTCTAGGGAAACAATCTTGAGAAAGACTAAAACGAA
1 GTTTCTAGGGAAACGATCTTAAGAAAGACTAAAACGAA
* *
49314 -TTTCTAGAGAAACGATCCTAAGAAAGACT
1 GTTTCTAGGGAAACGATCTTAAGAAAGACT
49343 CGAGTGAGTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
37 25 0.45
38 31 0.55
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (38 bp):
GTTTCTAGGGAAACGATCTTAAGAAAGACTAAAACGAA
Found at i:49326 original size:37 final size:38
Alignment explanation
Indices: 49254--49342 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 38
49244 AGGGAAATGG
* ** *
49254 TCTTAAGAAAGATTAAATTGAAGTTTCTAGGGAAACAA
1 TCTTAAGAAAGACTAAAACGAAGTTTCTAGAGAAACAA
* *
49292 TCTTGAGAAAGACTAAAACGAA-TTTCTAGAGAAACGA
1 TCTTAAGAAAGACTAAAACGAAGTTTCTAGAGAAACAA
*
49329 TCCTAAGAAAGACT
1 TCTTAAGAAAGACT
49343 CGAGTGAGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 25 0.58
38 18 0.42
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (38 bp):
TCTTAAGAAAGACTAAAACGAAGTTTCTAGAGAAACAA
Found at i:53640 original size:27 final size:27
Alignment explanation
Indices: 53610--53675 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
53600 AAAACAATGT
53610 TGAATGATTCAGCATCAAAGTACATTC
1 TGAATGATTCAGCATCAAAGTACATTC
53637 TGAATGATTCAGCATCAAAGTACATTC
1 TGAATGATTCAGCATCAAAGTACATTC
53664 TGAATGATTCAG
1 TGAATGATTCAG
53676 AGCCATTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
TGAATGATTCAGCATCAAAGTACATTC
Found at i:54232 original size:16 final size:17
Alignment explanation
Indices: 54197--54233 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
54187 ATGGGATGAA
54197 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
54214 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
54230 AAAA
1 AAAA
54234 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:54274 original size:17 final size:17
Alignment explanation
Indices: 54252--54284 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54242 TACTACCATA
*
54252 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
54269 ATATTATATTTTATAT
1 ATATTATATTTTATAT
54285 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:55007 original size:41 final size:40
Alignment explanation
Indices: 54962--55093 Score: 97
Period size: 41 Copynumber: 3.1 Consensus size: 40
54952 ATAGTGGCAT
*
54962 TTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGTGGTG
1 TTTTTCAACAAACGCCGCAA-AGAGTAGTACTTTAGTAGTG
* * ** * *
55003 TTTTT-ATACAAACGCCAC-AATAGTTTTCATCTATAGTTGTGG
1 TTTTTCA-ACAAACGCCGCAAAGAGTAGT-A-CTTTAGTAGT-G
*
55045 CATTTTTTCAACAAACGCCGCAAAAGAGTAGTACTTTAGCAGTG
1 ---TTTTTCAACAAACGCCGC-AAAGAGTAGTACTTTAGTAGTG
55089 TTTTT
1 TTTTT
55094 ATACAAATGT
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
39 5 0.07
40 3 0.04
41 28 0.41
42 1 0.01
44 1 0.01
45 22 0.32
46 2 0.03
47 6 0.09
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (40 bp):
TTTTTCAACAAACGCCGCAAAGAGTAGTACTTTAGTAGTG
Found at i:55059 original size:86 final size:83
Alignment explanation
Indices: 54904--55148 Score: 314
Period size: 86 Copynumber: 2.9 Consensus size: 83
54894 GTAACTTTAG
* * * * *
54904 GTAGTACTTTAGCGGCGTTTATATAAAAACGCCGCAATTGGTTCATCTATA-GTGGCATTTTTTC
1 GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATAGGTTCATCTATATGTGGCATTTTTTC
*
54968 AACAAACGCCGCAACAGA
66 AACAAACGCCGCAAAAGA
* *
54986 GTAGTACTTTAGTGGTGTTTTTATACAAACGCCACAATAGTTTTCATCTATAGTTGTGGCATTTT
1 GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATAG-GTTCATCTATA--TGTGGCATTTT
55051 TTCAACAAACGCCGCAAAAGA
63 TTCAACAAACGCCGCAAAAGA
* * * * *
55072 GTAGTACTTTAGCAGTGTTTTTATACAAATGTCATAATAGGGTTCATATATA-GTGGCATTTTTT
1 GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATA-GGTTCATCTATATGTGGCATTTTTT
*
55136 CAACAAACACCGC
65 CAACAAACGCCGC
55149 CATAGAATTC
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
82 34 0.24
83 34 0.24
86 73 0.51
87 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (83 bp):
GTAGTACTTTAGCGGTGTTTTTATACAAACGCCACAATAGGTTCATCTATATGTGGCATTTTTTC
AACAAACGCCGCAAAAGA
Found at i:58630 original size:43 final size:43
Alignment explanation
Indices: 58484--58768 Score: 245
Period size: 43 Copynumber: 6.6 Consensus size: 43
58474 TGGTAATTAC
* * * *
58484 CGGCGTTTGTATCCAAAATCGTCGCTACAGATCTGACCATTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * * *
58527 TGGCGTTTGTATTCAAAAAGCGTCGCTATAGATCAGACCTTTTG
1 CGGCGTTTGTATCCAAAAA-CGCCGCTATAGATCTGACCTTTTG
* * * * *
58571 TGACGTTTGT-TCCAAAAACGCCACTACAAATCTGACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * ** *
58613 CGGCGTTCGTATACAAAAATACCGCTATAGATCTAACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * *
58656 CGGCGTTTGTAT--AAAAACACCGCTATTGATCTCGACCTATTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTG
** * *
58698 CGGCGTTTGT-TTTAAATACGCCACTATAGATCTCGACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTG
* * * *
58741 CGACGTTTTTATTTCACAAACGCCGCTA
1 CGGCGTTTGTA-TCCAAAAACGCCGCTA
58769 ACATTAGCGG
Statistics
Matches: 196, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
41 19 0.10
42 43 0.22
43 92 0.47
44 30 0.15
45 12 0.06
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
Found at i:59310 original size:17 final size:19
Alignment explanation
Indices: 59264--59314 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
59254 TATATACAAG
59264 TGTTTACTC-AATAGATTT
1 TGTTTACTCAAATAGATTT
*
59282 TAGTTGACTCAAATA-A-TT
1 T-GTTTACTCAAATAGATTT
59300 TGTTTACTC-AATAGA
1 TGTTTACTCAAATAGA
59315 GTTAGATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.14
17 8 0.29
18 4 0.14
19 8 0.29
20 4 0.14
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (19 bp):
TGTTTACTCAAATAGATTT
Found at i:59676 original size:48 final size:47
Alignment explanation
Indices: 59619--59710 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 47
59609 TTTTTCTGGT
* *
59619 TCAGATCAATATCAGATCGGCTGATTTTTGGATCAGGTTAATATCGGG
1 TCAGATCAATACCAGATCGACTGATTTTTGGATC-GGTTAATATCGGG
* * * *
59667 TCAGGTCAATACCGGATCGATTGATTTTTGGGTCGGTTAATATC
1 TCAGATCAATACCAGATCGACTGATTTTTGGATCGGTTAATATC
59711 AGATCAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 10 0.26
48 28 0.74
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (47 bp):
TCAGATCAATACCAGATCGACTGATTTTTGGATCGGTTAATATCGGG
Found at i:62014 original size:29 final size:29
Alignment explanation
Indices: 61972--62031 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
61962 GAAAAAAGTG
**
61972 TTAGGAATTTTTTTGAGGTTTTTAGGAAT
1 TTAGGAATTTTTTTGAAATTTTTAGGAAT
* *
62001 TTAGGAGTTTTTTTGAAATTTTTTGGAAT
1 TTAGGAATTTTTTTGAAATTTTTAGGAAT
62030 TT
1 TT
62032 CAAGTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.22, T:0.55
Consensus pattern (29 bp):
TTAGGAATTTTTTTGAAATTTTTAGGAAT
Found at i:62059 original size:19 final size:20
Alignment explanation
Indices: 62017--62059 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
62007 GTTTTTTTGA
*
62017 AATTTTTTGGAATTTCAAGT
1 AATTTTTGGGAATTTCAAGT
*
62037 -ATTTTTGGGAATTTTAA-T
1 AATTTTTGGGAATTTCAAGT
62055 AATTT
1 AATTT
62060 CATGGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.53
Consensus pattern (20 bp):
AATTTTTGGGAATTTCAAGT
Found at i:63911 original size:22 final size:22
Alignment explanation
Indices: 63881--63923 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63871 TTTGGATTTC
*
63881 TTTCTGTTCAGGTTAATTTCGA
1 TTTCGGTTCAGGTTAATTTCGA
*
63903 TTTCGGTTCGGGTTAATTTCG
1 TTTCGGTTCAGGTTAATTTCG
63924 GTCTGGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (22 bp):
TTTCGGTTCAGGTTAATTTCGA
Found at i:63936 original size:15 final size:16
Alignment explanation
Indices: 63901--63938 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
63891 GGTTAATTTC
63901 GATTTCGGTTCGGGTT
1 GATTTCGGTTCGGGTT
* *
63917 AATTTCGG-TCTGGTT
1 GATTTCGGTTCGGGTT
63932 GATTTCG
1 GATTTCG
63939 ATTTCGCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.11, C:0.13, G:0.32, T:0.45
Consensus pattern (16 bp):
GATTTCGGTTCGGGTT
Found at i:70982 original size:36 final size:36
Alignment explanation
Indices: 70942--71015 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
70932 TTGTTTTATT
*
70942 AAAAATATTTTTCGTAAAATAGTTTATATAT-TTTAA
1 AAAAATATTTTTCGAAAAATAGTTTAT-TATGTTTAA
* *
70978 AAAAATATTTTTTGAAAAATATTTTATTATGTTTAA
1 AAAAATATTTTTCGAAAAATAGTTTATTATGTTTAA
71014 AA
1 AA
71016 GATATTGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (36 bp):
AAAAATATTTTTCGAAAAATAGTTTATTATGTTTAA
Found at i:71436 original size:27 final size:28
Alignment explanation
Indices: 71392--71453 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
71382 TATTAGACTG
71392 TTATATTAATATTAAATACA-TAAATAGTA
1 TTAT-TTAATATTAAATA-ATTAAATAGTA
* *
71421 TTATTTAATATT-AATAATTTAATATTA
1 TTATTTAATATTAAATAATTAAATAGTA
71448 TTATTT
1 TTATTT
71454 TTAGGAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 17 0.57
28 8 0.27
29 4 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
TTATTTAATATTAAATAATTAAATAGTA
Found at i:71541 original size:11 final size:11
Alignment explanation
Indices: 71527--71566 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
71517 ATAATATCAT
71527 ATATTATTGTA
1 ATATTATTGTA
* *
71538 ATATAATTGAA
1 ATATTATTGTA
71549 TATATTATTGTA
1 -ATATTATTGTA
71561 ATATTA
1 ATATTA
71567 AAAATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (11 bp):
ATATTATTGTA
Found at i:71574 original size:32 final size:32
Alignment explanation
Indices: 71537--71606 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
71527 ATATTATTGT
**
71537 AATATAATTGAATATATTATT-GTAATATTAA-A
1 AATATAA-T-AATATATTATTAACAATATTAATA
*
71569 AATATAATATTATATTATTAACAATATTAATA
1 AATATAATAATATATTATTAACAATATTAATA
71601 AATATA
1 AATATA
71607 TATTTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 10 0.30
31 9 0.27
32 14 0.42
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (32 bp):
AATATAATAATATATTATTAACAATATTAATA
Found at i:71579 original size:22 final size:22
Alignment explanation
Indices: 71525--71600 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
71515 TTATAATATC
* *
71525 ATATATTATTGTAATA-TAATTGA
1 ATATAATATTGTAATATTAA--AA
*
71548 ATATATTATTGTAATATTAAAA
1 ATATAATATTGTAATATTAAAA
* * *
71570 ATATAATATTATATTATTAACA
1 ATATAATATTGTAATATTAAAA
71592 ATATTAATA
1 ATA-TAATA
71601 AATATATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 22 0.48
23 21 0.46
24 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATAATATTGTAATATTAAAA
Found at i:71605 original size:22 final size:23
Alignment explanation
Indices: 71561--71610 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
71551 TATTATTGTA
*
71561 ATATTAAAAATATAATATTATAT
1 ATATTAAAAATATAATATAATAT
*
71584 -TATTAACAATATTAATA-AATAT
1 ATATTAAAAATA-TAATATAATAT
71606 ATATT
1 ATATT
71611 TTAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTAAAAATATAATATAATAT
Found at i:75596 original size:21 final size:22
Alignment explanation
Indices: 75570--75614 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
75560 AATAATAAAT
75570 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
75591 TATTTAAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
75613 TA
1 TA
75615 CTAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:75623 original size:22 final size:22
Alignment explanation
Indices: 75575--75623 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
75565 TAAATTATTT
*
75575 AAAATAAATCAATCCATATTTA
1 AAAATAAATCAATCCATATCTA
75597 AAAATAAATCAATCCATA-CTA
1 AAAATAAATCAATCCATATCTA
75618 ATAAAT
1 A-AAAT
75624 TATTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:75632 original size:32 final size:31
Alignment explanation
Indices: 75593--75701 Score: 119
Period size: 32 Copynumber: 3.7 Consensus size: 31
75583 TCAATCCATA
75593 TTTAAAAATAAATCAATCCATACTAATAAAT
1 TTTAAAAATAAATCAATCCATACTAATAAAT
75624 TATTAAAAATAAATCAAT-C---C--AT--AT
1 T-TTAAAAATAAATCAATCCATACTAATAAAT
*
75648 TTT-AAAATAAATCAATTCATACTAATAAATT
1 TTTAAAAATAAATCAATCCATACTAATAAA-T
*
75679 TTTTAAAATAAATCAATCCATAC
1 TTTAAAAATAAATCAATCCATAC
75702 AACTACAATA
Statistics
Matches: 66, Mismatches: 1, Indels: 21
0.75 0.01 0.24
Matches are distributed among these distances:
22 13 0.20
23 3 0.05
24 3 0.05
26 3 0.05
28 3 0.05
30 1 0.02
31 6 0.09
32 34 0.52
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTAAAAATAAATCAATCCATACTAATAAAT
Found at i:75677 original size:22 final size:22
Alignment explanation
Indices: 75629--75676 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
75619 TAAATTATTA
**
75629 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATAAT
*
75651 AAAATAAATCAATTCATACTAAT
1 AAAATAAATCAATCCATA-TAAT
75674 AAA
1 AAA
75677 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATCAATCCATATAAT
Found at i:75735 original size:134 final size:130
Alignment explanation
Indices: 75575--75978 Score: 538
Period size: 134 Copynumber: 3.1 Consensus size: 130
75565 TAAATTATTT
*
75575 AAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATTATTAAAAATAAATCA
1 AAAATAAATCAATCCATATTTTAAAATAAATCAAT-CATACTAATAAATTATTAAAAATAAATCA
* *
75640 ATCCATATTTTAAAATAAATCAATTCATACTAATAAATTTTTTAAAATAAATCAATCCATACAAC
65 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AAC
75705 TAC
128 TAC
* * * *
75708 AATAATAAATCATTCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATT
1 AA-AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTAAAAATAAATC
* * * *
75773 AATCTATATTTTAAAATAAATCAATCCATGCTAATAAATTATTGAAAATAAATCAATCCAT-ATT
64 AATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACT
**
75837 TT
129 AC
* *
75839 AAAATAAATCAATCCAT-TTTTAAAATAAATCAATCATAC-----AATTA-CAATAATAAATCAA
1 AAAATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTAAAAATAAATCAA
* **
75897 TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT-ATTTT
66 TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTAC
75961 AAAATAAATCAATCCATA
1 AAAATAAATCAATCCATA
75979 GTAATAAATT
Statistics
Matches: 246, Mismatches: 22, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
122 88 0.36
123 5 0.02
128 6 0.02
129 16 0.07
130 13 0.05
131 4 0.02
133 2 0.01
134 111 0.45
135 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (130 bp):
AAAATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTAAAAATAAATCAA
TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTAC
Found at i:75767 original size:32 final size:32
Alignment explanation
Indices: 75728--75834 Score: 108
Period size: 32 Copynumber: 3.7 Consensus size: 32
75718 CATTCTATAT
*
75728 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
75760 TTTAAAATAAAT---T-AAT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
75782 TTTAAAATAAATCAATCCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
75814 TTGAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
75835 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
22 12 0.20
23 1 0.02
24 1 0.02
25 1 0.02
26 4 0.07
27 4 0.07
28 4 0.07
29 1 0.02
30 1 0.02
31 1 0.02
32 31 0.51
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:75775 original size:22 final size:22
Alignment explanation
Indices: 75750--75793 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
75740 CAATTCATAC
75750 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
75772 TAATCTATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
75794 CAATCCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:75842 original size:22 final size:22
Alignment explanation
Indices: 75817--75924 Score: 148
Period size: 22 Copynumber: 4.8 Consensus size: 22
75807 TAAATTATTG
75817 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATTTT
75839 AAAATAAATCAATCCAT-TTTT
1 AAAATAAATCAATCCATATTTT
**
75860 AAAATAAATCAAT-CATACAATTAC
1 AAAATAAATCAATCCAT---ATTTT
75884 AATAATAAATCAATCCATATTTT
1 AA-AATAAATCAATCCATATTTT
75907 AAAATAAATCAATCCATA
1 AAAATAAATCAATCCATA
75925 CTAATAAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.04
21 17 0.22
22 33 0.43
23 5 0.07
24 4 0.05
25 11 0.14
26 3 0.04
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAAATCAATCCATATTTT
Found at i:75894 original size:176 final size:180
Alignment explanation
Indices: 75562--76215 Score: 832
Period size: 188 Copynumber: 3.6 Consensus size: 180
75552 ACAACTACAA
* *
75562 TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTAT
75627 TAAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTTTTTAAAATAAAT
66 TAAAAATAAATCAATCCATATTTTAAAATAAATCAA-TC--AC-----AATTTTTTAAAATAAAT
* * *
75692 CAATCCATACAACTACAATAATAAATCATTCTATATTTTAAAATAAATCAATTCATAC
123 CAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
75750 TAATAAATTATTTAAAATAAATTAATCTATATTTTAAAATAAATCAATCCATGCTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTAT
*
75815 TGAAAATAAATCAATCCATATTTTAAAATAAATCAATC-C-A-TTTTTAAAATAAATCAAT-CAT
66 TAAAAATAAATCAATCCATATTTTAAAATAAATCAATCACAATTTTTTAAAATAAATCAATCCAT
*
75876 ACAATTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
131 ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
75926 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAG-TAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT-GCTAATAAATTA
*
75990 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
65 TTAAAAATAAATCAATCCATATTTTAAAATAAATCAA-TC--AC-AAT---TT-TTTAAAATAAA
* *
76055 TTC-ATCCAAACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
122 -TCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCAT
76118 AC
179 AC
* * *
76120 -AACTACA--A--T--AATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTA
*
76178 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
65 TTAAAAATAAATCAATCCATATTTTAAAATAAATCAAT
76216 TCATTCTAAT
Statistics
Matches: 426, Mismatches: 17, Indels: 47
0.87 0.03 0.10
Matches are distributed among these distances:
176 145 0.34
177 21 0.05
178 1 0.00
180 1 0.00
182 1 0.00
184 1 0.00
186 2 0.00
187 16 0.04
188 188 0.44
189 2 0.00
190 2 0.00
192 2 0.00
193 2 0.00
194 42 0.10
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (180 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTAT
TAAAAATAAATCAATCCATATTTTAAAATAAATCAATCACAATTTTTTAAAATAAATCAATCCAT
ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:75930 original size:18 final size:19
Alignment explanation
Indices: 75886--75933 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
75876 ACAATTACAA
*
75886 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA-TC
75906 TAAAATAAATCAATCCATA-C
1 T--AATAAATCAATCCATATC
75926 TAATAAAT
1 TAATAAAT
75934 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
20 2 0.08
22 16 0.64
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAATCAATCCATATC
Found at i:75943 original size:32 final size:32
Alignment explanation
Indices: 75904--76096 Score: 203
Period size: 32 Copynumber: 6.7 Consensus size: 32
75894 CAATCCATAT
75904 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
75936 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
75958 TTTAAAATAAATCAATCCATAGTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
75990 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76012 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76044 TTTAAAATAAATTC-ATCCAAACTAATAAATTA
1 TTTAAAATAAA-TCAATCCATACTAATAAATTA
76076 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
76097 TTTTAAAATA
Statistics
Matches: 134, Mismatches: 5, Indels: 44
0.73 0.03 0.24
Matches are distributed among these distances:
22 32 0.24
23 4 0.03
24 2 0.01
26 5 0.04
28 5 0.04
30 2 0.01
31 6 0.04
32 76 0.57
33 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:75962 original size:22 final size:22
Alignment explanation
Indices: 75936--75978 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
75926 TAATAAATTA
75936 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
75958 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
75979 GTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:76016 original size:22 final size:22
Alignment explanation
Indices: 75990--76032 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
75980 TAATAAATTA
75990 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
76012 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
76033 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:76041 original size:22 final size:22
Alignment explanation
Indices: 75992--76040 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
75982 ATAAATTATT
**
75992 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
76014 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
76037 TAAA
1 TAAA
76041 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:76052 original size:14 final size:14
Alignment explanation
Indices: 76035--76087 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
76025 AATTCATACT
76035 AATAAATTATTTAA
1 AATAAATTATTTAA
**
76049 AATAAATTCATCCAAA
1 AATAAATT-AT-TTAA
76065 CTAATAAATTATTTAA
1 --AATAAATTATTTAA
76081 AATAAAT
1 AATAAAT
76088 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 15 0.48
15 2 0.06
16 4 0.13
17 2 0.06
18 8 0.26
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:76062 original size:54 final size:54
Alignment explanation
Indices: 75562--76055 Score: 444
Period size: 54 Copynumber: 9.4 Consensus size: 54
75552 ACAACTACAA
*
75562 TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
75616 TAATAAATTATTAAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** * * *
75670 TAATAAATTTTTTAAAATAAATCAATCCATACAACTACAAT-AATAAAT-CATTC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* ** * ** * * *
75723 T-AT--A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT--AAAT
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** * ** * *
75772 TAATCTA-TATTTTAAAATAAATCAATCCATGCTAATAAATTATTGAAAATAAATCAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCAT-ATTTTAAA--A-T--AAATCAATCCATAC
*
75831 -CAT--A-T-TTTAAAATAAATCAATCCAT-TTTTAAAATAAATCAAT-CATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
75878 -----AATTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
75926 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAG
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
75980 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
76034 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
76056 TCATCCAAAC
Statistics
Matches: 372, Mismatches: 38, Indels: 60
0.79 0.08 0.13
Matches are distributed among these distances:
45 3 0.01
46 18 0.05
47 25 0.07
48 31 0.08
49 5 0.01
50 8 0.02
52 9 0.02
53 10 0.03
54 244 0.66
55 7 0.02
56 2 0.01
57 1 0.00
58 6 0.02
59 2 0.01
60 1 0.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.36
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:76102 original size:22 final size:22
Alignment explanation
Indices: 76076--76166 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
76066 TAATAAATTA
76076 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
76098 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
** *
76123 TACAATAATAAAACAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
76146 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
76167 CTAATAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 35 0.61
23 4 0.07
25 4 0.07
26 14 0.25
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:76102 original size:54 final size:54
Alignment explanation
Indices: 76044--76266 Score: 291
Period size: 54 Copynumber: 4.2 Consensus size: 54
76034 TAATAAATTA
*
76044 TTTAAAATAAATTC-ATCCAAACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAA-TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
76098 TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAAACAATCCATAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
76146 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * * *
76200 TTTAAAATAAATCAATTCATTCTAATAAATTATTTTAAAATAAATCAGTTCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATAT
*
76255 TTTATAATAAAT
1 TTTAAAATAAAT
76267 TATTTTATAA
Statistics
Matches: 149, Mismatches: 10, Indels: 19
0.84 0.06 0.11
Matches are distributed among these distances:
48 41 0.28
49 2 0.01
50 2 0.01
52 2 0.01
53 4 0.03
54 67 0.45
55 31 0.21
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:76142 original size:242 final size:237
Alignment explanation
Indices: 75833--76326 Score: 769
Period size: 242 Copynumber: 2.1 Consensus size: 237
75823 AATCAATCCA
* *
75833 TATTTTAAAATAAATCAATCCATTTTTAAAATAAATCAATCATACAATTACAATAATAAATCAAT
1 TATTTTAAAATAAATCAATCCATTTTTAAAATAAATCAATCATACAACTACAATAATAAAACAAT
75898 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
*
75963 AATAAATCAATCCATAGTAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
131 AATAAATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AA
76027 TTCATACTAATAAATTA-TTTAAAATAAATTCATCCAAACTAATAAAT
195 TT-ATA-TAATAAATTATTTTAAAATAAATT-AT-CAAA-TAATAAAT
76074 TA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTACAATAATAAAACA
1 TATTTTAAAATAAATCAATCCAT-TTTTAAAATAAATCAAT-CATACAACTACAATAATAAAACA
76138 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
64 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
* * * * * *
76203 AAAATAAATCAATTCATTCTAATAAATTATTTTAAAATAAATCAGTTCATATTTTATAATAAATT
129 AAAATAAATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATA
* * ***
76268 ATTTTATAATAAATTATTTTATAATAAATTATTTTATAATAAAT
194 ATTATATAATAAATTATTTTAAAATAAATTATCAAATAATAAAT
76312 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
76327 TATTTTAAAA
Statistics
Matches: 234, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
238 10 0.04
239 13 0.06
240 32 0.14
241 33 0.14
242 115 0.49
243 31 0.13
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (237 bp):
TATTTTAAAATAAATCAATCCATTTTTAAAATAAATCAATCATACAACTACAATAATAAAACAAT
CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
AATAAATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAAT
TATATAATAAATTATTTTAAAATAAATTATCAAATAATAAAT
Found at i:76229 original size:22 final size:22
Alignment explanation
Indices: 76181--76229 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
76171 TAAATTATTT
* *
76181 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATCTA
*
76203 AAAATAAATCAATTCAT-TCTA
1 AAAATAAATCAATCCATATCTA
76224 ATAAAT
1 A-AAAT
76230 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:76264 original size:55 final size:55
Alignment explanation
Indices: 76129--76296 Score: 227
Period size: 54 Copynumber: 3.1 Consensus size: 55
76119 CAACTACAAT
* * *
76129 AATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATTCTAATAAATTATTTTAA
76183 AATAAATCAATCCATATTTTAAAATAAATCAATTCATTCTAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATTCTAATAAATTATTTTAA
* * * * * *
76238 AATAAATCAGTTCATATTTTATAATAAAT-TATT--TTATAATAAATTATTTTAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATTCTAATAAATTATTTTAA
76290 AATAAAT
1 AATAAAT
76297 TATTTTATAA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
52 24 0.23
54 49 0.47
55 31 0.30
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (55 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATTCTAATAAATTATTTTAA
Found at i:76264 original size:134 final size:134
Alignment explanation
Indices: 75904--76246 Score: 361
Period size: 140 Copynumber: 2.5 Consensus size: 134
75894 CAATCCATAT
* * ** **
75904 TTTAAAATAAA-TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATTC-ATCCAAACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAATAA
* * * *
75968 ATCAATCCATAGTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAT
65 ATCAATCCATA-CAACTACA--A--T--AATAAAACAATCCATATTTTAAAATAAATCAATCCAT
76032 ACTAATAAATTA
123 ACTAATAAATTA
* ** **
76044 TTTAAAATAAATTCATCCAAACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATTCATCCAAACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAATAAA
76109 TCAATCCATACAACTACAATAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAA
66 TCAATCCATACAACTACAATAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAA
76174 ATTA
131 ATTA
* ** * * * *
76178 TTTAAAATAAA-TCAATCCATA-TTTTAAAATAAATCAATTCATTCTAATAAATTATTTTAAAAT
1 TTTAAAATAAATTC-ATCCAAACTAATAAAATAAATAAAATAAATC-AATAAA-TATTTTAAAAT
76241 AAATCA
63 AAATCA
76247 GTTCATATTT
Statistics
Matches: 181, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
133 16 0.09
134 68 0.38
135 17 0.09
136 1 0.01
138 1 0.01
139 2 0.01
140 74 0.41
141 2 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (134 bp):
TTTAAAATAAATTCATCCAAACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAATAAA
TCAATCCATACAACTACAATAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAA
ATTA
Found at i:76272 original size:15 final size:15
Alignment explanation
Indices: 76252--76341 Score: 162
Period size: 15 Copynumber: 6.0 Consensus size: 15
76242 AATCAGTTCA
76252 TATTTTATAATAAAT
1 TATTTTATAATAAAT
76267 TATTTTATAATAAAT
1 TATTTTATAATAAAT
76282 TATTTTATAATAAAT
1 TATTTTATAATAAAT
76297 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
76312 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
*
76327 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
76342 AACCTTATTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
15 74 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:76311 original size:364 final size:358
Alignment explanation
Indices: 75561--76220 Score: 972
Period size: 364 Copynumber: 1.8 Consensus size: 358
75551 TACAACTACA
75561 ATAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATTA
1 ATAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATTA
*
75626 TTAAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTTTTTAAAATAAA
66 TTAAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
* * * * *
75691 TCAATCCATACAACTACAATAATAAATCATTCTATATTTTAAAATAAATCAATTCATACTAATAA
131 TCAATCCAAACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
** * *
75756 ATTATTTAAAATAAATTAATCTATATTTTAAAATAAATCAATCCATGCTAATAAATTATTGAAAA
196 A-TA-TT-AAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTGAAAA
* *
75821 TAAATCAATCCATATTTTAAAATAAATCAATCCATTTTTAAAATAAATCAATCATACAATTACAA
258 TAAATCAATCCATATTTTAAAATAAATCAATCCATTTATAAAATAAATCAATAATACAATTACAA
*
75886 TAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
323 TAATAAATAAAT-C-TATTTTAAAATAAATCAATCCAT
* *
75924 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAGTAATAAATT
1 A-TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATT
*
75989 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAA
65 ATTAAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAA
76054 ATTC-ATCCAAACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
130 A-TCAATCCAAAC-AACTAAA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCA
*
76117 TAC-AACTACA-A-T-AATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
187 TACTAA-TAAATATTAAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
* *
76178 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATT
251 TTGAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATT
76221 CTAATAAATT
Statistics
Matches: 271, Mismatches: 16, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
363 1 0.00
364 221 0.82
365 4 0.01
366 2 0.01
368 2 0.01
369 2 0.01
370 39 0.14
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (358 bp):
ATAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATTA
TTAAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
TCAATCCAAACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
ATATTAAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTGAAAATAA
ATCAATCCATATTTTAAAATAAATCAATCCATTTATAAAATAAATCAATAATACAATTACAATAA
TAAATAAATCTATTTTAAAATAAATCAATCCAT
Found at i:77718 original size:13 final size:14
Alignment explanation
Indices: 77700--77728 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
77690 TTATAAGGTC
77700 ATTTTTTTAT-ATT
1 ATTTTTTTATAATT
77713 ATTTTTTTATAATT
1 ATTTTTTTATAATT
77727 AT
1 AT
77729 ATATGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTTTTATAATT
Found at i:81153 original size:34 final size:33
Alignment explanation
Indices: 81115--81198 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
81105 GTAATAAACA
*
81115 AAATTAACCAAAATACATTAACAA-AAAGTCCAA-C
1 AAATTAA-CAAAATAAATTAA-AATAAA-TCCAACC
81149 AAATTTAACAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATTAAAATAAATCCAACC
**
81183 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
81199 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 18 0.41
34 22 0.50
35 4 0.09
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAAAATAAATCCAACC
Found at i:81198 original size:33 final size:34
Alignment explanation
Indices: 81111--81187 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
81101 AATGGTAATA
* *
81111 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAATTTAA-CAAAATAAATTAACAAAAAGTCC
81146 AACAAATTTAACAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATTAACAA-AAAGTCC
81179 AACCAAATT
1 AA-CAAATT
81188 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 7 0.18
34 21 0.55
35 10 0.26
ACGTcount: A:0.61, C:0.17, G:0.01, T:0.21
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATTAACAAAAAGTCC
Found at i:81405 original size:12 final size:12
Alignment explanation
Indices: 81390--81414 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81380 ATCATCACCA
81390 TTATCGTCGTCG
1 TTATCGTCGTCG
81402 TTATCGTCGTCG
1 TTATCGTCGTCG
81414 T
1 T
81415 GAGCAGCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TTATCGTCGTCG
Found at i:83489 original size:29 final size:29
Alignment explanation
Indices: 83457--83530 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
83447 ATCTGTAAAA
*
83457 AAATAATTAAATAAAATATTAAAAAAT-TT
1 AAAT-ATTAAATAAAATATAAAAAAATATT
83486 AAATACTTAAAT-AAAT-TAAAAAAATATT
1 AAATA-TTAAATAAAATATAAAAAAATATT
83514 AAAT-TT-AATAAAATATA
1 AAATATTAAATAAAATATA
83531 CCTTAAACAG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 3 0.08
26 6 0.15
27 10 0.25
28 11 0.28
29 10 0.25
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATATTAAATAAAATATAAAAAAATATT
Found at i:83495 original size:17 final size:17
Alignment explanation
Indices: 83470--83502 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
83460 TAATTAAATA
83470 AAATATTAAA-AAATTT
1 AAATATTAAATAAATTT
83486 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
83503 AAAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTAAATAAATTT
Found at i:83504 original size:17 final size:16
Alignment explanation
Indices: 83464--83505 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
83454 AAAAAATAAT
*
83464 TAAATAAAATATTAAA
1 TAAATTAAATATTAAA
83480 -AAATTTAAATACTTAAA
1 TAAA-TTAAATA-TTAAA
83497 TAAATTAAA
1 TAAATTAAA
83506 AAAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 3 0.14
16 6 0.27
17 10 0.45
18 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATTAAATATTAAA
Found at i:83518 original size:16 final size:17
Alignment explanation
Indices: 83497--83529 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83487 AATACTTAAA
83497 TAAA-TTAAAAAAATAT
1 TAAATTTAAAAAAATAT
*
83513 TAAATTTAATAAAATAT
1 TAAATTTAAAAAAATAT
83530 ACCTTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTTAAAAAAATAT
Found at i:87488 original size:2 final size:2
Alignment explanation
Indices: 87470--87503 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
87460 TTCGCTCAGC
* *
87470 AT AT CT AT AT CT AT AT 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
87504 GTTCAACGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89378 original size:21 final size:21
Alignment explanation
Indices: 89263--89378 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
89253 GCGAAATAAA
**
89263 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
89283 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
89303 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
89324 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
89344 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
89366 AATCGCAACGCGA
1 AATCGCAACGCGA
89379 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:89391 original size:20 final size:20
Alignment explanation
Indices: 89366--89518 Score: 75
Period size: 20 Copynumber: 7.7 Consensus size: 20
89356 GATTTTCCAG
* *
89366 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
89386 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
89406 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
89426 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
89446 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
89466 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
89486 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
89506 AATCGCAACGCGA
1 AATCGCAACGCGA
89519 TTTTTAAAGC
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.02
20 117 0.97
21 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:89413 original size:40 final size:40
Alignment explanation
Indices: 89366--89517 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 40
89356 GATTTTCCAG
*
89366 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAAC-CATA
* * * * * *
89406 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
* * * * * *
89446 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
* * * *
89486 TATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AATCGCAACGCGAATACGAAAATCGCAACGCG
89518 ATTTTTAAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
Found at i:89449 original size:60 final size:59
Alignment explanation
Indices: 89366--89518 Score: 207
Period size: 60 Copynumber: 2.6 Consensus size: 59
89356 GATTTTCCAG
* ** *
89366 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGTA
* * * *
89426 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTA
*
89486 TATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
89519 TTTTTAAAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.01
60 79 0.96
61 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (59 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTA
Found at i:89933 original size:33 final size:33
Alignment explanation
Indices: 89894--89964 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
89884 TTCACTTAGA
89894 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
89927 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
89960 TTTCA
1 TTTCA
89965 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:90097 original size:21 final size:20
Alignment explanation
Indices: 90044--90149 Score: 93
Period size: 19 Copynumber: 5.5 Consensus size: 20
90034 TGCAGAAGAG
90044 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
90065 TCG-AACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
90084 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
90106 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
90120 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
90139 TCGCAACGAGA
1 TCGCAACGAGA
90150 GAATCGAACC
Statistics
Matches: 68, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 20 0.29
20 7 0.10
21 16 0.24
22 10 0.15
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:90102 original size:22 final size:21
Alignment explanation
Indices: 90044--90116 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
90034 TGCAGAAGAG
*
90044 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAAAAATGAAAA
* **
90065 TCG-AACGTG-AAAATGACTA
1 TCGCAACGAGAAAAATGAAAA
90084 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAGAAAAATGAAAA
90106 TCGCAACGAGA
1 TCGCAACGAGA
90117 GAATCGCAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 9 0.21
20 6 0.14
21 17 0.40
22 10 0.24
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (21 bp):
TCGCAACGAGAAAAATGAAAA
Found at i:90123 original size:14 final size:14
Alignment explanation
Indices: 90104--90155 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
90094 GAAAAATGAA
90104 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
90118 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
90137 AATCGCAACGAGAG
1 AATCGCAACGAGAG
90151 AATCG
1 AATCG
90156 AACCGCGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.32
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:90135 original size:33 final size:33
Alignment explanation
Indices: 90097--90176 Score: 126
Period size: 33 Copynumber: 2.4 Consensus size: 33
90087 GCAACGAGAA
90097 AAATGAAAATCGCAACGAGAGAATCGCAA-CGCG
1 AAATGAAAATCGCAACGAGAGAATCG-AACCGCG
90130 AAATGAAAATCGCAACGAGAGAATCGAACCGCG
1 AAATGAAAATCGCAACGAGAGAATCGAACCGCG
**
90163 AAACCAAAATCGCA
1 AAATGAAAATCGCA
90177 TTGCGATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 2 0.05
33 42 0.95
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGAACCGCG
Found at i:90224 original size:33 final size:37
Alignment explanation
Indices: 90177--90263 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 37
90167 CAAAATCGCA
90177 TTGCGA-TTTCATTTCGCGTT-G-C-G-ATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTCGACAGCATTCTCTCG
*
90209 TTGCGATTTTCATTTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCATTTCGCGTT-CGACAG-CATTCTCTCG
90248 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
90264 AACCAAAAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
32 6 0.13
33 13 0.28
35 1 0.02
36 1 0.02
37 1 0.02
39 25 0.53
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (37 bp):
TTGCGATTTTCATTTCGCGTTCGACAGCATTCTCTCG
Found at i:90248 original size:20 final size:20
Alignment explanation
Indices: 90200--90253 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
90190 TCGCGTTGCG
***
90200 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
90220 ATT-TCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGACAGTC
90239 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
90254 TTTTCATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:90260 original size:20 final size:20
Alignment explanation
Indices: 90200--90261 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
90190 TCGCGTTGCG
90200 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
90220 ATT-TCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
90239 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
90259 ATT
1 ATT
90262 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.13, C:0.24, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:92096 original size:93 final size:93
Alignment explanation
Indices: 91937--92218 Score: 523
Period size: 93 Copynumber: 3.1 Consensus size: 93
91927 TAGATTGCTT
* *
91937 AGTAAATTTATTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
92002 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
92030 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
92095 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
92123 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAT-GTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
92187 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
92214 AGTAA
1 AGTAA
92219 TGCAATCCAT
Statistics
Matches: 186, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
91 6 0.03
92 28 0.15
93 152 0.82
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:92303 original size:14 final size:14
Alignment explanation
Indices: 92284--92340 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
92274 CGAAACTTAA
92284 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
92298 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
92317 AATCGCAACGACAG
1 AATCGCAACGAGAG
92331 AATCGCAACG
1 AATCGCAACG
92341 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:92322 original size:19 final size:18
Alignment explanation
Indices: 92298--92389 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
92288 GCAACGAGAG
92298 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
92317 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
92331 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
92350 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
92364 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
92383 AATCGCA
1 AATCGCA
92390 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:92324 original size:33 final size:33
Alignment explanation
Indices: 92266--92389 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
92256 TAGTTTACTT
* * *
92266 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
92300 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
92333 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
92366 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
92390 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:92366 original size:14 final size:14
Alignment explanation
Indices: 92315--92373 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
92305 ACGCGAAATG
92315 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
92329 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
92348 AAAATCGCAACGAC
1 AAAATCGCAACGAC
92362 AAAATCGCAACG
1 AAAATCGCAACG
92374 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:92407 original size:19 final size:19
Alignment explanation
Indices: 92385--92524 Score: 146
Period size: 19 Copynumber: 7.6 Consensus size: 19
92375 GAAACCAAAA
*
92385 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
92404 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
92420 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
92437 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
92456 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
92475 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
92494 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
92514 TCGTGTTGCGA
1 TCGCGTTGCGA
92525 AAGTAAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
14 8 0.08
16 5 0.05
17 5 0.05
19 72 0.71
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:94372 original size:14 final size:14
Alignment explanation
Indices: 94353--94388 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
94343 ATTGTTTAAT
94353 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
94367 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
94381 TGATTTGT
1 TGATTTGT
94389 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:94503 original size:19 final size:19
Alignment explanation
Indices: 94479--94566 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
94469 GCATTATGTT
94479 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
94498 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
94515 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
94531 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
94550 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
94567 CGAGAGAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 28 0.47
20 15 0.25
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:94569 original size:53 final size:52
Alignment explanation
Indices: 94479--94585 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
94469 GCATTATGTT
*
94479 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATAAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
94531 GAAATAAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATAAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
94584 GA
1 GA
94586 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 18 0.34
53 35 0.66
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (52 bp):
GAAATAAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:94605 original size:19 final size:19
Alignment explanation
Indices: 94575--94834 Score: 276
Period size: 19 Copynumber: 14.7 Consensus size: 19
94565 AACGAGAGAA
*
94575 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
94594 TCGTATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
94612 TCCGCATT-CGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
94628 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94645 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
94664 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
94680 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
94697 TCGAATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
94716 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
94733 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94750 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94769 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94788 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
94806 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
94822 TCGCATTGCGATT
1 TCGCATTGCGATT
94835 CTCTCGTTGT
Statistics
Matches: 205, Mismatches: 12, Indels: 48
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.01
14 25 0.12
15 2 0.01
16 20 0.10
17 21 0.10
18 16 0.08
19 95 0.46
20 24 0.12
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:94755 original size:105 final size:108
Alignment explanation
Indices: 94581--94866 Score: 396
Period size: 105 Copynumber: 2.7 Consensus size: 108
94571 AGAATCGCAA
94581 TGCGATTTTCATTTCGTATTGCGA-TTTCATTTCCGCATT-CGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCG-ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
94644 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG-T
65 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGAT
94684 TGCGATTTTCATTTCGAATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCG-ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
94749 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
65 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCCG-AT
* * * *
94795 TGCGATTTTC--TT-G-TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGTGATTGTAATT
1 TGCGATTTTCATTTCGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
**
94855 TCGTGTTGCGAT
66 TCGCATTGCGAT
94867 AGTCAAATGC
Statistics
Matches: 167, Mismatches: 8, Indels: 14
0.88 0.04 0.07
Matches are distributed among these distances:
103 23 0.14
104 15 0.09
105 94 0.56
106 14 0.08
107 3 0.02
108 3 0.02
109 4 0.02
111 11 0.07
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (108 bp):
TGCGATTTTCATTTCGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
TCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGAT
Found at i:94759 original size:72 final size:71
Alignment explanation
Indices: 94631--94834 Score: 270
Period size: 72 Copynumber: 2.8 Consensus size: 71
94621 GATTCTCTCG
* * * * *
94631 TTGCGATTTTCATTT-CGCATTGCGATTT-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTT
1 TTGCGATTTTCATTTCCGCATTGCGATTTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTT
94693 CATTTCGAA
63 CATTTCGAA
94702 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCA
1 TTGCGATTTTCATTTCCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCA
*
94767 TTTCGCA
65 TTTCGAA
* *
94774 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCCGCATTGCGA-TTTCTCGTTGCGATTTTCATTTCGCATTGCGATT
94835 CTCTCGTTGT
Statistics
Matches: 120, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
71 15 0.12
72 89 0.74
73 7 0.06
74 9 0.08
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
TTCGAA
Found at i:94856 original size:33 final size:33
Alignment explanation
Indices: 94599--94866 Score: 222
Period size: 33 Copynumber: 7.8 Consensus size: 33
94589 TCATTTCGTA
94599 TTGCGA-TTTCATTTCCGCATT-CGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
94631 TTGCGATTTTCATTTCGCATTGCGATT-T-TCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* * * * *
94662 TTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGA--TTC-TCTCG
94700 AATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
94736 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* *
94772 CATTGCGATTTTCATTTCCGCATTGCGATTTTCTTG
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
94808 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* * * **
94841 TTGTGATTGTAATTTCGTGTTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
94867 AGTCAAATGC
Statistics
Matches: 193, Mismatches: 23, Indels: 39
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.05
32 17 0.09
33 69 0.36
34 29 0.15
35 5 0.03
36 11 0.06
37 6 0.03
38 18 0.09
39 22 0.11
40 7 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:97173 original size:225 final size:228
Alignment explanation
Indices: 96766--97188 Score: 768
Period size: 225 Copynumber: 1.9 Consensus size: 228
96756 TTCTTGAACA
96766 TGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATTTTATTCTCTTTGCAATCATA
1 TGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATTTTATTCTCTTTGCAATCATA
96831 CGCCACGTACAGTTTTTGTCAATCATACACCTGTTTCGAAACGATCTTTGCTTGAGTTTGTTAAC
66 CGCCACGTACAGTTTTTGTCAATCATACACCTGTTTCGAAACGATCTTTGCTTGAG-TTGTTAAC
96896 TTTTAGTTGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTAT
130 TTTTAGTTGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTAT
96961 CAAAACAATCATCTTTCTTGATACGAATAACTTT
195 CAAAACAATCATCTTTCTTGATACGAATAACTTT
96995 TGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATCTTTTATTCTCTTTGCAATCA
1 TGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAA--TTTTATTCTCTTTGCAATCA
97060 TACGCCAC-TACAG-TTTTGTC-A-CATACACCTTGTTTCGAAACGATCTTTGCTTGA-TTGTTA
64 TACGCCACGTACAGTTTTTGTCAATCATACACC-TGTTTCGAAACGATCTTTGCTTGAGTTGTTA
97120 AC-TTTAGTTGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGT
128 ACTTTTAGTTGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGT
97184 ATCAA
193 ATCAA
97189 CAATCTTTCT
Statistics
Matches: 191, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
225 67 0.35
226 8 0.04
227 8 0.04
228 25 0.13
229 50 0.26
230 5 0.03
231 28 0.15
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (228 bp):
TGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATTTTATTCTCTTTGCAATCATA
CGCCACGTACAGTTTTTGTCAATCATACACCTGTTTCGAAACGATCTTTGCTTGAGTTGTTAACT
TTTAGTTGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTATC
AAAACAATCATCTTTCTTGATACGAATAACTTT
Found at i:98105 original size:19 final size:19
Alignment explanation
Indices: 98066--98276 Score: 220
Period size: 19 Copynumber: 11.8 Consensus size: 19
98056 AATCCCAACA
98066 AAAATCGCAATGCGGAAATG
1 AAAATCGCAATGC-GAAATG
*
98086 AAAATCGCAATGCAAAATG
1 AAAATCGCAATGCGAAATG
*
98105 AAAATCGTAA--CG--A-G
1 AAAATCGCAATGCGAAATG
*
98119 AGAATCGCAATGCGGAAATG
1 AAAATCGCAATGC-GAAATG
98139 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
98158 AAAATCGCAA--CG--A-G
1 AAAATCGCAATGCGAAATG
*
98172 AGAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
98191 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
98210 AAAATCGCAA--CG--A-G
1 AAAATCGCAATGCGAAATG
*
98224 AGAATCGCAATGCGGAAATG
1 AAAATCGCAATGC-GAAATG
*
98244 -AAATCGCAATGCAAAATG
1 AAAATCGCAATGCGAAATG
*
98262 AAAATCGCATTGCGA
1 AAAATCGCAATGCGA
98277 TTCTCTCGTT
Statistics
Matches: 160, Mismatches: 13, Indels: 37
0.76 0.06 0.18
Matches are distributed among these distances:
14 29 0.18
15 3 0.02
16 4 0.03
17 7 0.04
18 6 0.04
19 84 0.52
20 27 0.17
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:98125 original size:33 final size:33
Alignment explanation
Indices: 98088--98252 Score: 140
Period size: 33 Copynumber: 4.8 Consensus size: 33
98078 CGGAAATGAA
* *
98088 AATCGCAATGCAAAATGAAAATCGTAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
98121 AATCGCAATGCGGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
* * * *
98154 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
98193 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
98226 AATCGCAATGCGGAAATG-AAATCGCAA
1 AATCGCAATGC-GAAATGAAAATCGCAA
98253 TGCAAAATGA
Statistics
Matches: 106, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
31 5 0.05
32 3 0.03
33 47 0.44
34 24 0.23
35 1 0.01
36 2 0.02
38 10 0.09
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:98211 original size:52 final size:53
Alignment explanation
Indices: 98037--98270 Score: 395
Period size: 52 Copynumber: 4.5 Consensus size: 53
98027 GCAACGAGAG
* *
98037 AATCGCAATGCGAAATGAAAATCCCAAC-A-AAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
* *
98088 AATCGCAATGCAAAATGAAAATCGTAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
98141 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
98193 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
98245 AATCGCAATGCAAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
98271 TTGCGATTCT
Statistics
Matches: 173, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
51 25 0.14
52 79 0.46
53 69 0.40
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:98310 original size:20 final size:19
Alignment explanation
Indices: 98285--98372 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
98275 GATTCTCTCG
98285 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
98305 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
98324 TTGCGA--TTC-TCTAG--
1 TTGCGATTTTCATTTCGCA
* *
98338 TTGTGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
98357 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
98373 AACATAATGC
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 5 0.09
16 6 0.11
17 4 0.07
19 25 0.46
20 14 0.26
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:98325 original size:19 final size:20
Alignment explanation
Indices: 98285--98331 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
98275 GATTCTCTCG
98285 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCCGCA
*
98305 TTGCGATTTTTATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
98324 TTGCGATT
1 TTGCGATT
98332 CTCTAGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:98346 original size:53 final size:52
Alignment explanation
Indices: 98266--98372 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 52
98256 AAAATGAAAA
* * *
98266 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTTATT
1 TCGCATTGCGATTCTCTAGTTGCGATTTTCATTT-CACATTGCGATTTTCATT
*
98319 TCGCATTGCGATTCTCTAGTTGTGATTTTCATTTCACATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTAGTTGCGATTTTCATTTCACATTGCGATTTTCATT
98371 TC
1 TC
98373 AACATAATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
52 18 0.36
53 32 0.64
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTAGTTGCGATTTTCATTTCACATTGCGATTTTCATT
Found at i:98489 original size:14 final size:14
Alignment explanation
Indices: 98462--98497 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
98452 CATCAATTAC
98462 ACAAATCA-CTTTT
1 ACAAATCATCTTTT
98475 ACAAATCATCTTTT
1 ACAAATCATCTTTT
98489 ACAAATCAT
1 ACAAATCAT
98498 TAAACATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (14 bp):
ACAAATCATCTTTT
Found at i:100380 original size:19 final size:19
Alignment explanation
Indices: 100356--100457 Score: 102
Period size: 19 Copynumber: 5.4 Consensus size: 19
100346 TAGTTTACTT
* *
100356 TCGCAACACGAACTTAAAA
1 TCGCAACGCGAACTCAAAA
* *
100375 TCGCAACGCGAA-TGAGAA
1 TCGCAACGCGAACTCAAAA
*
100393 TCGCAACGAGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
100412 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
* *
100431 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAACTCAAAA
100450 TCGCAACG
1 TCGCAACG
100458 ACAGAAATCG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.21
19 56 0.79
ACGTcount: A:0.45, C:0.26, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAACTCAAAA
Found at i:100450 original size:38 final size:36
Alignment explanation
Indices: 100356--100494 Score: 131
Period size: 34 Copynumber: 3.8 Consensus size: 36
100346 TAGTTTACTT
* * * * *
100356 TCGCAACACGAACTTAAAATCGCAACGCGAATGAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGCGAA-CAAAA
* **
100393 TCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAATCGCAACGCG-AA-CAAAA
100431 TCGCAACGCGAAATGAAAATCGCAA--CG-ACAGAAA
1 TCGCAACGCGAAATGAAAATCGCAACGCGAACA-AAA
* *
100465 TCGCAACGCAAAATGAAAATCGCAATGCGA
1 TCGCAACGCGAAATGAAAATCGCAACGCGA
100495 TTTTGTTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
33 2 0.02
34 28 0.33
36 4 0.05
37 24 0.28
38 27 0.32
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (36 bp):
TCGCAACGCGAAATGAAAATCGCAACGCGAACAAAA
Found at i:100484 original size:53 final size:55
Alignment explanation
Indices: 100371--100494 Score: 148
Period size: 53 Copynumber: 2.3 Consensus size: 55
100361 ACACGAACTT
* *
100371 AAAATCGCAACGCG-AATGAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATGAAAATCGCAAC-AG-AACCAAAATCGCAACGCAAAACC
**
100427 AAAATCGCAACGCGAAATGAAAATCGCAAC-G-A-CAGAAATCGCAACGCAAAATG
1 AAAATCGCAACGCGAAATGAAAATCGCAACAGAACCA-AAATCGCAACGCAAAACC
*
100480 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
100495 TTTTGTTTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
52 2 0.03
53 30 0.49
55 1 0.02
56 14 0.23
57 14 0.23
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.09
Consensus pattern (55 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAATCGCAACGCAAAACC
Found at i:100486 original size:19 final size:18
Alignment explanation
Indices: 100371--100489 Score: 109
Period size: 19 Copynumber: 6.6 Consensus size: 18
100361 ACACGAACTT
*
100371 AAAATCGCAACGCGAATG
1 AAAATCGCAACGCAAATG
* * **
100389 AGAATCGCAACGAGAAACC
1 AAAATCGCAACG-CAAATG
**
100408 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGC-AAATG
100427 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGC-AAATG
*
100446 AAAATCGCAACG-ACA-G
1 AAAATCGCAACGCAAATG
100462 -AAATCGCAACGCAAAATG
1 AAAATCGCAACGC-AAATG
100480 AAAATCGCAA
1 AAAATCGCAA
100490 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
15 11 0.13
16 1 0.01
17 4 0.05
18 12 0.14
19 56 0.67
ACGTcount: A:0.49, C:0.24, G:0.18, T:0.08
Consensus pattern (18 bp):
AAAATCGCAACGCAAATG
Found at i:100510 original size:40 final size:41
Alignment explanation
Indices: 100466--100546 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 41
100456 CGACAGAAAT
100466 CGCAACGCAAAATGAAAATCGCAATGCGATTTT-GTTTCGC
1 CGCAACGCAAAATGAAAATCGCAATGCGATTTTGGTTTCGC
100506 CGCAACGCAAAATGAAAATCGCAATGCGATTTTGGTTTCGC
1 CGCAACGCAAAATGAAAATCGCAATGCGATTTTGGTTTCGC
100547 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 33 0.82
41 7 0.17
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
CGCAACGCAAAATGAAAATCGCAATGCGATTTTGGTTTCGC
Found at i:100565 original size:14 final size:14
Alignment explanation
Indices: 100546--100604 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
100536 TTTGGTTTCG
100546 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
100560 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
100577 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
100593 CGTTGCGATTTT
1 CGTTGCGATTTT
100605 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:100572 original size:33 final size:33
Alignment explanation
Indices: 100530--100637 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
100520 AAAATCGCAA
*
100530 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
100563 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
100596 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
100629 TGCGATTTT
1 TGCGATTTT
100638 AAGTTTCTTG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.07, C:0.19, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:100584 original size:19 final size:18
Alignment explanation
Indices: 100530--100621 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
100520 AAAATCGCAA
100530 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
100549 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
100563 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
100582 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
100596 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
100615 TGCGATT
1 TGCGATT
100622 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:100631 original size:14 final size:14
Alignment explanation
Indices: 100579--100635 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
100569 TTTGGTTTCG
*
100579 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
100593 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
100612 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
100626 CGTTGCGATT
1 CGTTGCGATT
100636 TTAAGTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:100970 original size:91 final size:92
Alignment explanation
Indices: 100700--100991 Score: 515
Period size: 92 Copynumber: 3.2 Consensus size: 92
100690 ATGGATTGCA
*
100700 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTATTCACAGTGTTAAA-AATACACAGTTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAGTTT
100763 AGCAGAATTGGCAGCAACCGAACAAAAT
66 AGCAGAATTGGCAGCAACCGAAC-AAAT
100791 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAG-TT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAGTTT
100855 AGCAGAATTGGCAGCAACCGAAC-AAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
100881 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTT
100946 TAGCAGAA-TGGCAGCAACCGAACAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
100973 TTACTTTCAACC-AAAGACA
1 TTACTTTCAACCAAAAGACA
100992 TCACAGTGTT
Statistics
Matches: 195, Mismatches: 1, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
90 41 0.21
91 50 0.26
92 95 0.49
93 9 0.05
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (92 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAAT
Found at i:102771 original size:19 final size:19
Alignment explanation
Indices: 102719--102839 Score: 118
Period size: 19 Copynumber: 6.8 Consensus size: 19
102709 TCTTTTGGTT
102719 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
***
102738 GAGAATGACTGTCGCAACGA
1 GA-AATGAAAATCGCAACGA
102758 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
102777 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
102791 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
102810 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
102824 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
102840 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
14 22 0.27
16 4 0.05
17 4 0.05
19 36 0.44
20 16 0.20
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:102785 original size:14 final size:14
Alignment explanation
Indices: 102766--102822 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
102756 GAGAAATGAA
102766 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
102780 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
102799 AATCGCAACGAGAG
1 AATCGCAACGAGAG
102813 AATCGCAACG
1 AATCGCAACG
102823 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:102795 original size:33 final size:33
Alignment explanation
Indices: 102719--102839 Score: 179
Period size: 33 Copynumber: 3.5 Consensus size: 33
102709 TCTTTTGGTT
*
102719 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
102758 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
102791 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
102824 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
102840 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
33 57 0.70
36 1 0.01
38 1 0.01
39 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:102894 original size:14 final size:14
Alignment explanation
Indices: 102851--102896 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
102841 GCGATTTTGG
*
102851 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
102865 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
102879 TTTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
102893 TTTC
1 TTTC
102897 ATTTTTCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.07, C:0.24, G:0.22, T:0.48
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:102903 original size:21 final size:21
Alignment explanation
Indices: 102878--102954 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
102868 CTCGTTGCGA
102878 TTTTCTCGTTGCGATTTTCAT
1 TTTTCTCGTTGCGATTTTCAT
**
102899 TTTTCTCGTTGCAGATAGTCA-
1 TTTTCTCGTTGC-GATTTTCAT
*
102920 TTTTCACGTTGCGATTTTCAT
1 TTTTCTCGTTGCGATTTTCAT
*
102941 TTATCTCGTTGCGA
1 TTTTCTCGTTGCGA
102955 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 6 0.13
21 35 0.74
22 6 0.13
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.49
Consensus pattern (21 bp):
TTTTCTCGTTGCGATTTTCAT
Found at i:103099 original size:32 final size:33
Alignment explanation
Indices: 103034--103103 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
103024 AATACTAACT
103034 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
103067 TGAAAATCGCAACGAGA-AATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
103099 TGAAA
1 TGAAA
103104 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 18 0.51
33 17 0.49
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:103507 original size:20 final size:20
Alignment explanation
Indices: 103482--103613 Score: 203
Period size: 20 Copynumber: 6.6 Consensus size: 20
103472 CTTTAAAAAT
103482 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
103502 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
103522 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
103542 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
103562 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
103582 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
103602 CGCGTTGCGATT
1 CGCGTTGCGATT
103614 CTGGAAAATC
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
20 102 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:103728 original size:19 final size:19
Alignment explanation
Indices: 103704--103756 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
103694 ATTCTGGGGA
103704 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
103723 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
103742 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
103757 GTTGGTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.09, C:0.17, G:0.23, T:0.51
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:107588 original size:28 final size:28
Alignment explanation
Indices: 107556--107614 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
107546 ACATATTTAA
107556 AAGT-AATCAATAAAACAAATATAGTAGC
1 AAGTAAAT-AATAAAACAAATATAGTAGC
* *
107584 AAGTAAATAATAAAACATATATATTAGC
1 AAGTAAATAATAAAACAAATATAGTAGC
107612 AAG
1 AAG
107615 GAAAGATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.24
Consensus pattern (28 bp):
AAGTAAATAATAAAACAAATATAGTAGC
Found at i:115140 original size:29 final size:29
Alignment explanation
Indices: 115100--115158 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
115090 TCTCACAAGA
115100 TCTCCGGAAAGATTAGCCCATAATTCTTC
1 TCTCCGGAAAGATTAGCCCATAATTCTTC
115129 TCTCCGGAAAGATTAGCCCATAATTCTTC
1 TCTCCGGAAAGATTAGCCCATAATTCTTC
115158 T
1 T
115159 TGCATAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (29 bp):
TCTCCGGAAAGATTAGCCCATAATTCTTC
Found at i:122476 original size:15 final size:15
Alignment explanation
Indices: 122458--122490 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
122448 ATCAACAAAT
122458 ATAATTTTTATATAA
1 ATAATTTTTATATAA
*
122473 ATAATTTTTATTTAA
1 ATAATTTTTATATAA
122488 ATA
1 ATA
122491 TTTAGAATTT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATATAA
Found at i:124203 original size:88 final size:91
Alignment explanation
Indices: 124102--124270 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 91
124092 TACATCTTTT
*
124102 TCATTTATATCCGTACAT-CGAATACAGA-TTTAGTAAAAAGAGTCATATTT-TTAAACCTAA-T
1 TCATTTATATCCGTACATCCGAATA-AGAGTGTAGTAAAAAGAGTCATATTTCTTAAACCTAAGT
124163 CTTAACAT-GTATTTACTTGTATCCATC
65 CTTAAC-TGGTATTTACTTGTATCCATC
* * * * *
124190 TCATTTTTATCCGTATATGCCGAATAATAGTGTAGTGAAAAGAGTTATATTTCTTAAACCTAAGG
1 TCATTTATATCCGTACAT-CCGAATAAGAGTGTAGTAAAAAGAGTCATATTTCTTAAACCTAA-G
124255 TCTTAACTGGTATTTA
64 TCTTAACTGGTATTTA
124271 TTTATTTAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
88 16 0.24
89 2 0.03
90 25 0.37
91 10 0.15
92 1 0.01
93 14 0.21
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (91 bp):
TCATTTATATCCGTACATCCGAATAAGAGTGTAGTAAAAAGAGTCATATTTCTTAAACCTAAGTC
TTAACTGGTATTTACTTGTATCCATC
Found at i:126330 original size:16 final size:15
Alignment explanation
Indices: 126309--126346 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
126299 GGAAGAATGA
126309 TCGACTCAAAGCACAT
1 TCGACTC-AAGCACAT
126325 TCGACTTCAAGCACAT
1 TCGAC-TCAAGCACAT
126341 TCGACT
1 TCGACT
126347 TCATAGGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.24
Consensus pattern (15 bp):
TCGACTCAAGCACAT
Found at i:126347 original size:16 final size:16
Alignment explanation
Indices: 126317--126349 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
126307 GATCGACTCA
126317 AAGCACATTCGACTTC
1 AAGCACATTCGACTTC
126333 AAGCACATTCGACTTC
1 AAGCACATTCGACTTC
126349 A
1 A
126350 TAGGAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.24
Consensus pattern (16 bp):
AAGCACATTCGACTTC
Found at i:127929 original size:29 final size:29
Alignment explanation
Indices: 127896--127954 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
127886 AGATCGATGT
127896 AAGAAGCGATATTCTTACAATGAAGCTTG
1 AAGAAGCGATATTCTTACAATGAAGCTTG
127925 AAGAAGCGATATTCTTACAATGAAGCTTG
1 AAGAAGCGATATTCTTACAATGAAGCTTG
127954 A
1 A
127955 TGTGAGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (29 bp):
AAGAAGCGATATTCTTACAATGAAGCTTG
Found at i:131735 original size:2 final size:2
Alignment explanation
Indices: 131728--131755 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
131718 CATTTGAAAT
131728 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
131756 GTGGGGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.