Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004118.1 Hibiscus syriacus cultivar Beakdansim tig00009013_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: 338822
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:201 original size:47 final size:49
Alignment explanation
Indices: 138--229 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 49
128 TTCAAAGAAC
138 ACTTCCAGAAGATGCTATG-TATGAT-CAAACAGATCAGATAACTCAAAG
1 ACTTCCAGAAGATGCTATGTTATG-TCCAAACAGATCAGATAACTCAAAG
* *
186 ACTT-CAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
1 ACTTCCAGAAGATGCTATGTTATGTCCAAACAGATCAGATAACTC
230 CACTTCAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 15 0.38
48 25 0.62
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (49 bp):
ACTTCCAGAAGATGCTATGTTATGTCCAAACAGATCAGATAACTCAAAG
Found at i:414 original size:51 final size:52
Alignment explanation
Indices: 238--434 Score: 351
Period size: 52 Copynumber: 3.8 Consensus size: 52
228 TCCACTTCAG
*
238 ACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCA
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCA
* *
290 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCA
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCA
342 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-TCTGTCCA
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCA
*
393 ATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
435 TGAACACATA
Statistics
Matches: 139, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 47 0.34
52 92 0.66
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (52 bp):
ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCA
Found at i:426 original size:103 final size:104
Alignment explanation
Indices: 238--434 Score: 369
Period size: 103 Copynumber: 1.9 Consensus size: 104
228 TCCACTTCAG
238 ACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATA
1 ACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATA
303 ACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCA
66 ACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCA
* *
342 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-TCTGTCCAATCAGATCAGATA
1 ACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATA
406 ACTCAAAGAACACTTCCAGAAGATGCTAT
66 ACTCAAAGAACACTTCCAGAAGATGCTAT
435 TGAACACATA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 49 0.54
104 42 0.46
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (104 bp):
ACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATA
ACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCA
Found at i:1383 original size:1 final size:1
Alignment explanation
Indices: 1379--1442 Score: 74
Period size: 1 Copynumber: 64.0 Consensus size: 1
1369 CCTTTTTCTC
** * * * *
1379 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCATTTTCTTTTTTTTCTTTTTTCTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1443 CTCTTCAAGC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.02, C:0.08, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:1383 original size:9 final size:9
Alignment explanation
Indices: 1371--1447 Score: 51
Period size: 8 Copynumber: 9.1 Consensus size: 9
1361 CTTGACCCCC
1371 TTTTTCTCT
1 TTTTTCTCT
1380 TTTTT-T-T
1 TTTTTCTCT
1387 TTTTT-T-T
1 TTTTTCTCT
* *
1394 TTTTTTTTT
1 TTTTTCTCT
*
1403 TTTTTTTC-
1 TTTTTCTCT
*
1411 ATTTTCT-T
1 TTTTTCTCT
1419 TTTTT-TCT
1 TTTTTCTCT
1427 TTTTTCTTCTT
1 TTTTTC-TC-T
1438 TTTTTCTCT
1 TTTTTCTCT
1447 T
1 T
1448 CAAGCATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
7 14 0.25
8 17 0.30
9 15 0.26
10 4 0.07
11 7 0.12
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:1447 original size:10 final size:9
Alignment explanation
Indices: 1371--1447 Score: 82
Period size: 9 Copynumber: 8.1 Consensus size: 9
1361 CTTGACCCCC
*
1371 TTTTTCTCT
1 TTTTTTTCT
*
1380 TTTTTTTTT
1 TTTTTTTCT
*
1389 TTTTTTTTT
1 TTTTTTTCT
*
1398 TTTTTTTTT
1 TTTTTTTCT
1407 TTTCATTTTCT
1 TTT--TTTTCT
1418 TTTTTTTCT
1 TTTTTTTCT
1427 TTTTTCTTCT
1 TTTTT-TTCT
1437 TTTTTTCTCT
1 TTTTTT-TCT
1447 T
1 T
1448 CAAGCATAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
9 40 0.66
10 13 0.21
11 8 0.13
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:11982 original size:13 final size:15
Alignment explanation
Indices: 11960--11996 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11950 TTTGACATAA
11960 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
11972 AAATAAAATACTTGC
1 AAATAAAATACTTGC
11987 AAATAAAATA
1 AAATAAAATA
11997 AAACATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:13395 original size:13 final size:13
Alignment explanation
Indices: 13377--13403 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13367 CGTGAGTTCT
13377 GCCGCCGGCCACC
1 GCCGCCGGCCACC
13390 GCCGCCGGCCACC
1 GCCGCCGGCCACC
13403 G
1 G
13404 TTTCCGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.59, G:0.33, T:0.00
Consensus pattern (13 bp):
GCCGCCGGCCACC
Found at i:14105 original size:3 final size:3
Alignment explanation
Indices: 14097--14290 Score: 282
Period size: 3 Copynumber: 63.7 Consensus size: 3
14087 TTATTTATTA
*
14097 AAT AAT AAT AAT ATAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
14144 GAAT ACT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
14190 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
14238 GAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AA- AATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
14283 AAT AAT AA
1 AAT AAT AA
14291 AATGGATAAA
Statistics
Matches: 172, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.01
3 159 0.92
4 11 0.06
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:19730 original size:20 final size:20
Alignment explanation
Indices: 19705--19742 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19695 TAGTATCTAT
* *
19705 TTACAAGAATAATTATTTGA
1 TTACAAAAAAAATTATTTGA
19725 TTACAAAAAAAATTATTT
1 TTACAAAAAAAATTATTT
19743 AATAGAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
TTACAAAAAAAATTATTTGA
Found at i:23198 original size:75 final size:74
Alignment explanation
Indices: 23013--23219 Score: 256
Period size: 74 Copynumber: 2.8 Consensus size: 74
23003 CAAAGCCAAA
** * **
23013 AATTCCAGATTGCTCATAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGA-TGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATT-CCCCCTAAACAG
23078 TTTGGCTCCGAG
63 TTTGGCTCCGAG
* *
23090 ATTTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAG-ATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* *
23154 TTGTTCCGAG
65 TGGCTCCGAG
* *
23164 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCT
1 AATTCCAG-ATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCT
23220 TGTACAACGG
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
74 63 0.55
75 27 0.24
76 1 0.01
77 22 0.19
78 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (74 bp):
AATTCCAGATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
GGCTCCGAG
Found at i:25581 original size:38 final size:38
Alignment explanation
Indices: 25479--25829 Score: 263
Period size: 38 Copynumber: 9.8 Consensus size: 38
25469 TGAAACTACG
25479 TATATAATATATAGTTTTT--AAT-AGTTTTT-AAAAC-
1 TATATAATATATAGTTTTTAAAATCA-TTTTTGAAAACA
** * * *
25513 TATATAATATATAGTTTAAAAAAAAACATTTTAGAAAAAA
1 TATATAATATATAGTTT--TTAAAATCATTTTTGAAAACA
*
25553 TATATAATATATAATTTTTAAAATCATTTTTGAAAACA
1 TATATAATATATAGTTTTTAAAATCATTTTTGAAAACA
*
25591 TATAT-AT-TATAGTTTTGAAAA-CATTTTTTTGAAAACA
1 TATATAATATATAGTTTTTAAAATCA--TTTTTGAAAACA
* * *
25628 TATATATTATATAGTTTTTGAAGAT-ATTTTTGAAACCA
1 TATATAATATATAGTTTTT-AAAATCATTTTTGAAAACA
* * *
25666 TATATATTATATAGTTTTTAAAACCA-TTTTGAAAACT
1 TATATAATATATAGTTTTTAAAATCATTTTTGAAAACA
* **
25703 TATATAATAAATAG-TTTTAAAATCA-TTTTG-AAATT
1 TATATAATATATAGTTTTTAAAATCATTTTTGAAAACA
* **
25738 TATATAATATATAG---TTGAAATTTTTTTTG-AAAC-
1 TATATAATATATAGTTTTTAAAATCATTTTTGAAAACA
*
25771 -ATAT-A-ATATAG-TTTTAAAA-CGTTTTTGAAAAC-
1 TATATAATATATAGTTTTTAAAATCATTTTTGAAAACA
*
25803 --TATAACATATAG-TTTTAAAA-CATTTTT
1 TATATAATATATAGTTTTTAAAATCATTTTT
25830 ATATGTAGTA
Statistics
Matches: 263, Mismatches: 34, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
30 6 0.02
31 10 0.04
32 14 0.05
33 26 0.10
34 25 0.10
35 19 0.07
36 27 0.10
37 43 0.16
38 59 0.22
39 14 0.05
40 20 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (38 bp):
TATATAATATATAGTTTTTAAAATCATTTTTGAAAACA
Found at i:25646 original size:75 final size:76
Alignment explanation
Indices: 25479--25829 Score: 268
Period size: 75 Copynumber: 4.9 Consensus size: 76
25469 TGAAACTACG
* * ** * *
25479 TATATAATATATAGTTTT-TAAT-AGTTTTT-AAAAC-TATATAATATATAGTTTAAAAAAAAAC
1 TATATAATATATAGTTTTAAAATCA-TTTTTGAAAACATATATACTATATAGTTT-TGAAAACAT
* * *
25540 ATTTTAGAAAAAA
64 TTTTTTGAAAACA
*
25553 TATATAATATATAATTTTTAAAATCATTTTTGAAAACATATATA-T-TATAGTTTTGAAAACATT
1 TATATAATATAT-AGTTTTAAAATCATTTTTGAAAACATATATACTATATAGTTTTGAAAACATT
25616 TTTTTGAAAACA
65 TTTTTGAAAACA
* * * * *
25628 TATATATTATATAGTTTTTGAAGAT-ATTTTTGAAACCATATATATTATATAGTTTTTAAAACCA
1 TATATAATATATAG-TTTT-AAAATCATTTTTGAAAACATATATACTATATAGTTTTGAAAA-CA
*
25692 ---TTTTGAAAACT
63 TTTTTTTGAAAACA
* ** * *
25703 TATATAATAAATAGTTTTAAAATCA-TTTTG-AAATTTATATAATATATAG--TTG-AAA-TTTT
1 TATATAATATATAGTTTTAAAATCATTTTTGAAAACATATATACTATATAGTTTTGAAAACATTT
25762 TTTTG-AAAC-
66 TTTTGAAAACA
*
25771 -ATAT-A-ATATAGTTTTAAAA-CGTTTTTGAAAAC-TATA-AC-ATATAGTTTT-AAAACATTT
1 TATATAATATATAGTTTTAAAATCATTTTTGAAAACATATATACTATATAGTTTTGAAAACATTT
25828 TT
66 TT
25830 ATATGTAGTA
Statistics
Matches: 228, Mismatches: 29, Indels: 48
0.75 0.10 0.16
Matches are distributed among these distances:
63 6 0.03
64 2 0.01
65 27 0.12
66 9 0.04
67 4 0.02
69 7 0.03
70 7 0.03
72 15 0.07
73 9 0.04
74 18 0.08
75 75 0.33
76 21 0.09
77 20 0.09
78 8 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (76 bp):
TATATAATATATAGTTTTAAAATCATTTTTGAAAACATATATACTATATAGTTTTGAAAACATTT
TTTTGAAAACA
Found at i:25799 original size:31 final size:33
Alignment explanation
Indices: 25568--25829 Score: 128
Period size: 37 Copynumber: 7.5 Consensus size: 33
25558 AATATATAAT
*
25568 TTTTAAAATCATTTTTGAAAACATATATA-TTATAG
1 TTTTAAAA-CATTTTTGAAAAC-TATA-ACATATAG
*
25603 TTTTGAAAACATTTTTTTGAAAACATATATATTATATAG
1 TTTT-AAAACA--TTTTTGAAAAC-TATA-A-CATATAG
* * * *
25642 TTTTTGAAGATATTTTTGAAACCATATATATTATATAG
1 -TTTT-AAAACATTTTTGAAAAC-TATA-A-CATATAG
25680 TTTTTAAAACCA-TTTTGAAAACTTATATA-ATAAATAG
1 -TTTTAAAA-CATTTTTGAAAAC-TATA-ACAT--ATAG
*
25717 TTTTAAAATCA-TTTTGAAATTTA-TATAATATATAG
1 TTTTAAAA-CATTTTTGAAA---ACTATAACATATAG
* ***
25752 -TTGAAATTTTTTTTG-AAAC-ATATA-ATATAG
1 TTTTAAAACATTTTTGAAAACTATA-ACATATAG
*
25782 TTTTAAAACGTTTTTGAAAACTATAACATATAG
1 TTTTAAAACATTTTTGAAAACTATAACATATAG
25815 TTTTAAAACATTTTT
1 TTTTAAAACATTTTT
25830 ATATGTAGTA
Statistics
Matches: 189, Mismatches: 18, Indels: 42
0.76 0.07 0.17
Matches are distributed among these distances:
30 10 0.05
31 12 0.06
32 5 0.03
33 25 0.13
34 10 0.05
35 12 0.06
36 23 0.12
37 46 0.24
38 31 0.16
39 6 0.03
40 9 0.05
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (33 bp):
TTTTAAAACATTTTTGAAAACTATAACATATAG
Found at i:25864 original size:18 final size:19
Alignment explanation
Indices: 25841--25886 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
25831 TATGTAGTAT
*
25841 TTTATTTTTTATTT-CTTG
1 TTTATTTTTTATTTACTCG
*
25859 TTTA-TTATTATTTACTCG
1 TTTATTTTTTATTTACTCG
25877 TTTATTTTTT
1 TTTATTTTTT
25887 TTTTTTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTTTTATTTACTCG
Found at i:32453 original size:84 final size:81
Alignment explanation
Indices: 32214--32844 Score: 615
Period size: 84 Copynumber: 7.6 Consensus size: 81
32204 CTTCGAGGGA
* *
32214 ACATCATTTGCAGCATAACTTAAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCG
1 ACATCATTTGCAGCATAAC-TCAAGTCTAGAAGGGTTATCTG---ACCAAAGACCTTTGAGTTCG
*
32279 ACTACGCTCAGCTCCAAGGC
62 ACTACGCTCAGCTTCAAGGC
* * * * * * *
32299 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTG-CCAAAGACCCTTAAGTTCGATTA
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGACCAAAGACCTTTGAGTTCGACTA
*
32363 CACTCAGCTTCAAGGGC
66 CGCTCAGCTTCAA-GGC
* * * * * *
32380 ATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGGGTTCGAC
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTG--ACCAAAGACCTTTGAGTTCGAC
* *
32445 TACGCTCAGCTCCTAGGC
64 TACGCTCAGCTTCAAGGC
* * * * * * * *
32463 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTTAAGTTCGATTA
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGACCAAAGACCTTTGAGTTCGACTA
*
32527 CACTCAGCTTCAAGGGC
66 CGCTCAGCTTCAA-GGC
* * * * * *
32544 ATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTG--A-CCAAAGACCTTTGAGTTCGA
*
32609 CTACGCTCAGCTCCAAGGC
63 CTACGCTCAGCTTCAAGGC
* ** * * * *
32628 ATATCATTTGCAATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGA
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTG---ACCAAAGACCTTTGAGTTCGA
32693 CTACGCTCAGC-TCAACGGC
63 CTACGCTCAGCTTCAA-GGC
* * * *
32712 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGAC
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTG--ACCAAAGACCTTTGAGTTCGAC
32777 TACGCTCAGC-TCTAAGGC
64 TACGCTCAGCTTC-AAGGC
* * * *
32795 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACC
1 ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGACCAAAGACC
32845 CCTGGGTTCG
Statistics
Matches: 444, Mismatches: 90, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
80 67 0.15
81 71 0.16
83 107 0.24
84 152 0.34
85 47 0.11
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (81 bp):
ACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGACCAAAGACCTTTGAGTTCGACTA
CGCTCAGCTTCAAGGC
Found at i:32474 original size:164 final size:164
Alignment explanation
Indices: 32218--32909 Score: 929
Period size: 164 Copynumber: 4.2 Consensus size: 164
32208 GAGGGAACAT
* * * * ** * *
32218 CATTTGCAGCATAACTTAAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 CATTTACAGCATAAC-TCAAGGCTAGAAGGGTTATCTG-TTAGCAAAGACCTTCGAGTTCGACTA
* *
32283 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGAC
64 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
32348 CCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
129 CCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
* *
32384 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGGGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACG
*
32449 CTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
32514 TTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
131 TTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
32548 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-AAAGACCTTCGAGTTCGACTAC
* * * * * *
32613 GCTCAGCTCCAAGGCATATCATTTGCA-ATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGA-ATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AA
* * * * * * *
32677 AGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACAT
125 AGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
* *
32716 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACG
* *
32781 CTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
* ** * * * *
32846 CTGGGTTCGATTACACTCAACTTCGAGGTCATAT
131 TTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
* * * *
32880 CAGTTACAACATAGCTCAAGGCAAGAAGGG
1 CATTTACAGCATAACTCAAGGCTAGAAGGG
32910 CTATTTGTCA
Statistics
Matches: 467, Mismatches: 51, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
163 23 0.05
164 198 0.42
165 86 0.18
166 16 0.03
167 69 0.15
168 50 0.11
169 25 0.05
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
TTAAGTTCGATTACACTCAGCTTCAAGGGCATAA
Found at i:32845 original size:332 final size:329
Alignment explanation
Indices: 32218--32909 Score: 967
Period size: 332 Copynumber: 2.1 Consensus size: 329
32208 GAGGGAACAT
* * * * * *
32218 CATTTGCAGCATAACTTAAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 CATTTACAGCATAAC-TCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
32283 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGAC
65 CGCTCAGCTCCAAGGCACATCATTTGCAGAACAACTTAAGTCAAGAAGGGTTATCTGCCAAAGAC
* * *
32348 CCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGG
130 CCTTAAGTTCGACTACACTCAGCTTCAACGGCACAACATTTACAGCATAACTCAAGGCTAGAAGG
* * *
32413 GTTATCTGTTAGCAAAGACCTTTGGGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAA
195 GTTATCTGTCAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAA
* *
32478 TAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGG
260 TAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTAAGTTCGATTACACTCAACTTCAAGGG
32543 CATAA
325 CATAA
* ** *
32548 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
32613 GCTCAGCTCCAAGGCATATCATTTGCA-ATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGA-ACAACTTAAGTCAAGAAGGGTTATCTG-C--C-AA
* * * *
32677 AGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTACAGCATAACTCAAGGCTAG
126 AGACCCTTAAGTTCGACTACACTCAGCTTCAACGGCACAACATTTACAGCATAACTCAAGGCTAG
*
32741 AAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CTAAGGCACATCATTTG
191 AAGGGTTATCTGTCAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCT-AGGCACATCATTTG
* **
32805 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGGGTTCGATTACACTCAACTTC
255 CAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTAAGTTCGATTACACTCAACTTC
* * *
32870 GAGGTCATAT
320 AAGGGCATAA
* * *
32880 CAGTTACAACATAGCTCAAGGCAAGAAGGG
1 CATTTACAGCATAACTCAAGGCAAGAAGGG
32910 CTATTTGTCA
Statistics
Matches: 319, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
328 1 0.00
329 91 0.29
330 15 0.05
331 2 0.01
332 185 0.58
333 25 0.08
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (329 bp):
CATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGAACAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACC
CTTAAGTTCGACTACACTCAGCTTCAACGGCACAACATTTACAGCATAACTCAAGGCTAGAAGGG
TTATCTGTCAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAAT
AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTAAGTTCGATTACACTCAACTTCAAGGGC
ATAA
Found at i:33625 original size:40 final size:38
Alignment explanation
Indices: 33567--33797 Score: 146
Period size: 38 Copynumber: 6.6 Consensus size: 38
33557 TTTAAAAAAA
33567 ATAG-TTTTGAAAACATTTTTTTGAAAACATATATATTAT
1 ATAGTTTTTGAAAACA--TTTTTGAAAACATATATATTAT
* * *
33606 ATAGTTTTTGAAGATATTTTTGAAACCATATATATTAT
1 ATAGTTTTTGAAAACATTTTTGAAAACATATATATTAT
* * *
33644 ATAGTTTTT-AAAACCA-TTTTGAAAACTTATATAATAA
1 ATAGTTTTTGAAAA-CATTTTTGAAAACATATATATTAT
** *
33681 ATAG-TTTT-AAAATCA-TTTTG-AAATTTATATAATAT
1 ATAGTTTTTGAAAA-CATTTTTGAAAACATATATATTAT
***
33716 ATAG---TTGAAATTTTTTTTG-AAAC--ATATA--AT
1 ATAGTTTTTGAAAACATTTTTGAAAACATATATATTAT
* *
33746 ATAG-TTTT-AAAACGTTTTTGAAAAC-TATA-A-CAT
1 ATAGTTTTTGAAAACATTTTTGAAAACATATATATTAT
33779 ATAG-TTTT-AAAACATTTTT
1 ATAGTTTTTGAAAACATTTTT
33798 ATATGTAGTA
Statistics
Matches: 163, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
30 6 0.04
31 9 0.06
32 12 0.07
33 25 0.15
34 11 0.07
35 17 0.10
36 15 0.09
37 24 0.15
38 31 0.19
39 4 0.02
40 9 0.06
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (38 bp):
ATAGTTTTTGAAAACATTTTTGAAAACATATATATTAT
Found at i:33675 original size:37 final size:36
Alignment explanation
Indices: 33595--33721 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 36
33585 TTTTGAAAAC
* * * *
33595 ATATATATTATATAGTTTTTGAAGATATTTTTGAAACC
1 ATATATAATATATAGTTTTT-AAAACA-TTTTGAAAAC
*
33633 ATATATATTATATAGTTTTTAAAACCATTTTGAAAAC
1 ATATATAATATATAGTTTTTAAAA-CATTTTGAAAAC
* * *
33670 TTATATAATAAATAG-TTTTAAAATCATTTTG-AAAT
1 ATATATAATATATAGTTTTTAAAA-CATTTTGAAAAC
*
33705 TTATATAATATATAGTT
1 ATATATAATATATAGTT
33722 GAAATTTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
35 17 0.22
36 16 0.21
37 24 0.31
38 21 0.27
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:33767 original size:31 final size:33
Alignment explanation
Indices: 33642--33797 Score: 103
Period size: 33 Copynumber: 4.6 Consensus size: 33
33632 CATATATATT
33642 ATATAGTTTTTAAAACCA-TTTTGAAAACTTATATA-
1 ATATAG-TTTTAAAA-CATTTTTGAAAAC-TATA-AC
*
33677 ATAAATAGTTTTAAAATCA-TTTTGAAATTTA-TATAAT
1 AT--ATAGTTTTAAAA-CATTTTTGAAA---ACTATAAC
* ***
33714 ATATAG-TTGAAATTTTTTTTG-AAAC-ATATA-
1 ATATAGTTTTAAAACATTTTTGAAAACTATA-AC
*
33744 ATATAGTTTTAAAACGTTTTTGAAAACTATAAC
1 ATATAGTTTTAAAACATTTTTGAAAACTATAAC
33777 ATATAGTTTTAAAACATTTTT
1 ATATAGTTTTAAAACATTTTT
33798 ATATGTAGTA
Statistics
Matches: 98, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
30 10 0.10
31 12 0.12
32 5 0.05
33 25 0.26
34 10 0.10
35 6 0.06
36 19 0.19
37 10 0.10
39 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (33 bp):
ATATAGTTTTAAAACATTTTTGAAAACTATAAC
Found at i:33832 original size:18 final size:19
Alignment explanation
Indices: 33809--33854 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
33799 TATGTAGTAT
*
33809 TTTATTTTTTATTT-CTTG
1 TTTATTTTTTATTTACTCG
*
33827 TTTA-TTATTATTTACTCG
1 TTTATTTTTTATTTACTCG
33845 TTTATTTTTT
1 TTTATTTTTT
33855 TTTTTTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTTTTATTTACTCG
Found at i:39292 original size:21 final size:21
Alignment explanation
Indices: 39266--39305 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39256 CCCCCTTTGA
*
39266 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
39287 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
39306 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:42048 original size:75 final size:74
Alignment explanation
Indices: 41875--42087 Score: 232
Period size: 75 Copynumber: 2.8 Consensus size: 74
41865 CAATTCAAAG
* ** *
41875 CCAAAAATTCCAGATTGCTCATAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTG
1 CCAAGAATTCCAGA-TGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTA
** *
41939 AATGGTTTGGCT
63 AACAGTTTGACT
* *
41951 CCGAGATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
1 CCAAGAATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
* *
42016 CAGTTTTATT
65 CAGTTTGACT
* * *
42026 CCAAGAATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 CCAAGAATTCCAG-ATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
42088 TGTACAACGG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
74 21 0.18
75 62 0.53
76 33 0.28
77 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (74 bp):
CCAAGAATTCCAGATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAAC
AGTTTGACT
Found at i:44527 original size:16 final size:16
Alignment explanation
Indices: 44508--44541 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44498 CAATATACGA
44508 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
44524 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
44540 AT
1 AT
44542 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:44620 original size:14 final size:16
Alignment explanation
Indices: 44584--44620 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44574 TATTAATGTA
44584 TGAATCATTTATATTTT
1 TGAAT-ATTTATATTTT
44601 TGAATATTT-TATTTT
1 TGAATATTTATATTTT
44616 T-AATA
1 TGAATA
44621 AGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TGAATATTTATATTTT
Found at i:45297 original size:128 final size:126
Alignment explanation
Indices: 45088--45345 Score: 417
Period size: 128 Copynumber: 2.0 Consensus size: 126
45078 AATTTTCTTC
* *
45088 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
45153 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT--CATATAAA
* * *
45216 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
45281 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATTATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATCATATAAA
45342 TAAT
1 TAAT
45346 AAAGACTGAA
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 11 0.09
128 110 0.91
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (126 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATCATATAAA
Found at i:45779 original size:35 final size:35
Alignment explanation
Indices: 45729--45804 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
45719 AATTGAATTT
*
45729 AATTGAATTATTTTGGA-ATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAGA-TTAGGGTTTAGAATGA
*
45764 AATTGAATTACTTTGGAGATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAGATTAGGGTTTAGAATGA
45799 AATTGA
1 AATTGA
45805 GGATTGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAGATTAGGGTTTAGAATGA
Found at i:46331 original size:5 final size:5
Alignment explanation
Indices: 46321--46347 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46311 AGTTAAGATA
46321 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
46348 TGTTCGTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47952 original size:30 final size:30
Alignment explanation
Indices: 47876--47953 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
47866 TCAAGGTTTG
* *
47876 GGGCTTATTTGGATACAAGTTAAAGATTAA
1 GGGCTTATTTGGATGCAAATTAAAGATTAA
* **
47906 GGGCTTATATATATGCAAATTAAA-ATTTAA
1 GGGCTTATTTGGATGCAAATTAAAGA-TTAA
47936 GGGCTTATTTGGATGCAA
1 GGGCTTATTTGGATGCAA
47954 TAAAAAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.35
Consensus pattern (30 bp):
GGGCTTATTTGGATGCAAATTAAAGATTAA
Found at i:58178 original size:18 final size:18
Alignment explanation
Indices: 58155--58190 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58145 GATGAACATA
*
58155 GAGATGGTGTTGCTGTAG
1 GAGATGGAGTTGCTGTAG
*
58173 GAGATGGAGTTGTTGTAG
1 GAGATGGAGTTGCTGTAG
58191 TTGCAAGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.44, T:0.33
Consensus pattern (18 bp):
GAGATGGAGTTGCTGTAG
Found at i:60281 original size:13 final size:13
Alignment explanation
Indices: 60263--60288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60253 ATTTTTATTG
60263 ATTTATATGTTTC
1 ATTTATATGTTTC
60276 ATTTATATGTTTC
1 ATTTATATGTTTC
60289 GAATGGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTATATGTTTC
Found at i:72652 original size:201 final size:201
Alignment explanation
Indices: 72307--73073 Score: 995
Period size: 201 Copynumber: 3.8 Consensus size: 201
72297 TTTTAACTTA
* * *
72307 TATACAGTCTAGATTGATTTTCCAGAGGTCTTAGGCTATGTTACTCGAACTGTGCTTAATTTTCG
1 TATACAGTCTAGATAGATTTTTCAGAGGTCTTAGGCTATGTTACTCGAACTCTGCTTAATTTTCG
* * * *
72372 GGTACGACTATGTGTCCAACACTTCGGATATGGGTATGTGTTAAACGCTGCTTATTGCTCAATAC
66 GGTACGACTATGTGTCCAACACTTCGGATATGGGTACGTGTTCAACACTGCTTATTGCTCAATAA
* *
72437 GTCACTTGAATATATGTATGTTTTCTGCTAATGAGCAGCATAGGATGCGACTCTTAAGACTTCCT
131 GTCACTTGAATATATGTATGTTTTCTGCTAATGAGCAGCATAGGATGTGACTCTTAAGACTTCTT
72502 AAGTTT
196 AAGTTT
*
72508 TATACAGTCTAGATAGATTTTTCACAGGTCTTAGGCTATGTTACTCGAACTCTGCTTAATTTTCG
1 TATACAGTCTAGATAGATTTTTCAGAGGTCTTAGGCTATGTTACTCGAACTCTGCTTAATTTTCG
* * * * *
72573 GGTACGACTATGTGTTCAACATTTCGGATATTGTTACGTGTTCAACACTGCTTATTGCTTAATAA
66 GGTACGACTATGTGTCCAACACTTCGGATATGGGTACGTGTTCAACACTGCTTATTGCTCAATAA
* *
72638 GTCACTTGAATATATGTATGTTTTCTGCTAATGAGCAGCATATGATGTGACTCTTAACACTTCTT
131 GTCACTTGAATATATGTATGTTTTCTGCTAATGAGCAGCATAGGATGTGACTCTTAAGACTTCTT
72703 AAGTTT
196 AAGTTT
* * * * * *
72709 TATACAATGTTGATAGATTTTTCAGAGGTTTTAGGCTATGTTATTC-AGACCCTGCTTAA-TTTC
1 TATACAGTCTAGATAGATTTTTCAGAGGTCTTAGGCTATGTTACTCGA-ACTCTGCTTAATTTTC
* ** * * * ** *
72772 GGGTATGGA-TATGTGTCCAACGTTTCGGATATGGTTACGAGTTCAACACTGCTTAGTATTTAAT
65 GGGTA-CGACTATGTGTCCAACACTTCGGATATGGGTACGTGTTCAACACTGCTTATTGCTCAAT
* * *
72836 ACA-TTACTTGAATATATGTATGTTCTCTGCTAATGATCAGCATAGGATGTGACTCTTAAGACTT
129 A-AGTCACTTGAATATATGTATGTTTTCTGCTAATGAGCAGCATAGGATGTGACTCTTAAGACTT
72900 -TTAAAGTTT
193 CTT-AAGTTT
* * * * ** *
72909 TTTAAAGTCTAGATAGATTTTTCAGAGGTCTTACGCTATGTTACTTGGGCTCTGCTTAGTTTTCG
1 TATACAGTCTAGATAGATTTTTCAGAGGTCTTAGGCTATGTTACTCGAACTCTGCTTAATTTTCG
* * * ** *
72974 GGTACGAATATGTGTCTTAACACTTCGGATATGGGTACGTGTTCGACGTTGCTTATTTCTCAATA
66 GGTACGACTATGTGTC-CAACACTTCGGATATGGGTACGTGTTCAACACTGCTTATTGCTCAATA
* * *
73039 CGTCAATTGAATATATGTATGTGTTCTGCTAATGA
130 AGTCACTTGAATATATGTATGTTTTCTGCTAATGA
73074 TCATCAACAT
Statistics
Matches: 489, Mismatches: 68, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
199 2 0.00
200 168 0.34
201 254 0.52
202 65 0.13
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (201 bp):
TATACAGTCTAGATAGATTTTTCAGAGGTCTTAGGCTATGTTACTCGAACTCTGCTTAATTTTCG
GGTACGACTATGTGTCCAACACTTCGGATATGGGTACGTGTTCAACACTGCTTATTGCTCAATAA
GTCACTTGAATATATGTATGTTTTCTGCTAATGAGCAGCATAGGATGTGACTCTTAAGACTTCTT
AAGTTT
Found at i:73978 original size:12 final size:12
Alignment explanation
Indices: 73961--73989 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
73951 CCACATTCTC
73961 GTGTTCATGTTT
1 GTGTTCATGTTT
73973 GTGTTCATGTTT
1 GTGTTCATGTTT
73985 GTGTT
1 GTGTT
73990 TATATTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.28, T:0.59
Consensus pattern (12 bp):
GTGTTCATGTTT
Found at i:79156 original size:4 final size:4
Alignment explanation
Indices: 79147--79207 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
79137 AGTTTTTACA
* * * *
79147 ATAC ATAC ATAT ATTC ATGTAC ATAC ATACC ATAC ATAC ATAT ATGC ATAC
1 ATAC ATAC ATAC ATAC A--TAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
*
79198 ATAT ATAC AT
1 ATAC ATAC AT
79208 TGTATGCTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
4 37 0.84
5 4 0.09
6 3 0.07
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:82703 original size:28 final size:28
Alignment explanation
Indices: 82650--82704 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
82640 ATATTTGTAA
*
82650 AAATTATCGATACTTAGTGTAGTGTATG
1 AAATTATCGATACTTAGTGTAATGTATG
*
82678 AAATTAT-TATACTTAGTGTATATGTAT
1 AAATTATCGATACTTAGTGTA-ATGTAT
82705 CAGTACGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (28 bp):
AAATTATCGATACTTAGTGTAATGTATG
Found at i:83122 original size:23 final size:23
Alignment explanation
Indices: 83088--83159 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
83078 CGGTACCTAG
83088 TTTAA-GTAAATAGGTAGCGCTTA
1 TTTAACGT-AATAGGTAGCGCTTA
*
83111 TTTAACGTAATAGGTAGTG-TCTA
1 TTTAACGTAATAGGTAGCGCT-TA
* *
83134 TTTAACATAATAGGTAGCGCCTA
1 TTTAACGTAATAGGTAGCGCTTA
83157 TTT
1 TTT
83160 TATTTTGTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 39 0.93
24 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCTTA
Found at i:83209 original size:121 final size:120
Alignment explanation
Indices: 82991--83210 Score: 332
Period size: 121 Copynumber: 1.8 Consensus size: 120
82981 CGGTAGCTAG
*
82991 TTTAACGCAATATGTAACGTCTATTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACAT
1 TTTAACGCAATAGGTAACGTCTATTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACAT
* *
83056 TATTATTAACCTTTAAACAAATCGGTACCTAGTTTAAGTAAATAGGTAGCGCTTA
66 TATTATTAACCTTTAAACAAACCAGTACCTAGTTTAAGTAAATAGGTAGCGCTTA
* ** * * **
83111 TTTAACGTAATAGGTAGTGTCTATTTAACATAATAGGTAGCGCCTATTTTATTTTGTCGTTTACA
1 TTTAACGCAATAGGTAACGTCTA-TTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACA
*
83176 TTATTATTAACCTTTAAACAAACCAGTAGCTAGTT
65 TTATTATTAACCTTTAAACAAACCAGTACCTAGTT
83211 GAACATAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
120 19 0.22
121 69 0.78
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (120 bp):
TTTAACGCAATAGGTAACGTCTATTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACAT
TATTATTAACCTTTAAACAAACCAGTACCTAGTTTAAGTAAATAGGTAGCGCTTA
Found at i:83260 original size:121 final size:119
Alignment explanation
Indices: 83010--83234 Score: 274
Period size: 121 Copynumber: 1.9 Consensus size: 119
83000 ATATGTAACG
83010 TCTATTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACATTATTATTAACCTTTAAACA
1 TCTATTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACATTATTATTAACCTTTAAACA
* * * * * * * *
83075 AATCGGTACCTAGTTTAAGTAAATAGGTAGCGCTTATTTAACGTAATAGGTAGTG
66 AACCAGTACCTAGTTGAAATAAATAGGTAGCCCTTATTTAACGTAATA-GCAATA
* * **
83130 TCTATTTAACATAATAGGTAGCGCCTATTTTATTTTGTCGTTTACATTATTATTAACCTTTAAAC
1 TCTA-TTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACATTATTATTAACCTTTAAAC
* *
83195 AAACCAGTAGCTAGTTGAACAT-AGTAGGTAGCTCC-TATTT
65 AAACCAGTACCTAGTTGAA-ATAAATAGGTAGC-CCTTATTT
83235 TATTTTACGT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
120 4 0.04
121 85 0.93
122 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (119 bp):
TCTATTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACATTATTATTAACCTTTAAACA
AACCAGTACCTAGTTGAAATAAATAGGTAGCCCTTATTTAACGTAATAGCAATA
Found at i:83269 original size:74 final size:74
Alignment explanation
Indices: 83134--83609 Score: 484
Period size: 74 Copynumber: 6.4 Consensus size: 74
83124 GTAGTGTCTA
* * *
83134 TTTAACATAATAGGTAGCGCCTATTTTATTTTGTCGTTTACATTATTATTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAGCTCCTATTTTATTTT-ACGTTTACATTATTAGTAACCTTTAAACAAAC
* *
83199 CAGTAGCTAG
65 CGGTAGATAG
* * * * *
83209 TTGAACATAGTAGGTAGCTCCTATTTTATTTTACGTTTACAATATTATTAACCTTTAAACAAACT
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTACGTTTACATTATTAGTAACCTTTAAACAAACC
*
83274 GGTAGCTAG
66 GGTAGATAG
* * * * ** *
83283 -TTAACGTAATAGATAGCGCCTGTTTTATTTTACCGTTTACATTATTAGTAGTCTTTAAACAAAT
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTA-CGTTTACATTATTAGTAACCTTTAAACAAAC
*
83347 TGGTAGATAG
65 CGGTAGATAG
* * * *
83357 -TTAACGTAATAGGTAG-T-GTATTTTATTTTACTGTTTACATTATCAGTAACCTTTAAACACAC
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTAC-GTTTACATTATTAGTAACCTTTAAACAAAC
*
83419 CGGTAGATAT
65 CGGTAGATAG
* * * *
83429 TTTAA-ATTAATAGATA--TCGCTATTTTATTTTGCCG-TTATATTATTAATAACCTTTAAACAA
1 TTTAACA-TAATAGGTAGCTC-CTATTTTATTTT-ACGTTTACATTATTAGTAACCTTTAAACAA
* *
83490 ACCGGTAGGTAT
63 ACCGGTAGATAG
* * * *
83502 TTTAACGTAATAAGTAGCGCCTATTTTATTTTATCGTTTACATTATTAGTAACCTTCAAACAAAC
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTA-CGTTTACATTATTAGTAACCTTTAAACAAAC
* *
83567 CAGTAGGTAG
65 CGGTAGATAG
*
83577 TTTAACATAATATGTAGCGT-CTATTTTATTTTA
1 TTTAACATAATAGGTAGC-TCCTATTTTATTTTA
83610 ACCGGTTAAG
Statistics
Matches: 336, Mismatches: 52, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
71 1 0.00
72 45 0.13
73 83 0.25
74 114 0.34
75 93 0.28
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (74 bp):
TTTAACATAATAGGTAGCTCCTATTTTATTTTACGTTTACATTATTAGTAACCTTTAAACAAACC
GGTAGATAG
Found at i:83409 original size:220 final size:221
Alignment explanation
Indices: 83135--83608 Score: 557
Period size: 220 Copynumber: 2.1 Consensus size: 221
83125 TAGTGTCTAT
* * *
83135 TTAACATAATAGGTAGCGCCTATTTTATTTTGTCGTTTACATTATTATTAACCTTTAAACAAACC
1 TTAACATAATAGGTAGCG-CTATTTTATTTTCTCGTTTACATTATCAGTAACCTTTAAACAAACC
* * * *
83200 AGTAGCTAGTTGAACA-TAGTAGGTAGCTC-CTATTTTATTTT-ACGTTTACAATATTATTAACC
65 AGTAGATAGTTGAA-ATTAATAGATA--TCGCTATTTTATTTTGACG-TTACAATATTAATAACC
* *
83262 TTTAAACAAACTGGTAGCTA-GTTAACGTAAT-AGATAGCGCCTGTTTTATTTTACCGTTTACAT
126 TTTAAACAAACCGGTAGCTATGTTAACGTAATAAG-TAGCGCCTATTTTATTTTACCGTTTACAT
83325 TATTAGTAGTCTTTAAACAAATTGGTAGATAG
190 TATTAGTAGTCTTTAAACAAATTGGTAGATAG
* * *
83357 TTAACGTAATAGGTAGTG-TATTTTATTTTACT-GTTTACATTATCAGTAACCTTTAAACACACC
1 TTAACATAATAGGTAGCGCTATTTTATTTT-CTCGTTTACATTATCAGTAACCTTTAAACAAACC
* * * * * *
83420 GGTAGATATTTTAAATTAATAGATATCGCTATTTTATTTTGCCGTTATATTATTAATAACCTTTA
65 AGTAGATAGTTGAAATTAATAGATATCGCTATTTTATTTTGACGTTACAATATTAATAACCTTTA
* * *
83485 AACAAACCGGTAGGTATTTTAACGTAATAAGTAGCGCCTATTTTATTTTATCGTTTACATTATTA
130 AACAAACCGGTAGCTATGTTAACGTAATAAGTAGCGCCTATTTTATTTTACCGTTTACATTATTA
** * *** *
83550 GTAACCTTCAAACAAACCAGTAGGTAG
195 GTAGTCTTTAAACAAATTGGTAGATAG
*
83577 TTTAACATAATATGTAGCGTCTATTTTATTTT
1 -TTAACATAATAGGTAGCG-CTATTTTATTTT
83609 AACCGGTTAA
Statistics
Matches: 212, Mismatches: 31, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
218 2 0.01
219 45 0.21
220 120 0.57
221 18 0.08
222 16 0.08
223 11 0.05
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (221 bp):
TTAACATAATAGGTAGCGCTATTTTATTTTCTCGTTTACATTATCAGTAACCTTTAAACAAACCA
GTAGATAGTTGAAATTAATAGATATCGCTATTTTATTTTGACGTTACAATATTAATAACCTTTAA
ACAAACCGGTAGCTATGTTAACGTAATAAGTAGCGCCTATTTTATTTTACCGTTTACATTATTAG
TAGTCTTTAAACAAATTGGTAGATAG
Found at i:85176 original size:3 final size:3
Alignment explanation
Indices: 85168--85192 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85158 TCTTCGGGGA
85168 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
85193 AGGGTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:85434 original size:24 final size:24
Alignment explanation
Indices: 85383--85434 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
85373 ATCCGAGTAT
** *
85383 TGACCAAGATCAAATTTCGGGTAT
1 TGACCAAGATCAAATTTCGAATAC
*
85407 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAATTTCGAATAC
85431 TGAC
1 TGAC
85435 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (24 bp):
TGACCAAGATCAAATTTCGAATAC
Found at i:86314 original size:20 final size:20
Alignment explanation
Indices: 86266--86333 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
86256 CAAAACATTT
* *
86266 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAAACAAAATTC
**
86285 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAACAAAATTC
*
86304 GTGTTGTGAAAACAAAATTC
1 GTGTTGCGAAAACAAAATTC
86324 GTGTTGCGAA
1 GTGTTGCGAA
86334 TTAGAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.37
19 1 0.02
20 25 0.61
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
GTGTTGCGAAAACAAAATTC
Found at i:86391 original size:20 final size:20
Alignment explanation
Indices: 86345--86413 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
86335 TAGAAAATTT
* * *
86345 TGTTGCAAAAAGGCAACTTA
1 TGTTGCGAAAAGGAAACTTG
86365 TGTTGCGAAAAGGAAACTTG
1 TGTTGCGAAAAGGAAACTTG
86385 TGTTGCGAGAAA-GAAA-TTCG
1 TGTTGCGA-AAAGGAAACTT-G
86405 TGTTGCGAA
1 TGTTGCGAA
86414 TTTGGAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (20 bp):
TGTTGCGAAAAGGAAACTTG
Found at i:86430 original size:21 final size:21
Alignment explanation
Indices: 86396--86518 Score: 76
Period size: 20 Copynumber: 6.0 Consensus size: 21
86386 GTTGCGAGAA
*
86396 AGAAATTCGTGTTGCGAATTT
1 AGAAATTCGCGTTGCGAATTT
* * *
86417 GGAAAATCGCGTTGCGAGA--A
1 AGAAATTCGCGTTGCGA-ATTT
**
86437 AGAAATTCGCGTTGCGAATAC
1 AGAAATTCGCGTTGCGAATTT
* *
86458 AGAAA-ACTGAGTTGCGAATTT
1 AGAAATTC-GCGTTGCGAATTT
* * * *
86479 GGAAACT-GTGTTGCGAAATT
1 AGAAATTCGCGTTGCGAATTT
*
86499 AG-AGTTCGCGTTGCGAATTT
1 AGAAATTCGCGTTGCGAATTT
86519 GTTGGTCATT
Statistics
Matches: 76, Mismatches: 20, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
19 3 0.04
20 39 0.51
21 33 0.43
22 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (21 bp):
AGAAATTCGCGTTGCGAATTT
Found at i:86446 original size:20 final size:20
Alignment explanation
Indices: 86386--86453 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
86376 GGAAACTTGT
*
86386 GTTGCGAGAAAGAAATTCGT
1 GTTGCGAGAAAGAAATTCGC
** *
86406 GTTGCGA-ATTTGGAAAATCGC
1 GTTGCGAGA--AAGAAATTCGC
86427 GTTGCGAGAAAGAAATTCGC
1 GTTGCGAGAAAGAAATTCGC
86447 GTTGCGA
1 GTTGCGA
86454 ATACAGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 1 0.03
20 22 0.58
21 14 0.37
22 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (20 bp):
GTTGCGAGAAAGAAATTCGC
Found at i:86463 original size:41 final size:41
Alignment explanation
Indices: 86386--86463 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
86376 GGAAACTTGT
* ***
86386 GTTGCGAGAAAGAAATTCGTGTTGCGAATTTGGAAAATCGC
1 GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAATCGC
86427 GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAA
1 GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAA
86464 CTGAGTTGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (41 bp):
GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAATCGC
Found at i:86472 original size:41 final size:41
Alignment explanation
Indices: 86386--86474 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
86376 GGAAACTTGT
* *** *
86386 GTTGCGAGAAAGAAATTCGTGTTGCGAATTTGGAAAATCGC
1 GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAATCGA
86427 GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAA-CTGA
1 GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAATC-GA
86468 GTTGCGA
1 GTTGCGA
86475 ATTTGGAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 41 0.98
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (41 bp):
GTTGCGAGAAAGAAATTCGCGTTGCGAATACAGAAAATCGA
Found at i:87631 original size:43 final size:41
Alignment explanation
Indices: 87584--87908 Score: 239
Period size: 43 Copynumber: 7.6 Consensus size: 41
87574 AGTATAGTTG
*
87584 AAAAAATTAGGGACATCAATTATAAAGGTAAAATGTGAGATTA
1 AAAAAATTAGGG-CCTCAATTATAAAGGTAAAA-GTGAGATTA
* * *
87627 AAAAATTTGGGGGCCTCAATTGTAAAGGTAAAATGTGAGATTGA
1 AAAAAATT-AGGGCCTCAATTATAAAGGTAAAA-GTGAGATT-A
* * * *
87671 AAAAAAATATGGCCTAAATTATATAA-GTAAAAAATG-GAATTGA
1 AAAAAATTAGGGCCTCAATTATA-AAGGT-AAAAGTGAG-ATT-A
* *
87714 AAAAAACTAGGGGTCC-AAATTATAAAGGTTAAAAGTGAGATTA
1 AAAAAATTA-GGG-CCTCAATTATAAAGG-TAAAAGTGAGATTA
* * * *
87757 AAAAAATTAGAGCCTTAATTATAAAGTTAGAAAGTGAGAATA
1 AAAAAATTAGGGCCTCAATTATAAAGGTA-AAAGTGAGATTA
** * *
87799 AAAAAATTAGGAG-CTCAATTATAAAAATACAAAGTGGGATTG
1 AAAAAATTAGG-GCCTCAATTATAAAGGTA-AAAGTGAGATTA
* * * *
87841 AAAAACTTAGGGTCATCAATTATAAATGTAAAAAATGAGATT-
1 AAAAAATTAGGG-CCTCAATTATAAAGGT-AAAAGTGAGATTA
87883 AAAAAATTAAGGAG-CTCAATTATAAA
1 AAAAAATT-AGG-GCCTCAATTATAAA
87909 AAATAAAAAA
Statistics
Matches: 229, Mismatches: 35, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
41 5 0.02
42 84 0.37
43 98 0.43
44 38 0.17
45 4 0.02
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (41 bp):
AAAAAATTAGGGCCTCAATTATAAAGGTAAAAGTGAGATTA
Found at i:87673 original size:86 final size:84
Alignment explanation
Indices: 87581--87908 Score: 247
Period size: 85 Copynumber: 3.8 Consensus size: 84
87571 AGAAGTATAG
87581 TTGAAAAAATTAGGGACATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAA
1 TTGAAAAAATTAGGG-CATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAA
*
87646 TTGTAAAGGTAAAATGTGAGA
65 TTATAAAGGTAAAA-GTGAGA
* * * * * * *
87667 TTGAAAAAAAATATGGCCTAAATTATATAA-GTAAAAAATG-GA-ATTGAAAAAAACTAGGGGTC
1 TTG-AAAAAATTAGGGCATCAATTATA-AAGGT--AAAATGTGAGATT--AAAAAATTTGGGGGC
*
87729 C-AAATTATAAAGGTTAAAAGTGAGA
60 CTCAATTATAAAGG-TAAAAGTGAGA
* * * * * * * * *
87754 TTAAAAAAATTAGAGCCTTAATTATAAAGTTAGAAA-GTGAGAATAAAAAAATTAGGAG-CTCAA
1 TTGAAAAAATTAGGGCATCAATTATAAAGGTA-AAATGTGAGATTAAAAAATTTGGGGGCCTCAA
** *
87817 TTATAAAAATACAAAGTGGGA
65 TTATAAAGGTA-AAAGTGAGA
* * ** ** *
87838 TTGAAAAACTTAGGGTCATCAATTATAAATGTAAAAAATGAGATTAAAAAATTAAGGAG-CTCAA
1 TTGAAAAAATTAGGG-CATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAA
87902 TTATAAA
65 TTATAAA
87909 AAATAAAAAA
Statistics
Matches: 191, Mismatches: 36, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
83 3 0.02
84 43 0.23
85 50 0.26
86 39 0.20
87 32 0.17
88 24 0.13
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (84 bp):
TTGAAAAAATTAGGGCATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAAT
TATAAAGGTAAAAGTGAGA
Found at i:94301 original size:23 final size:23
Alignment explanation
Indices: 94258--94301 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
94248 TTAAAATAAT
* *
94258 TATTTTAGATTTTGTTTTTTTAA
1 TATTTTAGATTTTATTATTTTAA
94281 TATTTTA-ATTTATATTATTTT
1 TATTTTAGATTT-TATTATTTT
94302 TCTAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (23 bp):
TATTTTAGATTTTATTATTTTAA
Found at i:94325 original size:26 final size:26
Alignment explanation
Indices: 94272--94327 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
94262 TTAGATTTTG
* ** *
94272 TTTTTTTAATATTTTAATTTATATTA
1 TTTTTCTAATATTTTAACATATAATA
*
94298 TTTTTCTAATATTTTAACATCTAATA
1 TTTTTCTAATATTTTAACATATAATA
94324 TTTT
1 TTTT
94328 ATTTTATGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTCTAATATTTTAACATATAATA
Found at i:95248 original size:4 final size:4
Alignment explanation
Indices: 95239--95299 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
95229 AGTTTTTACA
* * * *
95239 ATAC ATAC ATAT ATTC ATGTAC ATAC ATACC ATAC ATAC ATAT ATGC ATAC
1 ATAC ATAC ATAC ATAC A--TAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
*
95290 ATAT ATAC AT
1 ATAC ATAC AT
95300 TGTATGCTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
4 37 0.84
5 4 0.09
6 3 0.07
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:97850 original size:20 final size:20
Alignment explanation
Indices: 97810--97851 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
97800 CGGTTATACT
* * *
97810 ATCCGGTTTTAAAATATCCG
1 ATCCGATTTTAAAAAAACCG
97830 ATCCGATTTTAAAAAAACCG
1 ATCCGATTTTAAAAAAACCG
97850 AT
1 AT
97852 TTTTCCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (20 bp):
ATCCGATTTTAAAAAAACCG
Found at i:98440 original size:101 final size:104
Alignment explanation
Indices: 98233--98482 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 104
98223 AGCGCATGTT
*
98233 TTTAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATATATTAATTACTTAATTTGTTATT
1 TTTAAGCTGATGGGGCCTTAGAAATCTGACGATAAC-AAA-ATA-TAATTACTT-ATTTATTATT
* *** *
98298 AATATTATCAACATATTAGGTTGCACCTAAAATATTACCAAAG
62 AATATTACCAACATATTAGGCAACACCTAAAATATTACCAAAA
* * **
98341 TTTAAGCTGACGGGGCCTTAGAAATCCGACGATAACAAAATA-GGTTAC-T-TTTATTATTAATA
1 TTTAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATATAATTACTTATTTATTATTAATA
* *
98403 TTACCAACATATTAGGCAACGCCTAAAATGTTACCAAAA
66 TTACCAACATATTAGGCAACACCTAAAATATTACCAAAA
* * *
98442 TTTAAGCTGTTGGGGCCTTCGAAATCTGACGACAA-AAAATA
1 TTTAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATA
98483 AAGTAATTCC
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
100 6 0.05
101 74 0.59
103 1 0.01
104 4 0.03
106 3 0.02
107 3 0.02
108 34 0.27
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (104 bp):
TTTAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATATAATTACTTATTTATTATTAATA
TTACCAACATATTAGGCAACACCTAAAATATTACCAAAA
Found at i:99273 original size:23 final size:23
Alignment explanation
Indices: 99247--99318 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
99237 CGGTACCTAG
99247 TTTAAAGTAATAGGTAGCGCTTA
1 TTTAAAGTAATAGGTAGCGCTTA
* *
99270 TTTAACGTAATAGGTAGTG-TCTA
1 TTTAAAGTAATAGGTAGCGCT-TA
*
99293 TTTAACA-TAATAGGTAGCGCCTA
1 TTTAA-AGTAATAGGTAGCGCTTA
99316 TTT
1 TTT
99319 TATTTTGTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (23 bp):
TTTAAAGTAATAGGTAGCGCTTA
Found at i:99295 original size:98 final size:98
Alignment explanation
Indices: 99100--99281 Score: 258
Period size: 98 Copynumber: 1.9 Consensus size: 98
99090 AAGTTGTATA
** * * * *
99100 TATTTTATTGTTTACATTATTATTAATCTTTAAACAAACCGGTAGCTAGTTTAACGCAATATGTA
1 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTACCTAGTTTAAAGCAATAGGTA
99165 ACGTCTATTTAACATAATAAGTAACGCCTATTT
66 ACGTCTATTTAACATAATAAGTAACGCCTATTT
* *
99198 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGGTACCTAGTTTAAAGTAATAGGTA
1 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTACCTAGTTTAAAGCAATAGGTA
* *
99263 GCG-CTTATTTAACGTAATA
66 ACGTC-TATTTAACATAATA
99282 GGTAGTGTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 1 0.01
98 72 0.99
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (98 bp):
TATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTACCTAGTTTAAAGCAATAGGTA
ACGTCTATTTAACATAATAAGTAACGCCTATTT
Found at i:99368 original size:121 final size:121
Alignment explanation
Indices: 99149--99369 Score: 343
Period size: 121 Copynumber: 1.8 Consensus size: 121
99139 CGGTAGCTAG
*
99149 TTTAACGCAATATGTAACGTCTATTTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACA
1 TTTAACGCAATAGGTAACGTCTATTTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACA
* *
99214 TTATTATTAACCTTTAAACAAATCGGTACCTAGTTTAAAGTAATAGGTAGCGCTTA
66 TTATTATTAACCTTTAAACAAACCAGTACCTAGTTTAAAGTAATAGGTAGCGCTTA
* ** * * **
99270 TTTAACGTAATAGGTAGTGTCTATTTAACATAATAGGTAGCGCCTATTTTATTTTGTCGTTTACA
1 TTTAACGCAATAGGTAACGTCTATTTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACA
*
99335 TTATTATTAACCTTTAAACAAACCAGTAGCTAGTT
66 TTATTATTAACCTTTAAACAAACCAGTACCTAGTT
99370 GAACATAGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 89 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (121 bp):
TTTAACGCAATAGGTAACGTCTATTTAACATAATAAGTAACGCCTATTTTATTTTACCGTTTACA
TTATTATTAACCTTTAAACAAACCAGTACCTAGTTTAAAGTAATAGGTAGCGCTTA
Found at i:99393 original size:75 final size:75
Alignment explanation
Indices: 99293--99774 Score: 533
Period size: 75 Copynumber: 6.4 Consensus size: 75
99283 GTAGTGTCTA
* ** *
99293 TTTAACATAATAGGTAGCGCCTATTTTATTTTGTCGTTTACATTATTATTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
* *
99358 CAGTAGCTAG
66 CGGTAGATAG
* * * *
99368 TTGAACATAGTAGGTAGCTCCTATTTTATTTTACCGTTTACAATATTATTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
* *
99433 TGGTAGCTAG
66 CGGTAGATAG
* * * * ** *
99443 TTTAACGTAATAGATAGCGCCTGTTTTATTTTACCGTTTACATTATTAGTAGTCTTTAAACAAAT
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
*
99508 TGGTAGATAG
66 CGGTAGATAG
* * * * *
99518 TTTAACGTAATAGGTAG-TGTCTATTTTATTTTACTGTTTACATTATCAGTAACCTTTAAACACA
1 TTTAACATAATAGGTAGCT-CCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAA
*
99582 CCGGTAGATAT
65 CCGGTAGATAG
* * * *
99593 TTTAA-ATTAATAGATA--TCGCTATTTTATTTTGCCGTTTATATTATTAATAACCTTTAAACAA
1 TTTAACA-TAATAGGTAGCTC-CTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAA
* *
99655 ACCGGTAGGTAT
64 ACCGGTAGATAG
* * * * *
99667 TTTAACGTAATAAGTAGCGCCTATTTTATTTTATCGTTTACATTATTAGTAACCTTCAAACAAAC
1 TTTAACATAATAGGTAGCTCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
* *
99732 CAGTAGGTAG
66 CGGTAGATAG
*
99742 TTTAACATAATATGTAGCGT-CTATTTTATTTTA
1 TTTAACATAATAGGTAGC-TCCTATTTTATTTTA
99775 ACCGGTTAAG
Statistics
Matches: 344, Mismatches: 56, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
74 61 0.18
75 282 0.82
76 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (75 bp):
TTTAACATAATAGGTAGCTCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
CGGTAGATAG
Found at i:99696 original size:224 final size:225
Alignment explanation
Indices: 99293--99774 Score: 623
Period size: 224 Copynumber: 2.1 Consensus size: 225
99283 GTAGTGTCTA
* * * *
99293 TTTAACATAATAGGTAGCGCCTATTTTATTTT-GTCGTTTACATTATTATTAACCTTTAAACAAA
1 TTTAACATAATAGGTAGCGTCTATTTTATTTTACTCGTTTACATTATCAGTAACCTTTAAACAAA
* * * *
99357 CCAGTAGCTAGTTGAACATAGTAGGTAGCTCCTATTTTATTTTACCGTTTACAATATTATTAACC
66 CCAGTAGATAGTTGAACATAATAGATA-CTCCTATTTTATTTTACCGTTTACAATATTAATAACC
* *
99422 TTTAAACAAACTGGTAGCTAGTTTAACGTAATAGATAGCGCCTGTTTTATTTTACCGTTTACATT
130 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGATAGCGCCTATTTTATTTTACCGTTTACATT
** * ***
99487 ATTAGTAGTCTTTAAACAAATTGGTAGATAG
195 ATTAGTAACCTTCAAACAAACCAGTAGATAG
* * *
99518 TTTAACGTAATAGGTAGTGTCTATTTTATTTTACT-GTTTACATTATCAGTAACCTTTAAACACA
1 TTTAACATAATAGGTAGCGTCTATTTTATTTTACTCGTTTACATTATCAGTAACCTTTAAACAAA
* * * * * *
99582 CCGGTAGATATTTTAA-ATTAATAGATA-TCGCTATTTTATTTTGCCGTTTATATTATTAATAAC
66 CCAGTAGATAGTTGAACA-TAATAGATACTC-CTATTTTATTTTACCGTTTACAATATTAATAAC
* * *
99645 CTTTAAACAAACCGGTAGGTATTTTAACGTAATA-AGTAGCGCCTATTTTATTTTATCGTTTACA
129 CTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGA-TAGCGCCTATTTTATTTTACCGTTTACA
*
99709 TTATTAGTAACCTTCAAACAAACCAGTAGGTAG
193 TTATTAGTAACCTTCAAACAAACCAGTAGATAG
*
99742 TTTAACATAATATGTAGCGTCTATTTTATTTTA
1 TTTAACATAATAGGTAGCGTCTATTTTATTTTA
99775 ACCGGTTAAG
Statistics
Matches: 221, Mismatches: 32, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
223 3 0.01
224 143 0.65
225 74 0.33
226 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (225 bp):
TTTAACATAATAGGTAGCGTCTATTTTATTTTACTCGTTTACATTATCAGTAACCTTTAAACAAA
CCAGTAGATAGTTGAACATAATAGATACTCCTATTTTATTTTACCGTTTACAATATTAATAACCT
TTAAACAAACCGGTAGCTAGTTTAACGTAATAGATAGCGCCTATTTTATTTTACCGTTTACATTA
TTAGTAACCTTCAAACAAACCAGTAGATAG
Found at i:101346 original size:3 final size:3
Alignment explanation
Indices: 101338--101362 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
101328 TCTTCGGGGA
101338 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
101363 AGGGTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:101603 original size:24 final size:24
Alignment explanation
Indices: 101552--101603 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
101542 ATCCGAGTAT
** *
101552 TGACCAAGATCAAATTTCGGGTAT
1 TGACCAAGATCAAATTTCGAATAC
*
101576 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAATTTCGAATAC
101600 TGAC
1 TGAC
101604 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (24 bp):
TGACCAAGATCAAATTTCGAATAC
Found at i:102376 original size:14 final size:15
Alignment explanation
Indices: 102340--102377 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
102330 GCAATCATTG
102340 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
102355 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
102370 AAAAATTA
1 AAAAATTA
102378 GAGATGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:102563 original size:20 final size:20
Alignment explanation
Indices: 102515--102582 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
102505 CAAAACATTT
* *
102515 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAAACAAAATTC
**
102534 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAACAAAATTC
*
102553 GTGTTGTGAAAACAAAATTC
1 GTGTTGCGAAAACAAAATTC
102573 GTGTTGCGAA
1 GTGTTGCGAA
102583 TTAGAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.37
19 1 0.02
20 25 0.61
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
GTGTTGCGAAAACAAAATTC
Found at i:102640 original size:20 final size:20
Alignment explanation
Indices: 102594--102662 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
102584 TAGAAAATTT
* * *
102594 TGTTGCAAAAAGGCAACTTA
1 TGTTGCGAAAAGGAAACTTG
102614 TGTTGCGAAAAGGAAACTTG
1 TGTTGCGAAAAGGAAACTTG
102634 TGTTGCGAGAAA-GAAA-TTCG
1 TGTTGCGA-AAAGGAAACTT-G
102654 TGTTGCGAA
1 TGTTGCGAA
102663 TTTGGAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (20 bp):
TGTTGCGAAAAGGAAACTTG
Found at i:102695 original size:20 final size:20
Alignment explanation
Indices: 102635--102702 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
102625 GGAAACTTGT
*
102635 GTTGCGAGAAAGAAATTCGT
1 GTTGCGAGAAAGAAATTCGC
** *
102655 GTTGCGA-ATTTGGAAAATCGC
1 GTTGCGAGA--AAGAAATTCGC
102676 GTTGCGAGAAAGAAATTCGC
1 GTTGCGAGAAAGAAATTCGC
102696 GTTGCGA
1 GTTGCGA
102703 ATACAGAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 1 0.03
20 22 0.58
21 14 0.37
22 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (20 bp):
GTTGCGAGAAAGAAATTCGC
Found at i:102719 original size:20 final size:20
Alignment explanation
Indices: 102696--102743 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
102686 AGAAATTCGC
102696 GTTGCGAATACAGAAACTGA
1 GTTGCGAATACAGAAACTGA
*** *
102716 GTTGCGAATTTGGAAACTGT
1 GTTGCGAATACAGAAACTGA
102736 GTTGCGAA
1 GTTGCGAA
102744 ATTAGAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (20 bp):
GTTGCGAATACAGAAACTGA
Found at i:103887 original size:43 final size:41
Alignment explanation
Indices: 103840--104143 Score: 211
Period size: 43 Copynumber: 7.1 Consensus size: 41
103830 AGTATAGTTG
*
103840 AAAAAATTAGGGACATCAATTATAAAGGTAAAATGTGAGATTA
1 AAAAAATTAGGG-CCTCAATTATAAAGGTAAAA-GTGAGATTA
* * * *
103883 AAAAATTTGGGGGCCTCAATTGTAAAGGTAAAATATGAGATTGA
1 AAAAAATT-AGGGCCTCAATTATAAAGGTAAAA-GTGAGATT-A
* ** * * *
103927 AAAAAAGTATAGCCTAAATTATATAA-GTAAAAAATG-GAATTG
1 AAAAAATTAGGGCCTCAATTATA-AAGGT-AAAAGTGAG-ATTA
* *
103969 AAAAAACTAGGGGTCC-AAATTATAAAGGTTAAAAGTGAGATTA
1 AAAAAATTA-GGG-CCTCAATTATAAAGG-TAAAAGTGAGATTA
* * * *
104012 AAAAAATTAGAGCCTTAATTATAAAGTTAGAAAGTGATATTA
1 AAAAAATTAGGGCCTCAATTATAAAGGTA-AAAGTGAGATTA
* ** * *
104054 AAAAAATTATGAG-CTCAATTATAAAAATACAAAGTGGGATTG
1 AAAAAATTA-GGGCCTCAATTATAAAGGTA-AAAGTGAGATTA
* * *
104096 AAAAACTTAGGGTCATCAATTATAAATGTAAAAAGTGAGATTA
1 AAAAAATTAGGG-CCTCAATTATAAAGGT-AAAAGTGAGATTA
104139 AAAAA
1 AAAAA
104144 TTAAGGAGTT
Statistics
Matches: 208, Mismatches: 37, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
41 6 0.03
42 73 0.35
43 108 0.52
44 21 0.10
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (41 bp):
AAAAAATTAGGGCCTCAATTATAAAGGTAAAAGTGAGATTA
Found at i:103930 original size:85 final size:84
Alignment explanation
Indices: 103841--104145 Score: 203
Period size: 85 Copynumber: 3.6 Consensus size: 84
103831 GTATAGTTGA
* *
103841 AAAAATTAGGGACATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAATTGT
1 AAAAATTAGAGACATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAATTAT
*
103906 AAAGGTAAAATATGAGATTG
66 AAAGGTAAAA-GTGAGATTG
* * * * * * * *
103926 AAAAA-AAGTATAGCCTAAATTATATAA-GTAAAAAATG-GA-ATTGAAAAAACTAGGGGTCC-A
1 AAAAATTAG-AGA-CATCAATTATA-AAGGT--AAAATGTGAGATT-AAAAAATTTGGGGGCCTC
*
103986 AATTATAAAGGTTAAAAGTGAGATTAA
60 AATTATAAAGG-TAAAAGTGAGATT-G
* * * * * ** *
104013 AAAAATTAGAG-CCTTAATTATAAAGTTAGAAA-GTGATATTAAAAAAATTATGAG-CTCAATTA
1 AAAAATTAGAGACATCAATTATAAAGGTA-AAATGTGAGATTAAAAAATTTGGGGGCCTCAATTA
** *
104075 TAAAAATACAAAGTGGGATTG
65 TAAAGGTA-AAAGTGAGATTG
* * * *
104096 AAAAACTTAGGGTCATCAATTATAAATGTAAAAAGTGAGATTAAAAAATT
1 AAAAA-TTAGAGACATCAATTATAAAGGTAAAATGTGAGATTAAAAAATT
104146 AAGGAGTTTA
Statistics
Matches: 168, Mismatches: 34, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
83 10 0.06
84 44 0.26
85 47 0.28
86 31 0.18
87 28 0.17
88 8 0.05
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.27
Consensus pattern (84 bp):
AAAAATTAGAGACATCAATTATAAAGGTAAAATGTGAGATTAAAAAATTTGGGGGCCTCAATTAT
AAAGGTAAAAGTGAGATTG
Found at i:104159 original size:21 final size:22
Alignment explanation
Indices: 104135--104189 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
104125 AAAAAGTGAG
** *
104135 ATTA-AAAAATTAAGGAGTTTA
1 ATTACAAAAATTAAAAAATTTA
*
104156 ATTATAAAAA-TAAAAAATTTA
1 ATTACAAAAATTAAAAAATTTA
104177 ATTACAAAAATTA
1 ATTACAAAAATTA
104190 GGGACATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
ATTACAAAAATTAAAAAATTTA
Found at i:104172 original size:43 final size:42
Alignment explanation
Indices: 103999--104171 Score: 163
Period size: 42 Copynumber: 4.1 Consensus size: 42
103989 TATAAAGGTT
**
103999 AAAAGTGAGATTAAAAAAATTA-GAGCCTTAATTATAAAGTTA
1 AAAAGTGAGATTAAAAAAATTAGGAG-CTTAATTATAAAAATA
* * * *
104041 GAAAGTGATATTAAAAAAATTATGAGCTCAATTATAAAAATA
1 AAAAGTGAGATTAAAAAAATTAGGAGCTTAATTATAAAAATA
* * * * * **
104083 CAAAGTGGGATTGAAAAACTTAGG-GTCATCAATTATAAATGTA
1 AAAAGTGAGATTAAAAAAATTAGGAG-C-TTAATTATAAAAATA
*
104126 AAAAGTGAGATT-AAAAAATTAAGGAGTTTAATTATAAAAATA
1 AAAAGTGAGATTAAAAAAATT-AGGAGCTTAATTATAAAAATA
104168 AAAA
1 AAAA
104172 ATTTAATTAC
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 75 0.71
43 29 0.27
44 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.28
Consensus pattern (42 bp):
AAAAGTGAGATTAAAAAAATTAGGAGCTTAATTATAAAAATA
Found at i:110552 original size:23 final size:23
Alignment explanation
Indices: 110509--110552 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
110499 TTAAAATAAT
* *
110509 TATTTTAGATTTTGTTTTTTTAA
1 TATTTTAGATTTTATTATTTTAA
110532 TATTTTA-ATTTATATTATTTT
1 TATTTTAGATTT-TATTATTTT
110553 TCTAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (23 bp):
TATTTTAGATTTTATTATTTTAA
Found at i:110576 original size:26 final size:26
Alignment explanation
Indices: 110523--110578 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
110513 TTAGATTTTG
* ** *
110523 TTTTTTTAATATTTTAATTTATATTA
1 TTTTTCTAATATTTTAACATATAATA
*
110549 TTTTTCTAATATTTTAACATCTAATA
1 TTTTTCTAATATTTTAACATATAATA
110575 TTTT
1 TTTT
110579 ATTTTATGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTCTAATATTTTAACATATAATA
Found at i:114756 original size:10 final size:10
Alignment explanation
Indices: 114743--114785 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
114733 TACATAGATA
114743 TATATGTATG
1 TATATGTATG
*
114753 TATATGTGTG
1 TATATGTATG
* *
114763 TATATATATA
1 TATATGTATG
114773 TATATGTATG
1 TATATGTATG
114783 TAT
1 TAT
114786 TTATATATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (10 bp):
TATATGTATG
Found at i:114776 original size:20 final size:20
Alignment explanation
Indices: 114743--114793 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
114733 TACATAGATA
* * *
114743 TATATGTATGTATATGTGTG
1 TATATATATATATATGTATG
114763 TATATATATATATATGTATG
1 TATATATATATATATGTATG
*
114783 TATTTATATAT
1 TATATATATAT
114794 CTTGAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (20 bp):
TATATATATATATATGTATG
Found at i:115199 original size:14 final size:14
Alignment explanation
Indices: 115180--115247 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
115170 TCAAATATGA
115180 AATATATATTAAAT
1 AATATATATTAAAT
115194 AATATA-ATATAAAT
1 AATATATAT-TAAAT
* *
115208 TATAAAATATTATAAT
1 AAT-ATATATTA-AAT
115224 AATATAT-TT--AT
1 AATATATATTAAAT
*
115235 AATATAGATTAAA
1 AATATATATTAAA
115248 AATTATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
11 8 0.19
12 2 0.05
13 2 0.05
14 16 0.38
15 7 0.17
16 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (14 bp):
AATATATATTAAAT
Found at i:115204 original size:19 final size:18
Alignment explanation
Indices: 115180--115260 Score: 56
Period size: 19 Copynumber: 4.4 Consensus size: 18
115170 TCAAATATGA
115180 AATATATATTAAATAATAT
1 AATATATATTAAA-AATAT
*
115199 AATATAAATTATAAAATAT
1 AATATATATTA-AAAATAT
* * * **
115218 TATA-ATAATATATTTAT
1 AATATATATTAAAAATAT
*
115235 AATATAGATTAAAAATTAT
1 AATATATATTAAAAA-TAT
*
115254 AAAATAT
1 AATATAT
115261 TCAATTTGGG
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
17 7 0.16
18 9 0.20
19 26 0.59
20 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
AATATATATTAAAAATAT
Found at i:118154 original size:15 final size:15
Alignment explanation
Indices: 118134--118165 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
118124 AAAAACAGTT
118134 AATATTTTCCCGGCA
1 AATATTTTCCCGGCA
118149 AATATTTTCCCGGCA
1 AATATTTTCCCGGCA
118164 AA
1 AA
118166 AAAACTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (15 bp):
AATATTTTCCCGGCA
Found at i:121582 original size:22 final size:19
Alignment explanation
Indices: 121552--121619 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 19
121542 GCAAAGAAAC
121552 TAAAAATATAATGAAAATAAA
1 TAAAAATATAAT-AAAAT-AA
121573 TAAATAATATAAATAAAATAA
1 TAAA-AATAT-AATAAAATAA
*
121594 TAAAAA-AT-AT-ATAT-A
1 TAAAAATATAATAAAATAA
121609 TAAAAATATAA
1 TAAAAATATAA
121620 AAATGTATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
15 7 0.17
16 5 0.12
17 3 0.07
19 2 0.05
20 2 0.05
21 10 0.24
22 10 0.24
23 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (19 bp):
TAAAAATATAATAAAATAA
Found at i:121593 original size:14 final size:14
Alignment explanation
Indices: 121568--121612 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
121558 TATAATGAAA
121568 ATAAAT-AAATAAT
1 ATAAATAAAATAAT
121581 ATAAATAAAATAAT
1 ATAAATAAAATAAT
*
121595 A-AAA-AATATATAT
1 ATAAATAAAATA-AT
121608 ATAAA
1 ATAAA
121613 AATATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 12 0.43
14 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATAAAATAAT
Found at i:121613 original size:14 final size:13
Alignment explanation
Indices: 121552--121619 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 13
121542 GCAAAGAAAC
121552 TAAAAATATAATGA
1 TAAAAATATAAT-A
*
121566 AAATAAATAAATAATA
1 TAA-AAAT--ATAATA
*
121582 TAAATAAAATAATA
1 TAAA-AATATAATA
121596 -AAAAATATATATA
1 TAAAAATATA-ATA
121609 TAAAAATATAA
1 TAAAAATATAA
121620 AAATGTATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
12 5 0.11
13 7 0.16
14 17 0.39
15 5 0.11
16 5 0.11
17 5 0.11
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (13 bp):
TAAAAATATAATA
Found at i:121616 original size:21 final size:23
Alignment explanation
Indices: 121557--121643 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 23
121547 GAAACTAAAA
*
121557 ATATAATGAAAATAAATAAATAATAT
1 ATATAAT-ATAATAAA-AAAT-ATAT
* *
121583 AAATAAAATAATAAAAAATATAT
1 ATATAATATAATAAAAAATATAT
*
121606 ATATAA-A-AATATAAAAATGTAT
1 ATATAATATAATA-AAAAATATAT
*
121628 GTATAATATAATAAAA
1 ATATAATATAATAAAA
121644 TACTAAATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.08
22 15 0.29
23 13 0.25
24 8 0.15
25 7 0.13
26 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (23 bp):
ATATAATATAATAAAAAATATAT
Found at i:121644 original size:29 final size:26
Alignment explanation
Indices: 121570--121650 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 26
121560 TAATGAAAAT
*
121570 AAATAAATAATATAAATAAAATAATAAA
1 AAATATATAATAT-AATAAAAT-ATAAA
121598 AAATATAT-ATAT-A-AAAATATAAA
1 AAATATATAATATAATAAAATATAAA
*
121621 AATGTATGTATAATATAATAAAATACTAAA
1 AA---ATATATAATATAATAAAATA-TAAA
121651 TAGTAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
23 7 0.16
24 5 0.11
25 1 0.02
26 5 0.11
27 8 0.18
28 8 0.18
29 6 0.14
30 4 0.09
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATATATAATATAATAAAATATAAA
Found at i:121874 original size:25 final size:25
Alignment explanation
Indices: 121824--121875 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
121814 TAATAATAAT
*
121824 ATAATATATATATAATAATAGGAAA
1 ATAATATATATATAATAATAGAAAA
121849 ATAATATA-ATATAACGTAA-AGAAAA
1 ATAATATATATATAA--TAATAGAAAA
121874 AT
1 AT
121876 GAAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
25 15 0.62
26 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAATATATATATAATAATAGAAAA
Found at i:122378 original size:37 final size:37
Alignment explanation
Indices: 122337--122425 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 37
122327 TGATCTTATC
** * * *
122337 TTTAGGAGTTTAAATAATAGTAGAACTCTATTCTATT
1 TTTAGGAGTTTAAATAATAACAAAACTATATCCTATT
* * ** *
122374 TTTAGGAATTTGAATCCTAACAAAATTATATCCTATT
1 TTTAGGAGTTTAAATAATAACAAAACTATATCCTATT
122411 TTTAGGAGTTTAAAT
1 TTTAGGAGTTTAAAT
122426 CTTAGTAAGA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (37 bp):
TTTAGGAGTTTAAATAATAACAAAACTATATCCTATT
Found at i:123708 original size:22 final size:22
Alignment explanation
Indices: 123656--123715 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
123646 CAAAGAAACT
123656 AAAAATAT-AATGAAAATAAATA
1 AAAAATATAAAT-AAAATAAATA
* *
123678 AATAGTATAAATAAAAT-AATAA
1 AAAAATATAAATAAAATAAAT-A
*
123700 AAAAATATATATAAAA
1 AAAAATATAAATAAAA
123716 ATGTATGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATATAAATAAAATAAATA
Found at i:132395 original size:50 final size:47
Alignment explanation
Indices: 132308--132407 Score: 155
Period size: 50 Copynumber: 2.1 Consensus size: 47
132298 GAATAAGTGT
* *
132308 TAAATGTTTTACATAATAAATTGAAGTAGTGTTAAAGTAAGGGGGAG
1 TAAATGTTTTACATAAAAAATAGAAGTAGTGTTAAAGTAAGGGGGAG
132355 TAAATGTTTTACATAAGAAGAATAAGAAGTAGTGTTAAAGTAAGGGGGAG
1 TAAATGTTTTACATAA-AA-AAT-AGAAGTAGTGTTAAAGTAAGGGGGAG
132405 TAA
1 TAA
132408 TTTCAAAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 16 0.33
48 1 0.02
49 3 0.06
50 28 0.58
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.29
Consensus pattern (47 bp):
TAAATGTTTTACATAAAAAATAGAAGTAGTGTTAAAGTAAGGGGGAG
Found at i:135410 original size:3 final size:3
Alignment explanation
Indices: 135402--135444 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
135392 TTAGCTAAAA
135402 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
135445 ATCTAAGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:138993 original size:172 final size:171
Alignment explanation
Indices: 138493--139012 Score: 583
Period size: 174 Copynumber: 3.0 Consensus size: 171
138483 TTTACAAGGA
* * *
138493 AAAATGCATATGTAACCGAAACAACTTGGAACTAAAATGCAATAGTGAAAAATATCTCAGAAGAT
1 AAAATGCATATGAAACCGAGACAA-TTGGAACTAAAATACAATAGTG-AAAATATCTCAGAAGAT
* * * *
138558 ATGCAAGATGAAATATCCAACAACAGAGGCCGAATAC-AGACATCAAAATAGAATAAATTATACT
64 ATGCAAGATGAAATATCCAACAACAGAGGCCGAATACAAAAC-GCAAAATAGAAGAAATTCTACT
*
138622 AAAGTTCCCCGCAGGTAGGACAAACAGAACAAGCAAAAACAACA-
128 AAAGTTTCCCGCAGGTA-GACAAACAGAACAAGCAAAAACAACAT
* * * * * *
138666 AATGATGCATATGAAACC--GA-AA--CGAACTAAATTTCAACAGTGAAAGTATCTCAGAAGATA
1 AA-AATGCATATGAAACCGAGACAATTGGAACTAAAATACAATAGTGAAAATATCTCAGAAGATA
138726 TGCAAGATGAAATATCCAAATTCCAACAATGAAGGCCGAATACAGAAA-GCAAAATAGAAGAAAT
65 TGCAAGATGAAATATCC-AA---CAAC-A-G-AGGCCGAATACA-AAACGCAAAATAGAAGAAAT
*
138790 TCTACTAAAGTTTCCCGCAGCTATGACAAACAGAACAAGCAAAAACAACAT
122 TCTACTAAAGTTTCCCGCAGGTA-GACAAACAGAACAAGCAAAAACAACAT
* *
138841 AAAATGCATAT-AGAACCGAGACAATTTGGAACTAAAATACAATAGTGAAAACATCTAAGAAGAT
1 AAAATGCATATGA-AACCGAGACAA-TTGGAACTAAAATACAATAGTGAAAATATCTCAGAAGAT
* * * * * * *
138905 ATGCCAGACGAAAGAT-CAACAACAGAGGCCGAATACAAAACGCAATATAAAAGAAATTCTTCTG
64 ATGCAAGATGAAATATCCAACAACAGAGGCCGAATACAAAACGCAAAATAGAAGAAATTCTACTA
* *
138969 AAGTTTCTCGCAGGTAGAACAAACAGAACAAGCAAAAGCAACAT
129 AAGTTTCCCGCAGGTAG-ACAAACAGAACAAGCAAAAACAACAT
139013 GCAAAATCCA
Statistics
Matches: 294, Mismatches: 33, Indels: 41
0.80 0.09 0.11
Matches are distributed among these distances:
167 34 0.12
168 18 0.06
171 10 0.03
172 72 0.24
173 5 0.02
174 97 0.33
175 6 0.02
176 4 0.01
177 2 0.01
178 2 0.01
179 1 0.00
180 43 0.15
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.17
Consensus pattern (171 bp):
AAAATGCATATGAAACCGAGACAATTGGAACTAAAATACAATAGTGAAAATATCTCAGAAGATAT
GCAAGATGAAATATCCAACAACAGAGGCCGAATACAAAACGCAAAATAGAAGAAATTCTACTAAA
GTTTCCCGCAGGTAGACAAACAGAACAAGCAAAAACAACAT
Found at i:140697 original size:21 final size:21
Alignment explanation
Indices: 140671--140715 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
140661 GATTTCTGGG
* *
140671 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
140692 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
140713 CAA
1 CAA
140716 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:142558 original size:23 final size:23
Alignment explanation
Indices: 142528--142618 Score: 155
Period size: 23 Copynumber: 4.0 Consensus size: 23
142518 ATTATTATAT
142528 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
142551 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
142574 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
142597 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
142619 AGCTGTGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.24
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:150649 original size:24 final size:22
Alignment explanation
Indices: 150600--150641 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
150590 ACAGAATGTC
150600 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
150621 CAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
150642 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:152446 original size:103 final size:103
Alignment explanation
Indices: 152267--152466 Score: 364
Period size: 103 Copynumber: 1.9 Consensus size: 103
152257 CTACGCGGTC
* *
152267 CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTT
1 CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACGTGATCCCT
*
152332 GGCATATGTATATGATTCTTAAGGAATGATATGTGGTT
66 AGCATATGTATATGATTCTTAAGGAATGATATGTGGTT
152370 CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACGTGATCCCT
1 CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACGTGATCCCT
*
152435 AGTATATGTATATGATTCTTAAGGAATGATAT
66 AGCATATGTATATGATTCTTAAGGAATGATAT
152467 ATAGTCCTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACGTGATCCCT
AGCATATGTATATGATTCTTAAGGAATGATATGTGGTT
Found at i:152525 original size:23 final size:23
Alignment explanation
Indices: 152492--152554 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
152482 ATTATTATAT
152492 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGTAATTCTACGC
* * *
152515 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGTAATTCTACGC
* *
152538 GGCACTTCAGTGTAATT
1 GGCACTACGGTGTAATT
152555 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGTAATTCTACGC
Found at i:154098 original size:64 final size:63
Alignment explanation
Indices: 154009--154287 Score: 237
Period size: 64 Copynumber: 4.3 Consensus size: 63
153999 ATGCACATTC
**
154009 ATAAGTGCATCGATGCATTCC-TTTAA-AAGAAGAACATCGAATGCCTTTGATGCATCGATGCAT
1 ATAA-TGCATCGATGCA-TCCTTTTAATAAGAAGAACATCGAATGCAATT-ATGCATCGATGCAT
154072 A
63 A
* * *
154073 GATAATGCATCGATGCATCCTTTTAA-AATAATAACATCGAATGCAATCAATGCATCGATGCATA
1 -ATAATGCATCGATGCATCCTTTTAATAAGAAGAACATCGAATGCAAT-TATGCATCGATGCATA
* * * ** * *
154137 AGGAGTGCATCAATGCATCCCATTAATAA-TAGAACATCAAATGCAATTAGTGCATCGATGCATA
1 A-TAATGCATCGATGCATCCTTTTAATAAGAAGAACATCGAATGCAATTA-TGCATCGATGCATA
* * * * * *
154201 AGATATGCATCGATGCAT-CTCATTAATAAGGA-AACATCGAATGCATTTTATGCACCGATGCAC
1 ATA-ATGCATCGATGCATCCT-TTTAATAAGAAGAACATCGAATGCA-ATTATGCATCGATGCAT
154264 A
63 A
*
154265 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
154288 CATTGAAAGA
Statistics
Matches: 177, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
63 8 0.05
64 156 0.88
65 11 0.06
66 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAATAAGAAGAACATCGAATGCAATTATGCATCGATGCATA
Found at i:154154 original size:128 final size:128
Alignment explanation
Indices: 154012--154287 Score: 319
Period size: 128 Copynumber: 2.2 Consensus size: 128
154002 CACATTCATA
* * * *
154012 AGTGCATCGATGCATTCCTTTAA-AAGAAGAACATCGAATGC-CTTTGATGCATCGATGCAT-AG
1 AGTGCATCGATGCATACCTTTAATAA-AAGAACATCAAATGCAATTAG-TGCATCGATGCATAAG
* * * *
154074 ATAATGCATCGATGCATC-CTTTTAA-AATAATAACATCGAATGCAATCAATGCATCGATGCATA
64 AT-ATGCATCGATGCATCTC-ATTAATAAGAA-AACATCGAATGCAATCAATGCACCGATGCACA
154137 AGG
126 AGG
* * * *
154140 AGTGCATCAATGCATCCCATTAATAATAGAACATCAAATGCAATTAGTGCATCGATGCATAAGAT
1 AGTGCATCGATGCATACCTTTAATAAAAGAACATCAAATGCAATTAGTGCATCGATGCATAAGAT
* * ** *
154205 ATGCATCGATGCATCTCATTAATAAGGAAACATCGAATGCATTTTATGCACCGATGCACAAGT
66 ATGCATCGATGCATCTCATTAATAAGAAAACATCGAATGCAATCAATGCACCGATGCACAAGG
154268 AGTGCATCGATGCATACCTT
1 AGTGCATCGATGCATACCTT
154288 CATTGAAAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
128 111 0.90
129 13 0.10
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (128 bp):
AGTGCATCGATGCATACCTTTAATAAAAGAACATCAAATGCAATTAGTGCATCGATGCATAAGAT
ATGCATCGATGCATCTCATTAATAAGAAAACATCGAATGCAATCAATGCACCGATGCACAAGG
Found at i:158369 original size:45 final size:45
Alignment explanation
Indices: 158319--158421 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
158309 CATTCATAAG
** **
158319 TGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCCTTTGA
1 TGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCAATCAA
* * *
158364 TGCATCGATGCATTCTTTTAAAATAATAACATCGAATGCAATCAA
1 TGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCAATCAA
158409 TGCATCGATGCAT
1 TGCATCGATGCAT
158422 AAGGAGTGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (45 bp):
TGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCAATCAA
Found at i:158440 original size:64 final size:63
Alignment explanation
Indices: 158364--158568 Score: 218
Period size: 64 Copynumber: 3.2 Consensus size: 63
158354 ATGCCTTTGA
* *
158364 TGCATCGATGCATTCTTTTAA-AATAATAACATCGAATGCAATCAATGCATCGATGCATAAGGAG
1 TGCATCGATGCATTCTATTAATAAT-A-AACATCGAATGCAATTAATGCATCGATGCATAAGGAG
* * * * *
158428 TGCATCAATGCATCCCATTAATAATAGAACATCAAATGCAATTAGTGCATCGATGCATAAGGTA-
1 TGCATCGATGCATTCTATTAATAATA-AACATCGAATGCAATTAATGCATCGATGCATAAGG-AG
* * * * * *
158492 TGCATCGATGCA-TCTCATTAATAAGGAAACATCGAATGCATTTTATGCACCGATGCACAAGTAG
1 TGCATCGATGCATTCT-ATTAATAA-TAAACATCGAATGCAATTAATGCATCGATGCATAAGGAG
158556 TGCATCGATGCAT
1 TGCATCGATGCAT
158569 ACCTTCATTG
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
63 2 0.02
64 109 0.94
65 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATTCTATTAATAATAAACATCGAATGCAATTAATGCATCGATGCATAAGGAG
Found at i:162570 original size:22 final size:22
Alignment explanation
Indices: 162523--162570 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
162513 ACAGAATGTC
162523 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* * *
162544 CAGGAGGGAACCGATTCCCCTA
1 AAGGAGGGAACCGATACCCCCA
162566 AAGGA
1 AAGGA
162571 AAATTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.33, C:0.29, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:164368 original size:103 final size:103
Alignment explanation
Indices: 164179--164389 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 103
164169 GTTGAGGGTC
* *
164179 TATGCGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
164244 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
164282 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
164347 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
164385 TATGT
1 TATGT
164390 AGTCCTTATG
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:164439 original size:23 final size:23
Alignment explanation
Indices: 164413--164475 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
164403 ATAATTATAT
164413 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
164436 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
164459 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
164476 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:165577 original size:23 final size:23
Alignment explanation
Indices: 165548--165622 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
165538 TTTAATATTT
*
165548 AATATATTTATTAATATAATACG
1 AATATATTTATTAATATAATACA
* * * **
165571 AATATATAATATAAAATATTATATT
1 AATATAT-TTAT-TAATATAATACA
* *
165596 CATATTTTTATTAATATAATACA
1 AATATATTTATTAATATAATACA
165619 AATA
1 AATA
165623 GTAATTTTTT
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
23 18 0.49
24 6 0.16
25 13 0.35
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (23 bp):
AATATATTTATTAATATAATACA
Found at i:174851 original size:14 final size:14
Alignment explanation
Indices: 174832--174887 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
174822 CGTTCGTGAA
174832 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
174846 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
174859 --TT-GTTTATGTT
1 CGTTCGATTATGTT
174870 CGTTCGATTATGTT
1 CGTTCGATTATGTT
174884 CGTT
1 CGTT
174888 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:174866 original size:24 final size:24
Alignment explanation
Indices: 174839--174908 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
174829 GAACGTTCGA
*
174839 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
174863 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
174887 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
174909 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:175646 original size:10 final size:10
Alignment explanation
Indices: 175631--175689 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
175621 GGGTCTCCAA
175631 CGTTTATGTT
1 CGTTTATGTT
175641 CGTTTATGTT
1 CGTTTATGTT
175651 CG----TGTT
1 CGTTTATGTT
175657 CGTTTATGTT
1 CGTTTATGTT
175667 CG----TGTT
1 CGTTTATGTT
175673 CGTTTATGTT
1 CGTTTATGTT
175683 CGTTTAT
1 CGTTTAT
175690 TTATTAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
6 12 0.29
10 29 0.71
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:175658 original size:16 final size:16
Alignment explanation
Indices: 175637--175685 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
175627 CCAACGTTTA
175637 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
175653 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
175669 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
175685 T
1 T
175686 TTATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:175682 original size:26 final size:26
Alignment explanation
Indices: 175631--175689 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
175621 GGGTCTCCAA
* *
175631 CGTTTATGTTCGTTTATGTTCGTGTT
1 CGTTTATGTTCGTTTACGTTCATGTT
*
175657 CGTTTATGTTCGTGTT-CGTTTATGTT
1 CGTTTATGTTCGT-TTACGTTCATGTT
175683 CGTTTAT
1 CGTTTAT
175690 TTATTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (26 bp):
CGTTTATGTTCGTTTACGTTCATGTT
Found at i:175776 original size:16 final size:16
Alignment explanation
Indices: 175755--175787 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
175745 AAAAAAAATT
175755 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
175771 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
175787 T
1 T
175788 CTATTTATTA
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:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:192772 original size:201 final size:200
Alignment explanation
Indices: 192389--192801 Score: 431
Period size: 201 Copynumber: 2.1 Consensus size: 200
192379 AAGTCTAAAT
* * * * *
192389 ATGTTGTACATTGCTAACGAGTGTTGGCACAAGTGGTTGGGATTTATGAATTTGAGCTTATAAGA
1 ATGTTGTACATTGCCAACGAGTGTTGGCACAAGTGGTTGAGATTCATGAATTTAAACTTATAAGA
* * * * *
192454 TCAAGTTCGAATCCTACCATCGTGACTCCCTATGGGCAATCTGTAAATTCCTACGTAAATCCCAA
66 CCAAGTTCGAATCCTACCATCGTCACTCCCTATGGACAATCTGTAAATTCCAACATAAATCCCAA
* ** * * ** * *
192519 TTGGGTCTTAGGTATGCCCTGACCCTGGATTCGGGAGTTACTCTTGACCTAAACTTTTATGT-CT
131 TTGAGTAGTAAGTATGCCCTGACCCTGGACTCGGGAGCCACCCTTGACCTAAA-TTTT-TGTAAT
*
192583 CAAAAAA
194 AAAAAAA
*
192590 ATGTTGTACATTGCCAACGAGTGTTGGCACAAGTGGTTGAGATTCA-GAGATTTAAACTTGTAAG
1 ATGTTGTACATTGCCAACGAGTGTTGGCACAAGTGGTTGAGATTCATGA-ATTTAAACTTATAAG
* * * * * * * * *
192654 GCCAAGTTTGAATCTTACCA-CTGTCA-TTCTTGGTGGACAATCTGTAAATTTCAATATAAATCT
65 ACCAAGTTCGAATCCTACCATC-GTCACTCCCT-ATGGACAATCTGTAAATTCCAACATAAATCC
* * * *
192717 CTATTGAGTAGTAAGTATGCTCTGACCCTGGACTGGGGAGCCACCCCTT-ACCTAAATTTTTTTA
128 CAATTGAGTAGTAAGTATGCCCTGACCCTGGACTCGGGAGCCA-CCCTTGACCTAAATTTTTGTA
192781 ATAAAAAAA
192 ATAAAAAAA
192790 ATGTTGTACATT
1 ATGTTGTACATT
192802 AATTTTGAAC
Statistics
Matches: 173, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
199 2 0.01
200 29 0.17
201 138 0.80
202 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (200 bp):
ATGTTGTACATTGCCAACGAGTGTTGGCACAAGTGGTTGAGATTCATGAATTTAAACTTATAAGA
CCAAGTTCGAATCCTACCATCGTCACTCCCTATGGACAATCTGTAAATTCCAACATAAATCCCAA
TTGAGTAGTAAGTATGCCCTGACCCTGGACTCGGGAGCCACCCTTGACCTAAATTTTTGTAATAA
AAAAA
Found at i:193349 original size:11 final size:11
Alignment explanation
Indices: 193333--193361 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
193323 TGTCTATTTG
193333 ATTATTTACTT
1 ATTATTTACTT
193344 ATTATTTACTT
1 ATTATTTACTT
193355 ATTATTT
1 ATTATTT
193362 TATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTATTTACTT
Found at i:207586 original size:28 final size:27
Alignment explanation
Indices: 207550--207615 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
207540 AAAATCGAAT
* *
207550 TAAACGGGAGGGGAAAAATCGTTTATGC
1 TAAACGGGA-CGGAAAAACCGTTTATGC
* *
207578 TAAAGGGGACGGAAAAACCGTTTATGT
1 TAAACGGGACGGAAAAACCGTTTATGC
*
207605 TAAACGAGACG
1 TAAACGGGACG
207616 AGAACGAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 24 0.75
28 8 0.25
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (27 bp):
TAAACGGGACGGAAAAACCGTTTATGC
Found at i:207725 original size:34 final size:35
Alignment explanation
Indices: 207659--207754 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 35
207649 AACCCGATAA
* * *
207659 ATATTAAAAATAATTATATATATAATTTTAATAAATT-T
1 ATATTTAAATTAA-TATATATAT-A-TATAAT-AATTAT
*
207697 A-ATTTAAATTAATATATATATATATAATATTTAT
1 ATATTTAAATTAATATATATATATATAATAATTAT
*
207731 ATATTTAATTTAA-ATATATATATA
1 ATATTTAAATTAATATATATATATA
207755 CTCGGCCCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
33 3 0.06
34 18 0.35
35 11 0.22
36 9 0.18
37 9 0.18
38 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATATTTAAATTAATATATATATATATAATAATTAT
Found at i:207726 original size:15 final size:15
Alignment explanation
Indices: 207706--207752 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
207696 TAATTTAAAT
207706 TAATATATATATATA
1 TAATATATATATATA
* *
207721 TAATATTTATATATT
1 TAATATATATATATA
* *
207736 TAATTTAAATATATA
1 TAATATATATATATA
207751 TA
1 TA
207753 TACTCGGCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATATATATATA
Found at i:207737 original size:40 final size:38
Alignment explanation
Indices: 207666--207754 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 38
207656 TAAATATTAA
207666 AAATA-AT-TATATATATAATTTTAATAAATTTAATTT
1 AAATATATATATATATATAATTTTAATAAATTTAATTT
*
207702 AAATTAATATATATATATATAATATTT-ATATATTTAATTT
1 AAA-T-ATATATATATATATAAT-TTTAATAAATTTAATTT
207742 AAATATATATATA
1 AAATATATATATA
207755 CTCGGCCCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
36 3 0.06
37 1 0.02
38 10 0.21
39 3 0.06
40 27 0.57
41 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (38 bp):
AAATATATATATATATATAATTTTAATAAATTTAATTT
Found at i:208714 original size:25 final size:25
Alignment explanation
Indices: 208686--208736 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
208676 AATTATGTAT
208686 AAAATTAAATATCAAAGAGAATGAA
1 AAAATTAAATATCAAAGAGAATGAA
208711 AAAATTAAATATCAAAGAGAATGAA
1 AAAATTAAATATCAAAGAGAATGAA
208736 A
1 A
208737 GAGCAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAATTAAATATCAAAGAGAATGAA
Found at i:208745 original size:25 final size:25
Alignment explanation
Indices: 208692--208746 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
208682 GTATAAAATT
**
208692 AAATATCAAAGAGAATGAAAAAATT
1 AAATATCAAAGAGAATGAAAAAACA
* *
208717 AAATATCAAAGAGAATGAAAGAGCA
1 AAATATCAAAGAGAATGAAAAAACA
208742 AAATA
1 AAATA
208747 GTCATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.64, C:0.05, G:0.15, T:0.16
Consensus pattern (25 bp):
AAATATCAAAGAGAATGAAAAAACA
Found at i:209270 original size:182 final size:185
Alignment explanation
Indices: 208963--209330 Score: 715
Period size: 182 Copynumber: 2.0 Consensus size: 185
208953 TACCGTTAAA
208963 AAACGTTAAGTTACACGTGTAAAATTCATATTTTTAAAAAAAATCAAAAAAAAATATAAATGTGA
1 AAACGTTAAGTTACACGTGTAAAATTCATATTTTTAAAAAAAATCAAAAAAAAATATAAATGTGA
209028 CACGTGTCACTTAACAATTTTTTTACGATATATACTTAAAAGTATAACGTAGAAAACATCAAGCA
66 CACGTGTCACTTAACAATTTTTTTACGATATATACTTAAAAGTATAACGTAGAAAACATCAAGCA
209093 CTTA-TTTTAACAAAAGA-TCTTTAGACACCAAAAGTCAA-TTTAGATATAGTTT
131 CTTATTTTTAACAAAAGATTCTTTAGACACCAAAAGTCAATTTTAGATATAGTTT
209145 AAACGTTAAGTTACACGTGTAAAATTCATATTTTTAAAAAAAATCAAAAAAAAATATAAATGTGA
1 AAACGTTAAGTTACACGTGTAAAATTCATATTTTTAAAAAAAATCAAAAAAAAATATAAATGTGA
209210 CACGTGTCACTTAACAATTTTTTTACGATATATACTTAAAAGTATAACGTAGAAAACATCAAGCA
66 CACGTGTCACTTAACAATTTTTTTACGATATATACTTAAAAGTATAACGTAGAAAACATCAAGCA
209275 CTTATTTTTAACAAAAGATTCTTTAGACACCAAAAGTCAATTTTAGATATAGTTT
131 CTTATTTTTAACAAAAGATTCTTTAGACACCAAAAGTCAATTTTAGATATAGTTT
209330 A
1 A
209331 GACACTTATT
Statistics
Matches: 183, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
182 134 0.73
183 13 0.07
184 21 0.11
185 15 0.08
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (185 bp):
AAACGTTAAGTTACACGTGTAAAATTCATATTTTTAAAAAAAATCAAAAAAAAATATAAATGTGA
CACGTGTCACTTAACAATTTTTTTACGATATATACTTAAAAGTATAACGTAGAAAACATCAAGCA
CTTATTTTTAACAAAAGATTCTTTAGACACCAAAAGTCAATTTTAGATATAGTTT
Found at i:210979 original size:21 final size:19
Alignment explanation
Indices: 210937--210984 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
210927 TTAAAGCAAT
210937 ATTTT-AAAAAATTAATAA
1 ATTTTAAAAAAATTAATAA
**
210955 ATTTATAAAAAAATATAATTT
1 ATTT-TAAAAAAAT-TAATAA
210976 ATTTTAAAA
1 ATTTTAAAA
210985 TTATACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 1 0.04
20 12 0.48
21 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTTAAAAAAATTAATAA
Found at i:211832 original size:35 final size:36
Alignment explanation
Indices: 211792--211862 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
211782 TTTATACATA
211792 GTTTAAAGGAATTATTGTTATTT-TATGAGGA-TCGG
1 GTTTAAAGGAATTATTGTTATTTCT-TGAGGACTCGG
211827 GTTTAAAGGAATTATTGTTATTTCTTGAGGACTCGG
1 GTTTAAAGGAATTATTGTTATTTCTTGAGGACTCGG
211863 ATTTGAGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (36 bp):
GTTTAAAGGAATTATTGTTATTTCTTGAGGACTCGG
Done.