Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008076.1 Hibiscus syriacus cultivar Beakdansim tig00110578_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: 1136582
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2607 original size:84 final size:84
Alignment explanation
Indices: 2459--3568 Score: 1271
Period size: 84 Copynumber: 13.4 Consensus size: 84
2449 TAAACAAACT
* * * ** * *
2459 ATTTGCAGCATAGCTTAAGTCGA-AAGGGCTATCTG----CCAAAGTCCCCCGAGTTTGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
2519 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCGAGGGCACATC
* * * * ** * *
2539 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * *
2603 CTCAGCTCAACGGCATATC
66 CTCAGCTCGAGGGCACATC
* ** * ** * *
2622 ATTTGCAGTATAGTTTAAGTCGAGAA-GGCTATCTG----CCAAAGACCCCCGAGTTTGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
2682 CTCAGCTTCGAGGGCATATC
66 CTCAGC-TCGAGGGCACATC
* *
2702 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTTATCTGCCAACCAAGGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGG-TTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
2767 GCTCAGCTCTAAGGCACATC
65 ACTCAGCTCGAGGGCACATC
* * ** *
2787 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
2848 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCGAGGGCACATC
* * * *
2868 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAATTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* *
2933 CTCAGCTCAACGGCACATC
66 CTCAGCTCGAGGGCACATC
* * * ** *
2952 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
3013 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCGAGGGCACATC
* *
3033 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCTAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * *
3098 CTCAGCTCCAAGGCATATC
66 CTCAGCTCGAGGGCACATC
* * *
3117 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* *
3182 CTCAGCTCAACGGCACATC
66 CTCAGCTCGAGGGCACATC
* * * ** *
3201 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
3262 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCGAGGGCACATC
3282 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * *
3347 CTCAGCTCCAAGGCATATC
66 CTCAGCTCGAGGGCACATC
*
3366 ATTTGCAGCATAACTTAAGTCGAGAAGGG-T-TCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * *
3429 CTCAGCTCCAAGGCATATC
66 CTCAGCTCGAGGGCACATC
* * * * *
3448 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* *
3513 CTCAGCTCAATGGCACATC
66 CTCAGCTCGAGGGCACATC
*
3532 ATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
3569 TAAAGACCTT
Statistics
Matches: 875, Mismatches: 127, Indels: 52
0.83 0.12 0.05
Matches are distributed among these distances:
79 25 0.03
80 128 0.15
81 145 0.17
82 92 0.11
83 31 0.04
84 313 0.36
85 117 0.13
86 24 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
CTCAGCTCGAGGGCACATC
Found at i:2903 original size:165 final size:164
Alignment explanation
Indices: 2459--3568 Score: 1409
Period size: 165 Copynumber: 6.7 Consensus size: 164
2449 TAAACAAACT
* *
2459 ATTTGCAGCATAGCTTAAGTCGA-AAGGGCTATCTGCCAAAGTCCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * **
2523 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
2587 TTTGAGTTCGACTACGCTCAGCTCAACGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCAA-GGCACATC
* * *
2622 ATTTGCAGTATAGTTTAAGTCGAGAA-GGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
2686 GCTTCGAGGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTTATCTGCCAACCAAGGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG-TTATCTGCCAACCAAAGAC
2751 CTTTGAGTTCGACTACGCTCAGCTCTAAGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTC-AAGGCACATC
2787 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
2852 GCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
2917 TTTGAATTCGACTACGCTCAGCTCAACGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCAA-GGCACATC
*
2952 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
3017 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
3082 TTCT-AGTTCGACTACGCTCAGCTCCAAGGCATATC
131 TT-TGAGTTCGACTACGCTCAGCT-CAAGGCACATC
* * * *** * *
3117 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * * * *
3182 CTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
*** * * *
3242 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGC-TC-AAGGCACATC
* * ** *
3282 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * *
3347 CTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG-T-TCTGCCAACCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
* *
3409 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
127 GACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACATC
* * * * * *** *
3448 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * *
3513 CTCAGC-TCAATGGCACATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
3569 TAAAGACCTT
Statistics
Matches: 855, Mismatches: 67, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
163 103 0.12
164 38 0.04
165 416 0.49
166 194 0.23
167 29 0.03
168 49 0.06
169 26 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCAAGGCACATC
Found at i:3155 original size:249 final size:249
Alignment explanation
Indices: 2459--3568 Score: 1435
Period size: 249 Copynumber: 4.5 Consensus size: 249
2449 TAAACAAACT
* *
2459 ATTTGCAGCATAGCTTAAGTCGA-AAGGGCTATCTGCCAAAGTCCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * **
2523 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* * * **
2587 TTTGAGTTCGACTACGCTCAGCT-CAACGGCATATCATTTGCAGTATAGTTTAAGTCGAGAA-GG
131 TTCGAGTTCGACTACACTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* ** * * * * * *
2650 CTATCTG----CCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCATATC
195 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAACGGCACATC
* * *** *
2702 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTTATCTGCCAACCAAGGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGG-CTATCTGCC-A--AA-GACCCCCGAGTTCGATTAC
* * * * *
2767 GCTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAA
61 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
** * * * * *
2827 AGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAG
126 AGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* *
2892 AAGGGTTATCTGCCAACCAAAGACCTTTGAATTCGACTACGCTCAGCTCAACGGCACATC
190 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATC
*
2952 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
3017 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* * *
3082 TTCTAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGT
131 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
*
3147 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATC
*
3201 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
3266 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
3331 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG-
131 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
*
3395 T-TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATC
* * * * * *** *
3448 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * *
3513 CTCAGC-TCAATGGCACATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
3569 TAAAGACCTT
Statistics
Matches: 765, Mismatches: 79, Indels: 39
0.87 0.09 0.04
Matches are distributed among these distances:
243 22 0.03
244 5 0.01
245 55 0.07
246 80 0.10
247 85 0.11
248 49 0.06
249 309 0.40
250 111 0.15
251 49 0.06
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (249 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATC
Found at i:4200 original size:4 final size:4
Alignment explanation
Indices: 4191--4230 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
4181 TTTTCGTCCA
* * *
4191 TATT TATT TATT TATT TATT TGTT TTTT TATT TATA TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
4231 ACATAATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:4259 original size:31 final size:32
Alignment explanation
Indices: 4224--4287 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
4214 TTTTTTATTT
* *
4224 ATATATTACATAA-TTTGAAAACATTTTGAAA
1 ATATATGACATAATTTTGAAAACATTTTAAAA
* *
4255 ATATATGATATAATTTTTAAAACATTTTAAAA
1 ATATATGACATAATTTTGAAAACATTTTAAAA
4287 A
1 A
4288 CATTTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (32 bp):
ATATATGACATAATTTTGAAAACATTTTAAAA
Found at i:4309 original size:36 final size:35
Alignment explanation
Indices: 4222--4469 Score: 127
Period size: 35 Copynumber: 6.9 Consensus size: 35
4212 GTTTTTTTAT
* * * *
4222 TTATATATTACATAATTTGAAAACATTTT-GAAA-A
1 TTATATA-TATATAGTTTTAAAACATTTTAAAAACA
*
4256 -TATATGATATA-ATTTTTAAAACATTTTAAAAACA
1 TTATAT-ATATATAGTTTTAAAACATTTTAAAAACA
* * *
4290 TTTATATATATATAGTTTTAAAACGTTTTTGAAAAGA
1 -TTATATATATATAGTTTTAAAAC-ATTTTAAAAACA
* **
4327 -AATATATATATAGTTTTCAAAACATTTTTGAAA-A
1 TTATATATATATAGTTTT-AAAACATTTTAAAAACA
* *
4361 TATACATATTATATAGTTTTTAAAACGTTTTGAAAATA-A
1 T-TATATA-TATATAG-TTTTAAAACATTTT-AAAA-ACA
* * * *
4400 ATATATAATATATATTTTTTGAAAAACATTTTGAAAGCA
1 TTATAT-ATATATA-GTTTT--AAAACATTTTAAAAACA
* * *
4439 -TATATATATGT-TTTTTAAAACATTTTTAAAA
1 TTATATATATATAGTTTTAAAACATTTTAAAAA
4470 TTATATGGTT
Statistics
Matches: 169, Mismatches: 26, Indels: 39
0.72 0.11 0.17
Matches are distributed among these distances:
32 14 0.08
33 24 0.14
34 3 0.02
35 33 0.20
36 24 0.14
37 30 0.18
38 25 0.15
39 7 0.04
40 9 0.05
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (35 bp):
TTATATATATATAGTTTTAAAACATTTTAAAAACA
Found at i:4444 original size:40 final size:36
Alignment explanation
Indices: 4241--4475 Score: 193
Period size: 36 Copynumber: 6.6 Consensus size: 36
4231 ACATAATTTG
*
4241 AAAACATTTTG-AAA-ATATATGATATA-A-TTTTT
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
* * *
4273 AAAACATTTTAAAAACATTTATATATATATAG-TTTT
1 AAAACATTTTGAAAATATATATA-ATATATAGTTTTT
* * * *
4309 AAAACGTTTTTGAAAAGAAATAT-ATATATAGTTTTC
1 AAAAC-ATTTTGAAAATATATATAATATATAGTTTTT
* *
4345 AAAACATTTTTGAAAATATACATATTATATAGTTTTT
1 AAAACA-TTTTGAAAATATATATAATATATAGTTTTT
* *
4382 AAAACGTTTTGAAAATAAATATATAATATATATTTTTT
1 AAAACATTTTGAAAAT--ATATATAATATATAGTTTTT
** *
4420 GAAAAACATTTTGAAAGCATATAT-ATATGT--TTTTT
1 --AAAACATTTTGAAAATATATATAATATATAGTTTTT
*
4455 AAAACATTTTTAAAAT-TATAT
1 AAAACATTTTGAAAATATATAT
4476 GGTTTTAAAA
Statistics
Matches: 164, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
32 15 0.09
33 16 0.10
34 5 0.03
35 18 0.11
36 41 0.25
37 33 0.20
38 23 0.14
40 13 0.08
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAATATATATAATATATAGTTTTT
Found at i:4454 original size:73 final size:69
Alignment explanation
Indices: 4253--4470 Score: 199
Period size: 73 Copynumber: 3.0 Consensus size: 69
4243 AACATTTTGA
* * *
4253 AAATATATGATATA-ATTTTTAAAACATTTTAAAAACATTTATATATATATAGTTTTAAAACGTT
1 AAATATAT-ATATATATTTTTAAAACATTTTGAAAACA--TATATATATGT-TTTTTAAAACG-T
*
4317 TTTGAAAAG
61 TTTGAAAAT
* * *
4326 AAATATATATATA-GTTTTCAAAACATTTTTGAAAATATACATATTATATAG-TTTTTAAAACGT
1 AAATATATATATATATTTTTAAAACA-TTTTGAAAACAT--ATA-TATAT-GTTTTTTAAAACGT
4389 TTTGAAAAT
61 TTTGAAAAT
* *
4398 AAATATATAATATATATTTTTTGAAAAACATTTTGAAAGCATATATATATGTTTTTTAAAACATT
1 AAATATAT-ATATATA-TTTTT--AAAACATTTTGAAAACATATATATATGTTTTTTAAAACGTT
*
4463 TTTAAAAT
62 TTGAAAAT
4471 TATATGGTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
71 1 0.01
72 33 0.27
73 59 0.49
74 8 0.07
75 4 0.03
76 10 0.08
77 6 0.05
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (69 bp):
AAATATATATATATATTTTTAAAACATTTTGAAAACATATATATATGTTTTTTAAAACGTTTTGA
AAAT
Found at i:4531 original size:30 final size:29
Alignment explanation
Indices: 4408--4537 Score: 109
Period size: 30 Copynumber: 4.2 Consensus size: 29
4398 AAATATATAA
*
4408 TATATA-TTTTTTGAAAAACATTTTGAAAGCAT
1 TATATAGTTTTTT-AAAAA-ATTTTTAAA--AT
*
4440 ATATATATGTTTTTTAAAACATTTTTAAAAT
1 -TATATA-GTTTTTTAAAAAATTTTTAAAAT
* ** *
4471 TATATGGTTTTAAAAAAAACTTTTGAAAAT
1 TATATAGTTTTTTAAAAAA-TTTTTAAAAT
*
4501 TATATAGTTTTTTAAAATAATTTTTTAAATT
1 TATATAGTTTTTTAAAA-AA-TTTTTAAAAT
4532 TATATA
1 TATATA
4538 TATATATAGT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
29 10 0.12
30 28 0.35
31 18 0.22
33 14 0.17
34 4 0.05
35 6 0.08
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (29 bp):
TATATAGTTTTTTAAAAAATTTTTAAAAT
Found at i:4566 original size:39 final size:36
Alignment explanation
Indices: 4292--4588 Score: 93
Period size: 35 Copynumber: 8.5 Consensus size: 36
4282 TAAAAACATT
4292 TATATATATATAG-TTTT---AAAACGTTTTTGAAAAGA
1 TATATATATATAGTTTTTAAAAAAACG-TTTT-AAAA-A
* * * *
4327 AATATATATATAG-TTTTCAAAACA-TTTTTGAAAATA
1 TATATATATATAGTTTTTAAAAAAACGTTTT-AAAA-A
*
4363 TACATATTATATAGTTTTT---AAAACGTTTTGAAAATAAA
1 TATATA-TATATAGTTTTTAAAAAAACGTTTT---AA-AAA
** * * *
4401 TATATAATATATA-TTTTTTGAAAAACATTTTGAAAG
1 TATAT-ATATATAGTTTTTAAAAAAACGTTTTAAAAA
* * * *
4437 CATATATATAT-GTTTTT--TAAAACATTTT--TAA
1 TATATATATATAGTTTTTAAAAAAACGTTTTAAAAA
* * *
4468 -A-AT-TATATGGTTTTAAAAAAAAC-TTTTGAAAA
1 TATATATATATAGTTTTTAAAAAAACGTTTTAAAAA
* * ** *
4500 T-TATATA-GT--TTTTTAAAATAATTTTTTAAATTTA
1 TATATATATATAGTTTTTAAAAAAACGTTTTAAA--AA
4534 TATATATATATAGTTTTTAAAAGAAACGTTTTAAAAA
1 TATATATATATAGTTTTTAAAA-AAACGTTTTAAAAA
*
4571 TGTATAT-TATAGTTTTTA
1 TATATATATATAGTTTTTA
4589 TATTTATTAT
Statistics
Matches: 200, Mismatches: 32, Indels: 59
0.69 0.11 0.20
Matches are distributed among these distances:
28 5 0.03
29 7 0.04
30 5 0.03
31 16 0.08
32 8 0.04
33 13 0.06
34 4 0.02
35 36 0.18
36 36 0.18
37 20 0.10
38 29 0.14
39 12 0.06
40 9 0.05
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATATATAGTTTTTAAAAAAACGTTTTAAAAA
Found at i:4600 original size:3 final size:3
Alignment explanation
Indices: 4592--4666 Score: 95
Period size: 3 Copynumber: 25.7 Consensus size: 3
4582 GTTTTTATAT
*
4592 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
4638 TTA TT- TT- TTA TTA CTTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
4667 TTTTTCCCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
2 8 0.12
3 51 0.78
4 6 0.09
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5956 original size:3 final size:3
Alignment explanation
Indices: 5948--5973 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5938 TTATTTACTT
5948 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5974 TTGATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8427 original size:27 final size:27
Alignment explanation
Indices: 8384--8470 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
8374 AAGAAGAACG
* *
8384 GCAAGGAGAGGATTTGGGAATGGATGA
1 GCAAGGAGAGAAATTGGGAATGGATGA
* *
8411 GCGAGGAGAGAAATTGGGAATGGACGA
1 GCAAGGAGAGAAATTGGGAATGGATGA
* *
8438 GCAAGGGGAGAAATTGGGAATGGATGC
1 GCAAGGAGAGAAATTGGGAATGGATGA
8465 GCAAGG
1 GCAAGG
8471 GTTAGGGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.34, C:0.07, G:0.45, T:0.14
Consensus pattern (27 bp):
GCAAGGAGAGAAATTGGGAATGGATGA
Found at i:15299 original size:3 final size:3
Alignment explanation
Indices: 15291--15342 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
15281 TTTCATCCCG
* *
15291 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
15337 ATA TTA
1 TTA TTA
15343 CTTTTGTAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:16379 original size:93 final size:93
Alignment explanation
Indices: 16254--16443 Score: 249
Period size: 93 Copynumber: 2.0 Consensus size: 93
16244 GGTTTTAATT
* * * * *
16254 GGGTTAGTGATATAATAATAATTGTTTGGTATTTTAGTACAAAAATAT-GTAGGTTAATTAAACC
1 GGGTTAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAAT-TGGTAGGTAAATCAAACC
*
16318 CACGTGGG-AGCCATTTCATCTAGGTATG
65 CACGTGGGTAGCCATTCCATCTAGGTATG
* * * *
16346 GGGTGTAGTAATATGATAATAATTATTTAGTATTTTAGTGCTAAAATTGGTGGGTAAATCAAACC
1 GGGT-TAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAATTGGTAGGTAAATCAAACC
*
16411 CACGTGGGTGGCCATTCCATCTAGGTATG
65 CACGTGGGTAGCCATTCCATCTAGGTATG
16440 GGGT
1 GGGT
16444 ATTGTGTTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
92 5 0.06
93 57 0.68
94 22 0.26
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (93 bp):
GGGTTAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAATTGGTAGGTAAATCAAACCC
ACGTGGGTAGCCATTCCATCTAGGTATG
Found at i:24904 original size:4 final size:4
Alignment explanation
Indices: 24895--24942 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
24885 TTTCCATTCT
* *
24895 TTTA TTTA TTTA TTTA TTTA TTTC TTTT TTTA -TTA TTTCA TTCTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TT-TA TTT
24943 TGATATGGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
3 3 0.08
4 28 0.74
5 6 0.16
6 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:24943 original size:19 final size:20
Alignment explanation
Indices: 24903--24943 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24893 CTTTTATTTA
*
24903 TTTATTTATTTATTTCTTTT
1 TTTATTTATTTATTTCTATT
24923 TTTA-TTATTTCA-TTCTATT
1 TTTATTTATTT-ATTTCTATT
24942 TT
1 TT
24944 GATATGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTATTTATTTCTATT
Found at i:28483 original size:13 final size:13
Alignment explanation
Indices: 28465--28522 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 13
28455 TATTTTGCCT
28465 GAAAAAATGAAT-
1 GAAAAAATGAATA
*
28477 GGAAAAATGAATA
1 GAAAAAATGAATA
28490 GAAAAAAAT-AA-A
1 G-AAAAAATGAATA
*
28502 -AAAAAAAGAA-A
1 GAAAAAATGAATA
28513 GAAAAAATGA
1 GAAAAAATGA
28523 GGAAAAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 20 0.53
13 3 0.08
14 6 0.16
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (13 bp):
GAAAAAATGAATA
Found at i:28536 original size:23 final size:23
Alignment explanation
Indices: 28465--28541 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 23
28455 TATTTTGCCT
* *
28465 GAAAAAATGAATGGAAAAATGAATA
1 GAAAAAATG-A-GGAAAAAAGAAAA
* **
28490 GAAAAAAATAAAAAAAAAAG-AAA
1 G-AAAAAATGAGGAAAAAAGAAAA
*
28513 GAAAAAATGAGGAAAAAGGAAAA
1 GAAAAAATGAGGAAAAAAGAAAA
28536 GAAAAA
1 GAAAAA
28542 TAAAAGAAGG
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 6 0.15
25 2 0.05
26 7 0.17
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (23 bp):
GAAAAAATGAGGAAAAAAGAAAA
Found at i:30498 original size:66 final size:66
Alignment explanation
Indices: 29708--30483 Score: 1342
Period size: 66 Copynumber: 11.8 Consensus size: 66
29698 TTCGGTCCCA
*
29708 ATTCAATGGATCAACTTCTTCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
29773 G
66 G
*
29774 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAAAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
29839 G
66 G
* * * *
29840 ATTCAATGGATCAACTTCTCCAAGATTTTATATTCCCTTCAAAGTAAGTGGAACAAGCCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
29905 G
66 G
29906 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
29971 G
66 G
*
29972 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30037 G
66 G
*
30038 ATTCAATGGATCAACTTCTCCAAGATTTGACATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30103 G
66 G
*
30104 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30169 G
66 G
*
30170 ATTCAATGTATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30235 G
66 G
30236 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30301 G
66 G
* *
30302 ATTCAATGGACCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAATAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30367 G
66 G
* ** * *
30368 ATTCAATGGATCAATTTCTCCAAGATTTGATATTCTATTCAGAGTAAGTGGAACAAGTCTTCTTT
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
30433 G
66 G
* * * *
30434 ATTCAATGAATCAACTT-TCC-AGATCTGATATTCCC-TCAAAGGAAGTGGAA
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAA
30484 TAGATCCATC
Statistics
Matches: 677, Mismatches: 33, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
63 13 0.02
64 12 0.02
65 3 0.00
66 649 0.96
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (66 bp):
ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
G
Found at i:30582 original size:111 final size:111
Alignment explanation
Indices: 30417--30884 Score: 604
Period size: 111 Copynumber: 4.2 Consensus size: 111
30407 CAGAGTAAGT
* *
30417 GGAACAAGTCTTCTTTGATTCAATGAATCAACTTT-CCAGATCTGATATTCCCTCAAAGGAAGTG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAAAGGAAGTG
* * *
30481 GAATAGATCCATCTCTTTCAAGATTTGGTATTCCTTGAGTGACAGC
66 GAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
*
30527 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAAAGGAAGTG
* *
30592 GAACATATCC--CTCTTTCAAGATTTGATATTCCCTGAATGACAGC
66 GAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
* * * *
30636 GGAACAAGTCTACCTTGATTCAAT-AACTCAACTTTCCCAGATATGATATTCCCTCAGAGAAAGC
1 GGAACAAGTCTACCTTGATTCAATGAA-TCAACTTTCCCAGATCTGATATTCCCTCAAAGGAAGT
* * * *
30700 GGAACACATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGT
65 GGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
* * * *
30747 GGAACAAGTCTACCCTGATTCATTGGATCAACTTTCCTAGATCTGATATATTCCCTCAGAA-GAA
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTG--ATATTCCCTCA-AAGGAA
* * * * * **
30811 GTGGAACAGATCAAATCTCTTTCAAGATTTGATATTTCATAAGTGATAAT
63 GTGGAACAGATC-CATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
*
30861 GGAACAAGTCTACCCTGATTCAAT
1 GGAACAAGTCTACCTTGATTCAAT
30885 CTTCCCTGAT
Statistics
Matches: 316, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
108 2 0.01
109 99 0.31
110 33 0.10
111 105 0.33
112 1 0.00
113 23 0.07
114 53 0.17
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (111 bp):
GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAAAGGAAGTG
GAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
Found at i:30779 original size:220 final size:221
Alignment explanation
Indices: 30417--30884 Score: 620
Period size: 220 Copynumber: 2.1 Consensus size: 221
30407 CAGAGTAAGT
* * * * *
30417 GGAACAAGTCTTCTTTGATTCAATGAATCAACTTTCCAGATCTGATATTCCCTCAAAGGAAGTGG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCAGATATGATATTCCCTCAAAGAAAGCGG
* * * * * *
30482 AATAGATCCATCTCTTTCAAGATTTGGTATTCCTTGAGTGACAGCGGAACAAGTCTACCTTGATT
66 AACACATCCATCTCTTTCAAGATTTGATATTCCCTGAGCGACAGCGGAACAAGTCTACCCTGATT
* *
30547 CAATGAATCAACTTTCCCAGATCTG-ATATTCCCTCAGAGGAAGTGGAACATATC-CCTCTTTCA
131 CAATGAATCAACTTTCCCAGATCTGAATATTCCCTCAGAAGAAGTGGAACAGATCACCTCTTTCA
* *
30610 AGATTTGATATTCCCTGAA-TGACAGC
196 AGATTTGATATTCCAT-AAGTGACAAC
*
30636 GGAACAAGTCTACCTTGATTCAAT-AACTCAACTTTCCCAGATATGATATTCCCTCAGAGAAAGC
1 GGAACAAGTCTACCTTGATTCAATGAA-TCAACTTT-CCAGATATGATATTCCCTCAAAGAAAGC
* *
30700 GGAACACATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGTGGAACAAGTCTACCCTGA
64 GGAACACATCCATCTCTTTCAAGATTTGATATTCCCTGAGCGACAGCGGAACAAGTCTACCCTGA
* * * *
30765 TTCATTGGATCAACTTTCCTAGATCTGATATATTCCCTCAGAAGAAGTGGAACAGATCAAATCTC
129 TTCAATGAATCAACTTTCCCAGATCTGA-ATATTCCCTCAGAAGAAGTGGAACAGATC--ACCTC
* * *
30830 TTTCAAGATTTGATATTTCATAAGTGATAAT
191 TTTCAAGATTTGATATTCCATAAGTGACAAC
*
30861 GGAACAAGTCTACCCTGATTCAAT
1 GGAACAAGTCTACCTTGATTCAAT
30885 CTTCCCTGAT
Statistics
Matches: 215, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
218 2 0.01
219 30 0.14
220 105 0.49
222 27 0.13
224 2 0.01
225 49 0.23
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (221 bp):
GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCAGATATGATATTCCCTCAAAGAAAGCGG
AACACATCCATCTCTTTCAAGATTTGATATTCCCTGAGCGACAGCGGAACAAGTCTACCCTGATT
CAATGAATCAACTTTCCCAGATCTGAATATTCCCTCAGAAGAAGTGGAACAGATCACCTCTTTCA
AGATTTGATATTCCATAAGTGACAAC
Found at i:31093 original size:3 final size:3
Alignment explanation
Indices: 31085--31136 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
31075 TTTCATCCCG
* *
31085 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
31131 ATA TTA
1 TTA TTA
31137 CTTTTGTAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:32158 original size:93 final size:93
Alignment explanation
Indices: 32043--32232 Score: 258
Period size: 93 Copynumber: 2.0 Consensus size: 93
32033 GGTTTTAATT
* * * *
32043 GGGTTAGTAATATAATAATAATTGTTTGGTATTTTAGTACAAAAATAT-GTAGGTTAATTAAACC
1 GGGTTAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAAT-TGGTAGGTAAATCAAACC
*
32107 CACGTGGG-AGCCATTTCATCTAGGTATG
65 CACGTGGGTAGCCATTCCATCTAGGTATG
* * * *
32135 GGGTGTAGTAATATGATAATAATTATTTAGTATTTTAGTGCTAAAATTGGTGGGTAAATCAAACC
1 GGGT-TAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAATTGGTAGGTAAATCAAACC
*
32200 CACGTGGGTGGCCATTCCATCTAGGTATG
65 CACGTGGGTAGCCATTCCATCTAGGTATG
32229 GGGT
1 GGGT
32233 ATTGTCTTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 5 0.06
93 58 0.68
94 22 0.26
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (93 bp):
GGGTTAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAATTGGTAGGTAAATCAAACCC
ACGTGGGTAGCCATTCCATCTAGGTATG
Found at i:35465 original size:29 final size:29
Alignment explanation
Indices: 35410--35465 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
35400 TCCCAACACA
* *
35410 TAGGTCGCCATGCCCTCTAGGCAACCTTG
1 TAGGTCGCCATGCACTCCAGGCAACCTTG
* *
35439 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCAGGCAACCT
35466 ACCCTTGCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.16, C:0.36, G:0.27, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCAGGCAACCTTG
Found at i:35521 original size:29 final size:28
Alignment explanation
Indices: 35472--35537 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 28
35462 ACCTACCCTT
35472 GCTCGCTC-GCTCGGATGCCCTCGCATA
1 GCTCGCTCGGCTCGGATGCCCTCGCATA
*
35499 GCTCGCTCGGCCTCGGATTCCCTCGCATA
1 GCTCGCTCGG-CTCGGATGCCCTCGCATA
*
35528 GCTCGTTCGG
1 GCTCGCTCGG
35538 ATGGCCTCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 8 0.23
28 1 0.03
29 26 0.74
ACGTcount: A:0.09, C:0.39, G:0.27, T:0.24
Consensus pattern (28 bp):
GCTCGCTCGGCTCGGATGCCCTCGCATA
Found at i:35561 original size:37 final size:37
Alignment explanation
Indices: 35511--35582 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
35501 TCGCTCGGCC
* * *
35511 TCGGATTCCCTCGCATAGCTCGTTCGGATGGCCTCGG
1 TCGGATGCCCTCGCATAGCTCGGTCGGATGACCTCGG
*
35548 TCGGATGCTCTCGCATAGCTCGGTCGGATGACCTC
1 TCGGATGCCCTCGCATAGCTCGGTCGGATGACCTC
35583 AGATGCCCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.12, C:0.32, G:0.29, T:0.26
Consensus pattern (37 bp):
TCGGATGCCCTCGCATAGCTCGGTCGGATGACCTCGG
Found at i:35664 original size:29 final size:29
Alignment explanation
Indices: 35627--35684 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
35617 GCAATCTCTT
*
35627 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
35656 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
35685 CGACCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:46453 original size:21 final size:21
Alignment explanation
Indices: 46427--46466 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46417 CCCCCTTTGA
*
46427 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
46448 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
46467 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:50887 original size:30 final size:30
Alignment explanation
Indices: 50847--50943 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
50837 AAACCCTAAA
50847 GGACTAAAATAGCTAAAAACAAAAACTTAG
1 GGACTAAAATAGCTAAAAACAAAAACTTAG
* * *
50877 GGATTAAAATAG-TAAAAACAAAAAACTAAA
1 GGACTAAAATAGCTAAAAAC-AAAAACTTAG
* *
50907 GGACTAAAAT-GAC-AAAAACATAATCTTAG
1 GGACTAAAATAG-CTAAAAACAAAAACTTAG
50936 GGACTAAA
1 GGACTAAA
50944 TAGTAATTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 22 0.39
30 34 0.61
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (30 bp):
GGACTAAAATAGCTAAAAACAAAAACTTAG
Found at i:50910 original size:60 final size:58
Alignment explanation
Indices: 50832--50949 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 58
50822 GGACCAAAAT
** *
50832 AAACAAAACCCTAAAGGACTAAAAT-AGCTAAAAACAAAAACTTAGGGATTAAAATAGTAA
1 AAACAAAAAACTAAAGGACTAAAATGA-C-AAAAACAAAAACTTAGGGACT-AAATAGTAA
* *
50892 AAACAAAAAACTAAAGGACTAAAATGACAAAAACATAATCTTAGGGACTAAATAGTAA
1 AAACAAAAAACTAAAGGACTAAAATGACAAAAACAAAAACTTAGGGACTAAATAGTAA
50950 TTATAAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 9 0.17
59 18 0.35
60 24 0.46
61 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.12, T:0.17
Consensus pattern (58 bp):
AAACAAAAAACTAAAGGACTAAAATGACAAAAACAAAAACTTAGGGACTAAATAGTAA
Found at i:51657 original size:13 final size:13
Alignment explanation
Indices: 51639--51663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51629 TACCAGCACG
51639 AAAAAAATCATAC
1 AAAAAAATCATAC
51652 AAAAAAATCATA
1 AAAAAAATCATA
51664 AAATCAGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAATCATAC
Found at i:51856 original size:92 final size:90
Alignment explanation
Indices: 51745--51939 Score: 266
Period size: 92 Copynumber: 2.1 Consensus size: 90
51735 GGAGGATAAT
* *
51745 AAAAAAAAAGCAATCAAAAACACCATCAAGAGAAGAATCAAAAGGTTTTCTTTGACAGAAACGAA
1 AAAAAAAAAGCAATCAAAAACACCATCAAGAGAAGAATCAAAAGGTTTTCTTTAACA-AAACAAA
*
51810 AGCACAAAAGCA-AGAAACTAAGAATCA
65 AGCA-AAAAACATAGAAACTAAGAAT-A
* * * *
51837 AAAATAAAAGCAATCAAAAACACCATTAGGAGAAGAATCAAAAGGTTTTCTTTAACATAACAAAA
1 AAAAAAAAAGCAATCAAAAACACCATCAAGAGAAGAATCAAAAGGTTTTCTTTAACAAAACAAAA
* *
51902 GCAAAAAATATGGAAACTAAGAATA
66 GCAAAAAACATAGAAACTAAGAATA
51927 AAAAACAAAAGCA
1 AAAAA-AAAAGCA
51940 GAAAACTAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
90 10 0.11
91 28 0.31
92 53 0.58
ACGTcount: A:0.58, C:0.14, G:0.13, T:0.15
Consensus pattern (90 bp):
AAAAAAAAAGCAATCAAAAACACCATCAAGAGAAGAATCAAAAGGTTTTCTTTAACAAAACAAAA
GCAAAAAACATAGAAACTAAGAATA
Found at i:52027 original size:118 final size:118
Alignment explanation
Indices: 51813--52042 Score: 336
Period size: 118 Copynumber: 1.9 Consensus size: 118
51803 AAACGAAAGC
* * **
51813 ACAAAAGCAAGAAACTAAGAATCAAAAATAAAAGCAATCAAAAACACCATTAGGAGAAGAATCAA
1 ACAAAAGCAAGAAACTAAGAATAAAAAATAAAAACAATCAAAAACACCATTAACAGAAGAATCAA
*
51878 AAGGTTTTCTTTAACATAACAAAAGCAAAAAATATGGAAACTAAGAATAAAAA
66 AAGATTTTCTTTAACATAACAAAAGCAAAAAATATGGAAACTAAGAATAAAAA
*
51931 ACAAAAGC-AGAAAACTAAGAATAAAAAATAAAAACAATTAAAAACACCATTAACAGAAGAATCA
1 ACAAAAGCAAG-AAACTAAGAATAAAAAATAAAAACAATCAAAAACACCATTAACAGAAGAATCA
** * *
51995 AAAGATTTTCTTTGTCATAAACAAAAGCAAAAAAAAATGAAAACTAAG
65 AAAGATTTTCTTTAACAT-AACAAAAGC-AAAAAATATGGAAACTAAG
52043 TATTATTAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
117 2 0.02
118 71 0.72
119 9 0.09
120 17 0.17
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.17
Consensus pattern (118 bp):
ACAAAAGCAAGAAACTAAGAATAAAAAATAAAAACAATCAAAAACACCATTAACAGAAGAATCAA
AAGATTTTCTTTAACATAACAAAAGCAAAAAATATGGAAACTAAGAATAAAAA
Found at i:52666 original size:2 final size:2
Alignment explanation
Indices: 52659--52761 Score: 197
Period size: 2 Copynumber: 51.5 Consensus size: 2
52649 TAAAATTTTA
*
52659 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
52701 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
52743 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
52762 AGCTTTTGAG
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62486 original size:17 final size:18
Alignment explanation
Indices: 62458--62494 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
62448 AAGTATAAGG
*
62458 ATTTATTTAAAATTATTT
1 ATTTATTTAAAATTAATT
62476 ATTTA-TTAAAATTAATT
1 ATTTATTTAAAATTAATT
62493 AT
1 AT
62495 AATTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATTTAAAATTAATT
Found at i:63816 original size:20 final size:20
Alignment explanation
Indices: 63791--63844 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
63781 ACGTTAAGGG
63791 ATGCATCGATACATTGTAGA
1 ATGCATCGATACATTGTAGA
63811 ATGCATCGATACATTGTAGA
1 ATGCATCGATACATTGTAGA
*
63831 GTGCATCGATACAT
1 ATGCATCGATACAT
63845 ACCTTCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGCATCGATACATTGTAGA
Found at i:63965 original size:18 final size:18
Alignment explanation
Indices: 63942--63976 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63932 ATGTATTATC
63942 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
63960 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
63977 AATATTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:70248 original size:20 final size:20
Alignment explanation
Indices: 70223--70276 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
70213 ACGTTAAGGG
70223 ATGCATCGATACATTGTAGA
1 ATGCATCGATACATTGTAGA
70243 ATGCATCGATACATTGTAGA
1 ATGCATCGATACATTGTAGA
*
70263 GTGCATCGATACAT
1 ATGCATCGATACAT
70277 ACCTTCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGCATCGATACATTGTAGA
Found at i:70836 original size:18 final size:18
Alignment explanation
Indices: 70813--70847 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
70803 AGGGATTATC
*
70813 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
70831 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
70848 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:77683 original size:18 final size:18
Alignment explanation
Indices: 77660--77730 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
77650 AGGGATTATC
77660 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
77678 AGTGGTCATTCGAGACAT
1 AGTGGTCCTTCGGGACAT
77696 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
77714 AGTGGTGCTTTGGGACA
1 AGTGGTCCTTCGGGACA
77731 AATATTCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:83923 original size:20 final size:20
Alignment explanation
Indices: 83898--83949 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
83888 CATTAAGGGA
83898 TGCATCGATACACTGTAGAG
1 TGCATCGATACACTGTAGAG
83918 TGCATCGATACACTGTAGAG
1 TGCATCGATACACTGTAGAG
83938 TGCATCGATACA
1 TGCATCGATACA
83950 TAACTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (20 bp):
TGCATCGATACACTGTAGAG
Found at i:84522 original size:18 final size:18
Alignment explanation
Indices: 84501--84535 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
84491 GGTCTATCGG
84501 GACATAGTGATCATTCGA
1 GACATAGTGATCATTCGA
*
84519 GACATAGTGGTCATTCG
1 GACATAGTGATCATTCG
84536 GGATAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
GACATAGTGATCATTCGA
Found at i:86625 original size:18 final size:18
Alignment explanation
Indices: 86604--86656 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
86594 AGGGATTATC
86604 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
86622 AGTGGTCATTCAGGACAT
1 AGTGGTCCTTCGGGACAT
*
86640 AGTGGTCCTTCGAGACA
1 AGTGGTCCTTCGGGACA
86657 AATATTCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:88758 original size:28 final size:31
Alignment explanation
Indices: 88702--88761 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
88692 ATTACTTAAA
*
88702 TTAATTATTAATTTTAATAAAAATTTATAAT
1 TTAATTATTAATTCTAATAAAAATTTATAAT
*
88733 TTAATTA-TAATTCT-ATTAAAA-TTATAAT
1 TTAATTATTAATTCTAATAAAAATTTATAAT
88761 T
1 T
88762 AATAAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 6 0.22
30 6 0.22
31 7 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TTAATTATTAATTCTAATAAAAATTTATAAT
Found at i:90137 original size:31 final size:31
Alignment explanation
Indices: 90084--90144 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 31
90074 GTCAATAGAA
90084 AAATATTAAAAAATTAAAATTTTAAATTACAT
1 AAATATTAAAAAA-TAAAATTTTAAATTACAT
90116 AAATATTAAAAAA-AAATATTTTAAATTAC
1 AAATATTAAAAAATAAA-ATTTTAAATTAC
90145 GCTCAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 3 0.11
31 12 0.43
32 13 0.46
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (31 bp):
AAATATTAAAAAATAAAATTTTAAATTACAT
Found at i:106204 original size:36 final size:34
Alignment explanation
Indices: 106159--106237 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 34
106149 TATATATATA
* *
106159 TATACTTATATTACAAAT-TTTATATAGTTATACTT
1 TATATTTATATTACAAATATATATATA-TTATAC-T
*
106194 TAATATTTATATTACATATATATATATATTATACT
1 T-ATATTTATATTACAAATATATATATATTATACT
106229 TATATTTAT
1 TATATTTAT
106238 TGAAAAGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.21
35 3 0.08
36 21 0.54
37 7 0.18
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.53
Consensus pattern (34 bp):
TATATTTATATTACAAATATATATATATTATACT
Found at i:106628 original size:22 final size:22
Alignment explanation
Indices: 106581--106631 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
106571 ACTCTCTACG
* **
106581 ACGACATCCGTCCCCATCTCTG
1 ACGAAATCCGTCCCCATCTCCA
*
106603 ACGAAATCCGTCCCCATTTCCA
1 ACGAAATCCGTCCCCATCTCCA
106625 ACGAAAT
1 ACGAAAT
106632 ATGTCTATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.22
Consensus pattern (22 bp):
ACGAAATCCGTCCCCATCTCCA
Found at i:110799 original size:20 final size:20
Alignment explanation
Indices: 110774--110823 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
110764 GCAACGCGAT
* *
110774 TTTCGATTTGCAAATTTGGC
1 TTTCGAGTTGCAAATTTGAC
*
110794 TTTCGAGTTGCGAATTTGAC
1 TTTCGAGTTGCAAATTTGAC
*
110814 TTTCGCGTTG
1 TTTCGAGTTG
110824 ATCGCAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (20 bp):
TTTCGAGTTGCAAATTTGAC
Found at i:111053 original size:39 final size:39
Alignment explanation
Indices: 110998--111080 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
110988 TCAAGTTGTA
*
110998 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
* *
111037 GATTTGGATTTTCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
111076 GATTT
1 GATTT
111081 TGATGAGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (39 bp):
GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:111377 original size:18 final size:18
Alignment explanation
Indices: 111354--111390 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
111344 CGAAATTTAT
111354 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
111372 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
111390 A
1 A
111391 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:111811 original size:25 final size:25
Alignment explanation
Indices: 111777--111826 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
111767 ATTATTTTTC
* *
111777 CAAATAATGTACTCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
111802 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
111827 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:111910 original size:20 final size:20
Alignment explanation
Indices: 111887--111928 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
111877 AGACCTGTTG
*
111887 AAGGTAAATTCGCAATGCGA
1 AAGGTAAATTCGCAACGCGA
111907 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
111927 AA
1 AA
111929 TAAGCATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:111998 original size:20 final size:20
Alignment explanation
Indices: 111939--111998 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
111929 TAAGCATTGT
*
111939 GATAGTCAAATTCGCAACAC
1 GATAGTCAAATTCGCAACGC
* * *
111959 GAAATTCAAATTCGCTACGC
1 GATAGTCAAATTCGCAACGC
111979 GATAGTCAAATTCGCAACGC
1 GATAGTCAAATTCGCAACGC
111999 TTATTTCGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (20 bp):
GATAGTCAAATTCGCAACGC
Found at i:112331 original size:6 final size:6
Alignment explanation
Indices: 112322--112356 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
112312 TTGTGATTGG
**
112322 GATTTT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
112357 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:112338 original size:18 final size:18
Alignment explanation
Indices: 112315--112355 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
112305 AAGCCGGTTG
*
112315 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
112333 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
112351 TGATT
1 TGATT
112356 TCCTTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:114433 original size:12 final size:12
Alignment explanation
Indices: 114418--114442 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114408 TTTTTAGGGA
114418 CTTTTTCTTCTT
1 CTTTTTCTTCTT
114430 CTTTTTCTTCTT
1 CTTTTTCTTCTT
114442 C
1 C
114443 AGGGTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:114644 original size:24 final size:24
Alignment explanation
Indices: 114617--114670 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
114607 CCATCACATC
*
114617 ATCAAAATCT-GAGTATTGATCAAG
1 ATCAAAAT-TAGAGTATTGACCAAG
* *
114641 ATCAAAGTTAGGGTATTGACCAAG
1 ATCAAAATTAGAGTATTGACCAAG
114665 ATCAAA
1 ATCAAA
114671 TTTTGTATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (24 bp):
ATCAAAATTAGAGTATTGACCAAG
Found at i:114817 original size:12 final size:12
Alignment explanation
Indices: 114796--114829 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
114786 GGTTGTGAGT
*
114796 TTTGAGATTGTG
1 TTTGATATTGTG
114808 TTTGATATTGTG
1 TTTGATATTGTG
*
114820 TTTGGTATTG
1 TTTGATATTG
114830 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:115611 original size:20 final size:20
Alignment explanation
Indices: 115575--115784 Score: 98
Period size: 20 Copynumber: 10.6 Consensus size: 20
115565 ACTAAAACAT
*
115575 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
115594 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
* *
115613 GTTGTGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
*
115633 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
* *
115653 GTTGAGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
*
115673 GTTGCGAATTTGGAATATCGC
1 GTTGCGAATTTGAAAT-TCGC
*** *
115694 AACGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
* * *
115715 ---AC-ATATTTCCATATTCGC
1 GTTGCGA-ATTT-GAAATTCGC
* *
115733 GTTGCGAAATTGAAAATT-GG
1 GTTGCGAATTTG-AAATTCGC
* * *
115753 GTTGCGAAATTGGAATTCGT
1 GTTGCGAATTTGAAATTCGC
115773 GTTGCGAATTTG
1 GTTGCGAATTTG
115785 TTGGTCATTC
Statistics
Matches: 152, Mismatches: 27, Indels: 23
0.75 0.13 0.11
Matches are distributed among these distances:
17 1 0.01
18 13 0.09
19 27 0.18
20 80 0.53
21 27 0.18
22 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:115636 original size:39 final size:40
Alignment explanation
Indices: 115590--115692 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
115580 GAAATTAAAT
*
115590 TCGCGTTGCGAATTTGAA-ATTC-AGTTGTGAATTTGACTA
1 TCGCGTTGCGAATTTGAATA-TCGAGTTGAGAATTTGACTA
* *
115629 TCGCGTTGCGAATTTGACTATCGCGTTGAGAATTTGACTA
1 TCGCGTTGCGAATTTGAATATCGAGTTGAGAATTTGACTA
115669 TCGCGTTGCGAATTTGGAATATCG
1 TCGCGTTGCGAATTT-GAATATCG
115693 CAACGCGAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 19 0.33
40 31 0.54
41 7 0.12
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (40 bp):
TCGCGTTGCGAATTTGAATATCGAGTTGAGAATTTGACTA
Found at i:115693 original size:21 final size:20
Alignment explanation
Indices: 115575--115693 Score: 127
Period size: 20 Copynumber: 6.0 Consensus size: 20
115565 ACTAAAACAT
* *
115575 GTTGCGAAATTAAAT-TCGC
1 GTTGCGAATTTGAATATCGC
*
115594 GTTGCGAATTTGAA-ATTC-A
1 GTTGCGAATTTGAATA-TCGC
* *
115613 GTTGTGAATTTGACTATCGC
1 GTTGCGAATTTGAATATCGC
*
115633 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGAATATCGC
* *
115653 GTTGAGAATTTGACTATCGC
1 GTTGCGAATTTGAATATCGC
115673 GTTGCGAATTTGGAATATCGC
1 GTTGCGAATTT-GAATATCGC
115694 AACGCGAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
19 26 0.31
20 51 0.60
21 8 0.09
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTGAATATCGC
Found at i:115700 original size:21 final size:21
Alignment explanation
Indices: 115676--115715 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
115666 CTATCGCGTT
*
115676 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
115697 GCGAATTTGGAAAATCGCA
1 GCGAATTTGGAAAATCGCA
115716 CATATTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:115942 original size:18 final size:19
Alignment explanation
Indices: 115902--115942 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
115892 CACATTTTAC
* *
115902 ATTTATTTTGATTTGATTT
1 ATTTATGTTGATTTAATTT
115921 -TTTATGTTG-TTTAATTT
1 ATTTATGTTGATTTAATTT
115938 ATTTA
1 ATTTA
115943 AATTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (19 bp):
ATTTATGTTGATTTAATTT
Found at i:117565 original size:4 final size:4
Alignment explanation
Indices: 117556--117582 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
117546 GTTCGGGTTG
117556 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
117583 TTTTTTCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:119229 original size:2 final size:2
Alignment explanation
Indices: 119224--119256 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
119214 AACACACACA
119224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
119257 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119261 original size:2 final size:2
Alignment explanation
Indices: 119256--119288 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
119246 ATATATATAT
119256 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
119289 TACCAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:122440 original size:211 final size:210
Alignment explanation
Indices: 122104--122521 Score: 665
Period size: 211 Copynumber: 2.0 Consensus size: 210
122094 AATGTCCCCG
* * *
122104 ATTTCAACACCAGGAACGACCCCTATTGAACCAAAATTTTCTCTTTGCACAAAATCTAGTGATAT
1 ATTTCAACACCAAGAACAACCCCTATTGAACCAAAATTTTCTCTTTGCACAAAATCTAGTGATAC
* *
122169 CCACTTCAGTTCTTTAATCCTTTAACTTGTTTACGCGCAAACTAAAGCTCCAGTGAACCAAATTA
66 CCACTTCAGTTCTTTAATCCTTTAACTTGTTTACACACAAACTAAAGCTCCAGTGAACCAAATTA
* * *
122234 CACAAAATTCTGACTTTTTTTCTTCAAAATCAGGAAACACCCACTTCATTTTTCTCCAACGTTAA
131 CACAAAATTCAGA-TTTTTTTCTTCAAAACCAAGAAACACCCACTTCATTTTTCTCCAACGTTAA
*
122299 CTGTTTATGCACACCT
195 ATGTTTATGCACACCT
* *
122315 ATTTCAACACCAAGAACAACTCCTATTGAACCAAAATTTTCTCTTTGCTCAAAATCTAGTGATAC
1 ATTTCAACACCAAGAACAACCCCTATTGAACCAAAATTTTCTCTTTGCACAAAATCTAGTGATAC
* * *
122380 CCACTTCAGTTCTTTACTCCTTTAACTTGTTTACACACAAACTGAAGCTCTAGTGAACCAAATTA
66 CCACTTCAGTTCTTTAATCCTTTAACTTGTTTACACACAAACTAAAGCTCCAGTGAACCAAATTA
* * * *
122445 CTCAAAATTCAGATTTTTTTCTTCAAAACCAAGAAATACCCATTTCATTTTTCTCCAATGTTAAA
131 CACAAAATTCAGATTTTTTTCTTCAAAACCAAGAAACACCCACTTCATTTTTCTCCAACGTTAAA
122510 TGTTTATGCACA
196 TGTTTATGCACA
122522 AAACAATGGC
Statistics
Matches: 189, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
210 58 0.31
211 131 0.69
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (210 bp):
ATTTCAACACCAAGAACAACCCCTATTGAACCAAAATTTTCTCTTTGCACAAAATCTAGTGATAC
CCACTTCAGTTCTTTAATCCTTTAACTTGTTTACACACAAACTAAAGCTCCAGTGAACCAAATTA
CACAAAATTCAGATTTTTTTCTTCAAAACCAAGAAACACCCACTTCATTTTTCTCCAACGTTAAA
TGTTTATGCACACCT
Found at i:127270 original size:45 final size:45
Alignment explanation
Indices: 127206--127295 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
127196 TTAATTGAAC
127206 TAACCTTGTCAGTCAAACCCTTCTCATCTTTTTGTTCCTTATCAT
1 TAACCTTGTCAGTCAAACCCTTCTCATCTTTTTGTTCCTTATCAT
127251 TAACCTTGTCAGTCAAACCCTTCTCATCTTTTTGTTCCTTATCAT
1 TAACCTTGTCAGTCAAACCCTTCTCATCTTTTTGTTCCTTATCAT
127296 CAGATAAACC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (45 bp):
TAACCTTGTCAGTCAAACCCTTCTCATCTTTTTGTTCCTTATCAT
Found at i:135939 original size:65 final size:62
Alignment explanation
Indices: 135851--136014 Score: 166
Period size: 63 Copynumber: 2.6 Consensus size: 62
135841 TTGAAGGTGC
* * *
135851 ATCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAAACATCGAATGCCATCAGTGT
1 ATCGATGCACAAGTAGTGCATCGATGCAC-CC-TTAAAAT-AAAAACATCGAATGCCATCAGTGT
* ** ** **
135916 ATCGATGCACAAGTAGTGCATCGATGCAACCCTTAATATTTAAACATCGAATGGGATTTGTGT
1 ATCGATGCACAAGTAGTGCATCGATGC-ACCCTTAAAATAAAAACATCGAATGCCATCAGTGT
* * *
135979 ACCGATGCACAGGTAGTGCATTGATGCACCCGTTAA
1 ATCGATGCACAAGTAGTGCATCGATGCACCC-TTAA
136015 GGGATGCATC
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
62 4 0.05
63 46 0.55
64 6 0.07
65 26 0.31
66 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (62 bp):
ATCGATGCACAAGTAGTGCATCGATGCACCCTTAAAATAAAAACATCGAATGCCATCAGTGT
Found at i:136571 original size:22 final size:22
Alignment explanation
Indices: 136543--136621 Score: 103
Period size: 22 Copynumber: 3.8 Consensus size: 22
136533 TCGAGGGTTA
136543 CAGTGGTCCTTCGGGACATATC
1 CAGTGGTCCTTCGGGACATATC
* *
136565 CAGTGGTCATTCGGGAC--GT-
1 CAGTGGTCCTTCGGGACATATC
136584 -AGTGGTCCTTCGGGACATATC
1 CAGTGGTCCTTCGGGACATATC
*
136605 CAGTGGTCCTTAGGGAC
1 CAGTGGTCCTTCGGGAC
136622 GTAATGATCC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 15 0.31
20 2 0.04
22 31 0.65
ACGTcount: A:0.18, C:0.24, G:0.32, T:0.27
Consensus pattern (22 bp):
CAGTGGTCCTTCGGGACATATC
Found at i:136599 original size:40 final size:40
Alignment explanation
Indices: 136544--136640 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
136534 CGAGGGTTAC
*
136544 AGTGGTCCTTCGGGACATATCCAGTGGTCATTCGGGACGT
1 AGTGGTCCTTCGGGACATATCCAGTGGTCATTAGGGACGT
*
136584 AGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGGACGT
1 AGTGGTCCTTCGGGACATATCCAGTGGTCATTAGGGACGT
* *
136624 AATGATCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
136641 AATATTCACT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.27
Consensus pattern (40 bp):
AGTGGTCCTTCGGGACATATCCAGTGGTCATTAGGGACGT
Found at i:136638 original size:18 final size:18
Alignment explanation
Indices: 136568--136639 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
136558 ACATATCCAG
* *
136568 TGGTCATTCGGGACGTAG
1 TGGTCCTTCGGGACGTAA
*
136586 TGGTCCTTCGGGACATATCCA
1 TGGTCCTTCGGGACGTA---A
*
136607 GTGGTCCTTAGGGACGTAA
1 -TGGTCCTTCGGGACGTAA
*
136626 TGATCCTTCGGGAC
1 TGGTCCTTCGGGAC
136640 AAATATTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 27 0.63
19 1 0.02
22 15 0.35
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (18 bp):
TGGTCCTTCGGGACGTAA
Found at i:139479 original size:18 final size:16
Alignment explanation
Indices: 139456--139493 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
139446 TTATCTAATA
139456 ATTTAAAAAATATAAAGT
1 ATTTAAAAAAT-TAAA-T
139474 ATTTAAAAAATTAAAT
1 ATTTAAAAAATTAAAT
139490 ATTT
1 ATTT
139494 CATTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTTAAAAAATTAAAT
Found at i:157673 original size:26 final size:26
Alignment explanation
Indices: 157618--157674 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
157608 CCATTTTAAA
157618 AAATA-TATATTATATAAAATAAAATT
1 AAATATTATATTATATAAAAT-AAATT
*
157644 -AATATTATATTATTTTAAAAT-AATT
1 AAATATTATATTA-TATAAAATAAATT
157669 AAATAT
1 AAATAT
157675 CTTTTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
25 8 0.30
26 12 0.44
27 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATATTATATTATATAAAATAAATT
Found at i:158125 original size:21 final size:22
Alignment explanation
Indices: 158085--158125 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
158075 TAATATTTTA
*
158085 AATAATTTTTACCAAAAATAAT
1 AATAATATTTACCAAAAATAAT
*
158107 AATAATATTT-CCGAAAATA
1 AATAATATTTACCAAAAATA
158126 TATATTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (22 bp):
AATAATATTTACCAAAAATAAT
Found at i:158415 original size:18 final size:18
Alignment explanation
Indices: 158392--158426 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
158382 GTTCGGAAAA
158392 TGAGCGCAGTCGCTGAAT
1 TGAGCGCAGTCGCTGAAT
158410 TGAGCGCAGTCGCTGAA
1 TGAGCGCAGTCGCTGAA
158427 ACAATCACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (18 bp):
TGAGCGCAGTCGCTGAAT
Found at i:161304 original size:26 final size:25
Alignment explanation
Indices: 161248--161306 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
161238 TAGTAACAGC
*
161248 AGAAATTTTAAGTGTAACTGGAACA
1 AGAAATTTTAAGTGCAACTGGAACA
* * * *
161273 AAAAATATTTATGTGCACCTGGAATA
1 AGAAAT-TTTAAGTGCAACTGGAACA
161299 AGAAATTT
1 AGAAATTT
161307 CAGATGTTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (25 bp):
AGAAATTTTAAGTGCAACTGGAACA
Found at i:169010 original size:21 final size:20
Alignment explanation
Indices: 168986--169034 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
168976 TAAAAAAATT
* *
168986 GATCCCTTTGACCACATGATC
1 GATCCCTTTAACCA-AAGATC
* *
169007 GATCCCCTTAAGCAAAGATC
1 GATCCCTTTAACCAAAGATC
169027 GATCCCTT
1 GATCCCTT
169035 AGATTCTAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (20 bp):
GATCCCTTTAACCAAAGATC
Found at i:170162 original size:25 final size:26
Alignment explanation
Indices: 170126--170176 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
170116 AATATTATTG
170126 AAAATGTACTTACAATATTT-CAAAA
1 AAAATGTACTTACAATATTTGCAAAA
* * *
170151 AAAATGTTCTTATATTATTTGCAAAA
1 AAAATGTACTTACAATATTTGCAAAA
170177 CACTTCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (26 bp):
AAAATGTACTTACAATATTTGCAAAA
Found at i:171886 original size:15 final size:15
Alignment explanation
Indices: 171862--171908 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
171852 TATGCGTATC
171862 TTTT-TTTGTATATA
1 TTTTATTTGTATATA
171876 TTTTATTTGTATATCA
1 TTTTATTTGTATAT-A
*
171892 TTGTTA-ATGTATATA
1 TT-TTATTTGTATATA
171907 TT
1 TT
171909 CTTAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 10 0.34
17 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTATTTGTATATA
Found at i:171904 original size:16 final size:15
Alignment explanation
Indices: 171868--171914 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
171858 TATCTTTTTT
*
171868 TGTATATATT-TTATT
1 TGTATATATTCTTA-A
*
171883 TGTATATCATTGTTAA
1 TGTATAT-ATTCTTAA
171899 TGTATATATTCTTAA
1 TGTATATATTCTTAA
171914 T
1 T
171915 TATTCTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (15 bp):
TGTATATATTCTTAA
Found at i:172022 original size:3 final size:3
Alignment explanation
Indices: 172009--172041 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
171999 GGTGCTTTAC
172009 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
172042 TTTCACCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:172072 original size:2 final size:2
Alignment explanation
Indices: 172065--172125 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
172055 TCTATACGTT
172065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
172107 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
172126 GTGTGTGTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:176007 original size:21 final size:21
Alignment explanation
Indices: 175974--176013 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
175964 GCGAAAAAGA
*
175974 TGGAAGAGAAGATTAAGATAC
1 TGGAAGAGAAGATGAAGATAC
**
175995 TGGAAGATCAGATGAAGAT
1 TGGAAGAGAAGATGAAGAT
176014 GATCAAAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (21 bp):
TGGAAGAGAAGATGAAGATAC
Found at i:182668 original size:15 final size:14
Alignment explanation
Indices: 182639--182694 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
182629 CTAAATTGAA
*
182639 AAAAAAG-AAAGAG
1 AAAAAAGAAAAAAG
182652 AAAAAAGATAAAAAG
1 AAAAAAGA-AAAAAG
*
182667 AACAAAACACAAAAAG
1 AA-AAAAGA-AAAAAG
*
182683 AGAAAAGAAAAA
1 AAAAAAGAAAAA
182695 TAAGGTGGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 7 0.20
14 4 0.11
15 12 0.34
16 12 0.34
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:182673 original size:8 final size:7
Alignment explanation
Indices: 182639--182694 Score: 51
Period size: 8 Copynumber: 7.7 Consensus size: 7
182629 CTAAATTGAA
182639 AAAAAAG
1 AAAAAAG
*
182646 -AAAGAG
1 AAAAAAG
182652 AAAAAAG
1 AAAAAAG
182659 ATAAAAAG
1 A-AAAAAG
*
182667 AACAAAAC
1 AA-AAAAG
182675 ACAAAAAG
1 A-AAAAAG
*
182683 AGAAAAG
1 AAAAAAG
182690 AAAAA
1 AAAAA
182695 TAAGGTGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 5 0.13
7 16 0.41
8 17 0.44
9 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:183985 original size:107 final size:105
Alignment explanation
Indices: 183799--184058 Score: 369
Period size: 107 Copynumber: 2.4 Consensus size: 105
183789 AATGGGCTTC
* *
183799 CCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGATAGCACAAGCTCAA
1 CCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAGCACAAGCTCAA
*
183864 CTTCACAGCGAAGGGGC-GATTGACTGTCAACAAATAAACTTT
66 CTTCACAGCGAAGGGGCAG-TTAACTGTCAACAAA-AAA-TTT
* *
183906 CCAGTTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCGAGACATCACAAGCTCAA
1 CCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAGCACAAGCTCAA
*
183971 CTTCACAGCGAAGGGGCAGTTAACTGTCAACAAACAATTT
66 CTTCACAGCGAAGGGGCAGTTAACTGTCAACAAAAAATTT
* * * * * *
184011 CTTAGTTCCAGATCCAATTTCCACTTCACGGCGGAGGATATTGGACTC
1 C-CAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
184059 TGAACAATAC
Statistics
Matches: 138, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
105 4 0.03
106 41 0.30
107 92 0.67
108 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (105 bp):
CCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAGCACAAGCTCAA
CTTCACAGCGAAGGGGCAGTTAACTGTCAACAAAAAATTT
Found at i:185980 original size:15 final size:16
Alignment explanation
Indices: 185960--186002 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
185950 GCGTATCTTT
185960 TTTGTATATATT-TTA
1 TTTGTATATATTGTTA
185975 TTTGTATATCATTGTTA
1 TTTGTATAT-ATTGTTA
*
185992 -ATGTATATATT
1 TTTGTATATATT
186003 CTTAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 10 0.40
17 3 0.12
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTGTATATATTGTTA
Found at i:185998 original size:16 final size:15
Alignment explanation
Indices: 185962--186008 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
185952 GTATCTTTTT
*
185962 TGTATATATT-TTATT
1 TGTATATATTCTTA-A
*
185977 TGTATATCATTGTTAA
1 TGTATAT-ATTCTTAA
185993 TGTATATATTCTTAA
1 TGTATATATTCTTAA
186008 T
1 T
186009 TATTCTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (15 bp):
TGTATATATTCTTAA
Found at i:189224 original size:105 final size:105
Alignment explanation
Indices: 189026--189235 Score: 285
Period size: 105 Copynumber: 2.0 Consensus size: 105
189016 TACCACATAT
* *
189026 AAATTCCTTAAGAACCATATACATATACTAAAGATCAAGTAAGTGTCTCAAAAGACCTCATACAT
1 AAATTCCTTAAGAACCATATACATATACTAAAGACCAAATAAGTGTCTCAAAAGACCTCATACAT
* *
189091 GCTCCAAATAATACATATACGTCTCGAAGGACCACGTAGA
66 GCTCCAAAGAATACATATACGTCCCGAAGGACCACGTAGA
* * * * *
189131 AAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATACGTGTCTCAAAAGACCTCATAGAT
1 AAATTCCTTAAGAACCATATACATATACTAAAGACCAAATAAGTGTCTCAAAAGACCTCATACAT
* * * * * *
189196 GTTCCATAGGATACCTATATGTCCCGAAGGACCGCGTAGA
66 GCTCCAAAGAATACATATACGTCCCGAAGGACCACGTAGA
189236 CCCTCGACTC
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 90 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (105 bp):
AAATTCCTTAAGAACCATATACATATACTAAAGACCAAATAAGTGTCTCAAAAGACCTCATACAT
GCTCCAAAGAATACATATACGTCCCGAAGGACCACGTAGA
Found at i:189431 original size:53 final size:53
Alignment explanation
Indices: 189374--189537 Score: 124
Period size: 53 Copynumber: 3.1 Consensus size: 53
189364 ACACATACAT
189374 GTAATCATGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCAC
1 GTAATCATGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCAC
** * * * * ** *
189427 GTAATTCACT-TA-CACATATCACATTTTC--ATGAAATTCACA--GATATCCCTTAGC
1 GTAA-TCA-TGTAGTTCATATCA-ATTCTCATATG-ATTTCATATTCATAT-AATCA-C
* * *
189480 TTAATCACGTAGTTCATGTCAATTCTCATATGATTTCATATTCATATAATCAC
1 GTAATCATGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCAC
189533 GTAAT
1 GTAAT
189538 TCACTTACAC
Statistics
Matches: 77, Mismatches: 22, Indels: 24
0.63 0.18 0.20
Matches are distributed among these distances:
51 4 0.05
52 15 0.19
53 38 0.49
54 15 0.19
55 5 0.06
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (53 bp):
GTAATCATGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCAC
Found at i:189509 original size:106 final size:106
Alignment explanation
Indices: 189375--189588 Score: 383
Period size: 106 Copynumber: 2.0 Consensus size: 106
189365 CACATACATG
*
189375 TAATCATGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
1 TAATCACGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
*
189440 ACATATCACATTTTCATGAAATTCACAGATATCCCTTAGCT
66 ACATAGCACATTTTCATGAAATTCACAGATATCCCTTAGCT
*
189481 TAATCACGTAGTTCATGTCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
1 TAATCACGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
* *
189546 ACATAGCACATTTTCATGTAATTCACAGATGTCCCTTAGCT
66 ACATAGCACATTTTCATGAAATTCACAGATATCCCTTAGCT
189587 TA
1 TA
189589 TATCTCTTGA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (106 bp):
TAATCACGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
ACATAGCACATTTTCATGAAATTCACAGATATCCCTTAGCT
Found at i:198868 original size:13 final size:13
Alignment explanation
Indices: 198850--198874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
198840 AAGTCATTCA
198850 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
198863 TCTTTTTTTTTT
1 TCTTTTTTTTTT
198875 ATTTTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:207048 original size:21 final size:20
Alignment explanation
Indices: 207021--207119 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
207011 AATCAGTTTC
207021 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
207042 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
207063 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
207083 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
207104 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
207120 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:207110 original size:20 final size:20
Alignment explanation
Indices: 207086--207279 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
207076 CGATTTTCCA
* ** *
207086 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
207106 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
207126 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
207146 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
207166 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
207186 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
207206 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
207226 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
207246 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
207267 AAATCGCAACGCG
1 AAATCGCAACGCG
207280 AATTTAAAGC
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:207170 original size:60 final size:60
Alignment explanation
Indices: 207086--207279 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
207076 CGATTTTCCA
* ** * *
207086 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
207146 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
207206 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
207267 AAATCGCAACGCG
1 AAATCGCAACGCG
207280 AATTTAAAGC
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:207698 original size:33 final size:33
Alignment explanation
Indices: 207659--207729 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
207649 TTCACTTAGA
*
207659 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
207692 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
207725 TTTCA
1 TTTCA
207730 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:207852 original size:20 final size:20
Alignment explanation
Indices: 207808--207903 Score: 122
Period size: 21 Copynumber: 4.8 Consensus size: 20
207798 TGCAGAAGAG
*
207808 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
207829 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
207849 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
*
207870 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
207889 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
207904 CGCAACGCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.28
20 20 0.31
21 26 0.41
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:207865 original size:41 final size:40
Alignment explanation
Indices: 207806--207902 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 40
207796 TTTGCAGAAG
* *
207806 AGTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGAC
1 AGTCGCAACGAGAGAAATGAAAATCGCAACGAGA-AATGAA
* *
207847 TGTCGCAACGAGAGAAATGAAAATCGCAACGCGAAATGAA
1 AGTCGCAACGAGAGAAATGAAAATCGCAACGAGAAATGAA
*
207887 AATCGCAACGAGAGAA
1 AGTCGCAACGAGAGAA
207903 TCGCAACGCG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 19 0.38
41 31 0.62
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (40 bp):
AGTCGCAACGAGAGAAATGAAAATCGCAACGAGAAATGAA
Found at i:207955 original size:13 final size:13
Alignment explanation
Indices: 207939--207968 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
207929 GCGATTTTTC
207939 ATTTCGCGTTGCG
1 ATTTCGCGTTGCG
*
207952 ATTTCTCGTTGCG
1 ATTTCGCGTTGCG
207965 ATTT
1 ATTT
207969 TCATTTCGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (13 bp):
ATTTCGCGTTGCG
Found at i:207975 original size:32 final size:33
Alignment explanation
Indices: 207927--208040 Score: 196
Period size: 32 Copynumber: 3.5 Consensus size: 33
207917 CAAAATCGCA
207927 TTGCGATTTTTCATTTCGCGTTGCGATT-TCTCG
1 TTGCGA-TTTTCATTTCGCGTTGCGATTCTCTCG
207960 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
207993 TTGCGATTGTCA-TTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
208025 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
208041 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
32 52 0.68
33 25 0.32
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:207996 original size:14 final size:14
Alignment explanation
Indices: 207945--208032 Score: 70
Period size: 14 Copynumber: 5.7 Consensus size: 14
207935 TTTCATTTCG
207945 CGTTGCGATT-TCT
1 CGTTGCGATTCTCT
*
207958 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
207977 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
207991 CGTTGCGATTGTCATTCG
1 CGTTGCGA-T-TC--TCT
208009 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
208023 CGTTGCGATT
1 CGTTGCGATT
208033 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 19
0.73 0.05 0.23
Matches are distributed among these distances:
13 8 0.13
14 22 0.36
15 3 0.05
16 4 0.07
17 4 0.07
18 10 0.16
19 10 0.16
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:210047 original size:90 final size:93
Alignment explanation
Indices: 209714--210083 Score: 682
Period size: 90 Copynumber: 4.1 Consensus size: 93
209704 TAGATTGCTT
*
209714 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
209779 TTTGTCTTTGTTTTGTCTTTTGG-TGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
209806 AGTAAATTTGTTCGGTTGCTGCC-ATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
209869 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
209897 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
209962 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
209989 AG-AAATTTG-TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
210052 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
210079 AGTAA
1 AGTAA
210084 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 1, Indels: 11
0.96 0.00 0.04
Matches are distributed among these distances:
90 97 0.36
91 84 0.31
92 74 0.27
93 17 0.06
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:210051 original size:183 final size:182
Alignment explanation
Indices: 209714--210083 Score: 674
Period size: 183 Copynumber: 2.0 Consensus size: 182
209704 TAGATTGCTT
209714 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
209779 TTTGTCTTTGTTTTGTCTTTTGGTGAAAGTAAATTTGTTCGGTTGCTGCCATTCTGCTAAACTGT
66 TTTGTCTTTGTTTTGTCTTTTGGTGAAAGTAAATTTGTTCGGTTGCTGCCATTCTGCTAAACTGT
209844 GTATTCTTTAACACTGTGAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATTCTTTAACACTGTGAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
209897 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
209962 TTTGTCTTTG-TTTGTCTTTTGGTTGAAAG-AAATTTG-TCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGG-TGAAAGTAAATTTGTTCGGTTGCTGCC-ATTCTGCTAAACT
210024 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
129 GTGTATTCTTTAACACTGTG-AATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
210079 AGTAA
1 AGTAA
210084 TGCAATCCAT
Statistics
Matches: 183, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
181 12 0.07
182 58 0.32
183 113 0.62
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (182 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTGAAAGTAAATTTGTTCGGTTGCTGCCATTCTGCTAAACTGT
GTATTCTTTAACACTGTGAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:210167 original size:19 final size:18
Alignment explanation
Indices: 210145--210256 Score: 105
Period size: 19 Copynumber: 6.5 Consensus size: 18
210135 CACGAAACTT
210145 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCG-AACC
**
210164 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCG-AACC
210183 AAAATCGCAA--CG-A-C
1 AAAATCGCAACGCGAACC
*
210197 AGAATCGCAACGCGAACC
1 AAAATCGCAACGCGAACC
210215 AAAATCGCAA--CG-A-C
1 AAAATCGCAACGCGAACC
*
210229 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCG-AACC
210248 AAAATCGCA
1 AAAATCGCA
210257 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 6 0.08
17 3 0.04
18 11 0.14
19 36 0.47
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAATCGCAACGCGAACC
Found at i:210204 original size:14 final size:13
Alignment explanation
Indices: 210184--210240 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 13
210174 CGCGAAATGA
210184 AAATCGCAACGAC
1 AAATCGCAACGAC
210197 AGAATCGCAACGCGAACC
1 A-AATCGCAA--CG-A-C
210215 AAAATCGCAACGAC
1 -AAATCGCAACGAC
210229 AAGATCGCAACG
1 AA-ATCGCAACG
210241 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.08
14 18 0.49
15 1 0.03
16 4 0.11
17 1 0.03
18 9 0.24
19 1 0.03
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (13 bp):
AAATCGCAACGAC
Found at i:210224 original size:32 final size:32
Alignment explanation
Indices: 210165--210256 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 32
210155 CGCGAAACCA
**
210165 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
210197 AGAATCGCAACGCG-AACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
210229 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
210257 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
31 1 0.02
32 29 0.53
33 25 0.45
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:210278 original size:19 final size:19
Alignment explanation
Indices: 210252--210337 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 19
210242 GAAACCAAAA
210252 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
210271 TCGAATTGCGA--TTC-TG
1 TCGCATTGCGATTTTCATT
210287 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* **
210304 TCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
210323 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
210338 AAGTTTCGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 37 0.65
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:210345 original size:20 final size:19
Alignment explanation
Indices: 210288--210353 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
210278 GCGATTCTGT
210288 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
210307 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
210326 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
210346 TGTTGCGA
1 CGTTGCGA
210354 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:210863 original size:20 final size:20
Alignment explanation
Indices: 210805--210864 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
210795 CTCGAGAGTC
*
210805 CCCTCCCACCGTTCAAGAGG
1 CCCTCCCACCATTCAAGAGG
** * *
210825 CCACTGTCATCATTGAAGAGG
1 CC-CTCCCACCATTCAAGAGG
*
210846 TCCTCCCACCATTCAAGAG
1 CCCTCCCACCATTCAAGAG
210865 CCCGATTCAC
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (20 bp):
CCCTCCCACCATTCAAGAGG
Found at i:218465 original size:20 final size:19
Alignment explanation
Indices: 218435--218482 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
218425 AATAATATAT
218435 TATGT-AAATGTTTCGATTA
1 TATGTAAAATG-TTCGATTA
218454 TATGTAAAATGTTCGATTA
1 TATGTAAAATGTTCGATTA
218473 TAATGTAAAA
1 T-ATGTAAAA
218483 ATTATAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (19 bp):
TATGTAAAATGTTCGATTA
Found at i:218525 original size:13 final size:13
Alignment explanation
Indices: 218496--218530 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
218486 ATAACTAATA
*
218496 ATATTAAAT-ATT
1 ATATTAAATAAAT
218508 ATATTAAATAAAT
1 ATATTAAATAAAT
218521 ATATTAAATA
1 ATATTAAATA
218531 TTTATGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:221466 original size:8 final size:8
Alignment explanation
Indices: 221453--221490 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
221443 CTCATTTTCA
221453 GAGAATTT
1 GAGAATTT
221461 GAGAATTT
1 GAGAATTT
*
221469 -AGAGTTT
1 GAGAATTT
*
221476 GGGAATTT
1 GAGAATTT
221484 GAGAATT
1 GAGAATT
221491 GAAAGATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:221877 original size:124 final size:125
Alignment explanation
Indices: 221560--222486 Score: 1504
Period size: 124 Copynumber: 7.6 Consensus size: 125
221550 AAATCGGTTC
221560 CTATTCACGTGAAGGCGCGTTCCCGGGG-GCGCC-TCCATTATTTCGTCAGAGAATATTATCATT
1 CTATTCACGTGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
*
221623 GCCCTATTATGTCA-TCATGTCCCTCGGGGACACT--ATATATCAGTACCTATTATTTCA
66 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
221680 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCA-TATTTCGTCAGAGAATATTATCAT
1 CTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
*
221744 TGCCC-ATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
65 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
221804 CTATTCACGTGAAGGCGCGTT-CCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
1 CTATTCACGTGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
221868 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
66 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
221928 CTATTCACGTGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
1 CTATTCACGTGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
**
221993 GCCCTATTATGTCATTCATGT-CCTCGGGGACACTA-ATATATCAGTATATACT-TTTCA
66 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
222050 CTATTCAC-TG-AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
1 CTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
* *
222113 TGCCC--TTATG----TCATGTCCCTC-GGGTCACTAGATATATCAGTACCTATTATTTCA
65 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
222167 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA--TCGTCAGAGAATATTATCAT
1 CTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
*
222230 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAG--ATATCAGTACATACTATTT--
65 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
*
222287 C-ATTCACGTGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
1 CTATTCACGTGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
*
222351 GCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAG--ATATCAGTACCTA-TATTTTCA
66 GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTA-TTTCA
222409 CTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAG-A-ATTATCAT
1 CTATTCACGTGAAGGCGCGTTCCCGGGG-CGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
222472 TGCCCTATTATGTCA
65 TGCCCTATTATGTCA
222487 CCGTCCCTCG
Statistics
Matches: 764, Mismatches: 14, Indels: 56
0.92 0.02 0.07
Matches are distributed among these distances:
115 14 0.02
116 18 0.02
117 38 0.05
118 19 0.02
119 65 0.09
120 109 0.14
121 60 0.08
122 123 0.16
123 88 0.12
124 166 0.22
125 64 0.08
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (125 bp):
CTATTCACGTGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
GCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
Found at i:223803 original size:14 final size:15
Alignment explanation
Indices: 223742--223841 Score: 55
Period size: 14 Copynumber: 6.6 Consensus size: 15
223732 ATAATTCTAA
223742 ATAAATAATAATT-AT
1 ATAAATAAT-ATTAAT
* *
223757 ATAATATTATTTTAAT
1 ATAA-ATAATATTAAT
*
223773 A-AAATAATATT-AC
1 ATAAATAATATTAAT
223786 ATAAAT-ATATTAAT
1 ATAAATAATATTAAT
* *
223800 ATAAAAAATAATAACT
1 ATAAATAATATTAA-T
* * *
223816 ATTAAAAAATACTAAC
1 A-TAAATAATATTAAT
223832 ATAAAATAAT
1 AT-AAATAAT
223842 TCTTACCACT
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
13 7 0.11
14 16 0.24
15 15 0.23
16 16 0.24
17 12 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAAATAATATTAAT
Found at i:230193 original size:16 final size:16
Alignment explanation
Indices: 230172--230209 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
230162 GCATATCACA
*
230172 CACACGACTCCTTATG
1 CACACGACACCTTATG
*
230188 CACACGCCACCTTATG
1 CACACGACACCTTATG
230204 CACACG
1 CACACG
230210 CATGCCACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.42, G:0.13, T:0.18
Consensus pattern (16 bp):
CACACGACACCTTATG
Found at i:238975 original size:23 final size:23
Alignment explanation
Indices: 238949--238994 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
238939 CAATAAAAAG
238949 AATGTATGTTTGAAGATAATTGT
1 AATGTATGTTTGAAGATAATTGT
*
238972 AATGTCTGTTTGAAGATAATTGT
1 AATGTATGTTTGAAGATAATTGT
238995 CCTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (23 bp):
AATGTATGTTTGAAGATAATTGT
Found at i:248592 original size:6 final size:6
Alignment explanation
Indices: 248583--248618 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
248573 TGGGATTGGG
* *
248583 GAGGCC GAGGCC GAGGCT GAGGCT GAGGCT GAGGCT
1 GAGGCT GAGGCT GAGGCT GAGGCT GAGGCT GAGGCT
248619 TAGGATGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.50, T:0.11
Consensus pattern (6 bp):
GAGGCT
Found at i:249160 original size:50 final size:49
Alignment explanation
Indices: 249104--249202 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 49
249094 ATCATCAATT
249104 AATTTTACTCAGCATAACATTAATATCATCATTAGTAATATTCTCATTTC
1 AATTTTACTCAGCATAACATTAATATCATCATTAGTAAT-TTCTCATTTC
* *
249154 AATTTTACTCGGCATAACATTAATATCATCATTAGTAATTTTTCATTTC
1 AATTTTACTCAGCATAACATTAATATCATCATTAGTAATTTCTCATTTC
249203 TTTTGATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 9 0.19
50 38 0.81
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.43
Consensus pattern (49 bp):
AATTTTACTCAGCATAACATTAATATCATCATTAGTAATTTCTCATTTC
Done.