Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008118.1 Hibiscus syriacus cultivar Beakdansim tig00110657_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: 238723
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:898 original size:84 final size:81
Alignment explanation
Indices: 707--1257 Score: 563
Period size: 84 Copynumber: 6.7 Consensus size: 81
697 CAAACAAACT
* * * ** * *
707 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
* *
771 AGCTTCGAGGGCACATC
66 AGC-TCAACGGCACATC
*
788 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACG
*
853 CTCAGCTCCAA-GGCATATC
63 CTCAGCT-CAACGGCACATC
* * ** * * *
872 ATTTGCAGCACAACTTAAGTCTAGAA-GGTTCTGCCAACAAAAGACCTTTGAGTTCGACTATGCT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTAT-CTGACCAAAGACCTTCGAGTTCGACTACGCT
936 CAGCTCAACGGCACATC
65 CAGCTCAACGGCACATC
* * * * *
953 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTTCG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATC--TGACC-AAAGACCTTCGAGTTCGACTACG
*
1018 CTCAGCTCAACGACACATC
63 CTCAGCTCAACGGCACATC
* * * *
1037 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATC--TGACC-AAAGACCTTCGAGTTCGACTACG
*
1102 ATCAGCTCAACGGCACATC
63 CTCAGCTCAACGGCACATC
* * * ** * *
1121 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
* *
1185 AGCTTCGAGGGCACATC
66 AGC-TCAACGGCACATC
* * * * *
1202 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATATG-CTAAAGACCTTTGAGTTCGA
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGA
1258 TTATATTCAA
Statistics
Matches: 405, Mismatches: 53, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
80 26 0.06
81 155 0.38
82 7 0.02
83 7 0.02
84 181 0.45
85 29 0.07
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (81 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
AGCTCAACGGCACATC
Found at i:981 original size:165 final size:164
Alignment explanation
Indices: 707--1257 Score: 552
Period size: 165 Copynumber: 3.4 Consensus size: 164
697 CAAACAAACT
* * * *** *
707 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTAC-
1 ATTTGCAGCATAACTTAAGTCTAGAA-GGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* *
767 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
65 A-TCAGC-TCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAA
*
832 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
125 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
872 ATTTGCAGCACAACTTAAGTCTAGAAGG-T-TCTGCCAACAAAAGACCTTTGAGTTCGACTATGC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGA
* * * *
935 TCAGCTCAACGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA
66 TCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGACC-AAAGA
* * *
1000 CCTTTGAGTTCGACTTCGCTCAGCT-CAACGACACATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * * ** *
1037 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAA-GGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* *
1102 ATCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACC
65 ATCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACC
** * * * *
1166 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
130 TTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * *
1202 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATATG----CTAAAGACCTTTGAGTTCGA
1 ATTTGCAGCATAACTTAAGTCTAGAA-GGTTATCTGCCAACAAAAGACCTTTGAGTTCGA
1258 TTATATTCAA
Statistics
Matches: 322, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
161 19 0.06
162 4 0.01
163 2 0.01
164 31 0.10
165 161 0.50
166 27 0.08
167 3 0.01
168 75 0.23
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGA
TCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:2031 original size:2 final size:2
Alignment explanation
Indices: 2020--2055 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2010 TTTGAAAATG
2020 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2056 TAAAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2100 original size:34 final size:32
Alignment explanation
Indices: 2040--2188 Score: 103
Period size: 34 Copynumber: 4.6 Consensus size: 32
2030 ATATATATAT
* *
2040 ATATATATATATA-TATTAAAAGCATTTTTGAAAC
1 ATATATATATATAGTTTTGAAA--ATTTTT-AAAC
*
2074 GTATATATATATAGTTTTGAAACA-TTTTAAA-
1 ATATATATATATAGTTTTGAAA-ATTTTTAAAC
*
2105 AT-T-TA-ATATAGTTTTGAAAACTTTTGAAAAC
1 ATATATATATATAGTTTTGAAAA-TTTT-TAAAC
* * *
2136 ATTTATATTATATAGTTTTTAAAATATTTTAAAA
1 ATATATA-TATATAGTTTTGAAAAT-TTTTAAAC
*
2170 ATATATAATATATAATTTT
1 ATATAT-ATATATAGTTTT
2189 TTTAAAACAT
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.01
28 14 0.15
29 5 0.05
30 4 0.04
31 3 0.03
32 4 0.04
33 6 0.06
34 33 0.35
35 24 0.26
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (32 bp):
ATATATATATATAGTTTTGAAAATTTTTAAAC
Found at i:2292 original size:3 final size:3
Alignment explanation
Indices: 2279--2352 Score: 64
Period size: 3 Copynumber: 24.3 Consensus size: 3
2269 ATATATAATA
*
2279 TAT TA- TAT TAT TA- TAT TATT TAT TATT TAT TAT TAT CATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TA-T TAT TAT
* *
2325 TAT TGT AAT TAT T-T TATT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
2353 TCTTATTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 6 0.10
3 41 0.71
4 11 0.19
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8566 original size:18 final size:19
Alignment explanation
Indices: 8543--8582 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
8533 ATTTTTAACA
8543 AAAAAATT-CTTTAAATAC
1 AAAAAATTACTTTAAATAC
8561 AAAAAATTAACTTTAAATAC
1 AAAAAATT-ACTTTAAATAC
8581 AA
1 AA
8583 TTTCCAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAATTACTTTAAATAC
Found at i:9207 original size:4 final size:4
Alignment explanation
Indices: 9198--9228 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
9188 ATTTATGGGG
9198 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
9229 CTCTGGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16573 original size:36 final size:36
Alignment explanation
Indices: 16526--16598 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16516 TAAGATGGAG
16526 AAAATGTTGGATCTTTTACATTATATGATTGCTGGT
1 AAAATGTTGGATCTTTTACATTATATGATTGCTGGT
16562 AAAATGTTGGATCTTTTACATTATATGATTGCTGGT
1 AAAATGTTGGATCTTTTACATTATATGATTGCTGGT
16598 A
1 A
16599 TGCATGCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (36 bp):
AAAATGTTGGATCTTTTACATTATATGATTGCTGGT
Found at i:32515 original size:16 final size:16
Alignment explanation
Indices: 32491--32564 Score: 85
Period size: 16 Copynumber: 4.2 Consensus size: 16
32481 TTAAAATCTG
*
32491 TGAAAGAATTAGAATC
1 TGAAGGAATTAGAATC
32507 TGAAGGAATTGGAATCTGAATC
1 TGAAGGAATT---A---GAATC
32529 TGAAGGAATTAGAATC
1 TGAAGGAATTAGAATC
32545 TGAAGGAATTAGAATC
1 TGAAGGAATTAGAATC
32561 TGAA
1 TGAA
32565 TCTGAAACTT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
16 34 0.67
19 2 0.04
22 15 0.29
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (16 bp):
TGAAGGAATTAGAATC
Found at i:32527 original size:22 final size:21
Alignment explanation
Indices: 32502--32570 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 21
32492 GAAAGAATTA
32502 GAATCTGAAGGAATTGGAATCT
1 GAATCTGAAGGAATT-GAATCT
32524 GAATCTGAAGGAATT--A---
1 GAATCTGAAGGAATTGAATCT
32540 GAATCTGAAGGAATTAGAATCT
1 GAATCTGAAGGAATT-GAATCT
32562 GAATCTGAA
1 GAATCTGAA
32571 ACTTGTTTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
16 15 0.37
19 2 0.05
22 24 0.59
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.26
Consensus pattern (21 bp):
GAATCTGAAGGAATTGAATCT
Found at i:32539 original size:38 final size:38
Alignment explanation
Indices: 32491--32571 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
32481 TTAAAATCTG
*
32491 TGAAAGAATTAGAATCTGAAGGAATTGGAATCTGAATC
1 TGAAAGAATTAGAATCTGAAGGAATTAGAATCTGAATC
*
32529 TGAAGGAATTAGAATCTGAAGGAATTAGAATCTGAATC
1 TGAAAGAATTAGAATCTGAAGGAATTAGAATCTGAATC
32567 TGAAA
1 TGAAA
32572 CTTGTTTGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.26
Consensus pattern (38 bp):
TGAAAGAATTAGAATCTGAAGGAATTAGAATCTGAATC
Found at i:33155 original size:27 final size:28
Alignment explanation
Indices: 33093--33156 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
33083 TAAACCCGAA
*
33093 CCGACCCAAATATCACACTTAAAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAC
*
33121 CCGACCCGAATATCACACTT-GAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAC
33148 CCGACCCGA
1 CCGACCCGA
33157 CCCCGAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.42, C:0.36, G:0.09, T:0.12
Consensus pattern (28 bp):
CCGACCCGAATATCACACTTAAAAAAAC
Found at i:33178 original size:32 final size:32
Alignment explanation
Indices: 33142--33232 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
33132 ATCACACTTG
*
33142 AAAAACCCGACCCGACCCCGAATTTTTTTTTA
1 AAAAACCCGACCCGATCCCGAATTTTTTTTTA
* *
33174 AAAAATCCGACCCGATCCCGAATTTGTTTTTA
1 AAAAACCCGACCCGATCCCGAATTTTTTTTTA
* *
33206 AAAAACCGGACCCGATCCCGAAATTTT
1 AAAAACCCGACCCGATCCCGAATTTTT
33233 AAAAAAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (32 bp):
AAAAACCCGACCCGATCCCGAATTTTTTTTTA
Found at i:35869 original size:12 final size:12
Alignment explanation
Indices: 35852--35877 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35842 TTTTGGTTTT
35852 AAATATTTAATA
1 AAATATTTAATA
35864 AAATATTTAATA
1 AAATATTTAATA
35876 AA
1 AA
35878 TTGTTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATTTAATA
Found at i:37082 original size:20 final size:20
Alignment explanation
Indices: 36988--37276 Score: 325
Period size: 20 Copynumber: 14.4 Consensus size: 20
36978 GATTTTCCAT
* ** *
36988 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
37008 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
37028 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37048 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
37068 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
37088 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37108 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37128 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37148 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
37168 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37188 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
37208 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
37228 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
37248 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
37268 AATCACAAC
1 AATCGCAAC
37277 ACTTAAATTT
Statistics
Matches: 231, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.01
20 225 0.97
21 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:37998 original size:24 final size:24
Alignment explanation
Indices: 37959--38005 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37949 AAATTTGGTC
37959 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
37983 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
38006 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:40508 original size:19 final size:19
Alignment explanation
Indices: 40486--40777 Score: 383
Period size: 19 Copynumber: 16.4 Consensus size: 19
40476 CGGAAAATAC
*
40486 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40505 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
40519 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
40539 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
40553 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40572 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40591 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
40605 AATCGCAATGCGAAAT-TA
1 AATCGCAATGCGAAATGAA
40623 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40642 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40661 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40680 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40699 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40718 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
40732 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40751 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40770 AATCGCAA
1 AATCGCAA
40778 CGAGATAATC
Statistics
Matches: 244, Mismatches: 7, Indels: 44
0.83 0.02 0.15
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 12 0.05
18 18 0.07
19 148 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:40759 original size:52 final size:54
Alignment explanation
Indices: 40486--40799 Score: 349
Period size: 52 Copynumber: 5.9 Consensus size: 54
40476 CGGAAAATAC
* *
40486 AATCGCAACGCGAAATGAAAATCCCAA-C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAAATG--AATCGCAATGC-GAAATGAA
*
40539 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG--AATCGCAATGCGAAATGAA
* *
40591 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAAA-TGAATCGCAATGCGAAATGAA
40642 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG--AATCGCAATGCGAAATGAA
40699 AATCGCAATGCGAAATGAAAATCGCAA-CGAAA-GAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAATCGCAATGCGAAATGAA
*
40751 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAT-AATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAATCGCAATGCGAAAT
40800 TATAAACGCA
Statistics
Matches: 239, Mismatches: 6, Indels: 33
0.86 0.02 0.12
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 29 0.12
52 99 0.41
53 29 0.12
54 4 0.02
55 6 0.03
56 15 0.06
57 46 0.19
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAATCGCAATGCGAAATGAA
Found at i:40790 original size:179 final size:176
Alignment explanation
Indices: 40486--40815 Score: 538
Period size: 179 Copynumber: 1.9 Consensus size: 176
40476 CGGAAAATAC
*
40486 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
1 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAA
40551 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
*
40616 GAAATTA-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
131 GAAATTATAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
40661 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
* *
40725 ACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGC
61 ACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGC
*
40790 AATGCGAAATTATAAACGCATTGCGA
126 AATGCGAAATTATAAACGCAATGCGA
40816 TTTTCATTTC
Statistics
Matches: 142, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
175 25 0.18
177 1 0.01
179 89 0.63
180 27 0.19
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (176 bp):
AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAA
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGC
GAAATTATAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:40848 original size:72 final size:71
Alignment explanation
Indices: 40772--40915 Score: 155
Period size: 72 Copynumber: 2.0 Consensus size: 71
40762 GAAATGAAAA
40772 TCGCAACGAGATAATCGCAATGCGAAATT-ATAAACGCATTGCGATTTTCATTTCCGCATTGCGA
1 TCGCAACGAGATAATCGCAATGCGAAATTCAT-AACGCATTGCGATTTTCATTT-CGCATTGCGA
40836 TTTTCATT
64 TTTTCATT
** * ** * ** ** **
40844 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAACGAGATAATCGCAATGCGAAATTCATAACGCATTGCGATTTTCATTTCGCATTGCGATT
40909 TTCATT
66 TTCATT
40915 T
1 T
40916 TGCCTTCACA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
71 19 0.32
72 38 0.64
73 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (71 bp):
TCGCAACGAGATAATCGCAATGCGAAATTCATAACGCATTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:40850 original size:19 final size:19
Alignment explanation
Indices: 40806--40915 Score: 167
Period size: 19 Copynumber: 6.0 Consensus size: 19
40796 AAATTATAAA
40806 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
40825 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
40845 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
40861 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
40878 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
40897 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
40916 TGCCTTCACA
Statistics
Matches: 83, Mismatches: 2, Indels: 11
0.86 0.02 0.11
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 7 0.08
19 44 0.53
20 19 0.23
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:41039 original size:13 final size:14
Alignment explanation
Indices: 41012--41047 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
41002 CATCAATTAC
41012 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
41026 ACAAATCATC-TTT
1 ACAAATCAACTTTT
41039 ACAAATCAA
1 ACAAATCAA
41048 TTAACAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:43019 original size:33 final size:33
Alignment explanation
Indices: 42982--43074 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
42972 GCGAAACCAA
42982 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
43015 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
43048 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
43075 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:43020 original size:14 final size:14
Alignment explanation
Indices: 43001--43057 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
42991 GCGAAATGAA
43001 AATCGCAACGAAAG
1 AATCGCAACGAAAG
43015 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
43032 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
43048 AATCGCAACG
1 AATCGCAACG
43058 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
16 6 0.16
17 6 0.16
19 8 0.21
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:43039 original size:19 final size:19
Alignment explanation
Indices: 42945--43079 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
42935 TAGTTTACTT
* *
42945 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
42965 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
42984 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
43003 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
43017 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
43036 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
43050 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
43069 TCGCAATGCGA
1 TCGCAACGCGA
43080 TTTTGGTTTC
Statistics
Matches: 99, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
14 16 0.16
16 12 0.12
17 12 0.12
19 47 0.47
20 12 0.12
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:43071 original size:52 final size:54
Alignment explanation
Indices: 42945--43079 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 54
42935 TAGTTTACTT
* *
42945 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAATGCGAAACCAAAATCGCAAC-CGAAATG-AAA
**
43003 TCGCAA-CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACCGAAATGAAA
43050 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAATGCGA
43080 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 6 0.09
50 6 0.09
52 37 0.54
56 5 0.07
58 6 0.09
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:43097 original size:19 final size:19
Alignment explanation
Indices: 43075--43187 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
43065 AAAATCGCAA
43075 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
43094 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
43108 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
43127 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
43141 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
43160 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
43179 TGCGATTTT
1 TGCGATTTT
43188 AAGTTTCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:43117 original size:33 final size:33
Alignment explanation
Indices: 43075--43166 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
43065 AAAATCGCAA
43075 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
43108 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
43141 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
43167 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:43535 original size:93 final size:93
Alignment explanation
Indices: 43244--44085 Score: 1638
Period size: 93 Copynumber: 9.1 Consensus size: 93
43234 TTGAATGGAT
43244 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43309 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43337 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43401 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43429 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43494 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43522 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43586 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43614 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43678 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43706 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43771 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43799 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43864 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43892 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
43956 AGTTTAGCAGAATTGGCAGCAACCAAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43984 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
44049 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
44077 AAATTTACT
1 AAATTTACT
44086 AAGCAATCTA
Statistics
Matches: 742, Mismatches: 3, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
92 367 0.49
93 375 0.51
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:43556 original size:185 final size:186
Alignment explanation
Indices: 43244--44085 Score: 1638
Period size: 185 Copynumber: 4.5 Consensus size: 186
43234 TTGAATGGAT
43244 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43309 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
43374 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
43429 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43494 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
43558 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
43614 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43678 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
43743 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
43799 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43864 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
43929 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCAAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
43984 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
44049 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
44086 AAGCAATCTA
Statistics
Matches: 652, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
184 91 0.14
185 469 0.72
186 92 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:45241 original size:14 final size:14
Alignment explanation
Indices: 45222--45311 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
45212 TTGAAATGAA
45222 AATCGCAACGAGAG
1 AATCGCAACGAGAG
45236 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
45253 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
45269 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
45288 AATCGCAACGAGAG
1 AATCGCAACGAGAG
45302 AATCGCAACG
1 AATCGCAACG
45312 CGAAACCAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:45259 original size:33 final size:33
Alignment explanation
Indices: 45214--45327 Score: 192
Period size: 33 Copynumber: 3.5 Consensus size: 33
45204 TCTTTTGGTT
45214 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
45247 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45280 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
45313 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
45328 TTGCGATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.45, C:0.23, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:45345 original size:19 final size:19
Alignment explanation
Indices: 45323--45387 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
45313 GAAACCAAAA
*
45323 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45342 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
45356 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45375 TCGCGTTGCGATT
1 TCGCGTTGCGATT
45388 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:45364 original size:14 final size:14
Alignment explanation
Indices: 45345--45399 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
45335 TTTCATTTCG
45345 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
45359 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
45378 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
45392 CGTTGCGA
1 CGTTGCGA
45400 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:45370 original size:33 final size:33
Alignment explanation
Indices: 45328--45399 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
45318 CAAAATCGCA
45328 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
45361 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
45394 TTGCGA
1 TTGCGA
45400 CAGTCATTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:45407 original size:33 final size:33
Alignment explanation
Indices: 45337--45421 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
45327 ATTGCGATTT
***
45337 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTT
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGACAG
45370 TCATTTCGCGTTGCGATTCTCTCGTTGCGACAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGACAG
*
45403 TCATTCTCTCGTTGCGATT
1 TCATT-TCGCGTTGCGATT
45422 TTCATTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 35 0.74
34 12 0.26
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGCGACAG
Found at i:45426 original size:20 final size:20
Alignment explanation
Indices: 45352--45440 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
45342 TCGCGTTGCG
45352 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
45372 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
45385 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
45405 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
45425 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
45441 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:45556 original size:32 final size:32
Alignment explanation
Indices: 45520--45588 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
45510 ACTAACTTGA
*
45520 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
45552 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
45584 AAATC
1 AAATC
45589 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:45562 original size:18 final size:18
Alignment explanation
Indices: 45539--45588 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
45529 CGAGAGAATA
45539 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
45557 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
45571 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
45589 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:45819 original size:22 final size:22
Alignment explanation
Indices: 45767--45821 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
45757 TGGTTGTGAG
**
45767 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
45789 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
45811 GGATTTCTTCG
1 GGATTTCTTCG
45822 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:45992 original size:20 final size:20
Alignment explanation
Indices: 45967--46159 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
45957 CTTTAAATAT
45967 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
45987 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
46009 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46028 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
46048 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
46068 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46088 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
46108 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
46128 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
46148 CGCGTTGCGATT
1 CGCGTTGCGATT
46160 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:46154 original size:60 final size:60
Alignment explanation
Indices: 45967--46159 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
45957 CTTTAAATAT
**
45967 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
46028 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
46088 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
46148 CGCGTTGCGATT
1 CGCGTTGCGATT
46160 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:46240 original size:20 final size:20
Alignment explanation
Indices: 46215--46266 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
46205 AAGAATCGCG
*
46215 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
46235 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
46255 TTGCGATTCTGG
1 TTGCGATTCTGG
46267 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:46842 original size:218 final size:219
Alignment explanation
Indices: 46464--46909 Score: 824
Period size: 218 Copynumber: 2.0 Consensus size: 219
46454 AGGGTAAATT
*
46464 ATTTAGTTACCTAAAATTATTAGTTTTAATCCATTTTATTACTTAAACTTTCAGTTTTTTAAATT
1 ATTTAGTTACCTAAAATTATTAGTTTTAATCCATTTTATTACTTAAACTTTCAGTTTTTTAAACT
*
46529 ATATCTAACATTTAGTTTTTGTTTCATATTAGTACCTCGCCGTTAAAAACTTAACGGGTGATTTG
66 ATATCTAACATTTAGTTTTTGTTTCATATTAGTACCTAGCCGTTAAAAACTTAACGGGTGATTTG
46594 CACTTGACACCTTTTTATGGGTAAATTACATTATTCATCAC-TAACTATCTTCCCACTCATATTT
131 CACTTGACACCTTTTTATGGGTAAATTACATTATTCATCACTTAACTATCTTCCCACTCATATTT
*
46658 TGGTCACTAAAGTTTAATATTTTA
196 TGGTCACTAAAATTTAATATTTTA
*
46682 ATTTAGTTACCTAAAATTATTAGTTTTAATCCATTTTATTACTTAAATTTTCAGTTTTTTAAACT
1 ATTTAGTTACCTAAAATTATTAGTTTTAATCCATTTTATTACTTAAACTTTCAGTTTTTTAAACT
46747 ATATCTAACATTTAGTTTTTGTTTCATATTAGTACCTAGCCGTTAAAAACTTAACGGGTGATTTG
66 ATATCTAACATTTAGTTTTTGTTTCATATTAGTACCTAGCCGTTAAAAACTTAACGGGTGATTTG
*
46812 CACTTGACACCTTTTTATGGGTAAATTACATTATTCATCACTTAACTATCTTCTCACTCATATTT
131 CACTTGACACCTTTTTATGGGTAAATTACATTATTCATCACTTAACTATCTTCCCACTCATATTT
*
46877 TGGTCACTAAAATTTAATATTTTT
196 TGGTCACTAAAATTTAATATTTTA
46901 ATTTA-TTAC
1 ATTTAGTTAC
46910 TCCTAATTTA
Statistics
Matches: 221, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
218 172 0.78
219 49 0.22
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (219 bp):
ATTTAGTTACCTAAAATTATTAGTTTTAATCCATTTTATTACTTAAACTTTCAGTTTTTTAAACT
ATATCTAACATTTAGTTTTTGTTTCATATTAGTACCTAGCCGTTAAAAACTTAACGGGTGATTTG
CACTTGACACCTTTTTATGGGTAAATTACATTATTCATCACTTAACTATCTTCCCACTCATATTT
TGGTCACTAAAATTTAATATTTTA
Found at i:54718 original size:15 final size:15
Alignment explanation
Indices: 54694--54723 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54684 TTATTTTCAC
54694 TATTTGTTATTTTTT
1 TATTTGTTATTTTTT
*
54709 TATTTTTTATTTTTT
1 TATTTGTTATTTTTT
54724 ACTTAGTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TATTTGTTATTTTTT
Found at i:60859 original size:2 final size:2
Alignment explanation
Indices: 60852--60878 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60842 TTAAAGTTTG
60852 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
60879 TGATGGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64060 original size:59 final size:60
Alignment explanation
Indices: 63902--64064 Score: 165
Period size: 60 Copynumber: 2.7 Consensus size: 60
63892 TATAATTTGA
* * * * *
63902 GATGAAATTGAAATGTTCAAAAATGTTTAGGGATCAATGTAAAATGAAGGTTATAGTTTAGG
1 GATGAAACTAAAATGTT-AAAAA-GTTTAGGGATCAATTTAAAATGAAGGTCATAGTTTAAG
* *
63964 GATGAAACTAAAATGTTAAAAAGTTTAAGGA-CTAATTTAAAATAGCA-GTCATAG-TTAAG
1 GATGAAACTAAAATGTTAAAAAGTTTAGGGATC-AATTTAAAAT-GAAGGTCATAGTTTAAG
*
64023 GATGAAACTAGAATAT-TTAGAAA-TTTAGGGATCAATTTAAAA
1 GATGAAACTA-AA-ATGTTAAAAAGTTTAGGGATCAATTTAAAA
64065 CAAGAATCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
59 31 0.36
60 32 0.37
61 9 0.10
62 15 0.17
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.31
Consensus pattern (60 bp):
GATGAAACTAAAATGTTAAAAAGTTTAGGGATCAATTTAAAATGAAGGTCATAGTTTAAG
Found at i:64075 original size:59 final size:59
Alignment explanation
Indices: 63902--64081 Score: 154
Period size: 59 Copynumber: 3.0 Consensus size: 59
63892 TATAATTTGA
* * * * *
63902 GATGAAATTGAAATGTTCAAAAATGTTTAGGGATCAATGTAAAATGAAG-GTTATAGTTTAGG
1 GATGAAACTAAAATGTT-AAAAA-GTTTAGGGATCAATTTAAAA--AAGAGTCATAGTTTAAG
* *
63964 GATGAAACTAAAATGTTAAAAAGTTTAAGGA-CTAATTTAAAATAGCAGTCATAG-TTAAG
1 GATGAAACTAAAATGTTAAAAAGTTTAGGGATC-AATTTAAAAAAG-AGTCATAGTTTAAG
* * *
64023 GATGAAACTAGAATAT-TTAGAAA-TTTAGGGATCAATTTAAAACAAGAATCATATTTTAA
1 GATGAAACTA-AA-ATGTTAAAAAGTTTAGGGATCAATTTAAAA-AAGAGTCATAGTTTAA
64082 TTCACACATC
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
58 2 0.02
59 37 0.38
60 37 0.38
61 7 0.07
62 15 0.15
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (59 bp):
GATGAAACTAAAATGTTAAAAAGTTTAGGGATCAATTTAAAAAAGAGTCATAGTTTAAG
Found at i:69583 original size:20 final size:20
Alignment explanation
Indices: 69558--69597 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
69548 AAAATGACCA
*
69558 ACGTAAATCGCAATTCGAAT
1 ACGTAAATCGCAATGCGAAT
69578 ACGTAAATCGCAATGCGAAT
1 ACGTAAATCGCAATGCGAAT
69598 TTGACTATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (20 bp):
ACGTAAATCGCAATGCGAAT
Found at i:70209 original size:20 final size:20
Alignment explanation
Indices: 70184--70232 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
70174 CAACAAGTGA
70184 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
70204 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
70224 ATCGCAACG
1 ATCGCAACG
70233 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:72160 original size:20 final size:20
Alignment explanation
Indices: 72135--72278 Score: 183
Period size: 20 Copynumber: 7.5 Consensus size: 20
72125 AGAATAGTTT
72135 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
72155 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
72171 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
72189 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
72209 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* * * *
72229 ACTATCACTATGCAAAAATA
1 ACTATCGCAATGCGAAAATG
**
72249 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
72269 ACTATCGCAA
1 ACTATCGCAA
72279 CGAGAGAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.07
16 4 0.04
17 4 0.04
18 4 0.04
20 87 0.82
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:72349 original size:34 final size:37
Alignment explanation
Indices: 72306--72397 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 37
72296 GAAATGAAAA
72306 TCGCATTGCGAT-TC-TCTCG-TTGCGATAGTCATTT
1 TCGCATTGCGATATCATCTCGATTGCGATAGTCATTT
*
72340 TCGCATTGCGATAGTCATTTTCGTATTGCGATAGTCATTT
1 TCGCATTGCGATA-TCA-TCTCG-ATTGCGATAGTCATTT
*
72380 TTGCATTGCGATAGTCAT
1 TCGCATTGCGATA-TCAT
72398 TTTCGCGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
34 12 0.24
36 2 0.04
38 4 0.08
39 1 0.02
40 31 0.62
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (37 bp):
TCGCATTGCGATATCATCTCGATTGCGATAGTCATTT
Found at i:72350 original size:20 final size:20
Alignment explanation
Indices: 72325--72411 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
72315 GATTCTCTCG
72325 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
72345 TTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
*
72365 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
72385 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
72405 TTGCGAT
1 TTGCGAT
72412 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:72986 original size:21 final size:21
Alignment explanation
Indices: 72895--72999 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
72885 GACTCACATG
*
72895 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
72917 T-ATTGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
72937 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
72958 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
72979 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
73000 CCAACATTCT
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:72992 original size:42 final size:42
Alignment explanation
Indices: 72921--73002 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
72911 CTCCCCTATT
*
72921 GTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACC
1 GTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACC
* ** *
72963 GTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 GTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
73003 ACATTCTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.21
Consensus pattern (42 bp):
GTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACC
Found at i:74542 original size:33 final size:33
Alignment explanation
Indices: 74492--74587 Score: 111
Period size: 33 Copynumber: 2.8 Consensus size: 33
74482 AAAACAAACT
* ** *
74492 ATCGCAACGCGGAAATGACTATCGCAATGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
74526 ATCGCAATGTGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
74559 ATCGCAATGCGAAAATAAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
74588 CGAAATTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 29 0.55
34 24 0.45
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:74712 original size:237 final size:237
Alignment explanation
Indices: 74386--74856 Score: 879
Period size: 237 Copynumber: 2.0 Consensus size: 237
74376 TAAATGTTGG
*
74386 TTTGTTTAATTGATGTGTACATAATATTTGTGCTTGTTTAATTGATTGAAATGTAATATTTGATT
1 TTTGTTTAATTGATGTGTACATAATATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATT
74451 TGTTGATTTCAATCTGCATTATGTTGAATGCAAAACAAACTATCGCAACGCGGAAATGACTATCG
66 TGTTGATTTCAATCTGCATTATGTTGAATGCAAAACAAACTATCGCAACGCGGAAATGACTATCG
* *
74516 CAATGAGAGAATCGCAATGTGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATAAAAAT
131 CAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATAAAAAT
*
74581 CGCAACGCGAAATTAATTTCGCGTTGCAATTTTCATTTTTGA
196 CGCAACGCGAAACTAATTTCGCGTTGCAATTTTCATTTTTGA
74623 TTTGTTTAATTGATGTGTACATAATATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATT
1 TTTGTTTAATTGATGTGTACATAATATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATT
*
74688 TGTTGATTTCAATCTGCATTATGTTGAATGCAAAACAGACTATCGCAACGCGGAAATGACTATCG
66 TGTTGATTTCAATCTGCATTATGTTGAATGCAAAACAAACTATCGCAACGCGGAAATGACTATCG
*
74753 CAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAAT
131 CAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATAAAAAT
*
74818 CGCAACGCGAAACTAATTTCGCGTTGCGATTTTCATTTT
196 CGCAACGCGAAACTAATTTCGCGTTGCAATTTTCATTTT
74857 CGCATTGCGA
Statistics
Matches: 227, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 227 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (237 bp):
TTTGTTTAATTGATGTGTACATAATATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATT
TGTTGATTTCAATCTGCATTATGTTGAATGCAAAACAAACTATCGCAACGCGGAAATGACTATCG
CAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATAAAAAT
CGCAACGCGAAACTAATTTCGCGTTGCAATTTTCATTTTTGA
Found at i:74817 original size:34 final size:33
Alignment explanation
Indices: 74729--74824 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
74719 AAAACAGACT
* **
74729 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
74763 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
74796 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
74825 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:74820 original size:20 final size:19
Alignment explanation
Indices: 74762--74829 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
74752 GCAACGAGAG
74762 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
74781 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
74795 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
74815 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
74830 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:74859 original size:20 final size:20
Alignment explanation
Indices: 74834--74961 Score: 115
Period size: 20 Copynumber: 6.7 Consensus size: 20
74824 GCGAAACTAA
**
74834 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
*
74854 TTTCGCATTGCGAT--TC--
1 TTTCGCGTTGCGATAGTCAT
*
74870 TCTC--GTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
*
74888 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
* * *
74908 TTCCGCATTGCGAGAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* *
74928 TTCCGTGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
*
74948 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
74962 TTTCGCGTTA
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
18 5 0.06
20 70 0.80
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:77077 original size:12 final size:12
Alignment explanation
Indices: 77060--77084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77050 TAATCATCTT
77060 TCTTGATACGAA
1 TCTTGATACGAA
77072 TCTTGATACGAA
1 TCTTGATACGAA
77084 T
1 T
77085 AATTTTTGTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TCTTGATACGAA
Found at i:77437 original size:24 final size:24
Alignment explanation
Indices: 77403--77456 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
77393 CTGAAAAATC
77403 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
77427 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
77451 ATCAAA
1 ATCAAA
77457 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:78397 original size:21 final size:20
Alignment explanation
Indices: 78333--78426 Score: 107
Period size: 20 Copynumber: 4.6 Consensus size: 20
78323 ATTTACAGAT
* *
78333 TCGCATTGCGGTTTACGTAA
1 TCGCATTGCGATTTACGAAA
*
78353 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGAAA
*
78373 TCGCATTGCGATTTAGGAAAA
1 TCGCATTGCGATTTACG-AAA
* *
78394 TCGCAATGCGAATTTAGGAAA
1 TCGCATTGCG-ATTTACGAAA
*
78415 TCGCAATGCGAT
1 TCGCATTGCGAT
78427 AGTTAGAATC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 37 0.54
21 24 0.35
22 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (20 bp):
TCGCATTGCGATTTACGAAA
Found at i:78411 original size:22 final size:21
Alignment explanation
Indices: 78351--78425 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
78341 CGGTTTACGT
* * *
78351 AATCGCATTGCG-ATTTACGT
1 AATCGCAATGCGAATTTAGGA
*
78371 AATCGCATTGCG-ATTTAGGAA
1 AATCGCAATGCGAATTTAGG-A
78392 AATCGCAATGCGAATTTAGGA
1 AATCGCAATGCGAATTTAGGA
78413 AATCGCAATGCGA
1 AATCGCAATGCGA
78426 TAGTTAGAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
20 18 0.36
21 25 0.50
22 7 0.14
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (21 bp):
AATCGCAATGCGAATTTAGGA
Found at i:78432 original size:22 final size:22
Alignment explanation
Indices: 78371--78432 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
78361 CGATTTACGT
*
78371 AATCGCATTGCGAT-TTAGGAA
1 AATCGCAATGCGATATTAGGAA
78392 AATCGCAATGCGA-ATTTAGG-A
1 AATCGCAATGCGATA-TTAGGAA
78413 AATCGCAATGCGATAGTTAG
1 AATCGCAATGCGATA-TTAG
78433 AATCGCGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 26 0.72
22 10 0.28
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (22 bp):
AATCGCAATGCGATATTAGGAA
Found at i:79766 original size:21 final size:21
Alignment explanation
Indices: 79716--79772 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
79706 ATTTTTTGTT
*
79716 CAAATGATCGATCCCTTAGAC
1 CAAAAGATCGATCCCTTAGAC
* * *
79737 AAAAAGATCGATCCTTTTGAC
1 CAAAAGATCGATCCCTTAGAC
* *
79758 CAAAGGATCAATCCC
1 CAAAAGATCGATCCC
79773 CTTGATAAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (21 bp):
CAAAAGATCGATCCCTTAGAC
Found at i:79777 original size:21 final size:20
Alignment explanation
Indices: 79753--79792 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
79743 ATCGATCCTT
79753 TTGACCAAAGGATCAATCCCC
1 TTGA-CAAAGGATCAATCCCC
*
79774 TTGATAAAGGATCAATCCC
1 TTGACAAAGGATCAATCCC
79793 TTCGATACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.23
Consensus pattern (20 bp):
TTGACAAAGGATCAATCCCC
Found at i:97439 original size:17 final size:17
Alignment explanation
Indices: 97409--97448 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
97399 ATACTTTAGT
*
97409 TATATTTTTTATTAAAAA
1 TATA-TTTTAATTAAAAA
*
97427 TATATTTTAATTAAATA
1 TATATTTTAATTAAAAA
97444 TATAT
1 TATAT
97449 AAGTTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAAAAA
Found at i:97765 original size:2 final size:2
Alignment explanation
Indices: 97758--97787 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
97748 TTCTACATAC
97758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97788 TTCCTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105703 original size:21 final size:21
Alignment explanation
Indices: 105677--105722 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
105667 ATAAAATTTT
105677 TGAAAA-AAAATAAAAATAAAA
1 TGAAAACAAAAT-AAAATAAAA
* *
105698 TGAAAACTAAATAAACTAAAA
1 TGAAAACAAAATAAAATAAAA
105719 TGAA
1 TGAA
105723 TATGTACGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (21 bp):
TGAAAACAAAATAAAATAAAA
Found at i:106167 original size:2 final size:2
Alignment explanation
Indices: 106162--106193 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
106152 ATCATCAACA
106162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106194 ATTTAGCCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107324 original size:16 final size:16
Alignment explanation
Indices: 107303--107335 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
107293 AATGAGGCGC
107303 ATTTCAGCTATTGTTT
1 ATTTCAGCTATTGTTT
107319 ATTTCAGCTATTGTTT
1 ATTTCAGCTATTGTTT
107335 A
1 A
107336 ATATGATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (16 bp):
ATTTCAGCTATTGTTT
Found at i:111402 original size:18 final size:18
Alignment explanation
Indices: 111375--111409 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111365 ATATACAAAT
* *
111375 TAAAATATAAATTAATAC
1 TAAAAAATAAATGAATAC
111393 TAAAAAATAAATGAATA
1 TAAAAAATAAATGAATA
111410 AAACATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAAATAAATGAATAC
Found at i:112597 original size:26 final size:24
Alignment explanation
Indices: 112547--112598 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
112537 GCTCTCTGTT
*
112547 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACACAAA
**
112571 CGAACATATAATCGAACGTTCACAAA
1 CGAACATA-AAT-GAACGAACACAAA
112597 CG
1 CG
112599 TAAATGAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
25 3 0.13
26 12 0.52
ACGTcount: A:0.50, C:0.21, G:0.13, T:0.15
Consensus pattern (24 bp):
CGAACATAAATGAACGAACACAAA
Found at i:112690 original size:43 final size:40
Alignment explanation
Indices: 112620--112698 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
112610 ACGAGCCTTT
*
112620 TGTTCATGTTCGTTCATTTAATTAAACGAACGTAAAATCA
1 TGTTCATGTTCGTTCATTTAATTAAACGAACATAAAATCA
*
112660 TGTTCATGTTCGTTTATTTAATAAATAAACGAACATAAA
1 TGTTCATGTTCGTTCATTTAAT---TAAACGAACATAAA
112699 TGAACTTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 21 0.62
43 13 0.38
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (40 bp):
TGTTCATGTTCGTTCATTTAATTAAACGAACATAAAATCA
Found at i:121898 original size:14 final size:14
Alignment explanation
Indices: 121881--121920 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
121871 CATCCGAAGC
121881 CATCCGACCGAGGG
1 CATCCGACCGAGGG
121895 CATCCGACCGAGGG
1 CATCCGACCGAGGG
*
121909 CATCCGAGCGAG
1 CATCCGACCGAG
121921 CTATGCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.23, C:0.35, G:0.35, T:0.07
Consensus pattern (14 bp):
CATCCGACCGAGGG
Found at i:122008 original size:29 final size:29
Alignment explanation
Indices: 121967--122043 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
121957 GAGGAGCAGG
121967 AGGAGTGCATGGCGACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTACAAGGTCGCC
121996 AGGAGTGCATGGCGACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTACAAGGTCGCC
*
122025 CGGAGTGCATGGCGACCTA
1 AGGAGTGCATGGCGACCTA
122044 TGCTGGGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.14
Consensus pattern (29 bp):
AGGAGTGCATGGCGACCTACAAGGTCGCC
Found at i:130285 original size:2 final size:2
Alignment explanation
Indices: 130278--130307 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
130268 AACGTATGTC
130278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130308 GATGTGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130341 original size:12 final size:11
Alignment explanation
Indices: 130278--130341 Score: 55
Period size: 10 Copynumber: 6.0 Consensus size: 11
130268 AACGTATGTC
130278 ATATATATAT-
1 ATATATATATG
130288 ATATATATAT-
1 ATATATATATG
130298 ATATATATATG
1 ATATATATATG
* *
130309 ATGTGTAATATG
1 ATATAT-ATATG
*
130321 A-AT-TGTATG
1 ATATATATATG
130330 ATATGATATATG
1 ATAT-ATATATG
130342 TGTGTTATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.11
10 23 0.52
11 5 0.11
12 11 0.25
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (11 bp):
ATATATATATG
Found at i:131376 original size:21 final size:21
Alignment explanation
Indices: 131350--131421 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
131340 AAAATCTCTC
131350 AGTATCGATATTGACCACCTG
1 AGTATCGATATTGACCACCTG
*
131371 AGTATCGATGTTGACCACCTG
1 AGTATCGATATTGACCACCTG
*
131392 AGTATCGATAATAGACC-CC-G
1 AGTATCGAT-ATTGACCACCTG
131412 AGTATCGATA
1 AGTATCGATA
131422 CTCCTTGAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 1 0.02
20 10 0.21
21 31 0.66
22 5 0.11
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (21 bp):
AGTATCGATATTGACCACCTG
Found at i:132319 original size:30 final size:31
Alignment explanation
Indices: 132230--132324 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
132220 GTAACGATAG
* *
132230 AGTGACTATTTTGTTATAAATTGATAACATT
1 AGTGACCATTTTGTTATAAATTGATAACGTT
*
132261 AGTGATCATTTT-TATATAAATTGATAACGTT
1 AGTGACCATTTTGT-TATAAATTGATAACGTT
* *
132292 AGTGACCATTTTGTTA-CAATCGATAACGTT
1 AGTGACCATTTTGTTATAAATTGATAACGTT
132322 AGT
1 AGT
132325 AACAAATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 16 0.29
31 39 0.70
32 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (31 bp):
AGTGACCATTTTGTTATAAATTGATAACGTT
Found at i:132601 original size:14 final size:14
Alignment explanation
Indices: 132558--132602 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
132548 AATCAAGTAG
132558 TTTTTAAATATATAT
1 TTTTTAAA-ATATAT
* *
132573 TTTATAAAATTTAT
1 TTTTTAAAATATAT
*
132587 TTTTTAAAAAATAT
1 TTTTTAAAATATAT
132601 TT
1 TT
132603 AAAATAATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTTAAAATATAT
Found at i:133827 original size:20 final size:20
Alignment explanation
Indices: 133798--133847 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
133788 TGTGATATCG
133798 GTATCAATACCAACCCT-TGA
1 GTATCAATACCAACCCTGT-A
*
133818 GTATCGATACCAACCCTGTA
1 GTATCAATACCAACCCTGTA
133838 GTATCAATAC
1 GTATCAATAC
133848 TCTTTGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (20 bp):
GTATCAATACCAACCCTGTA
Found at i:134892 original size:22 final size:22
Alignment explanation
Indices: 134845--134892 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
134835 TATAAATTAT
134845 AAAATAATAATTATAAATATGGA
1 AAAATAATAATTATAAATAT-GA
*
134868 AAATTAA-AATT-TAAATATAGA
1 AAAATAATAATTATAAATAT-GA
134889 AAAA
1 AAAA
134893 GTGGACAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
22 4 0.18
23 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
AAAATAATAATTATAAATATGA
Found at i:142996 original size:362 final size:362
Alignment explanation
Indices: 142329--142999 Score: 1175
Period size: 362 Copynumber: 1.9 Consensus size: 362
142319 TAAAGCGGAA
* *
142329 AACGATGACGACGATGCTTTCTTCTTTGACTTGGACTTGGCACGTGTGGCCTAATGATGTTGTCA
1 AACGATGACGACGATGCTTTCTTCTTCGACTTGGACTTGGCACGTGTGGACTAATGATGTTGTCA
142394 TTCTGCCCTCTCTTCCGGTGTCGAGTGATATAATTTACCATTTTGTTCGTAAATCTGGAGATAGT
66 TTCTGCCCTCTCTTCCGGTGTCGAGTGATATAATTTACCATTTTGTTCGTAAATCTGGAGATAGT
*
142459 GGGAATGGTCAAAATCTAAGTCTAGAGGTGTAATGTCATGATGATGGGGGAGCGATAGTTCACGC
131 GGGAATGGTCAAAATCTAAGTCTAGAGGTGTAATGTCATGACGATGGGGGAGCGATAGTTCACGC
* *
142524 TAATTCCATAGGTCGATGTAGTAAGCGTGTCGCACTGACCAATTTTCATCATGTTTCCTACGTAT
196 TAATTCCATAGGTCAATGTAGTAAGCGTGTCGCACTGACCAATTTTCATCATGTTTCCTACGCAT
* *
142589 ATCGATTGTATGGAGCGCGTCCATATCAACCGTAATTTTCATAGGAATTGATTGGTGTAATAGTA
261 ATCGATTGTATGGAGCGCGTCCATATCAACCGGAATTTCCATAGGAATTGATTGGTGTAATAGTA
142654 CTCTTTCGCTACAGATGCTGAAGCGGAAAACGATGAC
326 CTCTTTCGCTACAGATGCTGAAGCGGAAAACGATGAC
* *
142691 AACGATGATGGCGATGCTTTCTTCTTCGACTTGGACTTGGCACGTGTGGACTAATGATGTT-TCC
1 AACGATGACGACGATGCTTTCTTCTTCGACTTGGACTTGGCACGTGTGGACTAATGATGTTGT-C
* *
142755 ATTCTGCCCTCTCTTCTGGTGTCGAGTGATATGATTTACCATTTTGTTCGTAAATCTGGAGATAG
65 ATTCTGCCCTCTCTTCCGGTGTCGAGTGATATAATTTACCATTTTGTTCGTAAATCTGGAGATAG
* * *
142820 TGGGAATGGTCGAAATCTAAGTCTAGCGGTGTAATGTCATGACGATGGGGGAGTGATAGTTCACG
130 TGGGAATGGTCAAAATCTAAGTCTAGAGGTGTAATGTCATGACGATGGGGGAGCGATAGTTCACG
*
142885 CTAATTCCATAGGTCAATGTAGTAAGCGTGTCGCACTGGCCAATTTTCATCATGTTTCCTACGCA
195 CTAATTCCATAGGTCAATGTAGTAAGCGTGTCGCACTGACCAATTTTCATCATGTTTCCTACGCA
142950 TATCGATTGTATGGAGCGCGTCCATATCAACCGCGAA-TTCCATAGGAATT
260 TATCGATTGTATGGAGCGCGTCCATATCAACCG-GAATTTCCATAGGAATT
143000 AACTGGTGCG
Statistics
Matches: 292, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
361 1 0.00
362 289 0.99
363 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (362 bp):
AACGATGACGACGATGCTTTCTTCTTCGACTTGGACTTGGCACGTGTGGACTAATGATGTTGTCA
TTCTGCCCTCTCTTCCGGTGTCGAGTGATATAATTTACCATTTTGTTCGTAAATCTGGAGATAGT
GGGAATGGTCAAAATCTAAGTCTAGAGGTGTAATGTCATGACGATGGGGGAGCGATAGTTCACGC
TAATTCCATAGGTCAATGTAGTAAGCGTGTCGCACTGACCAATTTTCATCATGTTTCCTACGCAT
ATCGATTGTATGGAGCGCGTCCATATCAACCGGAATTTCCATAGGAATTGATTGGTGTAATAGTA
CTCTTTCGCTACAGATGCTGAAGCGGAAAACGATGAC
Found at i:144399 original size:13 final size:14
Alignment explanation
Indices: 144371--144401 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
144361 CTATCGAATT
144371 TTTTATTTTATAAA
1 TTTTATTTTATAAA
144385 TTTTATTTT-TAAA
1 TTTTATTTTATAAA
144398 TTTT
1 TTTT
144402 TTTAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTTATAAA
Found at i:151706 original size:21 final size:20
Alignment explanation
Indices: 151667--151707 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
151657 TAAACATATG
151667 TTAAAATATTTATTTTATTT
1 TTAAAATATTTATTTTATTT
151687 TTAAAATTATATTA-TTTATTT
1 TTAAAA-TAT-TTATTTTATTT
151708 ATTTCACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 10 0.53
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAAAATATTTATTTTATTT
Found at i:153187 original size:35 final size:30
Alignment explanation
Indices: 153112--153170 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
153102 ATAAAGGTTA
153112 TTATTATTATTATATTTAACTTAACTTGAT
1 TTATTATTATTATATTTAACTTAACTTGAT
153142 TTATTATTATTATATTTAACTTAACTTGA
1 TTATTATTATTATATTTAACTTAACTTGA
153171 ATTCGTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (30 bp):
TTATTATTATTATATTTAACTTAACTTGAT
Found at i:154937 original size:16 final size:16
Alignment explanation
Indices: 154912--154945 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
154902 TACAAAAGGC
154912 ATCTACCCATCTATTT
1 ATCTACCCATCTATTT
* *
154928 ATCTATCCATCTTTTT
1 ATCTACCCATCTATTT
154944 AT
1 AT
154946 ATATTATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (16 bp):
ATCTACCCATCTATTT
Found at i:159479 original size:2 final size:2
Alignment explanation
Indices: 159472--159514 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
159462 GACGGTTTGA
159472 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
159514 T
1 T
159515 GACAAATTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:163442 original size:2 final size:2
Alignment explanation
Indices: 163435--163468 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
163425 ACAGAGAATA
163435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
163469 GCGCGCGCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:176786 original size:13 final size:13
Alignment explanation
Indices: 176768--176793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
176758 AAATGTAAAA
176768 TTAAAAAAATATT
1 TTAAAAAAATATT
176781 TTAAAAAAATATT
1 TTAAAAAAATATT
176794 AAAAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:177998 original size:21 final size:21
Alignment explanation
Indices: 177937--178000 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
177927 CTAAATTATA
***
177937 TAAAAATTAAAATTAAAAAAAGA
1 TAAAAA-T-AAATTAAAAAATTT
*
177960 TAAAAATAAATTTAAAAATTT
1 TAAAAATAAATTAAAAAATTT
177981 TAAAAA-AAAGTTAAAAAATT
1 TAAAAATAAA-TTAAAAAATT
178001 ACCTTATAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 3 0.09
21 25 0.71
22 1 0.03
23 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAAATAAATTAAAAAATTT
Found at i:180719 original size:12 final size:12
Alignment explanation
Indices: 180681--180773 Score: 73
Period size: 12 Copynumber: 7.8 Consensus size: 12
180671 ATTTTCGACT
180681 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
180693 TG-ATACATGACC
1 TGAATTC-TGTTC
180705 TGAATTCTGTTC
1 TGAATTCTGTTC
* * *
180717 TGATTTCTGATA
1 TGAATTCTGTTC
*
180729 TGGATTCTGTTC
1 TGAATTCTGTTC
180741 TG-ATATCTGTTC
1 TGAAT-TCTGTTC
*
180753 TGAATTCTGTTT
1 TGAATTCTGTTC
*
180765 TGATTTCTG
1 TGAATTCTG
180774 ATATCTCCAT
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
11 5 0.08
12 52 0.84
13 5 0.08
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:180738 original size:48 final size:48
Alignment explanation
Indices: 180684--180777 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
180674 TTCGACTTGA
180684 ATTCTGTTCTGATA-CATGACCTGAATTCTGTTCTGATTTCTGATATGG
1 ATTCTGTTCTGATATC-TGACCTGAATTCTGTTCTGATTTCTGATATGG
** *
180732 ATTCTGTTCTGATATCTGTTCTGAATTCTGTTTTGATTTCTGATAT
1 ATTCTGTTCTGATATCTGACCTGAATTCTGTTCTGATTTCTGATAT
180778 CTCCATTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 41 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (48 bp):
ATTCTGTTCTGATATCTGACCTGAATTCTGTTCTGATTTCTGATATGG
Found at i:180753 original size:17 final size:18
Alignment explanation
Indices: 180710--180761 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
180700 TGACCTGAAT
180710 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGA-TTCTGATA
*
180729 T-GGATTCTG-TTCTGATA
1 TCTG-TTCTGATTCTGATA
180746 TCTGTTCTGAATTCTG
1 TCTGTTCTG-ATTCTG
180762 TTTTGATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 11 0.41
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (18 bp):
TCTGTTCTGATTCTGATA
Found at i:180773 original size:24 final size:24
Alignment explanation
Indices: 180681--180775 Score: 111
Period size: 24 Copynumber: 4.0 Consensus size: 24
180671 ATTTTCGACT
* *
180681 TGAATTCTGTTCTGA-TACATGACC
1 TGAATTCTGTTCTGATTTC-TGATC
*
180705 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATC
* * *
180729 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATTTCTGATC
*
180753 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTCTGAT
180776 ATCTCCATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 57 0.97
25 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:183718 original size:18 final size:18
Alignment explanation
Indices: 183695--183755 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
183685 GTTCTTAAGG
*
183695 AGTGGTCCTTCAGGAAAT
1 AGTGGTCCTTCGGGAAAT
*
183713 AGTGGTCTTTCGGGAAAT
1 AGTGGTCCTTCGGGAAAT
* *
183731 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGAAAT
183749 AGTGGTC
1 AGTGGTC
183756 ATACGGGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGAAAT
Found at i:183763 original size:18 final size:18
Alignment explanation
Indices: 183695--183765 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
183685 GTTCTTAAGG
* * *
183695 AGTGGTCCTTCAGGAAAT
1 AGTGGTCATTCGGGACAT
* *
183713 AGTGGTCTTTCGGGAAAT
1 AGTGGTCATTCGGGACAT
* *
183731 AGTGGTCCTTTGGGACAT
1 AGTGGTCATTCGGGACAT
*
183749 AGTGGTCATACGGGACA
1 AGTGGTCATTCGGGACA
183766 AATTCTACGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:183763 original size:36 final size:36
Alignment explanation
Indices: 183695--183763 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
183685 GTTCTTAAGG
* *
183695 AGTGGTCCTTCAGGAAATAGTGGTCTTTCGGGAAAT
1 AGTGGTCCTTCAGGAAATAGTGGTCATACGGGAAAT
** *
183731 AGTGGTCCTTTGGGACATAGTGGTCATACGGGA
1 AGTGGTCCTTCAGGAAATAGTGGTCATACGGGA
183764 CAAATTCTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.29
Consensus pattern (36 bp):
AGTGGTCCTTCAGGAAATAGTGGTCATACGGGAAAT
Found at i:186256 original size:2 final size:2
Alignment explanation
Indices: 186195--186246 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
186185 TGAAATGTTA
186195 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
186237 AT AT AT AT AT
1 AT AT AT AT AT
186247 TTTTTATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:189058 original size:136 final size:136
Alignment explanation
Indices: 188880--189153 Score: 476
Period size: 136 Copynumber: 2.0 Consensus size: 136
188870 ACTAGAAATT
* *
188880 TAATCATATAATTCACATGAAATGTTCACATTATTCCAAGTGTGTGTTTTGTAAAATATTTCATA
1 TAATCATATAATTCACATGAAATGTTCACATCATTCCAAGTGTGTGTTTTGTAAAATATTTCAGA
* *
188945 AACTGAATTAATTATATTATATATCTCTACTTAAAACTAATATGCTACAAAGAACTTCTTAGAGG
66 AACTAAATTAATTATATTATATATCTATACTTAAAACTAATATGCTACAAAGAACTTCTTAGAGG
189010 ATCATA
131 ATCATA
189016 TAATCATATAATTCACATGAAATGTTCACATCATTCCAAGTGTGTGTTTTGTAAAATATTTCAGA
1 TAATCATATAATTCACATGAAATGTTCACATCATTCCAAGTGTGTGTTTTGTAAAATATTTCAGA
* * * *
189081 AACTAAATTAATTATATTTTATATGTATACTTAAACCTACTATGCTACAAAGAACTTCTTAGAGG
66 AACTAAATTAATTATATTATATATCTATACTTAAAACTAATATGCTACAAAGAACTTCTTAGAGG
189146 ATCATA
131 ATCATA
189152 TA
1 TA
189154 CATATTGATG
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 130 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (136 bp):
TAATCATATAATTCACATGAAATGTTCACATCATTCCAAGTGTGTGTTTTGTAAAATATTTCAGA
AACTAAATTAATTATATTATATATCTATACTTAAAACTAATATGCTACAAAGAACTTCTTAGAGG
ATCATA
Found at i:197149 original size:40 final size:40
Alignment explanation
Indices: 197104--197184 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
197094 TGATAATGGT
* *
197104 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
1 ATCATTGCACAATTAATAAAATATTTGTGTCGTCGCAGAA
*
197144 ATCATTGCACAATTAATAAAATATTTGTGTTGTCGCAGAA
1 ATCATTGCACAATTAATAAAATATTTGTGTCGTCGCAGAA
197184 A
1 A
197185 ATTAATCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (40 bp):
ATCATTGCACAATTAATAAAATATTTGTGTCGTCGCAGAA
Found at i:206587 original size:2 final size:2
Alignment explanation
Indices: 206580--206604 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
206570 CCATCAAATA
206580 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 A
206605 ATGATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:207313 original size:21 final size:21
Alignment explanation
Indices: 207287--207372 Score: 56
Period size: 23 Copynumber: 4.2 Consensus size: 21
207277 ATTGGATTTC
207287 TAAATTGATAATGTAGTGTTT
1 TAAATTGATAATGTAGTGTTT
* * * *
207308 TAAATTTACTTATCGTAATTTTT
1 TAAATTGA-TAAT-GTAGTGTTT
* *
207331 TAAATTCAT-A---AGTGTTC
1 TAAATTGATAATGTAGTGTTT
*
207348 TAAATTGACAATGTAGT-TTT
1 TAAATTGATAATGTAGTGTTT
207368 TAAAT
1 TAAAT
207373 CTAAAAAAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 13
0.67 0.15 0.18
Matches are distributed among these distances:
17 11 0.23
18 1 0.02
20 7 0.15
21 11 0.23
22 4 0.08
23 14 0.29
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
TAAATTGATAATGTAGTGTTT
Found at i:208256 original size:23 final size:22
Alignment explanation
Indices: 208210--208257 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
208200 AAATGGGAGG
*
208210 AAATTTATTTTTTTTAAAATAA
1 AAATTTAATTTTTTTAAAATAA
* *
208232 AAATTTAATTTTTTTAGAATCA
1 AAATTTAATTTTTTTAAAATAA
208254 AAAT
1 AAAT
208258 CTAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AAATTTAATTTTTTTAAAATAA
Found at i:208264 original size:23 final size:22
Alignment explanation
Indices: 208218--208276 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
208208 GGAAATTTAT
* *
208218 TTTTTTTAAAATAAAAATTTAA
1 TTTTTTTAGAATAAAAATTAAA
*
208240 TTTTTTTAGAATCAAAATCTAAA
1 TTTTTTTAGAATAAAAAT-TAAA
208263 TTTCATTTTAGAAT
1 TTT--TTTTAGAAT
208277 TTGTGATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.52
23 6 0.19
25 9 0.29
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTTTTAGAATAAAAATTAAA
Found at i:208428 original size:225 final size:226
Alignment explanation
Indices: 208027--208440 Score: 541
Period size: 225 Copynumber: 1.8 Consensus size: 226
208017 AGTTGGATCG
* *
208027 AAATGTAAATTTTATTTTAGAATTTATGATTGAAATACTAATAATGATTTTTTAATTTTTTTAAT
1 AAATCTAAATTTCATTTTAGAATTTATGATTGAAATACTAATAATGATTTTTTAATTTTTTTAAT
* *
208092 AGAAACGGAGGAGATAATACCAGTTATTCCTTCACATGGAAAATACCAAACTCAGACTACAAGAT
66 AGAAACGGAGGAGATAATACCAG-TATTCCTTCACATGGAAAATACCAAACACAGACAACAAGAT
* * * **
208157 CATGATTTCGTGGGATTAAATGATTATTCATGGAGTGGAACTCAAATGGGAGGAAATTTATTTTT
130 CATGATTTCGTAGAATTAAATGATCATTCATCAAGTGGAACTCAAATGGGAGGAAATTTATTTTT
208222 TTTAAAATAAAAATTTAATTTTTTTAGAATCA
195 TTTAAAATAAAAATTTAATTTTTTTAGAATCA
* ** **
208254 AAATCTAAATTTCATTTTAGAATTTGTGATTGAAATGTTAAT-ATTTTTTTTTAA-TTTTTT-AT
1 AAATCTAAATTTCATTTTAGAATTTATGATTGAAATACTAATAATGATTTTTTAATTTTTTTAAT
* ** * ** *
208316 AGAAATGGAGGAGATAATATTGACG-ATTCCTTCTCAT-GAAAATATTAAACACAGGCAACAAGA
66 AGAAACGGAGGAGATAATA-CCA-GTATTCCTTCACATGGAAAATACCAAACACAGACAACAAGA
* *
208379 TCATGAGATTTCGTAGAATTAAATGATCATTCATCAAGTGGAGCTCAAATGGGAGGGAATTT
129 TCAT--GATTTCGTAGAATTAAATGATCATTCATCAAGTGGAACTCAAATGGGAGGAAATTT
208441 GTTGACAAAT
Statistics
Matches: 160, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
223 25 0.16
224 31 0.19
225 56 0.35
226 11 0.07
227 37 0.23
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (226 bp):
AAATCTAAATTTCATTTTAGAATTTATGATTGAAATACTAATAATGATTTTTTAATTTTTTTAAT
AGAAACGGAGGAGATAATACCAGTATTCCTTCACATGGAAAATACCAAACACAGACAACAAGATC
ATGATTTCGTAGAATTAAATGATCATTCATCAAGTGGAACTCAAATGGGAGGAAATTTATTTTTT
TTAAAATAAAAATTTAATTTTTTTAGAATCA
Found at i:209696 original size:2 final size:2
Alignment explanation
Indices: 209689--209732 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
209679 CCATCAAATA
209689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
209731 AT
1 AT
209733 GAATGCTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:211691 original size:40 final size:41
Alignment explanation
Indices: 211646--211727 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
211636 TGATAATAGT
* *
211646 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCA-AAA
1 ATCATTGTACAATTAATAAAATACTTGTGTCGTCGCAGAAA
*
211686 ATCATTGTACAATTAATAAAATACTTGTGTTGTCGCAGAAA
1 ATCATTGTACAATTAATAAAATACTTGTGTCGTCGCAGAAA
211727 A
1 A
211728 ATAATCGGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (41 bp):
ATCATTGTACAATTAATAAAATACTTGTGTCGTCGCAGAAA
Found at i:225482 original size:7 final size:7
Alignment explanation
Indices: 225465--225526 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
225455 AAAATGAGTG
225465 AAAATGAA
1 AAAATG-A
225473 AAAATGA
1 AAAATGA
*
225480 AAAATAA
1 AAAATGA
*
225487 AAAATAA
1 AAAATGA
225494 AATGAATGA
1 AA--AATGA
225503 AAAA--A
1 AAAATGA
225508 AAAATG-
1 AAAATGA
225514 -AAATGA
1 AAAATGA
225520 AAAATGA
1 AAAATGA
225527 GGGTTCAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
5 10 0.22
7 24 0.52
8 6 0.13
9 6 0.13
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:225505 original size:23 final size:21
Alignment explanation
Indices: 225475--225520 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
225465 AAAATGAAAA
225475 AATGAAAAATAAAAAATAAAATG
1 AATG-AAAA-AAAAAATAAAATG
*
225498 AATGAAAAAAAAAATGAAATG
1 AATGAAAAAAAAAATAAAATG
225519 AA
1 AA
225521 AAATGAGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 4 0.18
23 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (21 bp):
AATGAAAAAAAAAATAAAATG
Found at i:225523 original size:33 final size:35
Alignment explanation
Indices: 225455--225524 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
225445 AAAAGAAGAA
*
225455 AAAATGAGTGAAAATGAAAAAATGAAAAATAAAAAAT
1 AAAATGAATGAAAA-GAAAAAATG-AAAATAAAAAAT
*
225492 AAAATGAATGAAAA-AAAAAATG-AAATGAAAAAT
1 AAAATGAATGAAAAGAAAAAATGAAAATAAAAAAT
225525 GAGGGTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 10 0.32
35 8 0.26
37 13 0.42
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (35 bp):
AAAATGAATGAAAAGAAAAAATGAAAATAAAAAAT
Found at i:226615 original size:53 final size:53
Alignment explanation
Indices: 226518--226675 Score: 228
Period size: 53 Copynumber: 2.9 Consensus size: 53
226508 AGGTTTCCCA
* *
226518 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
226573 ACGATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATA-GGAGGCAGAC
1 ACGATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGA-GCAGAC
* * * *
226626 GCGATCGCTGAAGATTGTGGGTCTTATACTCTCTAAAGAAATAGGGAGCA
1 ACGATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCA
226676 TACTCGTTTG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
52 3 0.03
53 71 0.75
54 4 0.04
55 17 0.18
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (53 bp):
ACGATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:226713 original size:51 final size:50
Alignment explanation
Indices: 226650--227105 Score: 376
Period size: 51 Copynumber: 8.6 Consensus size: 50
226640 TTGTGGGTCT
* *
226650 TATACTCTCTAAAGAAATAGGGAGC-ATACTCGTTTGAAGATTTTCGAGTTC
1 TATACTCCCTAAAGAAAGAGGGAGCGA-AC-CGTTTGAAGATTTTCGAGTTC
* *
226701 TATACTCCCTAAAGAAAGAGGGAGCGAACCTGTTAGAAGATGTTCGAGTTC
1 TATACTCCCTAAAGAAAGAGGGAGCGAACC-GTTTGAAGATTTTCGAGTTC
* * * * ** *
226752 CATACTCCCTAGATAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTC
1 TATACTCCCTAAAGAAAGAGGGAGCGAA-CCGT---TTGAAGATTTTCGAGTTC
* *
226806 TATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGCAGAAGATTATTCGAGTTC
1 TATACTCCCTAAAGAAAGAGGGAGCGAA-CCGTTT---GAAGATT-TTCGAGTTC
* * * * *
226861 CATACTCCCTAGATAAAGAGGGAACGAACCTGTTTGAAGAAGATATTCGAGTTC
1 TATACTCCCTAAAGAAAGAGGGAGCGAACC-GTTT---GAAGATTTTCGAGTTC
* *
226915 TATACTTCCTGAAAGAAAGAGGGAGCGAACCGTTTGAAGATGTTCGAGTTC
1 TATACTCCCT-AAAGAAAGAGGGAGCGAACCGTTTGAAGATTTTCGAGTTC
* **
226966 TATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTT-GAGTTC
1 TATACTCCCT-AAAGAAAGAGGGAGCGAA-CCGT---TTGAAGAT-TTTCGAGTTC
* * *
227021 TATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGCAAATGATTGCTCAAGTTC
1 TATACTCCCTAAAGAAAGAGGGAGCGAAC-CGTTTG--AA-GATT-TTCGAGTTC
* * * *
227076 TATACTCCATGAAGGAAGAGGGAACGAACC
1 TATACTCCCTAAAGAAAGAGGGAGCGAACC
227106 CGTTGACAGA
Statistics
Matches: 340, Mismatches: 42, Indels: 43
0.80 0.10 0.10
Matches are distributed among these distances:
50 1 0.00
51 114 0.34
52 7 0.02
53 4 0.01
54 100 0.29
55 112 0.33
56 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (50 bp):
TATACTCCCTAAAGAAAGAGGGAGCGAACCGTTTGAAGATTTTCGAGTTC
Found at i:226871 original size:160 final size:159
Alignment explanation
Indices: 226685--227049 Score: 470
Period size: 160 Copynumber: 2.3 Consensus size: 159
226675 ATACTCGTTT
* *
226685 GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCTG-TT-AGAAGATGTTCGA
1 GAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTAAGAAGATATTCGA
* *
226748 GTTCCATACTCCCT-AGATAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTCTATACT
66 GTTCCATACTCCCTGAAAGAAAGAGGGAACGAA-CCGT---AAGAAGATGTTCGAGTTCTATACT
* ** *
226812 CCCT-AGAGAAAGAGGGAGCGAACCCATTTGCA
127 CCCTGAAAGAAAGAGGGAGCGAACCCATAAGAA
* * *
226844 GAAGATTATTCGAGTTCCATACTCCCTAGATAAAGAGGGAACGAACCTGTTTGAAGAAGATATTC
1 GAAGATT-TTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTT-AAGAAGATATTC
* * * ** *
226909 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCGTTTGAAGATGTTCGAGTTCTATACTTC
64 GAGTTCCATACTCCCTGAAAGAAAGAGGGAACGAACCGTAAGAAGATGTTCGAGTTCTATACTCC
*
226974 CTGAAAGAAAGAGGGAGCGAACCCGTAAGAA
129 CTGAAAGAAAGAGGGAGCGAACCCATAAGAA
227005 GAAGATGTTT-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAAC
1 GAAGAT-TTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAAC
227050 TCGTTTGCAA
Statistics
Matches: 178, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
159 7 0.04
160 94 0.53
161 33 0.19
162 1 0.01
163 28 0.16
164 15 0.08
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (159 bp):
GAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTAAGAAGATATTCGA
GTTCCATACTCCCTGAAAGAAAGAGGGAACGAACCGTAAGAAGATGTTCGAGTTCTATACTCCCT
GAAAGAAAGAGGGAGCGAACCCATAAGAA
Found at i:226879 original size:55 final size:54
Alignment explanation
Indices: 226685--227117 Score: 463
Period size: 55 Copynumber: 8.1 Consensus size: 54
226675 ATACTCGTTT
* * *
226685 GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCTG-TT--A
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * * **
226736 GAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAACGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* *
226790 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGCA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * *
226844 GAAGATTATTCGAGTTCCATACTCCCTAGATAAAGAGGGAACGAACCTGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
226899 GAAGATATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAA-CCGTTT---
1 GAAGATGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAA
* * **
226950 GAAGATGTTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAA
* *
227005 GAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGCAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AA
* * * * * *
227060 -ATGATTGCTCAAGTTCTATACTCCAT-GAAGGAAGAGGGAACGAACCCG-TTGACA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGA-A
227114 GAAG
1 GAAG
227118 GTTTTTCAAG
Statistics
Matches: 322, Mismatches: 46, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
51 86 0.27
52 4 0.01
53 1 0.00
54 107 0.33
55 124 0.39
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:226941 original size:215 final size:213
Alignment explanation
Indices: 226685--227105 Score: 623
Period size: 215 Copynumber: 2.0 Consensus size: 213
226675 ATACTCGTTT
*
226685 GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCTGTTAGAAGATGTTCGAGT
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACC-GTTAGAAGATGTTCGAGT
* *
226750 TCCATACTCCCT-AGATAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTCTATACTCC
65 TCCATACTCCCTGAAAGAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTCTATACTCC
* * *
226814 CTAGAGAAAGAGGGAGCGAACCCATTTGCAGAA-GATTATTCGAGTTCCATACTCCCTAGATA-A
130 CTAGAGAAAGAGGGAGCGAACCCATTTGCA-AATGATTACTCAAGTTCCATACTCCAT-GA-AGA
226877 AGAGGGAACGAACCTGTTTGAA
192 AGAGGGAACGAACCTGTTTGAA
* *
226899 GAAGATATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCGTTTGAAGATGTTCGAGT
1 GAAGATATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCGTTAGAAGATGTTCGAGT
* * * *
226964 TCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTTGAGTTCTATACTCC
65 TCCATACTCCCTGAAAGAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTCTATACTCC
* * * *
227029 CTAGAGAAAGAGGGAGCGAACTCGTTTGCAAATGATTGCTCAAGTTCTATACTCCATGAAGGAAG
130 CTAGAGAAAGAGGGAGCGAACCCATTTGCAAATGATTACTCAAGTTCCATACTCCATGAA-GAAG
227094 AGGGAACGAACC
194 AGGGAACGAACC
227106 CGTTGACAGA
Statistics
Matches: 186, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
213 1 0.01
214 55 0.30
215 130 0.70
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (213 bp):
GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCGTTAGAAGATGTTCGAGTT
CCATACTCCCTGAAAGAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTCTATACTCCC
TAGAGAAAGAGGGAGCGAACCCATTTGCAAATGATTACTCAAGTTCCATACTCCATGAAGAAGAG
GGAACGAACCTGTTTGAA
Found at i:227097 original size:160 final size:155
Alignment explanation
Indices: 226685--227105 Score: 451
Period size: 160 Copynumber: 2.6 Consensus size: 155
226675 ATACTCGTTT
* *
226685 GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCTGTTAG-AAGA-TGTTCGA
1 GAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAAGATTG-TCGA
*
226748 GTTCCATACTCCCTAGATA-AAGAGGGAACGAACCCGTAAGAAGAAGATGTTCGAGTTCTATACT
65 GTTCTATACT-CCT-GA-AGAAGAGGGAACGAA-CCGT-A-AAGAAGATGTTCGAGTTCTATACT
* ** *
226812 CCCTAGAGAAAGAGGGAGCGAACCCATTTGCA
124 CCCTAAAGAAAGAGGGAGCGAACCCATAAGAA
* * *
226844 GAAGATTATTCGAGTTCCATACTCCCTAGATAAAGAGGGAACGAACCTGTTTGAAGAAGATAT-T
1 GAAGATT-TTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG-A-AAGAT-TGT
* **
226908 CGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCGT-TTGAAGATGTTCGAGTTCTATACT
62 CGAGTTCTATAC-TCCTG-AAG-AAGAGGGAACGAACCGTAAAGAAGATGTTCGAGTTCTATACT
* *
226972 TCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAA
124 CCCT-AAAGAAAGAGGGAGCGAACCCATAAGAA
227005 GAAGATGTTT-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAA-CTCGTTTGCAAATGATTGC
1 GAAGAT-TTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCT-GTTTG-AAA-GATTG-
*
227068 TCAAGTTCTATACTCCATGAAGGAAGAGGGAACGAACC
61 TCGAGTTCTATACTCC-TGAA-GAAGAGGGAACGAACC
227106 CGTTGACAGA
Statistics
Matches: 223, Mismatches: 21, Indels: 35
0.80 0.08 0.13
Matches are distributed among these distances:
159 12 0.05
160 124 0.56
161 46 0.21
162 3 0.01
163 24 0.11
164 13 0.06
165 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (155 bp):
GAAGATTTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAAGATTGTCGAG
TTCTATACTCCTGAAGAAGAGGGAACGAACCGTAAAGAAGATGTTCGAGTTCTATACTCCCTAAA
GAAAGAGGGAGCGAACCCATAAGAA
Found at i:232847 original size:29 final size:29
Alignment explanation
Indices: 232804--232886 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
232794 CTCACCTAAC
*
232804 TAAATTGATGTAAGCAGTGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
232834 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
232863 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
232887 ATTTAGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Done.