Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 53 of 349
Found at i:15510524 original size:22 final size:21
Alignment explanation
Indices: 15510487--15510541 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
15510477 AGGCAACTTT
15510487 AAGAAGAAAAGAAGAAGAAGG
1 AAGAAGAAAAGAAGAAGAAGG
*
15510508 AAGAAGAAAGAGAAGAAGAAAG
1 AAGAAGAAA-AGAAGAAGAAGG
*
15510530 AA-AAAAAAAGAA
1 AAGAAGAAAAGAA
15510542 AAAATCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.13
21 14 0.45
22 13 0.42
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAAGAAGAAGAAGG
Found at i:15510846 original size:10 final size:10
Alignment explanation
Indices: 15510833--15510888 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 10
15510823 AAAAAAAGAA
15510833 AAGAAAAAAG
1 AAGAAAAAAG
15510843 AAGAAAAAAG
1 AAGAAAAAAG
15510853 TAAGGAAAAAAAAGG
1 -AA-G--AAAAAA-G
15510868 AAAGAAAAAA-
1 -AAGAAAAAAG
15510878 AAGAAAAAAG
1 AAGAAAAAAG
15510888 A
1 A
15510889 TGGTCAATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
9 9 0.23
10 11 0.28
11 2 0.05
12 7 0.18
14 7 0.18
15 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:15510865 original size:14 final size:14
Alignment explanation
Indices: 15510827--15510880 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
15510817 GCAGAGAAAA
*
15510827 AAAGAAAAGAAA--
1 AAAGAAAAAAAAGG
*
15510839 AAAGAAGAAAAAAGT
1 AAAGAA-AAAAAAGG
*
15510854 AAGGAAAAAAAAGG
1 AAAGAAAAAAAAGG
15510868 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
15510881 AAAAAAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 6 0.17
13 5 0.14
14 19 0.54
15 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAAAAGG
Found at i:15511051 original size:26 final size:26
Alignment explanation
Indices: 15511021--15511078 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
15511011 TAGCATATGC
* *
15511021 ATTTTATA-TTTATTTTAATTTAATTA
1 ATTTT-TAGTTTATGTTAATTTAAATA
*
15511047 ATTTTTAGTTTATGTTATTTTAAATA
1 ATTTTTAGTTTATGTTAATTTAAATA
15511073 ATTTTT
1 ATTTTT
15511079 GAAAATAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (26 bp):
ATTTTTAGTTTATGTTAATTTAAATA
Found at i:15511545 original size:18 final size:17
Alignment explanation
Indices: 15511442--15511575 Score: 71
Period size: 18 Copynumber: 7.7 Consensus size: 17
15511432 AAAAGTTCGT
* *
15511442 GTTTTCAAAAAATTTCC
1 GTTTTCAAAAATTTTTC
*
15511459 AATTTTC-AAAA-TTTTC
1 -GTTTTCAAAAATTTTTC
* *
15511475 GGTTTTCTAAAACTTTTCTT
1 -GTTTTC-AAAAATTTT-TC
15511495 GTGTTTCAAAAA-TTTTC
1 GT-TTTCAAAAATTTTTC
* **
15511512 GTGTTCTAAATTTTTTTC
1 GTTTTC-AAAAATTTTTC
15511530 GTATTTCAAAAATTTTTC
1 GT-TTTCAAAAATTTTTC
15511548 TGTTTTC--AAATTTTTC
1 -GTTTTCAAAAATTTTTC
* *
15511564 GTATTAAAAAAT
1 GTTTTCAAAAAT
15511576 CCTCGTGTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
15 4 0.04
16 21 0.24
17 14 0.16
18 31 0.35
19 14 0.16
20 5 0.06
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (17 bp):
GTTTTCAAAAATTTTTC
Found at i:15511620 original size:17 final size:17
Alignment explanation
Indices: 15511462--15511625 Score: 83
Period size: 17 Copynumber: 9.5 Consensus size: 17
15511452 AATTTCCAAT
15511462 TTTCAAAA-TTTTCG-G
1 TTTCAAAATTTTTCGTG
*
15511477 TTTTCTAAAACTTTTCTTGTG
1 -TTTC-AAAA-TTTT-TCGTG
*
15511498 TTTCAAAAATTTTCGTG
1 TTTCAAAATTTTTCGTG
* *
15511515 -TTCTAAATTTTTTTCGTA
1 TTTC-AAA-ATTTTTCGTG
15511533 TTTCAAAAATTTTTC-TG
1 TTTC-AAAATTTTTCGTG
15511550 TTTTC-AAATTTTTCGT-
1 -TTTCAAAATTTTTCGTG
* * * **
15511566 ATTAAAAAATCCTCGTG
1 TTTCAAAATTTTTCGTG
*
15511583 TTTTCAAAA--TTCCAGTGG
1 -TTTCAAAATTTTTC-GT-G
15511601 TTTCAAAATTTTTCGTG
1 TTTCAAAATTTTTCGTG
15511618 TTTCAAAA
1 TTTCAAAA
15511626 AAAAAATTCC
Statistics
Matches: 111, Mismatches: 20, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
15 2 0.02
16 25 0.23
17 32 0.29
18 29 0.26
19 16 0.14
20 6 0.05
21 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTCAAAATTTTTCGTG
Found at i:15520138 original size:122 final size:122
Alignment explanation
Indices: 15519920--15520146 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
15519910 ATTTTTTTAA
* ** * *
15519920 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
** ** *
15519985 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
**
15520042 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTT-
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-AATTTA
*
15520106 T-TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
65 TGTT-AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
15520147 CGGGGCACGC
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 2 0.02
122 84 0.93
123 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:15520175 original size:191 final size:192
Alignment explanation
Indices: 15519850--15520664 Score: 1412
Period size: 191 Copynumber: 4.3 Consensus size: 192
15519840 CTTTCCAAGG
15519850 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
15519915 TTT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
15519979 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG-TTTTC
15520042 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
15520106 TTT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
15520170 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC-TTTAATTTTTGTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTC
15520231 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
15520296 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
15520361 GTTTATG-------TTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA------TTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTC
*
15520410 AAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
15520475 TTTAAAAAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
66 TTT--AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
15520540 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
129 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG-TTTTC
** **
15520605 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTA
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
15520665 GTTTATGTTT
Statistics
Matches: 596, Mismatches: 7, Indels: 36
0.93 0.01 0.06
Matches are distributed among these distances:
179 72 0.12
181 68 0.11
184 31 0.05
185 5 0.01
188 37 0.06
189 66 0.11
190 17 0.03
191 180 0.30
192 61 0.10
195 5 0.01
196 54 0.09
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTC
Found at i:15520621 original size:123 final size:123
Alignment explanation
Indices: 15520482--15520800 Score: 530
Period size: 123 Copynumber: 2.6 Consensus size: 123
15520472 TTTTTTAAAA
* *
15520482 AAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTA
15520547 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
15520605 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTA
15520670 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * * * * * *
15520728 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG--GACACGCCGAGGTATTTTTAGTT
15520793 TATGTTTT
64 TATGTTTT
15520801 TTTCAATCTA
Statistics
Matches: 183, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 157 0.86
125 26 0.14
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTA
TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:15520623 original size:54 final size:54
Alignment explanation
Indices: 15520559--15520764 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
15520549 TTTTAAATTG
15520559 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* ***** ***
15520613 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAG--A-G-G-TGAG--T---TA-A-GCCTTTTAATTTTT-GTTT-T-TCAAAA
**
15520678 ATTG
51 ATCA
15520682 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
15520736 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
15520765 CGGCTCACAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
54 46 0.41
55 1 0.01
56 5 0.04
57 10 0.09
58 2 0.02
59 5 0.04
61 1 0.01
62 1 0.01
64 5 0.04
65 2 0.02
66 10 0.09
67 5 0.04
68 1 0.01
69 19 0.17
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:15520805 original size:16 final size:17
Alignment explanation
Indices: 15520784--15520817 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15520774 TGCTGAGGTA
*
15520784 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
15520800 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
15520817 T
1 T
15520818 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:15520928 original size:176 final size:182
Alignment explanation
Indices: 15520723--15521137 Score: 461
Period size: 195 Copynumber: 2.2 Consensus size: 182
15520713 TAATTTTTGT
*
15520723 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* *
15520787 TC-AA-TTT-A-TGTTTTTTTCAATCTATGCT-TTTC-AAAAATCAACTTATATTGCGAGAGGTG
64 TCAAATTTTAATTGTTTTTTTCAATCTATG-TGTTTCAAAAAATCAACTCATATTGCAAGAGGTG
*
15520846 AGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
128 AGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
* *
15520901 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* * *
15520965 AAATTCTGTTTTTAATTTCTGTTTTTTTTAATTTCTGTGTTTCAAAAAAAAAAATCAACTCATAT
66 AAA------TTTTAA--T-TGTTTTTTTCAATCTATGTGTTTC-----AAAAAATCAACTCATAT
* * *
15521030 TGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTG
117 TGCAAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTA
*
15521095 T
182 C
* *
15521096 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
15521138 TTTAATTTCT
Statistics
Matches: 197, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
176 52 0.26
177 5 0.03
178 5 0.03
184 3 0.02
185 1 0.01
188 1 0.01
189 19 0.10
194 2 0.01
195 77 0.39
197 32 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (182 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AAATTTTAATTGTTTTTTTCAATCTATGTGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGT
TGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:15520981 original size:85 final size:88
Alignment explanation
Indices: 15520723--15520981 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 88
15520713 TAATTTTTGT
*
15520723 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
15520787 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
15520814 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
15520876 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
15520901 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
15520965 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
15520982 TCTGTTTTTT
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 29 0.20
88 2 0.01
89 31 0.21
91 41 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:15521165 original size:54 final size:55
Alignment explanation
Indices: 15521081--15521298 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
15521071 TCAATTTCTA
* *
15521081 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
15521136 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
15521190 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
15521241 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
15521296 CTT
1 CTT
15521299 GGCTCACGTG
Statistics
Matches: 147, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 47 0.32
55 41 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:15521295 original size:106 final size:104
Alignment explanation
Indices: 15521089--15521298 Score: 323
Period size: 106 Copynumber: 2.0 Consensus size: 104
15521079 TACTTTTCAA
* * * *
15521089 TTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTTTTAAATTCTAGTTTT
*
15521154 CAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
66 CAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
*
15521193 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTTTGCAAATTCT-GT
1 TTTCTATTTTTC-AAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTTTT--AAATTCTAGT
*
15521257 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
63 TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
15521299 GGCTCACGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
104 11 0.11
105 38 0.40
106 41 0.43
107 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (104 bp):
TTTCTATTTTTCAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTTTTAAATTCTAGTTTT
CAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
Found at i:15521631 original size:30 final size:30
Alignment explanation
Indices: 15521568--15521669 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
15521558 AAAAAAATAA
* * *
15521568 AAATTGCATTTTGACCCCTAAAATTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-TT
*
15521598 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * *
15521628 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
15521658 AAATTTCATTTT
1 AAATTTCATTTT
15521670 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
30 60 0.98
31 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:15522084 original size:14 final size:13
Alignment explanation
Indices: 15522054--15522090 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
15522044 GCTAGACTTT
*
15522054 GAAGAAGAAGAAG
1 GAAGAAGAAAAAG
15522067 GAAGAAGAAAAGAG
1 GAAGAAGAAAA-AG
15522081 GAAGAAGAAA
1 GAAGAAGAAA
15522091 GAAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAAAG
Found at i:15522084 original size:18 final size:18
Alignment explanation
Indices: 15522058--15522095 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15522048 GACTTTGAAG
15522058 AAGAAGAAGGAAG-AAGAA
1 AAGAAGAA-GAAGAAAGAA
*
15522076 AAGAGGAAGAAGAAAGAA
1 AAGAAGAAGAAGAAAGAA
15522094 AA
1 AA
15522096 AAAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAGAAAGAA
Found at i:15522084 original size:21 final size:21
Alignment explanation
Indices: 15522055--15522098 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
15522045 CTAGACTTTG
* *
15522055 AAGAAGAAGAAGGAAGAAGAA
1 AAGAAGAAGAAGAAAGAAAAA
*
15522076 AAGAGGAAGAAGAAAGAAAAA
1 AAGAAGAAGAAGAAAGAAAAA
15522097 AA
1 AA
15522099 AGAAAAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAGAAGAAGAAGAAAGAAAAA
Found at i:15522089 original size:24 final size:22
Alignment explanation
Indices: 15522057--15522101 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
15522047 AGACTTTGAA
*
15522057 GAAGAAGAAGGAAGAAGAAAAGAG
1 GAAGAAGAAAGAA-AA-AAAAGAG
15522081 GAAGAAGAAAGAAAAAAAAGA
1 GAAGAAGAAAGAAAAAAAAGA
15522102 AAAATCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 2 0.10
24 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
GAAGAAGAAAGAAAAAAAAGAG
Found at i:15522205 original size:15 final size:14
Alignment explanation
Indices: 15522183--15522222 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
15522173 GCAGCCCAAG
15522183 AAAAAAACAACAAAA
1 AAAAAAACAA-AAAA
*
15522198 ACAAAAACAAAAAA
1 AAAAAAACAAAAAA
15522212 AAAAGAAACAA
1 AAAA-AAACAA
15522223 GCCCAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAA
Found at i:15522592 original size:17 final size:16
Alignment explanation
Indices: 15522559--15522607 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15522549 TTTATGCATT
15522559 TTTATATTTATATTTTTAA
1 TTTA-ATTTA-ATTTTT-A
15522578 TTTAATTTAATTTTTA
1 TTTAATTTAATTTTTA
* *
15522594 TTTTATTTTATTTT
1 TTTAATTTAATTTT
15522608 AAATAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 13 0.46
17 6 0.21
18 5 0.18
19 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTAATTTAATTTTTA
Found at i:15522807 original size:22 final size:22
Alignment explanation
Indices: 15522774--15522817 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15522764 GCGGGTTTCG
15522774 AAATTTTCGTG-TCTTCAAAAA
1 AAATTTTCGTGTTCTTCAAAAA
*
15522795 AAATTTCTCGTGTTTTTCAAAAA
1 AAATTT-TCGTGTTCTTCAAAAA
15522818 TAAGGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
AAATTTTCGTGTTCTTCAAAAA
Found at i:15522951 original size:18 final size:18
Alignment explanation
Indices: 15522921--15523273 Score: 198
Period size: 17 Copynumber: 19.9 Consensus size: 18
15522911 TAAAAATTGG
*
15522921 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** *
15522939 AAAAATTCCCGTG-TTGC
1 AAAAATTTTCGTGTTTTC
*
15522956 AAAAATTTTCATGTTTTTC
1 AAAAATTTTCGTG-TTTTC
*
15522975 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** ***
15522993 AAAAAAATTCCAATTTTC
1 AAAAATTTTCGTGTTTTC
*
15523011 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
15523029 TAAAAA-CTTC-TGTGTTTC
1 -AAAAATTTTCGTGT-TTTC
15523047 AAAAATTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
15523064 TAAAATTTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
15523081 AAAAATTTTCTTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
15523099 -AAATTTTTCGT-ATTTA
1 AAAAATTTTCGTGTTTTC
**
15523115 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
15523133 -AAAA-TTCCAGTG-TTTC
1 AAAAATTTTC-GTGTTTTC
*
15523149 AAAATTTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
** **
15523166 AAAAAAAAATTCCCGTTTTCC
1 --AAAAATTTTCGTGTTTT-C
* *
15523187 AAAAACTTTCGCGTTTT-
1 AAAAATTTTCGTGTTTTC
**
15523204 AAGAAATTGACCGTG-TTTC
1 AA-AAATT-TTCGTGTTTTC
*
15523223 ATAAATTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
15523240 AAAGAAATCTCGTG-TTTC
1 AAA-AATTTTCGTGTTTTC
15523258 -AAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTT
15523274 TTTAAAAATT
Statistics
Matches: 250, Mismatches: 63, Indels: 45
0.70 0.18 0.13
Matches are distributed among these distances:
16 16 0.06
17 101 0.40
18 83 0.33
19 46 0.18
20 3 0.01
21 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:15522974 original size:36 final size:35
Alignment explanation
Indices: 15522921--15522989 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
15522911 TAAAAATTGG
* *
15522921 AAAATTTTTCGTGTTTTCAAAAATTCCCGTGTTGC
1 AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTGC
*
15522956 AAAAATTTTCATGTTTTTCAAAAATTCTCGTGTT
1 AAAAATTTTCATG-TTTTCAAAAATTCCCGTGTT
15522990 TTCAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (35 bp):
AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTGC
Found at i:15523289 original size:34 final size:33
Alignment explanation
Indices: 15523007--15523328 Score: 113
Period size: 34 Copynumber: 9.2 Consensus size: 33
15522997 AAATTCCAAT
*
15523007 TTTCAAAATTTTTCGTGTTTTCTAAAAACTTCTGTG
1 TTTCAAAA-TTTTCGTGTTTT-TAAAAAATT-TGTG
* * *
15523043 TTTCAAAAATTTTCGTGTTTCT-AAAATTTTCGTA
1 TTTC-AAAATTTTCGTGTTTTTAAAAAATTT-GTG
* * ** *
15523077 TTTCAAAAATTTTCTTG-TTTTCAAATTTTTCGTA
1 TTTC-AAAATTTTCGTGTTTTTAAAAAATTT-GTG
* ** * *
15523111 TTTAAAAAATCCTCGTG-TTTT-CAAAATTCCAGTG
1 TTT-CAAAATTTTCGTGTTTTTAAAAAATT--TGTG
** *
15523145 TTTCAAAATTTTTCGTGTTTCAAAAAAAAATTCCCGT-
1 TTTCAAAA-TTTTCGTGTTT--TTAAAAAATT--TGTG
* * * *
15523182 TTTCCAAAAACTTTCGCG-TTTTAAGAAATTGACCGTG
1 TTT-C-AAAATTTTCGTGTTTTTAAAAAATT---TGTG
* *
15523219 TTTCATAAATTTTCGTG-TTTCAAAGAAATCTCGTG
1 TTTCA-AAATTTTCGTGTTTTTAAA-AAAT-TTGTG
*
15523254 TTTCAAAATTTTCGTGTTTTTTTAAAAATTTGTG
1 TTTCAAAATTTTCGTG-TTTTTAAAAAATTTGTG
*
15523288 TTTCTAAAATTCTT-GT-ATTTTAAAAAATTTGTG
1 TTTC-AAAATT-TTCGTGTTTTTAAAAAATTTGTG
*
15523321 TTTAAAAA
1 TTTCAAAA
15523329 AAAAGGAAAA
Statistics
Matches: 226, Mismatches: 38, Indels: 48
0.72 0.12 0.15
Matches are distributed among these distances:
32 4 0.02
33 30 0.13
34 81 0.36
35 32 0.14
36 41 0.18
37 16 0.07
38 18 0.08
39 4 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (33 bp):
TTTCAAAATTTTCGTGTTTTTAAAAAATTTGTG
Found at i:15523311 original size:16 final size:15
Alignment explanation
Indices: 15523273--15523328 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 15
15523263 TTTCGTGTTT
*
15523273 TTTTAAAAATTTGTG
1 TTTTAAAAATTTGTA
*
15523288 TTTCTAAAATTCTTGTA
1 TTT-TAAAAAT-TTGTA
15523305 TTTTAAAAAATTTGT-
1 TTTT-AAAAATTTGTA
*
15523320 GTTTAAAAA
1 TTTTAAAAA
15523329 AAAAGGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 11 0.32
17 12 0.35
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (15 bp):
TTTTAAAAATTTGTA
Found at i:15523313 original size:17 final size:16
Alignment explanation
Indices: 15523272--15523323 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
15523262 TTTTCGTGTT
15523272 TTTTTAAAAATTTGTG
1 TTTTTAAAAATTTGTG
* * *
15523288 TTTCTAAAATTCTTGTA
1 TTTTTAAAAAT-TTGTG
*
15523305 TTTTAAAAAATTTGTG
1 TTTTTAAAAATTTGTG
15523321 TTT
1 TTT
15523324 AAAAAAAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.56
Consensus pattern (16 bp):
TTTTTAAAAATTTGTG
Found at i:15523326 original size:15 final size:15
Alignment explanation
Indices: 15523277--15523329 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
15523267 GTGTTTTTTT
*
15523277 AAAAATTTGTGTTTCT
1 AAAAATTTGTGTTT-A
* *
15523293 AAAATTCTTGTATTTTA
1 AAAAAT-TTGT-GTTTA
15523310 AAAAATTTGTGTTTA
1 AAAAATTTGTGTTTA
15523325 AAAAA
1 AAAAA
15523330 AAAGGAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 9 0.30
16 9 0.30
17 9 0.30
18 3 0.10
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (15 bp):
AAAAATTTGTGTTTA
Found at i:15523329 original size:16 final size:16
Alignment explanation
Indices: 15523277--15523330 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
15523267 GTGTTTTTTT
**
15523277 AAAAATTTGTGTTTCT
1 AAAAATTTGTGTTTAA
* * *
15523293 AAAATTCTTGTATTTTA
1 AAAAAT-TTGTGTTTAA
15523310 AAAAATTTGTGTTTAA
1 AAAAATTTGTGTTTAA
15523326 AAAAA
1 AAAAA
15523331 AAGGAAAAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (16 bp):
AAAAATTTGTGTTTAA
Found at i:15524351 original size:21 final size:22
Alignment explanation
Indices: 15524320--15524360 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15524310 AGACCATACT
* *
15524320 CTCTACCACCATCTTCCAAAGA
1 CTCTACCACCACCATCCAAAGA
15524342 CTCT-CCACCACCATCCAAA
1 CTCTACCACCACCATCCAAA
15524361 CACCCTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.46, G:0.02, T:0.20
Consensus pattern (22 bp):
CTCTACCACCACCATCCAAAGA
Found at i:15527010 original size:21 final size:21
Alignment explanation
Indices: 15526986--15527026 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15526976 TTTCTCATAT
*
15526986 AATCATAAAAATTTATAAAAA
1 AATCATAAAAATATATAAAAA
15527007 AATCATAAAAATATATAAAA
1 AATCATAAAAATATATAAAA
15527027 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AATCATAAAAATATATAAAAA
Found at i:15527033 original size:18 final size:18
Alignment explanation
Indices: 15527012--15527063 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
15527002 AAAAAAATCA
15527012 TAAAAATATATAAAATAT
1 TAAAAATATATAAAATAT
* *
15527030 TAAAAATAAATAAACTTAT
1 TAAAAATATATAAA-ATAT
* *
15527049 AAAAAATATAGAAAA
1 TAAAAATATATAAAA
15527064 ATGATAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAATATATAAAATAT
Found at i:15527042 original size:28 final size:31
Alignment explanation
Indices: 15527011--15527083 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 31
15527001 TAAAAAAATC
*
15527011 ATAAAAATATATAAAATAT-TAAAAAT-A-A
1 ATAAAAATATATAAAATATAGAAAAATGATA
** *
15527039 ATAAACTTATAAAAAATATAGAAAAATGATA
1 ATAAAAATATATAAAATATAGAAAAATGATA
*
15527070 A-AAAAATATTTAAA
1 ATAAAAATATATAAA
15527084 GAATCCATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 16 0.47
29 6 0.18
30 10 0.29
31 2 0.06
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (31 bp):
ATAAAAATATATAAAATATAGAAAAATGATA
Found at i:15527116 original size:21 final size:22
Alignment explanation
Indices: 15527092--15527136 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
15527082 AAGAATCCAT
15527092 AAAAACT-TAAAA-ATATAGAAA
1 AAAAACTATAAAACATATA-AAA
15527113 AAAAACTAATAAAACATATAAAA
1 AAAAACT-ATAAAACATATAAAA
15527136 A
1 A
15527137 CATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAAACTATAAAACATATAAAA
Found at i:15527126 original size:22 final size:21
Alignment explanation
Indices: 15527092--15527136 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
15527082 AAGAATCCAT
* *
15527092 AAAAACTTAAAAATATAGAAA
1 AAAAACTAAAAAACATAGAAA
*
15527113 AAAAACTAATAAAACATATAAA
1 AAAAACTAA-AAAACATAGAAA
15527135 AA
1 AA
15527137 CATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAACTAAAAAACATAGAAA
Found at i:15528626 original size:9 final size:9
Alignment explanation
Indices: 15528608--15528650 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
15528598 TATTATACAT
*
15528608 TAATACATA
1 TAATAAATA
15528617 TAATAAATA
1 TAATAAATA
* *
15528626 TATTTAATA
1 TAATAAATA
15528635 TAATAAATA
1 TAATAAATA
15528644 TAA-AAAT
1 TAATAAAT
15528651 TAAAATTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATAAATA
Found at i:15530563 original size:54 final size:54
Alignment explanation
Indices: 15530485--15530792 Score: 528
Period size: 54 Copynumber: 5.7 Consensus size: 54
15530475 GATCCGAGGC
* *
15530485 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* * * *
15530539 TCAACTCACTTCTTGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
15530593 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
15530646 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
15530700 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* *
15530754 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTAAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
15530793 ATATAAATTG
Statistics
Matches: 241, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
53 51 0.21
54 190 0.79
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:15530702 original size:107 final size:108
Alignment explanation
Indices: 15530485--15530806 Score: 529
Period size: 107 Copynumber: 3.0 Consensus size: 108
15530475 GATCCGAGGC
* * *
15530485 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
* * * *
15530550 CTTGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATGT
66 CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
15530593 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
15530657 CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
66 CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
15530700 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
* * * *
15530765 CTCGCAATATGAGTTGGTTTTTAAAAAAATATAAATTGAAAG
66 CTCGCAATATGAGTTGATTTTT-GAAAAACATAAATTAAAAG
15530807 AATAGAAATT
Statistics
Matches: 201, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
107 101 0.50
108 84 0.42
109 16 0.08
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (108 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
Found at i:15530750 original size:161 final size:161
Alignment explanation
Indices: 15530485--15530792 Score: 535
Period size: 161 Copynumber: 1.9 Consensus size: 161
15530475 GATCCGAGGC
* *
15530485 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
* * *
15530550 CTTGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATGTTCAACTCACCTCTCGCAATATG
66 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
*
15530615 AGTTGATTTTTGAAAAACAGAAATTAAAGGT
131 AGTTGATTTTTAAAAAACAGAAATTAAAGGT
* *
15530646 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
15530711 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
66 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
*
15530776 AGTTGGTTTTTAAAAAA
131 AGTTGATTTTTAAAAAA
15530793 ATATAAATTG
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
161 138 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (161 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
AGTTGATTTTTAAAAAACAGAAATTAAAGGT
Found at i:15531061 original size:75 final size:74
Alignment explanation
Indices: 15530908--15531066 Score: 214
Period size: 75 Copynumber: 2.1 Consensus size: 74
15530898 GAATTTGAAA
* * * * *
15530908 AAAACAGAATTTGAAAATCCCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
15530973 ATTTTCTTG
66 ATTTTCTTG
* * *
15530982 -AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAATTCACCTCTCGCAATATGAAT
1 AAAACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAAT
15531046 TGATTTT-TTG
64 TGATTTTCTTG
15531056 AAAACAGAAAT
1 AAAACAGAAAT
15531067 AAAAACATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
73 21 0.29
74 3 0.04
75 49 0.67
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
ATTTTCTTG
Found at i:15543233 original size:25 final size:24
Alignment explanation
Indices: 15543205--15543259 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
15543195 ACATGAAATA
15543205 ATAAAAGAAATATATAACAAATAAC
1 ATAAAAG-AATATATAACAAATAAC
* * **
15543230 ATAAAAGTATATGTATGAAATAAC
1 ATAAAAGAATATATAACAAATAAC
15543254 ATAAAA
1 ATAAAA
15543260 TATATGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAAAAGAATATATAACAAATAAC
Found at i:15543554 original size:31 final size:33
Alignment explanation
Indices: 15543519--15543592 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
15543509 TTACAAGAAA
*
15543519 ATATAACTAATAATATTGAAAAAATATATATATAT
1 ATATAAC--ATAATATTGAAAAAACATATATATAT
* *
15543554 ATATAACATAATATTTAAAACACATATATATAT
1 ATATAACATAATATTGAAAAAACATATATATAT
15543587 GATATA
1 -ATATA
15543593 TAAAAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 23 0.66
34 5 0.14
35 7 0.20
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.36
Consensus pattern (33 bp):
ATATAACATAATATTGAAAAAACATATATATAT
Found at i:15543565 original size:33 final size:37
Alignment explanation
Indices: 15543519--15543604 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 37
15543509 TTACAAGAAA
15543519 ATATAACTAATAATATTGAAAA-A-ATATATATAT-AT
1 ATATAAC-AATAATATTGAAAACACATATATATATGAT
*
15543554 ATATAAC-ATAATATTTAAAACACATATATATATGAT
1 ATATAACAATAATATTGAAAACACATATATATATGAT
* *
15543590 ATATAAAAATTATAT
1 ATATAACAATAATAT
15543605 ATAATACACT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 12 0.27
34 1 0.02
35 17 0.39
36 8 0.18
37 6 0.14
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (37 bp):
ATATAACAATAATATTGAAAACACATATATATATGAT
Found at i:15543676 original size:9 final size:9
Alignment explanation
Indices: 15543658--15543696 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15543648 TATTATACAT
*
15543658 TAATACATA
1 TAATAAATA
15543667 TAATAAATA
1 TAATAAATA
* *
15543676 TATTTAATA
1 TAATAAATA
15543685 TAATAAATA
1 TAATAAATA
15543694 TAA
1 TAA
15543697 ATATTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAAATA
Found at i:15544337 original size:14 final size:15
Alignment explanation
Indices: 15544312--15544340 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15544302 ATCTACTTTT
15544312 TTCTTATTTTTTGTA
1 TTCTTATTTTTTGTA
15544327 TTCTT-TTTTTTGTA
1 TTCTTATTTTTTGTA
15544341 CTATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (15 bp):
TTCTTATTTTTTGTA
Found at i:15546117 original size:36 final size:37
Alignment explanation
Indices: 15546067--15546137 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
15546057 TTTTTATAAT
15546067 TATTTTTGAATATTTCTATAAAATTTTAAATATTTTG
1 TATTTTTGAATATTTCTATAAAATTTTAAATATTTTG
* ** *
15546104 TATTTTT-AATATTTTTATAAGTTTTTATATATTT
1 TATTTTTGAATATTTCTATAAAATTTTAAATATTT
15546138 ATAATTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 23 0.77
37 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (37 bp):
TATTTTTGAATATTTCTATAAAATTTTAAATATTTTG
Found at i:15546133 original size:18 final size:18
Alignment explanation
Indices: 15546088--15546145 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
15546078 ATTTCTATAA
* *
15546088 AATTTTAAATAT-TTTGT
1 AATTTTTAATATATTTAT
*
15546105 -ATTTTTAATATTTTTAT
1 AATTTTTAATATATTTAT
15546122 AAGTTTTT-ATATATTTAT
1 AA-TTTTTAATATATTTAT
15546140 AATTTT
1 AATTTT
15546146 GGTGTGAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 10 0.29
17 8 0.23
18 12 0.34
19 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
AATTTTTAATATATTTAT
Found at i:15546145 original size:36 final size:37
Alignment explanation
Indices: 15546068--15546145 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 37
15546058 TTTTATAATT
*
15546068 ATTTTTGAATATTTCTATAAAATTTTAAATATTTTGT
1 ATTTTTGAATATTTCTATAAAATTTTAAATATTTTGA
* ** *
15546105 ATTTTT-AATATTTTTATAAGTTTTTATATATTTAT-A
1 ATTTTTGAATATTTCTATAAAATTTTAAATATTT-TGA
15546141 ATTTT
1 ATTTT
15546146 GGTGTGAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 28 0.80
37 7 0.20
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (37 bp):
ATTTTTGAATATTTCTATAAAATTTTAAATATTTTGA
Found at i:15547773 original size:13 final size:13
Alignment explanation
Indices: 15547755--15547779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15547745 TTTTAAAAAA
15547755 AATTGTTTTAAAC
1 AATTGTTTTAAAC
15547768 AATTGTTTTAAA
1 AATTGTTTTAAA
15547780 AAATATAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
AATTGTTTTAAAC
Found at i:15549015 original size:27 final size:27
Alignment explanation
Indices: 15548985--15549084 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
15548975 TTTAGTTTAC
*
15548985 TAAAATTACCGAAATACCCTTAGTCTG
1 TAAAATTACCGAAATACCCTTCGTCTG
* * *
15549012 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCG-TCTG
** *
15549039 TAAAATTATTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCGTC-TG
15549066 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
15549085 CCGATTTACA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
26 7 0.12
27 49 0.84
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTCGTCTG
Found at i:15549127 original size:54 final size:54
Alignment explanation
Indices: 15549069--15549246 Score: 142
Period size: 54 Copynumber: 3.3 Consensus size: 54
15549059 CGACTTGTAA
* *
15549069 AATTACCAAAGTACCCCCGATTTACATAATTATCGTTTTACCC-CTGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAT
**** * * *
15549123 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAT
* * *** ** ** * *
15549177 AACTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTAAAA
1 AATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAT
* *
15549231 AATTACTAAAATACCC
1 AATTACCAAAGTACCC
15549247 TTAGTTTGTA
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
54 101 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (54 bp):
AATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAT
Found at i:15549154 original size:81 final size:81
Alignment explanation
Indices: 15549067--15549246 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 81
15549057 TTCGACTTGT
* * * * * *
15549067 AAAATTACCAAAGTACCCCCGATTTACATAATTA-TCGTTTTACCCCTGATTTACATAATTACCG
1 AAAATTACCAAAATACCCCCGATTTACAGAACTACT-ATTTTACCCCTGATTTACAGAATTACCA
*
15549131 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAA
* **** * * * *
15549148 AGAATTACCGTTTTACCCTCGATTTATAGAACTACTATTTTACCCTTGATTTACAGAATTACTAT
1 AAAATTACCAAAATACCCCCGATTTACAGAACTACTATTTTACCCCTGATTTACAGAATTACCAT
15549213 TTTACCCTCGATTTAA
66 TTTACCCTCGATTTAA
*
15549229 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
15549247 TTAGTTTGTA
Statistics
Matches: 77, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
81 76 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCCGATTTACAGAACTACTATTTTACCCCTGATTTACAGAATTACCAT
TTTACCCTCGATTTAA
Found at i:15549237 original size:27 final size:27
Alignment explanation
Indices: 15549080--15549238 Score: 169
Period size: 27 Copynumber: 5.9 Consensus size: 27
15549070 ATTACCAAAG
* * *
15549080 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
* **
15549107 TACCC-CTGATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACTATTT
**
15549134 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
15549161 TACCCTCGATTTATAGAACTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
15549188 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
15549215 TACCCTCGATTTAAAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
15549239 AAATACCCTT
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 115 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:15549245 original size:27 final size:27
Alignment explanation
Indices: 15549161--15549439 Score: 152
Period size: 27 Copynumber: 10.3 Consensus size: 27
15549151 ATTACCGTTT
* * * ***
15549161 TACCCTCGATTTATAGAACTACTATTT
1 TACCCTTGATTTATAAAATTACTAAAA
* * ***
15549188 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACTAAAA
* *
15549215 TACCCTCGATTTAAAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
15549242 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * *
15549269 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * * **
15549296 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
15549323 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * *
15549350 TACCCCTGATTTACAAAGTTAC-AGGAA
1 TACCCTTGATTTATAAAATTACTA-AAA
*
15549377 TACCCTTGACTTTTTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACTA-AAA
* * * * *
15549406 TACCATTGGTTTACAAAATTATTGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
15549433 TACCCTT
1 TACCCTT
15549440 AGTTTGTAGA
Statistics
Matches: 206, Mismatches: 39, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 180 0.87
28 7 0.03
29 17 0.08
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:15549273 original size:81 final size:80
Alignment explanation
Indices: 15549188--15549371 Score: 190
Period size: 81 Copynumber: 2.3 Consensus size: 80
15549178 ACTACTATTT
* *** * *
15549188 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTAAAAAATTACTAAAATACCCTTAGTT
1 TACCCTTGATTTACA-AATTACCAAAATACCCTCGATTTAAAAAATTACCAAAATACCCTTAATT
15549253 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * * *** *
15549269 TACCCCTAGTTTGTA-AAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TA-CCCTTGATT-TACAAATTACCAAAATACCCTCGATTTAAAAAATTACCAAAATACCCTTAAT
15549333 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
15549350 TACCCCTGATTTACAAAGTTAC
1 TACCCTTGATTTACAAA-TTAC
15549372 AGGAATACCC
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.02
80 9 0.11
81 61 0.74
82 8 0.10
83 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACCAAAATACCCTCGATTTAAAAAATTACCAAAATACCCTTAATTT
GTAAAATTACCAAAA
Found at i:15549562 original size:27 final size:27
Alignment explanation
Indices: 15549485--15549562 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
15549475 AAATGACTAA
* *
15549485 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
15549512 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
15549539 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
15549563 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:15550758 original size:25 final size:25
Alignment explanation
Indices: 15550711--15550758 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15550701 TTATAATATG
* * *
15550711 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
15550736 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
15550759 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:15550928 original size:25 final size:24
Alignment explanation
Indices: 15550872--15551017 Score: 199
Period size: 25 Copynumber: 6.0 Consensus size: 24
15550862 AGGAAGTGCA
15550872 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
15550895 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
15550920 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
15550945 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
15550969 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
15550993 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
15551018 GATAAAGCAG
Statistics
Matches: 113, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
23 22 0.19
24 31 0.27
25 60 0.53
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:15551012 original size:49 final size:47
Alignment explanation
Indices: 15550871--15551016 Score: 195
Period size: 49 Copynumber: 3.0 Consensus size: 47
15550861 GAGGAAGTGC
*
15550871 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-A
*
15550919 TAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTAT-A-AAAGGGCTTATGCCCCAGTTATA
* *
15550968 AAAAGGGCTTTTGCCCCAGTTACTAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATA
15551017 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
48 31 0.35
49 34 0.39
50 23 0.26
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATA
Found at i:15551244 original size:31 final size:31
Alignment explanation
Indices: 15551209--15551272 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15551199 CGTTTACAGT
*
15551209 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
15551240 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
15551271 AA
1 AA
15551273 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:15552277 original size:26 final size:26
Alignment explanation
Indices: 15552238--15552300 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
15552228 ATAACACTTT
*
15552238 TTTTTTGAAATTTTT-AAT-TTTATA
1 TTTTTTAAAATTTTTAAATATTTATA
*
15552262 TATTTTTAAAATTTTTAAATATTTTTA
1 T-TTTTTAAAATTTTTAAATATTTATA
15552289 TTTTTTAAAATT
1 TTTTTTAAAATT
15552301 AGCTGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 1 0.03
25 13 0.38
26 14 0.41
27 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTTAAAATTTTTAAATATTTATA
Found at i:15552997 original size:9 final size:9
Alignment explanation
Indices: 15552974--15553078 Score: 67
Period size: 8 Copynumber: 11.4 Consensus size: 9
15552964 AACATCGGAA
15552974 AAAATCATAT
1 AAAAT-ATAT
15552984 AAAATATAT
1 AAAATATAT
*
15552993 TAAATAT-T
1 AAAATATAT
15553001 AAAATATAT
1 AAAATATAT
15553010 GAAAATTGATAT
1 -AAAA-T-ATAT
*
15553022 AAACT-TAT
1 AAAATATAT
*
15553030 AAAA-AAAT
1 AAAATATAT
15553038 -AAATATTAT
1 AAAATA-TAT
15553047 AAAAATATAT
1 -AAAATATAT
*
15553057 AAAAAATAAT
1 AAAATAT-AT
*
15553067 AAATTAT-T
1 AAAATATAT
15553075 AAAA
1 AAAA
15553079 ATTACAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.04
8 20 0.27
9 19 0.25
10 20 0.27
11 9 0.12
12 4 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:15553054 original size:11 final size:10
Alignment explanation
Indices: 15552973--15553185 Score: 77
Period size: 10 Copynumber: 22.5 Consensus size: 10
15552963 AAACATCGGA
15552973 AAAAATCATAT
1 AAAAAT-ATAT
15552984 -AAAATATAT
1 AAAAATATAT
*
15552993 -TAAATAT-T
1 AAAAATATAT
15553001 -AAAATATAT
1 AAAAATATAT
*
15553010 GAAAAT-TGAT
1 AAAAATAT-AT
*
15553020 ATAAACT-TAT
1 A-AAAATATAT
15553030 AAAAA-A-AT
1 AAAAATATAT
*
15553038 AAATAT-TAT
1 AAAAATATAT
15553047 AAAAATATAT
1 AAAAATATAT
15553057 AAAAA-ATA-
1 AAAAATATAT
*
15553065 ATAAAT-TATT
1 AAAAATATA-T
*
15553075 AAAAAT-TAC
1 AAAAATATAT
*
15553084 AAAATTA-AT
1 AAAAATATAT
* *
15553093 AAAAATGTTT
1 AAAAATATAT
* *
15553103 AAAATTTTAT
1 AAAAATATAT
*
15553113 AAAAACATATT
1 AAAAATATA-T
* *
15553124 AAAATTCTAT
1 AAAAATATAT
15553134 AAAAATCATA-
1 AAAAAT-ATAT
*
15553144 AAAAGTAT-T
1 AAAAATATAT
*
15553153 AAAATTGATAT
1 AAAAAT-ATAT
*
15553164 -AAACT-TAT
1 AAAAATATAT
15553172 AAAAAT-TAT
1 AAAAATATAT
15553181 AAAAA
1 AAAAA
15553186 AAAACTAAAA
Statistics
Matches: 153, Mismatches: 30, Indels: 40
0.69 0.13 0.18
Matches are distributed among these distances:
8 22 0.14
9 55 0.36
10 61 0.40
11 15 0.10
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATATAT
Found at i:15553087 original size:26 final size:27
Alignment explanation
Indices: 15553027--15553080 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
15553017 GATATAAACT
*
15553027 TATA-AAAAAATAA-ATATTATAAAAA
1 TATATAAAAAATAATAAATTATAAAAA
15553052 TATATAAAAAATAATAAATTATTAAAAA
1 TATATAAAAAATAATAAATTA-TAAAAA
15553080 T
1 T
15553081 TACAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 9 0.36
27 5 0.20
28 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
TATATAAAAAATAATAAATTATAAAAA
Found at i:15553125 original size:21 final size:22
Alignment explanation
Indices: 15553101--15553143 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
15553091 ATAAAAATGT
*
15553101 TTAAAATTTTATAAAAA-CATA
1 TTAAAATTCTATAAAAATCATA
15553122 TTAAAATTCTATAAAAATCATA
1 TTAAAATTCTATAAAAATCATA
15553144 AAAAGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATTCTATAAAAATCATA
Found at i:15553173 original size:29 final size:29
Alignment explanation
Indices: 15553000--15553185 Score: 102
Period size: 29 Copynumber: 6.5 Consensus size: 29
15552990 TATTAAATAT
* * *
15553000 TAAAATATATGAAAATTGATAT-AAACTTA
1 TAAAAAATATTAAAATT-ATATAAAAATTA
15553029 TAAAAAA-A-T-AAA-TATTATAAAAATATA
1 TAAAAAATATTAAAATTA-TATAAAAAT-TA
*
15553056 TAAAAAATAAT-AAATTAT-TAAAAATTA
1 TAAAAAATATTAAAATTATATAAAAATTA
* * * * * * *
15553083 -CAAAATTAATAAAAATGTTTAAAATTTTA
1 TAAAAAATATTAAAATTATATAAAA-ATTA
* *
15553112 TAAAAACATATTAAAATTCTATAAAAATCA
1 TAAAAA-ATATTAAAATTATATAAAAATTA
* *
15553142 TAAAAAGTATTAAAATTGATAT-AAACTTA
1 TAAAAAATATTAAAATT-ATATAAAAATTA
* *
15553171 TAAAAATTATAAAAA
1 TAAAAAATATTAAAA
15553186 AAAACTAAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 15 0.12
27 16 0.13
28 14 0.11
29 42 0.34
30 17 0.14
31 14 0.11
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAAAAATATTAAAATTATATAAAAATTA
Found at i:15567555 original size:44 final size:44
Alignment explanation
Indices: 15567458--15567685 Score: 165
Period size: 44 Copynumber: 5.2 Consensus size: 44
15567448 TATCTTTAGT
* * * *
15567458 CTACTCCACTGTAATTTCAGGGAGGTAAGACTTGTAACTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAC
* * * * * * **
15567502 TTGCCCCACTGTAACTTCAGGGGGATAAGGTTTGTGGCTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAC
* * * *
15567546 CTACTCCACTACAACTTTAGGGAGATAAGATTCGTAATTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAC
* * ** * ** *
15567590 CTGCTCCACTGCAATTTCAATGAGATAAGGTTTGT---TTTGAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAC
* * * * *
15567631 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATCTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAA-CTTCAAC
15567676 CTACTCCACT
1 CTACTCCACT
15567686 ACTGGTTAGG
Statistics
Matches: 135, Mismatches: 45, Indels: 7
0.72 0.24 0.04
Matches are distributed among these distances:
41 31 0.23
44 93 0.69
45 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAC
Found at i:15567575 original size:88 final size:88
Alignment explanation
Indices: 15567458--15567624 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
15567448 TATCTTTAGT
** * * * *
15567458 CTACTCCACTGTAATTTCAGGGAGGTAAGACTT-GTAACTTCAACTTGCCCCACTGTAACTTCAG
1 CTACTCCACTACAATTTCAGGGAGATAAGA-TTCGTAACTTCAACCTGCCCCACTGCAACTTCAA
*
15567522 GGGGATAAGGTTTGTGGCTTCAAC
65 GGAGATAAGGTTTGTGGCTTCAAC
* * *
15567546 CTACTCCACTACAACTTT-AGGGAGATAAGATTCGTAATTTCAACCTGCTCCACTGCAATTTCAA
1 CTACTCCACTACAA-TTTCAGGGAGATAAGATTCGTAACTTCAACCTGCCCCACTGCAACTTCAA
*
15567610 TGAGATAAGGTTTGT
65 GGAGATAAGGTTTGT
15567625 TTTGATCTGC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 2 0.03
88 61 0.92
89 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (88 bp):
CTACTCCACTACAATTTCAGGGAGATAAGATTCGTAACTTCAACCTGCCCCACTGCAACTTCAAG
GAGATAAGGTTTGTGGCTTCAAC
Found at i:15567934 original size:45 final size:45
Alignment explanation
Indices: 15567866--15568457 Score: 203
Period size: 45 Copynumber: 13.4 Consensus size: 45
15567856 GCTACTGGTT
** * *
15567866 AGGGAGACAAGAT-TCGCCGTCTTCGATCTGTTCCACTGCAACTTC
1 AGGGAGACAAGATCT-GCAATCTTCAATCTGCTCCACTGCAACTTC
* ** * * **
15567911 AGGGAGACAAGATTTGCAATCTTCAGCCTACTCCACTACTGCTT-
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* * **** *
15567955 AGGGAGATAGGA-C-GGTGGCTTAAATCTGCTCCACTGCAACTTC
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* ** ** * * * * *
15567998 AGAGAGACAAGATTCACCGTTTTTGAA-CTGTTCCACTGTAAATTC
1 AGGGAGACAAGA-TCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* * * * **
15568043 AGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTT-
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* * * **** * *
15568087 AGGAAGATAGGA-C-GGTGGCTTAAATCTGTTCCACTGCAACTTC
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
** ** * * *
15568130 AAAGAGACAAGAT-TCGCTGTCTTCGATCTGTTCCACTGCAACTTT
1 AGGGAGACAAGATCT-GCAATCTTCAATCTGCTCCACTGCAACTTC
** * * *
15568175 AGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTT-
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* * * * * * * *
15568219 AGGGGGATACGATGGTG---GCTTAAATCTACTCCACTGCAACTTT
1 AGGGAGACAAGAT-CTGCAATCTTCAATCTGCTCCACTGCAACTTC
* * * ** * * *
15568262 AGAGAAATAAGATCTGCCGTCTTCGATCTGTTTCACTGCAACTTC
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* ** * * **
15568307 AGGGAGACAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTT-
1 AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
* * * * *
15568351 AGGGAGATAGGATGGTG--A-CTTAAATCTACTCCACTGCAACTTC
1 AGGGAGACAAGAT-CTGCAATCTTCAATCTGCTCCACTGCAACTTC
* ** * * *
15568394 AGAGAGACAAGAT-TCGCCGTCTTCGATCTGTTCCACTGCAACTTT
1 AGGGAGACAAGATCT-GCAATCTTCAATCTGCTCCACTGCAACTTC
15568439 AGGGAGACAAGATCTGCAA
1 AGGGAGACAAGATCTGCAA
15568458 ATTCACCGAT
Statistics
Matches: 379, Mismatches: 145, Indels: 46
0.66 0.25 0.08
Matches are distributed among these distances:
41 1 0.00
42 75 0.20
43 37 0.10
44 48 0.13
45 211 0.56
46 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (45 bp):
AGGGAGACAAGATCTGCAATCTTCAATCTGCTCCACTGCAACTTC
Found at i:15568066 original size:132 final size:132
Alignment explanation
Indices: 15567628--15568457 Score: 1135
Period size: 132 Copynumber: 6.3 Consensus size: 132
15567618 GGTTTGTTTT
* * * * ** *
15567628 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATCTTCAACCTACTCCACTACTGGTT
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
* * * * * * * * *
15567693 AGGCAGATAGGATGGTGGCTTAAATTTGCTCAACTACTA-TTTAGGGAGACAAGATTCACCGTCT
66 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
15567757 TC
131 TC
* *
15567759 GATCTGTTCCACTGCAACTTTAGGGAGACAAGATCTGTAATCTTCAACCTACTCCACTACTGCTT
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
* * * *** *
15567824 AGGGAGATAGGATGGTGGCTTAAATCTATTCCGCTACTGGTT-AGGGAGACAAGATTCGCCGTCT
66 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
15567888 TC
131 TC
* *
15567890 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTGCAATCTTCAGCCTACTCCACTACTGCTT
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
* * * *
15567955 AGGGAGATAGGACGGTGGCTTAAATCTGCTCCACTGCAACTTCAGAGAGACAAGATTCACCGTTT
66 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
*
15568020 TT
131 TC
* * * *
15568022 GAACTGTTCCACTGTAAATTCAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTT
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
* * ** * *
15568087 AGGAAGATAGGACGGTGGCTTAAATCTGTTCCACTGCAACTTCAAAGAGACAAGATTCGCTGTCT
66 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
15568152 TC
131 TC
* * *
15568154 GATCTGTTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTT
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
* * * * *
15568219 AGGGGGATACGATGGTGGCTTAAATCTACTCCACTGCAACTTTAGAGAAATAAGA-TCTGCCGTC
66 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTC-GCCGTC
15568283 TTC
130 TTC
* * *
15568286 GATCTGTTTCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTT
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
*
15568351 AGGGAGATAGGATGGTGACTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
66 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
15568416 TC
131 TC
*
15568418 GATCTGTTCCACTGCAACTTTAGGGAGACAAGATCTGCAA
1 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAA
15568458 ATTCACCGAT
Statistics
Matches: 621, Mismatches: 74, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
131 210 0.34
132 409 0.66
133 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (132 bp):
GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTT
AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTGCAACTTCAGAGAGACAAGATTCGCCGTCT
TC
Found at i:15568631 original size:64 final size:64
Alignment explanation
Indices: 15568521--15568648 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
15568511 TCATGTATCT
* * *
15568521 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAGTGAATCAAATGCTCCTAACTAGATGTA
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAAACAAATGCTCCTAACTAGATGTA
*
15568585 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATAAAACAAATGCTCCTAACTAGATGTA
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAAACAAATGCTCCTAACTAGATGTA
15568649 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAAACAAATGCTCCTAACTAGATGTA
Found at i:15577189 original size:38 final size:39
Alignment explanation
Indices: 15577105--15577192 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 39
15577095 AGTACAAAAT
* * * **
15577105 AGAAACAGTAGTCATGCTTAATCATGCAATCATTTTAAC
1 AGAAGCAGTAGGCATGCTGAATCATGCAATCATAATAAC
*
15577144 AGTAGCAGTAGGCATGCTGAA-CATGCAATCTATAAT-AC
1 AGAAGCAGTAGGCATGCTGAATCATGCAATC-ATAATAAC
15577182 AGAAGCAGTAG
1 AGAAGCAGTAG
15577193 CAAAGTAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
38 21 0.51
39 20 0.49
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (39 bp):
AGAAGCAGTAGGCATGCTGAATCATGCAATCATAATAAC
Found at i:15581881 original size:26 final size:26
Alignment explanation
Indices: 15581817--15581880 Score: 105
Period size: 25 Copynumber: 2.5 Consensus size: 26
15581807 TTGGGGGAGG
15581817 GGGTTAGG-TTTTTCTTTTTCTTTTT
1 GGGTTAGGTTTTTTCTTTTTCTTTTT
15581842 GGGTTAGGTTTTTTCTTTTT-TTTTT
1 GGGTTAGGTTTTTTCTTTTTCTTTTT
*
15581867 TGGTTAGGTTTTTT
1 GGGTTAGGTTTTTT
15581881 TTTGGGGAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
25 26 0.70
26 11 0.30
ACGTcount: A:0.05, C:0.05, G:0.22, T:0.69
Consensus pattern (26 bp):
GGGTTAGGTTTTTTCTTTTTCTTTTT
Found at i:15582745 original size:30 final size:30
Alignment explanation
Indices: 15582709--15582769 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
15582699 TTTGAAAAAT
15582709 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
15582739 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
15582769 A
1 A
15582770 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:15583063 original size:237 final size:239
Alignment explanation
Indices: 15582540--15583508 Score: 819
Period size: 237 Copynumber: 4.1 Consensus size: 239
15582530 AACAGACATT
15582540 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * ** *
15582605 TTGATTTTTTGAAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGGT
66 TTGAATTTTTGAAACAGAATC-TGAAAA-TAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
* * *
15582669 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTAAAAGACTCAACTCAAC
129 TCAACTCACCTCTCGCAATATGAGTTAATTTTTTG-AAAATAGAAATTAAAA-AAT-ACCTCAA-
* *
15582733 TCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
190 TGT-G-TG--ATCT--AAAGCTCAACTCACCTCTCGCAATATGAGTT--ATTTTTTTG
* * * *
15582790 AAAAAAAAAGAAATTGAAAATAGCTCAGCACGTGAGCTAAGGCTCAACTCACTTCTCGCAATATG
1 --AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
15582855 AGTT-AATTTTTGAAACAGAATCTGAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
64 AGTTGAATTTTTGAAACAGAATCTGAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
* * * *
15582919 TCAACTCACATCTCGCAATGTAAGTTAATTTTTTGAAAATATAAATTCAAAAAATACCTCAATGT
129 TCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAATAGAAATT-AAAAAATACCTCAATGT
15582984 GTGATCTAAAGCTCAACTCACCTCTCGCAATATGAGTT-TTTTTTTG
193 GTGATCTAAAGCTCAACTCACCTCTCGCAATATGAGTTATTTTTTTG
* *
15583030 AAAGACAG-AATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAT
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * * * *
15583094 TTGATTTTTTTGAAAGCAGAAAT-TGAAAATAGAAATTAAAAATACCTTGGCGTGTGACCTGAGG
66 TTGA-ATTTTTGAAA-CAG-AATCTGAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGG
* * * * * * * * *
15583158 CTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGACAACAGAAATT-GAAATTACCT-TA-G
128 CTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGAAAATAGAAATTAAAAAATACCTCAATG
* *
15583220 CGTG-TCCT-GAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
192 TGTGAT-CTAAAGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTTTTG
* * ** ** ** *
15583267 AAAAATAGAAATTG-AAATACCTCAGCATGTTTG---AGGCTCAACTCATTTCTCACAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * * ** * * **
15583328 TTG-ATTTTT-------TTTTTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCT
66 TTGAATTTTTGAAACAGAATCTG-AAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCT
* * * * * * * *
15583385 CAACTCGCCGCTCGCAATACGAGTTGA-TTTTTGACAACAGAAATT-GAAATTACCTC-A-GTGT
130 CAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAATAGAAATTAAAAAATACCTCAATGTGT
* * * *
15583446 G-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTG
195 GAT-CTAAAGCTCAACTCACCTCTCGCAATATGAGTTATTTTTTTG
** *
15583491 AAAGGCGGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
15583509 ACGGAAATTG
Statistics
Matches: 618, Mismatches: 80, Indels: 65
0.81 0.10 0.09
Matches are distributed among these distances:
223 39 0.06
224 46 0.07
225 63 0.10
232 5 0.01
234 27 0.04
236 30 0.05
237 87 0.14
238 13 0.02
239 17 0.03
240 66 0.11
241 20 0.03
243 31 0.05
244 2 0.00
245 1 0.00
246 1 0.00
247 1 0.00
248 2 0.00
249 6 0.01
250 68 0.11
251 29 0.05
252 64 0.10
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (239 bp):
AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGAATTTTTGAAACAGAATCTGAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAATAGAAATTAAAAAATACCTCAATGTGTG
ATCTAAAGCTCAACTCACCTCTCGCAATATGAGTTATTTTTTTG
Found at i:15583137 original size:163 final size:162
Alignment explanation
Indices: 15582951--15583283 Score: 379
Period size: 163 Copynumber: 2.0 Consensus size: 162
15582941 AGTTAATTTT
* * * *
15582951 TTGAAAATATAAATTCAAAAAATACCTCAATGTGTGATCTAAAGCTCAACTCACCTCTCGCAATA
1 TTGAAAATAGAAATT-AAAAAATACCTCAACGTGTGACCTAAAGCTCAACTCACCTCTCACAATA
* *
15583016 TGAGTT-TTTTTTTGAAAGACAG-AATTGAAAATAGCTCAGCGCGTGAGCCA-AGGCTCAACTCA
65 CGAGTTATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA--GCGTG-GCCAGA-GCTCAACTCA
* *
15583078 CCTCTCGCAATATGATTTGATTTTTTTG-AAAGCAGAAA
125 CCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAA
*** * * *
15583116 TTGAAAATAGAAATT-AAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAATAGAAATTAAAAAATACCTCAACGTGTGACCTAAAGCTCAACTCACCTCTCACAATAC
* * * * *
15583180 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGCTCAACTCACCTCT
66 GAGTT-ATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGGCCAGAGCTCAACTCACCTCT
*
15583245 CGCAATATGAGTTGATTTTTTGAAAAATAGAAA
130 CGCAATATGAGTTGATTTTTTGAAAAACAGAAA
15583278 TTGAAA
1 TTGAAA
15583284 TACCTCAGCA
Statistics
Matches: 143, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
161 7 0.05
162 45 0.31
163 50 0.35
164 4 0.03
165 37 0.26
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (162 bp):
TTGAAAATAGAAATTAAAAAATACCTCAACGTGTGACCTAAAGCTCAACTCACCTCTCACAATAC
GAGTTATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGGCCAGAGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTGAAAAACAGAAA
Found at i:15583323 original size:72 final size:74
Alignment explanation
Indices: 15583119--15583507 Score: 394
Period size: 72 Copynumber: 5.2 Consensus size: 74
15583109 GCAGAAATTG
* * * ** * * *
15583119 AAAATAGAAATTAAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
15583184 TGATTTTTTTG-
64 TGA-TTTTTTGA
* *
15583195 ACAACAGAAATTGAAATTACCTTAGCGTGTCCTGA-GCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
15583259 ATTTTTTGA
66 ATTTTTTGA
* * * ** *
15583268 AAAATAGAAATTGAAA-TACCTCAGCATGT-TTGAGGCTCAACTCATTTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
15583331 ATTTTTTTTTTGA
66 A----TTTTTTGA
* * * * * *
15583344 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATACGAGT
1 AAAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
15583409 TGA-TTTTTG-
64 TGATTTTTTGA
* * **
15583418 ACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCA
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
15583483 ATTTTTTGA
66 ATTTTTTGA
** *
15583492 AAGGCGGAAATTGAAA
1 AAAACAGAAATTGAAA
15583508 AACGGAAATT
Statistics
Matches: 260, Mismatches: 41, Indels: 26
0.80 0.13 0.08
Matches are distributed among these distances:
71 3 0.01
72 75 0.29
73 47 0.18
74 43 0.17
75 6 0.02
76 48 0.18
77 11 0.04
80 27 0.10
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (74 bp):
AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGA
Found at i:15583591 original size:89 final size:87
Alignment explanation
Indices: 15583424--15583596 Score: 215
Period size: 89 Copynumber: 2.0 Consensus size: 87
15583414 TTTGACAACA
* * *
15583424 GAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTT
1 GAAATTGAAATTACCTCAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTCAATTTTT
*
15583489 TGAAAGGCGGAAATTGAAAAACG
66 TGAAA-GCAGAAATTGAAAAACG
* * * *
15583512 GAAATTGAAA-TACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAATTACCTC--AGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAG-TCAATT
15583576 TTTTGACAA-CAGAAATTGAAA
63 TTTTGA-AAGCAGAAATTGAAA
15583597 TTACCTCAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
87 6 0.08
88 10 0.14
89 45 0.62
90 10 0.14
91 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (87 bp):
GAAATTGAAATTACCTCAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTCAATTTTT
TGAAAGCAGAAATTGAAAAACG
Found at i:15583633 original size:163 final size:164
Alignment explanation
Indices: 15583340--15583917 Score: 713
Period size: 163 Copynumber: 3.5 Consensus size: 164
15583330 GATTTTTTTT
* *
15583340 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
*
15583405 GAGTTGA--TTTTTGACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
15583468 TCGCAATATGAGTCAATTTTTTGAAAGGCGGAAA
131 TCGCAATATGAGTCAATTTTTTGAAAGACAGAAA
* *
15583502 TTGAAAAACGGAAATTG-AAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
*
15583566 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTC
66 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
15583631 TCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
131 TCGCAATATGAG-TCAATTTTTTGAAAGACAGAAA
* * *
15583666 TTGAAAAACGGAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
* * * *
15583731 GAGTTGATTCTTTCAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGG
66 GAGTTGA-T-TTT-------T--T--TGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
* * * * *
15583796 CTCAACTCACCTCTCGCAATATGAG-CTGATTCTTTCAAAAACATAATA
118 CTCAACTCACCTCTCGCAATATGAGTC-AATTTTTTGAAAGACAGAA-A
* * * *
15583844 ATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
*
15583906 GAGCT-ATTTTTT
66 GAGTTGATTTTTT
15583918 GAAAAAGTAG
Statistics
Matches: 365, Mismatches: 32, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
161 52 0.14
162 16 0.04
163 67 0.18
164 35 0.10
165 52 0.14
166 1 0.00
167 3 0.01
172 3 0.01
173 1 0.00
174 2 0.01
175 35 0.10
176 1 0.00
177 35 0.10
178 62 0.17
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (164 bp):
TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTCAATTTTTTGAAAGACAGAAA
Found at i:15583634 original size:74 final size:75
Alignment explanation
Indices: 15583502--15583671 Score: 236
Period size: 74 Copynumber: 2.3 Consensus size: 75
15583492 AAGGCGGAAA
* * * * *
15583502 TTGAAAAACGGAAATTGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACG
1 TTGAAAGACAGAAATTGAAATACCTCAGCGTGT-ACCTGAGACTCAACTCACCACTCGCAATACG
15583567 AGTTGATTTTT
65 AGTTGATTTTT
* * *
15583578 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGACTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAA-TACCTCAGCGTGTACCTGAGACTCAACTCACCACTCGCAATACG
15583641 AGTTGATTTTT
65 AGTTGATTTTT
15583652 TTGAAAGACAGAAATTGAAA
1 TTGAAAGACAGAAATTGAAA
15583672 AACGGAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
74 42 0.50
75 25 0.30
76 17 0.20
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
TTGAAAGACAGAAATTGAAATACCTCAGCGTGTACCTGAGACTCAACTCACCACTCGCAATACGA
GTTGATTTTT
Found at i:15583671 original size:14 final size:14
Alignment explanation
Indices: 15583652--15583686 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15583642 GTTGATTTTT
*
15583652 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
15583666 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
15583680 TTGAAAA
1 TTGAAAA
15583687 TACCTTGACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:15583817 original size:178 final size:175
Alignment explanation
Indices: 15583583--15583904 Score: 466
Period size: 178 Copynumber: 1.8 Consensus size: 175
15583573 TTTTTTTGAC
* * *
15583583 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * * * *
15583648 TTTTTTGAAAGACAGAA-ATTGAAAAACGGAAATTGAAAATACCTTGACGTGTGACCTGAGGCTC
65 TTCTTTCAAAAACAGAATAATG-AAAACAGAAATTGAAAATACCTCG--GCGTGACCTGAGGCTC
*
15583712 AACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAACATAATAATGAA
127 AACTCACCTCTCGCAATACGAGTTGATTCTTTCAAAACATAATAATGAA
* *
15583761 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGCTGAT
* *
15583826 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
66 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
15583891 CACCTCTCGCAATA
131 CACCTCTCGCAATA
15583905 TGAGCTATTT
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
175 32 0.25
177 34 0.27
178 62 0.48
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (175 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
CACCTCTCGCAATACGAGTTGATTCTTTCAAAACATAATAATGAA
Found at i:15583878 original size:88 final size:88
Alignment explanation
Indices: 15583583--15583923 Score: 454
Period size: 88 Copynumber: 3.9 Consensus size: 88
15583573 TTTTTTTGAC
* * * * *
15583583 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * *
15583648 TTTTTTGAAAGACAGAA-ATTGAAA
65 TTCTTTCAAAAACATAATAATG-AA
* * * * * *
15583672 AACGGAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCG--GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
15583737 ATTCTTTC-AAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
15583761 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
15583826 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
*
15583849 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCT-AT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
15583913 TTTTTGAAAAA
66 TCTTTCAAAAA
15583924 GTAGAAATTA
Statistics
Matches: 225, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
87 56 0.25
88 77 0.34
89 47 0.21
90 8 0.04
91 37 0.16
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:15584119 original size:70 final size:72
Alignment explanation
Indices: 15583940--15584127 Score: 236
Period size: 70 Copynumber: 2.6 Consensus size: 72
15583930 ATTAAAAGGT
* * * * * * *
15583940 TCAACCCACCTCTCGCAATATGAGTTGATTCTGACAAACAGAAATTGAGATTACCTCATCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAGAATACCTCAGCGTGCC
*
15584005 CTGAGGC
66 CCGAGGC
** *
15584012 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAATTGA-AATACCTCAGCGTGCC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAGAATACCTCAGCGTGCC
15584076 CCGA-GC
66 CCGAGGC
** *
15584082 TCAACTCACCTCTAACAATATGAGTTGATTTTGAAAAATAAAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT
15584128 AAAAGCTTAA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
70 42 0.42
71 16 0.16
72 41 0.41
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAGAATACCTCAGCGTGCC
CCGAGGC
Found at i:15584432 original size:70 final size:70
Alignment explanation
Indices: 15584315--15584451 Score: 195
Period size: 70 Copynumber: 1.9 Consensus size: 70
15584305 TGAAAAACGA
* **
15584315 AAATTGAAAATACTCGGCGTGTGACCTGAGGCTCAACTTGCCACTCGCAATACGAGTTGATTTTT
1 AAATTGAAAATACTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
15584380 TTACAG
65 TTACAG
* * *
15584386 AAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATA-CTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
15584450 TT
65 TT
15584452 TTGAAAGACA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 39 0.66
71 11 0.19
72 9 0.15
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (70 bp):
AAATTGAAAATACTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTTT
TACAG
Found at i:15584477 original size:13 final size:14
Alignment explanation
Indices: 15584452--15584484 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
15584442 TGATTTTTTT
15584452 TTGAAAGACAGAAA
1 TTGAAAGACAGAAA
15584466 TTGAAA-ACAGAAA
1 TTGAAAGACAGAAA
15584479 TTGAAA
1 TTGAAA
15584485 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAGACAGAAA
Found at i:15584576 original size:90 final size:89
Alignment explanation
Indices: 15584382--15584696 Score: 316
Period size: 85 Copynumber: 3.6 Consensus size: 89
15584372 TGATTTTTTT
* * *
15584382 ACAGAAATTGAAATTACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 ACAGAAATTGAAAATACCTCGGCGGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * * *
15584446 TTTTTTTTGAAAGACAGAA-ATTGAAA
65 --TTCTTTCAAAAACACAATAATGAAA
* *
15584472 ACAGAAATTG-AAATACCTCGGCGTGTGA-CTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA
1 ACAGAAATTGAAAATACCTCGGCG-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
15584535 -TCTTTCAAAAAAACACAATAATGAAA
65 TTCTTTC--AAAAACACAATAATGAAA
* *
15584561 ACAAAAATTGAAAATA-CT---CGG-GACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 ACAGAAATTGAAAATACCTCGGCGGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
15584621 TCTTTC--AAACATAATAATGAAG
66 TCTTTCAAAAACACAATAATGAAA
* * * *
15584643 ACAGAAATT-AAAATACATTGGC-ATGACCTGAGGCTCAACTCACCTCTCACAATA
1 ACAGAAATTGAAAATACCTCGGCGGTGACCTGAGGCTCAACTCACCTCTCGCAATA
15584697 GGCTGATTTT
Statistics
Matches: 192, Mismatches: 20, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
81 6 0.03
82 23 0.12
84 2 0.01
85 63 0.33
86 12 0.06
88 8 0.04
89 27 0.14
90 48 0.25
91 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (89 bp):
ACAGAAATTGAAAATACCTCGGCGGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TCTTTCAAAAACACAATAATGAAA
Found at i:15585022 original size:118 final size:116
Alignment explanation
Indices: 15584791--15585020 Score: 290
Period size: 118 Copynumber: 2.0 Consensus size: 116
15584781 TCGTGTCCTG
* *
15584791 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAACACAAAATTAAAAAATACTCAGTGCC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCAAATTAAACACAAAACT-AAAAATACTCAGTGCC
15584856 CGAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAATTAAA
64 CGAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAATTAAA
* * *
15584909 AGGCTTAACTCACCTCTCGCAATATGA-TCAATTTAAACA-TAAACT-AAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAAATTAAACACAAAACTAAAAATA-CTCA--GTGC
* *
15584971 CCAGAGCTTCAACCTCACTTCTCGCAATATGAGTTGA-TTTG-AAAACAAAA
63 CC-GAGC-TCAA-CTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAA
15585021 ATACCTCAAC
Statistics
Matches: 99, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
113 6 0.06
114 4 0.04
115 4 0.04
116 16 0.16
117 13 0.13
118 34 0.34
119 22 0.22
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (116 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAAATTAAACACAAAACTAAAAATACTCAGTGCCCG
AGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAATTAAA
Found at i:15585043 original size:783 final size:790
Alignment explanation
Indices: 15583380--15585072 Score: 2469
Period size: 783 Copynumber: 2.1 Consensus size: 790
15583370 GTGTGACCTA
* ** * * **
15583380 AGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTGACAACAGAAATTGAAATTACCTCAGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGA-AA-A-AAA-T-AAAATACCTCAACG
* * ** *
15583445 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTGAAAGGCGGAAATTGAAAAA
60 TGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAGAAATTGAAAAA
*
15583510 CGGAAATTGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATT
125 CGAAAATTGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATT
15583575 TTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATAT
190 TTTTT---AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATAT
* *
15583640 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTTGACGTGTGACCT
252 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACGTGTGACCT
* *
15583705 GAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAACATAATAATGAAAACAGAAAT
317 GAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAACACAATAATGAAAACAAAAAT
15583770 TGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAAA
382 TGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTC-AA
* * *
15583835 AACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCG
446 AACATAATAATGAAGACAGAAATTGAAAATACATCGGCATGACCTGAGGCTCAACTCACCTCTCA
15583900 CAATATGAGCTATTTTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGT
511 CAATATGAGCTA-TTTTTG---AAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGT
15583965 TGATTCTGACAAACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
572 TGATTCTGACAAACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
15584030 TATGAGTTGAAATTAAAAAACAAAAATTGAAATACCTCAGCGTGCCCCGAGCTCAACTCACCTCT
637 TATGAGTTGAAATTAAAAAACAAAAATTAAAATACCTCA-CGTGCCCCGAGCTCAACTCACCTCT
15584095 AACAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGCTTAACTCACCTCTCGCAATATGAGTC
701 AACAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGCTTAACTCACCTCTCGCAATATGAGTC
15584160 AAACTAAAAATACTCAGCGTGCCCG
766 AAACTAAAAATACTCAGCGTGCCCG
*
15584185 AGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG---AAAAAAA-TAAAATACCTCAACGTG
* *
15584250 TCTTGAGGCTCAACTCATCTATCGCAATATGAGTTGATTTTTTTAAAGGCAGAAA-TGAAAAACG
62 TCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAGAAATTGAAAAACG
*
15584314 AAAATTGAAAATA-CTCGGCGTGTGACCTGAGGCTCAACTTGCCACTCGCAATACGAGTTGATTT
127 AAAATTG-AAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
*
15584378 TTTT-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
191 TTTTAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGT
*
15584442 TGATTTTTTTTTGAAAGACAGAAATTG-AAAACAGAAATTG-AAATACCTCGGCGTGTGA-CTGA
256 TGA--TTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACGTGTGACCTGA
15584504 GGCTCAACTCGCCTCTCGCAATACGAGTTGA-TCTTTCAAAAAAACACAATAATGAAAACAAAAA
319 GGCTCAACTCGCCTCTCGCAATACGAGTTGATTCTTTC---AAAACACAATAATGAAAACAAAAA
15584568 TTGAAAATA-CTC-G-G-GACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTC-A
381 TTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAA
*
15584628 AACATAATAATGAAGACAGAAATT-AAAATACATTGGCATGACCTGAGGCTCAACTCACCTCTCA
446 AACATAATAATGAAGACAGAAATTGAAAATACATCGGCATGACCTGAGGCTCAACTCACCTCTCA
15584692 CAATA-G-GCTGA-TTTTG-AGTAGAAATTAAAA-GTT-AA-CCACCTCTCGCAATATGAGTTGA
511 CAATATGAGCT-ATTTTTGAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
15584750 TTCTTGACAAACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
575 TTC-TGACAAACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
15584815 TGAGTTGAAATT-AAACAC-AAAATTAAAAAATA-CTCA-GTG-CCCGAGCTCAACTCACCTCTA
639 TGAGTTGAAATTAAAAAACAAAAATT--AAAATACCTCACGTGCCCCGAGCTCAACTCACCTCTA
* *
15584875 GCAATATGAGTTGATTTTGAAAAA-CAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGA-TC
702 ACAATATGAGTTGATTTTGAAAAATAAAAATTAAAA-GCTTAACTCACCTCTCGCAATATGAGTC
15584938 AATTTAAACATAAACTAAAATACCTCAGCGTGCCC-
766 -----AAAC-T--A--AAAATA-CTCAGCGTGCCCG
*
15584973 AGAGCTTCAACCTCACTTCTCGCAATATGAGTTGA-TTTG-AAAACA-AAAATACCTCAACGT-T
1 AG-GC-TCAA-CTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAATAAAATACCTCAACGTGT
*
15585034 TTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
63 CTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
15585073 CCCTTGAAAA
Statistics
Matches: 825, Mismatches: 35, Indels: 78
0.88 0.04 0.08
Matches are distributed among these distances:
778 12 0.01
779 69 0.08
780 3 0.00
781 6 0.01
782 35 0.04
783 122 0.15
784 19 0.02
785 14 0.02
786 6 0.01
788 8 0.01
789 19 0.02
790 11 0.01
791 25 0.03
792 41 0.05
793 25 0.03
795 45 0.05
796 7 0.01
797 36 0.04
798 81 0.10
799 43 0.05
800 22 0.03
802 69 0.08
803 66 0.08
804 10 0.01
805 28 0.03
806 2 0.00
807 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (790 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAATAAAATACCTCAACGTGTCTT
GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAGAAATTGAAAAACGAAAA
TTGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTTA
ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAA
CTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAACACAATAATGAAAACAAAAATTGAAAATAC
CTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAAAACATAATAA
TGAAGACAGAAATTGAAAATACATCGGCATGACCTGAGGCTCAACTCACCTCTCACAATATGAGC
TATTTTTGAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTGACAAAC
AGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT
AAAAAACAAAAATTAAAATACCTCACGTGCCCCGAGCTCAACTCACCTCTAACAATATGAGTTGA
TTTTGAAAAATAAAAATTAAAAGCTTAACTCACCTCTCGCAATATGAGTCAAACTAAAAATACTC
AGCGTGCCCG
Found at i:15586517 original size:14 final size:17
Alignment explanation
Indices: 15586497--15586540 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 17
15586487 TTCTTTTTTT
15586497 TTCTTTCTTCTTCC-TC
1 TTCTTTCTTCTTCCTTC
15586513 -T-TTTCTTCTTCCTTC
1 TTCTTTCTTCTTCCTTC
15586528 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
15586541 AAAGTCTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.44
15 3 0.12
16 1 0.04
17 10 0.40
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCTTTCTTCTTCCTTC
Found at i:15586518 original size:18 final size:18
Alignment explanation
Indices: 15586495--15586540 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
15586485 TTTTCTTTTT
15586495 TTTTCTTTCTT-CTTCCTC
1 TTTTC-TTCTTCCTTCCTC
*
15586513 TTTTCTTCTTCCTTCTTC
1 TTTTCTTCTTCCTTCCTC
15586531 -TTTCTTCTTC
1 TTTTCTTCTTC
15586541 AAAGTCTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCTTCTTCCTTCCTC
Found at i:15586934 original size:27 final size:28
Alignment explanation
Indices: 15586903--15587011 Score: 78
Period size: 30 Copynumber: 3.8 Consensus size: 28
15586893 CTTCTGGGGC
* *
15586903 TAAATGTAATTTTA-GAAAATTTAGGAT
1 TAAATGAAATTTAATGAAAATTTAGGAT
* *
15586930 TAAATGAAATTTAATGAAAGTTTAGGGGT
1 TAAATGAAATTTAATGAAAATTTA-GGAT
* * * *
15586959 CTAAGTGAAATTTAAAGAAAGTTTAAGGGT
1 -TAAATGAAATTTAATGAAAATTT-AGGAT
* *
15586989 CAAAATGAAATTT-AGGAAAATTT
1 -TAAATGAAATTTAATGAAAATTT
15587012 TAGGGGTCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 12 0.18
28 8 0.12
29 11 0.16
30 36 0.53
31 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (28 bp):
TAAATGAAATTTAATGAAAATTTAGGAT
Found at i:15586970 original size:30 final size:30
Alignment explanation
Indices: 15586931--15587031 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 30
15586921 ATTTAGGATT
* *
15586931 AAATGAAATTTAATGAAAGTTTAGGGGTCT
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
* *
15586961 AAGTGAAATTTAAAGAAAGTTTAAGGGTCA
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
* *
15586991 AAATGAAATTT-AGGAAAATTTTAGGGGTCA
1 AAATGAAATTTAAAG-AAAGTTTAGGGGTCA
*
15587021 AAATGCAATTT
1 AAATGAAATTT
15587032 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (30 bp):
AAATGAAATTTAAAGAAAGTTTAGGGGTCA
Found at i:15587424 original size:50 final size:50
Alignment explanation
Indices: 15587301--15587510 Score: 267
Period size: 50 Copynumber: 4.0 Consensus size: 50
15587291 CACGTGAGCC
* * *
15587301 AAGGCTCAACTCACTTCTCGCAATGATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTG--AA-A-AA-TAGAAA
*
15587357 AAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
*
15587407 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
* *
15587461 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
15587511 TTGAAAAGTA
Statistics
Matches: 141, Mismatches: 9, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
50 51 0.36
51 2 0.01
52 3 0.02
53 2 0.01
54 46 0.33
55 15 0.11
56 22 0.16
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (50 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
Found at i:15587486 original size:104 final size:105
Alignment explanation
Indices: 15587301--15587510 Score: 325
Period size: 104 Copynumber: 2.0 Consensus size: 105
15587291 CACGTGAGCC
* *
15587301 AAGGCTCAACTCACTTCTCGCAATGATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATGATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAA
* *
15587366 TTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
65 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
* *
15587407 AAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATGATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAA
*
15587470 CTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAA
65 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
15587511 TTGAAAAGTA
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
104 49 0.51
105 14 0.15
106 33 0.34
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (105 bp):
AAGGCTCAACTCACCTCTCGCAATGATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:15587487 original size:54 final size:55
Alignment explanation
Indices: 15587301--15587518 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
15587291 CACGTGAGCC
* *
15587301 AAGGCTCAACTCACTTCTCGCAATGATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTGAAAAACAGAAATTG-AA
* *
15587357 AAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
* *
15587407 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
*
15587461 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
15587516 AAG
1 AAG
15587519 TAGAAATTGA
Statistics
Matches: 147, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
50 47 0.32
52 1 0.01
54 51 0.35
55 20 0.14
56 28 0.19
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:15587516 original size:14 final size:14
Alignment explanation
Indices: 15587497--15587531 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15587487 GAGTTGATTT
15587497 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
15587511 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
15587525 TTGAAAA
1 TTGAAAA
15587532 TACTCAGCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:15587810 original size:15 final size:16
Alignment explanation
Indices: 15587777--15587810 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15587767 TTGATTTTTG
* *
15587777 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
15587793 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
15587809 AA
1 AA
15587811 TACCTCAGCA
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:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:15587852 original size:89 final size:88
Alignment explanation
Indices: 15587622--15587871 Score: 295
Period size: 87 Copynumber: 2.9 Consensus size: 88
15587612 AACAGAAATT
* *
15587622 AAAACAGAATTTGAAAA-ACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
**
15587686 TGA---TTGAAAAGTAGAATTAGT
65 TGATTTTTGAAAAGTAGAATTAAA
* * *
15587707 AAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACTTCTCGCAATAT-A-T
1 AAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAGT
15587768 TGATTTTTGAAAAGCATAG-ATTGAAA
65 TGATTTTTGAAAAG--TAGAATT-AAA
*
15587794 AAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGAG
15587858 TTGATTTTTGAAAA
64 TTGATTTTTGAAAA
15587872 ACAAAATTAA
Statistics
Matches: 140, Mismatches: 11, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
82 4 0.03
83 4 0.03
84 26 0.19
85 23 0.16
86 11 0.08
87 28 0.20
89 26 0.19
90 1 0.01
91 17 0.12
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTTTGAAAAGTAGAATTAAA
Found at i:15588041 original size:123 final size:122
Alignment explanation
Indices: 15587794--15588111 Score: 528
Period size: 123 Copynumber: 2.6 Consensus size: 122
15587784 TAGATTGAAA
* * * * * *
15587794 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGT
15587859 TGATTTTTGAAAAACAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
64 TGATTTTTGAAAAACAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
* *
15587918 AAAACATAAACTAAAAATACCTCGGCGTGTCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
15587983 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 ATTTTTGAAAAAC-AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
15588041 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
15588106 ATTTTT
66 ATTTTT
15588112 TTTAAAAAAA
Statistics
Matches: 183, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
122 47 0.26
123 113 0.62
124 23 0.13
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (122 bp):
AAAACATAAACTAAAAATACCTCGGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAACAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:15588617 original size:192 final size:192
Alignment explanation
Indices: 15587929--15588742 Score: 1385
Period size: 191 Copynumber: 4.3 Consensus size: 192
15587919 AAACATAAAC
** **
15587929 TAAAAATACCTCGGCGTGTCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAA
1 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAA
15587994 ACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAAT
65 AC-AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAAT
15588059 ACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAATT
129 ACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAAATT
*
15588124 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGATTTTG-----
1 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAA
15588184 -AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTC-------AACATAAACTAAAAATAC
66 CAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATAC
15588241 CTCGGCGTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATT
131 CTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATT
*
15588302 TAAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAA
1 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAA
15588367 CAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATAC
66 CAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATAC
15588432 CTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAAATT
131 CTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATT
* *
15588493 TAAAAATATCTCAACGTGTCTTGAGGCTCAGCTCATTTCTCGCAATATGAGTTGATTTTGAAAAA
1 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAA
15588558 CAAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-AAACATAAACTAAAAAT
66 C--AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAAT
15588622 ACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAAA-T
129 ACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATT
15588684 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
15588743 CCTTGGAAAG
Statistics
Matches: 590, Mismatches: 12, Indels: 38
0.92 0.02 0.06
Matches are distributed among these distances:
178 74 0.13
179 36 0.06
180 27 0.05
184 39 0.07
187 39 0.07
191 163 0.28
192 107 0.18
193 50 0.08
194 5 0.01
195 50 0.08
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAA
CAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATAC
CTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATT
Found at i:15596974 original size:17 final size:17
Alignment explanation
Indices: 15596920--15597270 Score: 194
Period size: 17 Copynumber: 19.9 Consensus size: 17
15596910 ATTTTTAAAA
15596920 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
15596936 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
15596954 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
15596971 AAACACGGTCAATTTCTTA
1 AAACAC-GAAAATTT-TTG
* *
15596990 AAACGCGAAAGTTTTTGG
1 AAACACGAAAATTTTT-G
**
15597008 AAA-ACGGGAATTTTTTTTG
1 AAACAC--GAA-AATTTTTG
*
15597027 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
*
15597044 AAACACTG-GAA-TTTTG
1 AAACAC-GAAAATTTTTG
** *
15597060 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
15597078 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
15597094 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
15597112 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
15597129 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
15597146 AAACAC-AGAAGTTTTTAG
1 AAACACGA-AAATTTTT-G
*
15597164 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* **
15597182 AAA-ATTGGAATTTTTTTG
1 AAACA--CGAAAATTTTTG
*
15597200 AAAACACGAGAATTTTTG
1 -AAACACGAAAATTTTTG
*
15597218 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* * **
15597237 CAACATGGGAATTTTTG
1 AAACACGAAAATTTTTG
15597254 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
15597271 CCGATTTTTA
Statistics
Matches: 253, Mismatches: 56, Indels: 49
0.71 0.16 0.14
Matches are distributed among these distances:
16 20 0.08
17 110 0.43
18 64 0.25
19 50 0.20
20 9 0.04
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:15597609 original size:16 final size:16
Alignment explanation
Indices: 15597584--15597626 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
15597574 AAAATTATTT
*
15597584 AAAATAAAATAAAATA
1 AAAATTAAATAAAATA
*
15597600 AAAATTAAATTAAATTA
1 AAAATTAAA-TAAAATA
15597617 AAAA-TAAATA
1 AAAATTAAATA
15597627 TAAAAATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 12 0.50
17 10 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTAAATAAAATA
Found at i:15597613 original size:17 final size:16
Alignment explanation
Indices: 15597584--15597631 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
15597574 AAAATTATTT
*
15597584 AAAATAAAATAAAATA
1 AAAATAAATTAAAATA
*
15597600 AAAATTAAATTAAATTA
1 AAAA-TAAATTAAAATA
15597617 AAAATAAATATAAAA
1 AAAATAAAT-TAAAA
15597632 ATGCATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAATTAAAATA
Found at i:15597780 original size:9 final size:9
Alignment explanation
Indices: 15597766--15597828 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
15597756 ATTGAACCTC
15597766 TTTTTTCTT
1 TTTTTTCTT
15597775 TTTTTTCTT
1 TTTTTTCTT
*
15597784 TCTTTT-TT
1 TTTTTTCTT
** *
15597792 CCTTCTCTT
1 TTTTTTCTT
*
15597801 TTTCTTCTTT
1 TTTTTTC-TT
15597811 TTCTTTTCTT
1 TT-TTTTCTT
15597821 TTTTTTCT
1 TTTTTTCT
15597829 CTGCTGGGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
8 6 0.14
9 25 0.58
10 8 0.19
11 4 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:15597789 original size:11 final size:10
Alignment explanation
Indices: 15597764--15597828 Score: 71
Period size: 11 Copynumber: 6.3 Consensus size: 10
15597754 GAATTGAACC
15597764 TCTTTTTTCT
1 TCTTTTTTCT
15597774 T-TTTTTTCTT
1 TCTTTTTTC-T
15597784 TCTTTTTTCCT
1 TCTTTTTT-CT
15597795 TCTCTTTTTCT
1 TCT-TTTTTCT
*
15597806 TCTTTTTCTTT
1 TCTTTTT-TCT
15597817 TCTTTTTT-T
1 TCTTTTTTCT
15597826 TCT
1 TCT
15597829 CTGCTGGGCC
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 11 0.22
10 8 0.16
11 24 0.49
12 6 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:15597789 original size:20 final size:20
Alignment explanation
Indices: 15597764--15597828 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 20
15597754 GAATTGAACC
15597764 TCTTTTTTCTTTTTTTTCTT
1 TCTTTTTTCTTTTTTTTCTT
15597784 TCTTTTTTCCTTCTCTTTTTC-T
1 TCTTTTTT-CTT-T-TTTTTCTT
*
15597806 TC-TTTTTCTTTTCTTTTTTT
1 TCTTTTTTCTTTT-TTTTCTT
15597826 TCT
1 TCT
15597829 CTGCTGGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 14 0.37
21 8 0.21
22 4 0.11
23 6 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTTTTTTCTTTTTTTTCTT
Found at i:15598584 original size:30 final size:30
Alignment explanation
Indices: 15598544--15598645 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
15598534 ATTTAGGATT
* * *
15598544 AAAATGAAATTTAATGGAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
15598574 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
*
15598604 AAAATGAAATTT-AGGAAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
*
15598634 AAAATGCAATTT
1 AAAATGAAATTT
15598646 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:15598668 original size:16 final size:17
Alignment explanation
Indices: 15598643--15598677 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15598633 CAAAATGCAA
15598643 TTTTTATTTTT-AAATT
1 TTTTTATTTTTGAAATT
*
15598659 TTTTTTTTTTTGAAATT
1 TTTTTATTTTTGAAATT
15598676 TT
1 TT
15598678 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTTGAAATT
Found at i:15598669 original size:17 final size:17
Alignment explanation
Indices: 15598643--15598677 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15598633 CAAAATGCAA
*
15598643 TTTTTATTTTTAAATTT
1 TTTTTATTTTGAAATTT
*
15598660 TTTTTTTTTTGAAATTT
1 TTTTTATTTTGAAATTT
15598677 T
1 T
15598678 GAAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTGAAATTT
Found at i:15600202 original size:23 final size:22
Alignment explanation
Indices: 15600176--15600229 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
15600166 GTAAATCGCC
15600176 TTATATACTTTTCAAA-ATTCTAT
1 TTATATA-TTTT-AAAGATTCTAT
*
15600199 TTATTTATTTTAAAGTATTCTAT
1 TTATATATTTTAAAG-ATTCTAT
15600222 TTAT-TATT
1 TTATATATT
15600230 CATTATAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 8 0.29
23 17 0.61
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATATATTTTAAAGATTCTAT
Found at i:15600330 original size:27 final size:27
Alignment explanation
Indices: 15600274--15600328 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
15600264 TTTATGTACA
* *
15600274 TATATGTATATTACTTGTTCTAAAATT
1 TATATATATATCACTTGTTCTAAAATT
* *
15600301 TATATATATATCATCTTTTTCTTAAATT
1 TATATATATATCA-CTTGTTCTAAAATT
15600329 ATTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATATCACTTGTTCTAAAATT
Found at i:15604183 original size:19 final size:19
Alignment explanation
Indices: 15604142--15604194 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
15604132 CGCCTCTTTT
**
15604142 TGCATT-CATTTCATTCATT
1 TGCATTACATTTCA-TCACA
15604161 TGCATTACATTTCATCACA
1 TGCATTACATTTCATCACA
*
15604180 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
15604195 AAAAAGGCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (19 bp):
TGCATTACATTTCATCACA
Found at i:15609037 original size:70 final size:70
Alignment explanation
Indices: 15608932--15609097 Score: 253
Period size: 70 Copynumber: 2.4 Consensus size: 70
15608922 GATTGAAATT
* * * * *
15608932 ACCATGGAAAATCTTATCCCCCTAAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTC-AGATT
1 ACCATGGCAAATCTTCTCTCCCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTCGA-ATC
15608996 AAATCC
65 AAATCC
* *
15609002 ACCATGGCAATTCTTCTCTCCCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGTAGGTCGAATCA
1 ACCATGGCAAATCTTCTCTCCCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTCGAATCA
15609067 AATCC
66 AATCC
15609072 ACCATGGCAAATCTTCTCTCCCTGAA
1 ACCATGGCAAATCTTCTCTCCCTGAA
15609098 ATTGAAGTGG
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
70 86 0.99
71 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (70 bp):
ACCATGGCAAATCTTCTCTCCCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTCGAATCA
AATCC
Found at i:15609295 original size:88 final size:88
Alignment explanation
Indices: 15609131--15609296 Score: 210
Period size: 88 Copynumber: 1.9 Consensus size: 88
15609121 TACAGATCTC
* *
15609131 ATCTCCCTAAAGTTTCAGTAGAATAGATCGAAGATAGCAAACCTTATCCCTCTGAAGTTGCAGTG
1 ATCTCCCTAAAGTTGCAGTAGAATAGATCGAAGATAGCAAACCTCATCCCTCTGAAGTTGCAGTG
** *
15609196 GGGCAGGTTGAAGTACAAGTCTT
66 GAACAGATTGAAGTACAAGTCTT
** * * *
15609219 ATCTCCCTAAAGTTGCAGTAGGGTAGA-CTGAAGATAGCTAATCTCATTTCC-CTGAAGTTGCAG
1 ATCTCCCTAAAGTTGCAGTAGAATAGATC-GAAGATAGCAAACCTCA-TCCCTCTGAAGTTGCAG
15609282 TGGAACAGATTGAAG
64 TGGAACAGATTGAAG
15609297 CTACCAGCAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
87 1 0.02
88 62 0.94
89 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (88 bp):
ATCTCCCTAAAGTTGCAGTAGAATAGATCGAAGATAGCAAACCTCATCCCTCTGAAGTTGCAGTG
GAACAGATTGAAGTACAAGTCTT
Found at i:15609296 original size:45 final size:44
Alignment explanation
Indices: 15609126--15609296 Score: 125
Period size: 45 Copynumber: 3.9 Consensus size: 44
15609116 GGATTTACAG
* * * *
15609126 ATCTCATCTCCCTAAAGTTTCAGTAGAATAGATCGAAGATAGCAA
1 ATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGATAGC-A
* * * ** *
15609171 ACCTTATC-CCTCTGAAGTTGCAGTGGGGCAGGTTGAAG-TA-CA
1 ATCTCATCTCC-CTAAAGTTGCAGTGGAACAGATTGAAGATAGCA
* ** *
15609213 AGTCTTATCTCCCTAAAGTTGCAGTAGG-GTAGACTGAAGATAGCTA
1 A-TCTCATCTCCCTAAAGTTGCAGT-GGAACAGATTGAAGATAGC-A
* *
15609259 ATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG
15609297 CTACCAGCAC
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
42 2 0.02
43 27 0.28
44 12 0.12
45 54 0.56
46 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGATAGCA
Found at i:15611662 original size:23 final size:23
Alignment explanation
Indices: 15611636--15611689 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
15611626 GTAAATCGCC
*
15611636 TTATATACTTTTCAAA-ATTCTAT
1 TTATATA-TTTTAAAATATTCTAT
*
15611659 TTATTTATTTTAAAATATTCTAT
1 TTATATATTTTAAAATATTCTAT
15611682 TTAT-TATT
1 TTATATATT
15611690 CATTATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATATTTTAAAATATTCTAT
Found at i:15611689 original size:22 final size:22
Alignment explanation
Indices: 15611644--15611686 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
15611634 CCTTATATAC
*
15611644 TTTTCAAAATTCTATTTATTTA
1 TTTTAAAAATTCTATTTATTTA
15611666 TTTTAAAATATTCTATTTATT
1 TTTTAAAA-ATTCTATTTATT
15611687 ATTCATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAAAATTCTATTTATTTA
Found at i:15611790 original size:27 final size:27
Alignment explanation
Indices: 15611734--15611788 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
15611724 TTTATGTACA
* *
15611734 TATATGTATATTACTTGTTCTAAAATT
1 TATATATATATCACTTGTTCTAAAATT
* *
15611761 TATATATATATCATCTTTTTCTTAAATT
1 TATATATATATCA-CTTGTTCTAAAATT
15611789 ATTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATATCACTTGTTCTAAAATT
Done.