Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold17
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: 1562583
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 255143 characters in sequence are not A, C, G, or T
File 2 of 9
Found at i:111545 original size:131 final size:130
Alignment explanation
Indices: 111286--111567 Score: 297
Period size: 131 Copynumber: 2.2 Consensus size: 130
111276 CTTCGGAAAT
* *
111286 AACGGGGTTGGAGTATCCCCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCGAGGTTGGAG
1 AACGAGGTTGGAGTATCCTCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCGAGGTTGGAG
* * * * * * *
111351 TATCTATTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATATTTTAGAAATAA
66 TATCCACTCAAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATAGATATTTTAGAAATAA
* * *
111416 AGCCGAGGTTGGAGTATCCTCAATTGT-GAAAAATCGATGTT-TTAGAAATAAAAATC-AGGGTT
1 A-ACGAGGTTGGAGTATCCTCAATGGTGGAAAAATCGATGTTGTGA-AAAT-AAAATCGA-GGTT
* * * *
111478 GGAGTATCCCCTCAAAAATAATC-GGGTTGAAGTATCCCTAATTGTGAAAAATTAG-TGTTTT-G
62 GGAGTATCCACTCAAAAATAA-CGGGGTTGAAGTATCCCCAATTATGAAAAA-TAGATATTTTAG
111540 AAAATAA
125 -AAATAA
*
111547 AATGAGGTTTGGAGTATCCTC
1 AACGAGG-TTGGAGTATCCTC
111568 TCAGAAATAA
Statistics
Matches: 126, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
129 2 0.02
130 25 0.20
131 96 0.76
132 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (130 bp):
AACGAGGTTGGAGTATCCTCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCGAGGTTGGAG
TATCCACTCAAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATAGATATTTTAGAAATAA
Found at i:114919 original size:21 final size:20
Alignment explanation
Indices: 114893--114968 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 20
114883 ACATGTTGCA
114893 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACAT-AAAAAG
***
114914 ATGTATCGATACATATTGCA-
1 ATGTATCGATACATA-AAAAG
114934 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACAT-AAAAAG
114955 ATGTATCGATACAT
1 ATGTATCGATACAT
114969 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATAAAAAG
Found at i:114926 original size:41 final size:41
Alignment explanation
Indices: 114875--114968 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
114865 ACAATTCAAA
* *
114875 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
114916 GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
114957 GTATCGATACAT
1 GTATCGATACAT
114969 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
Found at i:114948 original size:20 final size:20
Alignment explanation
Indices: 114855--114948 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
114845 ACCCCTAAAA
* *
114855 GTATCGATACACAATT-CAAA
1 GTATCGATACA-TATTGCAAT
*
114875 GTATCGATACATGTTGCAAT
1 GTATCGATACATATTGCAAT
***
114895 GTATCGATACATGA-AAAAGAT
1 GTATCGATACAT-ATTGCA-AT
114916 GTATCGATACATATTGCAAT
1 GTATCGATACATATTGCAAT
114936 GTATCGATACATA
1 GTATCGATACATA
114949 AAAAAGATGT
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.03
20 43 0.72
21 15 0.25
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACATATTGCAAT
Found at i:115025 original size:13 final size:13
Alignment explanation
Indices: 115007--115032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114997 TACAGCAAGT
115007 ATGTATCGATACA
1 ATGTATCGATACA
115020 ATGTATCGATACA
1 ATGTATCGATACA
115033 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:118678 original size:13 final size:13
Alignment explanation
Indices: 118660--118684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118650 TTTTCCAGAT
118660 TGTATCGATACAA
1 TGTATCGATACAA
118673 TGTATCGATACA
1 TGTATCGATACA
118685 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:119758 original size:83 final size:80
Alignment explanation
Indices: 119619--119785 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 80
119609 TTGGCCTGAT
119619 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTG
1 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTA--T-
119684 TTATAAAGGAAGAAATTG
63 TTATAAAGGAAGAAATTG
119702 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTA
1 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTA
119767 TAAAGGAAGAAATTG
66 TAAAGGAAGAAATTG
119782 AAAA
1 AAAA
119786 TATTGAAGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
80 22 0.26
81 1 0.01
83 61 0.73
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.24
Consensus pattern (80 bp):
AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTA
TAAAGGAAGAAATTG
Found at i:120659 original size:21 final size:20
Alignment explanation
Indices: 120633--120708 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 20
120623 ACATGTTGCA
120633 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACAT-AAAAAG
***
120654 ATGTATCGATACATATTGCA-
1 ATGTATCGATACATA-AAAAG
120674 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACAT-AAAAAG
120695 ATGTATCGATACAT
1 ATGTATCGATACAT
120709 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATAAAAAG
Found at i:120666 original size:41 final size:41
Alignment explanation
Indices: 120615--120708 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
120605 ACAATTCAAA
* *
120615 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
120656 GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
120697 GTATCGATACAT
1 GTATCGATACAT
120709 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATATTGCAATGTATCGATACATAAAAAAGAT
Found at i:120688 original size:20 final size:20
Alignment explanation
Indices: 120595--120688 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
120585 ACCCCTAAAA
* *
120595 GTATCGATACACAATT-CAAA
1 GTATCGATACA-TATTGCAAT
*
120615 GTATCGATACATGTTGCAAT
1 GTATCGATACATATTGCAAT
***
120635 GTATCGATACATGA-AAAAGAT
1 GTATCGATACAT-ATTGCA-AT
120656 GTATCGATACATATTGCAAT
1 GTATCGATACATATTGCAAT
120676 GTATCGATACATA
1 GTATCGATACATA
120689 AAAAAGATGT
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.03
20 43 0.72
21 15 0.25
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACATATTGCAAT
Found at i:120765 original size:13 final size:13
Alignment explanation
Indices: 120747--120772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120737 TACAGCAAGT
120747 ATGTATCGATACA
1 ATGTATCGATACA
120760 ATGTATCGATACA
1 ATGTATCGATACA
120773 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:122381 original size:14 final size:15
Alignment explanation
Indices: 122355--122383 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
122345 ACTCTTTAAG
122355 GTGAAAAAGTTTCAC
1 GTGAAAAAGTTTCAC
122370 GTGAAAAA-TTTCAC
1 GTGAAAAAGTTTCAC
122384 CTAAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (15 bp):
GTGAAAAAGTTTCAC
Found at i:126322 original size:13 final size:13
Alignment explanation
Indices: 126304--126328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
126294 TAAACTATAT
126304 AAGAAATTAACTG
1 AAGAAATTAACTG
126317 AAGAAATTAACT
1 AAGAAATTAACT
126329 CTGCAAAATT
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:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (13 bp):
AAGAAATTAACTG
Found at i:127909 original size:3 final size:3
Alignment explanation
Indices: 127901--127937 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
127891 ATCATAATTG
127901 ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
127938 CTATTTAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:128292 original size:53 final size:52
Alignment explanation
Indices: 128227--128886 Score: 507
Period size: 53 Copynumber: 13.0 Consensus size: 52
128217 TTGAAAATAC
* *
128227 TAAAAAACTTTAAAAATATTTTATATTAAATTTTGAATTATTATTTAAATAAAA
1 TAAAAAA-TTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAA-AAAA
* *
128281 TAAAAAATTTAAAAATATTTTATATTAAATTTTGAATCACTATTT--AAAAA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
* ** *
128331 T----AA--TAAAAATATTATATATTAAATCTCAAATTATTATTTAAAAAAA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
* * * *
128377 CAAAAAA-TTAAAATATATTTTATATTAAATATCGGATTACTA-TTAAAAAAA
1 TAAAAAATTTAAAA-ATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
** * * *
128428 TAAGCATTTTAAAAATATTTTATTTTAAATCTTGAATTACTAATT-AAAAAA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
* * *
128479 TAAAAAATTAAAAAATATATTTTATATTAAATCCTAAATTACTATTTAAAAATAA
1 TAAAAAATT-TAAAA-ATATTTTATATTAAATCTTGAATTACTATTTAAAAA-AA
* ** * *
128534 T-AAAAATTTAAAAATATTTTATATTAAGTCTCAAATTACTATTTAAAATAG
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
* * * *
128585 TAAAAAA--TAAAAATAATATATATTAAATCTTGAATTATTATTT-AAAATA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
* ***
128634 TAAAAAA-ATAAAATATTTTATTTTATATTAAATCACAAATTACTATTTAGAAAATAA
1 TAAAAAATTTAAAA-A---TATTTTATATTAAATCTTGAATTACTATTTA-AAAA-AA
* * * *
128691 TAAAAAATTTAAAATTA-TTTATATTAAATCATGAATTACTAATTAAAAATA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
**** ** ** *
128742 TATTTTATATT--AAATGCTGAATTATT-AATCTCGAATTACT-TTTAAAAATAA
1 TAAAAAAT-TTAAAAATATTTTA-TATTAAATCTTGAATTACTATTTAAAAA-AA
* * *
128793 T-AAAAA--T--ATATATTTTATATTAAATCTCGAATTACTTTTTAAAAATAA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAA-AA
* *
128841 TAAAAAA--T--ATATATTTTATATTAAATCTCGAATTACTATTTAAAAA
1 TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAA
128887 TAAAAACTTC
Statistics
Matches: 495, Mismatches: 80, Indels: 67
0.77 0.12 0.10
Matches are distributed among these distances:
44 30 0.06
46 11 0.02
47 20 0.04
48 12 0.02
49 53 0.11
50 53 0.11
51 78 0.16
52 82 0.17
53 92 0.19
54 44 0.09
55 3 0.01
56 4 0.01
57 8 0.02
58 5 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (52 bp):
TAAAAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAAAA
Found at i:128340 original size:97 final size:97
Alignment explanation
Indices: 128237--128886 Score: 391
Period size: 104 Copynumber: 6.4 Consensus size: 97
128227 TAAAAAACTT
*
128237 TAAAAATATTTTATATTAAATTTTGAATTATTATTTAAATAAAATAAAAAATTTAAAA-ATATTT
1 TAAAAATATTTTATATTAAATCTTGAATTATTATTTAAA-AAAATAAAAAATTTAAAATATATTT
* *
128301 TATATTAAATTTTGAATCACTATTTAAAAATAA
65 TATATTAAATATTGAATTACTATTTAAAAATAA
* ** *
128334 TAAAAATATTATATATTAAATCTCAAATTATTATTTAAAAAAACAAAAAA-TTAAAATATATTTT
1 TAAAAATATTTTATATTAAATCTTGAATTATTATTTAAAAAAATAAAAAATTTAAAATATATTTT
* * *
128398 ATATTAAATATCGGATTACTATTAAAAAAATAAGCA
66 ATATTAAATATTGAATTACTATT-TAAAAAT-A--A
* * * *
128434 TTTTAAAAATATTTTATTTTAAATCTTGAATTACTAATT-AAAAAATAAAAAATTAAAAAATATA
1 ---TAAAAATATTTTATATTAAATCTTGAATTATTATTTAAAAAAATAAAAAATT-TAAAATATA
** *
128498 TTTTATATTAAATCCTAAATTACTATTTAAAAATAATAAAAA
62 TTTTATATTAAATATTGAATTACTATTT--AAA-AAT---AA
* ** * * * *
128540 TTTAAAAATATTTTATATTAAGTCTCAAATTACTATTTAAAATAGTAAAAAA--TAAAA-ATAAT
1 --TAAAAATATTTTATATTAAATCTTGAATTATTATTTAAAAAAATAAAAAATTTAAAATATATT
* * *
128602 ATATATTAAATCTTGAATTATTATTTAAAATATAAAAAAA
64 TTATATTAAATATTGAATTACTATTTAAAA-AT-----AA
*** *
128642 TAAAATATTTTATTTTATATTAAATCACAAATTACTATTTAGAAAATAATAAAAAATTTAAAAT-
1 TAAAA-A---TATTTTATATTAAATCTTGAATTATTATTTA-AAAA-AATAAAAAATTTAAAATA
*
128706 TA-TTTATATTAAATCA-TGAATTACTAATTAAAAATATA
60 TATTTTATATTAAAT-ATTGAATTACTATTTAAAAATA-A
** * * *
128744 TTTTATATTAAAT-GCTGA-ATTATTAATCTCGAATTACT-TTTAAAAATAAT-AAAAA--T---
1 ---TA-A--AAATATTTTATATTA--AATCTTGAATTATTATTTAAAAA-AATAAAAAATTTAAA
* * *
128800 ATATATTTTATATTAAATCTCGAATTACTTTTTAAAAATAA
57 ATATATTTTATATTAAATATTGAATTACTATTTAAAAATAA
* *
128841 TAAAAAATATATATTTTATATTAAATCTCGAATTACTATTTAAAAA
1 T---AAA-A-ATATTTTATATTAAATCTTGAATTATTATTTAAAAA
128887 TAAAAACTTC
Statistics
Matches: 447, Mismatches: 57, Indels: 98
0.74 0.09 0.16
Matches are distributed among these distances:
94 2 0.00
95 7 0.02
96 55 0.12
97 55 0.12
98 34 0.08
99 2 0.00
100 11 0.02
101 7 0.02
102 56 0.13
103 41 0.09
104 72 0.16
105 41 0.09
106 26 0.06
107 27 0.06
108 11 0.02
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (97 bp):
TAAAAATATTTTATATTAAATCTTGAATTATTATTTAAAAAAATAAAAAATTTAAAATATATTTT
ATATTAAATATTGAATTACTATTTAAAAATAA
Found at i:128369 original size:44 final size:43
Alignment explanation
Indices: 128281--128386 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
128271 TTAAATAAAA
* * * **
128281 TAAAAAATTTAAAAATATTTTATATTAAATTTTGAATCACTATT
1 TAAAAAA-ATAAAAATATTATATATTAAATCTCAAATCACTATT
* *
128325 TAAAAATAATAAAAATATTATATATTAAATCTCAAATTATTATT
1 TAAAAA-AATAAAAATATTATATATTAAATCTCAAATCACTATT
*
128369 TAAAAAAACAAAAA-ATTA
1 TAAAAAAATAAAAATATTA
128387 AAATATATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.08
43 7 0.13
44 41 0.77
45 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.39
Consensus pattern (43 bp):
TAAAAAAATAAAAATATTATATATTAAATCTCAAATCACTATT
Found at i:128382 original size:52 final size:52
Alignment explanation
Indices: 128325--128886 Score: 384
Period size: 52 Copynumber: 11.0 Consensus size: 52
128315 AATCACTATT
* *
128325 TAAAAATAATAAAAATATTATATATTAAATCTCAAATTATTATTTAAAAAAA
1 TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAA
* * * **
128377 CAAAAA-ATTAAAATATATTTTATATTAAATATCGGATTACTA-TTAAAAAAA
1 TAAAAATAATAAAA-ATATTTTATATTAAATCTCAAATTACTATTTAAAAAAA
** ** * ** *
128428 TAAGCATTTTAAAAATATTTTATTTTAAATCTTGAATTACTAATT-AAAAAA
1 TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAA
128479 TAAAAAATTAA-AAAATATATTTTATATTAAATC-CTAAATTACTATTTAAAAATAA
1 T-AAAAA-TAATAAAA-ATATTTTATATTAAATCTC-AAATTACTATTTAAAAA-AA
* * * *
128534 TAAAAAT-TTAAAAATATTTTATATTAAGTCTCAAATTACTATTTAAAATAG
1 TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAA
* * ** * *
128585 T-AAAA-AATAAAAATAATATATATTAAATCTTGAATTATTATTT-AAAATA
1 TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAA
*
128634 TAAAAA-AATAAAATATTTTATTTTATATTAAATCACAAATTACTATTTAGAAAATAA
1 TAAAAATAATAAAA-A---TATTTTATATTAAATCTCAAATTACTATTTA-AAAA-AA
* * * *
128691 TAAAAA-ATTTAAAAT-TATTTATATTAAATCAT-GAATTACTAATT--AAAAA
1 TAAAAATAATAAAAATAT-TTTATATTAAATC-TCAAATTACTATTTAAAAAAA
* ** * * ** ** *
128740 TATATTTTATATTAAATGCTGAATTATT-AATCTCGAATTACT-TTTAAAAATAA
1 TAAAAATAATA-AAAATATTTTA-TATTAAATCTCAAATTACTATTTAAAAA-AA
* *
128793 TAAAAAT-AT----ATATTTTATATTAAATCTCGAATTACTTTTTAAAAATAA
1 TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAA-AA
* *
128841 T-AAAA-AAT--ATATATTTTATATTAAATCTCGAATTACTATTTAAAAA
1 TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAA
128887 TAAAAACTTC
Statistics
Matches: 407, Mismatches: 68, Indels: 73
0.74 0.12 0.13
Matches are distributed among these distances:
46 4 0.01
47 24 0.06
48 12 0.03
49 44 0.11
50 52 0.13
51 70 0.17
52 85 0.21
53 63 0.15
54 33 0.08
55 3 0.01
56 5 0.01
57 12 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (52 bp):
TAAAAATAATAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAA
Found at i:128446 original size:96 final size:97
Alignment explanation
Indices: 128237--128545 Score: 261
Period size: 97 Copynumber: 3.1 Consensus size: 97
128227 TAAAAAACTT
** * ** *
128237 TAAAAATATTTTATATTAAATTTTGAATTATTATTTAAATAAAATAAAAAATTTAAAAATATTTT
1 TAAAAATATTAAATATTAAATCTCAAATTATTATTTAAATAAAACAAAAAATTTAAAAATATTTT
* *
128302 ATATTAAATTTTGAATCACTATTTAAAAATAA
66 ATATTAAATATCGAATCACTATTTAAAAATAA
*
128334 TAAAAATATTATATATTAAATCTCAAATTATTATTTAAA-AAAACAAAAAA-TTAAAATATATTT
1 TAAAAATATTAAATATTAAATCTCAAATTATTATTTAAATAAAACAAAAAATTTAAAA-ATATTT
* * *
128397 TATATTAAATATCGGATTACTATTAAAAAAATAAGCA
65 TATATTAAATATCGAATCACTATT-TAAAAAT-A--A
** * ** * * * *
128434 TTTTAAAAATATTTTATTTTAAATCTTGAATTACTAATT-AA-AAAATAAAAAATTAAAAAATAT
1 ---TAAAAATATTAAATATTAAATCTCAAATTATTATTTAAATAAAACAAAAAATT-TAAAA-AT
* * *
128497 ATTTTATATTAAAT-CCTAAATTACTATTTAAAAATAA
61 ATTTTATATTAAATATC-GAATCACTATTTAAAAATAA
128534 TAAAAAT-TTAAA
1 TAAAAATATTAAA
128546 AATATTTTAT
Statistics
Matches: 177, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
95 6 0.03
96 39 0.22
97 48 0.27
98 1 0.01
100 2 0.01
102 13 0.07
103 38 0.21
104 30 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (97 bp):
TAAAAATATTAAATATTAAATCTCAAATTATTATTTAAATAAAACAAAAAATTTAAAAATATTTT
ATATTAAATATCGAATCACTATTTAAAAATAA
Found at i:128539 original size:156 final size:149
Alignment explanation
Indices: 128220--128891 Score: 563
Period size: 156 Copynumber: 4.4 Consensus size: 149
128210 AAGCTTTTTG
* * * *
128220 AAAATACTAAAAAACTTTAAAA-ATATTTTATATTAAATTTTGAATTATTATTTAAATAAAATAA
1 AAAATAAT-AAAAA-TTTAAAATATATTTTATATTAAATATCGAATTACTA-TTAAA-AAAAT--
* * * *
128284 AAAATTTAAAAATATTTTATATTAAATTTTGAATCACTATTTAAAAATAAT--AAAA-ATATTAT
60 AAAATTTAAAAATATTTTATATTAAATCTTGAATTACTATTAAAAAATAATAAAAAATATATTTT
*
128346 ATATTAAATCTCAAATTATTATTTA
125 ATATTAAATCTCAAATTACTATTTA
* * * *
128371 AAAA-AACAAAAAATTAAAATATATTTTATATTAAATATCGGATTACTATTAAAAAAATAAGCAT
1 AAAATAATAAAAATTTAAAATATATTTTATATTAAATATCGAATTACTATTAAAAAAATAA--AA
*
128435 TTTAAAAATATTTTATTTTAAATCTTGAATTACTAATTAAAAAATAAAAAATTAAAAAATATATT
64 TTTAAAAATATTTTATATTAAATCTTGAATTACT-ATTAAAAAAT----AA-TAAAAAATATATT
128500 TTATATTAAATC-CTAAATTACTATTTA
123 TTATATTAAATCTC-AAATTACTATTTA
* * * * * *
128527 AAAATAATAAAAATTTAAAA-ATATTTTATATTAAGTCTCAAATTACTATTTAAAATAGTAAAAA
1 AAAATAATAAAAATTTAAAATATATTTTATATTAAATATCGAATTACTA-TTAAAAAAATAAAAT
* * * * * *
128591 ATAAAAATAATATATATTAAATCTTGAATTATTATTTAAAATATAAAAAAATAAAATATTTTATT
65 TTAAAAATATTTTATATTAAATCTTGAATTACTA-TTAAAA-A-ATAATAA-AAAATA---TATT
*
128656 TTATATTAAATCACAAATTACTATTTA
123 TTATATTAAATCTCAAATTACTATTTA
*
128683 GAAAATAATAAAAAATTTAAAAT-TA-TTTATATTAAATCAT-GAATTACTAATT--AAAAATAT
1 -AAAATAAT-AAAAATTTAAAATATATTTTATATTAAAT-ATCGAATTACT-ATTAAAAAAATAA
* ** ** * *
128743 ATTTTATATTAAATGCTGAATTATT-AATCTCGAATTACT-TTTAAAAATAATAAAAATATATAT
62 AATTTA-A--AAATATTTTA-TATTAAATCTTGAATTACTATTAAAAAATAATAAAAA-ATATAT
* *
128806 TTTATATTAAATCTCGAATTACTTTTTA
122 TTTATATTAAATCTCAAATTACTATTTA
* * *
128834 AAAATAAT-AAAA---AATATATATTTTATATTAAATCTCGAATTACTATT-TAAAAATAAAA
1 AAAATAATAAAAATTTAAAATATATTTTATATTAAATATCGAATTACTATTAAAAAAATAAAA
128892 ACTTCTTAAG
Statistics
Matches: 428, Mismatches: 56, Indels: 78
0.76 0.10 0.14
Matches are distributed among these distances:
145 6 0.01
146 6 0.01
147 65 0.15
148 24 0.06
149 29 0.07
150 9 0.02
151 32 0.07
152 4 0.01
153 12 0.03
154 9 0.02
155 49 0.11
156 92 0.21
157 53 0.12
158 34 0.08
159 4 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (149 bp):
AAAATAATAAAAATTTAAAATATATTTTATATTAAATATCGAATTACTATTAAAAAAATAAAATT
TAAAAATATTTTATATTAAATCTTGAATTACTATTAAAAAATAATAAAAAATATATTTTATATTA
AATCTCAAATTACTATTTA
Found at i:128750 original size:37 final size:35
Alignment explanation
Indices: 128696--128770 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
128686 AATAATAAAA
*
128696 AATTTAAAATTATTTATATTAAAT-CATGAATTACT
1 AATTAAAAATTATTTATATTAAATGC-TGAATTACT
*
128731 AATTAAAAATATATTTTATATTAAATGCTGAATTATT
1 AATTAAAAAT-TA-TTTATATTAAATGCTGAATTACT
128768 AAT
1 AAT
128771 CTCGAATTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 9 0.26
36 2 0.06
37 23 0.66
38 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (35 bp):
AATTAAAAATTATTTATATTAAATGCTGAATTACT
Found at i:128865 original size:49 final size:49
Alignment explanation
Indices: 128794--128889 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
128784 TAAAAATAAT
*
128794 AAAAATATATATTTTATATTAAATCTCGAATTACTTTTTAAAAATAATA
1 AAAAATATATATTTTATATTAAATCTCGAATTACTATTTAAAAATAATA
128843 AAAAATATATATTTTATATTAAATCTCGAATTACTATTTAAAAATAA
1 AAAAATATATATTTTATATTAAATCTCGAATTACTATTTAAAAATAA
128890 AAACTTCTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (49 bp):
AAAAATATATATTTTATATTAAATCTCGAATTACTATTTAAAAATAATA
Found at i:128880 original size:25 final size:25
Alignment explanation
Indices: 128803--128881 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
128793 TAAAAATATA
128803 TATTTTATATTAAATCTCGAATTAC
1 TATTTTATATTAAATCTCGAATTAC
** ****
128828 T-TTTTA-AAAATAATAAAAAATATA-
1 TATTTTATATTA-AATCTCGAAT-TAC
128852 TATTTTATATTAAATCTCGAATTAC
1 TATTTTATATTAAATCTCGAATTAC
128877 TATTT
1 TATTT
128882 AAAAATAAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
23 2 0.05
24 14 0.38
25 19 0.51
26 2 0.05
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (25 bp):
TATTTTATATTAAATCTCGAATTAC
Found at i:128890 original size:25 final size:25
Alignment explanation
Indices: 128813--128890 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
128803 TATTTTATAT
*
128813 TAAATCTCGAATTACTTTTTAAAAA
1 TAAATCTCGAATTACTATTTAAAAA
**** * * *
128838 T-AATAAAAAATATA-TATTTTATAT
1 TAAATCTCGAAT-TACTATTTAAAAA
128862 TAAATCTCGAATTACTATTTAAAAA
1 TAAATCTCGAATTACTATTTAAAAA
128887 TAAA
1 TAAA
128891 AACTTCTTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
24 15 0.43
25 20 0.57
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.40
Consensus pattern (25 bp):
TAAATCTCGAATTACTATTTAAAAA
Found at i:129212 original size:13 final size:13
Alignment explanation
Indices: 129194--129218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
129184 ATATTGCTTA
129194 GTATCGATACATT
1 GTATCGATACATT
129207 GTATCGATACAT
1 GTATCGATACAT
129219 GTTCATAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:129231 original size:19 final size:20
Alignment explanation
Indices: 129207--129258 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
129197 TCGATACATT
* *
129207 GTATCGATACATGTT-CATA
1 GTATCGATACATGTTGAAAA
129226 GTATCGATACACT-TTGAAAA
1 GTATCGATACA-TGTTGAAAA
129246 GTATCGATACATG
1 GTATCGATACATG
129259 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGAAAA
Found at i:130219 original size:22 final size:22
Alignment explanation
Indices: 130193--130262 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
130183 AGTTAAACTT
*
130193 ATATGTACATTTAATTATAATT
1 ATATGTACATTTAATTATAATC
*
130215 ATATGTACATATT-GTTATAATC
1 ATATGTACAT-TTAATTATAATC
* *
130237 ATATATACATTAAATTATAATC
1 ATATGTACATTTAATTATAATC
130259 ATAT
1 ATAT
130263 ATAAATATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.02
22 38 0.93
23 2 0.05
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATGTACATTTAATTATAATC
Found at i:130852 original size:51 final size:51
Alignment explanation
Indices: 130793--130905 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
130783 ACAGTAAATG
*
130793 TATCGATACATTCTGTTTTTTTACCTAGATGTATCAATACATTTTTCAATA
1 TATCGATACATTCTGTGTTTTTACCTAGATGTATCAATACATTTTTCAATA
*
130844 TATCGATACATTCTGTGTTTTTACCTAGATGTATCGATACATTTTTCAATA
1 TATCGATACATTCTGTGTTTTTACCTAGATGTATCAATACATTTTTCAATA
*
130895 TATCAATACAT
1 TATCGATACAT
130906 CTAGTTAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (51 bp):
TATCGATACATTCTGTGTTTTTACCTAGATGTATCAATACATTTTTCAATA
Found at i:134647 original size:152 final size:150
Alignment explanation
Indices: 134309--134714 Score: 386
Period size: 152 Copynumber: 2.7 Consensus size: 150
134299 TAGGTAAAAA
* * * * * * ** *
134309 ATACACAAATCAAGAAAGAGAATTGATCATTCTATAAAAAAAACCGACTCTTTAAACTAAAAATA
1 ATACACAAATCAAGAAAGAGAATTGACCATTC-ATGAAAAGAATCGAATCCTTAGGCCAAAAATA
* * * * * *
134374 TCATTTTTAGTATATGTATATGTAATTAAAGT-TATATGTACAAGTTGTTATAGTCATATATACA
65 TCATTTTTACTATATGTAAATTTAGTTAAAGTATATATGTACAAGCTATTATAGTCATATATACA
* * *
134438 TTCAATTATAGTTATATATAC
130 TCCAATTAGAGTAATATATAC
* * ** * * *
134459 ATACACAAATCAAGATAGAAAACTAAACCCTCCATGAAAGGAATCGAATCCTTAGGCCAAAAATA
1 ATACACAAATCAAGAAAGAGAA-TTGACCATTCATGAAAAGAATCGAATCCTTAGGCCAAAAATA
* * * * * *
134524 TCATTTTTACTCTATGTAAATTTAGTTAAAGTCATATATGTCCATGCTATTATAGTCCTATGTAT
65 TCATTTTTACTATATGTAAATTTAGTTAAAGT-ATATATGTACAAGCTATTATAGTCATATATAC
**
134589 ATCCGGTTAGAGTAATATATAC
129 ATCCAATTAGAGTAATATATAC
* * *
134611 ATACACAAATCAAGAAAGAGAATTGACCTATTCATGAAAAG-ATCTAA-CTCTGTAGGACAAATA
1 ATACACAAATCAAGAAAGAGAATTGACC-ATTCATGAAAAGAATCGAATC-CT-TAGGCCAAAAA
* *
134674 TATCATTTTTACTATATGTACATTTAGTTAGAGTTATATAT
63 TATCATTTTTACTATATGTAAATTTAGTTAAAG-TATATAT
134715 AGGGAGAGCA
Statistics
Matches: 203, Mismatches: 46, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
150 71 0.35
151 16 0.08
152 115 0.57
153 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (150 bp):
ATACACAAATCAAGAAAGAGAATTGACCATTCATGAAAAGAATCGAATCCTTAGGCCAAAAATAT
CATTTTTACTATATGTAAATTTAGTTAAAGTATATATGTACAAGCTATTATAGTCATATATACAT
CCAATTAGAGTAATATATAC
Found at i:135003 original size:15 final size:15
Alignment explanation
Indices: 134983--135019 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
134973 TACCCAATTT
**
134983 AAAAAAAGCTCAATA
1 AAAAAAAGCAAAATA
134998 AAAAAAAGCAAAATA
1 AAAAAAAGCAAAATA
135013 AAAAAAA
1 AAAAAAA
135020 TCATAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.78, C:0.08, G:0.05, T:0.08
Consensus pattern (15 bp):
AAAAAAAGCAAAATA
Found at i:135956 original size:22 final size:22
Alignment explanation
Indices: 135931--135983 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
135921 TGCTTTACCC
*
135931 TAATCATATGTATATTTAATTA
1 TAATCATATGTATATTCAATTA
*
135953 TAATTATATGTATATTCAATTA
1 TAATCATATGTATATTCAATTA
135975 TAATCATAT
1 TAATCATAT
135984 ATTATTTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATCATATGTATATTCAATTA
Found at i:144471 original size:32 final size:33
Alignment explanation
Indices: 144434--144510 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
144424 TTCTAAAGCT
* *
144434 ATTAACTTTGATTAT-AGTTTTATACACTTTTG
1 ATTAACTTTGATTATAAATGTTATACACTTTTG
* *
144466 GTTAACTTTGATTATAAATGTTATATACTTTTG
1 ATTAACTTTGATTATAAATGTTATACACTTTTG
*
144499 ATTAACTCTGAT
1 ATTAACTTTGAT
144511 CAACTTTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
32 14 0.37
33 24 0.63
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (33 bp):
ATTAACTTTGATTATAAATGTTATACACTTTTG
Found at i:145565 original size:2 final size:2
Alignment explanation
Indices: 145558--145589 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
145548 GCCAAGTCCC
145558 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
145590 AAAAGATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:146538 original size:18 final size:18
Alignment explanation
Indices: 146504--146600 Score: 51
Period size: 18 Copynumber: 5.3 Consensus size: 18
146494 TTAAAAATTA
*
146504 TATATAAAATATT-ATATT
1 TATAT-AAATTTTAATATT
146522 TATATAAATTTTAATATAT
1 TATATAAATTTTAATAT-T
*
146541 TA-AAAAATTTTATATAAATT
1 TATATAAATTTTA-AT--ATT
* * *
146561 TTTACACA-TTTATATATT
1 TATATAAATTTTA-ATATT
*
146579 TATATTAATTTT-ATATT
1 TATATAAATTTTAATATT
146596 T-TATA
1 TATATA
146601 TTTTATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
16 3 0.05
17 12 0.19
18 25 0.40
19 8 0.13
20 9 0.15
21 5 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATAAATTTTAATATT
Found at i:146579 original size:29 final size:28
Alignment explanation
Indices: 146516--146591 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 28
146506 TATAAAATAT
* *
146516 TATATTTATATAAATTTTAATATATTAA
1 TATATTTATATAAATTTTAACACATTAA
* * * *
146544 AAAATTTTATATAAATTTTTACACATTTA
1 TATA-TTTATATAAATTTTAACACATTAA
*
146573 TATATTTATATTAATTTTA
1 TATATTTATATAAATTTTA
146592 TATTTTATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (28 bp):
TATATTTATATAAATTTTAACACATTAA
Found at i:146584 original size:6 final size:6
Alignment explanation
Indices: 146573--146647 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
146563 TACACATTTA
* * *
146573 TATATT TATATT AAT-TT TATATTT TATATT T-TATT T-TAAT TATTTT
1 TATATT TATATT TATATT TATA-TT TATATT TATATT TATATT TATATT
* *
146619 TATA-T TATATT TAAATT ATATAAT TATAT
1 TATATT TATATT TATATT -TATATT TATAT
146648 CATATTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
5 18 0.33
6 26 0.48
7 10 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:146631 original size:11 final size:11
Alignment explanation
Indices: 146573--146655 Score: 68
Period size: 11 Copynumber: 7.7 Consensus size: 11
146563 TACACATTTA
146573 TATATTTATAT
1 TATATTTATAT
146584 TA-ATTT-TA-
1 TATATTTATAT
146592 TAT-TTTATAT
1 TATATTTATAT
*
146602 TTTATTT-TAAT
1 TATATTTAT-AT
*
146613 TATTTTTATAT
1 TATATTTATAT
*
146624 TATATTTAAAT
1 TATATTTATAT
146635 TATATAATTATAT
1 TATAT--TTATAT
*
146648 CATATTTA
1 TATATTTA
146656 AAACAACGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
8 5 0.09
9 4 0.07
10 7 0.12
11 31 0.54
12 1 0.02
13 9 0.16
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (11 bp):
TATATTTATAT
Found at i:147482 original size:2 final size:2
Alignment explanation
Indices: 147475--147514 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
147465 CAACCCCATA
147475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
147515 GTATGTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147619 original size:5 final size:5
Alignment explanation
Indices: 147609--147636 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
147599 GCTTATCACC
147609 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
147637 TTATTGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:148110 original size:23 final size:22
Alignment explanation
Indices: 148066--148110 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
148056 TTTTATTATT
* *
148066 TTATAAATTTTTAAATATATAA
1 TTATAAATTTTCAAATAAATAA
148088 TTATAAATTTTACAAATAAATAA
1 TTATAAATTTT-CAAATAAATAA
148111 AACTAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATAAATTTTCAAATAAATAA
Found at i:149497 original size:2 final size:2
Alignment explanation
Indices: 149490--149525 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
149480 ACAAAACCTA
149490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
149526 GCACCAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:150648 original size:33 final size:33
Alignment explanation
Indices: 150606--150674 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
150596 TAGCCGTAAG
*
150606 CAATGTATCGATACAAT-T-CATCATGTATCGATA
1 CAATGTATCGACACAATGTGC--CATGTATCGATA
*
150639 CAATGTATCGACATAATGTGCCATGTATCGATA
1 CAATGTATCGACACAATGTGCCATGTATCGATA
150672 CAA
1 CAA
150675 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
CAATGTATCGACACAATGTGCCATGTATCGATA
Found at i:151360 original size:21 final size:23
Alignment explanation
Indices: 151334--151377 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
151324 GGCTCTCGTT
*
151334 AAAAAATTT-T-CCCTTTGATAA
1 AAAAAATTTCTCCCCCTTGATAA
151355 AAAAAATTTCTCCCCCTTGATAA
1 AAAAAATTTCTCCCCCTTGATAA
151378 TAGGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 1 0.05
23 10 0.50
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (23 bp):
AAAAAATTTCTCCCCCTTGATAA
Found at i:156076 original size:51 final size:50
Alignment explanation
Indices: 156003--156232 Score: 216
Period size: 51 Copynumber: 4.5 Consensus size: 50
155993 GTATCCTCTC
* * *
156003 GAAA-AAAATAGGGTTAGAGTATCCCTGATTAT-AGAAAATCGGTATTTT-
1 GAAATAAAATCGGGTTGGAGTATCCCTGATTGTGAG-AAATCGGTATTTTA
* **
156051 GAAAATAAAATCAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 G-AAATAAAATC-GGGTTGGAGTATCCCTGATTGTGAGAAATCGGTATTTTA
* * * * *
156103 GAAATAAAGTCGTGGTTGGAGTATCCCCGATTGTGAGAATTTGGTGTTTTA
1 GAAATAAAATCG-GGTTGGAGTATCCCTGATTGTGAGAAATCGGTATTTTA
* ** * * *
156154 GAAATAAAACCGGAGTTTAAATATCTCTGATTGTG-GAAAATTGGTATTTTA
1 GAAATAAAATCGG-GTTGGAGTATCCCTGATTGTGAG-AAATCGGTATTTTA
156205 GAAATAAAATCGGAGTTGGAGTATCCCT
1 GAAATAAAATCGG-GTTGGAGTATCCCT
156233 TCGGAAATAA
Statistics
Matches: 148, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 8 0.05
51 133 0.90
52 3 0.02
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (50 bp):
GAAATAAAATCGGGTTGGAGTATCCCTGATTGTGAGAAATCGGTATTTTA
Found at i:156491 original size:79 final size:80
Alignment explanation
Indices: 156346--156498 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 80
156336 CCCCGATGAC
* * * **
156346 ATAACGGGGTTGGAGTACTCCCCGATTATGAAAAATCAATATTTTAGATATAAAGCCGGGGTTGG
1 ATAACGAGGTTGGAGTACTCCCCGATTAAGAAAAATCAATATTTTAGAAATAAAGCCGGGAATGG
156411 AGTACCCCCTCGGAA
66 AGTACCCCCTCGGAA
** * * *
156426 ATAACGAGGTTGGAGTA-TCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAA-CCGGGAATG
1 ATAACGAGGTTGGAGTACTCCCCGATTAAGAAAAATCAATATTTTAGAAAT-AAAGCCGGGAATG
*
156489 GAGTATCCCC
65 GAGTACCCCC
156499 GAGATAAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 43 0.70
80 18 0.30
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (80 bp):
ATAACGAGGTTGGAGTACTCCCCGATTAAGAAAAATCAATATTTTAGAAATAAAGCCGGGAATGG
AGTACCCCCTCGGAA
Found at i:159019 original size:79 final size:79
Alignment explanation
Indices: 158927--159102 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 79
158917 AAAATAAAAT
* *
158927 CGAGGTTAGAGTAT-CCCTTCAGAAATGACAGGGTTGGAGTAT-CCCTAATTGTGAAAAATTGAT
1 CGAGGTTAGAGTATCCCCTT-AGAAATAACAGGGTTGGAGTATCCCCT-ATTATGAAAAATTGAT
158990 GATTTAGAAATAAGGC
64 GATTTAGAAATAAGGC
* * *
159006 CGAGGTT-GAAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCTATTATGAAAAATTGGTG
1 CGAGGTTAG-AGTATCCCCTTAGAAATAACAGGGTTGGAGTATCCCCTATTATGAAAAATTGATG
* * ***
159070 TTTTGGAAATAAAAT
65 ATTTAGAAATAAGGC
*
159085 CGAAGTTAGAGTATCCCC
1 CGAGGTTAGAGTATCCCC
159103 GATTGTGGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 71 0.87
80 10 0.12
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
CGAGGTTAGAGTATCCCCTTAGAAATAACAGGGTTGGAGTATCCCCTATTATGAAAAATTGATGA
TTTAGAAATAAGGC
Found at i:159102 original size:51 final size:51
Alignment explanation
Indices: 159042--159152 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
159032 AACGGGGTTG
* * * *
159042 GAGTATCCCCTATTATGAAAAATTGGTGTTTTGGAAATAAAATCGAAGTTA
1 GAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGAAGTTA
* * * *
159093 GAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAACCGAGGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGAAGTTA
159144 GAGTATCCC
1 GAGTATCCC
159153 TTCGGAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGAAGTTA
Found at i:159115 original size:130 final size:127
Alignment explanation
Indices: 158963--159206 Score: 348
Period size: 130 Copynumber: 1.9 Consensus size: 127
158953 GACAGGGTTG
* **
158963 GAGTATCCCTAATTGTGAAAAATTGATGA-TTTAGAAATAAGGCCGAGGTTGAAGTATCCCCTT-
1 GAGTATCCCCAATTGTGAAAAATTGAT-ATTTTAGAAATAAAACCGAGGTTGAAGTAT-CCCTTC
* *
159026 GGAAATAACGGGGTTGGAGTATCCCCTATTATGAAAAATTGGTGTTTTGGAAATAAAATCGAAGT
64 GGAAATAACGGGGTTGGAGTATCCCC---GATGAAAAATTGATGTTTTGGAAATAAAATCGAAGT
159091 TA
126 TA
* * * *
159093 GAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAACCGAGGTTGGAGTATCCCTTCGG
1 GAGTATCCCCAATTGTGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGAAGTATCCCTTCGG
159158 AAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTGGAAAT
66 AAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTGGAAAT
159207 GAAACCGGGA
Statistics
Matches: 103, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
127 23 0.22
129 6 0.06
130 74 0.72
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (127 bp):
GAGTATCCCCAATTGTGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGAAGTATCCCTTCGG
AAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTGGAAATAAAATCGAAGTTA
Found at i:159261 original size:130 final size:127
Alignment explanation
Indices: 158976--159261 Score: 287
Period size: 130 Copynumber: 2.2 Consensus size: 127
158966 TATCCCTAAT
* * **
158976 TGTGAAAAATTGATGATTT-AGAAATAAGGCCGAGGTTGAAGTATCCCCTTGGAAATAACGGGGT
1 TGTGAAAAATTGA-AATTTCAAAAATAAAACCGAGGTTGAAGTATCCCCTTGGAAATAACGGGGT
* * *
159040 TGGAGTATCCCCTATTATGAAAAATTGGTGTTTTGGAAATAAAATCGAAGTTAGAGTATCCCCGA
65 TGGAGTATCCCC--TGATGAAAAATTGATGTTTTGGAAATAAAACCGAAGTTAGAGTATCCCCGA
* ** * * *
159105 TTGTGGAAAATTGGTATTTTAGAAATAAAACCGAGGTTGGAGTAT-CCCTTCGGAAATAACGGGG
1 -TGTGAAAAATTGAAATTTCAAAAATAAAACCGAGGTTGAAGTATCCCCTT-GGAAATAACGGGG
* *
159169 TTGGAGTATCCCC-GATGAAAAATTGATGTTTTGGAAATGAAACCG-GGATT-GAAGTATCCCCG
64 TTGGAGTATCCCCTGATGAAAAATTGATGTTTTGGAAATAAAACCGAAG-TTAG-AGTATCCCCG
159231 A
127 A
159232 -GATGAAAAATCTAGAAATTTAACAAAAATA
1 TG-TGAAAAAT-T-GAAATTT--CAAAAATA
159262 CTTTTAGGTT
Statistics
Matches: 131, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
125 1 0.01
126 9 0.07
127 42 0.32
128 5 0.04
129 9 0.07
130 65 0.50
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (127 bp):
TGTGAAAAATTGAAATTTCAAAAATAAAACCGAGGTTGAAGTATCCCCTTGGAAATAACGGGGTT
GGAGTATCCCCTGATGAAAAATTGATGTTTTGGAAATAAAACCGAAGTTAGAGTATCCCCGA
Found at i:160227 original size:19 final size:19
Alignment explanation
Indices: 160203--160241 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
160193 GAATCCAGAT
*
160203 CTGAAGTTTTTCTATTTCC
1 CTGAAGTTTTGCTATTTCC
160222 CTGAAGTTTTGCTATTTCC
1 CTGAAGTTTTGCTATTTCC
160241 C
1 C
160242 CAAGATTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (19 bp):
CTGAAGTTTTGCTATTTCC
Found at i:161574 original size:20 final size:19
Alignment explanation
Indices: 161549--161642 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 19
161539 AAAATGCTTG
* *
161549 AATGTATCGATACATTGTAA
1 AATGTATCGATACA-AGGAA
* * *
161569 AATGTATCAATAGAAGGAGC
1 AATGTATCGATACAAGGA-A
161589 AATGTATCGATACAAGGAA
1 AATGTATCGATACAAGGAA
* *
161608 TAATGTATCAATACAATGCAA
1 -AATGTATCGATACAA-GGAA
*
161629 AATGTATCGCTACA
1 AATGTATCGATACA
161643 TCTGGGTAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
19 2 0.03
20 54 0.92
21 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAAGGAA
Found at i:161633 original size:40 final size:40
Alignment explanation
Indices: 161549--161643 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
161539 AAAATGCTTG
* * * * *
161549 AATGTATCGATACATTGTAAAATGTATCAATAGAAGGAGC
1 AATGTATCGATACATAGGAAAATGTATCAATACAAGCAGA
161589 AATGTATCGATACA-AGGAATAATGTATCAATACAATGCA-A
1 AATGTATCGATACATAGGAA-AATGTATCAATACAA-GCAGA
*
161629 AATGTATCGCTACAT
1 AATGTATCGATACAT
161644 CTGGGTAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
39 3 0.07
40 41 0.89
41 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (40 bp):
AATGTATCGATACATAGGAAAATGTATCAATACAAGCAGA
Found at i:162493 original size:42 final size:43
Alignment explanation
Indices: 162396--162506 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
162386 TGAAAAAGAG
* * *
162396 TACATTCCTGCT-TTTCGAGGATAAAGGAAAAAAAGAAAATGAAA
1 TACA-TCCTGCTCTTT-GAGGACAAAGAAAAAAAAGAAAAGGAAA
* * *
162440 TACGTCTTGCTCTTTGAGGACAAA-AAAAAAAAGAAAAGGAAG
1 TACATCCTGCTCTTTGAGGACAAAGAAAAAAAAGAAAAGGAAA
*
162482 TGCATCCTGCTCTTTGAGGACAAAG
1 TACATCCTGCTCTTTGAGGACAAAG
162507 GGGAAAAGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 36 0.64
43 14 0.25
44 6 0.11
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (43 bp):
TACATCCTGCTCTTTGAGGACAAAGAAAAAAAAGAAAAGGAAA
Found at i:162590 original size:88 final size:85
Alignment explanation
Indices: 162449--162649 Score: 228
Period size: 88 Copynumber: 2.3 Consensus size: 85
162439 ATACGTCTTG
* * * * *
162449 CTCTTTGAGGACAAAAAAAAAAAGAAAAGGAAGTGCATCCTGCTCTTTGAGGAC-AAAGGGGAAA
1 CTCTTTGAGGAC-AAAAAAAGAGGAAAAGAAAATGCATCCTGCTCTTTGAGGACAAAAAGGG-AA
**
162513 AGAAGGGCATAGAACA-TGTCCTA
64 AGAAGGAAAT-GAA-AGTGTCCTA
* * *
162536 CTCTTTGAGGACAAAGGAAAAGAGGAAAATAAAATGCGTCCTGCTTTTTGAGGACAAAAAGGGAA
1 CTCTTTGAGGACAAA--AAAAGAGGAAAAGAAAATGCATCCTGCTCTTTGAGGACAAAAAGGGAA
162601 AGAAGGAAATGAAATGTGTCCTA
64 AGAAGGAAATGAAA-GTGTCCTA
162624 CTCTTTGAGGACAAAAAAAG-GGAAAA
1 CTCTTTGAGGACAAAAAAAGAGGAAAA
162650 AAGGGAATGG
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
85 6 0.06
86 9 0.09
87 15 0.15
88 63 0.64
89 6 0.06
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.18
Consensus pattern (85 bp):
CTCTTTGAGGACAAAAAAAGAGGAAAAGAAAATGCATCCTGCTCTTTGAGGACAAAAAGGGAAAG
AAGGAAATGAAAGTGTCCTA
Found at i:162667 original size:47 final size:45
Alignment explanation
Indices: 162418--162726 Score: 185
Period size: 45 Copynumber: 7.0 Consensus size: 45
162408 TTTCGAGGAT
* * *** *
162418 AAAGGAAAAAAAGAAAATGAAATACGTCTTGCTCTTTGAGGACAA
1 AAAGGGAAAAAAGGAAATGAAACGTGTCCTGCTCTTTGAGGACAA
* *
162463 AAA---AAAAAA-GAAAAGGAA-GTGCATCCTGCTCTTTGAGGAC-A
1 AAAGGGAAAAAAGGAAATGAAACGTG--TCCTGCTCTTTGAGGACAA
* ** * *
162504 AAGGGGAAAAGAAGGGCAT-AGAACATGTCCTACTCTTTGAGGAC--
1 AAAGGGAAAA-AAGGAAATGA-AACGTGTCCTGCTCTTTGAGGACAA
* * * * *
162548 AAA-GGAAAAGAGGAAAATAAAATGCGTCCTGCTTTTTGAGGACAA
1 AAAGGGAAAAAAGG-AAATGAAACGTGTCCTGCTCTTTGAGGACAA
* * *
162593 AAAGGGAAAGAAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAAA
1 AAAGGGAAAAAAGGAAATGAAACGTGTCCTGCTCTTTGAGGAC--AA
* * * *
162640 AAAGGGAAAAAAGGGAATGGAACGTGTCCTGCTCTTCGAGGGC--
1 AAAGGGAAAAAAGGAAATGAAACGTGTCCTGCTCTTTGAGGACAA
* ** *
162683 AAGGGGAAAAAAGGAAAAT-AAGGTGTGTCCTACTCTTTGAGGAC
1 AAAGGGAAAAAAGG-AAATGAA-ACGTGTCCTGCTCTTTGAGGAC
162727 TGGGAAGTGC
Statistics
Matches: 203, Mismatches: 43, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.00
41 9 0.04
42 25 0.12
43 40 0.20
44 27 0.13
45 49 0.24
46 12 0.06
47 40 0.20
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.19
Consensus pattern (45 bp):
AAAGGGAAAAAAGGAAATGAAACGTGTCCTGCTCTTTGAGGACAA
Found at i:162798 original size:61 final size:61
Alignment explanation
Indices: 162710--163342 Score: 677
Period size: 61 Copynumber: 10.3 Consensus size: 61
162700 ATAAGGTGTG
* * *
162710 TCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* * * *
162771 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGGAAAAGACG
1 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* * * * * *
162832 TCATGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTCT-AAGAGGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* * * * *
162893 TCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTT-AAAGGGAAAAGACG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* * * * ** *
162954 TCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGATTTGAAAAAAAAAAAGGTA
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAGGAAAAGGCA
* * * **
163017 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAA-AAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAGGAAAAGGCA
* * **
163078 TCCTGCTCTTTAAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* *
163140 TCCTGCTCCTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTA
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* * * ** * * *
163201 TCCTGCTCCTTGAGGACTAAAGGTGCAACTAACTCATGTGGGCTTTGAAAAGAAAAAAGCA
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
* * * *
163262 TCCTGCTCTTTGAGGACTAAAGCATGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAG-A
1 TCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
163323 TGTCCTGCTCTTTGAGGACT
1 --TCCTGCTCTTTGAGGACT
163343 GGAAGGGCTA
Statistics
Matches: 499, Mismatches: 63, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
60 2 0.00
61 340 0.68
62 114 0.23
63 43 0.09
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCA
Found at i:163167 original size:246 final size:245
Alignment explanation
Indices: 162731--163342 Score: 759
Period size: 246 Copynumber: 2.5 Consensus size: 245
162721 GAGGACTGGG
* ** * * *
162731 AAGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAGAAGGCATCCTACTCTTTGAGGACTAGAAG
1 AAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAAAGGCATCCTGCTCTTTGAGGACTA-AAA
* * ** * * * ** *
162794 GTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGACGTCATGCTCTTTGAGGATTGGAAGGTGC
65 GTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGATGC
* * * *
162859 CACCAACTTGTGTGGGCTCTAAGAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAGGGTGCCACC
130 CACCAACTTGTGTGGGCTCTAAAAGGAAAAAGCATCCTGCTCCTTGAGGACTGAAAGGTGCCACC
* * *
162924 AACTTGTGTGGGCTTT-AAAGGGAAAAGACGTCCTGCTCTTTAAGGACTAAA
195 AACTTGTGTGGGCTTTAAAAAGGAAAAGACATCCTGCTCCTTAAGGACT-AA
* *
162975 AAGTGCCACCAACTCGTGTGGGATTTGAAAAAAAAAAAGGTATCCTGCTCTTTGAGGACTAAAAG
1 AAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* *
163040 TGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAAGGTGTCCTGCTCTTTAAGGACTAAAAGATGC
66 TGCCACCAACTCGTGTGGGCTTT-AAAAAAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGATGC
* * **
163105 CACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCCTTGAGGACT-AAAGGTGCCAC
130 CACCAACTTGTGTGGGCTCT-AAAAGGAAAAAGCATCCTGCTCCTTGAGGACTGAAAGGTGCCAC
** *
163169 CAACTTGTGTGGGCTTTAAAAAGGAAAAGGTATCCTGCTCCTTGAGGACTAA
194 CAACTTGTGTGGGCTTTAAAAAGGAAAAGACATCCTGCTCCTTAAGGACTAA
* * * * *
163221 AGGTGCAACTAACTCATGTGGGCTTTGAAAAGAAAAAA-GCATCCTGCTCTTTGAGGACT-AAAG
1 AAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
163284 CATGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGATGTCCTGCTCTTTGAGGACT
66 --TGCCACCAACTCGTGTGGGCTTT-AAAA-AAAAAAGATGTCCTGCTCTTTGAGGACT
163343 GGAAGGGCTA
Statistics
Matches: 316, Mismatches: 44, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
244 28 0.09
245 44 0.14
246 165 0.52
247 79 0.25
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (245 bp):
AAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
TGCCACCAACTCGTGTGGGCTTTAAAAAAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGATGCC
ACCAACTTGTGTGGGCTCTAAAAGGAAAAAGCATCCTGCTCCTTGAGGACTGAAAGGTGCCACCA
ACTTGTGTGGGCTTTAAAAAGGAAAAGACATCCTGCTCCTTAAGGACTAA
Found at i:169722 original size:51 final size:52
Alignment explanation
Indices: 169662--169778 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 52
169652 AAATAACGGG
* * *
169662 GTTGGAGTATCCCCT-ATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCTGATTATGAAAAATTAGTATTTTGGAAATAAAACCAGA
* * *
169713 GTTGGAGTAT-CCCTGATTATGAAAAATTGGTATTTTGGAAATAAAACCGGG
1 GTTGGAGTATCCCCTGATTATGAAAAATTAGTATTTTGGAAATAAAACCAGA
169764 GTTGGAGTATCCCCT
1 GTTGGAGTATCCCCT
169779 CGGAAATAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 4 0.07
51 50 0.86
52 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCTGATTATGAAAAATTAGTATTTTGGAAATAAAACCAGA
Found at i:169755 original size:130 final size:128
Alignment explanation
Indices: 169582--169830 Score: 360
Period size: 130 Copynumber: 1.9 Consensus size: 128
169572 AAATGACAGG
**
169582 GTTGGAGTATCCCGTGATTATGAAAAATTGATGATTTAGAAATAAGGCCGGGGTTGAAGTATCCC
1 GTTGGAGTATCCCGTGATTATGAAAAATTGATGATTTAGAAATAAAACCGGGGTTGAAGTATCCC
* *
169647 CTTGGAAATAACGGGGTTGGAGTATCCCCTATTGTGAAAAATT-AGTGTTTTGGAAATAAAATCA
66 CTCGGAAATAACGGGGTTGGAGTAT-CCCTA--ATGAAAAATTGA-TGTTTTGGAAATAAAATCA
169711 GA
127 GA
* * *
169713 GTTGGAGTATCCC-TGATTATGAAAAATTGGT-ATTTTGGAAATAAAACCGGGGTTGGAGTATCC
1 GTTGGAGTATCCCGTGATTATGAAAAATTGATGA-TTTAGAAATAAAACCGGGGTTGAAGTATCC
*
169776 CCTCGGAAATAATGGGGTTGGAGTATCCCTAATGAAAAATTGATGTTTTGGAAAT
65 CCTCGGAAATAACGGGGTTGGAGTATCCCTAATGAAAAATTGATGTTTTGGAAAT
169831 GAAACCGGGA
Statistics
Matches: 108, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
127 21 0.19
128 1 0.01
129 6 0.06
130 67 0.62
131 13 0.12
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (128 bp):
GTTGGAGTATCCCGTGATTATGAAAAATTGATGATTTAGAAATAAAACCGGGGTTGAAGTATCCC
CTCGGAAATAACGGGGTTGGAGTATCCCTAATGAAAAATTGATGTTTTGGAAATAAAATCAGA
Found at i:169885 original size:130 final size:129
Alignment explanation
Indices: 169582--169885 Score: 278
Period size: 130 Copynumber: 2.3 Consensus size: 129
169572 AAATGACAGG
* * * * * **
169582 GTTGGAGTATCCCGTGATTATGAAAAATTGATGATTT-AGAAATAAGGCCGGGGTTGAAGTATCC
1 GTTGAAGTATCCC-TGATGATAAAAAATTGA-AATTTCAAAAATAAAACCGGGGTTGAAGTATCC
* * *
169646 CCTTGGAAATAACGGGGTTGGAGTATCCCCTATTGTGAAAAATTAGTGTTTTGGAAATAAAATCA
64 CCTCGGAAATAACGGGGTTGGAGTATCCCCTA-TATGAAAAATTAGTGTTTTGGAAATAAAACCA
169711 GA
128 GA
* * * ** *** *
169713 GTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGAAGTATCCCTGATGATAAAAAATTGAAATTTCAAAAATAAAACCGGGGTTGAAGTATCCCC
* * *
169778 TCGGAAATAATGGGGTTGGAGTAT-CCCTA-ATGAAAAATT-GATGTTTTGGAAATGAAACC-GG
66 TCGGAAATAACGGGGTTGGAGTATCCCCTATATGAAAAATTAG-TGTTTTGGAAATAAAACCAGA
*
169839 GATTGAAGTATCTCTGA-GATAAAAAATCTAGAAATTTAACAAAAATA
1 G-TTGAAGTATCCCTGATGATAAAAAAT-T-GAAATTT--CAAAAATA
169886 CTTTTAGGTT
Statistics
Matches: 145, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
126 11 0.08
127 39 0.27
128 5 0.03
129 9 0.06
130 68 0.47
131 13 0.09
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (129 bp):
GTTGAAGTATCCCTGATGATAAAAAATTGAAATTTCAAAAATAAAACCGGGGTTGAAGTATCCCC
TCGGAAATAACGGGGTTGGAGTATCCCCTATATGAAAAATTAGTGTTTTGGAAATAAAACCAGA
Found at i:172181 original size:20 final size:20
Alignment explanation
Indices: 172156--172243 Score: 109
Period size: 20 Copynumber: 4.8 Consensus size: 20
172146 AAAATGCTTA
*
172156 AATGTATCGATACAATAAGC
1 AATGTATCGATACAATGAGC
172176 AATG--T--AT-CAAT-A-C
1 AATGTATCGATACAATGAGC
*
172189 AATGTATCGATACAAGGAGC
1 AATGTATCGATACAATGAGC
172209 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
172229 AATGTATCGATACAA
1 AATGTATCGATACAA
172244 ATTGTGAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
13 5 0.08
14 1 0.02
15 5 0.08
16 2 0.03
17 2 0.03
18 4 0.07
19 1 0.02
20 39 0.66
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:172198 original size:33 final size:33
Alignment explanation
Indices: 172156--172225 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
172146 AAAATGCTTA
*
172156 AATGTATCGATACAATAAGCAATGTATCAATAC
1 AATGTATCGATACAAGAAGCAATGTATCAATAC
* *
172189 AATGTATCGATACAAGGAGCAATGTATCGATAC
1 AATGTATCGATACAAGAAGCAATGTATCAATAC
172222 AATG
1 AATG
172226 AGCAATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (33 bp):
AATGTATCGATACAAGAAGCAATGTATCAATAC
Found at i:173071 original size:50 final size:50
Alignment explanation
Indices: 172975--173071 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
172965 CTTTTTGATT
* * * * *
172975 TTGGTCTAGTTTTCTCCCTCTCTTTGATTTTGGTCTGGGAATAAAGGTTG
1 TTGGTCTAGTTTTCTCCCTCTCTTTGATATTGATCTAGCAAAAAAGGTTG
* *
173025 TTGGTCTAGTTTTCTCCCTCTCTTTGCTATT-ATTTAGCAAGAAAAGG
1 TTGGTCTAGTTTTCTCCCTCTCTTTGATATTGATCTAGCAA-AAAAGG
173072 ATGAAAGGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 5 0.13
50 34 0.87
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (50 bp):
TTGGTCTAGTTTTCTCCCTCTCTTTGATATTGATCTAGCAAAAAAGGTTG
Found at i:173215 original size:262 final size:262
Alignment explanation
Indices: 172750--173238 Score: 978
Period size: 262 Copynumber: 1.9 Consensus size: 262
172740 CTTGTTTCTC
172750 GGAATAAAGGTTGTTGGTCTAGTTTTCTCCCTCTCTTTGCTATTATTTAGCAAGAAAAGGATGAA
1 GGAATAAAGGTTGTTGGTCTAGTTTTCTCCCTCTCTTTGCTATTATTTAGCAAGAAAAGGATGAA
172815 AGGAGGTGGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTATTTTAGGGTGAAAGTGTGAGGAATA
66 AGGAGGTGGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTATTTTAGGGTGAAAGTGTGAGGAATA
172880 TGGAGTTTTTGGAGGTTCTTTAGTGGTGGTTTTTGGAGCTCTGGGAATGGAGTGTTGGAGGCCAA
131 TGGAGTTTTTGGAGGTTCTTTAGTGGTGGTTTTTGGAGCTCTGGGAATGGAGTGTTGGAGGCCAA
172945 TGGAATAGTGTTTCTAAGTGCTTTTTGATTTTGGTCTAGTTTTCTCCCTCTCTTTGATTTTGGTC
196 TGGAATAGTGTTTCTAAGTGCTTTTTGATTTTGGTCTAGTTTTCTCCCTCTCTTTGATTTTGGTC
173010 TG
261 TG
173012 GGAATAAAGGTTGTTGGTCTAGTTTTCTCCCTCTCTTTGCTATTATTTAGCAAGAAAAGGATGAA
1 GGAATAAAGGTTGTTGGTCTAGTTTTCTCCCTCTCTTTGCTATTATTTAGCAAGAAAAGGATGAA
173077 AGGAGGTGGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTATTTTAGGGTGAAAGTGTGAGGAATA
66 AGGAGGTGGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTATTTTAGGGTGAAAGTGTGAGGAATA
173142 TGGAGTTTTTGGAGGTTCTTTAGTGGTGGTTTTTGGAGCTCTGGGAATGGAGTGTTGGAGGCCAA
131 TGGAGTTTTTGGAGGTTCTTTAGTGGTGGTTTTTGGAGCTCTGGGAATGGAGTGTTGGAGGCCAA
173207 TGGAATAGTGTTTCTAAGTGCTTTTTGATTTT
196 TGGAATAGTGTTTCTAAGTGCTTTTTGATTTT
173239 TTTTGTTGCT
Statistics
Matches: 227, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 227 1.00
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (262 bp):
GGAATAAAGGTTGTTGGTCTAGTTTTCTCCCTCTCTTTGCTATTATTTAGCAAGAAAAGGATGAA
AGGAGGTGGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTATTTTAGGGTGAAAGTGTGAGGAATA
TGGAGTTTTTGGAGGTTCTTTAGTGGTGGTTTTTGGAGCTCTGGGAATGGAGTGTTGGAGGCCAA
TGGAATAGTGTTTCTAAGTGCTTTTTGATTTTGGTCTAGTTTTCTCCCTCTCTTTGATTTTGGTC
TG
Found at i:173730 original size:20 final size:20
Alignment explanation
Indices: 173705--173759 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
173695 AAAATGCCTG
*
173705 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGCAA
*
173725 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGCAA
173745 AATGTATCGATACAT
1 AATGTATCGATACAT
173760 CTGGGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:174117 original size:13 final size:13
Alignment explanation
Indices: 174099--174123 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174089 AGATTGCACA
174099 GTATCGATACATT
1 GTATCGATACATT
174112 GTATCGATACAT
1 GTATCGATACAT
174124 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:174233 original size:13 final size:13
Alignment explanation
Indices: 174215--174240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174205 ACACACAATA
174215 TGTATCGATACAT
1 TGTATCGATACAT
174228 TGTATCGATACAT
1 TGTATCGATACAT
174241 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:174256 original size:33 final size:32
Alignment explanation
Indices: 174195--174262 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
174185 GTAGCCAAAT
*
174195 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
174227 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
174260 TTG
1 TTG
174263 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:180429 original size:13 final size:13
Alignment explanation
Indices: 180411--180435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180401 CAGCATTCTC
180411 TGTATCGATACAG
1 TGTATCGATACAG
180424 TGTATCGATACA
1 TGTATCGATACA
180436 AAGGGTTTAT
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:180901 original size:20 final size:21
Alignment explanation
Indices: 180869--180920 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
180859 CCCCTAGGCA
*
180869 GCACCCACCAGGTCGCGATC-G
1 GCACCC-CCAGGTCGCAATCGG
180890 GCACCCCCAGGTCGCAATCGG
1 GCACCCCCAGGTCGCAATCGG
180911 GCAGCCCCCA
1 GCA-CCCCCA
180921 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.19, C:0.46, G:0.27, T:0.08
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAATCGG
Found at i:182917 original size:20 final size:21
Alignment explanation
Indices: 182892--182944 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
182882 ATCGATACAT
**
182892 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
182912 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
182933 TGTATCGATACA
1 TGTATCGATACA
182945 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:183015 original size:13 final size:13
Alignment explanation
Indices: 182997--183022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
182987 ACACACAATA
182997 TGTATCGATACAT
1 TGTATCGATACAT
183010 TGTATCGATACAT
1 TGTATCGATACAT
183023 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:183038 original size:33 final size:32
Alignment explanation
Indices: 182977--183044 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
182967 GTAGCCAAAT
*
182977 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
183009 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
183042 TTG
1 TTG
183045 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:183813 original size:20 final size:20
Alignment explanation
Indices: 183788--183834 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
183778 TGAGCTTTCA
* *
183788 GATACACTGAACAATGTATC
1 GATACAATGAACAATATATC
183808 GATACAATGAACAATATATC
1 GATACAATGAACAATATATC
183828 GATACAA
1 GATACAA
183835 ATTGTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (20 bp):
GATACAATGAACAATATATC
Found at i:188156 original size:21 final size:21
Alignment explanation
Indices: 188130--188206 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
188120 AATTAATCCA
188130 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
188151 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
188172 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
188193 AATGTATCGATACA
1 AATGTATCGATACA
188207 GGATCCTAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:188266 original size:19 final size:19
Alignment explanation
Indices: 188242--188309 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
188232 AATTCAACAA
188242 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
188261 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
188276 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
188293 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
188310 TTAGCTATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:188281 original size:13 final size:13
Alignment explanation
Indices: 188263--188287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188253 ACATAAGTTT
188263 TGTATCGATACAA
1 TGTATCGATACAA
188276 TGTATCGATACA
1 TGTATCGATACA
188288 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:188285 original size:32 final size:32
Alignment explanation
Indices: 188244--188306 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
188234 TTCAACAATT
*
188244 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
188276 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
188307 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:188367 original size:13 final size:13
Alignment explanation
Indices: 188349--188374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
188339 CATTTTTCTG
188349 TGTATCGATACAT
1 TGTATCGATACAT
188362 TGTATCGATACAT
1 TGTATCGATACAT
188375 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:188371 original size:33 final size:33
Alignment explanation
Indices: 188329--188395 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
188319 GCCAAGGAAA
***
188329 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
188362 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
188395 T
1 T
188396 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:190970 original size:51 final size:51
Alignment explanation
Indices: 190892--191066 Score: 181
Period size: 52 Copynumber: 3.4 Consensus size: 51
190882 CCTGTTAATC
* * * ***
190892 ATCGAGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTTCATA
1 ATCGAGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATA
* * * * * *
190943 ATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCTTTA
1 ATCGAGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTC-ATA
* *
190995 ATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAATACCAATTTTTCACA
1 ATCGAGGATACTCCAACCT-CGATTTTATTTCC-AAAATACCAATTTTTCATA
*
191047 GTCGAGGATACTCCAACCTC
1 ATCGAGGATACTCCAACCTC
191067 ATTATTTCAT
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
51 39 0.39
52 45 0.45
53 16 0.16
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
ATCGAGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATA
Found at i:191084 original size:28 final size:28
Alignment explanation
Indices: 191052--191122 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
191042 TCACAGTCGA
* * **
191052 GGATACTCCAACCTCATTATTTCATCGG
1 GGATACTCCAACCCCATTACTTCAGAGG
* *
191080 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCATTACTTCAGAGG
191108 GGATACTCCAACCCC
1 GGATACTCCAACCCC
191123 GGCTTTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCATTACTTCAGAGG
Found at i:191086 original size:183 final size:183
Alignment explanation
Indices: 190759--191094 Score: 511
Period size: 183 Copynumber: 1.8 Consensus size: 183
190749 AATTCTCCAC
*
190759 AATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* *
190824 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCTGTTA
66 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCTATTA
190889 ATCATCGAGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTTCAT
131 ATCATCGAGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTTCAT
* *
190942 AATCGGGGATA-CTCCAAC-CTCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
1 AATCGGGGATATC-CCAACTC-CGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* *
191005 CTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAA-CCTC
63 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCT-
* *
191067 ATTATTTCATCGGGGATACTCCAACCCC
127 ATTA-ATCATCGAGGATACTCCAACCCC
191095 GTTACTTCCG
Statistics
Matches: 139, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
181 3 0.02
182 25 0.18
183 75 0.54
184 36 0.26
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (183 bp):
AATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCTATTA
ATCATCGAGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTTCAT
Found at i:191256 original size:78 final size:78
Alignment explanation
Indices: 191077--191280 Score: 239
Period size: 78 Copynumber: 2.6 Consensus size: 78
191067 ATTATTTCAT
* * *
191077 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
191142 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * ** *
191156 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
191220 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * *
191234 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
191281 TTATTATCTC
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 3 0.03
78 61 0.58
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:192812 original size:19 final size:20
Alignment explanation
Indices: 192770--192820 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
192760 GCCAGTTTCG
**
192770 TGTATCGATACAATTGTCCA
1 TGTATCGATACAATTGAACA
192790 TGTATCGATACAA-TGAACA
1 TGTATCGATACAATTGAACA
192809 TGTATCGATACA
1 TGTATCGATACA
192821 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAATTGAACA
Found at i:194785 original size:166 final size:162
Alignment explanation
Indices: 194449--194968 Score: 475
Period size: 166 Copynumber: 3.1 Consensus size: 162
194439 TTCAAACATC
* * * * *
194449 AAAATTCTTTAAATATTATCATTTAATTCTCATA--AAATCAATTTTGAAAAATTTATTCA-TTT
1 AAAATTCATTAAATATTATTATTTAATT-T-ATATTAAATCAATTTTCAAAAATTAATTTATTTT
* * * * * * *
194511 C-TTGAGTTTTT--CTTTTTTCCTTAGAATTCCCCATGTTTCTCAAATACGAAATTTTCTTCTTC
64 CATT-AGTTTTTGAATTTTTTCTTTA-AATT-TCC-TGTTTCTAAAATACG-AGTTTTCTACTTT
* *
194573 GTAATTTTTTTCGAGAGGA-TTTTCGTTGATTTTTAATTTTT
124 GTAAATATTTTCG-GAGGATTTTTC-TTG-TTTTTAATTTTT
*
194614 AAAATTCATTAAATATTATTATTTAATTTATATTAAATCCATTTTCAAAAATTAATTTATTTTCA
1 AAAATTCATTAAATATTATTATTTAATTTATATTAAATCAATTTTCAAAAATTAATTTATTTTCA
194679 TTAGTTTTTGAATTTTTTCTTTAAATTTCCTGGTTTCTAAAATACAGAGTTTTCTACTTTGTAAA
66 TTAGTTTTTGAATTTTTTCTTTAAATTTCCT-GTTTCTAAAATAC-GAGTTTTCTACTTTGTAAA
* *
194744 TGTTTTCGGATGGATTTTTCTTAGTTTTTTATTTTT
129 TATTTTCGGA-GGATTTTTCTT-GTTTTTAATTTTT
* * * * *
194780 AAAATTAATAAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATCAATCTATTTTCA
1 AAAATTCATTAAATATTATTATTTAATTTATATTAAATCAATTTTCAAAAATTAATTTATTTTCA
* * * * * * * *
194845 TGAG-TTTTGAATTTTTTCCTTAAAATTTTCTTATTTTTAAAAAACGGAGTTTTCTAATTTATAA
66 TTAGTTTTTGAATTTTTT-CTTTAAA-TTTCCTGTTTCTAAAATAC-GAGTTTTCTACTTTGTAA
* * ** *
194909 ATATTTTTGGGGGGATTTTTCTTGGTTTAAAATTTCT
128 ATA-TTTTCGGAGGATTTTTCTT-GTTTTTAATTTTT
194946 -AAATTCATCT-AATATTATTATTT
1 AAAATTCAT-TAAATATTATTATTT
194969 GGTTTAAAAT
Statistics
Matches: 299, Mismatches: 41, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
163 3 0.01
164 1 0.00
165 83 0.28
166 178 0.60
167 24 0.08
168 10 0.03
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (162 bp):
AAAATTCATTAAATATTATTATTTAATTTATATTAAATCAATTTTCAAAAATTAATTTATTTTCA
TTAGTTTTTGAATTTTTTCTTTAAATTTCCTGTTTCTAAAATACGAGTTTTCTACTTTGTAAATA
TTTTCGGAGGATTTTTCTTGTTTTTAATTTTT
Found at i:194976 original size:37 final size:38
Alignment explanation
Indices: 194930--195005 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
194920 GGGATTTTTC
194930 TTGGTTTAAAATTTCT-AAATTCATCTAATATTATTAT
1 TTGGTTTAAAATTTCTAAAATTCATCTAATATTATTAT
*
194967 TTGGTTTAAAATTTTTAAAATTCATCTAATATTATTAT
1 TTGGTTTAAAATTTCTAAAATTCATCTAATATTATTAT
195005 T
1 T
195006 AAATTTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 15 0.41
38 22 0.59
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (38 bp):
TTGGTTTAAAATTTCTAAAATTCATCTAATATTATTAT
Found at i:195229 original size:15 final size:15
Alignment explanation
Indices: 195201--195247 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 15
195191 AAATTTTATC
195201 TTAATTTTTA-AATT
1 TTAATTTTTATAATT
195215 TTAATTTTTATAA-T
1 TTAATTTTTATAATT
195229 TTAATTTTTTATTAATT
1 TTAA-TTTTTA-TAATT
195246 TT
1 TT
195248 TACAGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 15 0.52
15 8 0.28
16 3 0.10
17 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTTATAATT
Found at i:195401 original size:13 final size:13
Alignment explanation
Indices: 195384--195421 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
195374 AAAAAAATCA
195384 AATAAAAAAAAGT
1 AATAAAAAAAAGT
*
195397 CATAAATAAAAA-T
1 AATAAA-AAAAAGT
195410 AATAAAAAAAAG
1 AATAAAAAAAAG
195422 AAAAAGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 5 0.24
13 11 0.52
14 5 0.24
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (13 bp):
AATAAAAAAAAGT
Found at i:198043 original size:19 final size:20
Alignment explanation
Indices: 197998--198047 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
197988 CACCTTCAGA
*
197998 TGTATCGATACATAATGCAC
1 TGTATCGATACATAATCCAC
* *
198018 AGTATCGATACATGA-CCAC
1 TGTATCGATACATAATCCAC
198037 TGTATCGATAC
1 TGTATCGATAC
198048 TTGCAAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATAATCCAC
Found at i:198124 original size:19 final size:20
Alignment explanation
Indices: 198100--198151 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
198090 CTTAACTGGT
198100 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
198119 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
*
198139 TGTATCAATACAT
1 TGTATCGATACAT
198152 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 14 0.47
21 3 0.10
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:204028 original size:52 final size:51
Alignment explanation
Indices: 203943--204066 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
203933 ATATGAAAAG
*
203943 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
203994 TTTTCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
204046 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
204067 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.29
52 43 0.63
53 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:204093 original size:13 final size:13
Alignment explanation
Indices: 204075--204099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204065 CAAAGATCAG
204075 TGTATCGATACAA
1 TGTATCGATACAA
204088 TGTATCGATACA
1 TGTATCGATACA
204100 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:204177 original size:33 final size:33
Alignment explanation
Indices: 204140--204206 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
204130 AGTAGCTTAA
204140 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
204173 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
204206 A
1 A
204207 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:204180 original size:13 final size:13
Alignment explanation
Indices: 204162--204186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204152 CAAAAAAATA
204162 TGTATCGATACAT
1 TGTATCGATACAT
204175 TGTATCGATACA
1 TGTATCGATACA
204187 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:205206 original size:49 final size:49
Alignment explanation
Indices: 205089--206300 Score: 1593
Period size: 49 Copynumber: 24.7 Consensus size: 49
205079 AAAAAGATGT
* *
205089 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* *
205141 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205190 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205239 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
* * * *
205287 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
205336 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
205385 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205434 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
205483 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205532 CAATATGCTGATTCAAGGCCAGCTATATTAGG-CTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATT-GGACTTAAAGATGAAGGTGC
* *
205581 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* *
205633 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205682 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205731 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
* * * * *
205779 CAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
205828 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205877 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
205926 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
205975 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
206024 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
206073 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
206125 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
206168 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
206216 CAATGTGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
206265 CAATATGCTGATTCAGGGCCAGGTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
206301 GAAGGGTTGC
Statistics
Matches: 1005, Mismatches: 134, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
43 40 0.04
48 129 0.13
49 710 0.71
50 4 0.00
51 2 0.00
52 120 0.12
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:205427 original size:98 final size:98
Alignment explanation
Indices: 205089--206300 Score: 1962
Period size: 98 Copynumber: 12.4 Consensus size: 98
205079 AAAAAGATGT
* * *
205089 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* *
205154 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
205190 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
205255 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 GGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
*
205287 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
205352 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
205385 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
205450 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
205483 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
205548 GGCCAGCTATATTAGG-CTTAATGGTGAAGGTGC
66 GGCCAGCTATATT-GGACTTAATGGTGAAGGTGC
*
205581 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* *
205646 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
205682 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
205747 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 GGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
* *
205779 CAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
205844 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
205877 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
205942 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
205975 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
206040 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
206073 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
206138 CAAGGCCAGCTATATTGGACTT-A-----AAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * *
206168 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
206232 GGCTAGCTATATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * * * *
206265 CAATATGCTGATTCAGGGCCAGGTATATTGGGCTTA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
206301 GAAGGGTTGC
Statistics
Matches: 1052, Mismatches: 39, Indels: 44
0.93 0.03 0.04
Matches are distributed among these distances:
91 39 0.04
92 1 0.00
95 46 0.04
97 223 0.21
98 567 0.54
99 2 0.00
100 3 0.00
101 171 0.16
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:206013 original size:492 final size:492
Alignment explanation
Indices: 205089--206252 Score: 2171
Period size: 492 Copynumber: 2.4 Consensus size: 492
205079 AAAAAGATGT
* *
205089 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
205154 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
205219 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
131 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
*
205284 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
196 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
*
205349 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCTAGCTACATT
261 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
205414 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
326 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
205479 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
391 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
205544 TCAAGGCCAGCTATATTAGGCTTAATGGTGAAGGTGC
456 TCAAGGCCAGCTATATTAGGCTTAATGGTGAAGGTGC
205581 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
205646 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
205711 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
131 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
205776 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
196 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
205841 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
261 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
205906 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
326 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
205971 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
391 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
*
206036 TCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
456 TCAAGGCCAGCTATATTAGGCTTAATGGTGAAGGTGC
*
206073 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
*
206138 CAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
* * * *
206197 GGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAAGGCTAGCTATATTGGACTTAA
131 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAA
206253 AGATGAAGGT
Statistics
Matches: 660, Mismatches: 11, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
485 31 0.05
486 55 0.08
488 1 0.00
492 573 0.87
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (492 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTATATTAGGCTTAATGGTGAAGGTGC
Found at i:206178 original size:43 final size:44
Alignment explanation
Indices: 206116--206305 Score: 220
Period size: 43 Copynumber: 4.1 Consensus size: 44
206106 TTAAAGATGG
206116 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
206160 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
206203 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCTAGCTATATTGGACTT
1 AAA----AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
206251 AAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGGTATATTGGGCTT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
206300 AGAAGG
1 AAAAGG
206306 GTTGCCACCG
Statistics
Matches: 126, Mismatches: 10, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
43 41 0.33
44 6 0.05
47 1 0.01
48 39 0.31
49 36 0.29
50 1 0.01
51 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:206344 original size:33 final size:33
Alignment explanation
Indices: 206300--206537 Score: 367
Period size: 33 Copynumber: 7.2 Consensus size: 33
206290 TATTGGGCTT
206300 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
206333 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
206365 GGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
206397 GGAAGGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
206431 AGGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
206464 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
206498 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
206531 A-AAGGGT
1 AGAAGGGT
206538 GAAAGATGCC
Statistics
Matches: 190, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
32 45 0.24
33 107 0.56
34 35 0.18
35 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:206377 original size:65 final size:67
Alignment explanation
Indices: 206301--206536 Score: 374
Period size: 67 Copynumber: 3.6 Consensus size: 67
206291 ATTGGGCTTA
*
206301 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT-
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
206364 GG
66 GG
*
206366 GAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
206430 GAG
66 G-G
* *
206433 GAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
*
206497 GA
66 GG
*
206499 GAAGGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
206537 TGAAAGATGC
Statistics
Matches: 159, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
64 6 0.04
65 54 0.34
66 35 0.22
67 64 0.40
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (67 bp):
GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
GG
Found at i:206649 original size:34 final size:34
Alignment explanation
Indices: 206539--207052 Score: 509
Period size: 34 Copynumber: 15.4 Consensus size: 34
206529 AGAAAGGGTG
* * *
206539 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
206572 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
206608 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
206642 AAAGAGTGCCACAGAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
206673 ---G-GTGCCACGGAGTCGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
206703 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
206737 AAAGAGTGCCTACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCC-ACGGAGTTGTGGGCTTAAAAGGAA
* *
206771 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
206804 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
**
206835 ---G-GTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
206863 GAAG-GTGCCACGGAGTTGTGGGCTTTAACAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAA-AA-GGAA
*
206899 AAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCT-TAAAAGGAA
206934 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*
206970 AAAGAGAGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
207005 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*
207041 AGAGAGTGCCAC
1 AAAGAGTGCCAC
207053 AAAGTTGTAG
Statistics
Matches: 414, Mismatches: 33, Indels: 64
0.81 0.06 0.13
Matches are distributed among these distances:
27 42 0.10
28 3 0.01
31 20 0.05
32 3 0.01
33 70 0.17
34 125 0.30
35 47 0.11
36 34 0.08
37 70 0.17
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:206651 original size:71 final size:68
Alignment explanation
Indices: 206519--207052 Score: 522
Period size: 71 Copynumber: 7.9 Consensus size: 68
206509 CACCGACTTG
** * * * * *
206519 TGTGGGCTTTAGAAAGGGTGAAAGATGCCACGAAGTTGTGGACTTAAAAAGAACAAG-GTGCCAC
1 TGTGGGCTTTA-AAA-GGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCAC
206583 GGAGT
64 GGAGT
*
206588 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAA-GG-AAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCA
*
206653 CAGAGT
63 CGGAGT
* * * *
206659 CGTGGAC-TTAAAA-G-----GGTGCCACGGAGTCGTGGGCTTAGAAGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGG
206717 AGT
66 AGT
* *
206720 TGTGGGC-TTAGAAGGAAAAAGAGTGCCTACGGAGTTGTGGGCTTAGAAGG-AAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAG-GTGCC-ACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCAC
*
206783 GTAGT
64 GGAGT
* * *
206788 TGTGGGCTTT-AAAGG-AAAAGAGTGCCACGTAGTCGTGGACTTAAAA-G-----G-GTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACG
206844 GAGT
65 GAGT
206848 TGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAAGAGTGCC
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGGC-TTAA-AA-GGAAAAAGAGTGCC
206909 ACGGAGT
62 ACGGAGT
* * *
206916 TGTGGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGAGCCA
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAAAAAGAGTGCCA
206981 CGGAGT
63 CGGAGT
*
206987 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCC
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAAAAAGAGTGCC
207051 AC
62 AC
207053 AAAGTTGTAG
Statistics
Matches: 402, Mismatches: 33, Indels: 58
0.82 0.07 0.12
Matches are distributed among these distances:
58 16 0.04
59 7 0.02
60 23 0.06
61 56 0.14
62 6 0.01
65 1 0.00
66 16 0.04
67 17 0.04
68 62 0.15
69 38 0.09
70 33 0.08
71 124 0.31
72 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (68 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGG
AGT
Found at i:206700 original size:27 final size:27
Alignment explanation
Indices: 206641--206700 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
206631 CTTAGAAGGA
*
206641 AAAAGAGTGCCACAGAGTCGTGGACTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
* *
206668 AAAAGGGTGCCACGGAGTCGTGGGCTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
*
206695 AGAAGG
1 AAAAGG
206701 AAAAAGAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.17, G:0.37, T:0.17
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTCGTGGACTT
Found at i:206838 original size:162 final size:159
Alignment explanation
Indices: 206539--206991 Score: 576
Period size: 162 Copynumber: 2.8 Consensus size: 159
206529 AGAAAGGGTG
* * * *
206539 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAA
206602 GGGAAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGTCGTGGAC
65 -GG--AAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGGAAAAAGAGTGCCAC-GAGTCGTGGAC
206666 TTAAAAGGGTGCCACGGAGTCGTGGGCTTAGAAGGAA
125 TTAAAAGGGTGCCACGGAGTCGTGGGCTTAGAA--AA
* *
206703 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCTACGGAGTTGTGGGCTTAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCC-ACGGAGTTGTGGGCTTAAAA
*
206768 GGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-AAAAGAGTGCCACGTAGTCGTGGACTTAA
65 GGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAGTGCCACG-AGTCGTGGACTTAA
* *
206832 AAGGGTGCCACGGAGTTGTGGGCTTTGAAAA
129 AAGGGTGCCACGGAGTCGTGGGCTTAGAAAA
*
206863 GAAG-GTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAA-AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCT-TA
* * *
206927 AAAAGAAAA-AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGAGCCACGGAGTTGTG
62 AAAGGAAAAGA-GTGCCACGGAGTTGTGGGCTTT--AAA-GGAAAAAGAGTGCCAC-GAGTCGTG
206991 G
122 G
206992 GCTTTAAACA
Statistics
Matches: 258, Mismatches: 16, Indels: 28
0.85 0.05 0.09
Matches are distributed among these distances:
159 19 0.07
160 8 0.03
161 19 0.07
162 98 0.38
163 28 0.11
164 11 0.04
165 31 0.12
166 29 0.11
167 15 0.06
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (159 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAGTGCCACGAGTCGTGGACTTAAAA
GGGTGCCACGGAGTCGTGGGCTTAGAAAA
Found at i:207060 original size:37 final size:37
Alignment explanation
Indices: 206830--207052 Score: 290
Period size: 37 Copynumber: 6.4 Consensus size: 37
206820 TCGTGGACTT
* *
206830 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA--G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
*
206864 --AAG-GTGCCACGGAGTTGTGGGCTTTAACAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
*
206898 AAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAA--GA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
*
206933 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
* *
206969 AAAAGAGAGCCACGGAGTTGTGGGCTTTAAACA--GA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
207004 AAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
*
207040 AAGAGAGTGCCAC
1 AAAAGAGTGCCAC
207053 AAAGTTGTAG
Statistics
Matches: 165, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
31 25 0.15
32 3 0.02
33 1 0.01
34 50 0.30
35 14 0.08
36 16 0.10
37 56 0.34
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.18
Consensus pattern (37 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
Found at i:207131 original size:30 final size:32
Alignment explanation
Indices: 207064--207208 Score: 147
Period size: 31 Copynumber: 4.7 Consensus size: 32
207054 AAGTTGTAGG
* * * *
207064 TGCCACAGAGTTGTGGGCTTTAAAGA-AAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGACAAGAA
* *
207095 TACCACTGAGTCGTGGACTTT-GAGACAA-AA
1 TGCCACTGAGTCGTGGACTTTAAAGACAAGAA
* *
207125 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAGACAAGAA
* * *
207157 TGCCACTGCGTCGTGGACTTT-GAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGACA-AGAA
207188 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
207209 TTTTTTTTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
30 26 0.27
31 48 0.51
32 21 0.22
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTAAAGACAAGAA
Found at i:207571 original size:12 final size:12
Alignment explanation
Indices: 207556--207586 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
207546 GCCTTTGCAC
207556 TTTTTTTTTTTG
1 TTTTTTTTTTTG
*
207568 TTTTTTGTTTTG
1 TTTTTTTTTTTG
207580 TTTTTTT
1 TTTTTTT
207587 GTGTTTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:207586 original size:13 final size:13
Alignment explanation
Indices: 207556--207588 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
207546 GCCTTTGCAC
207556 TTTTTTT-TTTTG
1 TTTTTTTGTTTTG
207568 -TTTTTTGTTTTG
1 TTTTTTTGTTTTG
207580 TTTTTTTGT
1 TTTTTTTGT
207589 GTTTACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.32
12 5 0.26
13 8 0.42
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:207598 original size:20 final size:20
Alignment explanation
Indices: 207554--207599 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
207544 TTGCCTTTGC
*
207554 ACTTTT-TTTTTTTGTTTTT
1 ACTTTTGTTTTTTTGTGTTT
**
207573 TGTTTTGTTTTTTTGTGTTT
1 ACTTTTGTTTTTTTGTGTTT
207593 ACTTTTG
1 ACTTTTG
207600 ACTGTTCCGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.78
Consensus pattern (20 bp):
ACTTTTGTTTTTTTGTGTTT
Found at i:214551 original size:52 final size:51
Alignment explanation
Indices: 214466--214589 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
214456 ATATGAAAAG
*
214466 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
214517 TTTTCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
214569 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
214590 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.29
52 43 0.63
53 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:214616 original size:13 final size:13
Alignment explanation
Indices: 214598--214622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
214588 CAAAGATCAG
214598 TGTATCGATACAA
1 TGTATCGATACAA
214611 TGTATCGATACA
1 TGTATCGATACA
214623 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:214700 original size:33 final size:33
Alignment explanation
Indices: 214663--214729 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
214653 AGTAGCTTAA
214663 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
214696 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
214729 A
1 A
214730 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:214703 original size:13 final size:13
Alignment explanation
Indices: 214685--214709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
214675 CAAAAAAATA
214685 TGTATCGATACAT
1 TGTATCGATACAT
214698 TGTATCGATACA
1 TGTATCGATACA
214710 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:215728 original size:49 final size:49
Alignment explanation
Indices: 215611--216800 Score: 1583
Period size: 49 Copynumber: 24.3 Consensus size: 49
215601 AAAAAGATGT
* *
215611 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* *
215663 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
215712 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
215761 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
* * * *
215809 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
215858 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
215907 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
215956 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
216005 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
216054 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
216103 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* *
216155 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
216204 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
216253 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
* * * * *
216301 CAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
216350 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
216399 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
216448 CAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
216497 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
216546 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
216595 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
216647 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
216690 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
216738 CAATGTGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
216787 CAATATGCTGATTC
1 CAATGTGCTGATTC
216801 TCGGATATTC
Statistics
Matches: 987, Mismatches: 132, Indels: 41
0.85 0.11 0.04
Matches are distributed among these distances:
43 40 0.04
48 127 0.13
49 696 0.71
50 2 0.00
51 2 0.00
52 120 0.12
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:215949 original size:98 final size:98
Alignment explanation
Indices: 215611--216797 Score: 1946
Period size: 98 Copynumber: 12.1 Consensus size: 98
215601 AAAAAGATGT
* * *
215611 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* *
215676 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
215712 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
215777 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 GGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
*
215809 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
215874 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
215907 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
215972 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
216005 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
216070 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * *
216103 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTGTCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* *
216168 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
216204 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
216269 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 GGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
* *
216301 CAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
216366 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
216399 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTAATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
216464 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
216497 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
216562 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
216595 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
216660 CAAGGCCAGCTATATTGGACTT-A-----AAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * *
216690 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
216754 GGCTAGCTATATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
216787 CAATATGCTGA
1 CAATGTGCTGA
216798 TTCTCGGATA
Statistics
Matches: 1027, Mismatches: 41, Indels: 40
0.93 0.04 0.04
Matches are distributed among these distances:
91 39 0.04
92 1 0.00
95 46 0.04
97 202 0.20
98 567 0.55
100 1 0.00
101 171 0.17
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:216535 original size:492 final size:492
Alignment explanation
Indices: 215611--216774 Score: 2162
Period size: 492 Copynumber: 2.4 Consensus size: 492
215601 AAAAAGATGT
* *
215611 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
215676 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
215741 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
131 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
*
215806 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
196 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
215871 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
261 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
*
215936 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
326 GGACTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
216001 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
391 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
216066 TCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
456 TCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
* *
216103 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTGTCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
216168 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
216233 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
131 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
216298 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
196 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
216363 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
261 CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
216428 GGACTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
326 GGACTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
216493 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
391 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
216558 TCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
456 TCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
*
216595 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
*
216660 CAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
* * * *
216719 GGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAAGGCTAGCTATATTGGACTTAA
131 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAA
216775 AGATGAAGGT
Statistics
Matches: 657, Mismatches: 14, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
485 31 0.05
486 55 0.08
488 1 0.00
492 570 0.87
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (492 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAG
TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATT
CAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
GGACTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
Found at i:216700 original size:43 final size:43
Alignment explanation
Indices: 216639--216776 Score: 204
Period size: 43 Copynumber: 3.1 Consensus size: 43
216629 TAAAGATGGA
*
216639 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
216682 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
216725 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCTAGCTATATTGGACTT
1 -AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
216773 AAAG
1 AAAG
216777 ATGAAGGTGC
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
43 43 0.50
44 2 0.02
47 2 0.02
48 39 0.45
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:220344 original size:13 final size:13
Alignment explanation
Indices: 220326--220350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
220316 CAGCATTCTC
220326 TGTATCGATACAT
1 TGTATCGATACAT
220339 TGTATCGATACA
1 TGTATCGATACA
220351 AAGGGTTTAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:222271 original size:22 final size:23
Alignment explanation
Indices: 222239--222285 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
222229 GTGATTAAAG
*
222239 GAAATTGTTTT-ATTAAGGGGGA
1 GAAATTGTTTTGATTAAGAGGGA
*
222261 GAAATTTTTTTGATTAAGAGGGA
1 GAAATTGTTTTGATTAAGAGGGA
222284 GA
1 GA
222286 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (23 bp):
GAAATTGTTTTGATTAAGAGGGA
Done.