Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 34 of 208
Found at i:9591005 original size:59 final size:56
Alignment explanation
Indices: 9590928--9591385 Score: 184
Period size: 59 Copynumber: 8.0 Consensus size: 56
9590918 TATGTATTGT
* * * *
9590928 GTAAGCTATGTAAGTTGTGTATTATGTAAGTTAT-T-ATTATACTTTAAGTTATGTAA
1 GTAAGTTATGTAAGTTGTGTATAATGTAAGTTATGTAAGT-TA-TGTAAGTTATGTAA
*
9590984 GTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATGTAAGTTATGTAAGTTATGTAA
1 GTAA-G--TTATGTAAGTTGTGTATAATGTAAGTTATGTAAGTTATGTAAGTTATGTAA
* ** * *
9591043 GTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTAT-TAT
1 GTAAGTTATGTAAGTTGT-GTA-TAATGTAAGTTATGTAAGTTATGTAAGTTATGTAA
* * * ** * *
9591098 GT-A-TTATGTAAGTTAAGATGGATTACGTAAGTTATCAAAGTAATGTATGTTATGTAA
1 GTAAGTTATGTAAGTT--G-TGTATAATGTAAGTTATGTAAGTTATGTAAGTTATGTAA
* * * * * * * *
9591155 GT-TG-TAAGTTA-TTATGTATTATGTAAGTTAAG-ATGGATTACGTAAGTTATGTAA
1 GTAAGTTATGTAAGTTGTGTATAATGTAAGTTATGTA-AG-TTATGTAAGTTATGTAA
9591209 GTTAAATGTATTATGTAAGTTGTAAGT-TAGATGT-A-TTATGTAAG-T-TGTAAGTTATAATGT
1 G-T-AA-G--TTATGTAAGTTGT--GTATA-ATGTAAGTTATGTAAGTTATGTAAG-T-T-ATGT
9591269 ATTA
55 A--A
* * * *
9591273 TGTAAGTTATGTAAGTTAAATGTATTATG-AAGGTTATGTAAGTTGTGTAAG--A-G-AT
1 -GTAAGTTATGTAAGTT--GTGTATAATGTAA-GTTATGTAAGTTATGTAAGTTATGTAA
* * * * * * *
9591328 TTAAGTTATGTGAGTTTTGTATTATGTAAGTTATGTAGGTTATTTAGGTTATGTAA
1 GTAAGTTATGTAAGTTGTGTATAATGTAAGTTATGTAAGTTATGTAAGTTATGTAA
9591384 GT
1 GT
9591386 TTTGAGTTGT
Statistics
Matches: 301, Mismatches: 54, Indels: 94
0.67 0.12 0.21
Matches are distributed among these distances:
52 25 0.08
53 28 0.09
54 44 0.15
55 7 0.02
56 40 0.13
57 13 0.04
58 19 0.06
59 49 0.16
60 22 0.07
61 9 0.03
62 24 0.08
63 6 0.02
64 14 0.05
65 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (56 bp):
GTAAGTTATGTAAGTTGTGTATAATGTAAGTTATGTAAGTTATGTAAGTTATGTAA
Found at i:9591046 original size:13 final size:13
Alignment explanation
Indices: 9591030--9591057 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9591020 TGTAAGTTAT
9591030 GTAAGTTATGTAA
1 GTAAGTTATGTAA
9591043 GTAAGTTATGTAA
1 GTAAGTTATGTAA
9591056 GT
1 GT
9591058 TATCAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (13 bp):
GTAAGTTATGTAA
Found at i:9591046 original size:22 final size:22
Alignment explanation
Indices: 9591021--9591110 Score: 82
Period size: 22 Copynumber: 4.1 Consensus size: 22
9591011 TGTTAGTTAT
9591021 GTAAGTTATGTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
9591043 GTAAGTTATGTAAGTTATCAAAGTAA
1 GTAAGTTATGTAAGTTAT----GTAA
*
9591069 TGTATGTTATGTAAG-T-TGTAA
1 -GTAAGTTATGTAAGTTATGTAA
*
9591090 GTTA-TTATGT-A-TTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
9591109 GT
1 GT
9591111 TAAGATGGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
18 2 0.03
19 13 0.22
20 2 0.03
21 4 0.07
22 18 0.31
25 1 0.02
26 5 0.09
27 13 0.22
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.43
Consensus pattern (22 bp):
GTAAGTTATGTAAGTTATGTAA
Found at i:9591107 original size:19 final size:19
Alignment explanation
Indices: 9591085--9591204 Score: 72
Period size: 19 Copynumber: 6.5 Consensus size: 19
9591075 TTATGTAAGT
9591085 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
** *
9591104 TGTAAGTTAAGATGGATTA
1 TGTAAGTTATTATGTATTA
* * *
9591123 CGTAAGTTATCAAAGTA--A
1 TGTAAGTTAT-TATGTATTA
* *
9591141 TGT-A--TGTTATGTAAGT-
1 TGTAAGTTATTATGT-ATTA
9591157 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
** *
9591176 TGTAAGTTAAGATGGATTA
1 TGTAAGTTATTATGTATTA
*
9591195 CGTAAGTTAT
1 TGTAAGTTAT
9591205 GTAAGTTAAA
Statistics
Matches: 74, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
14 3 0.04
15 3 0.04
16 3 0.04
17 2 0.03
18 5 0.07
19 55 0.74
20 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTA
Found at i:9591128 original size:72 final size:72
Alignment explanation
Indices: 9591052--9591254 Score: 340
Period size: 72 Copynumber: 2.8 Consensus size: 72
9591042 AGTAAGTTAT
9591052 GTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTAAGAT
1 GTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTAAGAT
9591117 GGATTAC
66 GGATTAC
9591124 GTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTAAGAT
1 GTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTAAGAT
9591189 GGATTAC
66 GGATTAC
** *
9591196 GTAAGTTATGTAAGTTAAATGTA--TTATGTAAGTTGTAAGTTA-GATGTATTATGTAAGTT
1 GTAAGTTATCAAAG-T-AATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTT
9591255 GTAAGTTATA
Statistics
Matches: 126, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
71 16 0.13
72 103 0.82
73 1 0.01
74 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.42
Consensus pattern (72 bp):
GTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTAAGAT
GGATTAC
Found at i:9591263 original size:97 final size:98
Alignment explanation
Indices: 9591101--9591281 Score: 269
Period size: 97 Copynumber: 1.8 Consensus size: 98
9591091 TTATTATGTA
9591101 TTATGTAAGTTAAGATGGATTACGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTA
1 TTATGTAAGTTAAGATGGATTACGTAAGTTAT-AAAGTAATGTA-GTTATGTAAGTTGTAAGTTA
*
9591166 TTATGTATTATGTAAGTTAAGATGGATTACGTAAG
64 TAATGTATTATGTAAGTTAAGATGGATTACGTAAG
* * *
9591201 TTATGTAAGTTAA-ATGTATTATGTAAGTTGT-AAGTTAGATGTA-TTATGTAAGTTGTAAGTTA
1 TTATGTAAGTTAAGATGGATTACGTAAGTTATAAAG-TA-ATGTAGTTATGTAAGTTGTAAGTTA
9591263 TAATGTATTATGTAAGTTA
64 TAATGTATTATGTAAGTTA
9591282 TGTAAGTTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
97 40 0.53
98 2 0.03
99 20 0.27
100 13 0.17
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.43
Consensus pattern (98 bp):
TTATGTAAGTTAAGATGGATTACGTAAGTTATAAAGTAATGTAGTTATGTAAGTTGTAAGTTATA
ATGTATTATGTAAGTTAAGATGGATTACGTAAG
Found at i:9591354 original size:43 final size:43
Alignment explanation
Indices: 9591306--9591389 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
9591296 ATTATGAAGG
* *
9591306 TTATGTAAGTTGTGTAAGAGATTTAAGTTATGTGAGTTTTGTA
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
* ** *
9591349 TTATGTAAGTTATGTAGGTTATTTAGGTTATGTAAGTTTTG
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTG
9591390 AGTTGTTCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
Found at i:9591536 original size:12 final size:11
Alignment explanation
Indices: 9591509--9591589 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
9591499 TGTTAAGTAC
9591509 AATTTAATAA-
1 AATTTAATAAT
9591519 AA--TAATATAT
1 AATTTAATA-AT
9591529 AATTTAATAA-
1 AATTTAATAAT
*
9591539 CATTACTAAT-AT
1 AATT--TAATAAT
9591551 AATTATTAATAAT
1 AA-T-TTAATAAT
9591564 -ATTTAATAAT
1 AATTTAATAAT
9591574 AATTTTAAT-AT
1 AA-TTTAATAAT
9591585 AATTT
1 AATTT
9591590 TATTATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 18 0.32
11 8 0.14
12 21 0.37
13 3 0.05
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:9594705 original size:39 final size:39
Alignment explanation
Indices: 9594641--9594726 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
9594631 AATTCCTAAC
*
9594641 CCAT-AACCCCTAAATCCCCTAAACCCTTAAAGCATAAA
1 CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
*
9594679 CCATAAACCCCTAAATCTCCCT-AACCCCTAAAGCATAAC
1 CCATAAACCCCTAAATC-CCCTAAACCCCTAAAGCATAAA
*
9594718 CCCTAAACC
1 CCATAAACC
9594727 ATTCCAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 4 0.09
39 35 0.81
40 4 0.09
ACGTcount: A:0.40, C:0.41, G:0.02, T:0.17
Consensus pattern (39 bp):
CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
Found at i:9595809 original size:22 final size:22
Alignment explanation
Indices: 9595784--9595837 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
9595774 CTTACCGTTC
**
9595784 AAACCCTAAACCAGAAATTCCT
1 AAACCCTAAACCAGAAACCCCT
**
9595806 AAACCCTAAACCCTAAACCCCT
1 AAACCCTAAACCAGAAACCCCT
9595828 AAACCCTAAA
1 AAACCCTAAA
9595838 TCTTAACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.37, G:0.02, T:0.15
Consensus pattern (22 bp):
AAACCCTAAACCAGAAACCCCT
Found at i:9595813 original size:7 final size:7
Alignment explanation
Indices: 9595784--9595837 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
9595774 CTTACCGTTC
9595784 AAACCCT
1 AAACCCT
**
9595791 AAACCAG
1 AAACCCT
*
9595798 AAATTCCT
1 AAA-CCCT
9595806 AAACCCT
1 AAACCCT
9595813 AAACCCT
1 AAACCCT
9595820 AAACCCCT
1 AAA-CCCT
9595828 AAACCCT
1 AAACCCT
9595835 AAA
1 AAA
9595838 TCTTAACTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 28 0.72
8 11 0.28
ACGTcount: A:0.46, C:0.37, G:0.02, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:9595827 original size:15 final size:14
Alignment explanation
Indices: 9595784--9595837 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
9595774 CTTACCGTTC
**
9595784 AAACCCTAAACCAG
1 AAACCCTAAACCCT
*
9595798 AAATTCCTAAACCCT
1 AAA-CCCTAAACCCT
9595813 AAACCCTAAACCCCT
1 AAACCCTAAA-CCCT
9595828 AAACCCTAAA
1 AAACCCTAAA
9595838 TCTTAACTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.26
15 25 0.74
ACGTcount: A:0.46, C:0.37, G:0.02, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:9596312 original size:114 final size:110
Alignment explanation
Indices: 9596118--9596677 Score: 468
Period size: 114 Copynumber: 4.9 Consensus size: 110
9596108 TTTTAAATCC
* * * * * * *
9596118 CTGATCATTAGCGGCGCTTTTCTAGAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGAT
1 CTGAACATTAGCGGCGCTTTAC-AAAAACGCCGCTAAATCCC-CGAAAGCTCGGGAAACGACG-T
*
9596183 -GTTGCGCGTAGTTTTTTTTGCGGCGCTTTTCGAAAAATGCCGCTAAAGA
63 CGTTGCGC-TAGTTTTTTTTGCGGCGCTTTTC-AAAAACGCCGCTAAAGA
* * * * *
9596232 CTGAACATTAGCGGCGCTTTAACAAAAACACCACTAAAATCCCCGAAAGC-CAGAAAACGGCGTC
1 CTGAACATTAGCGGCGCTTT-ACAAAAACGCCGCT-AAATCCCCGAAAGCTCGGGAAACGACGTC
* * *
9596296 GTTGGGCTTAG-GTTTTTTGCGGCGCTTTAACAAAAACGCCGCTAAAGA
64 GTTGCGC-TAGTTTTTTTTGCGGCGCTTT-TCAAAAACGCCGCTAAAGA
* * * * * *
9596344 CTTCAGCATTAGTGGCGCTTT-CTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACG
1 C-TGAACATTAGCGGCGCTTTAC---AAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACG
** * * **
9596408 TCGTTGCGCTAGTTTTAAGTAGCGGCGCTTTTCCAGAAACGTTGCTAAAGA
62 TCGTTGCGCTAGTTTT-TTTTGCGGCGCTTTT-CAAAAACGCCGCTAAAGA
* * * *
9596459 CCT-AACCATTAGCGGCGCTTTATAGAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACAT
1 -CTGAA-CATTAGCGGCGCTTTACA-AAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACGT
* * * * *
9596523 CGTTGGGCTTAGTTATTTTTGCGGCGCTTTCCTAGAAACGCCGCTAAAGC
63 CGTTGCGC-TAGTTTTTTTTGCGGCGCTTTTC-AAAAACGCCGCTAAAGA
* * * * *
9596573 CTTGAGCATTAGCGGCGC-TTACTGAAAAACGCCGCTAAATCACCGAATGCTGGGGAAACGGCGT
1 C-TGAACATTAGCGGCGCTTTAC--AAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACGT
*
9596637 CGTTGCGCTAG-GTTTTTTGCGGCGCTTTCTCAAAAACGCCG
63 CGTTGCGCTAGTTTTTTTTGCGGCGCTTT-TCAAAAACGCCG
9596678 GGAATGATTA
Statistics
Matches: 363, Mismatches: 60, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
111 1 0.00
112 58 0.16
113 63 0.17
114 183 0.50
115 57 0.16
116 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (110 bp):
CTGAACATTAGCGGCGCTTTACAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACGTCGT
TGCGCTAGTTTTTTTTGCGGCGCTTTTCAAAAACGCCGCTAAAGA
Found at i:9596533 original size:228 final size:226
Alignment explanation
Indices: 9596123--9596677 Score: 592
Period size: 228 Copynumber: 2.4 Consensus size: 226
9596113 AATCCCTGAT
* * * * *
9596123 CATTAGCGGCGCTTT-TCTAGAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGAT-GTT
1 CATTAGCGGCGCTTTCTGTA-AAACGCCGCTAAATCCCT-GAAAGCTCGGGAAACGACG-TCGTT
** * * *
9596186 GCGCGTAGTTTTTTTTGCGGCGCTTTTCGAAAAATGCCGCTAAAGACTGAACATTAGCGGCGCTT
63 GCGC-TAGTTTTAGTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACTGAACATTAGCGGCGCTT
* *
9596251 TAACAAAAACACCACTAAAATCCCCGAAAGCCAGAAAACGGCGTCGTTGGGCTTAGGT-TTTTTG
127 TAACAAAAACACCACTAAAATCCCCGAAAGCCAGAAAACGACATCGTTGGGCTTAGGTATTTTTG
9596315 CGGCGCTTTAAC-AAAAACGCCGCTAAAGACTTCAG
192 CGGCGCTTT-ACTAAAAACGCCGCTAAAGACTTCAG
* *
9596350 CATTAGTGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGC
1 CATTAGCGGCGCTTTCTGTAAAA-CGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
* **
9596415 GCTAGTTTTAAGTAGCGGCGCTTTTCCAGAAACGTTGCTAAAGACCT-AACCATTAGCGGCGCTT
65 GCTAGTTTT-AGTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CTGAA-CATTAGCGGCGCTT
* * * * * * * *
9596479 TATA-GAAAGCGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACATCGTTGGGCTTAGTTATTTT
127 TA-ACAAAAACACCACTAAAATCCCCGAAAGC-CAGAAAACGACATCGTTGGGCTTAGGTATTTT
* * * *
9596542 TGCGGCGCTTTCCTAGAAACGCCGCTAAAGCCTTGAG
190 TGCGGCGCTTTACTAAAAACGCCGCTAAAGACTTCAG
* * * * *
9596579 CATTAGCGGCGCTTACTGAAAAACGCCGCTAAATCACC-GAATGCTGGGGAAACGGCGTCGTTGC
1 CATTAGCGGCGCTTTCTGTAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAACGACGTCGTTGC
*
9596643 GCTAGGTTTT--TTGCGGCGC-TTTCTCAAAAACGCCG
65 GCTA-GTTTTAGTAGCGGCGCTTTTC-CAAAAACGCCG
9596678 GGAATGATTA
Statistics
Matches: 275, Mismatches: 40, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
225 4 0.01
226 24 0.09
227 79 0.29
228 105 0.38
229 63 0.23
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (226 bp):
CATTAGCGGCGCTTTCTGTAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGCG
CTAGTTTTAGTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACTGAACATTAGCGGCGCTTTAAC
AAAAACACCACTAAAATCCCCGAAAGCCAGAAAACGACATCGTTGGGCTTAGGTATTTTTGCGGC
GCTTTACTAAAAACGCCGCTAAAGACTTCAG
Found at i:9597027 original size:7 final size:7
Alignment explanation
Indices: 9597017--9597088 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
9597007 ATAAATTATA
9597017 AACCCCT
1 AACCCCT
**
9597024 AACCTTT
1 AACCCCT
9597031 AACCCCT
1 AACCCCT
* *
9597038 AACTCTT
1 AACCCCT
9597045 AACCCCT
1 AACCCCT
*
9597052 AACACCT
1 AACCCCT
*
9597059 AAACCCT
1 AACCCCT
* *
9597066 AAGCACT
1 AACCCCT
*
9597073 AACCCTT
1 AACCCCT
*
9597080 AAACCCT
1 AACCCCT
9597087 AA
1 AA
9597089 ACCTTAAACT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (7 bp):
AACCCCT
Found at i:9597036 original size:14 final size:15
Alignment explanation
Indices: 9597017--9597054 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
9597007 ATAAATTATA
9597017 AACCCCTAACCT-TT
1 AACCCCTAACCTCTT
9597031 AACCCCTAA-CTCTT
1 AACCCCTAACCTCTT
9597045 AACCCCTAAC
1 AACCCCTAAC
9597055 ACCTAAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCCTAACCTCTT
Found at i:9597183 original size:21 final size:21
Alignment explanation
Indices: 9597159--9597238 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
9597149 ATTAACTATA
*
9597159 AACCCTAAACCCCTAACCCTT
1 AACCCTAAACCCCTAAACCTT
** * * *
9597180 AACCCCCAGCACCTAAAACTT
1 AACCCTAAACCCCTAAACCTT
* * * *
9597201 AAACCTTAACCCTTAAACCAT
1 AACCCTAAACCCCTAAACCTT
9597222 AATCCCTAAACCCCTAA
1 AA-CCCTAAACCCCTAA
9597239 CCTATATCAT
Statistics
Matches: 41, Mismatches: 17, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
21 30 0.73
22 11 0.27
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.19
Consensus pattern (21 bp):
AACCCTAAACCCCTAAACCTT
Found at i:9597240 original size:121 final size:121
Alignment explanation
Indices: 9597045--9597271 Score: 267
Period size: 121 Copynumber: 1.9 Consensus size: 121
9597035 CCTAACTCTT
* ** * * *
9597045 AACCCCTAACACCTAAACCCTAAGCACTAACCCTTAAACCCTAAACCTTAAACTATATTTCCTAA
1 AACCCCTAACACCTAAACCCCAAGCACTAAAACTTAAACCCTAAACCTTAAACCATAATCCCTAA
** * *
9597110 AACTTTAACCCAAATCCCTTAAACCTTGAATCATAAAACATTAACTATAAACCCTA
66 AACCCTAACCCAAATCACTTAAACCATGAATCATAAAACATTAACTATAAACCCTA
* * * *
9597166 AACCCCTAAC-CCTTAACCCCCAGCACCTAAAACTTAAACCTTAACCCTTAAACCATAATCCCTA
1 AACCCCTAACACCTAAACCCCAAGCA-CTAAAACTTAAACCCTAAACCTTAAACCATAATCCCTA
* * * * *
9597230 AACCCCTAACCTATATCATTTAAACCATGAATCATAGAACAT
65 AAACCCTAACCCAAATCACTTAAACCATGAATCATAAAACAT
9597272 ATATAAACTA
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
120 12 0.14
121 74 0.86
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (121 bp):
AACCCCTAACACCTAAACCCCAAGCACTAAAACTTAAACCCTAAACCTTAAACCATAATCCCTAA
AACCCTAACCCAAATCACTTAAACCATGAATCATAAAACATTAACTATAAACCCTA
Found at i:9597294 original size:39 final size:39
Alignment explanation
Indices: 9597251--9597333 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
9597241 TATATCATTT
* *
9597251 AAACCATGAATCATAGAACATATATAAACTATAAACCTG
1 AAACCATGAATCACAAAACATATATAAACTATAAACCTG
* *
9597290 AAACCCTGAATCACAAAACATATATAAACTATAAACCTT
1 AAACCATGAATCACAAAACATATATAAACTATAAACCTG
9597329 AAACC
1 AAACC
9597334 TTAACCCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.22
Consensus pattern (39 bp):
AAACCATGAATCACAAAACATATATAAACTATAAACCTG
Found at i:9597709 original size:114 final size:113
Alignment explanation
Indices: 9597391--9598070 Score: 487
Period size: 114 Copynumber: 6.1 Consensus size: 113
9597381 ATCCCTAAAA
* * *
9597391 CACTAATGCCTCTAAAGCTTAACAAAAAAA-GAGC-TTGTTTTGC-TAA-ACTATTTGCGGCG-T
1 CACTAATGTCTCTAAAGC-TAAAAAAAAAATGA-CATCG-TTTGCTTAACACT-TTTGCGGCGCT
* * * * * * *
9597451 TTTCAAAAAAGTGCCGCTAATGCTTGACTTCTACGGCATTTTTCTA-AAAGCGC
62 TTT-GAGAAAGCGTCGCTAATGCTTGACTTTTGCGGC-GTTTTCTAGAAAGCGC
* * * * * * * ***
9597504 CACTAATGTGTCTAAAG-TTAAAAAAAAATGTCGTCGTTCGCTTAAAAACTTCTGCGGCGCTACC
1 CACTAATGTCTCTAAAGCTAAAAAAAAAATGACATCGTTTGCTT-AACACTTTTGCGGCGCTTTT
* * * *
9597568 CAAAAAGC-ACAGCTAGTGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGC
65 GAGAAAGCGTC-GCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGC
* ** * *
9597617 CACTAATGTCTCTAAAGCTAAAAAATAAAACGATGTCGTTTGCTTAACACTTTTGCGGCGCGTTA
1 CACTAATGTCTCTAAAGCTAAAAAA-AAAATGACATCGTTTGCTTAACACTTTTGCGGCGCTTTT
* * * *
9597682 GGGAAAGCGTCGCTACTGCTTGACTTTTGCGGCGTTTT-TTGAAAAGGGC
65 GAGAAAGCGTCGCTAATGCTTGACTTTTGCGGCGTTTTCTAG-AAAGCGC
* * * *
9597731 CACTAATGTCTCTAAAGCTTAACAAAAAAATGACATCGCTTGCTTAAAACTTTTGCGGCTC-TTT
1 CACTAATGTCTCTAAAGC-TAAAAAAAAAATGACATCGTTTGCTTAACACTTTTGCGGCGCTTTT
* ** *
9597795 ---------TCGCTAATACTTGACTTTTTAGGACGTTTTCTAAAAAGCGC
65 GAGAAAGCGTCGCTAATGCTTGACTTTTGCGG-CGTTTTCTAGAAAGCGC
*
9597836 CACTAATGTCTCTAAAGCT--AAAAAAAATGACGTCGTTTGCTTAGA-ACTTTTGCGGCGCTTTT
1 CACTAATGTCTCTAAAGCTAAAAAAAAAATGACATCGTTTGCTTA-ACACTTTTGCGGCGCTTTT
* * *
9597898 GAGAAAGTGTCGCTAATACTTGACTTTTGCGGCG-TTTCTTGAAA-CTGC
65 GAGAAAGCGTCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGC-GC
** * * * * *
9597946 CACTAACATCTTTGAAGCTCAACAAGTAAAAA--ACATCGTTTGGCTTAACTCTTTTGCGACGCT
1 CACTAATGTCTCTAAAGCT-AA-AA-AAAAAATGACATCGTTT-GCTTAACACTTTTGCGGCGCT
* * * * * *
9598009 TTTGAGAAAGCGCCGCTAGTGCTTGACTTTTGTGGCATTTTTTA-AAGGCGC
62 TTTGAGAAAGCGTCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGC
9598060 CACTAATGTCT
1 CACTAATGTCT
9598071 TTGAAGTGCA
Statistics
Matches: 452, Mismatches: 79, Indels: 71
0.75 0.13 0.12
Matches are distributed among these distances:
102 33 0.07
103 4 0.01
104 20 0.04
105 30 0.07
106 1 0.00
109 1 0.00
110 25 0.06
111 16 0.04
112 33 0.07
113 86 0.19
114 171 0.38
115 32 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (113 bp):
CACTAATGTCTCTAAAGCTAAAAAAAAAATGACATCGTTTGCTTAACACTTTTGCGGCGCTTTTG
AGAAAGCGTCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGC
Found at i:9597897 original size:102 final size:104
Alignment explanation
Indices: 9597691--9597897 Score: 285
Period size: 102 Copynumber: 2.0 Consensus size: 104
9597681 AGGGAAAGCG
* * * * * *
9597691 TCGCTACTGCTTGACTTTTGCGGCGTTTTTTGAAAAGGGCCACTAATGTCTCTAAAGCTTAACAA
1 TCGCTAATACTTGACTTTTGAGGCGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCTTAACAA
*
9597756 AAAAATGACATCGCTTGCTTAAAACTTTTGCGGCTCTTT
66 AAAAATGACATCGCTTGCTTAAAACTTTTGCGGCGCTTT
*
9597795 TCGCTAATACTTGACTTTTTAGGACGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGC-T-A-A
1 TCGCTAATACTTGACTTTTGAGG-CGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCTTAACA
* * *
9597857 AAAAAATGACGTCGTTTGCTTAGAACTTTTGCGGCGCTTT
65 AAAAAATGACATCGCTTGCTTAAAACTTTTGCGGCGCTTT
9597897 T
1 T
9597898 GAGAAAGTGT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 38 0.42
103 1 0.01
104 20 0.22
105 32 0.35
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (104 bp):
TCGCTAATACTTGACTTTTGAGGCGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCTTAACAA
AAAAATGACATCGCTTGCTTAAAACTTTTGCGGCGCTTT
Found at i:9598002 original size:216 final size:216
Alignment explanation
Indices: 9597586--9598003 Score: 540
Period size: 216 Copynumber: 1.9 Consensus size: 216
9597576 ACAGCTAGTG
* * *
9597586 CTTGACTTTTGCGGCGTTTTCTAGAAAGCGCCACTAATGTCTCTAAAGCTAAAAAATAAAACGAT
1 CTTGACTTTTGAGGCGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCT-AAAAATAAAACGAC
* * *
9597651 GTCGTTTGCTTAACACTTTTGCGGCGCGTTAGGGAAAGCGTCGCTACTGCTTGACTTTTGCGGCG
65 GTCGTTTGCTTAACACTTTTGCGGCGCGTTAGAGAAAGCGTCGCTAATACTTGACTTTTGCGGCG
* * ** *
9597716 TTTTTTGAAAAGGGCCACTAATGTCTCTAAAGCTTAACAAAAAAATGACATCGCTTGCTTAAAAC
130 TTTCTTGAAAACGGCCACTAACATCTCTAAAGCTCAACAAAAAAA-GACATCGCTTGCTTAAAAC
9597781 TTTTGCGGCTCTTTTCGCTAATA
194 TTTTGCGGCTCTTTTCGCTAATA
* *
9597804 CTTGACTTTTTAGGACGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCT-AAAA-AAAATGAC
1 CTTGACTTTTGAGG-CGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCTAAAAATAAAACGAC
* * *
9597867 GTCGTTTGCTTAGA-ACTTTTGCGGCGCTTTTGAGAAAGTGTCGCTAATACTTGACTTTTGCGGC
65 GTCGTTTGCTTA-ACACTTTTGCGGCGCGTTAGAGAAAGCGTCGCTAATACTTGACTTTTGCGGC
* * * *
9597931 GTTTCTTG-AAACTGCCACTAACATCTTTGAAGCTCAACAAGTAAAAA-ACATCGTTTGGCTTAA
129 GTTTCTTGAAAACGGCCACTAACATCTCTAAAGCTCAACAA--AAAAAGACATCGCTT-GCTTAA
**
9597994 CTCTTTTGCG
191 AACTTTTGCG
9598004 ACGCTTTTGA
Statistics
Matches: 173, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
215 33 0.19
216 83 0.48
217 10 0.06
218 12 0.07
219 35 0.20
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (216 bp):
CTTGACTTTTGAGGCGTTTTCTAAAAAGCGCCACTAATGTCTCTAAAGCTAAAAATAAAACGACG
TCGTTTGCTTAACACTTTTGCGGCGCGTTAGAGAAAGCGTCGCTAATACTTGACTTTTGCGGCGT
TTCTTGAAAACGGCCACTAACATCTCTAAAGCTCAACAAAAAAAGACATCGCTTGCTTAAAACTT
TTGCGGCTCTTTTCGCTAATA
Found at i:9606009 original size:29 final size:29
Alignment explanation
Indices: 9605967--9606023 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
9605957 CTGTACTTAT
9605967 TGGCTAAACCAAAAATTCTGAAAATTTTA
1 TGGCTAAACCAAAAATTCTGAAAATTTTA
9605996 TGGCTAAACCAAAAATTCTGAAAATTTT
1 TGGCTAAACCAAAAATTCTGAAAATTTT
9606024 TTGGTAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (29 bp):
TGGCTAAACCAAAAATTCTGAAAATTTTA
Found at i:9614860 original size:12 final size:14
Alignment explanation
Indices: 9614821--9614856 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
9614811 GACTCTATTT
9614821 TAATTATATTAAGA
1 TAATTATATTAAGA
9614835 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
9614850 TAATTAT
1 TAATTAT
9614857 TAAGGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:9616147 original size:15 final size:14
Alignment explanation
Indices: 9616126--9616161 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
9616116 ATAATCCTTA
*
9616126 ATAATTATCTTAAT
1 ATAATTATCCTAAT
9616140 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
9616155 ATAATTA
1 ATAATTA
9616162 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:9622884 original size:28 final size:27
Alignment explanation
Indices: 9622824--9622884 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
9622814 TTTTAACTTT
*
9622824 AAATTTTTAAAAAATAATTATATTTTT
1 AAATTTTTAAAAAATAATTATATTTTA
* * **
9622851 ATATTTTCTAGAAAATTTTTATATTTTA
1 AAATTTT-TAAAAAATAATTATATTTTA
9622879 AAATTT
1 AAATTT
9622885 CCAGTTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (27 bp):
AAATTTTTAAAAAATAATTATATTTTA
Found at i:9628898 original size:20 final size:20
Alignment explanation
Indices: 9628858--9628898 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9628848 ATGTTGTTAC
* *
9628858 ACCACTGCCAAGCACGCCAA
1 ACCACTGACAAGCACACCAA
*
9628878 ACCACTGACAAGCACATCAA
1 ACCACTGACAAGCACACCAA
9628898 A
1 A
9628899 TTTAACTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.39, G:0.12, T:0.07
Consensus pattern (20 bp):
ACCACTGACAAGCACACCAA
Found at i:9629463 original size:6 final size:6
Alignment explanation
Indices: 9629452--9629480 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9629442 TAAGGCATGC
9629452 CTATGG CTATGG CTATGG CTATGG CTATG
1 CTATGG CTATGG CTATGG CTATGG CTATG
9629481 ATTACTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (6 bp):
CTATGG
Found at i:9629955 original size:9 final size:9
Alignment explanation
Indices: 9629941--9629977 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9629931 TATAGTTTGA
9629941 TATTCGAAT
1 TATTCGAAT
9629950 TATTCGAAT
1 TATTCGAAT
*
9629959 TATTCGAGT
1 TATTCGAAT
9629968 TATTCGAAT
1 TATTCGAAT
9629977 T
1 T
9629978 TGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9630047 original size:9 final size:9
Alignment explanation
Indices: 9630030--9630060 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9630020 TCGAGTTGAT
9630030 TCGAATAAC
1 TCGAATAAC
*
9630039 TCGATTAAC
1 TCGAATAAC
9630048 TCGAATAAC
1 TCGAATAAC
9630057 TCGA
1 TCGA
9630061 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9641107 original size:10 final size:9
Alignment explanation
Indices: 9641067--9641106 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
9641057 TAGTTATTCT
*
9641067 AAAAGATTA
1 AAAAAATTA
9641076 AAAAAATTA
1 AAAAAATTA
9641085 AAAAAATTCA
1 AAAAAATT-A
*
9641095 AATAAATTA
1 AAAAAATTA
9641104 AAA
1 AAA
9641107 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (9 bp):
AAAAAATTA
Found at i:9641835 original size:33 final size:33
Alignment explanation
Indices: 9641796--9641858 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
9641786 TTATTATATA
*
9641796 AATTTGT-AAATG-TTAGTTTATTATTTATTACTT
1 AATTTGTGAAA-GATTA-TTTATTATGTATTACTT
9641829 AATTTGTGAAAGATTATTTATTATGTATTA
1 AATTTGTGAAAGATTATTTATTATGTATTA
9641859 TATATGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (33 bp):
AATTTGTGAAAGATTATTTATTATGTATTACTT
Found at i:9646897 original size:16 final size:18
Alignment explanation
Indices: 9646870--9646902 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9646860 TAGAATTGGG
9646870 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
9646887 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
9646903 GTTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:9648895 original size:2 final size:2
Alignment explanation
Indices: 9648888--9648937 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
9648878 ATCTTCAAAT
9648888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9648930 TA TA TA TA
1 TA TA TA TA
9648938 GAAAAACCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9651257 original size:4 final size:4
Alignment explanation
Indices: 9651248--9651296 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
9651238 TAATAGGACT
*
9651248 AGTA AGTA AGTT AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA
9651296 A
1 A
9651297 TAATAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (4 bp):
AGTA
Found at i:9651302 original size:3 final size:3
Alignment explanation
Indices: 9651294--9651342 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
9651284 AGTAAGTAAG
9651294 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9651342 T
1 T
9651343 TGTTGACACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9651896 original size:112 final size:112
Alignment explanation
Indices: 9651694--9651902 Score: 355
Period size: 112 Copynumber: 1.9 Consensus size: 112
9651684 GAAATTCAAG
* * * *
9651694 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTAAACAAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
*
9651759 GAATTTCCCAAATGCAAAACATTGCCTTATTTCAAAAATTTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTCAAAAATTTTTTAAA
*
9651806 AGGATATTTAGCCATTTGGTTGAACAAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTAAACAAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
*
9651871 GAATTTCCCAAACGCAAAACGTTGCCTTATTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTT
9651903 GNNNNNNNNN
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 90 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (112 bp):
AGGATATTTAGCCATTTGGTTAAACAAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
GAATTTCCCAAACGCAAAACATTGCCTTATTTCAAAAATTTTTTAAA
Found at i:9652461 original size:2 final size:2
Alignment explanation
Indices: 9652406--9652449 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
9652396 AAAAAAAAAC
9652406 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9652449 A
1 A
9652450 GGTGTGTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9652626 original size:2 final size:2
Alignment explanation
Indices: 9652619--9652654 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9652609 GAAAATGTAC
9652619 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
9652655 TAGCAAAACA
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:9653930 original size:86 final size:86
Alignment explanation
Indices: 9653771--9654030 Score: 391
Period size: 86 Copynumber: 3.0 Consensus size: 86
9653761 TACAGCTCAT
* * *
9653771 ATCGAAGACACAAA-CCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTG
1 ATCGAA-A-ACAAAGCCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTG
*
9653834 CCTTCC-GCGTTAATAGCGAAGCAG
62 CCTTCCTGCGTTAACAGCGAAGCAG
*
9653858 ATCGAAAACAAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
9653923 CCTGCGTTAACAACGAAGCAG
66 CCTGCGTTAACAGCGAAGCAG
*
9653944 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGCAGATCTTGCCTT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
9654009 CCTGCGTTAACAGCGGAGCAG
66 CCTGCGTTAACAGCGAAGCAG
9654030 A
1 A
9654031 CTGAAGATAG
Statistics
Matches: 160, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
85 22 0.14
86 132 0.82
87 6 0.04
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (86 bp):
ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
CCTGCGTTAACAGCGAAGCAG
Found at i:9654113 original size:43 final size:40
Alignment explanation
Indices: 9654065--9654158 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
9654055 TTGTACCGAC
*
9654065 AGTGGAGCAAATCGAAACCACCAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAAATCG-AACCA--AGTCTTATCTCCCTAAGCAAT
* * * *
9654108 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAAT
1 AGTGGAGCAAATCGAACCAAGTCTTATCTCCCTAAGCAAT
9654148 AGTGGAGCAAA
1 AGTGGAGCAAA
9654159 CAGAAGAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 29 0.64
42 3 0.07
43 13 0.29
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
AGTGGAGCAAATCGAACCAAGTCTTATCTCCCTAAGCAAT
Found at i:9654920 original size:14 final size:14
Alignment explanation
Indices: 9654884--9654920 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9654874 TGCTACTATT
*
9654884 TTACTATTATGTTG
1 TTACTATTTTGTTG
9654898 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
9654912 TTATTATTT
1 TTACTATTT
9654921 GGATATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:9654979 original size:30 final size:30
Alignment explanation
Indices: 9654945--9655007 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
9654935 ACTTATTTTA
9654945 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
9654975 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
9655005 TTG
1 TTG
9655008 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:9655145 original size:11 final size:11
Alignment explanation
Indices: 9655129--9655159 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9655119 TATATATATT
9655129 TAAAAATTATA
1 TAAAAATTATA
*
9655140 TAAAAATAATA
1 TAAAAATTATA
9655151 TAAAAATTA
1 TAAAAATTA
9655160 ATACAGGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:9655477 original size:28 final size:26
Alignment explanation
Indices: 9655434--9655534 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 26
9655424 AACATTTAAT
* *
9655434 AAATTTAGATATCAAATTGAACCAAAAA
1 AAATTTAGGTACCAAATTGAA--AAAAA
9655462 AAATTTAGGTACCAAATTGAAAAAAAA
1 AAATTTAGGTACCAAATTG-AAAAAAA
* * * *
9655489 ATCAAGTTCAGGTACTAAATTGGATAAAA
1 A--AA-TTTAGGTACCAAATTGAAAAAAA
9655518 AAATTTAGGTA-CAAATT
1 AAATTTAGGTACCAAATT
9655535 TTGGAAAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
25 5 0.08
26 7 0.11
27 8 0.13
28 17 0.28
29 10 0.16
30 14 0.23
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (26 bp):
AAATTTAGGTACCAAATTGAAAAAAA
Found at i:9662641 original size:12 final size:12
Alignment explanation
Indices: 9662614--9662652 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9662604 ATGCAAATGA
9662614 AATAATTTAA-T
1 AATAATTTAATT
9662625 AATAATTTAATT
1 AATAATTTAATT
9662637 AATAATATT-ATT
1 AATAAT-TTAATT
9662649 AATA
1 AATA
9662653 TAACAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 14 0.54
13 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATAATTTAATT
Found at i:9663814 original size:76 final size:77
Alignment explanation
Indices: 9663696--9663855 Score: 180
Period size: 76 Copynumber: 2.1 Consensus size: 77
9663686 CACCTAGTGC
* * * * *
9663696 CTCATCGGAATGTCCTGAAGTAAATAGATTGTGCCCAGCGCTCATCAGTTTAACCGAAGTAGTAA
1 CTCATCGAAATGTCCTGAAGCAAATAGATTGCGCCCAACGCTCATCAGTTTAACCGAAGTAATAA
9663761 TTGTG-CCTAACA
66 TTGTGTCC-AACA
* * * ** **
9663773 CTCATCGAAATGT-TTGAAGCAAGTAGATTGCGCGCAACGCTCATTGGTTTAATTGAAGTAATAA
1 CTCATCGAAATGTCCTGAAGCAAATAGATTGCGCCCAACGCTCATCAGTTTAACCGAAGTAATAA
*
9663837 TTGTGTCCAGCA
66 TTGTGTCCAACA
9663849 CTCATCG
1 CTCATCG
9663856 CATATAGTTG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
76 55 0.80
77 14 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (77 bp):
CTCATCGAAATGTCCTGAAGCAAATAGATTGCGCCCAACGCTCATCAGTTTAACCGAAGTAATAA
TTGTGTCCAACA
Found at i:9665579 original size:54 final size:54
Alignment explanation
Indices: 9665497--9665620 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
9665487 GTGTCCCAGC
* *
9665497 CTGTGTAACTCACTGAGATGCCCTACACGCTCGTGTGTTAGGCTGTGTGCTAGA
1 CTGTGTAACTCACTGAGATGCCCTACACGCCCGTGTGTCAGGCTGTGTGCTAGA
* * * *
9665551 CTGTGTAACTCTCTGAGTTGCCAC-ACACGCCCGTGTGTCAGGCTGTGTGCTTGG
1 CTGTGTAACTCACTGAGATGCC-CTACACGCCCGTGTGTCAGGCTGTGTGCTAGA
*
9665605 CCGTGTAACTCACTGA
1 CTGTGTAACTCACTGA
9665621 CTTGAACGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 60 0.98
55 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (54 bp):
CTGTGTAACTCACTGAGATGCCCTACACGCCCGTGTGTCAGGCTGTGTGCTAGA
Found at i:9666377 original size:40 final size:39
Alignment explanation
Indices: 9666314--9666503 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 39
9666304 AGGATTACCA
* *
9666314 AAGTACCAACAAGGGCACATATGTGCATTCAGTGGTATCG
1 AAGTACAAACAAGGGCACGTATGTGCATTCAG-GGTATCG
* * **
9666354 AAGTACAAACAAGGACATGTATGTGCATTCAAGGGTGCCG
1 AAGTACAAACAAGGGCACGTATGTGCATTC-AGGGTATCG
* *
9666394 AAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTA-CTA
1 AAGTACAAACAAGGGCACGTATGTGCATTCA-GGGTATC-G
* * *
9666434 AAGTACAAA-AATGACACATATGTGCATTCAGGGTATCG
1 AAGTACAAACAAGGGCACGTATGTGCATTCAGGGTATCG
* *
9666472 AAATACAAACAGGGGCACGTATGTGCATTCAG
1 AAGTACAAACAAGGGCACGTATGTGCATTCAG
9666504 ATAATAATTA
Statistics
Matches: 124, Mismatches: 21, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
38 13 0.10
39 38 0.31
40 71 0.57
41 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (39 bp):
AAGTACAAACAAGGGCACGTATGTGCATTCAGGGTATCG
Found at i:9666491 original size:78 final size:80
Alignment explanation
Indices: 9666321--9666503 Score: 246
Period size: 78 Copynumber: 2.3 Consensus size: 80
9666311 CCAAAGTACC
* * * * **
9666321 AACAAGGGCACATATGTGCATTCAGTGGTATCGAAGTACAAACAAGGACATGTATGTGCATTCAA
1 AACAGGGGCACGTATGTGCATTCAGGGGTATCAAAGTACAAACAAGGACACATATGTGCATTCAA
* *
9666386 GGGTGCCGAAGTACA
66 GGGTACCGAAATACA
*
9666401 AACAGGGGCACGTATGTGCATTCAGGGGTA-CTAAAGTACAAA-AATGACACATATGTGCATTC-
1 AACAGGGGCACGTATGTGCATTCAGGGGTATC-AAAGTACAAACAAGGACACATATGTGCATTCA
*
9666463 AGGGTATCGAAATACA
65 AGGGTACCGAAATACA
9666479 AACAGGGGCACGTATGTGCATTCAG
1 AACAGGGGCACGTATGTGCATTCAG
9666504 ATAATAATTA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 38 0.41
79 18 0.20
80 36 0.39
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (80 bp):
AACAGGGGCACGTATGTGCATTCAGGGGTATCAAAGTACAAACAAGGACACATATGTGCATTCAA
GGGTACCGAAATACA
Found at i:9670684 original size:21 final size:21
Alignment explanation
Indices: 9670638--9670687 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
9670628 TTTTGGCCTA
* *
9670638 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
9670659 TTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
9670680 CTCTGCTT
1 CTCTGCTT
9670688 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.42, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:9676218 original size:9 final size:9
Alignment explanation
Indices: 9676204--9676406 Score: 183
Period size: 9 Copynumber: 23.2 Consensus size: 9
9676194 GTCTAAGTTA
9676204 TTATGTAAG
1 TTATGTAAG
9676213 TTATGTAAG
1 TTATGTAAG
9676222 TTAAATGT-A-
1 TT--ATGTAAG
*
9676231 TTATGTAGG
1 TTATGTAAG
9676240 TTATGTAAG
1 TTATGTAAG
* *
9676249 TTGTGTGAG
1 TTATGTAAG
* *
9676258 ATATTTAAG
1 TTATGTAAG
9676267 TTATGTAAG
1 TTATGTAAG
*
9676276 TTTTGT-A-
1 TTATGTAAG
9676283 TTATGTAAG
1 TTATGTAAG
9676292 TTATGTAAG
1 TTATGTAAG
9676301 TTATGTAAG
1 TTATGTAAG
9676310 TTAAATGT-A-
1 TT--ATGTAAG
*
9676319 TTATGTAGG
1 TTATGTAAG
9676328 TTATGTAAG
1 TTATGTAAG
*
9676337 TTGTGTAAG
1 TTATGTAAG
* *
9676346 ATATTTAAG
1 TTATGTAAG
9676355 TTATGTAAG
1 TTATGTAAG
*
9676364 TTTTGT-A-
1 TTATGTAAG
9676371 TTATGTAAG
1 TTATGTAAG
*
9676380 TTATGTATG
1 TTATGTAAG
*
9676389 CTATGT-A-
1 TTATGTAAG
9676396 TTATGTAAG
1 TTATGTAAG
9676405 TT
1 TT
9676407 GTCTAAGATA
Statistics
Matches: 154, Mismatches: 26, Indels: 28
0.74 0.12 0.13
Matches are distributed among these distances:
7 23 0.15
8 5 0.03
9 116 0.75
10 2 0.01
11 8 0.05
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9676324 original size:88 final size:88
Alignment explanation
Indices: 9676204--9676395 Score: 357
Period size: 88 Copynumber: 2.2 Consensus size: 88
9676194 GTCTAAGTTA
*
9676204 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTGAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
9676269 ATGTAAGTTTTGTATTATGTAAG
66 ATGTAAGTTTTGTATTATGTAAG
9676292 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
9676357 ATGTAAGTTTTGTATTATGTAAG
66 ATGTAAGTTTTGTATTATGTAAG
* *
9676380 TTATGTATGCTATGTA
1 TTATGTAAGTTATGTA
9676396 TTATGTAAGT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 101 1.00
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (88 bp):
TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
ATGTAAGTTTTGTATTATGTAAG
Found at i:9677055 original size:251 final size:251
Alignment explanation
Indices: 9676435--9677354 Score: 1754
Period size: 250 Copynumber: 3.7 Consensus size: 251
9676425 GTTATGCAAG
9676435 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
*
9676500 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATATAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
* *
9676565 GTATTTACTTTATTTGTATTAATCACATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
9676630 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAG-AAATTTTTT
196 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
9676685 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
9676750 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
*
9676815 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAAATTTTTTTG
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
9676880 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
196 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
9676936 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
9677001 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
9677066 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
*
9677131 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTATAAAA-TTTTT
196 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
*
9677186 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGTCCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
*
9677251 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTGAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
*
9677316 GTATTTACTTTATTTTTATTAATCATGTGTTTTAGTTAT
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTAT
9677355 GTCGATTTAA
Statistics
Matches: 660, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
250 408 0.62
251 252 0.38
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (251 bp):
TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
Found at i:9677243 original size:501 final size:501
Alignment explanation
Indices: 9676435--9677354 Score: 1768
Period size: 501 Copynumber: 1.8 Consensus size: 501
9676425 GTTATGCAAG
9676435 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
9676500 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATATAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATATAAGTATA
9676565 GTATTTACTTTATTTGTATTAATCACATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
131 GTATTTACTTTATTTGTATTAATCACATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
*
9676630 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAATTTTTTTTTACATATG
196 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTTTTACATATG
9676695 ATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGTTATATTTCCT
261 ATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGTTATATTTCCT
9676760 TAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATAGTATTTACTT
326 TAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATAGTATTTACTT
9676825 TATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAAATTTTTTTGTTTTATATAA
391 TATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAAATTTTTTTGTTTTATATAA
9676890 TTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
456 TTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
9676936 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
*
9677001 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATATAAGTATA
* *
9677066 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
131 GTATTTACTTTATTTGTATTAATCACATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
*
9677131 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTATAAAATTTTTTTTACATATG
196 TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTTTTACATATG
*
9677196 ATTAATGAAAAGAAATAAACACTTTAAAAAGATGTCCATTTGCTCAAATTGATGTTATATTTCCT
261 ATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGTTATATTTCCT
*
9677261 TAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTGAGTATAGTATTTACTT
326 TAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATAGTATTTACTT
*
9677326 TATTTTTATTAATCATGTGTTTTAGTTAT
391 TATTTTTATTAATCATATGTTTTAGTTAT
9677355 GTCGATTTAA
Statistics
Matches: 411, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
501 411 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (501 bp):
TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATATAAGTATA
GTATTTACTTTATTTGTATTAATCACATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTTG
TTTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTTTTACATATG
ATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGTTATATTTCCT
TAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATAGTATTTACTT
TATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAAATTTTTTTGTTTTATATAA
TTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAATTTTTT
Found at i:9677875 original size:3 final size:3
Alignment explanation
Indices: 9677867--9677904 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9677857 ATATGTAGTG
9677867 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9677905 TTAACAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9680053 original size:16 final size:17
Alignment explanation
Indices: 9680016--9680090 Score: 109
Period size: 17 Copynumber: 4.5 Consensus size: 17
9680006 ACATTATATA
9680016 ATATAATAAACTACATT
1 ATATAATAAACTACATT
9680033 ATATAATAAACTACA-T
1 ATATAATAAACTACATT
** *
9680049 ATATAATAAAAGA-AAT
1 ATATAATAAACTACATT
9680065 ATATAATAAACTACATT
1 ATATAATAAACTACATT
9680082 ATATAATAA
1 ATATAATAA
9680091 TCTAGCGGCG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
15 1 0.02
16 24 0.47
17 26 0.51
ACGTcount: A:0.59, C:0.08, G:0.01, T:0.32
Consensus pattern (17 bp):
ATATAATAAACTACATT
Found at i:9680295 original size:113 final size:112
Alignment explanation
Indices: 9680110--9680439 Score: 405
Period size: 113 Copynumber: 2.9 Consensus size: 112
9680100 GCTTCCTACA
* * * *
9680110 ACGCGGCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCACAACTGCTAGTATACATC
1 ACGCGCCGCTAATACTATGATTTAGCGGCGTTTTACCATAAGCGCCACAA-TGCTAATATACATC
9680175 AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAAT
65 AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAAT
* * * *
9680223 ACGCGCCGCTAATACTATGATTTAGCGGCGTTTT-CAAATAAGCGCCACTAATCCTAATGTACCT
1 ACGCGCCGCTAATACTATGATTTAGCGGCGTTTTAC-CATAAGCGCCAC-AATGCTAATATACAT
* * * ** * *
9680287 CAACACCAAA-CTCTGCGTTTTGGTTAAGAAAGATTGCGGCGCTTTTCAGT
64 CAAGACCAAAGCGCTGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTACAAT
* * * *
9680337 ACTCGCCGCTAATACTAT-ACTTTAGCGGCATTTTAGCATAAGCGCCACAATGCTACTATACATC
1 ACGCGCCGCTAATACTATGA-TTTAGCGGCGTTTTACCATAAGCGCCACAATGCTAATATACATC
*
9680401 AAGACCAAAGCGCAGCGTTTTGGTTAATATTTTGCGGCG
65 AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCG
9680440 TTTTCCAAAT
Statistics
Matches: 181, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
112 25 0.14
113 83 0.46
114 73 0.40
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (112 bp):
ACGCGCCGCTAATACTATGATTTAGCGGCGTTTTACCATAAGCGCCACAATGCTAATATACATCA
AGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAAT
Found at i:9680626 original size:188 final size:187
Alignment explanation
Indices: 9680247--9680632 Score: 424
Period size: 186 Copynumber: 2.1 Consensus size: 187
9680237 CTATGATTTA
* *
9680247 GCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAACACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCAAATAAGCGCCACTAATCCTAATATACCGCAACACCAAACTCTGCGTTTTGGTT
* * * *
9680312 AAGAAAGATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATA
66 AAGAAAGATTGCGGCACTTTACAATACGCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATA
* * * **
9680377 AGCGCCACAATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATATTTT
131 AGCGCCACAATGCTAATATACATCAACACCAAAGCGCAGCGTTTTGGTTAAAAGATT
* *
9680434 GCGGCGTTTTCCAAATAAGCGTCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTT-CAAATAAGCGCCACTAATCCTAATATACCGCAACACCAAACTCTGCGTTTTGGT
* ** * * * * * *
9680499 T-A-ATATTTTGTGGCACTTTACAATACGCGCCGCTAATATTATGCTTTAGTGGCGTTTTCA-TA
65 TAAGAAAGATTGCGGCACTTTACAATACGCGCCGCTAATACTATACTTTAGCGGCATTTT-AGCA
* * * *
9680561 TAAGTGCCACTAAT-CGTAATGTACCTCAACACCAAA-CTCTA-CGTTTTGGTTAAGAAAGATT
129 TAAGCGCCAC-AATGC-TAATATACATCAACACCAAAGCGC-AGCGTTTTGGTT-A-AAAGATT
9680622 GCGGCGCTTTT
1 GCGGCG-TTTT
9680633 AAGTACTCGC
Statistics
Matches: 165, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
186 67 0.41
187 33 0.20
188 61 0.37
189 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (187 bp):
GCGGCGTTTTCAAATAAGCGCCACTAATCCTAATATACCGCAACACCAAACTCTGCGTTTTGGTT
AAGAAAGATTGCGGCACTTTACAATACGCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATA
AGCGCCACAATGCTAATATACATCAACACCAAAGCGCAGCGTTTTGGTTAAAAGATT
Found at i:9680676 original size:300 final size:300
Alignment explanation
Indices: 9680129--9680916 Score: 1172
Period size: 300 Copynumber: 2.6 Consensus size: 300
9680119 TAATAATATG
* * ** *
9680129 TTTTAGCGGCGTTTTACC-ATAAGCGCCAC-AACTGCTAGTATACATCAAGACCAAAGCGCTGCG
1 TTTT-GCGGCGTTTT-CCAATAAGCGCCACTAA-TCCTAATATACCGCAAGACCAAA-CTCTGCG
*
9680192 TTTTGGTTAATATTTTGCGGCGCTTTACAATACGCGCCGCTAATACTATGATTTAGCGGCGTTTT
62 TTTTGGTTAATATTTTGCGGCGCTTTACAATACGCGCCGCTAATACTATGCTTTAGCGGCGTTTT
* *
9680257 CAAATAAGCGCCACTAATCCTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATT
127 CATATAAGCGCCACTAATCGTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATT
*
9680322 GCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATAAGCGCCAC-A
192 GCGGCGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATAAGCGCCACTA
9680386 ATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
257 ATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
*
9680430 TTTTGCGGCGTTTTCCAAATAAGCGTCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
1 TTTTGCGGCGTTTTCC-AATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
* * * *
9680495 TGGTTAATATTTTGTGGCACTTTACAATACGCGCCGCTAATATTATGCTTTAGTGGCGTTTTCAT
65 TGGTTAATATTTTGCGGCGCTTTACAATACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAT
* *
9680560 ATAAGTGCCACTAATCGTAATGTACCTCAACACCAAACTCTACGTTTTGGTTAAGAAAGATTGCG
130 ATAAGCGCCACTAATCGTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATTGCG
*
9680625 GCGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTAATG
195 GCGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATAAGCGCCACTAATG
* * *
9680690 TTACTATACATTAAGACCAATGCGCAGCGTTTTGGTTAATA
260 CTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
* * *
9680731 TTTTGCGGCTTTTTCCAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCATTTT
1 TTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTT
* * ** * *
9680796 GGTTAAGAAATATTGCGGCGCTTT-CTCTACTCGCCGCTAATACTATGCTTTAGCGGCGTTTTCG
66 GGTT-A-ATATTTTGCGGCGCTTTACAATACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCA
* * * *
9680860 TATAAGCGCCACTAAT-GCTAGTGTACCTTAAGACCAAACTCTGCGTTTTCGTTAAGA
129 TATAAGCGCCACTAATCG-TAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGA
9680917 TGTATTACGG
Statistics
Matches: 440, Mismatches: 40, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
299 2 0.00
300 249 0.57
301 174 0.40
302 15 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (300 bp):
TTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTT
GGTTAATATTTTGCGGCGCTTTACAATACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCATA
TAAGCGCCACTAATCGTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATTGCGG
CGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAGCATAAGCGCCACTAATGC
TACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
Found at i:9680678 original size:114 final size:112
Alignment explanation
Indices: 9680434--9680688 Score: 280
Period size: 114 Copynumber: 2.2 Consensus size: 112
9680424 TTAATATTTT
* * * *
9680434 GCGGCGTTTTCCAAATAAGCGTCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTT-CACATAAGCGCCACTAATCCTAATATACCGCAACACCAAACTCTACGTTTTGGT
* ** * * *
9680499 TAATATTTTGTGGCACTTTACAATACGCGCCGCTAATATTATGCTTTA
65 TAAAAGATTGCGGCACTTTACAATACGCGCCGCTAATACTATACTTTA
* * * * * *
9680547 GTGGCGTTTTCATATAAGTGCCACTAATCGTAATGTACCTCAACACCAAACTCTACGTTTTGGTT
1 GCGGCGTTTTCACATAAGCGCCACTAATCCTAATATACCGCAACACCAAACTCTACGTTTTGGTT
* * *
9680612 AAGAAAGATTGCGGCGCTTTTA-AGTACTCGCCGCTAATACTATACTTTA
66 -A-AAAGATTGCGGCAC-TTTACAATACGCGCCGCTAATACTATACTTTA
9680661 GCGGCGTTTT-AGCATAAGCGCCACTAAT
1 GCGGCGTTTTCA-CATAAGCGCCACTAAT
9680689 GTTACTATAC
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
112 47 0.40
113 11 0.09
114 55 0.47
115 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (112 bp):
GCGGCGTTTTCACATAAGCGCCACTAATCCTAATATACCGCAACACCAAACTCTACGTTTTGGTT
AAAAGATTGCGGCACTTTACAATACGCGCCGCTAATACTATACTTTA
Found at i:9683698 original size:18 final size:18
Alignment explanation
Indices: 9683675--9683715 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
9683665 TGTGTTTCAA
9683675 TCTTGTTCCTTTGCAATT
1 TCTTGTTCCTTTGCAATT
9683693 TCTTGTTCCTTTGCAATT
1 TCTTGTTCCTTTGCAATT
*
9683711 GCTTG
1 TCTTG
9683716 CTGTTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.22, G:0.15, T:0.54
Consensus pattern (18 bp):
TCTTGTTCCTTTGCAATT
Found at i:9687933 original size:23 final size:23
Alignment explanation
Indices: 9687880--9687927 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
9687870 TATTAAATAT
9687880 AAACTATTCATATTTTTTGAGAA
1 AAACTATTCATATTTTTTGAGAA
*
9687903 AAACTATTCA-ATTTTTTTAGAA
1 AAACTATTCATATTTTTTGAGAA
9687925 AAA
1 AAA
9687928 TTTATTGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (23 bp):
AAACTATTCATATTTTTTGAGAA
Found at i:9689716 original size:45 final size:45
Alignment explanation
Indices: 9689652--9689741 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9689642 CTTGTTTCAA
*
9689652 AACCTAAAAATAACCATTAGATAAGAGGGAGCATTCAGTCAAGCT
1 AACCTAAAAATAACCATTAGATAAGAGGGAGCAATCAGTCAAGCT
9689697 AACCTAAAAATAACCATTAGATAAGAGGGAGCAATCAGTCAAGCT
1 AACCTAAAAATAACCATTAGATAAGAGGGAGCAATCAGTCAAGCT
9689742 TGTGTTGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.19
Consensus pattern (45 bp):
AACCTAAAAATAACCATTAGATAAGAGGGAGCAATCAGTCAAGCT
Found at i:9696783 original size:25 final size:24
Alignment explanation
Indices: 9696763--9696845 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
9696753 TCGAGCCTTA
*
9696763 TAACGGGAAGCTCATGTGAGCCAT
1 TAACGGGAAGCTCATGAGAGCCAT
* *
9696787 GTAATGGGAAGCTCCA-GAAAGCCAT
1 -TAACGGGAAGCT-CATGAGAGCCAT
*
9696812 TAACGGGAAGCTCAT-ACGAGCCAA
1 TAACGGGAAGCTCATGA-GAGCCAT
*
9696836 TATCGGGAAG
1 TAACGGGAAG
9696846 GTTCAAGCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 3 0.06
24 25 0.52
25 18 0.38
26 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (24 bp):
TAACGGGAAGCTCATGAGAGCCAT
Found at i:9696833 original size:24 final size:25
Alignment explanation
Indices: 9696724--9696845 Score: 90
Period size: 25 Copynumber: 5.0 Consensus size: 25
9696714 TCGGGGATGT
* *
9696724 TCATATGAG-CATATAAACGGAAAGC
1 TCATACGAGCCATAT-AACGGGAAGC
* * *
9696749 TCTTTCGAGCCTTATAACGGGAAGC
1 TCATACGAGCCATATAACGGGAAGC
** * *
9696774 TCATGTGAGCCATGTAATGGGAAGC
1 TCATACGAGCCATATAACGGGAAGC
* *
9696799 TCCAGA-AAGCCAT-TAACGGGAAGC
1 T-CATACGAGCCATATAACGGGAAGC
*
9696823 TCATACGAGCCA-ATATCGGGAAG
1 TCATACGAGCCATATAACGGGAAG
9696846 GTTCAAGCGA
Statistics
Matches: 75, Mismatches: 18, Indels: 9
0.74 0.18 0.09
Matches are distributed among these distances:
23 3 0.04
24 25 0.33
25 41 0.55
26 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
TCATACGAGCCATATAACGGGAAGC
Found at i:9702227 original size:25 final size:24
Alignment explanation
Indices: 9702203--9702289 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 24
9702193 GAAGATCCAT
*
9702203 TAATCGGGAAGCTCTAGATAGCCA
1 TAATCGGGAAGCTCTAGAGAGCCA
* * *
9702227 TATATCGGGAAGTTCAAGCGAGCCA
1 TA-ATCGGGAAGCTCTAGAGAGCCA
*
9702252 T-ATCGGGAAGCT-TCGAAGAGCCA
1 TAATCGGGAAGCTCTAG-AGAGCCA
**
9702275 TTAATTAGGAAGCTC
1 -TAATCGGGAAGCTC
9702290 ACAAAGATTC
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 3 0.06
25 28 0.58
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (24 bp):
TAATCGGGAAGCTCTAGAGAGCCA
Found at i:9702272 original size:23 final size:22
Alignment explanation
Indices: 9702228--9702275 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
9702218 AGATAGCCAT
9702228 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGTTCAA-CGAGCC
9702251 ATATCGGGAAGCTTCGAA-GAGCC
1 ATATCGGGAAG-TTC-AACGAGCC
9702274 AT
1 AT
9702276 TAATTAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 18 0.78
24 3 0.13
25 2 0.09
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (22 bp):
ATATCGGGAAGTTCAACGAGCC
Found at i:9702333 original size:26 final size:26
Alignment explanation
Indices: 9702205--9702349 Score: 69
Period size: 26 Copynumber: 5.8 Consensus size: 26
9702195 AGATCCATTA
*
9702205 ATCGGGAAGCTC-T-AGATAGCCATAT
1 ATCGGGAAGCTCATGA-AGAGCCATAT
* * *
9702230 ATCGGGAAGTTCAAG-CGAGCC--AT
1 ATCGGGAAGCTCATGAAGAGCCATAT
9702253 ATCGGGAAGCT--TCGAAGAGCCAT-T
1 ATCGGGAAGCTCAT-GAAGAGCCATAT
** ** ** *
9702277 AATTAGGAAGCTCACAAAGATTC-TTT
1 -ATCGGGAAGCTCATGAAGAGCCATAT
9702303 AATCGGGAAGCTCATGAAGAGCCATAT
1 -ATCGGGAAGCTCATGAAGAGCCATAT
9702330 ATCGGGACA-CTCAT-AAGAGC
1 ATCGGGA-AGCTCATGAAGAGC
9702350 TAAGGTGAGT
Statistics
Matches: 88, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
22 1 0.01
23 17 0.19
24 1 0.01
25 31 0.35
26 35 0.40
27 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (26 bp):
ATCGGGAAGCTCATGAAGAGCCATAT
Found at i:9703279 original size:26 final size:26
Alignment explanation
Indices: 9703243--9703297 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
9703233 TTCTTTTCCC
9703243 TTAGCTAGGGTTTCCATGAAAATAAT
1 TTAGCTAGGGTTTCCATGAAAATAAT
9703269 TTAGCTAGGGTTTCCATGAAAATAAT
1 TTAGCTAGGGTTTCCATGAAAATAAT
9703295 TTA
1 TTA
9703298 AGGAAAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (26 bp):
TTAGCTAGGGTTTCCATGAAAATAAT
Found at i:9713076 original size:21 final size:19
Alignment explanation
Indices: 9713052--9713114 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 19
9713042 GTGATAAAAA
9713052 ATAAAAATCAATAAAATTTAT
1 ATAAAAAT-AATAAAATTT-T
*
9713073 ATAAAAATATTAAAATTTT
1 ATAAAAATAATAAAATTTT
9713092 ATAAAAATTATATAAAATATTT
1 ATAAAAA-TA-ATAAAAT-TTT
9713114 A
1 A
9713115 AATTTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.22
20 11 0.30
21 14 0.38
22 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATAATAAAATTTT
Found at i:9713078 original size:11 final size:11
Alignment explanation
Indices: 9713062--9713109 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
9713052 ATAAAAATCA
9713062 ATAAAATTTAT
1 ATAAAATTTAT
*
9713073 ATAAAA-ATAT
1 ATAAAATTTAT
9713083 -TAAAATTT-T
1 ATAAAATTTAT
*
9713092 ATAAAAATTAT
1 ATAAAATTTAT
9713103 ATAAAAT
1 ATAAAAT
9713110 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 6 0.20
10 11 0.37
11 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAAAATTTAT
Found at i:9713096 original size:30 final size:29
Alignment explanation
Indices: 9713062--9713130 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
9713052 ATAAAAATCA
*
9713062 ATAAAATTTATATAAAAATATTAAAATTTT
1 ATAAAAATTATAT-AAAATATTAAAATTTT
*
9713092 ATAAAAATTATATAAAATATTTAAATTTT
1 ATAAAAATTATATAAAATATTAAAATTTT
9713121 ATTAAAAATT
1 A-TAAAAATT
9713131 GAAAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAAAAATTATATAAAATATTAAAATTTT
Found at i:9713116 original size:20 final size:20
Alignment explanation
Indices: 9713074--9713188 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 20
9713064 AAAATTTATA
*
9713074 TAAAAA-TAT-TAAAATTTT
1 TAAAAATTATATAAAATATT
9713092 ATAAAAATTATATAAAATATT
1 -TAAAAATTATATAAAATATT
**
9713113 TAAATTTTAT-TAAAA-ATT
1 TAAAAATTATATAAAATATT
* * *
9713131 GAAAAAATTATA-AAAAAATCA
1 -TAAAAATTATATAAAATAT-T
* *
9713152 CAAAAATTATA-AAAAAATCT
1 TAAAAATTATATAAAATAT-T
9713172 TAAATAATT-TATAAAAT
1 TAAA-AATTATATAAAAT
9713189 TGTAAATATA
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.04
19 22 0.29
20 36 0.47
21 16 0.21
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
TAAAAATTATATAAAATATT
Found at i:9713137 original size:29 final size:28
Alignment explanation
Indices: 9713072--9713229 Score: 99
Period size: 29 Copynumber: 5.5 Consensus size: 28
9713062 ATAAAATTTA
9713072 TATAAAAATATTAAAATTTTATAAAAAT
1 TATAAAAATATTAAAATTTTATAAAAAT
*
9713100 TATATAAAATATTTAAATTTTATTAAAAAT
1 TATA-AAAATATTAAAATTTTA-TAAAAAT
* ** * *
9713130 TGA-AAAAATTATAAAAAAATCACAAAAAT
1 T-ATAAAAA-TATTAAAATTTTATAAAAAT
* *
9713159 TATAAAAAAATCTTAAATAATTTAT-AAAAT
1 TAT--AAAAATATTAAA-ATTTTATAAAAAT
* * * *
9713189 TGTAAATATA-TAAAATTGTAAAAAGATAT
1 TATAAAAATATTAAAATTTTATAAA-A-AT
9713218 TATAAAAA-ATTA
1 TATAAAAATATTA
9713230 TAAAATCAAG
Statistics
Matches: 98, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
26 4 0.04
27 6 0.06
28 12 0.12
29 37 0.38
30 29 0.30
31 10 0.10
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
TATAAAAATATTAAAATTTTATAAAAAT
Found at i:9713187 original size:22 final size:20
Alignment explanation
Indices: 9713133--9713170 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9713123 TAAAAATTGA
9713133 AAAAATTATAAAAAAATCAC
1 AAAAATTATAAAAAAATCAC
9713153 AAAAATTATAAAAAAATC
1 AAAAATTATAAAAAAATC
9713171 TTAAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATTATAAAAAAATCAC
Found at i:9713305 original size:4 final size:4
Alignment explanation
Indices: 9713296--9713333 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
9713286 TGGGGAGTAT
* *
9713296 TACA TACA TACA TACA CACA TACA TACA TGCA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
9713334 TTCACTATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:9713680 original size:21 final size:21
Alignment explanation
Indices: 9713656--9713696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9713646 ATGAGATACA
* *
9713656 ACAATTTTTATAATTTTTTTT
1 ACAAATTTTATAAATTTTTTT
9713677 ACAAATTTTATAAATTTTTT
1 ACAAATTTTATAAATTTTTT
9713697 CTGTATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ACAAATTTTATAAATTTTTTT
Found at i:9713759 original size:20 final size:20
Alignment explanation
Indices: 9713731--9713777 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
9713721 CAGTTTCTTT
9713731 ATTTATTTTAAGATTCTT-ATA
1 ATTT-TTTTAA-ATTCTTAATA
* *
9713752 ATTTTTTTTAATTTTTAATA
1 ATTTTTTTAAATTCTTAATA
9713772 ATTTTT
1 ATTTTT
9713778 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 14 0.61
21 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTTTAAATTCTTAATA
Found at i:9713770 original size:17 final size:18
Alignment explanation
Indices: 9713750--9713798 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
9713740 AAGATTCTTA
9713750 TAATTTTTTTTAA-TTTT
1 TAATTTTTTTTAATTTTT
**
9713767 TAATAATTTTTAATTTTT
1 TAATTTTTTTTAATTTTT
*
9713785 TATATTTTTATTAA
1 TA-ATTTTTTTTAA
9713799 AATTTAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTTTTTTTAATTTTT
Found at i:9713822 original size:36 final size:37
Alignment explanation
Indices: 9713747--9713823 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 37
9713737 TTTAAGATTC
* ** * *
9713747 TTATAATTTTTTTTAATTTTTAATAATTTTTAATTTT
1 TTATAATTTTTATTAAAATTTAATAATTTATAATATT
9713784 TTAT-ATTTTTATTAAAATTTAATAACTTTATAA-ATT
1 TTATAATTTTTATTAAAATTTAATAA-TTTATAATATT
9713820 TTAT
1 TTAT
9713824 TTATTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 24 0.71
37 10 0.29
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (37 bp):
TTATAATTTTTATTAAAATTTAATAATTTATAATATT
Found at i:9720810 original size:18 final size:17
Alignment explanation
Indices: 9720787--9720837 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
9720777 TAAAAATAAA
*
9720787 AATAACGTTTTGACATTG
1 AATAACGTTTTGA-AATG
*
9720805 AATAACGATTTGTAAATG
1 AATAACGTTTTG-AAATG
*
9720823 AATAATGTTTTGAAA
1 AATAACGTTTTGAAA
9720838 ACGAATGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (17 bp):
AATAACGTTTTGAAATG
Found at i:9721134 original size:30 final size:30
Alignment explanation
Indices: 9721100--9721168 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
9721090 GTGCGTATCA
* *
9721100 GCCGTGTGTGACATATAGCCAGGTGACACG
1 GCCGTGTGTGACACATAACCAGGTGACACG
* *
9721130 GCCGTGTGTGACACATAACTAGGTGGCACG
1 GCCGTGTGTGACACATAACCAGGTGACACG
*
9721160 GCTGTGTGT
1 GCCGTGTGT
9721169 CCCCTGATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (30 bp):
GCCGTGTGTGACACATAACCAGGTGACACG
Found at i:9754669 original size:43 final size:41
Alignment explanation
Indices: 9754580--9754659 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
9754570 TCGTGGAACA
9754580 ACAATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACG
1 ACAATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACG
* * *
9754621 ACAATTGTGTGTATTATGTTTCTAATTGAGTTGGTGTTA
1 ACAATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTA
9754660 TGAGTCAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (41 bp):
ACAATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACG
Found at i:9757713 original size:27 final size:28
Alignment explanation
Indices: 9757683--9757749 Score: 127
Period size: 27 Copynumber: 2.4 Consensus size: 28
9757673 TTTTTATCTC
9757683 GAACCTTGAACCCCGACTCTTGAAC-TT
1 GAACCTTGAACCCCGACTCTTGAACTTT
9757710 GAACCTTGAACCCCGACTCTTGAACTTT
1 GAACCTTGAACCCCGACTCTTGAACTTT
9757738 GAACCTTGAACC
1 GAACCTTGAACC
9757750 GTGAAACGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
27 25 0.64
28 14 0.36
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
GAACCTTGAACCCCGACTCTTGAACTTT
Found at i:9757719 original size:7 final size:7
Alignment explanation
Indices: 9757683--9757754 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
9757673 TTTTTATCTC
9757683 GAACCTT
1 GAACCTT
**
9757690 GAACCCC
1 GAACCTT
9757697 G-ACTCTT
1 GAAC-CTT
9757704 GAA-CTT
1 GAACCTT
9757710 GAACCTT
1 GAACCTT
**
9757717 GAACCCC
1 GAACCTT
9757724 G-ACTCTT
1 GAAC-CTT
*
9757731 GAACTTT
1 GAACCTT
9757738 GAACCTT
1 GAACCTT
*
9757745 GAACCGT
1 GAACCTT
9757752 GAA
1 GAA
9757755 ACGGAACCCA
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
6 10 0.20
7 36 0.73
8 3 0.06
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (7 bp):
GAACCTT
Found at i:9757805 original size:21 final size:20
Alignment explanation
Indices: 9757789--9757863 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
9757779 ATCTCGAACT
*
9757789 TTGAACCCTAAACCTCGAAC
1 TTGAACCCTAAACCTCAAAC
*
9757809 TTGAACCTTAAACCTCAAAC
1 TTGAACCCTAAACCTCAAAC
** * *
9757829 GTCAAACCTTAAACATCAAACC
1 -TTGAACCCTAAACCTCAAA-C
9757851 TTGAACCCTAAAC
1 TTGAACCCTAAAC
9757864 TTTAGACCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
20 18 0.40
21 26 0.58
22 1 0.02
ACGTcount: A:0.40, C:0.32, G:0.07, T:0.21
Consensus pattern (20 bp):
TTGAACCCTAAACCTCAAAC
Found at i:9757852 original size:14 final size:14
Alignment explanation
Indices: 9757818--9757852 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9757808 CTTGAACCTT
* *
9757818 AAACCTCAAACGTC
1 AAACCTTAAACATC
9757832 AAACCTTAAACATC
1 AAACCTTAAACATC
9757846 AAACCTT
1 AAACCTT
9757853 GAACCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (14 bp):
AAACCTTAAACATC
Found at i:9761693 original size:113 final size:112
Alignment explanation
Indices: 9761554--9762083 Score: 444
Period size: 114 Copynumber: 4.7 Consensus size: 112
9761544 TTAAGGAAAA
* * *
9761554 ACGCCGCTAAAGGATAATATTAGCGGCGTTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAAC
1 ACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAAC
* * *
9761619 ACAGAGTTTGATCTTGAGGTATACTAAAATTATTGGCGCAAAGCGAAC
66 GCAGAGTTTG-TCTTGAGGTATACTAGAATTAGTGGCGCAAAGCGAAC
* * ** * *
9761667 ACGCCGCTAAGGCACACTATTAGCGGCGCTTTGGGATAAGCGCCGCAAAATTTCTTAACCAAAAC
1 ACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAAC
* * * * *
9761732 GCAGCGTTTCTGTCTTGATGTATACTATAATTAGTGGCGCATA-CTGGAAA
66 GCAGAG-TT-TGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGC--GAAC
** * * * *
9761782 ACGCCGCTAACTC-CAGTATTAGCGGCGCTTTTAAT-A-AAACGCCGCAAAATATAC-TCACCAA
1 ACGCCGCTAAAGCATACTATTAGCGGCGCTTTT--TGAGAAGCGCCGCAAAATAT-CTTAACCAA
* * ** * * * * * *
9761843 AACGTAGAGTTTTGTCTTGAGGTGTGTTAGTATTAGTGGCACTTATGGGAGC
63 AACGCAGAG-TTTGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGCGAAC
* * * * *
9761895 ATGCCGCTAAAGAATACTATTAGCGGCGCGTTCTT-AGAAGCGCCGCAAAACATATTAACCAAAA
1 ACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAA
* * * * * *
9761959 CGCAGCGTTTAGCTCTTGATGTATAGTAGAATTAGTGGCGTCCACGAGAA-
65 CGCAGAGTTT-G-TCTTGAGGTATACTAGAATTAGTGGCG-CAAAGCGAAC
* * *
9762009 ATCGCCTCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGGAAAATATCTTAACCAAAA
1 A-CGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAA
*
9762074 TGCAGAGTTT
65 CGCAGAGTTT
9762084 TGGTCTTAAC
Statistics
Matches: 327, Mismatches: 72, Indels: 34
0.76 0.17 0.08
Matches are distributed among these distances:
113 100 0.31
114 122 0.37
115 104 0.32
116 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (112 bp):
ACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAAC
GCAGAGTTTGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGCGAAC
Found at i:9761807 original size:114 final size:115
Alignment explanation
Indices: 9761480--9762090 Score: 442
Period size: 114 Copynumber: 5.3 Consensus size: 115
9761470 ATAAGAAAAA
* * * ** * ** * *
9761480 GCCGCAAGATATCCTAACCAAAGCGCACCGTTTTGGTCTTG-GTGTATGTTACAGTTAGTGGCGC
1 GCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGATCTTGAG-GTATACTATAATTAGTGGCGC
* * * * *
9761544 TTAAG-GAAAAACGCCGCTAAAGG-ATAATATTAGCGGCGTTTTTTGAGAAGC
65 ATATGAG-AAAACGCCGCT-AAGGCACACTATTAGCGGCGCTTTTTGAGAAGC
* * *
9761595 GCCGCAAAATATCTTAACCAAAACACAGAG-TTTGATCTTGAGGTATACTAAAATTATTGGCGCA
1 GCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGATCTTGAGGTATACTATAATTAGTGGCGCA
* * * ** *
9761659 -AAGCGAACACGCCGCTAAGGCACACTATTAGCGGCGCTTTGGGATAAGC
66 TATGAGAAAACGCCGCTAAGGCACACTATTAGCGGCGCTTTTTGAGAAGC
* * *
9761708 GCCGCAAAATTTCTTAACCAAAACGCAGCGTTTCTG-TCTTGATGTATACTATAATTAGTGGCGC
1 GCCGCAAAATATCTTAACCAAAACGCAGAGTTT-TGATCTTGAGGTATACTATAATTAGTGGCGC
** * *
9761772 ATACTG-GAAAACGCCGCTAACTC-CAGTATTAGCGGCGCTTTTAAT-A-AAAC
65 ATA-TGAGAAAACGCCGCTAAGGCACACTATTAGCGGCGCTTTT--TGAGAAGC
* * * ** *
9761822 GCCGCAAAATATAC-TCACCAAAACGTAGAGTTTTG-TCTTGAGGTGTGTTAGT-ATTAGTGGCA
1 GCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTTGATCTTGAGGTATACTA-TAATTAGTGGCG
* * ** * * * * *
9761884 CTTATGGGAGCATGCCGCTAAAGAATACTATTAGCGGCGCGTTCTT-AGAAGC
64 CATATGAGAAAACGCCGCTAAGGCACACTATTAGCGGCGC-TTTTTGAGAAGC
* * * * * * * *
9761936 GCCGCAAAACATATTAACCAAAACGCAGCGTTTAGCTCTTGATGTATAGTAGAATTAGTGGCGTC
1 GCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGATCTTGAGGTATACTATAATTAGTGGCG-C
* * * * * * *
9762001 -CACGAGAAATCGCCTCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGC
65 ATATGAGAAAACGCCGCTAAGGCACACTATTAGCGGCGCTTTTTGAGAAGC
* * *
9762051 GCCGGAAAATATCTTAACCAAAATGCAGAGTTTTGGTCTT
1 GCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGATCTT
9762091 AACCATGCAT
Statistics
Matches: 392, Mismatches: 84, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
112 6 0.02
113 100 0.26
114 150 0.38
115 134 0.34
116 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (115 bp):
GCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGATCTTGAGGTATACTATAATTAGTGGCGCA
TATGAGAAAACGCCGCTAAGGCACACTATTAGCGGCGCTTTTTGAGAAGC
Found at i:9763052 original size:53 final size:53
Alignment explanation
Indices: 9762989--9763090 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
9762979 CTTGGTCGAC
9762989 ACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTGGGGTGGAT
1 ACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTGGGGTGGAT
* *
9763042 ACTTGTATGGATTTAGGGTTTGGGATTTAAGGTTTAGGGCTTTTGGGGT
1 ACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTGGGGT
9763091 CAGATCAGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (53 bp):
ACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTGGGGTGGAT
Found at i:9765752 original size:45 final size:46
Alignment explanation
Indices: 9765701--9765900 Score: 280
Period size: 45 Copynumber: 4.3 Consensus size: 46
9765691 ATGTGCCGAC
9765701 TACTGTTACTGTTACTA-ATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTAGATTCGGCACTTTGTGTGTCGAATACTGT
*
9765746 TACTGTTACTGTTAC-CGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTAGATTCGGCACTTTGTGTGTCGAATACTGT
9765791 TACTGTTACTGTTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTAC---TA--GATTCGGCACTTTGTGTGTCGAATACTGT
* * *
9765842 TACCGTTACTGTTAC-AGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACTAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
9765887 TACTGCTACCGTTA
1 TACTGTTACTGTTA
9765901 TTGATTACTG
Statistics
Matches: 140, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
45 96 0.69
47 1 0.01
51 43 0.31
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (46 bp):
TACTGTTACTGTTACTAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:9765796 original size:6 final size:6
Alignment explanation
Indices: 9765785--9765810 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9765775 GTGTGTCGAA
9765785 TACTGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TA
9765811 TCGATTCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:9765818 original size:96 final size:96
Alignment explanation
Indices: 9765700--9765909 Score: 323
Period size: 96 Copynumber: 2.2 Consensus size: 96
9765690 TATGTGCCGA
* *
9765700 CTACTGTTACTGTTACTAATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGAT
1 CTACTGTTACTGTTACTAATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGAT
*
9765765 TCGGCACTTTGTGTGTCGAATACTGTTACTG
66 TCAGCACTTTGTGTGTCGAATACTGTTACTG
* *
9765796 TTACTGTTACTGTTA-TCGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGA
1 CTACTGTTACTGTTACT-AATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGA
*
9765860 TTCAGCACTTTGTGTGTTGAATACTGTTACTG
65 TTCAGCACTTTGTGTGTCGAATACTGTTACTG
* *
9765892 CTACCGTTATTGATTACT
1 CTACTGTTACTG-TTACT
9765910 GTATACTGGT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
95 1 0.01
96 97 0.95
97 3 0.03
98 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (96 bp):
CTACTGTTACTGTTACTAATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGAT
TCAGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:9769411 original size:5 final size:6
Alignment explanation
Indices: 9769394--9769418 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9769384 GAGAGAGAAG
9769394 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
9769419 CACGAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:9772335 original size:21 final size:21
Alignment explanation
Indices: 9772309--9772400 Score: 107
Period size: 21 Copynumber: 4.4 Consensus size: 21
9772299 TAACAACTTA
9772309 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
9772330 AAGCAGCA-GCTGCAGCGAGGG
1 AAGCAG-AGGCAGCAGCGAGGG
*
9772351 AAGCAGCGGCTA-CAGCGAGGG
1 AAGCAGAGGC-AGCAGCGAGGG
* * *
9772372 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCAGCAGCGAGGG
9772393 AAGCAGAG
1 AAGCAGAG
9772401 CAGAGCAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
21 59 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:9772516 original size:7 final size:7
Alignment explanation
Indices: 9772504--9772529 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9772494 ATATTTATAT
9772504 CATTTAA
1 CATTTAA
9772511 CATTTAA
1 CATTTAA
9772518 CATTTAA
1 CATTTAA
9772525 CATTT
1 CATTT
9772530 TTGCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (7 bp):
CATTTAA
Found at i:9772776 original size:42 final size:42
Alignment explanation
Indices: 9772728--9772846 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 42
9772718 TGTATAAAAA
9772728 CGCCGCTAAAGACCATGTTCTTTAGCGACGTTTTTTAT-TAAG
1 CGCCGCTAAAGACCATGTTCTTTAGCGACGTTTTTT-TCTAAG
9772770 CGCCGCTAAAGACCATGTTCTTTAGCGACGTTTTTTTCTAAG
1 CGCCGCTAAAGACCATGTTCTTTAGCGACGTTTTTTTCTAAG
* * * * *
9772812 CGCCGCTGAAGAACATGGTCTTTAGTGGCGTTTTT
1 CGCCGCTAAAGACCATGTTCTTTAGCGACGTTTTT
9772847 GTTTGTAAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGACCATGTTCTTTAGCGACGTTTTTTTCTAAG
Found at i:9773766 original size:43 final size:43
Alignment explanation
Indices: 9773703--9773839 Score: 247
Period size: 43 Copynumber: 3.2 Consensus size: 43
9773693 TTATAGAAAT
*
9773703 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
*
9773746 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
*
9773789 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
9773832 AAACGCCG
1 AAACGCCG
9773840 TTATTGTTTG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
Found at i:9774237 original size:26 final size:27
Alignment explanation
Indices: 9774210--9774262 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
9774200 TTACAACAAT
*
9774210 AACAACACATATAAATTAGTTGAAATAA
1 AACAACACATATAAAATAGTTGAAAT-A
*
9774238 AACAGCACATATAAAATAGTTGAAA
1 AACAACACATATAAAATAGTTGAAA
9774263 AGTTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (27 bp):
AACAACACATATAAAATAGTTGAAATA
Found at i:9774385 original size:25 final size:26
Alignment explanation
Indices: 9774334--9774395 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
9774324 TTTTACAATG
* *
9774334 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
9774360 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
9774385 ATTAAGTTATG
1 ATTAAGTTATG
9774396 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:9774399 original size:17 final size:17
Alignment explanation
Indices: 9774334--9774405 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
9774324 TTTTACAATG
* *
9774334 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
9774351 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
9774368 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
9774385 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
9774402 ATTA
1 ATTA
9774406 GGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:9774520 original size:17 final size:17
Alignment explanation
Indices: 9774498--9774557 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
9774488 ATATATTTTA
9774498 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
** *
9774515 AAATTATGCGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
9774532 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
9774549 AAGTTATTA
1 AAATTATTA
9774558 TGTGAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:9774543 original size:34 final size:36
Alignment explanation
Indices: 9774501--9774584 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 36
9774491 TATTTTAAAA
* *
9774501 TTATTAAGTTATGTAA-ATTATGCGAGTTGT-TAAG
1 TTATTAAGTTATGTAATATTATGCGAATTATATAAG
*
9774535 TTATTAAGTTATGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGCGAATTATATAAG
9774573 TTATTAAGTTAT
1 TTATTAAGTTAT
9774585 ATGGTATGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 16 0.37
37 11 0.26
38 16 0.37
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (36 bp):
TTATTAAGTTATGTAATATTATGCGAATTATATAAG
Found at i:9774580 original size:46 final size:46
Alignment explanation
Indices: 9774525--9774780 Score: 183
Period size: 46 Copynumber: 5.3 Consensus size: 46
9774515 AAATTATGCG
*
9774525 AGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
* * * * * *
9774571 AGTTATTAAGTTA-TATGGTATGACATATATATATGTATTATGTAAATTATGTG
1 AGTTATTAAGTTATTA-AGT-T---ATGTA-A-GT-TATTATGTGAATTATATA
* * *
9774624 AGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
* * * * * *
9774670 AGTTATTAAGTTA-TATGGTATGACATATATATATGTATTATGTAAATTATGTG
1 AGTTATTAAGTTATTA-AGT-T---ATGTA-A-GT-TATTATGTGAATTATATA
* * *
9774723 AGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
9774769 AGTTATTAAGTT
1 AGTTATTAAGTT
9774781 GGACATTTTT
Statistics
Matches: 157, Mismatches: 35, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
45 3 0.02
46 68 0.43
47 4 0.03
48 2 0.01
49 8 0.05
50 8 0.05
51 2 0.01
52 4 0.03
53 56 0.36
54 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (46 bp):
AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
Found at i:9774584 original size:8 final size:8
Alignment explanation
Indices: 9774501--9774557 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
9774491 TATTTTAAAA
9774501 TTATTAAG
1 TTATTAAG
*
9774509 TTATGTAAA
1 TTAT-TAAG
**
9774518 TTATGCGAG
1 TTAT-TAAG
*
9774527 TTGTTAAG
1 TTATTAAG
9774535 TTATTAAG
1 TTATTAAG
9774543 TTATGTAAG
1 TTAT-TAAG
9774552 TTATTA
1 TTATTA
9774558 TGTGAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 19 0.49
9 20 0.51
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (8 bp):
TTATTAAG
Found at i:9774586 original size:17 final size:17
Alignment explanation
Indices: 9774531--9774586 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
9774521 TGCGAGTTGT
*
9774531 TAAGTTATTAAGTTATG
1 TAAGTTATTAAGTTATA
*
9774548 TAAGTTATTATGTGAATTATA
1 TAAGTTATTA----AGTTATA
9774569 TAAGTTATTAAGTTATA
1 TAAGTTATTAAGTTATA
9774586 T
1 T
9774587 GGTATGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
TAAGTTATTAAGTTATA
Found at i:9774611 original size:53 final size:53
Alignment explanation
Indices: 9774553--9774734 Score: 193
Period size: 53 Copynumber: 3.6 Consensus size: 53
9774543 TTATGTAAGT
*
9774553 TATTATGTGAATTATATAAGTTATTAAGTTATATGGTATGACATATATATATG
1 TATTATGTAAATTATATAAGTTATTAAGTTATATGGTATGACATATATATATG
* * * * *
9774606 TATTATGTAAATTATGTGAGTTGTTAAG---T-T-GT-T--CAGT-TATGTAAG
1 TATTATGTAAATTATATAAGTTATTAAGTTATATGGTATGACA-TATATATATG
*
9774651 TTATTATGTGAATTATATAAGTTATTAAGTTATATGGTATGACATATATATATG
1 -TATTATGTAAATTATATAAGTTATTAAGTTATATGGTATGACATATATATATG
* * *
9774705 TATTATGTAAATTATGTGAGTTGTTAAGTT
1 TATTATGTAAATTATATAAGTTATTAAGTT
9774735 GTTCAGTTAT
Statistics
Matches: 102, Mismatches: 16, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
45 8 0.08
46 25 0.25
47 1 0.01
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
52 1 0.01
53 51 0.50
54 8 0.08
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (53 bp):
TATTATGTAAATTATATAAGTTATTAAGTTATATGGTATGACATATATATATG
Found at i:9774621 original size:99 final size:99
Alignment explanation
Indices: 9774509--9774780 Score: 517
Period size: 99 Copynumber: 2.7 Consensus size: 99
9774499 AATTATTAAG
* * *
9774509 TTATGTAAATTATGCGAGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATAAGT
1 TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATAAGT
9774574 TATTAAGTTATATGGTATGACATATATATATGTA
66 TATTAAGTTATATGGTATGACATATATATATGTA
9774608 TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATAAGT
1 TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATAAGT
9774673 TATTAAGTTATATGGTATGACATATATATATGTA
66 TATTAAGTTATATGGTATGACATATATATATGTA
9774707 TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATAAGT
1 TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATAAGT
9774772 TATTAAGTT
66 TATTAAGTT
9774781 GGACATTTTT
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 170 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (99 bp):
TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATAAGT
TATTAAGTTATATGGTATGACATATATATATGTA
Found at i:9775413 original size:21 final size:21
Alignment explanation
Indices: 9775389--9775435 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9775379 TTAACTATTT
* *
9775389 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
9775410 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
9775431 AAATT
1 AAATT
9775436 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:9779086 original size:14 final size:14
Alignment explanation
Indices: 9779067--9779100 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9779057 AACCTTAAAT
9779067 CCCTAAC-TCTTAAC
1 CCCTAACATC-TAAC
9779081 CCCTAACATCTAAC
1 CCCTAACATCTAAC
9779095 CCCTAA
1 CCCTAA
9779101 ACCCCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:9779145 original size:21 final size:20
Alignment explanation
Indices: 9779115--9779155 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9779105 CTAAACCAGT
*
9779115 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
9779136 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
9779156 TAATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:9779164 original size:14 final size:14
Alignment explanation
Indices: 9779146--9779187 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9779136 AACCCTTAAA
9779146 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
9779160 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
9779175 CCATACTCCCTAA
1 CCATAATCCCTAA
9779188 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:9779184 original size:15 final size:15
Alignment explanation
Indices: 9779142--9779188 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
9779132 TCCCAACCCT
9779142 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
9779156 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
9779170 TAAATCCATACTCCC
1 TAAATCCATAATCCC
9779185 TAAA
1 TAAA
9779189 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:9779657 original size:114 final size:113
Alignment explanation
Indices: 9779457--9779883 Score: 694
Period size: 114 Copynumber: 3.8 Consensus size: 113
9779447 TTTTTCCTAA
*
9779457 AAAACGCCGCTAAATCCCCGAAATCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCG
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCG
*
9779522 CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCTT
66 CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
*
9779570 CAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 -AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* *
9779635 ACTTTCCCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTT
65 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
*
9779684 ATAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTTTTTTTGCGGC
1 A-AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* * *
9779749 GCTTTACGAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTT
65 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * * *
9779798 AAAAACGCCGCTAAATCCCCGAAAGCTCAGGAAACGACGTCGTTGGGATTA-GTTTTTTTGTGGC
1 -AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
*
9779862 GCTTTCTCAAAAACGCCGCTAA
65 GCTTTCCCAAAAACGCCGCTAA
9779884 TGCTTATTTT
Statistics
Matches: 291, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
113 32 0.11
114 258 0.89
115 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (113 bp):
AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCG
CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
Found at i:9781077 original size:17 final size:18
Alignment explanation
Indices: 9781041--9781091 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
9781031 TAGGGGTGTG
*
9781041 CAAAATTCGGGTAAAACCGA
1 CAAAATTC-GGT-TAACCGA
9781061 -AAAATTCGGTTAACCGA
1 CAAAATTCGGTTAACCGA
**
9781078 CCGAATTCGGTTAA
1 CAAAATTCGGTTAA
9781092 TCGATCGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 7 0.26
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (18 bp):
CAAAATTCGGTTAACCGA
Found at i:9781414 original size:9 final size:9
Alignment explanation
Indices: 9781400--9781475 Score: 109
Period size: 9 Copynumber: 8.4 Consensus size: 9
9781390 GTAGTGATTC
9781400 AATTCGGTT
1 AATTCGGTT
9781409 AATTCGGTT
1 AATTCGGTT
*
9781418 AATTCGGGT
1 AATTCGGTT
9781427 AATTCGGTT
1 AATTCGGTT
9781436 AATTCGGTT
1 AATTCGGTT
9781445 AATTCAGG-T
1 AATTC-GGTT
*
9781454 AATTCGGAT
1 AATTCGGTT
*
9781463 AATTCAGTT
1 AATTCGGTT
9781472 AATT
1 AATT
9781476 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
8 2 0.03
9 57 0.93
10 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9781432 original size:27 final size:27
Alignment explanation
Indices: 9781400--9781475 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
9781390 GTAGTGATTC
*
9781400 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCAGGT
9781427 AATTCGGTTAATTCGGTTAATTCAGGT
1 AATTCGGTTAATTCGGTTAATTCAGGT
* *
9781454 AATTCGGATAATTCAGTTAATT
1 AATTCGGTTAATTCGGTTAATT
9781476 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.41
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCAGGT
Found at i:9782232 original size:31 final size:31
Alignment explanation
Indices: 9782190--9782279 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
9782180 TAATTTTAAG
*
9782190 GGGAGGGGGGCTTTTGTCA-G-GTAGCACCTAA
1 GGGAGGAGGGCTTTTGTCATGCG-A-CACCTAA
*
9782221 GGGAGGAGGGCTTTTGTCATGCGACACCTAG
1 GGGAGGAGGGCTTTTGTCATGCGACACCTAA
* * *
9782252 GGGAGGAGGGCTATTGTCAAGCGGCACC
1 GGGAGGAGGGCTTTTGTCATGCGACACC
9782280 ACTGCTAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
31 49 0.94
32 2 0.04
33 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.20
Consensus pattern (31 bp):
GGGAGGAGGGCTTTTGTCATGCGACACCTAA
Found at i:9787716 original size:21 final size:21
Alignment explanation
Indices: 9787673--9787718 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9787663 AAAAAACAAG
* *
9787673 AAAATAGCAACAAAGCAGTAA
1 AAAATAGCAACAAAACAGAAA
* *
9787694 AAAATAGCAAGAAAATAGAAA
1 AAAATAGCAACAAAACAGAAA
9787715 AAAA
1 AAAA
9787719 AATAGTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.70, C:0.09, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAATAGCAACAAAACAGAAA
Done.