Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 32
Found at i:1938867 original size:240 final size:239
Alignment explanation
Indices: 1938316--1939088 Score: 1063
Period size: 240 Copynumber: 3.2 Consensus size: 239
1938306 AACTTTTTCA
*
1938316 AGATTGGATTTCAACTTCACGGCGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
1 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
* * *
1938381 TTCCCAGTTTCATTCAGGGCCAATTTCAACTTTACGGCGAAGGATATTGGACTCGAAACAATACA
66 TTCCCAGTTTCATTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAATATA
* * *
1938446 AACTTAGATTTCAACTTCACGACGAAGGATA-T---TCAAGGCTCAACTTTACAACGACGGGGCC
131 AACTTGGATTTCAACTTCACGACGAAGGATATTCAATCAAGGCTCAACTTCACAACGAAGGGGCC
* * * *
1938507 ATCCACGATTTCAACTTCACGATGAAAGATATCGTGCCAACTCT
196 ATCCACGATTTCAACTTCACGAAGAAGGATATCGTACTAACTCT
* *
1938551 AGATTGGATTTCAACTTCATGACGAATGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
1 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
* * *
1938616 TTCCCAGTTTCATTCAGAGTCAATTTCAACTTCAAGGCGAAGGATATTGGATTCGAAACAATATA
66 TTCCCAGTTTCATTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAATATA
* *
1938681 AGCTTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTTAACTTCACAACGAAGGGGC
131 AACTTGGATTTCAACTTCACGACGAAGGATATTCAA-TCAAGGCTCAACTTCACAACGAAGGGGC
*
1938746 CATCCACGATTTTAACTTCACGAAGAAGGATATCGTACTAACTCT
195 CATCCACGATTTCAACTTCACGAAGAAGGATATCGTACTAACTCT
* * * * *
1938791 AGATTGAATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCATGGTGAAAGGGC
1 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
*
1938856 TTCCCAGTTTCATTCAGAGCCAATTTCAACTTCACGGTGAAGGATATTGGACTCGAAACAACATT
66 TTCCCAGTTTCATTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAAC-A-A-T
* * *
1938921 CATCTTCATA-TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAATGCTCAACTTCACAAC
128 -A---T-AAACTTGGATTTCAACTTCACGACGAAGGATATTCAA-TCAAGGCTCAACTTCACAAC
* * * * * * *
1938985 GAAAGGGTCATCAACGATTTCAACTTCAGGACGAAGGACATCGTACCCATAAC-CAA
187 GAAGGGGCCATCCACGATTTCAACTTCACGAAGAAGGATATCGTA--C-TAACTC-T
1939041 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAA
1 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAA
1939089 AGGAGCCATC
Statistics
Matches: 475, Mismatches: 46, Indels: 19
0.88 0.09 0.04
Matches are distributed among these distances:
235 150 0.32
236 1 0.00
240 178 0.37
241 1 0.00
242 1 0.00
243 1 0.00
244 1 0.00
247 89 0.19
248 1 0.00
249 2 0.00
250 50 0.11
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (239 bp):
AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
TTCCCAGTTTCATTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAATATA
AACTTGGATTTCAACTTCACGACGAAGGATATTCAATCAAGGCTCAACTTCACAACGAAGGGGCC
ATCCACGATTTCAACTTCACGAAGAAGGATATCGTACTAACTCT
Found at i:1941451 original size:11 final size:11
Alignment explanation
Indices: 1941437--1941473 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1941427 TTTTTTTTCT
1941437 TTTTTCTTTAA
1 TTTTTCTTTAA
1941448 TTTTTCTTTAA
1 TTTTTCTTTAA
* *
1941459 TATTTCTTTTA
1 TTTTTCTTTAA
1941470 TTTT
1 TTTT
1941474 ACCATATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTTTAA
Found at i:1941563 original size:13 final size:13
Alignment explanation
Indices: 1941547--1941576 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1941537 TGAATTGGAT
1941547 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1941560 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1941573 TTTT
1 TTTT
1941577 CGCAATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:1943715 original size:108 final size:108
Alignment explanation
Indices: 1943517--1943737 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 108
1943507 GTTTTTGTTT
*
1943517 TGAGCTGCA--TTTTTATGGAGATTCATCCCGATATGATCTCATATTTTAATGGTAATAATATTT
1 TGAGCTGCATTTTTTTATGGAGATTCATCCCAATATGATCTCATATTTTAATGGTAATAATATTT
** **
1943580 TTGGATTTTGGAATTTATTTAAATTTTGATTGATTTTATATTA
66 TTGGATTTCAGAATTTATTTAAATTTTGATCAATTTTATATTA
* * * ** *
1943623 TGTGCTGCATTTTTTTATGGAGATTCATCCCAATATGATCTCATATTTTAATGTTGATGTTGTTT
1 TGAGCTGCATTTTTTTATGGAGATTCATCCCAATATGATCTCATATTTTAATGGTAATAATATTT
*
1943688 TTGGATTTCAGAATTT-TTTGAAATTTTGATCAATTTTATGTTA
66 TTGGATTTCAGAATTTATTT-AAATTTTGATCAATTTTATATTA
1943731 TGAGCTG
1 TGAGCTG
1943738 GTTTATATGG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
106 8 0.08
107 3 0.03
108 88 0.89
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (108 bp):
TGAGCTGCATTTTTTTATGGAGATTCATCCCAATATGATCTCATATTTTAATGGTAATAATATTT
TTGGATTTCAGAATTTATTTAAATTTTGATCAATTTTATATTA
Found at i:1948428 original size:23 final size:23
Alignment explanation
Indices: 1948402--1948458 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
1948392 TCGGCCATTG
1948402 CCCGGTGGCCACCGACCGCCGCT
1 CCCGGTGGCCACCGACCGCCGCT
1948425 CCCGGTGGCCACCGACCGCCGCT
1 CCCGGTGGCCACCGACCGCCGCT
1948448 CCCGGTGGCCA
1 CCCGGTGGCCA
1948459 GAAAAACCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.09, C:0.51, G:0.32, T:0.09
Consensus pattern (23 bp):
CCCGGTGGCCACCGACCGCCGCT
Found at i:1949428 original size:27 final size:28
Alignment explanation
Indices: 1949375--1949435 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
1949365 ATATATATTA
** *
1949375 TATATATTTTTCGGAACGCTTTCAAAAT
1 TATATATTTTTCAAAACGCTTTCAAAAC
* *
1949403 TATATA-TTTTCAAAACGTTTTTAAAAC
1 TATATATTTTTCAAAACGCTTTCAAAAC
1949430 TATATA
1 TATATA
1949436 CTATATATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (28 bp):
TATATATTTTTCAAAACGCTTTCAAAAC
Found at i:1949470 original size:35 final size:36
Alignment explanation
Indices: 1949403--1949754 Score: 248
Period size: 35 Copynumber: 10.2 Consensus size: 36
1949393 CTTTCAAAAT
* *
1949403 TATATATTTTC-AAAACGTTTTTAAAACT-ATATAC
1 TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
*
1949437 TATATATTTTCTAAAACGTTTTCAAAA-TAATATAC
1 TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
*
1949472 TATATATTTT-TAAAAATGTTTTCAAAACTATACATTA-
1 TATATATTTTCT-AAAATGTTTTCAAAACTA-ATA-TAC
* * **
1949509 TATAAATTTT-TAAAAATATTTTCAAAACTATATATTG
1 TATATATTTTCT-AAAATGTTTTCAAAACTA-ATATAC
* * * * *
1949546 TATATATTTTCAAAAATGCTTTCAAACCT-ATAGAT
1 TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
* * *
1949581 TATATATGTTT-TCCAAATGTTTTCTAAAC-CATATA-
1 TATATAT-TTTCT-AAAATGTTTTCAAAACTAATATAC
* *
1949616 T-TATA-----T---ATGTTTTCAAAA-TGATATAT
1 TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
*
1949642 TATATATTTTCTAAAACGTTTTCAAAA-TAATATAC
1 TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
*
1949677 TATATA-TTTCAAAAATGTTTTCAAAACTATATATTA-
1 TATATATTTTCTAAAATGTTTTCAAAACTA-ATA-TAC
* * *
1949713 TATATATATTCGAAAATGTTTTCAAAACT-ATATAT
1 TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
1949748 TATATAT
1 TATATAT
1949755 ATATATTATG
Statistics
Matches: 261, Mismatches: 30, Indels: 53
0.76 0.09 0.15
Matches are distributed among these distances:
25 16 0.06
26 1 0.00
27 4 0.02
29 1 0.00
32 1 0.00
34 37 0.14
35 90 0.34
36 31 0.12
37 78 0.30
38 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTTTCTAAAATGTTTTCAAAACTAATATAC
Found at i:1949470 original size:62 final size:64
Alignment explanation
Indices: 1949346--1949470 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
1949336 GTATATAAAA
* * * ** *
1949346 TTTCAAAATGTTTTCTAAAATATATATTATATATATTTTTCGGAACGCTTTCAAAATTATATAT
1 TTTCAAAACGTTTTCTAAAATATATACTATATATATTTCTCAAAACGCTTTCAAAATAATATAT
*
1949410 TTTCAAAACGTTTT-TAAAACTATATACTATATAT-TTTCT-AAAACGTTTTCAAAATAATATA
1 TTTCAAAACGTTTTCTAAAA-TATATACTATATATATTTCTCAAAACGCTTTCAAAATAATATA
1949471 CTATATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 18 0.34
63 9 0.17
64 26 0.49
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (64 bp):
TTTCAAAACGTTTTCTAAAATATATACTATATATATTTCTCAAAACGCTTTCAAAATAATATAT
Found at i:1949623 original size:36 final size:35
Alignment explanation
Indices: 1949401--1949754 Score: 247
Period size: 37 Copynumber: 10.3 Consensus size: 35
1949391 CGCTTTCAAA
* * *
1949401 ATTATATA-TTTTCAAAACGTTTTTAAAACTATAT
1 ATTATATATTTTTCAAAATGTTTTCAAAACCATAT
* * **
1949435 ACTATATA-TTTTCTAAAACGTTTTCAAAATAATAT
1 ATTATATATTTTTC-AAAATGTTTTCAAAACCATAT
* * * *
1949470 ACTATATATTTTTAAAAATGTTTTCAAAACTATAC
1 ATTATATATTTTTCAAAATGTTTTCAAAACCATAT
* * *
1949505 ATTATATAAATTTTTAAAAATATTTTCAAAACTATAT
1 ATTATAT--ATTTTTCAAAATGTTTTCAAAACCATAT
* * *
1949542 ATTGTATATATTTTCAAAAATGCTTTC-AAACCTATAG
1 ATTATATAT-TTTTC-AAAATGTTTTCAAAACC-ATAT
* *
1949579 ATTATATATGTTTTCCAAATGTTTTCTAAACCATAT
1 ATTATATAT-TTTTCAAAATGTTTTCAAAACCATAT
1949615 ATTATATATGTTTTCAAAATG-----------ATAT
1 ATTATATAT-TTTTCAAAATGTTTTCAAAACCATAT
* **
1949640 ATTATATATTTTCT-AAAACGTTTTCAAAATAATAT
1 ATTATATATTTT-TCAAAATGTTTTCAAAACCATAT
* *
1949675 ACTATATA--TTTCAAAAATGTTTTCAAAACTATAT
1 ATTATATATTTTTC-AAAATGTTTTCAAAACCATAT
* *
1949709 ATTATATATATATTCGAAAATGTTTTCAAAACTATAT
1 ATTATATAT-TTTTC-AAAATGTTTTCAAAACCATAT
1949746 ATTATATAT
1 ATTATATAT
1949755 ATATATTATG
Statistics
Matches: 263, Mismatches: 32, Indels: 47
0.77 0.09 0.14
Matches are distributed among these distances:
24 8 0.03
25 14 0.05
32 1 0.00
33 2 0.01
34 37 0.14
35 62 0.24
36 44 0.17
37 95 0.36
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (35 bp):
ATTATATATTTTTCAAAATGTTTTCAAAACCATAT
Found at i:1949625 original size:25 final size:25
Alignment explanation
Indices: 1949597--1949656 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
1949587 TGTTTTCCAA
1949597 ATGTTTTCTAAACCATATATTATAT
1 ATGTTTTCTAAACCATATATTATAT
* **
1949622 ATGTTTTCAAAATGATATATTATAT
1 ATGTTTTCTAAACCATATATTATAT
1949647 A--TTTTCTAAA
1 ATGTTTTCTAAA
1949657 ACGTTTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 8 0.26
25 23 0.74
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (25 bp):
ATGTTTTCTAAACCATATATTATAT
Found at i:1949759 original size:13 final size:13
Alignment explanation
Indices: 1949741--1949771 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1949731 TTTTCAAAAC
1949741 TATATATTATATA
1 TATATATTATATA
*
1949754 TATATATTATGTA
1 TATATATTATATA
1949767 TATAT
1 TATAT
1949772 TAAATAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATATATTATATA
Found at i:1951219 original size:13 final size:13
Alignment explanation
Indices: 1951203--1951227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1951193 GAAAAATAAA
1951203 TATTAAAAAAATT
1 TATTAAAAAAATT
1951216 TATTAAAAAAAT
1 TATTAAAAAAAT
1951228 AAATTATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TATTAAAAAAATT
Found at i:1952683 original size:3 final size:3
Alignment explanation
Indices: 1952677--1952703 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1952667 TTTTTTTATT
1952677 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1952704 AACGAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1952961 original size:76 final size:76
Alignment explanation
Indices: 1952830--1953047 Score: 366
Period size: 76 Copynumber: 2.9 Consensus size: 76
1952820 GATGAAAATG
* * *
1952830 TTTGAAAACATCATGCACTGAAGGGCTTACATATGA-CCTGAAGGCTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCT-AAGGCTTTGAAAACATCAAAAAGC
*
1952894 TCCCTAAGGCTT
65 TCCCGAAGGCTT
* *
1952906 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATTAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1952971 CCCGAAGGCTT
66 CCCGAAGGCTT
1952982 TTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1953047 C
66 C
1953048 ATGCACTGAA
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 131 0.98
77 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1953074 original size:54 final size:50
Alignment explanation
Indices: 1952992--1953097 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 50
1952982 TTTGGAAACA
1952992 TCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TCATGCACTGAAGGACTTACAAATGACCC---GGCTTTGAAAACATC-AAAAGC
*
1953046 TCATGCACTGAAGGACTTACAGATGACCCGGCTTTGAAAACATCAAAAGC
1 TCATGCACTGAAGGACTTACAAATGACCCGGCTTTGAAAACATCAAAAGC
1953096 TC
1 TC
1953098 CGAAGGCTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
50 8 0.16
51 15 0.29
54 28 0.55
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (50 bp):
TCATGCACTGAAGGACTTACAAATGACCCGGCTTTGAAAACATCAAAAGC
Found at i:1953153 original size:122 final size:127
Alignment explanation
Indices: 1952916--1953169 Score: 428
Period size: 122 Copynumber: 2.0 Consensus size: 127
1952906 TTTGGAAACA
1952916 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATTAAAAAGCTCCCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCC--AGGCTTTGAAAACATTAAAAAGCTCCCGAAGGC-
1952981 TTTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGC
63 TTTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1953046 TCATGCACTGAAGGACTTACAGATGACCC-GGCTTTGAAAACA-TCAAAAGCT-CCGAAGGC-TT
1 TCATGCACTGAAGGACTTACAGATGACCCAGGCTTTGAAAACATTAAAAAGCTCCCGAAGGCTTT
*
1953107 TGGAAACATCATGCACT-AAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
66 TGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1953168 TC
1 TC
1953170 TCGAAGGTTT
Statistics
Matches: 122, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
122 45 0.37
123 19 0.16
125 8 0.07
126 8 0.07
127 13 0.11
130 29 0.24
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (127 bp):
TCATGCACTGAAGGACTTACAGATGACCCAGGCTTTGAAAACATTAAAAAGCTCCCGAAGGCTTT
TGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGC
Found at i:1953191 original size:198 final size:202
Alignment explanation
Indices: 1952840--1953244 Score: 651
Period size: 198 Copynumber: 2.0 Consensus size: 202
1952830 TTTGAAAACA
* * *
1952840 TCATGCACTGAAGGGCTTACATATGACCTGAAGGCTTTGAAAACATCAAAAAGCTCCCTAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACC--AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-
*
1952905 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATTAAAAAGC
63 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1952970 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGCTTTGAAAA
128 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC-TACAAATGACCCTAAGGCTTTGAAAA
1953035 CATCAAAAAGC
192 CATCAAAAAGC
*
1953046 TCATGCACTGAAGGACTTACAGATGACC-CGGCTTTGAAAACATC-AAAAGCT-CCGAAGGC-TT
1 TCATGCACTGAAGGACTTACAGATGACCAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
*
1953107 TGGAAACATCATGCACT-AAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCT
66 TGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
*
1953171 CGAAGG-TTTTTGGAAAACATCATGCACTGAAGGACTACAGATGACCCTAAGGCTTTGAAAACAT
131 CGAAGGCTTTTTGG-AAACATCATGCACTGAAGGACTACAAATGACCCTAAGGCTTTGAAAACAT
*
1953235 CAAAGAGC
195 CAAAAAGC
1953243 TC
1 TC
1953245 TCGAAGGCTT
Statistics
Matches: 190, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
197 44 0.23
198 72 0.38
199 19 0.10
201 7 0.04
202 7 0.04
203 15 0.08
206 26 0.14
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (202 bp):
TCATGCACTGAAGGACTTACAGATGACCAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
TGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTACAAATGACCCTAAGGCTTTGAAAACATC
AAAAAGC
Found at i:1953387 original size:77 final size:76
Alignment explanation
Indices: 1953046--1953596 Score: 935
Period size: 77 Copynumber: 7.3 Consensus size: 76
1953036 ATCAAAAAGC
1953046 TCATGCACTGAAGGACTTACAGATGACCC---GGCTTTGAAAACATC-AAAAGCTC-CGAAGGC-
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCT
1953105 -TTTGGAAACA
66 TTTTGGAAACA
1953115 TCATGCACT-AAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGG-T
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCT
1953178 TTTTGGAAAACA
66 TTTTGG-AAACA
*
1953190 TCATGCACTGAAGGAC-TACAGATGACCCTAAGGCTTTGAAAACATCAAAGAGCTCTCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCT
1953254 TTTTGGAAACA
66 TTTTGGAAACA
*
1953265 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGTT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCT
1953330 TTTTGGAAAACA
66 TTTTGG-AAACA
*
1953342 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCT
1953407 TTTTGGAAACA
66 TTTTGGAAACA
1953418 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT-TCCGAAGGC
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCT-CGAAGGC
1953482 TTTTTGGAAAACA
65 TTTTTGG-AAACA
* *
1953495 TCATGCACTGAAGGACTTACAGATGACCCTATGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGC-
1953560 TTTTTGGAAACA
65 TTTTTGGAAACA
1953572 TCATGCACTGAAGGACTTACAGATG
1 TCATGCACTGAAGGACTTACAGATG
1953597 TGGGAAATAG
Statistics
Matches: 458, Mismatches: 8, Indels: 24
0.93 0.02 0.05
Matches are distributed among these distances:
68 19 0.04
69 9 0.02
71 15 0.03
72 8 0.02
73 6 0.01
74 5 0.01
75 80 0.17
76 139 0.30
77 170 0.37
78 7 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCT
TTTTGGAAACA
Found at i:1953622 original size:153 final size:152
Alignment explanation
Indices: 1953046--1953596 Score: 969
Period size: 153 Copynumber: 3.7 Consensus size: 152
1953036 ATCAAAAAGC
1953046 TCATGCACTGAAGGACTTACAGATGACCC---GGCTTTGAAAACATC-AAAAGCT-CCGAAGGC-
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1953105 -TTTGGAAACATCATGCACT-AAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
66 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1953168 TCTCGAAGGTTTTTGGAAAACA
131 TCTCGAAGGTTTTTGGAAAACA
* *
1953190 TCATGCACTGAAGGAC-TACAGATGACCCTAAGGCTTTGAAAACATCAAAGAGCTCTCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1953254 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
66 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1953319 TCTCGAAGGTTTTTTGGAAAACA
131 TCTCGAAGG-TTTTTGGAAAACA
1953342 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1953407 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
66 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1953472 T-TCCGAAGGCTTTTTGGAAAACA
131 TCT-CGAAGG-TTTTTGGAAAACA
*
1953495 TCATGCACTGAAGGACTTACAGATGACCCTATGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-
1953560 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
65 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1953597 TGGGAAATAG
Statistics
Matches: 389, Mismatches: 6, Indels: 14
0.95 0.01 0.03
Matches are distributed among these distances:
143 12 0.03
144 16 0.04
146 15 0.04
147 6 0.02
148 7 0.02
150 19 0.05
151 53 0.14
152 30 0.08
153 194 0.50
154 37 0.10
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (152 bp):
TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCTCGAAGGTTTTTGGAAAACA
Found at i:1956613 original size:114 final size:113
Alignment explanation
Indices: 1956413--1956750 Score: 545
Period size: 114 Copynumber: 3.0 Consensus size: 113
1956403 GATCATGCAG
* * * * * *
1956413 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACC-AACCAGATCAGATAACTCAAAGA
* *
1956478 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
65 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
1956527 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAGCCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAA-CCAGATCAGATAACTCAAAGA
1956592 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
65 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
* *
1956641 TTCATC-TTTAAATCCAATGATTGGTTTTTGAGGTTCATA-AAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATCCAATGATTGG-TTTTGGGGTTCATACCAACCAGATCAGATAACTCAAAGA
1956704 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
1956751 CATGGCACTT
Statistics
Matches: 212, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
112 68 0.32
113 22 0.10
114 122 0.58
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (113 bp):
TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:1964961 original size:3 final size:3
Alignment explanation
Indices: 1964955--1964998 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
1964945 ATTTTTTATT
*
1964955 TAA TAA TAA TAA -AA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1964999 AACGAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1965548 original size:15 final size:15
Alignment explanation
Indices: 1965528--1965574 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
1965518 ATATAATAAA
1965528 TAATAATTTATTTTT
1 TAATAATTTATTTTT
*
1965543 TAATAAATTA--TTT
1 TAATAATTTATTTTT
1965556 TAAT-ATTTATTTTT
1 TAATAATTTATTTTT
*
1965570 CAATA
1 TAATA
1965575 TCAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.15
13 7 0.27
14 6 0.23
15 9 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATAATTTATTTTT
Found at i:1973206 original size:22 final size:23
Alignment explanation
Indices: 1973164--1973223 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
1973154 TCTCAAAACT
* *
1973164 CAAAATACTCAATTCATAAAATC
1 CAAAATACCCAATCCATAAAATC
1973187 CAAAATACCCAA-CCATAAAATC
1 CAAAATACCCAATCCATAAAATC
*
1973209 CAAAATACACAATCC
1 CAAAATACCCAATCC
1973224 CTTAAATCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.18
Consensus pattern (23 bp):
CAAAATACCCAATCCATAAAATC
Found at i:1973882 original size:21 final size:19
Alignment explanation
Indices: 1973858--1973900 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1973848 TCAATAAATA
*
1973858 TGTCTTAATGACATATTTTTC
1 TGTCTT-ATGACACA-TTTTC
*
1973879 TGTCTTTTGACACATTTTC
1 TGTCTTATGACACATTTTC
1973898 TGT
1 TGT
1973901 TGTTTAGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 6 0.30
21 6 0.30
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (19 bp):
TGTCTTATGACACATTTTC
Found at i:1975582 original size:23 final size:24
Alignment explanation
Indices: 1975544--1975593 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
1975534 ATTGCGAGAA
1975544 TATTTTACTTAAAAATAT-T-TTT
1 TATTTTACTTAAAAATATATATTT
*
1975566 TATTTTCATTTAAAAATATATATTT
1 TATTTT-ACTTAAAAATATATATTT
1975591 TAT
1 TAT
1975594 GTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 11 0.46
24 1 0.04
25 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTTTACTTAAAAATATATATTT
Found at i:1980446 original size:31 final size:31
Alignment explanation
Indices: 1980409--1980473 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
1980399 AGATGCCCTG
1980409 AAATTGCCTGTCTTGTCCCTAAAACTGTCAA
1 AAATTGCCTGTCTTGTCCCTAAAACTGTCAA
1980440 AAATTGCCTGTCTTGTCCCTAAAACTGTCAA
1 AAATTGCCTGTCTTGTCCCTAAAACTGTCAA
1980471 AAA
1 AAA
1980474 CTTCTGCAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (31 bp):
AAATTGCCTGTCTTGTCCCTAAAACTGTCAA
Found at i:1984351 original size:65 final size:64
Alignment explanation
Indices: 1984282--1984404 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
1984272 CGAATGCATT
* *
1984282 CCATGCACCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATTTGATGCATCGATGCACAA
1 CCATGCACCGATGCAC-CAGAATATTTTTC-AAACATCGAATGCATTTCATGCATCGATGCACAA
1984346 G
64 G
* ** *
1984347 CCATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTTCATGCATTGATG
1 CCATGCACCGATGCACCAGAATATTTTTCAAACATCGAATGCATTTCATGCATCGATG
1984405 AACACTTGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 31 0.61
65 20 0.39
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (64 bp):
CCATGCACCGATGCACCAGAATATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACAAG
Found at i:1985847 original size:117 final size:118
Alignment explanation
Indices: 1985636--1985849 Score: 265
Period size: 117 Copynumber: 1.8 Consensus size: 118
1985626 ATCTTATTTT
* *
1985636 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAA
1 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTCAAAAAGAAGTTAGAGCTTTCAAAAA
*
1985701 TAAAATCGGAAAACTTTGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
66 TAAAATCGGAAAACTTGGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
* * * *
1985754 GAAA-CTAAAATGGATTTTGAAAA-ACAAAATGAAAT-TTCAAAGAAGAATTTAGAGCTTTCAAA
1 GAAAGCTAAAAAGGACTTGGAAAATA-AAAATGAAATGTTCAAA-AAGAAGTTAGAGCTTTCAAA
* ** * *
1985816 GATAAAATTTG-AAAGTATGGAAAAGGAAATTTTC
64 AATAAAATCGGAAAACT-TGGAAAAAGAAATTTTC
1985850 GATTTAGAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
116 10 0.12
117 67 0.83
118 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (118 bp):
GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTCAAAAAGAAGTTAGAGCTTTCAAAAA
TAAAATCGGAAAACTTGGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
Found at i:1986415 original size:20 final size:21
Alignment explanation
Indices: 1986382--1986421 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1986372 TTTTAACGTA
1986382 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
1986402 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
1986422 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:1986429 original size:22 final size:20
Alignment explanation
Indices: 1986381--1986425 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1986371 ATTTTAACGT
1986381 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
1986401 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
1986422 AATT
1 AATT
1986426 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:1991259 original size:21 final size:21
Alignment explanation
Indices: 1991216--1991259 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1991206 ACCCCGGGAG
**
1991216 CTAGTTCTTCACGAGCTGTTC
1 CTAGTTCTTCACGAGCTCCTC
* *
1991237 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
1991258 CT
1 CT
1991260 CCTCCTCTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.34, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:1992291 original size:19 final size:19
Alignment explanation
Indices: 1992267--1992305 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1992257 TCAAATGCAT
1992267 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1992286 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1992305 T
1 T
1992306 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1992322 original size:65 final size:63
Alignment explanation
Indices: 1992204--1992412 Score: 192
Period size: 65 Copynumber: 3.2 Consensus size: 63
1992194 TATTCAAAGG
* * *
1992204 CATGCACCGATGCACCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCAAATGCA
1 CATGCACCGATGCACC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGCA
*
1992266 TTC
61 TTT
1992269 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCAC-CTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * ** * ** *
1992334 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATACATTT
1 CATGCACCGATGCAC-CTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
1992398 CATGCATCGATGCAC
1 CATGCACCGATGCAC
1992413 ACTTGGTGCA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 51 0.41
65 65 0.52
66 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (63 bp):
CATGCACCGATGCACCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:1992408 original size:64 final size:65
Alignment explanation
Indices: 1992253--1992413 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
1992243 GAATTAATTG
* * * *** *
1992253 AACATCAAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
1992318 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
1992381 A
65 A
*
1992382 AACATCGAATACATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1992414 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:2006661 original size:25 final size:24
Alignment explanation
Indices: 2006633--2006682 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
2006623 TTATTTAATG
2006633 TATTAAATATATT-AATAACTTTTTA
1 TATTAAATAT-TTAAATAA-TTTTTA
**
2006658 TATTTTATATTTAAATAATTTTTA
1 TATTAAATATTTAAATAATTTTTA
2006682 T
1 T
2006683 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTAAATATTTAAATAATTTTTA
Found at i:2007552 original size:32 final size:33
Alignment explanation
Indices: 2007504--2007569 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
2007494 AAAATTGTTA
2007504 TTATTTAAGTAATTAATTATTTTA-TT-ATTATT
1 TTATTTAAGTAATTAATT-TTTTATTTGATTATT
* *
2007536 TTATTTTAGTACTTAATTTTTTATTTGATTATT
1 TTATTTAAGTAATTAATTTTTTATTTGATTATT
2007569 T
1 T
2007570 AATTGTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 5 0.17
32 18 0.60
33 7 0.23
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (33 bp):
TTATTTAAGTAATTAATTTTTTATTTGATTATT
Found at i:2007571 original size:20 final size:20
Alignment explanation
Indices: 2007534--2007573 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2007524 TTTATTATTA
*
2007534 TTTTATTTTAGTACTTAATT
1 TTTTATTTGAGTACTTAATT
* *
2007554 TTTTATTTGATTATTTAATT
1 TTTTATTTGAGTACTTAATT
2007574 GTAAACTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTATTTGAGTACTTAATT
Found at i:2007582 original size:32 final size:32
Alignment explanation
Indices: 2007516--2007582 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
2007506 ATTTAAGTAA
* * *
2007516 TTAATTATTTTATTATTATTTTATTTTAGTAC
1 TTAATTATTTTATTATTATTTAATTGTAGAAC
2007548 TTAATT-TTTTATTTGATTATTTAATTGTA-AAC
1 TTAATTATTTTA-TT-ATTATTTAATTGTAGAAC
2007580 TTA
1 TTA
2007583 TTTAGTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
31 5 0.17
32 13 0.43
33 12 0.40
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (32 bp):
TTAATTATTTTATTATTATTTAATTGTAGAAC
Found at i:2007750 original size:19 final size:19
Alignment explanation
Indices: 2007692--2007764 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
2007682 TACGAAAATC
2007692 TATATTATT-TTTAAATT-T
1 TATA-TATTATTTAAATTAT
* *
2007710 ATAAATATTA-TGAAATTGAT
1 -TATATATTATTTAAATT-AT
2007730 TATATATTATTTAAATTAT
1 TATATATTATTTAAATTAT
*
2007749 TAGA-ATTTATTTAAAT
1 TATATA-TTATTTAAAT
2007765 AATTTTGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 11 0.25
19 26 0.59
20 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TATATATTATTTAAATTAT
Found at i:2009785 original size:27 final size:27
Alignment explanation
Indices: 2009728--2009789 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
2009718 TAACGATGAA
* * *
2009728 AACGAGGAGGAGGAGGAGGACGACGAC
1 AACGACGAGGAGGAGGAAGACGAAGAC
* *
2009755 AACGACGAGGAGGAGGAAGAGGAAGAT
1 AACGACGAGGAGGAGGAAGACGAAGAC
2009782 AACGACGA
1 AACGACGA
2009790 TAAGGATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.44, T:0.02
Consensus pattern (27 bp):
AACGACGAGGAGGAGGAAGACGAAGAC
Found at i:2010682 original size:27 final size:26
Alignment explanation
Indices: 2010652--2010703 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2010642 GGTATGCTTC
*
2010652 ATGTCATGTTTAATAATTTGTTGTTTA
1 ATGTAATGTTT-ATAATTTGTTGTTTA
*
2010679 ATGTAATGTTTATAGTTTGTTGTTT
1 ATGTAATGTTTATAATTTGTTGTTT
2010704 TTATAGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.23, C:0.02, G:0.17, T:0.58
Consensus pattern (26 bp):
ATGTAATGTTTATAATTTGTTGTTTA
Found at i:2011686 original size:83 final size:83
Alignment explanation
Indices: 2011545--2011804 Score: 337
Period size: 83 Copynumber: 3.1 Consensus size: 83
2011535 TTTTATTATT
* * * * *
2011545 ATTATTATTCAGAGAATCTATGTCATGTCATGGTGTTTCATCTTAT-TCGAAATGAAAGGCGCAT
1 ATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCTATCT-GAAATGAAAGGCGCGT
*
2011609 TCCTTGGGAAACGTTTTCC
65 TCCTAGGGAAACGTTTTCC
* * *
2011628 ATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTTCATCCCATCTGAAATAAAAGGCGCGTT
1 ATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCTATCTGAAATGAAAGGCGCGTT
2011693 -CTAAGGGAAACG-TTTCC
66 CCT-AGGGAAACGTTTTCC
* * * * *
2011710 ATTATTATTTAGAGAATCTCTGCCATGTTATAGTGTTACATCCTATCTGAAATGTAAGACGCGTT
1 ATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCTATCTGAAATGAAAGGCGCGTT
* *
2011775 CCAAGGGAAACATTTTCC
66 CCTAGGGAAACGTTTTCC
2011793 ATTATTATTCAG
1 ATTATTATTCAG
2011805 CCCATCCGAA
Statistics
Matches: 153, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
82 72 0.47
83 80 0.52
84 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (83 bp):
ATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCTATCTGAAATGAAAGGCGCGTT
CCTAGGGAAACGTTTTCC
Found at i:2011948 original size:83 final size:83
Alignment explanation
Indices: 2011805--2012023 Score: 278
Period size: 83 Copynumber: 2.6 Consensus size: 83
2011795 TATTATTCAG
* * * * * * * *
2011805 CCCATCCGAAAAGAAAGACGCGTTCCAGGTGAAGCATTTTCTATTATTATTTAGATAATCTCTGC
1 CCCATCCGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCTATTATTATTCAAAGAATCTCTAC
*
2011870 CATGTCATAATGTTCTAT
66 CATGTCATAATATTCTAT
* *
2011888 CCCATCAGAAATGAAAGGCGTGTTCCAGGGGAAGCGTTTT-TCATTATTATTCAAAGAATCTCTA
1 CCCATCCGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCT-ATTATTATTCAAAGAATCTCTA
* *
2011952 CCATGTCATAGTATTTTAT
65 CCATGTCATAATATTCTAT
* * *
2011971 CCCATCCGAAATAAAAGGCGCGTTCTAGGGGAAGTGTTTTCTATTATTATTCA
1 CCCATCCGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCTATTATTATTCA
2012024 TCCCATCTGA
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
82 1 0.01
83 114 0.98
84 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (83 bp):
CCCATCCGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCTATTATTATTCAAAGAATCTCTAC
CATGTCATAATATTCTAT
Found at i:2012028 original size:137 final size:137
Alignment explanation
Indices: 2011886--2012160 Score: 381
Period size: 137 Copynumber: 2.0 Consensus size: 137
2011876 ATAATGTTCT
* * *
2011886 ATCCCATCAGAAATGAAAGGCGTGTTCCAGGGGAAGCGTTTTTCATTATTATTCAAAGAATCTCT
1 ATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTCAAAGAATCTCT
** * * ** *
2011951 ACCATGTCATAGTATTTTATCCCATCCGAAAT-AAAAGGCGCGTTCTAGGGGAAGTGTTTTCTAT
66 ACCATGTCATAGTATTCCATCCCATCCGAAATGAAAA-GCACGTTCCAGGGGAAGCATTTTCCAT
2012015 TATTATTC
130 TATTATTC
* * *
2012023 ATCCCATCTGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTTT
1 ATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTCAAAGAATCTCT
** * *
2012088 GTCATGTCATAGTGTTCCATCCCATCCGAAATGAAAAGCACGTTCCAGGTGAAGCATTTTCCATT
66 ACCATGTCATAGTATTCCATCCCATCCGAAATGAAAAGCACGTTCCAGGGGAAGCATTTTCCATT
2012153 ATTATTC
131 ATTATTC
2012160 A
1 A
2012161 GAGAATCTCT
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
137 116 0.97
138 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (137 bp):
ATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTCAAAGAATCTCT
ACCATGTCATAGTATTCCATCCCATCCGAAATGAAAAGCACGTTCCAGGGGAAGCATTTTCCATT
ATTATTC
Found at i:2012049 original size:220 final size:219
Alignment explanation
Indices: 2011592--2012207 Score: 750
Period size: 220 Copynumber: 2.8 Consensus size: 219
2011582 TCATCTTATT
* * * * *
2011592 CGAAATGAAAGGCGCATTCCTTGGGAAACGTTTTCCATTATTATTCAGAGAATCTCTACCATGTC
1 CGAAATGAAAGGCGCGTTCC-AGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGCCATGTC
* * * * * *
2011657 ATAGTGTT-TCATCCCATCTGAAATAAAAGGCGCGTTCTAAGGGAAACG-TTTCCATTATTATTT
65 ATAGTGTTCT-ATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCCATTATTATTC
* * * * **
2011720 AGAGAATCTCTGCCATGTTATAGTGTTACATCCTATCTGAAATGTAAGACGCGTTCCAAGGGAAA
129 AGAGAATCTCTACCATGTCATAGTATTACATCCCATCTGAAATAAAAGACGCGTTCCAAGGGAAA
2011785 CATTTTCCATTATTATTCAGCCCATC
194 CATTTTCCATTATTATTCAGCCCATC
* * * * *
2011811 CGAAAAGAAAGACGCGTTCCAGGTGAAGCATTTTCTATTATTATTTAGATAATCTCTGCCATGTC
1 CGAAATGAAAGGCGCGTTCCAGG-GAAGCATTTTCCATTATTATTCAGAGAATCTCTGCCATGTC
* * *
2011876 ATAATGTTCTATCCCATCAGAAATGAAAGGCGTGTTCCAGGGGAAGCGTTTTTCATTATTATTCA
65 ATAGTGTTCTATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCCATTATTATTCA
* ** * * * * **
2011941 AAGAATCTCTACCATGTCATAGTATTTTATCCCATCCGAAATAAAAGGCGCGTTCTAGGGGAAGT
130 GAGAATCTCTACCATGTCATAGTATTACATCCCATCTGAAATAAAAGACGCGTTCCAAGGGAAAC
* * *
2012006 GTTTTCTATTATTATTCATCCCATC
195 ATTTTCCATTATTATTCAGCCCATC
* * *
2012031 TGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTTTGTCATGTC
1 CGAAATGAAAGGCGCGTTCCA-GGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGCCATGTC
* * * * * *
2012096 ATAGTGTTCCATCCCATCCGAAATGAAAAGCACGTTCCAGGTGAAGCATTTTCCATTATTATTCA
65 ATAGTGTTCTATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCCATTATTATTCA
*
2012161 GAGAATCTCTACCATGTCATAGTATTCCATCCCATCTGAAATGAAAA
130 GAGAATCTCTACCATGTCATAGTATTACATCCCATCTGAAAT-AAAA
2012208 ACACGTGTTA
Statistics
Matches: 334, Mismatches: 58, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
218 2 0.01
219 91 0.27
220 235 0.70
221 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (219 bp):
CGAAATGAAAGGCGCGTTCCAGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGCCATGTCA
TAGTGTTCTATCCCATCAGAAATGAAAGGCGCGTTCCAGGGGAAGCGTTTTCCATTATTATTCAG
AGAATCTCTACCATGTCATAGTATTACATCCCATCTGAAATAAAAGACGCGTTCCAAGGGAAACA
TTTTCCATTATTATTCAGCCCATC
Found at i:2012055 original size:54 final size:54
Alignment explanation
Indices: 2011969--2012077 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
2011959 ATAGTATTTT
* ** *
2011969 ATCCCATCCGAAATAAAAGGCGCGTTCTAGGGGAAGTGTTTTCTATTATTATTC
1 ATCCCATCCGAAATAAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTC
* *
2012023 ATCCCATCTGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTC
1 ATCCCATCCGAAATAAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTC
2012077 A
1 A
2012078 GAGAATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (54 bp):
ATCCCATCCGAAATAAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTC
Found at i:2012161 original size:83 final size:83
Alignment explanation
Indices: 2012018--2012213 Score: 304
Period size: 83 Copynumber: 2.4 Consensus size: 83
2012008 TTTCTATTAT
* *
2012018 TATT-CATCCCATCTGAAATGAAAGGCGCGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGA
1 TATTCCATCCCATCTGAAATGAAAAGCACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGA
* **
2012082 ATCTTTGTCATGTCATAG
66 ATCTCTACCATGTCATAG
* * *
2012100 TGTTCCATCCCATCCGAAATGAAAAGCACGTTCCAGGTGAAGCATTTTCCATTATTATTCAGAGA
1 TATTCCATCCCATCTGAAATGAAAAGCACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGA
2012165 ATCTCTACCATGTCATAG
66 ATCTCTACCATGTCATAG
*
2012183 TATTCCATCCCATCTGAAATGAAAAACACGT
1 TATTCCATCCCATCTGAAATGAAAAGCACGT
2012214 GTTACATTAC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 3 0.03
83 99 0.97
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (83 bp):
TATTCCATCCCATCTGAAATGAAAAGCACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGA
ATCTCTACCATGTCATAG
Found at i:2019194 original size:20 final size:21
Alignment explanation
Indices: 2019164--2019211 Score: 89
Period size: 20 Copynumber: 2.3 Consensus size: 21
2019154 TTTATCCGGA
2019164 AAAATATCCGGTTTGGGGTTT
1 AAAATATCCGGTTTGGGGTTT
2019185 AAAA-ATCCGGTTTGGGGTTT
1 AAAATATCCGGTTTGGGGTTT
2019205 AAAATAT
1 AAAATAT
2019212 TGGATGATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (21 bp):
AAAATATCCGGTTTGGGGTTT
Found at i:2022312 original size:23 final size:23
Alignment explanation
Indices: 2022286--2022332 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2022276 AGTTGCCATG
* *
2022286 TCATTGCCACATCAACTACCACA
1 TCATCGCCACATAAACTACCACA
*
2022309 TCATCGCCACGTAAACTACCACA
1 TCATCGCCACATAAACTACCACA
2022332 T
1 T
2022333 TAGCTTCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.38, G:0.06, T:0.21
Consensus pattern (23 bp):
TCATCGCCACATAAACTACCACA
Found at i:2038187 original size:20 final size:20
Alignment explanation
Indices: 2038162--2038234 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
2038152 TAATAAATCA
2038162 ATAGTATCGATACCCATAGG
1 ATAGTATCGATACCCATAGG
2038182 ATAGTATCGATACCCATAGG
1 ATAGTATCGATACCCATAGG
* * *
2038202 TTAGTATCGATACCTAAAGG
1 ATAGTATCGATACCCATAGG
2038222 ATAGTATCGATAC
1 ATAGTATCGATAC
2038235 TGAGGAGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (20 bp):
ATAGTATCGATACCCATAGG
Found at i:2042527 original size:94 final size:94
Alignment explanation
Indices: 2042364--2042542 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 94
2042354 GAGTTACTCA
***
2042364 AGGACTACGACTGCGTGATAAACTTTTATTCAGGTAAAGAAAACATTGTAGTAGACGCCTCGAGC
1 AGGACTACGACTGCGTGATAAACTACCATTCAGGTAAAGAAAACATTGTAGTAGACGCCTCGAGC
2042429 AGAAAGTCGATATCAGAGTTGCAAGCTCT
66 AGAAAGTCGATATCAGAGTTGCAAGCTCT
* * * * * ** *
2042458 AGGACTATGACTGCGTGATAGACTACCATTCGGGTAAGGCAAACATTGTAGTAGACGCCTTTAGT
1 AGGACTACGACTGCGTGATAAACTACCATTCAGGTAAAGAAAACATTGTAGTAGACGCCTCGAGC
2042523 AGAAAGTCGATATCAGAGTT
66 AGAAAGTCGATATCAGAGTT
2042543 ATGAGCTCTC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (94 bp):
AGGACTACGACTGCGTGATAAACTACCATTCAGGTAAAGAAAACATTGTAGTAGACGCCTCGAGC
AGAAAGTCGATATCAGAGTTGCAAGCTCT
Found at i:2043482 original size:21 final size:20
Alignment explanation
Indices: 2043452--2043490 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2043442 ACTTCACTAT
2043452 GTTGGTAGAGCATAATGAGG
1 GTTGGTAGAGCATAATGAGG
*
2043472 GTTGGATAGAGCTTAATGA
1 GTTGG-TAGAGCATAATGA
2043491 AGATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (20 bp):
GTTGGTAGAGCATAATGAGG
Found at i:2047186 original size:28 final size:29
Alignment explanation
Indices: 2047154--2047214 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
2047144 CATTAACAAT
2047154 ATCATTAC-CCAAAATAAGATTAATTCCA
1 ATCATTACTCCAAAATAAGATTAATTCCA
2047182 ATCATTACTCCAAAATAAGATTAATTCCA
1 ATCATTACTCCAAAATAAGATTAATTCCA
2047211 ATCA
1 ATCA
2047215 ATAAATCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (29 bp):
ATCATTACTCCAAAATAAGATTAATTCCA
Found at i:2048170 original size:2 final size:2
Alignment explanation
Indices: 2048163--2048194 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2048153 CTATTATTTA
2048163 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
2048195 TCCAATCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2058197 original size:2 final size:2
Alignment explanation
Indices: 2058190--2058214 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2058180 TCGGCGTAGC
2058190 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2058215 GTATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2061973 original size:28 final size:29
Alignment explanation
Indices: 2061942--2062009 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 29
2061932 TTTTAATATT
2061942 TACTTGTTAT-GA-GTCCAA-TTTTTTCAAA
1 TACTTGTTATAGAGGTCCAACTTTTTT--AA
*
2061970 TACTTTTTATTAGAGGTCCAACTTTTTTAA
1 TACTTGTTA-TAGAGGTCCAACTTTTTTAA
*
2062000 TATTTGTTAT
1 TACTTGTTAT
2062010 TATGAGCGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 8 0.24
29 2 0.06
30 11 0.33
31 6 0.18
32 6 0.18
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.51
Consensus pattern (29 bp):
TACTTGTTATAGAGGTCCAACTTTTTTAA
Found at i:2063388 original size:13 final size:11
Alignment explanation
Indices: 2063349--2063391 Score: 68
Period size: 11 Copynumber: 3.7 Consensus size: 11
2063339 GTGCCCGTTT
2063349 ATATTTTAAAA
1 ATATTTTAAAA
2063360 ATATTTTAAAA
1 ATATTTTAAAA
2063371 ATATTTTAAATTA
1 ATATTTTAAA--A
2063384 ATATTTTA
1 ATATTTTA
2063392 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 21 0.70
13 9 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:2063722 original size:21 final size:19
Alignment explanation
Indices: 2063694--2063733 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
2063684 TTATAAAGAG
*
2063694 TTTCTTTTACCAAATAAACT
1 TTTCTTTTA-AAAATAAACT
2063714 TTTCATTTTAAAAATAAACT
1 TTTC-TTTTAAAAATAAACT
2063734 GAATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTCTTTTAAAAATAAACT
Found at i:2065179 original size:157 final size:158
Alignment explanation
Indices: 2064893--2065208 Score: 616
Period size: 157 Copynumber: 2.0 Consensus size: 158
2064883 CTCCCAAGAT
2064893 TAATTGCTCAAATAAGGTGAAATCCAAAGTGTTGGTCGTAGGTCGCCATGTCTTCCGGGCGACCT
1 TAATTGCTCAAATAAGGTGAAATCCAAAGTGTTGGTCGTAGGTCGCCATGTCTTCCGGGCGACCT
2064958 ACTAGGTCGCCATGTCTTCTCGGCGAGCTACAAGAGATTACATGTGCCATGCACGTCCCAACA-C
66 ACTAGGTCGCCATGTCTTCTCGGCGAGCTACAAGAGATTACATGTGCCATGCACGTCCCAACACC
2065022 TGGGCATCCGATGCCATCCAACCGAGGC
131 TGGGCATCCGATGCCATCCAACCGAGGC
2065050 TAATTGCTCAAATAAGGTGAAATCCAAAGTGTTGGTCGTAGGTCGCCATGTCTTCCGGGCGACCT
1 TAATTGCTCAAATAAGGTGAAATCCAAAGTGTTGGTCGTAGGTCGCCATGTCTTCCGGGCGACCT
2065115 ACTAGGTCGCCATGTCTTCTCGGCGAGCTACAAGAGATTACATGTGCCATGCACGTCCCAACACT
66 ACTAGGTCGCCATGTCTTCTCGGCGAGCTACAAGAGATTACATGTGCCATGCACGTCCCAACAC-
2065180 CTGGGCATCCGATGCCATCCAACCGAGGC
130 CTGGGCATCCGATGCCATCCAACCGAGGC
2065209 CATCCGACCG
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
157 128 0.82
159 29 0.18
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (158 bp):
TAATTGCTCAAATAAGGTGAAATCCAAAGTGTTGGTCGTAGGTCGCCATGTCTTCCGGGCGACCT
ACTAGGTCGCCATGTCTTCTCGGCGAGCTACAAGAGATTACATGTGCCATGCACGTCCCAACACC
TGGGCATCCGATGCCATCCAACCGAGGC
Found at i:2065245 original size:34 final size:37
Alignment explanation
Indices: 2065202--2065286 Score: 131
Period size: 34 Copynumber: 2.4 Consensus size: 37
2065192 TGCCATCCAA
2065202 CCGAGGCCATCCGACCGAGGCCATCCG-A-GAGC-AT
1 CCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTAT
2065236 CCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTAT
1 CCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTAT
* *
2065273 GCGAGGGCATCCGA
1 CCGAGGCCATCCGA
2065287 TGGCAACCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 27 0.59
35 1 0.02
36 4 0.09
37 14 0.30
ACGTcount: A:0.24, C:0.36, G:0.31, T:0.09
Consensus pattern (37 bp):
CCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTAT
Found at i:2065245 original size:48 final size:47
Alignment explanation
Indices: 2065184--2065286 Score: 143
Period size: 48 Copynumber: 2.2 Consensus size: 47
2065174 AACACTCTGG
* *
2065184 GCATCCGATGCCATCCAACCGAGGCCATCCGACCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCAACCGAGGCCATCCGAACGA-GCCATCCGAGA
* * * *
2065232 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTATGCGAGG
1 GCATCCGAGGCCATCCAACCGAGGCCATCCGAACGAGCCATCCGAGA
2065279 GCATCCGA
1 GCATCCGA
2065287 TGGCAACCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 16 0.33
48 33 0.67
ACGTcount: A:0.24, C:0.37, G:0.28, T:0.11
Consensus pattern (47 bp):
GCATCCGAGGCCATCCAACCGAGGCCATCCGAACGAGCCATCCGAGA
Found at i:2065262 original size:14 final size:14
Alignment explanation
Indices: 2065188--2065268 Score: 81
Period size: 14 Copynumber: 5.4 Consensus size: 14
2065178 CTCTGGGCAT
* *
2065188 CCGATGCCATCCAA
1 CCGAGGCCATCCGA
2065202 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
2065216 CCGAGGCCATCCGAGAGCA
1 CCGAGGCCATCC----G-A
2065235 TCCGAGGCCATCCGA
1 -CCGAGGCCATCCGA
2065250 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
2065264 ACGAG
1 CCGAG
2065269 CTATGCGAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
14 42 0.72
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 12 0.21
ACGTcount: A:0.25, C:0.40, G:0.27, T:0.09
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:2065263 original size:10 final size:10
Alignment explanation
Indices: 2065216--2065249 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2065206 GGCCATCCGA
2065216 CCGAGGCCAT
1 CCGAGGCCAT
2065226 CCGAGAG-CAT
1 CCGAG-GCCAT
2065236 CCGAGGCCAT
1 CCGAGGCCAT
2065246 CCGA
1 CCGA
2065250 CCGAGGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.05
10 20 0.91
11 1 0.05
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:2065307 original size:33 final size:33
Alignment explanation
Indices: 2065250--2065334 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
2065240 GGCCATCCGA
* * * *
2065250 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGCAAGCCGAGCGAGCTATGCGAGGGAAT
*
2065283 CCGATGGCAA-CCGAGCGAGCTATGCGAGGTAAT
1 CCGA-GGCAAGCCGAGCGAGCTATGCGAGGGAAT
*
2065316 CCGAGGGAAGCCGAGCGAG
1 CCGAGGCAAGCCGAGCGAG
2065335 GGTAGGTCGC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
32 4 0.09
33 37 0.82
34 4 0.09
ACGTcount: A:0.26, C:0.27, G:0.36, T:0.11
Consensus pattern (33 bp):
CCGAGGCAAGCCGAGCGAGCTATGCGAGGGAAT
Found at i:2065465 original size:29 final size:29
Alignment explanation
Indices: 2065423--2065508 Score: 163
Period size: 29 Copynumber: 3.0 Consensus size: 29
2065413 GAGCAAGGGT
2065423 AGGTCGCCCGGAGTGCATGGCGGCCTACA
1 AGGTCGCCCGGAGTGCATGGCGGCCTACA
2065452 AGGTCGCCCGGAGTGCATGGCGGCCTACA
1 AGGTCGCCCGGAGTGCATGGCGGCCTACA
*
2065481 AGGTCGCCCGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGGCCTAC
2065509 GGCCAACACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.17, C:0.31, G:0.37, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGGCCTACA
Found at i:2068860 original size:21 final size:23
Alignment explanation
Indices: 2068819--2068861 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2068809 TTAAAATGAT
2068819 AATATTAATATCTTAAAATTTTG
1 AATATTAATATCTTAAAATTTTG
*
2068842 AATATTTATAT-TT-AAATTTT
1 AATATTAATATCTTAAAATTTT
2068862 AGAGTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATTAATATCTTAAAATTTTG
Found at i:2076222 original size:65 final size:64
Alignment explanation
Indices: 2076153--2076308 Score: 233
Period size: 65 Copynumber: 2.4 Consensus size: 64
2076143 AAATTGAACT
*
2076153 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGGTT-TTATGAAAAC
1 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTT-TG-AAAC
2076217 A
64 A
* * *
2076218 TCGAATACATTTTATTCATCGATGCACATACCATGCATCGATGCACTCTGGCTTGTTTGAAACA
1 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTTTGAAACA
* *
2076282 TCGAATGCACTTCATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
2076309 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 28 0.34
65 52 0.63
66 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTTTGAAACA
Found at i:2076308 original size:17 final size:19
Alignment explanation
Indices: 2076280--2076328 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2076270 TTGTTTGAAA
2076280 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
2076298 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
2076317 CACCGATGCACT
1 CATCGATGCACT
2076329 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:2080541 original size:17 final size:17
Alignment explanation
Indices: 2080500--2080544 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2080490 CCCTACTTGA
2080500 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
2080517 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
2080534 TTAAATATTTA
1 TTAAATATTTA
2080545 TTTTTGCATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:2080718 original size:46 final size:46
Alignment explanation
Indices: 2080651--2080741 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
2080641 ATATTGAATC
2080651 TTCAATACTTGTACATTCAATCAATTTGATCCTAATTTTAATTAAT
1 TTCAATACTTGTACATTCAATCAATTTGATCCTAATTTTAATTAAT
*
2080697 TTCAATACTTGTATATTCAATCAATTTGATCCTAATTTTAATTAA
1 TTCAATACTTGTACATTCAATCAATTTGATCCTAATTTTAATTAA
2080742 AGGAGGTCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (46 bp):
TTCAATACTTGTACATTCAATCAATTTGATCCTAATTTTAATTAAT
Found at i:2081132 original size:20 final size:20
Alignment explanation
Indices: 2081109--2081158 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2081099 TATTTTTATA
*
2081109 TTTTAAATTAAATTTAATAT
1 TTTTAAATTAAATTCAATAT
* *
2081129 TTTTATATTAAATTCATTAT
1 TTTTAAATTAAATTCAATAT
2081149 TTTTATAATT
1 TTTTA-AATT
2081159 CTAAATTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAATTAAATTCAATAT
Found at i:2081150 original size:27 final size:26
Alignment explanation
Indices: 2081093--2081142 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
2081083 TAATAAATAG
*
2081093 ATTTATTATTTTTATATTTTAAATTAA
1 ATTTAATATTTTTATA-TTTAAATTAA
2081120 ATTTAATATTTTTATA-TTAAATT
1 ATTTAATATTTTTATATTTAAATT
2081143 CATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTAATATTTTTATATTTAAATTAA
Found at i:2090562 original size:12 final size:13
Alignment explanation
Indices: 2090542--2090577 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
2090532 GGTGTTTGAG
2090542 TGCATGGATGCAC
1 TGCATGGATGCAC
2090555 TG-ATGGATGCAC
1 TGCATGGATGCAC
2090567 TGCATGG-TGCA
1 TGCATGGATGCA
2090578 TCGATGCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (13 bp):
TGCATGGATGCAC
Found at i:2090606 original size:23 final size:21
Alignment explanation
Indices: 2090557--2090673 Score: 121
Period size: 21 Copynumber: 5.5 Consensus size: 21
2090547 GGATGCACTG
* *
2090557 ATGGATGCACTGCA-TGGTGC
1 ATGGATGCACTGTAGGGGTGC
*
2090577 ATCGATGCACTAGT-GGCAGGTGC
1 ATGGATGCACT-GTAGG--GGTGC
*
2090600 ATGGATGCACTGTAGGGGTAC
1 ATGGATGCACTGTAGGGGTGC
* *
2090621 ATGGATGCACTGCAAGGGTGC
1 ATGGATGCACTGTAGGGGTGC
* *
2090642 ATGGATGCATTGAAGGGGTGC
1 ATGGATGCACTGTAGGGGTGC
2090663 ATGGATGCACT
1 ATGGATGCACT
2090674 TTTACACTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.12
21 51 0.64
22 2 0.03
23 17 0.21
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (21 bp):
ATGGATGCACTGTAGGGGTGC
Found at i:2090920 original size:21 final size:21
Alignment explanation
Indices: 2090896--2090935 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2090886 ATATTTAATG
2090896 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
2090917 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
2090936 CCAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:2092586 original size:3 final size:3
Alignment explanation
Indices: 2092578--2092636 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
2092568 GTCTACCTCT
* * *
2092578 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTG TTT TTA TTC -TC TTC ATT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
*
2092625 TTC TTC ATC TTC
1 TTC TTC TTC TTC
2092637 CTTTACCATC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.05, C:0.27, G:0.02, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:2094108 original size:23 final size:21
Alignment explanation
Indices: 2094055--2094131 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 21
2094045 CGATGTTTGA
2094055 GTGCATGGATGCAC-TGCATG
1 GTGCATGGATGCACTTGCATG
*
2094075 GTGCATTGATGCACTAGTGGCA-G
1 GTGCATGGATGCACT--T-GCATG
*
2094098 GTGCATGGATGCAC-TGTATGG
1 GTGCATGGATGCACTTGCAT-G
2094119 GTGCATGGATGCA
1 GTGCATGGATGCA
2094132 GTTTGACACT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.04
20 14 0.29
21 14 0.29
23 15 0.31
24 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (21 bp):
GTGCATGGATGCACTTGCATG
Found at i:2104247 original size:20 final size:20
Alignment explanation
Indices: 2104210--2104252 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2104200 AATCCACCAC
*
2104210 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2104230 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
2104250 ATG
1 ATG
2104253 GTCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2106889 original size:13 final size:13
Alignment explanation
Indices: 2106873--2106912 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2106863 AGGAAACTAG
2106873 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
2106886 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
2106899 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
2106913 GTGGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Found at i:2114536 original size:20 final size:20
Alignment explanation
Indices: 2114513--2114555 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2114503 AATCCACCAC
*
2114513 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2114533 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
2114553 ATG
1 ATG
2114556 GGCTCTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2116289 original size:20 final size:20
Alignment explanation
Indices: 2116264--2116301 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2116254 TTGGTGCAGA
2116264 GGGAATCGATCCCCCCTTGG
1 GGGAATCGATCCCCCCTTGG
*
2116284 GGGAATCGATTCCCCCTT
1 GGGAATCGATCCCCCCTT
2116302 TGAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (20 bp):
GGGAATCGATCCCCCCTTGG
Found at i:2116299 original size:21 final size:21
Alignment explanation
Indices: 2116264--2116349 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
2116254 TTGGTGCAGA
2116264 GGGAATCGA-TCCCCCCTTGG
1 GGGAATCGATTCCCCCCTTGG
*
2116284 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCCTTG--G
* * ***
2116307 GGGAACCGATTCCTCCCACAG
1 GGGAATCGATTCCCCCCTTGG
*
2116328 GGGAATCGATACCCCCC-TGG
1 GGGAATCGATTCCCCCCTTGG
2116348 GG
1 GG
2116350 TTCTGGTTAA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 12 0.24
21 24 0.47
23 15 0.29
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.19
Consensus pattern (21 bp):
GGGAATCGATTCCCCCCTTGG
Found at i:2126995 original size:7 final size:7
Alignment explanation
Indices: 2126983--2127009 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2126973 AAGAACTTAC
2126983 TAGGAAG
1 TAGGAAG
2126990 TAGGAAG
1 TAGGAAG
2126997 TAGGAAG
1 TAGGAAG
2127004 TAGGAA
1 TAGGAA
2127010 TTAAAGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (7 bp):
TAGGAAG
Found at i:2128692 original size:2 final size:2
Alignment explanation
Indices: 2128687--2128713 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2128677 TCACAATCAG
2128687 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2128714 TGATTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2136365 original size:20 final size:21
Alignment explanation
Indices: 2136337--2136375 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2136327 ATTAGTTGAA
*
2136337 AAAATAAAAGA-AAATTATTT
1 AAAACAAAAGATAAATTATTT
2136357 AAAACAAAAGATAAATTAT
1 AAAACAAAAGATAAATTAT
2136376 ATCAGTGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAACAAAAGATAAATTATTT
Found at i:2136920 original size:29 final size:28
Alignment explanation
Indices: 2136837--2137131 Score: 171
Period size: 30 Copynumber: 9.8 Consensus size: 28
2136827 TAATTTTACA
*
2136837 TCTTAACATT-AAAATATATTTTATTTTT
1 TCTTAAC-TTAAAAATATATTTTATTCTT
* *
2136865 ATATTAACTTATTAAATATATTTTATTCTT
1 -TCTTAACTTA-AAAATATATTTTATTCTT
*
2136895 GTCTCAA-TCTAAAAATATATTTTATTCTT
1 -TCTTAACT-TAAAAATATATTTTATTCTT
* *
2136924 ACTTTAACTTAAAAATATATTTTAGTCTTT
1 TC-TTAACTTAAAAATATATTTTATTC-TT
2136954 ATCTTAACTTAAAAAGTATATTTTATTCTT
1 -TCTTAACTTAAAAA-TATATTTTATTCTT
* * * * *
2136984 ATCTTAACTTATTACATAAAGTATATTCTT
1 -TCTTAACTTA-AAAATATATTTTATTCTT
** * * *
2137014 AAATTAAATTATTAAATATATTCTATTCTAT
1 -TCTTAACTTA-AAAATATATTTTATTCT-T
* * *
2137045 TCTTACCTTAAATTATAAATATAATTAATTCTT
1 TCTTAACTT--A--A-AAATATATTTTATTCTT
* *
2137078 ATTTTAACTTAAAAATATATCTTTTATTATT
1 -TCTTAACTTAAAAATATA--TTTTATTCTT
*
2137109 ATCTTAACTTAAAAAAATATTTT
1 -TCTTAACTTAAAAATATATTTT
2137132 TATTTTAACT
Statistics
Matches: 210, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
28 3 0.01
29 55 0.26
30 89 0.42
31 39 0.19
32 2 0.01
33 2 0.01
34 20 0.10
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (28 bp):
TCTTAACTTAAAAATATATTTTATTCTT
Found at i:2137076 original size:34 final size:36
Alignment explanation
Indices: 2137007--2137090 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
2136997 ACATAAAGTA
* *
2137007 TATTCTTAAATTAAATTATTAAATATATTCTATTC-
1 TATTCTTAACTTAAATTATTAAATATATTCAATTCT
*
2137042 TATTCTTACCTTAAATTA-TAAATATAATT-AATTCT
1 TATTCTTAACTTAAATTATTAAATAT-ATTCAATTCT
2137077 TATT-TTAACTTAAA
1 TATTCTTAACTTAAA
2137091 AATATATCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
34 20 0.47
35 23 0.53
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (36 bp):
TATTCTTAACTTAAATTATTAAATATATTCAATTCT
Found at i:2137115 original size:60 final size:58
Alignment explanation
Indices: 2136836--2137159 Score: 216
Period size: 60 Copynumber: 5.4 Consensus size: 58
2136826 TTAATTTTAC
* * * *
2136836 ATCTTAACATT-AAAATATATTTTATTTTTATATTAACTTATTAAATATATTTTATTCTT
1 ATCTTAAC-TTAAAAATATATTTTATTCTTATCTTAACTTA-TAAATATAATTAATTCTT
* * * * * *
2136895 GTCTCAA-TCTAAAAATATATTTTATTCTTA-CTTTAACTTAAAAATATATTTTAGTCTTT
1 ATCTTAACT-TAAAAATATATTTTATTCTTATC-TTAACTTATAAATATAATTAATTC-TT
* *
2136954 ATCTTAACTTAAAAAGTATATTTTATTCTTATCTTAACTTATTACATA-AAGTATATTCTT
1 ATCTTAACTTAAAAA-TATATTTTATTCTTATCTTAACTTA-TAAATATAATTA-ATTCTT
** * * * *
2137014 AAATTAAATTATTAAATATATTCTATTCTATTCTTACCTTAAATTATAAATATAATTAATTCTT
1 ATCTTAACTTA--AAA-ATA---TATTTTATTCTTATCTTAACTTATAAATATAATTAATTCTT
* * *
2137078 ATTTTAACTTAAAAATATATCTTTTATTATTATCTTAACTTA-AAA-A-AA-T-ATTTTT
1 ATCTTAACTTAAAAATATA--TTTTATTCTTATCTTAACTTATAAATATAATTAATTCTT
* * *
2137133 ATTTTAACTACAAAAATATATTATATT
1 ATCTTAACT-TAAAAATATATTTTATT
2137160 TTTTTTAAAA
Statistics
Matches: 214, Mismatches: 32, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
54 6 0.03
55 14 0.07
56 10 0.05
57 3 0.01
58 18 0.08
59 47 0.22
60 53 0.25
61 11 0.05
62 8 0.04
63 1 0.00
64 19 0.09
65 24 0.11
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (58 bp):
ATCTTAACTTAAAAATATATTTTATTCTTATCTTAACTTATAAATATAATTAATTCTT
Found at i:2137159 original size:24 final size:25
Alignment explanation
Indices: 2137102--2137161 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
2137092 ATATATCTTT
*
2137102 TATTATTATCTTAACTTAAAAAAATA
1 TATTA-TATTTTAACTTAAAAAAATA
* *
2137128 T-TTTTATTTTAAC-TACAAAAATA
1 TATTATATTTTAACTTAAAAAAATA
2137151 TATTATATTTT
1 TATTATATTTT
2137162 TTTTAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 10 0.34
24 16 0.55
25 2 0.07
26 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTATATTTTAACTTAAAAAAATA
Found at i:2137246 original size:30 final size:31
Alignment explanation
Indices: 2137207--2137316 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 31
2137197 AATATTTAAG
* * *
2137207 TTAATATAAGAATAAATTATATTTTTT-AAT
1 TTAAAATAAGAATAAAATATATTTTTTAAAA
* * *
2137237 TTGAGATAAG-ATAAAAAATATTTTTTAAAA
1 TTAAAATAAGAATAAAATATATTTTTTAAAA
**
2137267 TTAAAATAAGAATAAAATATA-TTTTT-AGG
1 TTAAAATAAGAATAAAATATATTTTTTAAAA
2137296 TTACAAA-AAGAATAAAATATA
1 TTA-AAATAAGAATAAAATATA
2137317 ATTAATAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 32 0.48
30 26 0.39
31 9 0.13
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (31 bp):
TTAAAATAAGAATAAAATATATTTTTTAAAA
Found at i:2137259 original size:29 final size:31
Alignment explanation
Indices: 2137207--2137292 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
2137197 AATATTTAAG
* ** *
2137207 TTAATATAAGAATAAATTATATTTTTT-AAT
1 TTAAAATAAGAATAAAAAATATTTTTTAAAA
* *
2137237 TTGAGATAAG-ATAAAAAATATTTTTTAAAA
1 TTAAAATAAGAATAAAAAATATTTTTTAAAA
*
2137267 TTAAAATAAGAATAAAATATATTTTT
1 TTAAAATAAGAATAAAAAATATTTTT
2137293 AGGTTACAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 14 0.30
30 18 0.39
31 14 0.30
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (31 bp):
TTAAAATAAGAATAAAAAATATTTTTTAAAA
Found at i:2140259 original size:36 final size:36
Alignment explanation
Indices: 2140212--2140282 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
2140202 TACCTAAATT
2140212 GGCCTTCTAAAGTTCAAATATAACCCCCTCACACTC
1 GGCCTTCTAAAGTTCAAATATAACCCCCTCACACTC
** *
2140248 GGCCTTCTAAAGTTCCGATCTAACCCCCTCACACT
1 GGCCTTCTAAAGTTCAAATATAACCCCCTCACACT
2140283 AAATCTGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.38, G:0.10, T:0.25
Consensus pattern (36 bp):
GGCCTTCTAAAGTTCAAATATAACCCCCTCACACTC
Found at i:2140974 original size:3 final size:3
Alignment explanation
Indices: 2140966--2140993 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2140956 TATTTATTTG
2140966 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2140994 TAAAGGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2141706 original size:117 final size:116
Alignment explanation
Indices: 2141464--2141939 Score: 588
Period size: 114 Copynumber: 4.1 Consensus size: 116
2141454 GAGCTAAGAC
* * * * *
2141464 TGAACAAGTTCTTCTCATTATGAACTTCTTATCTATCATCGAACGAGTTATTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTT-TTTTCTCTCATCGGATGAGTTCTTCTCATTATGAACT
* * * ** *
2141529 CTCATATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATTGAGCCAAGGT
65 CTC-CACTGGAAATGTTGATCCAACTCCTTCTGTGATGGAATCAAACCAAGGT
* * *
2141582 TGAACAAGTTCTTCTCATTATGAACATTTTTTCTCTCATCGTATGAGGTCTTCTCATTATGATCT
1 TGAACAAGTTCTTCTCATTATGAAC-TTTTTTCTCTCATCGGATGAGTTCTTCTCATTATGAACT
*
2141647 CTCCACTGGAAATGTTGATCCAACTCCTTTTGTGATGGAATCAAACCAAGGT
65 CTCCACTGGAAATGTTGATCCAACTCCTTCTGTGATGGAATCAAACCAAGGT
* * * * *
2141699 TGAACAAG-TCTTTCTTATTATGAACTTTTTCTCTCTCATGGGATAAGTTCTGCTTATTATGAAC
1 TGAACAAGTTC-TTCTCATTATGAACTTTTT-TCTCTCATCGGATGAGTTCTTCTCATTATGAAC
* * *
2141763 TCTCAACTGGAAA---TGATCCACCTCCTTCTATGATGGAATCAAACCAAGGT
64 TCTCCACTGGAAATGTTGATCCAACTCCTTCTGTGATGGAATCAAACCAAGGT
* * * * * *
2141813 TGAACAAGTTCTTTTCATTATGAACCTCTTCTCCCTCATTGGATGAGTTTTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAA-CTTTTTTCTCTCATCGGATGAGTTCTTCTCATTATGAACT
2141878 CTCCACTGGAAATGTTGATCC-A--CCTTCTGTGATGGAATCAAACCAAGGT
65 CTCCACTGGAAATGTTGATCCAACTCCTTCTGTGATGGAATCAAACCAAGGT
2141927 TGAACAAGTTCTT
1 TGAACAAGTTCTT
2141940 ATTATGAGCT
Statistics
Matches: 311, Mismatches: 39, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
114 131 0.42
115 6 0.02
116 7 0.02
117 107 0.34
118 58 0.19
119 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (116 bp):
TGAACAAGTTCTTCTCATTATGAACTTTTTTCTCTCATCGGATGAGTTCTTCTCATTATGAACTC
TCCACTGGAAATGTTGATCCAACTCCTTCTGTGATGGAATCAAACCAAGGT
Found at i:2141837 original size:231 final size:227
Alignment explanation
Indices: 2141464--2141962 Score: 642
Period size: 231 Copynumber: 2.2 Consensus size: 227
2141454 GAGCTAAGAC
* * * * ** * * *
2141464 TGAACAAGTTCTTCTCATTATGAACTTCTTATCTATCATCGAACGAGTTATTCTCATTATGAACT
1 TGAACAAGTTC-T-T-ATTATGAACTTCTTCTCTCTCATGGGATAAGTTCTGCTTATTATGAACT
* * ** *
2141529 CTCATATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATTGAGCCAAGGTTGAACAAGTTCT
63 CTCATACTGGAAA--TTGATCCACCTCCTTCTATGATGGAATCAAACCAAGGTTGAACAAGTTCT
* * * * *
2141594 TCTCATTATGAACATTTTTTCTCTCATCGTATGAGGTCTTCTCATTATGATCTCTCCACTGGAAA
126 TCTCATTATGAACATCTTCTCCCTCATCGGATGAGGTCTTCTCATTATGAACTCTCCACTGGAAA
*
2141659 TGTTGATCCAACTCCTTTTGTGATGGAATCAAACCAAGGT
191 TGTTGATCC-A--CCTTCTGTGATGGAATCAAACCAAGGT
*
2141699 TGAACAAGTCTTTCTTATTATGAACTTTTTCTCTCTCATGGGATAAGTTCTGCTTATTATGAACT
1 TGAACAAG---TTCTTATTATGAACTTCTTCTCTCTCATGGGATAAGTTCTGCTTATTATGAACT
*
2141764 CTCA-ACTGGAAA-TGATCCACCTCCTTCTATGATGGAATCAAACCAAGGTTGAACAAGTTCTTT
63 CTCATACTGGAAATTGATCCACCTCCTTCTATGATGGAATCAAACCAAGGTTGAACAAGTTCTTC
* * * *
2141827 TCATTATGAACCTCTTCTCCCTCATTGGATGAGTTTTTCTCATTATGAACTCTCCACTGGAAATG
128 TCATTATGAACATCTTCTCCCTCATCGGATGAGGTCTTCTCATTATGAACTCTCCACTGGAAATG
2141892 TTGATCCACCTTCTGTGATGGAATCAAACCAAGGT
193 TTGATCCACCTTCTGTGATGGAATCAAACCAAGGT
*
2141927 TGAACAAGTTCTTATTATGAGCTTCTTCTCTCTCAT
1 TGAACAAGTTCTTATTATGAACTTCTTCTCTCTCAT
2141963 TGTAAACTAT
Statistics
Matches: 233, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
225 26 0.11
228 34 0.15
230 1 0.00
231 109 0.47
234 7 0.03
235 51 0.22
236 1 0.00
237 1 0.00
238 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (227 bp):
TGAACAAGTTCTTATTATGAACTTCTTCTCTCTCATGGGATAAGTTCTGCTTATTATGAACTCTC
ATACTGGAAATTGATCCACCTCCTTCTATGATGGAATCAAACCAAGGTTGAACAAGTTCTTCTCA
TTATGAACATCTTCTCCCTCATCGGATGAGGTCTTCTCATTATGAACTCTCCACTGGAAATGTTG
ATCCACCTTCTGTGATGGAATCAAACCAAGGT
Found at i:2142566 original size:38 final size:37
Alignment explanation
Indices: 2142484--2142568 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
2142474 TTCTAGGGAG
* *
2142484 ACAATTCTAAAAATGACTCAAACGACATTCTAGATAA
1 ACAATCCTAAAAATGACTCAAACGACATTCTAGAAAA
* *
2142521 ACGATCCTAAAAATGACTCAAATGA-ATTTTCTAGAAAA
1 ACAATCCTAAAAATGACTCAAACGACA--TTCTAGAAAA
*
2142559 ATAATCCTAA
1 ACAATCCTAA
2142569 GAAGGATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 1 0.03
37 22 0.55
38 17 0.43
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (37 bp):
ACAATCCTAAAAATGACTCAAACGACATTCTAGAAAA
Found at i:2153029 original size:19 final size:19
Alignment explanation
Indices: 2153005--2153042 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2152995 GTTCCTCTCC
*
2153005 AAATTTTATATGCTTTTCT
1 AAATTTTATATGCTCTTCT
2153024 AAATTTTATATGCTCTTCT
1 AAATTTTATATGCTCTTCT
2153043 CTACATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTTTATATGCTCTTCT
Found at i:2162374 original size:264 final size:260
Alignment explanation
Indices: 2162051--2162670 Score: 797
Period size: 258 Copynumber: 2.4 Consensus size: 260
2162041 CTTATTCATA
* *
2162051 TATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTTGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGAGTCGGGTCGGATTTCTAATTCATATA--T---
* * * * *
2162115 TTGGGTCGAGTCGGGTGAAATTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTT
61 TCGGGTCGAGTCGGGTGAAACTTTATTTTGGTC-GATCGGGTCAGTTTTTTTAAGTGTGATATTA
2162180 CAGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATA-CT-C-A-ACCCAAAAATATATATAATTTT
125 CAGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCTCCGACACCCAAAAA-ATATATAATTTT
* * * ** *
2162241 ATCTTATATATTTAGGAATAATTGTAATAATACCCCTCTATATATAATTTTTTTTCAATTAAGTC
189 ACCTTATATATATAGGAATAAGTACAATAATACCCCTCTATATAT-ATTTTTTTCCAATTAAGTC
2162306 ACTACTTT
253 ACTACTTT
2162314 TATTGAATAAAAATAATTTTTTTATTATTTCGAGTCGGGTCGGATTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGAGTCGGGTCGGATTTCTAATTCATATATTCGGG
* **
2162379 TCGGGTCGGGTGAAACTTTATTTTGGTCGATCGGGTCAGTTTTTTTAAGTGTGATATTAGGGTCG
66 TCGAGTCGGGTGAAACTTTATTTTGGTCGATCGGGTCAGTTTTTTTAAGTGTGATATTACAGTCG
2162444 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCTGACCCGACCCTACCCAAAAAATATATAATTTTA
131 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCT---CCGA--C-ACCCAAAAAATATATAATTTTA
2162509 CCTTATATATATAGGAATAAGTACAATAATACCCCTCTATATATATTTTTTTCCAATTAAGTCAC
190 CCTTATATATATAGGAATAAGTACAATAATACCCCTCTATATATATTTTTTTCCAATTAAGTCAC
**
2162574 TGTTTT
255 TACTTT
2162580 TATTGAATAAAAATAA--TTTTTATTA-TT----TC--G--GG-TTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGAGTCGGGTCGGATTTCTAATTCATATATTCGGG
* * *
2162633 TTGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
66 TCGAGTCGGGTGAAACTTTATTTTGGTC-GATCGGGTC
2162671 TCGGATGGAG
Statistics
Matches: 325, Mismatches: 20, Indels: 32
0.86 0.05 0.08
Matches are distributed among these distances:
254 48 0.15
255 10 0.03
257 1 0.00
258 61 0.19
259 34 0.10
262 1 0.00
263 17 0.05
264 52 0.16
266 40 0.12
267 52 0.16
268 9 0.03
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (260 bp):
TATTGAATAAAAATAATTTTTTTATTATTTCGAGTCGGGTCGGATTTCTAATTCATATATTCGGG
TCGAGTCGGGTGAAACTTTATTTTGGTCGATCGGGTCAGTTTTTTTAAGTGTGATATTACAGTCG
GGTCGAGTTCGGGTTTAGGGTGAAAAATACCTCCGACACCCAAAAAATATATAATTTTACCTTAT
ATATATAGGAATAAGTACAATAATACCCCTCTATATATATTTTTTTCCAATTAAGTCACTACTTT
Found at i:2163042 original size:17 final size:18
Alignment explanation
Indices: 2163020--2163066 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2163010 TATGGAATTG
2163020 GATTCCAATTCCTT-ACA
1 GATTCCAATTCCTTCACA
*
2163037 GATTCCAAATCCTTCACA
1 GATTCCAATTCCTTCACA
2163055 GATTCCAATTCC
1 GATTCCAATTCC
2163067 CTCAGAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:2163057 original size:18 final size:17
Alignment explanation
Indices: 2163020--2163062 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
2163010 TATGGAATTG
*
2163020 GATTCCAATTCCTTACA
1 GATTCCAAATCCTTACA
2163037 GATTCCAAATCCTTCACA
1 GATTCCAAATCCTT-ACA
2163055 GATTCCAA
1 GATTCCAA
2163063 TTCCCTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (17 bp):
GATTCCAAATCCTTACA
Found at i:2164328 original size:20 final size:20
Alignment explanation
Indices: 2164297--2164346 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2164287 GACCTGTACA
2164297 AATAA-AATAAAATAA-AAT
1 AATAATAATAAAATAATAAT
*
2164315 AAATAATTATAAAATAATAAT
1 -AATAATAATAAAATAATAAT
2164336 AATAATAATAA
1 AATAATAATAA
2164347 TATTAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 19 0.70
21 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAATAATAAAATAATAAT
Found at i:2164335 original size:3 final size:3
Alignment explanation
Indices: 2164297--2164348 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
2164287 GACCTGTACA
*
2164297 AAT AA- AAT AA- AAT AA- AAT AAAT AAT TAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
2164339 AAT AAT AAT A
1 AAT AAT AAT A
2164349 TTAAAAACCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 8 0.19
3 31 0.74
4 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2165425 original size:32 final size:30
Alignment explanation
Indices: 2165382--2165457 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 30
2165372 TTTAAATAGG
2165382 TTTTAGTATTTTAATTAAGTTTTAGGATATTAT
1 TTTTA-TATTTTAATT-AGTTTTAGG-TATTAT
* *
2165415 TTTTATATTTTATATTTGTTTTAGGTCTTAT
1 TTTTATATTTTA-ATTAGTTTTAGGTATTAT
*
2165446 CTTT-TATTTTAA
1 TTTTATATTTTAA
2165458 AAATAACTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 1 0.03
30 7 0.18
31 8 0.21
32 15 0.38
33 8 0.21
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (30 bp):
TTTTATATTTTAATTAGTTTTAGGTATTAT
Found at i:2166223 original size:3 final size:3
Alignment explanation
Indices: 2166204--2166247 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
2166194 GACCTGTACA
* *
2166204 AAT AA- AAT AAA AAT AAT AAT TAT -AT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2166248 GTATTAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2169134 original size:17 final size:17
Alignment explanation
Indices: 2169114--2169151 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2169104 GTTTAAAATG
*
2169114 ATTTGATGATTAAATTT
1 ATTTAATGATTAAATTT
2169131 ATTTAATGATTAAATTT
1 ATTTAATGATTAAATTT
2169148 ATTT
1 ATTT
2169152 TTATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (17 bp):
ATTTAATGATTAAATTT
Found at i:2169582 original size:21 final size:21
Alignment explanation
Indices: 2169558--2169601 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2169548 CAGTAAAAAA
2169558 TTACATAAAACATTATTATTT
1 TTACATAAAACATTATTATTT
* *
2169579 TTACCTAAAACATTATTGTTT
1 TTACATAAAACATTATTATTT
2169600 TT
1 TT
2169602 TAACATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (21 bp):
TTACATAAAACATTATTATTT
Found at i:2170161 original size:2 final size:2
Alignment explanation
Indices: 2170154--2170184 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
2170144 TACGTTAATC
2170154 AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
2170185 TTTTTTATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2173872 original size:2 final size:2
Alignment explanation
Indices: 2173865--2173890 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2173855 TAAAGATAGA
2173865 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
2173891 GGATATGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2176140 original size:114 final size:114
Alignment explanation
Indices: 2175940--2176168 Score: 309
Period size: 114 Copynumber: 2.0 Consensus size: 114
2175930 ACTAAAGATT
* * * *
2175940 GGTATCTTCTATTATAATACTACTAGCATCATATTCATTGATTTCATTATTCGATTAAGTATCCT
1 GGTATCTTCGATTATAATACTACTAGCATCATATTCATCGATGTCATTATTCGATTAAGTATCAT
*
2176005 CAGTAGAAGTTGGAGTAGAAGATGAAGTGGAAGTAGATGAATTACCTTG
66 CAGTAGAAGTTGGAGTAGAAGAAGAAGTGGAAGTAGATGAATTACCTTG
* * * * *
2176054 GGTATCTTCGATTATAATGCTGCTAGCATCGTATTCATCGATGTCATTGTTCGATTCAGTAT-AT
1 GGTATCTTCGATTATAATACTACTAGCATCATATTCATCGATGTCATTATTCGATTAAGTATCAT
** *
2176118 GTGGTAGAAAG-TGGAGTAGAAGAAGAAGTGGAAGTAGATGTATTACCTTG
66 -CAGTAG-AAGTTGGAGTAGAAGAAGAAGTGGAAGTAGATGAATTACCTTG
2176168 G
1 G
2176169 TAAGTAAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
113 1 0.01
114 96 0.96
115 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (114 bp):
GGTATCTTCGATTATAATACTACTAGCATCATATTCATCGATGTCATTATTCGATTAAGTATCAT
CAGTAGAAGTTGGAGTAGAAGAAGAAGTGGAAGTAGATGAATTACCTTG
Found at i:2176220 original size:21 final size:21
Alignment explanation
Indices: 2176152--2176234 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 21
2176142 GAAGTGGAAG
* * *
2176152 TAGATGTATTACCTTGGTAAG
1 TAGATGAAGTACCTTGGTAAA
* ** * **
2176173 TAAAAAAAGTAGCTTGGTAGG
1 TAGATGAAGTACCTTGGTAAA
* *
2176194 TAGATGAATTACCTTTGTAAA
1 TAGATGAAGTACCTTGGTAAA
2176215 TAGATGAAGTACCTTGGTAA
1 TAGATGAAGTACCTTGGTAA
2176235 GTTCTCTGAA
Statistics
Matches: 45, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (21 bp):
TAGATGAAGTACCTTGGTAAA
Found at i:2176225 original size:42 final size:42
Alignment explanation
Indices: 2176151--2176233 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
2176141 AGAAGTGGAA
* * *
2176151 GTAGATGTATTACCTTGGTAAGTAAAAAAAGTAGCTTGGTAG
1 GTAGATGAATTACCTTGGTAAATAAAAAAAGTACCTTGGTAG
* * **
2176193 GTAGATGAATTACCTTTGTAAATAGATGAAGTACCTTGGTA
1 GTAGATGAATTACCTTGGTAAATAAAAAAAGTACCTTGGTA
2176234 AGTTCTCTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (42 bp):
GTAGATGAATTACCTTGGTAAATAAAAAAAGTACCTTGGTAG
Found at i:2179458 original size:78 final size:78
Alignment explanation
Indices: 2179376--2179531 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
2179366 GAATATGTCA
2179376 GTAATAAGGACCACATATATTTATATCAATTTTTTAATCACCACATCATCTCTTCCATTAAATAT
1 GTAATAAGGACCACATATATTTATATCAATTTTTTAATCACCACATCATCTCTTCCATTAAATAT
2179441 TAATGGCATGTAG
66 TAATGGCATGTAG
*
2179454 GTAATAAGGACCACATGTATTTATATCAATTTTTTAATCACCACATCATCTCTTCCATTAAATAT
1 GTAATAAGGACCACATATATTTATATCAATTTTTTAATCACCACATCATCTCTTCCATTAAATAT
2179519 TAATGGCATGTAG
66 TAATGGCATGTAG
2179532 TTTGATTGAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (78 bp):
GTAATAAGGACCACATATATTTATATCAATTTTTTAATCACCACATCATCTCTTCCATTAAATAT
TAATGGCATGTAG
Found at i:2180657 original size:31 final size:31
Alignment explanation
Indices: 2180619--2180741 Score: 162
Period size: 31 Copynumber: 4.0 Consensus size: 31
2180609 CCGAAGGACT
*
2180619 AGTCCATA-GATCCCGAAGAATC-TAGGTAATC
1 AGTCCATATG-TCCCGAAGAA-CATAGGTAAAC
** *
2180650 AGTCCATATGTTTCGAAGAACATAGGTAAGC
1 AGTCCATATGTCCCGAAGAACATAGGTAAAC
*
2180681 AGTCCATATGTACCGAAGAACATAGGTAAAC
1 AGTCCATATGTCCCGAAGAACATAGGTAAAC
2180712 AGTCCATATGTCCC-AAGAACATAGGTAAAC
1 AGTCCATATGTCCCGAAGAACATAGGTAAAC
2180742 CCTCAACTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
30 17 0.20
31 65 0.78
32 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (31 bp):
AGTCCATATGTCCCGAAGAACATAGGTAAAC
Found at i:2185355 original size:35 final size:35
Alignment explanation
Indices: 2185306--2185382 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
2185296 AGACTTGCTG
* * *
2185306 TAGCATTCTGGATGAGGATATTTGGTGAAATTCTA
1 TAGCATTCTAGATGAGGATATTTGGTGAAATGCCA
2185341 TAGCATTCTAGATGAGGATATTTGGTGAAATGCCA
1 TAGCATTCTAGATGAGGATATTTGGTGAAATGCCA
2185376 TAGCATT
1 TAGCATT
2185383 TCTGGATGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (35 bp):
TAGCATTCTAGATGAGGATATTTGGTGAAATGCCA
Found at i:2196160 original size:20 final size:20
Alignment explanation
Indices: 2196126--2196190 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
2196116 TGTTTACCCT
* *
2196126 GGTTTTACCGGTTTTCAGCC
1 GGTTCTACCGATTTTCAGCC
*
2196146 GGTTCTATCGATTTTCAGCC
1 GGTTCTACCGATTTTCAGCC
2196166 GGTTCTACCGATTTTCAGCC
1 GGTTCTACCGATTTTCAGCC
2196186 GGTTC
1 GGTTC
2196191 ATTGCCAGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.38
Consensus pattern (20 bp):
GGTTCTACCGATTTTCAGCC
Found at i:2208035 original size:21 final size:21
Alignment explanation
Indices: 2208009--2208062 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
2207999 TGTCAAAGTG
2208009 CATCCATGCACCCCTGCAGTA
1 CATCCATGCACCCCTGCAGTA
*
2208030 CATCCATGCACCCCTGCAGTG
1 CATCCATGCACCCCTGCAGTA
2208051 CATCCATGCACC
1 CATCCATGCACC
2208063 TGCACTAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.44, G:0.15, T:0.19
Consensus pattern (21 bp):
CATCCATGCACCCCTGCAGTA
Found at i:2208149 original size:20 final size:20
Alignment explanation
Indices: 2208124--2208215 Score: 141
Period size: 20 Copynumber: 4.6 Consensus size: 20
2208114 ATGCACTTAA
2208124 TGCATCGATGCATCCTTATG
1 TGCATCGATGCATCCTTATG
2208144 TGCATCGATGCATCCTTATG
1 TGCATCGATGCATCCTTATG
*
2208164 TGCATCGATGCATCCTTCTG
1 TGCATCGATGCATCCTTATG
*
2208184 TGCATCGATGCAT-CTTGTTG
1 TGCATCGATGCATCCTT-ATG
*
2208204 TGCATCCATGCA
1 TGCATCGATGCA
2208216 CGAAGGCTAC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 3 0.04
20 65 0.96
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (20 bp):
TGCATCGATGCATCCTTATG
Found at i:2208367 original size:20 final size:22
Alignment explanation
Indices: 2208329--2208368 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2208319 TTTGAGTAGA
2208329 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
2208351 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
2208369 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:2210408 original size:9 final size:9
Alignment explanation
Indices: 2210381--2210490 Score: 50
Period size: 9 Copynumber: 12.1 Consensus size: 9
2210371 ATTTCATTTG
2210381 AATATTATTT
1 AATATTA-TT
*
2210391 ATATTTTATT
1 A-ATATTATT
2210401 AATATTATT
1 AATATTATT
**
2210410 GTTATTATT
1 AATATTATT
* *
2210419 ATTATTATC
1 AATATTATT
*
2210428 ATTATTATT
1 AATATTATT
2210437 -ATAATTATT
1 AAT-ATTATT
* *
2210446 -ATAATAAT
1 AATATTATT
2210454 AATTATTATT
1 AA-TATTATT
2210464 -ATATT-TT
1 AATATTATT
*
2210471 -TTATTATT
1 AATATTATT
2210479 AAATAATTATT
1 -AAT-ATTATT
2210490 A
1 A
2210491 CATTTTAGAG
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.08
8 11 0.14
9 39 0.50
10 11 0.14
11 11 0.14
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (9 bp):
AATATTATT
Found at i:2210446 original size:15 final size:15
Alignment explanation
Indices: 2210396--2210490 Score: 81
Period size: 15 Copynumber: 6.6 Consensus size: 15
2210386 TATTTATATT
* **
2210396 TTATTAATATTATTG
1 TTATTATTATTATAA
*
2210411 TTATTATTATTATTA
1 TTATTATTATTATAA
*
2210426 TCATTATTATTATAA
1 TTATTATTATTATAA
2210441 TTATTA-TA--ATAA
1 TTATTATTATTATAA
* *
2210453 TAATTATTATTATAT
1 TTATTATTATTATAA
*
2210468 TTTTTATTATTA-AA
1 TTATTATTATTATAA
*
2210482 TAATTATTA
1 TTATTATTA
2210491 CATTTTAGAG
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
12 9 0.14
13 2 0.03
14 10 0.15
15 44 0.68
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (15 bp):
TTATTATTATTATAA
Done.