Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 9 of 325
Found at i:1952357 original size:27 final size:26
Alignment explanation
Indices: 1952313--1952383 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
1952303 GATATTAAAA
*
1952313 ATATATACATAAAAATATA-ATAAATAT
1 ATATATA-ATAAATATATACAT-AATAT
1952340 ATATATAATATAATATATACATAATAT
1 ATATATAATA-AATATATACATAATAT
1952367 AGTAT-TAA-AAATATATA
1 A-TATATAATAAATATATA
1952384 TAATACATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 8 0.20
26 4 0.10
27 23 0.57
28 5 0.12
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (26 bp):
ATATATAATAAATATATACATAATAT
Found at i:1952649 original size:24 final size:24
Alignment explanation
Indices: 1952582--1952638 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1952572 TAGTAATTAT
* * * *
1952582 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
1952606 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
1952630 AATAATAAT
1 AATAATAAT
1952639 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:1955588 original size:6 final size:6
Alignment explanation
Indices: 1955577--1955608 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
1955567 TTAAAATTAC
1955577 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1955609 ATATGGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:1958085 original size:1 final size:1
Alignment explanation
Indices: 1958079--1958104 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1958069 ATGACAAATC
1958079 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
1958105 CAAGTATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1959264 original size:12 final size:12
Alignment explanation
Indices: 1959234--1959272 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1959224 TCCCTCACTC
*
1959234 TCATCTGCATCA
1 TCATCTTCATCA
1959246 TCATCTTCATCA
1 TCATCTTCATCA
*
1959258 TCATCTTCCTCA
1 TCATCTTCATCA
1959270 TCA
1 TCA
1959273 ACACCATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.36, G:0.03, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCA
Found at i:1961389 original size:24 final size:23
Alignment explanation
Indices: 1961357--1961406 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
1961347 ACATAATACT
* *
1961357 TTTATAAATAATTAATATTTATTA
1 TTTAAAAATAATTAAAATTTA-TA
*
1961381 TTTAAAAATATTTAAAATTTATA
1 TTTAAAAATAATTAAAATTTATA
1961404 TTT
1 TTT
1961407 TATATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAAATAATTAAAATTTATA
Found at i:1969237 original size:18 final size:19
Alignment explanation
Indices: 1969216--1969252 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1969206 AATAGTGCCC
1969216 AACACAAAAAGCAA-GAAA
1 AACACAAAAAGCAATGAAA
*
1969234 AACACCAAAAGCAATGAAA
1 AACACAAAAAGCAATGAAA
1969253 GTTGCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.68, C:0.19, G:0.11, T:0.03
Consensus pattern (19 bp):
AACACAAAAAGCAATGAAA
Found at i:1975769 original size:20 final size:22
Alignment explanation
Indices: 1975730--1975772 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1975720 TCATTTCTTT
1975730 AAATATAAATTTTATATTATAA
1 AAATATAAATTTTATATTATAA
*
1975752 AAATTTAAA-TTTAT-TTATAA
1 AAATATAAATTTTATATTATAA
1975772 A
1 A
1975773 TTAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATAAATTTTATATTATAA
Found at i:1981436 original size:13 final size:14
Alignment explanation
Indices: 1981416--1981452 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1981406 AAAAGTTTTA
1981416 AATTAAATTTTGAT
1 AATTAAATTTTGAT
*
1981430 -GTTAAA-TTTGAT
1 AATTAAATTTTGAT
1981442 AATTAAATTTT
1 AATTAAATTTT
1981453 TACTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.32
13 10 0.53
14 3 0.16
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (14 bp):
AATTAAATTTTGAT
Found at i:1984225 original size:48 final size:49
Alignment explanation
Indices: 1984152--1984422 Score: 268
Period size: 48 Copynumber: 5.5 Consensus size: 49
1984142 GCAACCGCCG
* * *
1984152 CCGCCTCCGAAAGAGACGCAGACGCTGTTTATGCAACAGCCACCGT-CT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCAGCGTCCT
* * * *
1984200 GCGCCTCCGAAAGAGACGCAAACGCTGTTTATGCAACCGCCTGC-TCCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCAGCGTCCT
* * * * * * *
1984248 CCGCCTCCTAAGGAAACGCAGACGTTGTTTATGCAGCCGCCGGC-TCCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCAGCGTCCT
* *
1984296 CCGCCTCCGAAGGAAACGCAAACGCTGTTTATGCAACCA-CCGGC-TCCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAA-CAGCCAGCGTCCT
*
1984344 CCGCCTCCGAAAGAAACGCAAACGCAAACGCTGTTTATGCAACCA-CCGGCG-CCT
1 CCGCCTCC----GAAA-G-AAACGCAAACGCTGTTTATGCAA-CAGCCAGCGTCCT
1984398 CCGCCTCCGAAAGAAACGCAAACGC
1 CCGCCTCCGAAAGAAACGCAAACGC
1984423 AAACGCTGTT
Statistics
Matches: 195, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
47 1 0.01
48 142 0.73
49 2 0.01
50 4 0.02
52 3 0.02
53 1 0.01
54 42 0.22
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (49 bp):
CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCAGCGTCCT
Found at i:1984301 original size:96 final size:96
Alignment explanation
Indices: 1984152--1984422 Score: 321
Period size: 96 Copynumber: 2.8 Consensus size: 96
1984142 GCAACCGCCG
* * ** * *
1984152 CCGCCTCCGAAA-GAGACGCAGACGCTGTTTATGCAACAGCCACCGT-CTGCGCCTCCGAAAGAG
1 CCGCCTCC-AAAGGAAACGCAGACGCTGTTTATGCAACCGCCGGC-TCCTCCGCCTCCGAAAGAA
* *
1984215 ACGCAAACGCTGTTTATGCAACCGCCTGCTCCT
64 ACGCAAACGCTGTTTATGCAACCACCGGCTCCT
* * * *
1984248 CCGCCTCCTAAGGAAACGCAGACGTTGTTTATGCAGCCGCCGGCTCCTCCGCCTCCGAAGGAAAC
1 CCGCCTCCAAAGGAAACGCAGACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCCGAAAGAAAC
1984313 GCAAACGCTGTTTATGCAACCACCGGCTCCT
66 GCAAACGCTGTTTATGCAACCACCGGCTCCT
* * *
1984344 CCGCCTCCGAAAGAAACGCAAACGCAAACGCTGTTTATGCAACCACCGGCGCCTCCGCCTCCGAA
1 CCGCCTCC-AAAG----G-AAACGCAGACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCCGAA
1984409 AGAAACGCAAACGC
60 AGAAACGCAAACGC
1984423 AAACGCTGTT
Statistics
Matches: 148, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
95 3 0.02
96 87 0.59
97 3 0.02
101 1 0.01
102 54 0.36
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (96 bp):
CCGCCTCCAAAGGAAACGCAGACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCCGAAAGAAAC
GCAAACGCTGTTTATGCAACCACCGGCTCCT
Found at i:1984319 original size:54 final size:54
Alignment explanation
Indices: 1984215--1984439 Score: 294
Period size: 48 Copynumber: 4.4 Consensus size: 54
1984205 TCCGAAAGAG
* * *
1984215 ACGCAAACGCTGTTTATGCAACCGCCTGCTCCTCCGCCTCC-TAAG----G-AA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
* * * *
1984263 ACGCAGACGTTGTTTATGCAGCCGCCGGCTCCTCCGCCTCCG-AAG----G-AA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
1984311 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
*
1984365 ACGCAAACGCTGTTTATGCAACCACCGGCGCCTCCGCCTCCGAAAGAAACGCAA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
1984419 ACGCAAACGCTGTTTATGCAA
1 ACGCAAACGCTGTTTATGCAA
1984440 TCGCCGCCAA
Statistics
Matches: 161, Mismatches: 9, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
48 81 0.50
49 3 0.02
53 1 0.01
54 76 0.47
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.17
Consensus pattern (54 bp):
ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
Found at i:1987814 original size:51 final size:50
Alignment explanation
Indices: 1987690--1987824 Score: 132
Period size: 51 Copynumber: 2.7 Consensus size: 50
1987680 TTGGTATAAT
* * * *
1987690 AATAAATTTAGTCTCAAAGTCTATACATTTTGTTAAATTGATCTTAATTT
1 AATAAATTTAGACTCAAAATTTATACATTTTGTTAAATTGATCTTAATTC
* * *
1987740 AATAAATTT-GACCCACAATATTTATA-ATTTTTTTAAATTTAGTCTTAATTC
1 AATAAATTTAGACTCA-AA-ATTTATACATTTTGTTAAATTGA-TCTTAATTC
*
1987791 AATAAATTTAG-CTCATAACATTTATATATTTTGT
1 AATAAATTTAGACTCA-AA-ATTTATACATTTTGT
1987825 CAAAATTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
49 4 0.06
50 24 0.35
51 34 0.49
52 7 0.10
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (50 bp):
AATAAATTTAGACTCAAAATTTATACATTTTGTTAAATTGATCTTAATTC
Found at i:1989857 original size:33 final size:33
Alignment explanation
Indices: 1989808--1989888 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
1989798 GGAAATCCCG
* * *
1989808 AAACCTGAAATACCTAAAATGCCTGAGTTGCCA
1 AAACCTGAATTGCCTAAAATGCCGGAGTTGCCA
* *
1989841 AAACCTGAATTGCCTAAAGTTCCGGAGTTGCCA
1 AAACCTGAATTGCCTAAAATGCCGGAGTTGCCA
* *
1989874 AAGCCCGAATTGCCT
1 AAACCTGAATTGCCT
1989889 GAGGTTCCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (33 bp):
AAACCTGAATTGCCTAAAATGCCGGAGTTGCCA
Found at i:1989923 original size:51 final size:51
Alignment explanation
Indices: 1989856--1990004 Score: 190
Period size: 51 Copynumber: 2.9 Consensus size: 51
1989846 TGAATTGCCT
* * * * *
1989856 AAAGTTCCGGAGTTGCCAAAGCCCGAATTGCCTGAGGTTCCCAAGTTTCCG
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCG
* * * *
1989907 AAAGTTCCAGAATTGCCAAAACCAGAATTACCCAAGGTTCCTGAGTTTCCG
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCG
* * *
1989958 AAAGTTCCAGAGTTGCCAAAGCCTGAATTTCCTAAGATTCCCGAGTT
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTT
1990005 GAAAAAACCT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 82 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (51 bp):
AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCG
Found at i:1989970 original size:18 final size:18
Alignment explanation
Indices: 1989899--1989971 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 18
1989889 GAGGTTCCCA
1989899 AGTTTCCGAAAGTTCCAG
1 AGTTTCCGAAAGTTCCAG
* * *
1989917 AATTGCC-AAA--ACCAG
1 AGTTTCCGAAAGTTCCAG
* * * * *
1989932 AATTACCCAAGGTTCCTG
1 AGTTTCCGAAAGTTCCAG
1989950 AGTTTCCGAAAGTTCCAG
1 AGTTTCCGAAAGTTCCAG
1989968 AGTT
1 AGTT
1989972 GCCAAAGCCT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 10 0.25
16 2 0.05
17 3 0.08
18 25 0.62
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (18 bp):
AGTTTCCGAAAGTTCCAG
Found at i:1990130 original size:33 final size:33
Alignment explanation
Indices: 1990090--1990424 Score: 273
Period size: 33 Copynumber: 10.2 Consensus size: 33
1990080 TCCGGAGTTA
* *
1990090 CCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * * *
1990123 CCCAAGCCTGAATTACCCAAAGCTCCTG-AGTTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
* * * * *
1990156 CCAAAACCTGAATTACCAAAAGTTCCTG-AGTTA
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
* *
1990189 CCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * * *
1990222 CCTAAGCCAGAATTGCCTAAAGTTCCTGAGGTA
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * * *
1990255 CCTAAGTCGGAATTGCCCAAAGCTCCTGAAGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * * * *
1990288 CCCAAGCCTGAATTACCCAAAGCTCCCG-AGTTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
* ** ** * *
1990321 CCAAAACTTGAATCACCAAAAGTTCCTG-AGTTA
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
*
1990354 CCAAAGCCAGAATTGCCTAAAGTTCCTGAAGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * *
1990387 CCTAAGCCAGAATTGCCCAAAGCTCCTGAATTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
1990420 CCAAA
1 CCAAA
1990425 AATTCCTGAG
Statistics
Matches: 249, Mismatches: 49, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
32 4 0.02
33 242 0.97
34 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (33 bp):
CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
Found at i:1990154 original size:66 final size:66
Alignment explanation
Indices: 1990075--1990424 Score: 319
Period size: 66 Copynumber: 5.3 Consensus size: 66
1990065 TGAAGCACCA
* * * * * * *
1990075 AAAGTTCCGGAGTTACCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTGCCCAAGCCTGAATTACC
1 AAAGCTCCTGAGTTGCCAAAGCCAGAATTACCTAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCC
1990140 C
66 C
* * * *
1990141 AAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTG-AGTTACCAAAGCCAGAATTGC
1 AAAGCTCCTGAGTTGCCAAAGCCAGAATTACCTAAAGTTCCTGAAG-TGCCAAAGCCAGAATTGC
*
1990205 CT
65 CC
* * * * * * * * *
1990207 AAAGTTCCTGAGGTGCCTAAGCCAGAATTGCCTAAAGTTCCTGAGGTACCTAAGTCGGAATTGCC
1 AAAGCTCCTGAGTTGCCAAAGCCAGAATTACCTAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCC
1990272 C
66 C
* * * * * * ** **
1990273 AAAGCTCCTGAAG-TGCCCAAGCCTGAATTACCCAAAGCTCCCG-AGTTGCCAAAACTTGAATCA
1 AAAGCTCCTG-AGTTGCCAAAGCCAGAATTACCTAAAGTTCCTGAAG-TGCCAAAGCCAGAATTG
*
1990336 CCA
64 CCC
* * * *
1990339 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAAGTGCCTAAGCCAGAATTGCC
1 AAAGCTCCTGAGTTGCCAAAGCCAGAATTACCTAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCC
1990404 C
66 C
*
1990405 AAAGCTCCTGAATTGCCAAA
1 AAAGCTCCTGAGTTGCCAAA
1990425 AATTCCTGAG
Statistics
Matches: 219, Mismatches: 59, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
65 5 0.02
66 209 0.95
67 5 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (66 bp):
AAAGCTCCTGAGTTGCCAAAGCCAGAATTACCTAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCC
C
Found at i:1990167 original size:99 final size:99
Alignment explanation
Indices: 1990039--1990251 Score: 291
Period size: 99 Copynumber: 2.2 Consensus size: 99
1990029 TCCAGAGATG
* * * * *
1990039 CCCAATGCTCCTAAATTGTCAAAATCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
1 CCCAAAGCTCCTGAGTTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
* *
1990104 TCCTAAAGTTCCTGAAGTGCCCAAGCCTGAATTA
66 GCCTAAAGTTCCTGAAGTGCCCAAGCCAGAATTA
** *
1990138 CCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATT
1 CCCAAAGCTCCTGAGTTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
* * *
1990203 GCCTAAAGTTCCTGAGGTGCCTAAGCCAGAATTG
66 GCCTAAAGTTCCTGAAGTGCCCAAGCCAGAATTA
* *
1990237 CCTAAAGTTCCTGAG
1 CCCAAAGCTCCTGAG
1990252 GTACCTAAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (99 bp):
CCCAAAGCTCCTGAGTTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
GCCTAAAGTTCCTGAAGTGCCCAAGCCAGAATTA
Found at i:1990189 original size:18 final size:17
Alignment explanation
Indices: 1990129--1990193 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
1990119 AGTGCCCAAG
*
1990129 CCTGAATTACCCAAAGCT
1 CCTGAATTACCAAAAG-T
* *
1990147 CCTGAGTTGCCAAAA--
1 CCTGAATTACCAAAAGT
1990162 CCTGAATTACCAAAAGTT
1 CCTGAATTACCAAAAG-T
*
1990180 CCTGAGTTACCAAA
1 CCTGAATTACCAAA
1990194 GCCAGAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.34
18 25 0.66
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (17 bp):
CCTGAATTACCAAAAGT
Found at i:1990225 original size:18 final size:18
Alignment explanation
Indices: 1990202--1990259 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
1990192 AAGCCAGAAT
1990202 TGCCTAAAGTTCCTGAGG
1 TGCCTAAAGTTCCTGAGG
* **
1990220 TGCCT-AAG--CCAGAAT
1 TGCCTAAAGTTCCTGAGG
1990235 TGCCTAAAGTTCCTGAGG
1 TGCCTAAAGTTCCTGAGG
*
1990253 TACCTAA
1 TGCCTAA
1990260 GTCGGAATTG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
15 9 0.30
16 3 0.10
17 3 0.10
18 15 0.50
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (18 bp):
TGCCTAAAGTTCCTGAGG
Found at i:1990291 original size:18 final size:18
Alignment explanation
Indices: 1990268--1990313 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
1990258 AAGTCGGAAT
1990268 TGCCCAAAGCTCCTGAAG
1 TGCCCAAAGCTCCTGAAG
*
1990286 TGCCC-AAG--CCTGAAT
1 TGCCCAAAGCTCCTGAAG
*
1990301 TACCCAAAGCTCC
1 TGCCCAAAGCTCC
1990314 CGAGTTGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 3 0.13
18 7 0.30
ACGTcount: A:0.28, C:0.37, G:0.17, T:0.17
Consensus pattern (18 bp):
TGCCCAAAGCTCCTGAAG
Found at i:1990425 original size:99 final size:99
Alignment explanation
Indices: 1990072--1990425 Score: 327
Period size: 99 Copynumber: 3.6 Consensus size: 99
1990062 ATCTGAAGCA
* * * * * * *
1990072 CCAAAAGTTCC-GGAGTTACCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTGCCCAAGCCTGAAT
1 CCAAAAGTTCCTGAAG-TGCCAAAGCCAGAATTGCCCAAAGCTCCTGAAGTGCCAAAACCTGAAT
* * * * * *
1990136 TACCCAAAGCTCCTGAGTTGCCAAAACCTGAATTA
65 TACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTG
* * * * * * *
1990171 CCAAAAGTTCCTG-AGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAAT
1 CCAAAAGTTCCTGAAG-TGCCAAAGCCAGAATTGCCCAAAGCTCCTGAAGTGCCAAAACCTGAAT
* * * * * *
1990235 TGCCTAAAGTTCCTGAGGTACCTAAGTCGGAATTG
65 TACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTG
* * * * * * *
1990270 CCCAAAGCTCCTGAAGTGCCCAAGCCTGAATTACCCAAAGCTCCCG-AGTTGCCAAAACTTGAAT
1 CCAAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCCCAAAGCTCCTGAAG-TGCCAAAACCTGAAT
*
1990334 CACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTG
65 TACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTG
* * *
1990369 CCTAAAGTTCCTGAAGTGCCTAAGCCAGAATTGCCCAAAGCTCCTGAATTGCCAAAA
1 CCAAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCCCAAAGCTCCTGAAGTGCCAAAA
1990426 ATTCCTGAGT
Statistics
Matches: 209, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
98 1 0.00
99 204 0.98
100 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (99 bp):
CCAAAAGTTCCTGAAGTGCCAAAGCCAGAATTGCCCAAAGCTCCTGAAGTGCCAAAACCTGAATT
ACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTG
Found at i:1990431 original size:18 final size:18
Alignment explanation
Indices: 1990396--1990466 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 18
1990386 GCCTAAGCCA
* **
1990396 GAATTGCCCAAAGCTCCT
1 GAATTGCCAAAAATTCCT
1990414 GAATTGCCAAAAATTCCT
1 GAATTGCCAAAAATTCCT
* *
1990432 GAGTT--CACAAAA--CCA
1 GAATTGCCA-AAAATTCCT
*
1990447 GAATTGCCTAAAATTCCT
1 GAATTGCCAAAAATTCCT
1990465 GA
1 GA
1990467 GGTACCAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
15 6 0.15
16 6 0.15
17 5 0.12
18 23 0.57
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (18 bp):
GAATTGCCAAAAATTCCT
Found at i:1990431 original size:51 final size:51
Alignment explanation
Indices: 1990376--1990575 Score: 146
Period size: 51 Copynumber: 4.0 Consensus size: 51
1990366 TTGCCTAAAG
* *
1990376 TTCCTGAAGTGCCTAAGCCAGAATTGCCCAAAGCTCCTGAATTGCCAAAAA
1 TTCCTGAAGTGCCTAAGCCAGAATTGCCCAAAACTCCTGAATTACCAAAAA
* * * * * **
1990427 TTCCTG-AGTTCACAAAACCAGAATTGCCTAAAATTCCTGAGGTACC-AAAA
1 TTCCTGAAGTGC-CTAAGCCAGAATTGCCCAAAACTCCTGAATTACCAAAAA
* * * * * *
1990477 --CCAGAATTGCCTAAAGTGACTGAGTTG-CCAAAACT--TGAATTACCAAAAG
1 TTCCTGAAGTGCCT-AA--GCCAGAATTGCCCAAAACTCCTGAATTACCAAAAA
* *
1990526 TTTCTGAGGTGCCTAAGCCAGAATTG-CCAAAAGCTCCTGAATTACCAAAA
1 TTCCTGAAGTGCCTAAGCCAGAATTGCCCAAAA-CTCCTGAATTACCAAAA
1990576 CCTCAATTAC
Statistics
Matches: 109, Mismatches: 29, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
48 24 0.22
49 10 0.09
50 16 0.15
51 59 0.54
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (51 bp):
TTCCTGAAGTGCCTAAGCCAGAATTGCCCAAAACTCCTGAATTACCAAAAA
Found at i:1990432 original size:150 final size:150
Alignment explanation
Indices: 1990264--1990575 Score: 329
Period size: 150 Copynumber: 2.1 Consensus size: 150
1990254 ACCTAAGTCG
* * * * * * * *
1990264 GAATTGCCCAAAGCTCCTGAAGTGC-CCAAGCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAAC
1 GAATTGCCAAAAACTCCTG-AGTGCACAAAACCAGAATTACCCAAAACTCCCGAGGTACCAAAAC
** ** * * *
1990328 TTGAATCACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAAGTGCCTAAG
65 CAGAATCACCAAAAGTGACTGAGTTACCAAAACCAGAATTACCAAAAGTTCCTGAAGTGCCTAAG
*
1990393 CCAGAATTGCCCAAAGCTCCT
130 CCAGAATTGCCAAAAGCTCCT
* * * * * *
1990414 GAATTGCCAAAAATTCCTGAGTTCACAAAACCAGAATTGCCTAAAATTCCTGAGGTACCAAAACC
1 GAATTGCCAAAAACTCCTGAGTGCACAAAACCAGAATTACCCAAAACTCCCGAGGTACCAAAACC
** * * ** * *
1990479 AGAATTGCCTAAAGTGACTGAGTTGCCAAAACTTGAATTACCAAAAGTTTCTGAGGTGCCTAAGC
66 AGAATCACCAAAAGTGACTGAGTTACCAAAACCAGAATTACCAAAAGTTCCTGAAGTGCCTAAGC
1990544 CAGAATTGCCAAAAGCTCCT
131 CAGAATTGCCAAAAGCTCCT
*
1990564 GAATTACCAAAA
1 GAATTGCCAAAA
1990576 CCTCAATTAC
Statistics
Matches: 130, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
149 4 0.03
150 126 0.97
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (150 bp):
GAATTGCCAAAAACTCCTGAGTGCACAAAACCAGAATTACCCAAAACTCCCGAGGTACCAAAACC
AGAATCACCAAAAGTGACTGAGTTACCAAAACCAGAATTACCAAAAGTTCCTGAAGTGCCTAAGC
CAGAATTGCCAAAAGCTCCT
Found at i:1990589 original size:99 final size:98
Alignment explanation
Indices: 1990441--1990691 Score: 268
Period size: 99 Copynumber: 2.5 Consensus size: 98
1990431 TGAGTTCACA
* * * * * **
1990441 AAACCAGAATTGCCTAAAATTCCTGAGGTACCAAAACCAGAATTGCCTAAAGTGACTGAGTTGCC
1 AAACCAGAATTGCC-AAAACTCCTGAGTTACCAAAACCTGAATTACCTAAAGTGACCGAGTTAAC
** * * * *
1990506 AAAACTTGAATTACCAAAAGTTTCTGAGGTGCCT
65 AAAACCAGAATTACCAAAAGTTCCAGAGGTACCG
* * * * ** *
1990540 AAGCCAGAATTGCCAAAAGCTCCTGAATTACCAAAACCTCAATTACCTAAAATTCCCGGGTTAAC
1 AAACCAGAATTGCCAAAA-CTCCTGAGTTACCAAAACCTGAATTACCTAAAGTGACCGAGTTAAC
* *
1990605 AAAACCAGAATTGCCTAAAGTTCCAGAGGTACCG
65 AAAACCAGAATTACCAAAAGTTCCAGAGGTACCG
*
1990639 AAACCAGAATTGCCCAAAACTCCTGAGTTGCCAAAACCTGAATTACCTAAAGT
1 AAACCAGAATTG-CCAAAACTCCTGAGTTACCAAAACCTGAATTACCTAAAGT
1990692 TCCTGAATTG
Statistics
Matches: 123, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
98 4 0.03
99 113 0.92
100 6 0.05
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (98 bp):
AAACCAGAATTGCCAAAACTCCTGAGTTACCAAAACCTGAATTACCTAAAGTGACCGAGTTAACA
AAACCAGAATTACCAAAAGTTCCAGAGGTACCG
Found at i:1990703 original size:33 final size:33
Alignment explanation
Indices: 1990414--1990697 Score: 237
Period size: 33 Copynumber: 8.6 Consensus size: 33
1990404 CAAAGCTCCT
* *
1990414 GAATTGCCAAAAATTCCTGAGTT-CACAAAACCA
1 GAATTGCCTAAAGTTCCTGAGTTAC-CAAAACCA
* *
1990447 GAATTGCCTAAAATTCCTGAGGTACCAAAACCA
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
** * **
1990480 GAATTGCCTAAAGTGACTGAGTTGCCAAAACTT
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
* * * * * * *
1990513 GAATTACCAAAAGTTTCTGAGGTGCCTAAGCCA
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
* * * *
1990546 GAATTGCCAAAAGCTCCTGAATTACCAAAACCT
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
* * * * * *
1990579 CAATTACCTAAAATTCCCGGGTTAACAAAACCA
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
* * *
1990612 GAATTGCCTAAAGTTCCAGAGGTACCGAAACCA
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
* ** * *
1990645 GAATTGCCCAAAACTCCTGAGTTGCCAAAACCT
1 GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
*
1990678 GAATTACCTAAAGTTCCTGA
1 GAATTGCCTAAAGTTCCTGA
1990698 ATTGCCTAGC
Statistics
Matches: 193, Mismatches: 57, Indels: 2
0.77 0.23 0.01
Matches are distributed among these distances:
33 192 0.99
34 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (33 bp):
GAATTGCCTAAAGTTCCTGAGTTACCAAAACCA
Found at i:1993098 original size:5 final size:5
Alignment explanation
Indices: 1993081--1993123 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
1993071 ACCTTGTAAT
* *
1993081 ATATA ATAT- ATATG ATATA ATATA ATATT ATATA A-ATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1993124 TCTTATAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:1993105 original size:19 final size:19
Alignment explanation
Indices: 1993081--1993123 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1993071 ACCTTGTAAT
*
1993081 ATATAATA-TATATGATATA
1 ATATAATATTATAT-AAATA
1993100 ATATAATATTATATAAATA
1 ATATAATATTATATAAATA
1993119 ATATA
1 ATATA
1993124 TCTTATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATAATATTATATAAATA
Found at i:1995713 original size:48 final size:48
Alignment explanation
Indices: 1995661--1995808 Score: 134
Period size: 53 Copynumber: 2.9 Consensus size: 48
1995651 TTTGAAATTA
*
1995661 ATAATACATGAAAAAATTTAAAGTAAATAATAAAACAATTTAAAACGG
1 ATAATACATGAAAAAATTTAAAATAAATAATAAAACAATTTAAAACGG
* * ** *
1995709 ATAATACATTAAACAAATTTAAAATAAACAATGTACAAAACAATTTAAAGTGT
1 ATAATACATGAAA-AAATTTAAAATAAATAA--T--AAAACAATTTAAAACGG
* * * * *
1995762 ATAGTATATGAAATAATTTAAAATAATGTATCTAAAACAATTTAAAA
1 ATAATACATGAAAAAATTTAAAATAA-ATA-ATAAAACAATTTAAAA
1995809 AAGTTCAATA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
48 12 0.15
49 15 0.19
50 13 0.16
51 1 0.01
52 13 0.16
53 25 0.32
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (48 bp):
ATAATACATGAAAAAATTTAAAATAAATAATAAAACAATTTAAAACGG
Found at i:1995722 original size:26 final size:25
Alignment explanation
Indices: 1995661--1995732 Score: 71
Period size: 27 Copynumber: 2.9 Consensus size: 25
1995651 TTTGAAATTA
*
1995661 ATAATACATGAAAA-AATTT-AAAGT
1 ATAATACAT-AAAACAATTTAAAAGG
1995685 A-AATA-ATAAAACAATTTAAAACGG
1 ATAATACATAAAACAATTTAAAA-GG
*
1995709 ATAATACATTAAACAAATTTAAAA
1 ATAATACATAAAAC-AATTTAAAA
1995733 TAAACAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 4 0.10
22 7 0.17
23 7 0.17
24 3 0.08
25 4 0.10
26 6 0.15
27 9 0.22
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.26
Consensus pattern (25 bp):
ATAATACATAAAACAATTTAAAAGG
Found at i:1995838 original size:52 final size:49
Alignment explanation
Indices: 1995723--1995839 Score: 114
Period size: 51 Copynumber: 2.3 Consensus size: 49
1995713 TACATTAAAC
* ** *
1995723 AAATTTAAAATAAACAATGTACAAAACAATTTAAAGTGTATAGTATATG
1 AAATTTAAAATAAATAATGTACAAAACAATTTAAAAAGTATAATATATG
**
1995772 AAA--TAATTTAAAATAATGTATCTAAAACAATTTAAAAAAGT-TCAATATATG
1 AAATTTAAAAT-AAATAATGTA-C-AAAACAATTT-AAAAAGTAT-AATATATG
1995823 AAATTTAAAATAAATAA
1 AAATTTAAAATAAATAA
1995840 AATAGTCTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
47 4 0.08
48 9 0.17
49 4 0.08
50 11 0.21
51 15 0.28
52 6 0.11
53 4 0.08
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (49 bp):
AAATTTAAAATAAATAATGTACAAAACAATTTAAAAAGTATAATATATG
Found at i:1997242 original size:21 final size:21
Alignment explanation
Indices: 1997218--1997259 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1997208 AAAAATGGAC
1997218 TTTTATTTTAGTTAGTTTGTT
1 TTTTATTTTAGTTAGTTTGTT
* * *
1997239 TTTTGTTTTTGTTTGTTTGTT
1 TTTTATTTTAGTTAGTTTGTT
1997260 GGTCTGGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (21 bp):
TTTTATTTTAGTTAGTTTGTT
Found at i:1998592 original size:19 final size:20
Alignment explanation
Indices: 1998568--1998606 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1998558 TCTTATTTTT
1998568 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
1998587 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
1998607 ATGTAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:2001681 original size:46 final size:46
Alignment explanation
Indices: 2001629--2001895 Score: 340
Period size: 46 Copynumber: 5.8 Consensus size: 46
2001619 AGTGTGCTCT
* *
2001629 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
2001675 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
2001721 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
2001767 TTGA-CTGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
2001812 ATGACGGGAAAATGAATAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
2001859 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
2001896 TATGACATCA
Statistics
Matches: 201, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 42 0.21
46 118 0.59
47 41 0.20
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2004414 original size:33 final size:33
Alignment explanation
Indices: 2004365--2004445 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
2004355 GGAAATCCCG
* * *
2004365 AAACCTGAAATACCTAAAATGCCTGAGTTGCCA
1 AAACCTGAATTGCCTAAAATGCCGGAGTTGCCA
* *
2004398 AAACCTGAATTGCCTAAAGTTCCGGAGTTGCCA
1 AAACCTGAATTGCCTAAAATGCCGGAGTTGCCA
* *
2004431 AAGCCCGAATTGCCT
1 AAACCTGAATTGCCT
2004446 GAGGTTCCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (33 bp):
AAACCTGAATTGCCTAAAATGCCGGAGTTGCCA
Found at i:2004480 original size:51 final size:51
Alignment explanation
Indices: 2004413--2004561 Score: 190
Period size: 51 Copynumber: 2.9 Consensus size: 51
2004403 TGAATTGCCT
* * * * *
2004413 AAAGTTCCGGAGTTGCCAAAGCCCGAATTGCCTGAGGTTCCCAAGTTTCCG
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCG
* * * *
2004464 AAAGTTCCAGAATTGCCAAAACCAGAATTACCCAAGGTTCCTGAGTTTCCG
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCG
* * *
2004515 AAAGTTCCAGAGTTGCCAAAGCCTGAATTTCCTAAGATTCCCGAGTT
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTT
2004562 GAAAAAACCT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 82 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (51 bp):
AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCG
Found at i:2004527 original size:18 final size:18
Alignment explanation
Indices: 2004456--2004528 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 18
2004446 GAGGTTCCCA
2004456 AGTTTCCGAAAGTTCCAG
1 AGTTTCCGAAAGTTCCAG
* * *
2004474 AATTGCC-AAA--ACCAG
1 AGTTTCCGAAAGTTCCAG
* * * * *
2004489 AATTACCCAAGGTTCCTG
1 AGTTTCCGAAAGTTCCAG
2004507 AGTTTCCGAAAGTTCCAG
1 AGTTTCCGAAAGTTCCAG
2004525 AGTT
1 AGTT
2004529 GCCAAAGCCT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 10 0.25
16 2 0.05
17 3 0.08
18 25 0.62
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (18 bp):
AGTTTCCGAAAGTTCCAG
Found at i:2004687 original size:33 final size:33
Alignment explanation
Indices: 2004647--2004981 Score: 248
Period size: 33 Copynumber: 10.2 Consensus size: 33
2004637 TCCGGAGTTA
* *
2004647 CCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * * *
2004680 CCCAAGCCTGAATTACCCAAAGCTCCTG-AGTTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
* * * * *
2004713 CCAAAACCTGAATTACCAAAAGTTCCTG-AGTTA
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
* *
2004746 CCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * *
2004779 CCTAAGCCAGAATTGCCTAAAGTTCCTGAGGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* *** *
2004812 CCTAAGTTGGAATTGCCCAAAGCTCCTGAAGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * * * *
2004845 CCCAAGCCTGAATTACCCAAAGCTCCCG-AGTTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
** ** * *
2004878 CCAAAGCTTGAATCACCAAAAGTTCCTG-AGTTA
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAG-TG
* * *
2004911 TCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTG
1 CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
* * *
2004944 CCTAAG-CAGAAATTGCCCAAAGCTCCTGAATTG
1 CCAAAGCCAG-AATTGCCCAAAGTTCCTGAAGTG
2004977 CCAAA
1 CCAAA
2004982 AATTCCTGAG
Statistics
Matches: 246, Mismatches: 51, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
32 7 0.03
33 237 0.96
34 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (33 bp):
CCAAAGCCAGAATTGCCCAAAGTTCCTGAAGTG
Found at i:2004724 original size:99 final size:99
Alignment explanation
Indices: 2004596--2004813 Score: 292
Period size: 99 Copynumber: 2.2 Consensus size: 99
2004586 TCCAGAGATG
* * * * *
2004596 CCCAATGCTCCTAAATTGTCAAAATCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
1 CCCAAAGCTCCTGAGTTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
* *
2004661 TCCTAAAGTTCCTGAAGTGCCCAAGCCTGAATTA
66 GCCTAAAGTTCCTGAAGTGCCCAAGCCAGAATTA
** *
2004695 CCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATT
1 CCCAAAGCTCCTGAGTTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
* * *
2004760 GCCTAAAGTTCCTGAGGTGCCTAAGCCAGAATTG
66 GCCTAAAGTTCCTGAAGTGCCCAAGCCAGAATTA
* * *
2004794 CCTAAAGTTCCTGAGGTGCC
1 CCCAAAGCTCCTGAGTTGCC
2004814 TAAGTTGGAA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 103 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (99 bp):
CCCAAAGCTCCTGAGTTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATT
GCCTAAAGTTCCTGAAGTGCCCAAGCCAGAATTA
Found at i:2004746 original size:18 final size:17
Alignment explanation
Indices: 2004686--2004750 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
2004676 AGTGCCCAAG
*
2004686 CCTGAATTACCCAAAGCT
1 CCTGAATTACCAAAAG-T
* *
2004704 CCTGAGTTGCCAAAA--
1 CCTGAATTACCAAAAGT
2004719 CCTGAATTACCAAAAGTT
1 CCTGAATTACCAAAAG-T
*
2004737 CCTGAGTTACCAAA
1 CCTGAATTACCAAA
2004751 GCCAGAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.34
18 25 0.66
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (17 bp):
CCTGAATTACCAAAAGT
Found at i:2004782 original size:18 final size:18
Alignment explanation
Indices: 2004759--2004816 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
2004749 AAGCCAGAAT
2004759 TGCCTAAAGTTCCTGAGG
1 TGCCTAAAGTTCCTGAGG
* **
2004777 TGCCT-AAG--CCAGAAT
1 TGCCTAAAGTTCCTGAGG
2004792 TGCCTAAAGTTCCTGAGG
1 TGCCTAAAGTTCCTGAGG
2004810 TGCCTAA
1 TGCCTAA
2004817 GTTGGAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 9 0.29
16 3 0.10
17 3 0.10
18 16 0.52
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (18 bp):
TGCCTAAAGTTCCTGAGG
Found at i:2004848 original size:18 final size:18
Alignment explanation
Indices: 2004825--2004870 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
2004815 AAGTTGGAAT
2004825 TGCCCAAAGCTCCTGAAG
1 TGCCCAAAGCTCCTGAAG
*
2004843 TGCCC-AAG--CCTGAAT
1 TGCCCAAAGCTCCTGAAG
*
2004858 TACCCAAAGCTCC
1 TGCCCAAAGCTCC
2004871 CGAGTTGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 3 0.13
18 7 0.30
ACGTcount: A:0.28, C:0.37, G:0.17, T:0.17
Consensus pattern (18 bp):
TGCCCAAAGCTCCTGAAG
Found at i:2004876 original size:132 final size:132
Alignment explanation
Indices: 2004627--2004982 Score: 464
Period size: 132 Copynumber: 2.7 Consensus size: 132
2004617 AAATCTGAAG
* * * *
2004627 CACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTGCCCAAGCCT-GA
1 CACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG-CTGGA
* * *
2004691 ATTACCCAAAGCTCCTG-AGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAAGCCA
65 ATTGCCCAAAGCTCCTGAAG-TGCCAAAACCTGAATTACCAAAAGCTCCCGAGTTACCAAAGCCA
2004755 GAAT
129 GAAT
** * * * * *
2004759 TGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGTTGGAA
1 CACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCTGGAA
* * * * **
2004824 TTGCCCAAAGCTCCTGAAGTGCCCAAGCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAGCTTGA
66 TTGCCCAAAGCTCCTGAAGTGCCAAAACCTGAATTACCAAAAGCTCCCGAGTTACCAAAGCCAGA
2004889 AT
131 AT
* * *
2004891 CACCAAAAGTTCCTGAGTTATCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCAGAAA
1 CACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCTGGAA
*
2004956 TTGCCCAAAGCTCCTGAATTGCCAAAA
66 TTGCCCAAAGCTCCTGAAGTGCCAAAA
2004983 ATTCCTGAGG
Statistics
Matches: 189, Mismatches: 33, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
131 1 0.01
132 186 0.98
133 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (132 bp):
CACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCTGGAA
TTGCCCAAAGCTCCTGAAGTGCCAAAACCTGAATTACCAAAAGCTCCCGAGTTACCAAAGCCAGA
AT
Found at i:2004988 original size:51 final size:51
Alignment explanation
Indices: 2004920--2005017 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
2004910 ATCAAAGCCA
* * * * *
2004920 GAATTGCCTAAAGTTCCTGAGGTGCC-TAAGCAGAAATTGCCCAAAGCTCCT
1 GAATTGCCAAAAATTCCTGAGGTACCAAAACCAG-AATTGCCCAAAGCTCCT
2004971 GAATTGCCAAAAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGC
1 GAATTGCCAAAAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGC
2005018 GACTGAGCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 36 0.88
52 5 0.12
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (51 bp):
GAATTGCCAAAAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCTCCT
Found at i:2005008 original size:33 final size:33
Alignment explanation
Indices: 2004971--2005221 Score: 191
Period size: 33 Copynumber: 7.6 Consensus size: 33
2004961 CAAAGCTCCT
*
2004971 GAATTGCCAAAAATTCCTGAGGTACCAAAACCA
1 GAATTGCCAAAAGTTCCTGAGGTACCAAAACCA
* *** * * *
2005004 GAATTGCCCAAAGCGACTGAGCTGCCAAAACCT
1 GAATTGCCAAAAGTTCCTGAGGTACCAAAACCA
* * * *
2005037 GAATTACCAAAAGTTCCTGAGGTGCCTAAGCCA
1 GAATTGCCAAAAGTTCCTGAGGTACCAAAACCA
* * ** *
2005070 GAATTGCCAAAAGCTCCTAAATTACCAAAACCT
1 GAATTGCCAAAAGTTCCTGAGGTACCAAAACCA
* * * * *
2005103 CAATTACCTAAAA-TTCCCGAGTTAACAAAACCA
1 GAATTGCC-AAAAGTTCCTGAGGTACCAAAACCA
* * *
2005136 GAATTGCCTAAAGTTCCAGAGGTACCGAAACCA
1 GAATTGCCAAAAGTTCCTGAGGTACCAAAACCA
* * * *
2005169 GAATTGCCCAAAA-CTCCTGAGTTGCCAAAACCT
1 GAATTG-CCAAAAGTTCCTGAGGTACCAAAACCA
* *
2005202 GAATTACCTAAAGTTCCTGA
1 GAATTGCCAAAAGTTCCTGA
2005222 ATTGCCTAGC
Statistics
Matches: 163, Mismatches: 51, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
32 8 0.05
33 146 0.90
34 9 0.06
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (33 bp):
GAATTGCCAAAAGTTCCTGAGGTACCAAAACCA
Found at i:2005011 original size:132 final size:128
Alignment explanation
Indices: 2004621--2005017 Score: 425
Period size: 132 Copynumber: 3.0 Consensus size: 128
2004611 TTGTCAAAAT
* * * * *
2004621 CTGAAGCACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTGCCCAAG
1 CTGAATCACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG
* * * *
2004686 CCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAA
66 -CTGAATTGCCCAAAGCTCCTGAATTGCCAAAACCTGAATTACCAAAA---CCAGAGTTGCCAAA
2004751 GC
127 GC
* ** * * * *
2004753 CAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG
1 CTGAATCACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG
* * * * * *
2004818 TTGGAATTGCCCAAAGCTCCTGAAGTGCCCAAGCCTGAATTACCCAAAGCTCCCGAGTTGCCAAA
66 CT-GAATTGCCCAAAGCTCCTGAATTGCCAAAACCTGAATTA-CCAAA--ACCAGAGTTGCCAAA
2004883 GC
127 GC
* *
2004885 TTGAATCACCAAAAGTTCCTGAGTTATCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG
1 CTGAATCACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG
* ** *
2004950 CAGAAATTGCCCAAAGCTCCTGAATTGCCAAAAATTCCTGAGGTACCAAAACCAGAATTGCCCAA
66 CTG-AATTGCCCAAAGCTCCTGAATTGCC-AAAA--CCTGAATTACCAAAACCAGAGTTG-CCAA
2005015 AGC
126 AGC
2005018 GACTGAGCTG
Statistics
Matches: 216, Mismatches: 40, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
131 2 0.01
132 188 0.87
133 14 0.06
134 5 0.02
135 7 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (128 bp):
CTGAATCACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAG
CTGAATTGCCCAAAGCTCCTGAATTGCCAAAACCTGAATTACCAAAACCAGAGTTGCCAAAGC
Found at i:2005149 original size:99 final size:99
Alignment explanation
Indices: 2005029--2005218 Score: 256
Period size: 99 Copynumber: 1.9 Consensus size: 99
2005019 ACTGAGCTGC
* * * * *
2005029 CAAAACCTGAATTACCAAAAGTTCCTGAGGTGCCTAAGCCAGAATTG-CCAAAAGCTCCTAAATT
1 CAAAACCAGAATTACCAAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAA-CTCCTAAATT
2005093 ACCAAAACCTCAATTACCTAAAATTCCCGAGTTAA
65 ACCAAAACCTCAATTACCTAAAATTCCCGAGTTAA
* * * * *
2005128 CAAAACCAGAATTGCCTAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCCTGAGTTG
1 CAAAACCAGAATTACCAAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCCTAAATTA
* *
2005193 CCAAAACCTGAATTACCTAAAGTTCC
66 CCAAAACCTCAATTACCTAAAATTCC
2005219 TGAATTGCCT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 72 0.92
100 6 0.08
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (99 bp):
CAAAACCAGAATTACCAAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCCTAAATTA
CCAAAACCTCAATTACCTAAAATTCCCGAGTTAA
Found at i:2009188 original size:19 final size:19
Alignment explanation
Indices: 2009164--2009203 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2009154 AATCTCTCAT
2009164 AATTTTTTATATACTTTCA
1 AATTTTTTATATACTTTCA
2009183 AATTTTTTATATACTTTCA
1 AATTTTTTATATACTTTCA
2009202 AA
1 AA
2009204 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTTTATATACTTTCA
Found at i:2009520 original size:20 final size:20
Alignment explanation
Indices: 2009495--2009606 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
2009485 GGAAAATATA
2009495 AGAAAATACTAAAAATTATG
1 AGAAAATACTAAAAATTATG
*
2009515 AGAAAATA--AAAAA--ATA
1 AGAAAATACTAAAAATTATG
*
2009531 AGAAAATA-TCAAAAATTATA
1 AGAAAATACT-AAAAATTATG
** *
2009551 AGCGAATAATAAAAATTATG
1 AGAAAATACTAAAAATTATG
* *
2009571 A-ATAAGTACTAAAAACTATG
1 AGA-AAATACTAAAAATTATG
* *
2009591 AGGAAATACAAAAAAT
1 AGAAAATACTAAAAAT
2009607 ATTGAGGGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
16 10 0.14
18 10 0.14
20 51 0.71
21 1 0.01
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.21
Consensus pattern (20 bp):
AGAAAATACTAAAAATTATG
Found at i:2009536 original size:36 final size:36
Alignment explanation
Indices: 2009487--2009607 Score: 118
Period size: 36 Copynumber: 3.2 Consensus size: 36
2009477 GGACTACCGG
*
2009487 AAAATATAAGAAAATACTAAAAATTATGAGAAAATA
1 AAAAAATAAGAAAATACTAAAAATTATGAGAAAATA
* **
2009523 AAAAAATAAGAAAATA-TCAAAAATTATAAGCGAATA
1 AAAAAATAAGAAAATACT-AAAAATTATGAGAAAATA
* * *
2009559 ATAAAAATTATGAATAAGTACTAAAAACTATGAGGAAATA
1 A-AAAAA-TAAGAA-AA-TACTAAAAATTATGAGAAAATA
2009599 CAAAAAATA
1 -AAAAAATA
2009608 TTGAGGGAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
35 1 0.01
36 31 0.45
37 5 0.07
38 5 0.07
39 4 0.06
40 21 0.30
41 2 0.03
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.21
Consensus pattern (36 bp):
AAAAAATAAGAAAATACTAAAAATTATGAGAAAATA
Found at i:2010352 original size:25 final size:25
Alignment explanation
Indices: 2010302--2010352 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
2010292 TTCATATATT
* *
2010302 TATTATATTTATATTATTTTATTAA
1 TATTATATGTATATTATTTTAATAA
2010327 TATTATATGTA-ATTATTTTAAATAA
1 TATTATATGTATATTATTTT-AATAA
2010352 T
1 T
2010353 CGTATCGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTATATGTATATTATTTTAATAA
Found at i:2010965 original size:18 final size:17
Alignment explanation
Indices: 2010942--2010997 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
2010932 ACCCGAAATA
2010942 CCTAAAATGCCTGAGTTG
1 CCTAAAAT-CCTGAGTTG
* *
2010960 CCTAAAGTTCCGGAGTTG
1 CCTAAA-ATCCTGAGTTG
*
2010978 CC-AAAA-CCTGAATTG
1 CCTAAAATCCTGAGTTG
2010993 CCTAA
1 CCTAA
2010998 GATTCCCGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 9 0.29
16 2 0.06
17 3 0.10
18 16 0.52
19 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (17 bp):
CCTAAAATCCTGAGTTG
Found at i:2011009 original size:51 final size:50
Alignment explanation
Indices: 2010927--2011109 Score: 195
Period size: 51 Copynumber: 3.6 Consensus size: 50
2010917 GCCAGAAATT
* * * * * * *
2010927 CCAAAACCCGAAATACCTAAAATGCCTGAGTTGCCTAAAGTTCCGGAGTTG
1 CCAAAACCTGAATTACCTAAGATTCCCGAGTT-CCTAAAGTGCCAGAGTTG
* *
2010978 CCAAAACCTGAATTGCCTAAGATTCCCGAGTTTCTGAAAGTGCCAGAGTTG
1 CCAAAACCTGAATTACCTAAGATTCCCGAGTTCCT-AAAGTGCCAGAGTTG
* * * *
2011029 CCAAAACCTGAATTACCTAAGGTTCCTGAGTTTCCAAAAGTGCCAAAGTTG
1 CCAAAACCTGAATTACCTAAGATTCCCGAG-TTCCTAAAGTGCCAGAGTTG
* * *
2011080 CCAAAGCCTGAATTTCCTAAGGTTCCCGAG
1 CCAAAACCTGAATTACCTAAGATTCCCGAG
2011110 ATGAAAAAAC
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 2 0.02
51 107 0.96
52 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (50 bp):
CCAAAACCTGAATTACCTAAGATTCCCGAGTTCCTAAAGTGCCAGAGTTG
Found at i:2011442 original size:33 final size:33
Alignment explanation
Indices: 2011383--2011470 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
2011373 TGAATTACCA
* * * *
2011383 AAAATTCCCGAGTTAACAAAATCAGAATT-GCC
1 AAAATTCCTGAGGTACCAAAACCAGAATTGGCC
*
2011415 TAAAATTCCTGAGGTACCGAAACCAGAATTGGCC
1 -AAAATTCCTGAGGTACCAAAACCAGAATTGGCC
*
2011449 AAAGTTCCTGAGGTACCAAAAC
1 AAAATTCCTGAGGTACCAAAAC
2011471 TTGAATTACC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 44 0.94
34 3 0.06
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (33 bp):
AAAATTCCTGAGGTACCAAAACCAGAATTGGCC
Found at i:2011444 original size:84 final size:84
Alignment explanation
Indices: 2011211--2011469 Score: 284
Period size: 84 Copynumber: 3.1 Consensus size: 84
2011201 AATTTGAAGC
* * *
2011211 ACCAAAAATTCCCGAGTTACCAAAGCCAGAGTTGCCTAAAGTTCCCGAGGTGCCCAAGCCTGAAT
1 ACCAAAAATTCCCGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCAGAGGTGCCCAAGCCTGAAT
* * *
2011276 TACCCAAGGCTCCCGAGTT
66 TGCCCAAAGCTCCTGAGTT
* * * * * ** *
2011295 GCCAAAAGTTCCAGAGTTACCGACGTTGGAATTGCCTAAAGTTCCAGAGGTGCCTAAGCCTGAAT
1 ACCAAAAATTCCCGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCAGAGGTGCCCAAGCCTGAAT
*
2011360 TGCCCAAAGCTCCTGAATT
66 TGCCCAAAGCTCCTGAGTT
* * * * * * * *
2011379 ACCAAAAATTCCCGAGTTAACAAAATCAGAATTGCCTAAAATTCCTGAGGTACCGAAACCAGAAT
1 ACCAAAAATTCCCGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCAGAGGTGCCCAAGCCTGAAT
* * *
2011444 TGGCCAAAGTTCCTGAGGT
66 TGCCCAAAGCTCCTGAGTT
2011463 ACCAAAA
1 ACCAAAA
2011470 CTTGAATTAC
Statistics
Matches: 141, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 141 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (84 bp):
ACCAAAAATTCCCGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCAGAGGTGCCCAAGCCTGAAT
TGCCCAAAGCTCCTGAGTT
Found at i:2011486 original size:33 final size:33
Alignment explanation
Indices: 2011374--2011489 Score: 103
Period size: 33 Copynumber: 3.5 Consensus size: 33
2011364 CAAAGCTCCT
* * * *
2011374 GAATTACCAAAAATTCCCGAGTTAACAAAA-TCA
1 GAATTACCAAAAGTTCCTGAGGTACCAAAACT-A
* * *
2011407 GAATTGCCTAAAA-TTCCTGAGGTACCGAAACCA
1 GAATTACC-AAAAGTTCCTGAGGTACCAAAACTA
* *
2011440 GAATTGGCC-AAAGTTCCTGAGGTACCAAAACTT
1 GAATT-ACCAAAAGTTCCTGAGGTACCAAAACTA
2011473 GAATTACCAAAAGTTCC
1 GAATTACCAAAAGTTCC
2011490 CGAATTGCCA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
32 5 0.07
33 56 0.82
34 7 0.10
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (33 bp):
GAATTACCAAAAGTTCCTGAGGTACCAAAACTA
Found at i:2013867 original size:39 final size:39
Alignment explanation
Indices: 2013808--2013947 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
2013798 ATCGTGATCT
* * *
2013808 GAAGCTCGAAGCCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
2013847 GAAGCTCGAAGGCTAACTGAAGTACACAAGTGCTAAACG
1 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
2013886 GAAACCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
2013925 GAAGCTCGAAGGCTAACTGAAGC
1 GAAGCTCGAAGGCTAACTGAAGC
2013948 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:2016446 original size:3 final size:3
Alignment explanation
Indices: 2016438--2016479 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2016428 AATGTTTTAC
2016438 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2016480 GGAACTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2017876 original size:22 final size:21
Alignment explanation
Indices: 2017851--2017966 Score: 76
Period size: 19 Copynumber: 6.0 Consensus size: 21
2017841 TACAAATTAA
*
2017851 ATCTATAAGATTTCAAAATCAT
1 ATCTATAAGATTGC-AAATCAT
* *
2017873 ATCTTCTAAGATTGCATATCAT
1 ATC-TATAAGATTGCAAATCAT
2017895 ATC--TAAGATTGC-AAT-AT
1 ATCTATAAGATTGCAAATCAT
*
2017912 ATC--TAAGATTG--TATCAT
1 ATCTATAAGATTGCAAATCAT
*
2017929 ATCTA-AA-ATTGCATATCAT
1 ATCTATAAGATTGCAAATCAT
*
2017948 ATC--TAAGATTGCATATCAT
1 ATCTATAAGATTGCAAATCAT
2017967 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
16 2 0.02
17 22 0.27
18 6 0.07
19 30 0.37
22 12 0.15
23 9 0.11
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
ATCTATAAGATTGCAAATCAT
Found at i:2017921 original size:36 final size:38
Alignment explanation
Indices: 2017870--2017966 Score: 143
Period size: 36 Copynumber: 2.7 Consensus size: 38
2017860 ATTTCAAAAT
*
2017870 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAAATTG
2017906 CA-AT-ATATCTAAGATTG--TATCATATCTAAAATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAAATTG
2017940 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTGCATATCAT
2017967 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
34 18 0.33
35 5 0.09
36 25 0.46
38 6 0.11
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAAATTG
Found at i:2017974 original size:17 final size:19
Alignment explanation
Indices: 2017877--2017966 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
2017867 AATCATATCT
2017877 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
2017896 TCTAAGATTGCA-AT-ATA
1 TCTAAGATTGCATATCATA
2017913 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
2017930 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
2017949 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
2017967 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
16 2 0.03
17 25 0.38
18 2 0.03
19 36 0.55
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2022208 original size:27 final size:26
Alignment explanation
Indices: 2022171--2022285 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
2022161 AGCATGGCTG
* *
2022171 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
2022197 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
2022225 TCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
2022252 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
2022279 CCAGAAC
1 CCAGAAC
2022286 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.07
27 55 0.72
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:2022236 original size:54 final size:54
Alignment explanation
Indices: 2022171--2022285 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
2022161 AGCATGGCTG
*
2022171 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * * *
2022225 TCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
2022279 CCAGAAC
1 CCAGAAC
2022286 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:2023938 original size:26 final size:26
Alignment explanation
Indices: 2023902--2023985 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
2023892 CATGAAATTC
2023902 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2023928 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2023954 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2023980 TTATCA
1 TTATCA
2023986 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2024722 original size:17 final size:18
Alignment explanation
Indices: 2024691--2024754 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 18
2024681 TAATAAATTT
2024691 AAAATATATTATATAATA
1 AAAATATATTATATAATA
*
2024709 AAAATATATT-TATAAGA
1 AAAATATATTATATAATA
*
2024726 ATAATA-A-T-TAT-ATA
1 AAAATATATTATATAATA
2024740 AAAATATATTATATA
1 AAAATATATTATATA
2024755 TTGGTTTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 7 0.18
15 5 0.13
16 2 0.05
17 14 0.37
18 10 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATATATTATATAATA
Found at i:2024755 original size:17 final size:16
Alignment explanation
Indices: 2024691--2024754 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 16
2024681 TAATAAATTT
2024691 AAAATATATTATATAATA
1 AAAATATATT-TAT-ATA
2024709 AAAATATATTTATA-A
1 AAAATATATTTATATA
2024724 GAATAATA-A-TTATATA
1 -AA-AATATATTTATATA
2024740 AAAATATA-TTATATA
1 AAAATATATTTATATA
2024755 TTGGTTTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.10
15 16 0.38
16 5 0.12
17 7 0.17
18 10 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATATATTTATATA
Found at i:2025286 original size:17 final size:18
Alignment explanation
Indices: 2025233--2025304 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
2025223 AATCATATCT
2025233 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
2025252 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
2025270 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
2025287 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
2025305 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:2025291 original size:35 final size:37
Alignment explanation
Indices: 2025226--2025304 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
2025216 ATTACAAAAT
2025226 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
2025262 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
2025297 CATATCAT
1 CATATCAT
2025305 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:2025302 original size:14 final size:15
Alignment explanation
Indices: 2025247--2025302 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
2025237 AGATTGTATA
2025247 TCATATCTAAGATTG
1 TCATATCTAAGATTG
2025262 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
2025280 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
2025297 -CATATC
1 TCATATC
2025303 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:2025578 original size:22 final size:22
Alignment explanation
Indices: 2025548--2025602 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
2025538 TTTAGGCATA
2025548 ATTATGATTTTAAAAGAACTCTC
1 ATTA-GATTTTAAAAGAACTCTC
****
2025571 ATTAGATTTTTCTTGAACTCTC
1 ATTAGATTTTAAAAGAACTCTC
2025593 ATTAGATTTT
1 ATTAGATTTT
2025603 TCTTTCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTAGATTTTAAAAGAACTCTC
Found at i:2025610 original size:26 final size:22
Alignment explanation
Indices: 2025563--2025606 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2025553 GATTTTAAAA
2025563 GAACTCTCATTAGATTTTTCTT
1 GAACTCTCATTAGATTTTTCTT
2025585 GAACTCTCATTAGATTTTTCTT
1 GAACTCTCATTAGATTTTTCTT
2025607 TCTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (22 bp):
GAACTCTCATTAGATTTTTCTT
Found at i:2028164 original size:18 final size:19
Alignment explanation
Indices: 2028143--2028179 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2028133 TTTTAAGAAA
2028143 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
2028161 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
2028180 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:2028178 original size:19 final size:19
Alignment explanation
Indices: 2028143--2028200 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
2028133 TTTTAAGAAA
*
2028143 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
2028161 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
2028179 TAAAAATTATTTTGTAATTTT
1 TATAAA-TATTTTG-AATTTT
2028200 T
1 T
2028201 GTTAATAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 15 0.44
19 13 0.38
20 2 0.06
21 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:2029496 original size:99 final size:98
Alignment explanation
Indices: 2029347--2029782 Score: 413
Period size: 99 Copynumber: 4.5 Consensus size: 98
2029337 GAGTTGCCAA
* * ** * * * * *
2029347 AGTTTCCAAAGACAGAATTACTTAAAGTTCCTAAGGTGCCCAAACCAGAATTACCTAAAACTCTT
1 AGTTACCAAAG-CAGAATTGCCCAAAGTTCCTGAGGTGCCCAAGCTAGAATTACCTAAAGCTCCT
* * * *
2029412 GAGCTACTAAAACCTAAATTACCAAAAGTTCCTG
65 GAGTTGCCAAAACCTGAATTACCAAAAGTTCCTG
* * * * * * *
2029446 AATTACCAAAACAAGAATTGCCGAAAGTTCCTAAGGTGCCCAAGCTAGAATCACCCAAAGTTCCT
1 AGTTACCAAAGC-AGAATTGCCCAAAGTTCCTGAGGTGCCCAAGCTAGAATTACCTAAAGCTCCT
* * * *
2029511 GAATTGCCAAAACCTGAATTATCAAAAGCTCTTG
65 GAGTTGCCAAAACCTGAATTACCAAAAGTTCCTG
* *
2029545 AGTTACCAAAGCTAGAATTACCCAAAATTCCTGAGGTGCCCAAGCTAGAATTACCTAAAGCTCCT
1 AGTTACCAAAGC-AGAATTGCCCAAAGTTCCTGAGGTGCCCAAGCTAGAATTACCTAAAGCTCCT
* *
2029610 GAGTTG------CC---ATTACTAAAAGTTTCTG
65 GAGTTGCCAAAACCTGAATTACCAAAAGTTCCTG
* * * * *
2029635 AGTTACTAAAGCCAGAATTGCCTAAAGTTCTTGAGGTGTCCAAGCCAGAATTACCTAAAGCTCCT
1 AGTTACCAAAG-CAGAATTGCCCAAAGTTCCTGAGGTGCCCAAGCTAGAATTACCTAAAGCTCCT
* *
2029700 AAGTTGCCAAAACCTGAATTACTAAAAGTTCCTG
65 GAGTTGCCAAAACCTGAATTACCAAAAGTTCCTG
* * * *
2029734 TGTTACCAAAGTCAGAATTTCCCAAACTTTCTGAGGTGCCCAAGCTAGA
1 AGTTACCAAAG-CAGAATTGCCCAAAGTTCCTGAGGTGCCCAAGCTAGA
2029783 GTTGCCACAA
Statistics
Matches: 270, Mismatches: 56, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
90 73 0.27
91 1 0.00
93 2 0.01
96 2 0.01
98 1 0.00
99 191 0.71
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (98 bp):
AGTTACCAAAGCAGAATTGCCCAAAGTTCCTGAGGTGCCCAAGCTAGAATTACCTAAAGCTCCTG
AGTTGCCAAAACCTGAATTACCAAAAGTTCCTG
Found at i:2029590 original size:33 final size:33
Alignment explanation
Indices: 2029428--2029782 Score: 160
Period size: 33 Copynumber: 11.0 Consensus size: 33
2029418 CTAAAACCTA
* * * * *
2029428 AATTACCAAAAGTTCCTGAATTACCAAAACAAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
* * * * *
2029461 AATTGCCGAAAGTTCCTAAGGTGCCCAAGCTAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
* * *
2029494 AATCACCCAAAGTTCCTGAATTGCCAAAACCT-G
1 AATTACCCAAAGTTCCTGAGTTGCC-AAAGCTAG
* * * * *
2029527 AATTATCAAAAGCTCTTGAGTTACCAAAGCTAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
* * *
2029560 AATTACCCAAAATTCCTGAGGTGCCCAAGCTAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
* *
2029593 AATTACCTAAAGCTCCTGAGTTG-C----C---
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
** * * * *
2029618 -ATTACTAAAAGTTTCTGAGTTACTAAAGCCAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
* * * * *
2029650 AATTGCCTAAAGTTCTTGAGGTGTCC-AAGCCAG
1 AATTACCCAAAGTTCCTGAGTTG-CCAAAGCTAG
* * * *
2029683 AATTACCTAAAGCTCCTAAGTTGCCAAAACCT-G
1 AATTACCCAAAGTTCCTGAGTTGCC-AAAGCTAG
** * *
2029716 AATTACTAAAAGTTCCTGTGTTACCAAAG-TCAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCT-AG
* * * * *
2029749 AATTTCCCAAACTTTCTGAGGTGCCCAAGCTAG
1 AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
2029782 A
1 A
2029783 GTTGCCACAA
Statistics
Matches: 231, Mismatches: 74, Indels: 34
0.68 0.22 0.10
Matches are distributed among these distances:
24 17 0.07
28 1 0.00
29 1 0.00
31 1 0.00
32 11 0.05
33 191 0.83
34 9 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (33 bp):
AATTACCCAAAGTTCCTGAGTTGCCAAAGCTAG
Found at i:2029596 original size:66 final size:66
Alignment explanation
Indices: 2029374--2029614 Score: 159
Period size: 66 Copynumber: 3.7 Consensus size: 66
2029364 TTACTTAAAG
* * * * * * *
2029374 TTCCT-AAGGTGCCCAAACCAGAATTACCTAAAA-CTCTTGAGCTACTAAAACCTA-AATTA-CC
1 TTCCTGAA-GTGCCAAAACCTGAATTACC-AAAAGCTCCTGAGTTAC-CAAAGCTAGAATCACCC
2029435 AAAA
63 AAAA
* * ** * * * * * * *
2029439 GTTCCTGAATTACCAAAACAAGAATTGCCGAAAGTTCCTAAGGTGCCCAAGCTAGAATCACCCAA
1 -TTCCTGAAGTGCCAAAACCTGAATTACCAAAAGCTCCTGAGTTACCAAAGCTAGAATCACCCAA
*
2029504 AG
65 AA
* * * *
2029506 TTCCTGAATTGCCAAAACCTGAATTATCAAAAGCTCTTGAGTTACCAAAGCTAGAATTACCCAAA
1 TTCCTGAAGTGCCAAAACCTGAATTACCAAAAGCTCCTGAGTTACCAAAGCTAGAATCACCCAAA
2029571 A
66 A
* * * *
2029572 TTCCTGAGGTGCC-CAAGCTAGAATTACCTAAAGCTCCTGAGTT
1 TTCCTGAAGTGCCAAAACCT-GAATTACCAAAAGCTCCTGAGTT
2029615 GCCATTACTA
Statistics
Matches: 133, Mismatches: 37, Indels: 10
0.74 0.21 0.06
Matches are distributed among these distances:
65 12 0.09
66 114 0.86
67 7 0.05
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (66 bp):
TTCCTGAAGTGCCAAAACCTGAATTACCAAAAGCTCCTGAGTTACCAAAGCTAGAATCACCCAAA
A
Found at i:2029653 original size:90 final size:92
Alignment explanation
Indices: 2029534--2029782 Score: 268
Period size: 90 Copynumber: 2.7 Consensus size: 92
2029524 CTGAATTATC
* * *
2029534 AAAAGCTCTTGAGTTACCAAAGCTAGAATTACCCAAAATTCCTGAGGTGCCCAAGCTAGAATTAC
1 AAAAGTTCCTGAGTTACCAAAGCCAGAATTACCCAAAATTCCTGAGGTGCCCAAGCTAGAATTAC
*
2029599 CTAAAGCTCCTGAGTTG-CC-ATTACT
66 CTAAAGCTCCTAAGTTGACCAATTACT
* * * * * * * *
2029624 AAAAGTTTCTGAGTTACTAAAGCCAGAATTGCCTAAAGTTCTTGAGGTGTCCAAGCCAGAATTAC
1 AAAAGTTCCTGAGTTACCAAAGCCAGAATTACCCAAAATTCCTGAGGTGCCCAAGCTAGAATTAC
2029689 CTAAAGCTCCTAAGTTGCCAAAACCTGAATTACT
66 CTAAAGCTCCTAAGTTG-----ACC--AATTACT
* * * * *
2029723 AAAAGTTCCTGTGTTACCAAAGTCAGAATTTCCCAAACTTTCTGAGGTGCCCAAGCTAGA
1 AAAAGTTCCTGAGTTACCAAAGCCAGAATTACCCAAAATTCCTGAGGTGCCCAAGCTAGA
2029783 GTTGCCACAA
Statistics
Matches: 127, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
90 70 0.55
96 2 0.02
99 55 0.43
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (92 bp):
AAAAGTTCCTGAGTTACCAAAGCCAGAATTACCCAAAATTCCTGAGGTGCCCAAGCTAGAATTAC
CTAAAGCTCCTAAGTTGACCAATTACT
Found at i:2029833 original size:33 final size:33
Alignment explanation
Indices: 2029796--2029998 Score: 156
Period size: 33 Copynumber: 6.2 Consensus size: 33
2029786 GCCACAACCC
*
2029796 GAATTACCAAAAGTTCCTGATTTACCAAAGCCT
1 GAATTACCAAAAGTTCCTGAGTTACCAAAGCCT
* ** * * * *
2029829 GAATTGCTTAAAGTTCCTGAGATGCCCAAGCCA
1 GAATTACCAAAAGTTCCTGAGTTACCAAAGCCT
* * * * *
2029862 GAATTACCCAAAGTTCCTAAGTTGCCAAAACAT
1 GAATTACCAAAAGTTCCTGAGTTACCAAAGCCT
* * *
2029895 GAATCACCAAAAGTTCCTAAGTTACCAATGCCT
1 GAATTACCAAAAGTTCCTGAGTTACCAAAGCCT
* * * * **
2029928 GAATTGCCAAAAGTTCTTGAAG-TGCCTAAGCAA
1 GAATTACCAAAAGTTCCTG-AGTTACCAAAGCCT
* * * *
2029961 AAATTACCCAAAGCTCCTGAATTACCAAAGCCT
1 GAATTACCAAAAGTTCCTGAGTTACCAAAGCCT
2029994 GAATT
1 GAATT
2029999 GAAATCAGAA
Statistics
Matches: 125, Mismatches: 43, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
32 1 0.01
33 122 0.98
34 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (33 bp):
GAATTACCAAAAGTTCCTGAGTTACCAAAGCCT
Found at i:2029849 original size:81 final size:81
Alignment explanation
Indices: 2029701--2029859 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 81
2029691 AAAGCTCCTA
* * * * *
2029701 AGTTGCCAAAACCTGAATTACTAAAAGTTCCTGTGTTACCAAAGTCAGAATTTCCCAAACTTTCT
1 AGTTGCCAAAACCCGAATTACCAAAAGTTCCTGTGTTACCAAAGCCAGAATTGCCCAAACTTCCT
*
2029766 GAGGTGCCCAAGCTAG
66 GAGATGCCCAAGCTAG
* * ** *
2029782 AGTTGCCACAACCCGAATTACCAAAAGTTCCTGAT-TTACCAAAGCCTGAATTGCTTAAAGTTCC
1 AGTTGCCAAAACCCGAATTACCAAAAGTTCCTG-TGTTACCAAAGCCAGAATTGCCCAAACTTCC
2029846 TGAGATGCCCAAGC
65 TGAGATGCCCAAGC
2029860 CAGAATTACC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 65 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (81 bp):
AGTTGCCAAAACCCGAATTACCAAAAGTTCCTGTGTTACCAAAGCCAGAATTGCCCAAACTTCCT
GAGATGCCCAAGCTAG
Found at i:2029909 original size:99 final size:99
Alignment explanation
Indices: 2029782--2029978 Score: 252
Period size: 99 Copynumber: 2.0 Consensus size: 99
2029772 CCCAAGCTAG
* * * * * **
2029782 AGTTGCCACAACCCGAATTACCAAAAGTTCCTGATTTACCAAAGCCTGAATTGCTTAAAGTTCCT
1 AGTTGCCAAAACACGAATCACCAAAAGTTCCTAAGTTACCAAAGCCTGAATTGCCAAAAGTTCCT
* * *
2029847 G-AGATGCCCAAGCCAGAATTACCCAAAGTTCCTA
66 GAAG-TGCCCAAGCAAAAATTACCCAAAGCTCCTA
* * *
2029881 AGTTGCCAAAACATGAATCACCAAAAGTTCCTAAGTTACCAATGCCTGAATTGCCAAAAGTTCTT
1 AGTTGCCAAAACACGAATCACCAAAAGTTCCTAAGTTACCAAAGCCTGAATTGCCAAAAGTTCCT
*
2029946 GAAGTGCCTAAGCAAAAATTACCCAAAGCTCCT
66 GAAGTGCCCAAGCAAAAATTACCCAAAGCTCCT
2029979 GAATTACCAA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 81 0.98
100 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (99 bp):
AGTTGCCAAAACACGAATCACCAAAAGTTCCTAAGTTACCAAAGCCTGAATTGCCAAAAGTTCCT
GAAGTGCCCAAGCAAAAATTACCCAAAGCTCCTA
Found at i:2029996 original size:15 final size:17
Alignment explanation
Indices: 2029962--2029998 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
2029952 CCTAAGCAAA
2029962 AATTACCCAAAGCTCCTG
1 AATTACCCAAAGC-CCTG
2029980 AATTA-CCAAAG-CCTG
1 AATTACCCAAAGCCCTG
2029995 AATT
1 AATT
2029999 GAAATCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (17 bp):
AATTACCCAAAGCCCTG
Found at i:2031588 original size:28 final size:27
Alignment explanation
Indices: 2031487--2031588 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
2031477 TCAAAGTTAA
* *
2031487 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
2031515 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
2031547 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
2031575 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
2031589 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:2031608 original size:60 final size:59
Alignment explanation
Indices: 2031488--2031624 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
2031478 CAAAGTTAAC
* *
2031488 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
2031549 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
2031609 TGGGCTTTGCCCATAT
1 TGGGCCTAGCCCATAT
2031625 TGACACAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.78
61 11 0.16
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:2031976 original size:26 final size:27
Alignment explanation
Indices: 2031943--2032005 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
2031933 CAAAATTAAC
* * *
2031943 CCTAGGGGTATAATGGTCATTTT-ACA
1 CCTAGGGGTAAAACGGTAATTTTCACA
*
2031969 CCTAGGGGTAAAACGGTAATTTTCATA
1 CCTAGGGGTAAAACGGTAATTTTCACA
*
2031996 CTTAGGGGTA
1 CCTAGGGGTA
2032006 GTTTAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (27 bp):
CCTAGGGGTAAAACGGTAATTTTCACA
Found at i:2033132 original size:25 final size:25
Alignment explanation
Indices: 2033081--2033138 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
2033071 AGCTTTTGAG
*
2033081 AAAAAATAAAAAAGAATATGAGCAA
1 AAAAAATAAAAAAGAATATGAACAA
* *
2033106 AAAAAATAAAATAAGATTA-GAATAA
1 AAAAAATAAAA-AAGAATATGAACAA
2033131 AATAAAAT
1 AA-AAAAT
2033139 CCTTTTCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (25 bp):
AAAAAATAAAAAAGAATATGAACAA
Found at i:2035910 original size:3 final size:3
Alignment explanation
Indices: 2035904--2036079 Score: 80
Period size: 3 Copynumber: 58.7 Consensus size: 3
2035894 ATGATAGCAG
* * *
2035904 TAA TAA TAA T-A TAA TAA TAA TAA -AG TAGA GAA TAA TAA CAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A
* * * * * *
2035949 TTAA TAG GAA TAA TAA TAG T-A TAT TAG TAA TAA CAA TAA TGGAA -AA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA
* * *
2035995 TGA TGA TAA -AA TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA -AC
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * *
2036038 TAA GGAA TAA TAA TAA TAC TAA CAA TGA T-A TAAA TAA TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
2036080 CAAATTCACA
Statistics
Matches: 129, Mismatches: 28, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
2 13 0.10
3 102 0.79
4 10 0.08
5 4 0.03
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:2036181 original size:19 final size:20
Alignment explanation
Indices: 2036146--2036184 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2036136 ATTTCATCAA
2036146 AATAATAAATAAACTAAAAT
1 AATAATAAATAAACTAAAAT
*
2036166 AATAAT-AATTAACTAAAAT
1 AATAATAAATAAACTAAAAT
2036185 TAGAAATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAATAAATAAACTAAAAT
Found at i:2036396 original size:33 final size:32
Alignment explanation
Indices: 2036357--2036455 Score: 143
Period size: 31 Copynumber: 3.2 Consensus size: 32
2036347 AGCCTCCTCC
2036357 AAAAAAAAACCTAACCCCAAAAAAAAAG-AAA
1 AAAAAAAAACCTAACCCCAAAAAAAAAGAAAA
* *
2036388 AAAGAAAAACCTAACCCAAAAAAAAAAGAAAA
1 AAAAAAAAACCTAACCCCAAAAAAAAAGAAAA
2036420 AAAAGAAAAACCTAA--CCAAAAAAAAA-AAAA
1 AAAA-AAAAACCTAACCCCAAAAAAAAAGAAAA
2036450 AAAAAA
1 AAAAAA
2036456 CCCTAGCCAC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
29 2 0.03
30 8 0.13
31 36 0.58
32 6 0.10
33 10 0.16
ACGTcount: A:0.78, C:0.15, G:0.04, T:0.03
Consensus pattern (32 bp):
AAAAAAAAACCTAACCCCAAAAAAAAAGAAAA
Found at i:2038844 original size:12 final size:12
Alignment explanation
Indices: 2038824--2038859 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2038814 ATTCATTTAA
2038824 CATTCATGCATT
1 CATTCATGCATT
*
2038836 CATTTATGCATT
1 CATTCATGCATT
*
2038848 CATTCATTCATT
1 CATTCATGCATT
2038860 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:2045660 original size:71 final size:69
Alignment explanation
Indices: 2045562--2045730 Score: 205
Period size: 71 Copynumber: 2.4 Consensus size: 69
2045552 TTTTCAAGGG
* * *
2045562 AAATCAACTCATATTACGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
2045626 GTTTT
65 GTTTT
** * *
2045631 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
2045696 TGTTTT
64 TGTTTT
** * *
2045702 AAATTGACTCATATTGTGAGAGGTGAGTT
1 AAATCAACTCATATTGCGAGAAGTGAGTT
2045731 AAGTCTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 25 0.29
71 59 0.69
72 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:2045859 original size:72 final size:71
Alignment explanation
Indices: 2045742--2045897 Score: 249
Period size: 72 Copynumber: 2.2 Consensus size: 71
2045732 AGTCTTTTAA
*
2045742 TTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
1 TTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
2045807 TTTCAAT
65 TTTCAAT
* *
2045814 TTTTGTGTTTTAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAT
1 TTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
*
2045879 TTTTAAT
65 TTTCAAT
*
2045886 TTCTGTTTTTAA
1 TTTTGTTTTTAA
2045898 TTTACGTTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 6 0.08
72 68 0.87
73 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (71 bp):
TTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
TTCAAT
Found at i:2046209 original size:183 final size:183
Alignment explanation
Indices: 2045901--2046261 Score: 713
Period size: 183 Copynumber: 2.0 Consensus size: 183
2045891 TTTTTAATTT
2045901 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
1 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
*
2045966 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTG
66 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
2046031 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGGTTCA
131 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGGTTCA
2046084 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
1 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
2046149 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
66 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
2046214 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGG
131 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGG
2046262 TTGAACCTTT
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 177 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (183 bp):
ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGGTTCA
Found at i:2046336 original size:140 final size:140
Alignment explanation
Indices: 2046084--2046503 Score: 788
Period size: 140 Copynumber: 3.0 Consensus size: 140
2046074 GTGGGGTTCA
2046084 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
1 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
2046149 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
66 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
2046214 TTTTCAATTT
131 TTTTCAATTT
2046224 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
1 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
2046289 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
66 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
2046354 TTTTCAATTT
131 TTTTCAATTT
2046364 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
1 ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
*
2046429 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTT
66 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTAAGGTATTTTCAATTT
2046493 CTGTCTTTCAA
128 CTGT-TTTCAA
2046504 AAAAAAAAAT
Statistics
Matches: 275, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
139 2 0.01
140 245 0.89
142 22 0.08
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
ACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTG
TTTTCAATTT
Found at i:2046588 original size:49 final size:49
Alignment explanation
Indices: 2046531--2046626 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
2046521 ATATTGCGAG
2046531 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
2046580 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT
2046627 TTCAAAATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
Found at i:2046958 original size:151 final size:148
Alignment explanation
Indices: 2046583--2047049 Score: 503
Period size: 153 Copynumber: 3.1 Consensus size: 148
2046573 CTGTTCAAAA
* * * * *
2046583 TGAGTTGAGCC-TCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATA
1 TGAGTTGAGCCTTCAACACACGCTGAGCTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATA
** * * * *
2046645 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAAA
66 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG----TTTT-AAAA
* *
2046710 AAAATCAACTCATATTGTGAGAA
126 AAAATCAACTCATATTGCGAGAG
* * * *
2046733 TGAGTTGAGCC-TCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
1 TGAGTTGAGCCTTCAACACACGCTGAGCTATTTTCAATTTCT-GTTTTCAAAAAAATCAACTCAT
* *
2046797 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAA
65 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTAAAAAAAA
*
2046862 TTAACTCATATTGCGAGAGG
130 TCAACTCATATTGCGAGA-G
* *
2046882 TGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTC
1 TGAGTTGAGCCTT--CAACACACGCTGAGCTATTTTCAATTTCTGT-TTTCAAAAAAATCAACTC
* * * * *
2046946 ATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTAATTTTTCAATTTATATTTTTA
63 ATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTAA--TTTCAATTTCT-GTTTTA
*
2047011 AAAAAAATCAACTCACATTGCGAGATG
123 AAAAAAATCAACTCATATTGCGAGA-G
2047038 TGAGTTGAGCCT
1 TGAGTTGAGCCT
2047050 CACGTCACAT
Statistics
Matches: 272, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
148 23 0.08
149 14 0.05
150 40 0.15
151 72 0.26
152 1 0.00
153 73 0.27
155 10 0.04
156 39 0.14
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (148 bp):
TGAGTTGAGCCTTCAACACACGCTGAGCTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATA
TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTAAAAAAAAT
CAACTCATATTGCGAGAG
Found at i:2047041 original size:79 final size:76
Alignment explanation
Indices: 2046583--2047214 Score: 539
Period size: 79 Copynumber: 8.1 Consensus size: 76
2046573 CTGTTCAAAA
* * * * *
2046583 TGAGTTGAGCCTCA-AGACACGTTGAGGTAATTTCAATTTCT-GTTTTC--AAAATTCAACTCAT
1 TGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
**
2046644 ATTGCGAGAAA
66 ATTGCGAGAGG
* * * * *
2046655 TTAGTTGAGCCTCA-AGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAAAAAAATCAAC
1 TGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAATTTC---TATTTTT-CAAAAAAATCAAC
* *
2046719 TCATATTGTGAGA-A
62 TCATATTGCGAGAGG
* *
2046733 TGAGTTGAGCCTCA-AGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
1 TGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
2046797 ATTGCGAGAGG
66 ATTGCGAGAGG
* * * * *
2046808 TGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTCT-GTTGTCAAAAAAATTAACTCAT
1 TGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
2046871 ATTGCGAGAGG
66 ATTGCGAGAGG
** * * * * *
2046882 TGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCA
1 TGAGTTGAGCCTCAG-ACACACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCA
2046947 TATTGCGAGAGG
65 TATTGCGAGAGG
* * * *
2046959 TGAGTTGAGCTTCAGATCACACACTGAGGTAATTTTTCAATTTATATTTTTAAAAAAAATCAACT
1 TGAGTTGAGCCTCAGA-CACACGCTGAGGT-A-TTTTCAATTTCTATTTTTCAAAAAAATCAACT
* *
2047024 CACATTGCGAGATG
63 CATATTGCGAGAGG
* * ** *
2047038 TGAGTTGAGCCTCACGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGTTTTCA
1 TGAGTTGAGCCTCA-GACACACGCT-GAGGTATTTTCAATTTCTATTTTTCA-A----------A
*
2047102 AAAATCAACTCATATTGCGAGAAG
53 AAAATCAACTCATATTGCGAGAGG
* * * * * * *
2047126 TGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTTTTTTTTTTTCAAAAAATTCAAC
1 TGAGTTGAGCCTCAGACACAC--GCTGAGGTATTTTCAA--TTTCTATTTTTCAAAAAAATCAAC
2047190 TCATATTGCGAGAGG
62 TCATATTGCGAGAGG
2047205 TGAGTTGAGC
1 TGAGTTGAGC
2047215 TTTTTAATTT
Statistics
Matches: 464, Mismatches: 63, Indels: 59
0.79 0.11 0.10
Matches are distributed among these distances:
72 36 0.08
74 67 0.14
75 45 0.10
76 26 0.06
77 66 0.14
78 44 0.09
79 116 0.25
80 1 0.00
86 4 0.01
88 48 0.10
89 2 0.00
90 9 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (76 bp):
TGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
ATTGCGAGAGG
Found at i:2047052 original size:151 final size:148
Alignment explanation
Indices: 2046583--2047053 Score: 499
Period size: 151 Copynumber: 3.1 Consensus size: 148
2046573 CTGTTCAAAA
* * * * *
2046583 TGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATAT
1 TGAGTTGAGCCTCACGACA-GCTGAGCTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATAT
** * * *
2046646 TGCGAGAAATTAGTTGAGCCTCA-AGACATGCTGAGGT-ATTTTCAATTTCTGTTTTTTTTAAAA
65 TGCGAGAGGTGAGTTGAGCCTCAGAGACACGCTGAGGTAATTTTCAA--T-T-TATTTTTT-AAA
* *
2046709 AAAAATCAACTCATATTGTGAGAA
125 AAAAATCAACTCATATTGCGAGAG
* * *
2046733 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCACGACA-GCTGAGCTATTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATA
* * * *
2046798 TTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAA-TTTCAATTTCTGTTGTCAAAAAA
64 TTGCGAGAGGTGAGTTGAGCCTCAGAGACACGCTGAGGTAATTTTCAATTTATTTTTTAAAAAAA
*
2046861 ATTAACTCATATTGCGAGAGG
129 ATCAACTCATATTGCGAGA-G
2046882 TGAGTTGAGCCTTGGCTCACG-C-GCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACT
1 TGAGTTGAG-C----CTCACGACAGCTGAGCTATTTTCAATTTCTGT-TTTCAAAAAAATCAACT
* * *
2046945 CATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTAATTTTTCAATTTATATTTTT
60 CATATTGCGAGAGGTGAGTTGAGCCTCAGA-GACACGCTGAGGTAA-TTTTCAATTTAT-TTTTT
*
2047010 AAAAAAAATCAACTCACATTGCGAGATG
122 AAAAAAAATCAACTCATATTGCGAGA-G
2047038 TGAGTTGAGCCTCACG
1 TGAGTTGAGCCTCACG
2047054 TCACATGTCG
Statistics
Matches: 275, Mismatches: 29, Indels: 33
0.82 0.09 0.10
Matches are distributed among these distances:
148 23 0.08
149 14 0.05
150 41 0.15
151 77 0.28
153 67 0.24
154 6 0.02
155 11 0.04
156 36 0.13
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (148 bp):
TGAGTTGAGCCTCACGACAGCTGAGCTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATT
GCGAGAGGTGAGTTGAGCCTCAGAGACACGCTGAGGTAATTTTCAATTTATTTTTTAAAAAAAAT
CAACTCATATTGCGAGAG
Found at i:2047232 original size:30 final size:30
Alignment explanation
Indices: 2047196--2047257 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2047186 CAACTCATAT
2047196 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
2047226 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
2047256 TG
1 TG
2047258 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:2048014 original size:33 final size:32
Alignment explanation
Indices: 2047927--2048028 Score: 136
Period size: 33 Copynumber: 3.1 Consensus size: 32
2047917 AGCCTCCTCC
2047927 AAAA-AAAAACCTAACCCCCAAAAAAAAAAG-AA
1 AAAAGAAAAACCTAA--CCCAAAAAAAAAAGAAA
2047959 AAAAGAAAAACCTAACCCAAAAAAAAAAGAAAA
1 AAAAGAAAAACCTAACCCAAAAAAAAAAG-AAA
* *
2047992 AAAAGAAAAACCTAACCTAAAAAAAAAACTAAA
1 AAAAGAAAAACCTAACCCAAAAAAAAAA-GAAA
2048025 AAAA
1 AAAA
2048029 CCCTAGCCAC
Statistics
Matches: 64, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
31 14 0.22
32 4 0.06
33 46 0.72
ACGTcount: A:0.75, C:0.17, G:0.04, T:0.05
Consensus pattern (32 bp):
AAAAGAAAAACCTAACCCAAAAAAAAAAGAAA
Found at i:2048850 original size:37 final size:37
Alignment explanation
Indices: 2048808--2048909 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
2048798 CTAATATTTT
2048808 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
2048845 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
2048888 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
2048910 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:2051176 original size:45 final size:45
Alignment explanation
Indices: 2051042--2051166 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
2051032 TTCAAGGAGA
* * * *
2051042 ACTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAG
1 ACTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAG
*
2051087 TCTGCTCCAAC-GCAACTTCAGGGAGATAAGACTTGCTATCTTCAG
1 ACTGCTCC-ACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAG
*
2051132 ACTGCTCCACTGCAACTTTAGGGAGATAAGACTTG
1 ACTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
2051167 TAATTTTCAG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
44 2 0.03
45 67 0.94
46 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
ACTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAG
Found at i:2051234 original size:43 final size:43
Alignment explanation
Indices: 2051172--2051498 Score: 182
Period size: 43 Copynumber: 7.6 Consensus size: 43
2051162 ACTTGTAATT
* * *
2051172 TTCAGCCTGTTGCCTTACTGTTTAGGGTGATAAGATCTGTCAA
1 TTCAGCCTGTTACCCTACTGCTTAGGGTGATAAGATCTGTCAA
* * * ** *
2051215 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG-GCTCACCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGTGATAAGATCT-GTCA-A
* * *
2051259 TTC-GATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGTGATAAGATCTGTCAA
* * * * ** ** *
2051302 TTCAGCCTATTACCCTAC-ACTTAGGGGGTTAAGGCCCATCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGTGATAAGATCTGTCA-A
* * * * *
2051345 TTC-GATCTGTTTCCTTACTACTTAGGGTGATAAGATCTATCAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGTGATAAGATCTGTCAA
* * * * ** *
2051388 TTCAGCTTGTTACCCTACTACTTAGGG-GTTAAG-GCTCACCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGTGATAAGATCT-GTCA-A
* * ** *
2051431 TT-TGATCTGTTTTCCTACTGCTTAGGGTGATAAGATCTATCAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGTGATAAGATCTGTCAA
*
2051474 TTTAGCCTGTTACCCTACTGCTTAG
1 TTCAGCCTGTTACCCTACTGCTTAG
2051499 AGGGTTAAGG
Statistics
Matches: 207, Mismatches: 62, Indels: 30
0.69 0.21 0.10
Matches are distributed among these distances:
41 2 0.01
42 27 0.13
43 116 0.56
44 58 0.28
45 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (43 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGTGATAAGATCTGTCAA
Found at i:2051369 original size:86 final size:87
Alignment explanation
Indices: 2051178--2051772 Score: 651
Period size: 86 Copynumber: 6.9 Consensus size: 87
2051168 AATTTTCAGC
* * * * *
2051178 CTGTTGCCTTACTGTTTAGGGTGATAAGATCTGTCAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGG
2051243 GTTAAGGCTCACCACCTTCGAT
66 GTTAAGGCTCACCACCTTCGAT
* * *
2051265 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTATTACCCTAC-ACTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* *
2051329 GTTAAGGCCCATCACCTTCGAT
66 GTTAAGGCTCACCACCTTCGAT
* * * * *
2051351 CTGTTTCCTTACTACTTAGGGTGATAAGATCTATCAATTCAGCTTGTTACCCTACTACTTA-GGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGG
*
2051415 GTTAAGGCTCACCACCTTTGAT
66 GTTAAGGCTCACCACCTTCGAT
* * * *
2051437 CTGTTTTCCTACTGCTTAGGGTGATAAGATCTATCAATTTAGCCTGTTACCCTACTGCTTAGAGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* ** **
2051502 GTTAAGGCCCGTCGTCTTCGAT
66 GTTAAGGCTCACCACCTTCGAT
* * * * * * *
2051524 TTTTTTCCCTACTTCTTGGGGTGATAAGATCTATAATTTTTAGCCTGTTGCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAA-ATTCAGCCTGTTACCCTACTGCTTAGGG
* ***
2051589 GATTAAGGCTCACCGTTTTCGAT
65 GGTTAAGGCTCACCACCTTCGAT
* * * * * * *
2051612 CTG-CTCTACTACTGCTTAGGGAGACAATATCTATAATCTTCAGCCTGTTACCCTACTACTTAGG
1 CTGTTTC-CCTACTGCTTAGGGTGATAAGATCTATAA-ATTCAGCCTGTTACCCTACTGCTTAGG
* **
2051676 GGGTTAAGGCTCATCGTCTTCGAT
64 GGGTTAAGGCTCACCACCTTCGAT
** * * * *
2051700 CT-ACTCCGCTACTGCTTAGGGAGACAAGATCTGT-AATTCAGCATGTTACCCTACTGCTTAGGG
1 CTGTTTCC-CTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGG
2051763 GGTTAAGGCT
65 GGTTAAGGCT
2051773 TGTGAATTCA
Statistics
Matches: 436, Mismatches: 66, Indels: 13
0.85 0.13 0.03
Matches are distributed among these distances:
86 189 0.43
87 106 0.24
88 141 0.32
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGG
GTTAAGGCTCACCACCTTCGAT
Found at i:2051696 original size:44 final size:44
Alignment explanation
Indices: 2051215--2051772 Score: 156
Period size: 44 Copynumber: 12.8 Consensus size: 44
2051205 GATCTGTCAA
* *
2051215 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
* * * * * * **
2051259 TTC-GATCTGTTTCCCTACTGCTTAGGGTGATAA-GATC-TGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCAT-CATC
* * * *
2051302 TTCAGCCTATTACCCTAC-ACTTAGGGGGTTAAGGCCCATCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
* * * * * * * *
2051345 TTC-GATCTGTTTCCTTACTACTTAGGGTGATAA-GATCTATCA-A
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTC-ATCATC
* * * *
2051388 TTCAGCTTGTTACCCTACTACTTA-GGGGTTAAGGCTCACCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
* * ** * * *
2051431 TT-TGATCTGTTTTCCTACTGCTTAGGGTGATAA-GATCTATCAAT-
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTC-ATC-ATC
* * * *
2051475 TT-AGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCCCGTCGTC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
** * * * * * * *
2051518 TTC-GATTTTTTTCCCTACTTCTT-GGGGTGATAA-GATCTATAATT
1 TTCAG-CCTGTTACCCTACTGCTTAGGGG-GTTAAGGCTC-ATCATC
* * * * * *
2051562 TTTAGCCTGTTGCCCTACTGCTTAGGGGATTAAGGCTCACCGTT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
* * ** ** *
2051606 TTC-GATCTGCTCTA--CTACTGCTTAGGGAGACAA-TATCTATAATC
1 TTCAG-CCTG-T-TACCCTACTGCTTAGGGGGTTAAGGCTC-ATCATC
* *
2051650 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCATCGTC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
* ** * ** * * *
2051694 TTC-GATCTACT-CCGCTACTGCTTAGGGAGACAA-GATC-T-GTAA
1 TTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCTCATCAT-C
*
2051736 TTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGCT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
2051773 TGTGAATTCA
Statistics
Matches: 352, Mismatches: 124, Indels: 77
0.64 0.22 0.14
Matches are distributed among these distances:
41 2 0.01
42 47 0.13
43 122 0.35
44 167 0.47
45 13 0.04
46 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (44 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCATC
Found at i:2062584 original size:46 final size:46
Alignment explanation
Indices: 2062522--2062888 Score: 540
Period size: 46 Copynumber: 8.0 Consensus size: 46
2062512 AGTGTGCTCT
2062522 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
2062568 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2062614 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2062660 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
2062706 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
2062752 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
2062798 GTGACGGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
2062845 ATGACA-GAAAATGAGAAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2062889 TCATGTCGAA
Statistics
Matches: 300, Mismatches: 18, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 258 0.86
47 41 0.14
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2071794 original size:46 final size:44
Alignment explanation
Indices: 2071690--2071797 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
2071680 TGTCTTTGAC
** * * *
2071690 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2071734 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2071780 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2071798 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2079154 original size:46 final size:44
Alignment explanation
Indices: 2079050--2079157 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
2079040 TGTCTTTGAC
** * * *
2079050 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2079094 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2079140 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2079158 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2081632 original size:21 final size:21
Alignment explanation
Indices: 2081592--2081630 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2081582 AAATCATGGA
2081592 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
2081613 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
2081631 TCGTAGGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:2084215 original size:33 final size:33
Alignment explanation
Indices: 2084094--2084320 Score: 163
Period size: 33 Copynumber: 6.9 Consensus size: 33
2084084 ATTCCCAAGT
* **
2084094 TACCAAAGCCAGAATTGCTTAAAGTTCCTGAGATG
1 TACCAAAGCCAAAATTGCCCAAAGTTCCTGAG--G
* *
2084129 T-CC-AAGCCAAAATTGCCCAAAGCTCCTGAGT
1 TACCAAAGCCAAAATTGCCCAAAGTTCCTGAGG
*
2084160 TACCAAAGCCAAAATTGTCCAAAGTTCCTGAGG
1 TACCAAAGCCAAAATTGCCCAAAGTTCCTGAGG
* * * * * *
2084193 TGCCCAAGCCAAAATTCCCCAAAGCTCC-CAAG
1 TACCAAAGCCAAAATTGCCCAAAGTTCCTGAGG
* * * * * *
2084225 TAACCAAATCCTAAATTACCAAAAGTTCTTGAGT
1 T-ACCAAAGCCAAAATTGCCCAAAGTTCCTGAGG
* * * *
2084259 TACCAAAGTCAGAATTGCCTAAAGTTCCTGATG
1 TACCAAAGCCAAAATTGCCCAAAGTTCCTGAGG
* * * * *
2084292 TGCCCAAGCCAGAATTACCCAAAGCTCCT
1 TACCAAAGCCAAAATTGCCCAAAGTTCCT
2084321 AAATTGTCAA
Statistics
Matches: 147, Mismatches: 41, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
31 1 0.01
32 5 0.03
33 136 0.93
34 4 0.03
35 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (33 bp):
TACCAAAGCCAAAATTGCCCAAAGTTCCTGAGG
Found at i:2084231 original size:66 final size:66
Alignment explanation
Indices: 2084086--2084241 Score: 206
Period size: 66 Copynumber: 2.4 Consensus size: 66
2084076 TACCAAAAAT
* * * *
2084086 TCCCAAGTTACCAAAGCCAGAATTGCTTAAAGTTCCTGAGATGTCCAAGCCAAAATTGCCCAAAG
1 TCCCAAGTTACCAAAGCCAAAATTGCTCAAAGTTCCTGAGATGCCCAAGCCAAAATTCCCCAAAG
2084151 C
66 C
** *
2084152 TCCTGAGTTACCAAAGCCAAAATTG-TCCAAAGTTCCTGAGGTGCCCAAGCCAAAATTCCCCAAA
1 TCCCAAGTTACCAAAGCCAAAATTGCT-CAAAGTTCCTGAGATGCCCAAGCCAAAATTCCCCAAA
2084216 GC
65 GC
* * *
2084218 TCCCAAGTAACCAAATCCTAAATT
1 TCCCAAGTTACCAAAGCCAAAATT
2084242 ACCAAAAGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 76 0.99
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (66 bp):
TCCCAAGTTACCAAAGCCAAAATTGCTCAAAGTTCCTGAGATGCCCAAGCCAAAATTCCCCAAAG
C
Found at i:2084341 original size:99 final size:100
Alignment explanation
Indices: 2084147--2084419 Score: 264
Period size: 99 Copynumber: 2.7 Consensus size: 100
2084137 AAAATTGCCC
* * * *
2084147 AAAGCTCCTGAGTTACCAAAGCCAAAATTGTCC-AAAGTTCCTGAGGTGCCCAAGCCAAAATTCC
1 AAAGTTCCTGAGTTACCAAAGTCAGAATTG-CCTAAAGTTCCTGAGGTGCCCAAGCCAAAATTAC
* * *
2084211 CCAAAGCTCCCAAGTAACCAAATCCTAAATTACC-A
65 CCAAAGCTCCCAAATAACCAAAACATAAATTACCAA
* * *
2084246 AAAGTTCTTGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCTGATGTGCCCAAGCCAGAATTACC
1 AAAGTTCCTGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCCAAAATTACC
* *** *
2084311 CAAAGCTCCTAAATTGTCAAAACATGAATTACCAA
66 CAAAGCTCCCAAATAACCAAAACATAAATTACCAA
* * * * * * * * * * * *
2084346 AAATTTCCCGAATTAACAAAATCAGAATTGCCTTAAG-TGCTCAAAGTGCCGAAACCAAAATTAT
1 AAAGTTCCTGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCT-GAGGTGCCCAAGCCAAAATTAC
2084410 CCAAAGCTCC
65 CCAAAGCTCC
2084420 TGAGTTGCCA
Statistics
Matches: 142, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
98 2 0.01
99 83 0.58
100 57 0.40
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (100 bp):
AAAGTTCCTGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCCAAAATTACC
CAAAGCTCCCAAATAACCAAAACATAAATTACCAA
Found at i:2085763 original size:26 final size:24
Alignment explanation
Indices: 2085727--2085774 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
2085717 ATTTTAAGTT
*
2085727 TTGTTTATATTACTTATTTTAAAA
1 TTGTTTATATTACTTACTTTAAAA
*
2085751 TTGTTCTATTATTATTTACTTTAA
1 TTGTT-TA-TATTACTTACTTTAA
2085775 GTTTTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 2 0.10
26 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (24 bp):
TTGTTTATATTACTTACTTTAAAA
Found at i:2085824 original size:78 final size:78
Alignment explanation
Indices: 2085742--2085885 Score: 177
Period size: 78 Copynumber: 1.8 Consensus size: 78
2085732 TATATTACTT
* * *
2085742 ATTTTAAAATTGT-TCTATTATTATTTACTTT-AAGT-TTTTGACATATTATGTACTTTCAATCA
1 ATTTTAAAATTGTATATA-TATTAGTTACTTTAAACTATTTT-ACATATTATGTACTTTCAAT-A
2085804 TTTTAAACTATTACCC
63 TTTTAAACTATTACCC
* * * *
2085820 ATTTTAAATTTGTATATATATTAGTTATTTTAAACTATTTTACATATTATTTATTTTCAATATTT
1 ATTTTAAAATTGTATATATATTAGTTACTTTAAACTATTTTACATATTATGTACTTTCAATATTT
2085885 T
66 T
2085886 TATATATGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
78 28 0.50
79 24 0.43
80 4 0.07
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (78 bp):
ATTTTAAAATTGTATATATATTAGTTACTTTAAACTATTTTACATATTATGTACTTTCAATATTT
TAAACTATTACCC
Found at i:2085849 original size:26 final size:25
Alignment explanation
Indices: 2085820--2085892 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 25
2085810 ACTATTACCC
2085820 ATTTTAAATTTGTATATATATTAGTT
1 ATTTTAAATTT-TATATATATTAGTT
* *
2085846 ATTTTAAACTATTT-TACATATTATTT
1 ATTTTAAA-T-TTTATATATATTAGTT
2085872 ATTTTCAATATTTT-TATATAT
1 ATTTT-AA-ATTTTATATATAT
2085893 GTTTTTTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 32 0.80
27 5 0.12
28 3 0.08
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (25 bp):
ATTTTAAATTTTATATATATTAGTT
Found at i:2085928 original size:24 final size:24
Alignment explanation
Indices: 2085901--2085947 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2085891 ATGTTTTTTA
*
2085901 CTTTAAAATATTTTATGTATATAC
1 CTTTAAAATATATTATGTATATAC
* * *
2085925 CTTTTAAGTCTATTATGTATATA
1 CTTTAAAATATATTATGTATATA
2085948 ATATATTCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (24 bp):
CTTTAAAATATATTATGTATATAC
Found at i:2086064 original size:36 final size:34
Alignment explanation
Indices: 2086024--2086097 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 34
2086014 TCACCACTTA
* *
2086024 TATATTATTTATGTTAATCTTGTTCCTCATTGTATG
1 TATATTATTTA--TCAACCTTGTTCCTCATTGTATG
2086060 --TA-TA-TTATCAACCTTGTTCCTCATTGTATG
1 TATATTATTTATCAACCTTGTTCCTCATTGTATG
2086090 TATATTAT
1 TATATTAT
2086098 CAATCGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
30 21 0.66
32 5 0.16
33 4 0.12
34 2 0.06
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (34 bp):
TATATTATTTATCAACCTTGTTCCTCATTGTATG
Found at i:2086078 original size:30 final size:30
Alignment explanation
Indices: 2086042--2086100 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
2086032 TTATGTTAAT
2086042 CTTGTTCCTCATTGTATGTATATTATCAAC
1 CTTGTTCCTCATTGTATGTATATTATCAAC
2086072 CTTGTTCCTCATTGTATGTATATTATCAA
1 CTTGTTCCTCATTGTATGTATATTATCAA
2086101 TCGTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (30 bp):
CTTGTTCCTCATTGTATGTATATTATCAAC
Found at i:2089774 original size:29 final size:28
Alignment explanation
Indices: 2089740--2089842 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
2089730 TAATCGATCA
*
2089740 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
2089769 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
2089798 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
2089827 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
2089843 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Done.