Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008387.1 Hibiscus syriacus cultivar Beakdansim tig00111151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2491990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1936079 original size:11 final size:11
Alignment explanation
Indices: 1936065--1936129 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
1936055 AAAATTCAAG
1936065 AGCTCGATTGA
1 AGCTCGATTGA
*
1936076 AGCTCGAGACTCG-
1 AGCTC--GA-TTGA
1936089 AGCTCGATTGA
1 AGCTCGATTGA
1936100 AGCTCGATTTTG-
1 AGCTCGA--TTGA
*
1936112 AGCTCGATTCA
1 AGCTCGATTGA
1936123 AGCTCGA
1 AGCTCGA
1936130 ACTCAAACTC
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 4 0.09
11 21 0.48
12 7 0.16
13 10 0.23
14 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:1936141 original size:23 final size:23
Alignment explanation
Indices: 1936064--1936133 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
1936054 AAAAATTCAA
1936064 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGA-ACTC
** *
1936088 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTGAAGCTCGAACTC
*
1936111 GAGCTCGATTCAAGCTCGAACTC
1 GAGCTCGATTGAAGCTCGAACTC
1936134 AAACTCGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGAACTC
Found at i:1936437 original size:21 final size:21
Alignment explanation
Indices: 1936412--1936505 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
1936402 TGGCATAACT
1936412 TAAACCCTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
* *
1936433 TAAACCTTAACATATAAACCC
1 TAAACCCTAACACATAAACCC
* *
1936454 TAAACCCTAA-ACTTTAAACCT
1 TAAACCCTAACAC-ATAAACCC
* * *
1936475 TAAATCCTATCACATAAACTC
1 TAAACCCTAACACATAAACCC
*
1936496 TAAATCCTAA
1 TAAACCCTAA
1936506 ACCTTAAACC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 56 0.95
22 2 0.03
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAACACATAAACCC
Found at i:1936493 original size:35 final size:35
Alignment explanation
Indices: 1936454--1936526 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
1936444 ATATAAACCC
*
1936454 TAAACCCTAAA-CTTTAAACCTTAAATCC-TATCACA
1 TAAACCCTAAATC-CTAAACCTTAAA-CCTTATCACA
*
1936489 TAAACTCTAAATCCTAAACCTTAAACCTTATCACA
1 TAAACCCTAAATCCTAAACCTTAAACCTTATCACA
1936524 TAA
1 TAA
1936527 TTAGTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 2 0.06
35 31 0.91
36 1 0.03
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (35 bp):
TAAACCCTAAATCCTAAACCTTAAACCTTATCACA
Found at i:1936513 original size:21 final size:20
Alignment explanation
Indices: 1936447--1936516 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
1936437 CCTTAACATA
* *
1936447 TAAACCCTAAACCCTAAACTT
1 TAAA-CCTAAATCCTAAACCT
* *
1936468 TAAACCTTAAATCCT-ATCACA
1 TAAACC-TAAATCCTAAAC-CT
1936489 TAAACTCTAAATCCTAAACCT
1 TAAAC-CTAAATCCTAAACCT
1936510 TAAACCT
1 TAAACCT
1936517 TATCACATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.15
21 30 0.77
22 3 0.08
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAACCTAAATCCTAAACCT
Found at i:1939887 original size:33 final size:33
Alignment explanation
Indices: 1939835--1939913 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1939825 TTTATTTTGT
1939835 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
*
1939867 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
1939900 TCGGGTTCGGGTTT
1 TCGGG-TCGGGTTT
1939914 AGGGTGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 10 0.23
33 26 0.59
34 8 0.18
ACGTcount: A:0.11, C:0.10, G:0.37, T:0.42
Consensus pattern (33 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
Found at i:1940177 original size:37 final size:38
Alignment explanation
Indices: 1940126--1940217 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
1940116 CTTTATTTTG
1940126 TTCGGGTCGGGTCGGGTCGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
*
1940163 TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1940201 TTCGGGTCGGGTCGGGT
1 TTCGGGTCGGGTCGGGT
1940218 TCGAGTTTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
37 20 0.38
38 32 0.62
ACGTcount: A:0.10, C:0.12, G:0.41, T:0.37
Consensus pattern (38 bp):
TTCGGGTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:1940814 original size:16 final size:16
Alignment explanation
Indices: 1940793--1940840 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1940783 ATATAAAATT
1940793 AAATTTTAATTCCTAC
1 AAATTTTAATTCCTAC
* * *
1940809 AAATTTCAATTCTTTC
1 AAATTTTAATTCCTAC
1940825 AAATATTCTAATTCCT
1 AAAT-TT-TAATTCCT
1940841 CGTAAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 17 0.68
17 2 0.08
18 6 0.24
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATTTTAATTCCTAC
Found at i:1945515 original size:104 final size:104
Alignment explanation
Indices: 1945327--1945517 Score: 265
Period size: 104 Copynumber: 1.8 Consensus size: 104
1945317 ATACACACAC
* *
1945327 ACAATAAAGCTGAGCTACTCCTCTAAAGCAATTGGTTAAAAGCCATGACTTTATGGATAAACGTC
1 ACAATAAAGCTGAACTACTCCTCTAAAGCAATTAGTTAAAAGCCATGACTTTATGGATAAACGTC
* *
1945392 AGCTAGCCAAATAAAGGCAAATCATATATGCATATATAT
66 AACTAGCCAAACAAAGGCAAATCATATATGCATATATAT
* * * * * * *
1945431 ACAATAAAGTTGAACTATTCCTCTAAAGCATTTAGTTAAAAGCCTTGGCTTTATGGATAGACTTC
1 ACAATAAAGCTGAACTACTCCTCTAAAGCAATTAGTTAAAAGCCATGACTTTATGGATAAACGTC
* *
1945496 AACTAGCCATACAAGGGCAAAT
66 AACTAGCCAAACAAAGGCAAAT
1945518 TAAATTGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 74 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (104 bp):
ACAATAAAGCTGAACTACTCCTCTAAAGCAATTAGTTAAAAGCCATGACTTTATGGATAAACGTC
AACTAGCCAAACAAAGGCAAATCATATATGCATATATAT
Found at i:1946755 original size:42 final size:43
Alignment explanation
Indices: 1946608--1946754 Score: 224
Period size: 43 Copynumber: 3.4 Consensus size: 43
1946598 TTGGTTCATT
1946608 CATCACATAAGGAGTTGGACCAACATTACCTTTTGCTCGATTC
1 CATCACATAAGGAGTTGGACCAACATTACCTTTTGCTCGATTC
*
1946651 CATCGCATAAGGAGTTGGACCAACATTACCTTTTGCTCGATTC
1 CATCACATAAGGAGTTGGACCAACATTACCTTTTGCTCGATTC
* * * *
1946694 CATCGCATAAGGAGTTGGATCATCATCACC-TTTGCTCGATTC
1 CATCACATAAGGAGTTGGACCAACATTACCTTTTGCTCGATTC
* *
1946736 CATCATATAAGGAGGTGGA
1 CATCACATAAGGAGTTGGA
1946755 TTGGAATTTC
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 28 0.29
43 69 0.71
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CATCACATAAGGAGTTGGACCAACATTACCTTTTGCTCGATTC
Found at i:1948328 original size:17 final size:18
Alignment explanation
Indices: 1948295--1948328 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1948285 TTGTATCTTG
1948295 AATTTATTTCTTCTTTTC
1 AATTTATTTCTTCTTTTC
1948313 AATTTATTTC-TCTTTT
1 AATTTATTTCTTCTTTT
1948329 AAATATGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTTATTTCTTCTTTTC
Found at i:1949304 original size:182 final size:182
Alignment explanation
Indices: 1948997--1949342 Score: 593
Period size: 182 Copynumber: 1.9 Consensus size: 182
1948987 AATTAGGATT
*
1948997 AATAATTGATTAAAACGAATTAGAATTAATATTAGAGACTCCATTGTAGGTTTAGTCCCCTAAGT
1 AATAATTGATTAAAACGAATTAGAATTAATATTAGAGACTCCACTGTAGGTTTAGTCCCCTAAGT
*
1949062 TCTTTAGTTTTCATAATTTGACACTTTAGGTTAGGGAAAGCATTAATTAATTACCTAGCATAATT
66 TCTTTAGTTTTCATAATTTGACACTTTAAGTTAGGGAAAGCATTAATTAATTACCTAGCATAATT
1949127 AGGCTTAAATAATTGATCGTTTGATTGCATCATAATTTCGATTACTCGAGTC
131 AGGCTTAAATAATTGATCGTTTGATTGCATCATAATTTCGATTACTCGAGTC
* * * * *
1949179 AATAATTGGTTAAAATGAATTAGGATTAATATTAGTGATTCCACTGTAGGTTTAGTCCCCTAAGT
1 AATAATTGATTAAAACGAATTAGAATTAATATTAGAGACTCCACTGTAGGTTTAGTCCCCTAAGT
* * *
1949244 TCTTTAGTTTTCGTAATTTGACACTTTAAGTTAGGGAAATCCTTAATTAATTACCTAGCATAATT
66 TCTTTAGTTTTCATAATTTGACACTTTAAGTTAGGGAAAGCATTAATTAATTACCTAGCATAATT
*
1949309 AGGCTTAAATAATTGATTGTTTGATTGCATCATA
131 AGGCTTAAATAATTGATCGTTTGATTGCATCATA
1949343 CCTTCAAAAC
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
182 153 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (182 bp):
AATAATTGATTAAAACGAATTAGAATTAATATTAGAGACTCCACTGTAGGTTTAGTCCCCTAAGT
TCTTTAGTTTTCATAATTTGACACTTTAAGTTAGGGAAAGCATTAATTAATTACCTAGCATAATT
AGGCTTAAATAATTGATCGTTTGATTGCATCATAATTTCGATTACTCGAGTC
Found at i:1951297 original size:39 final size:39
Alignment explanation
Indices: 1951243--1951627 Score: 410
Period size: 39 Copynumber: 9.9 Consensus size: 39
1951233 ACAAAGACGA
* * * **
1951243 GAGGAGGCAGCTGAGAAGGATTGTGTTCTTGAGCATTCC
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* *
1951282 GAGGAGACAGCTGAGAAGGAACGTGCTCTCGAGCCGTCC
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* * * * * * **
1951321 GAGGAGGCAGCTAAGAAGGATCATGTTGTTGAGCCATAT
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* *
1951360 GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGCCATCC
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* *
1951399 GAGGAGACAGCTGAGAAGGATCGTGTTCTTGAGCCGTCT
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* * * * *
1951438 GAAGAGACAACTGAGAAGGATCGTGTTCTTGAGCCTTCT
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* * * * * * * * *
1951477 GAGGAGGCAACCGTGAAGGATCGTGTTCATGATCCCTCT
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* * *
1951516 GAGGAGGCAGCTGAGAAAGATCGTGCTCTTGAGCAGTCC
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
* * * *
1951555 GAGGAGACAACTGAGAAGAAACGTGCTCTTGAGCCGTCT
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
1951594 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGC
1 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGC
1951628 GGTTTGAATA
Statistics
Matches: 289, Mismatches: 57, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 289 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (39 bp):
GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGCCGTCC
Found at i:1951372 original size:78 final size:78
Alignment explanation
Indices: 1951243--1951627 Score: 466
Period size: 78 Copynumber: 4.9 Consensus size: 78
1951233 ACAAAGACGA
* * *
1951243 GAGGAGGCAGCTGAGAAGGATTGTGTTCTTGAG-CATTCCGAGGAGACAGCTGAGAAGGAACGTG
1 GAGGAGGCAGCTGAGAAGGATCGTGTTCTTGAGCCA-TCTGAGGAGACAGCTGAGAAGGATCGTG
*
1951307 CTCTCGAGCCGTCC
65 CTCTTGAGCCGTCC
* * * * *
1951321 GAGGAGGCAGCTAAGAAGGATCATGTTGTTGAGCCATATGAGGAGGCAGCTGAGAAGGATCGTGC
1 GAGGAGGCAGCTGAGAAGGATCGTGTTCTTGAGCCATCTGAGGAGACAGCTGAGAAGGATCGTGC
*
1951386 TCTTGAGCCATCC
66 TCTTGAGCCGTCC
* * * * *
1951399 GAGGAGACAGCTGAGAAGGATCGTGTTCTTGAGCCGTCTGAAGAGACAACTGAGAAGGATCGTGT
1 GAGGAGGCAGCTGAGAAGGATCGTGTTCTTGAGCCATCTGAGGAGACAGCTGAGAAGGATCGTGC
* *
1951464 TCTTGAGCCTTCT
66 TCTTGAGCCGTCC
* * * * * * * *
1951477 GAGGAGGCAACCGTGAAGGATCGTGTTCATGATCCCTCTGAGGAGGCAGCTGAGAAAGATCGTGC
1 GAGGAGGCAGCTGAGAAGGATCGTGTTCTTGAGCCATCTGAGGAGACAGCTGAGAAGGATCGTGC
*
1951542 TCTTGAGCAGTCC
66 TCTTGAGCCGTCC
* * * * * *
1951555 GAGGAGACAACTGAGAAGAAACGTGCTCTTGAGCCGTCTGAGGAGACAGCTGAGAAGGATCGTGC
1 GAGGAGGCAGCTGAGAAGGATCGTGTTCTTGAGCCATCTGAGGAGACAGCTGAGAAGGATCGTGC
1951620 TCTTGAGC
66 TCTTGAGC
1951628 GGTTTGAATA
Statistics
Matches: 258, Mismatches: 48, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
78 256 0.99
79 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (78 bp):
GAGGAGGCAGCTGAGAAGGATCGTGTTCTTGAGCCATCTGAGGAGACAGCTGAGAAGGATCGTGC
TCTTGAGCCGTCC
Found at i:1951455 original size:117 final size:117
Alignment explanation
Indices: 1951243--1951627 Score: 484
Period size: 117 Copynumber: 3.3 Consensus size: 117
1951233 ACAAAGACGA
* * *
1951243 GAGGAGGCAGCTGAGAAGGATTGTGTTCTTGAG-CATTCCGAGGAGACAGCTGAGAAGGAACGTG
1 GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGCCA-TCCGAGGAGACAGCTGAGAAGGATCGTG
* * * * * * *
1951307 CTCTCGAGCCGTCCGAGGAGGCAGCTAAGAAGGATCATGTTGTTGAGCCATAT
65 CTCTTGAGCCGTCCGAGGAGACAACTGAGAAGGATCGTGTTCTTGAGCCATCT
*
1951360 GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGCCATCCGAGGAGACAGCTGAGAAGGATCGTGT
1 GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGCCATCCGAGGAGACAGCTGAGAAGGATCGTGC
* * *
1951425 TCTTGAGCCGTCTGAAGAGACAACTGAGAAGGATCGTGTTCTTGAGCCTTCT
66 TCTTGAGCCGTCCGAGGAGACAACTGAGAAGGATCGTGTTCTTGAGCCATCT
* * * * * * * * * *
1951477 GAGGAGGCAACCGTGAAGGATCGTGTTCATGATCCCTCTGAGGAGGCAGCTGAGAAAGATCGTGC
1 GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGCCATCCGAGGAGACAGCTGAGAAGGATCGTGC
* * * * *
1951542 TCTTGAGCAGTCCGAGGAGACAACTGAGAAGAAACGTGCTCTTGAGCCGTCT
66 TCTTGAGCCGTCCGAGGAGACAACTGAGAAGGATCGTGTTCTTGAGCCATCT
*
1951594 GAGGAGACAGCTGAGAAGGATCGTGCTCTTGAGC
1 GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGC
1951628 GGTTTGAATA
Statistics
Matches: 228, Mismatches: 39, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
117 226 0.99
118 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (117 bp):
GAGGAGGCAGCTGAGAAGGATCGTGCTCTTGAGCCATCCGAGGAGACAGCTGAGAAGGATCGTGC
TCTTGAGCCGTCCGAGGAGACAACTGAGAAGGATCGTGTTCTTGAGCCATCT
Found at i:1951908 original size:19 final size:19
Alignment explanation
Indices: 1951886--1951950 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
1951876 ATAATATTTG
1951886 TATTAATATATAATAAACA
1 TATTAATATATAATAAACA
* **
1951905 TATTTAAT-TTTAAGTAAATTGTG
1 TA-TTAATATATAA-TAAA---CA
1951928 TATTAATATATAATAAACA
1 TATTAATATATAATAAACA
1951947 TATT
1 TATT
1951951 TAATTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
19 10 0.29
20 9 0.26
22 9 0.26
23 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTAATATATAATAAACA
Found at i:1951931 original size:42 final size:42
Alignment explanation
Indices: 1951867--1951969 Score: 172
Period size: 42 Copynumber: 2.4 Consensus size: 42
1951857 ATTAGAGTGA
*
1951867 AATTTAAAGATAATATT-TGTATTAATATATAATAAACATATTT
1 AATTTTAAG-TAA-ATTGTGTATTAATATATAATAAACATATTT
1951910 AATTTTAAGTAAATTGTGTATTAATATATAATAAACATATTT
1 AATTTTAAGTAAATTGTGTATTAATATATAATAAACATATTT
1951952 AATTTTAAGTAAATTGTG
1 AATTTTAAGTAAATTGTG
1951970 AATTTAGAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
41 3 0.05
42 47 0.81
43 8 0.14
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (42 bp):
AATTTTAAGTAAATTGTGTATTAATATATAATAAACATATTT
Found at i:1951974 original size:23 final size:22
Alignment explanation
Indices: 1951906--1951975 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 22
1951896 TAATAAACAT
1951906 ATTTAATTTTAAGTAAATTGTG
1 ATTTAATTTTAAGTAAATTGTG
* **
1951928 -TATTAATATATAA-TAAA-CAT-
1 AT-TTAAT-TTTAAGTAAATTGTG
1951948 ATTTAATTTTAAGTAAATTGTG
1 ATTTAATTTTAAGTAAATTGTG
1951970 AATTTA
1 -ATTTA
1951976 GAGTTAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
19 4 0.11
20 9 0.26
21 4 0.11
22 9 0.26
23 9 0.26
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTAATTTTAAGTAAATTGTG
Found at i:1962780 original size:21 final size:21
Alignment explanation
Indices: 1962756--1962825 Score: 104
Period size: 21 Copynumber: 3.2 Consensus size: 21
1962746 ACCGCAAACA
*
1962756 TTATTATTTCTACCGGTTTTG
1 TTATTTTTTCTACCGGTTTTG
*
1962777 TTATTTTTTCTACCGATTTTG
1 TTATTTTTTCTACCGGTTTTG
1962798 TTATTTTTTTTCTACCGGTTTTG
1 TTA--TTTTTTCTACCGGTTTTG
1962821 TTATT
1 TTATT
1962826 GTTGGACACT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 24 0.55
23 20 0.45
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.63
Consensus pattern (21 bp):
TTATTTTTTCTACCGGTTTTG
Found at i:1962810 original size:23 final size:23
Alignment explanation
Indices: 1962762--1962825 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
1962752 AACATTATTA
1962762 TTTCTACCGGTTTTGTTA--TTT
1 TTTCTACCGGTTTTGTTATTTTT
*
1962783 TTTCTACCGATTTTGTTATTTTT
1 TTTCTACCGGTTTTGTTATTTTT
1962806 TTTCTACCGGTTTTGTTATT
1 TTTCTACCGGTTTTGTTATT
1962826 GTTGGACACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 17 0.44
23 22 0.56
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (23 bp):
TTTCTACCGGTTTTGTTATTTTT
Found at i:1963853 original size:2 final size:2
Alignment explanation
Indices: 1963846--1963879 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1963836 TTCTTTTTAA
1963846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1963880 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1964342 original size:41 final size:41
Alignment explanation
Indices: 1964307--1964412 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
1964297 AAATCGCGTT
* * *
1964307 GCGATTTTCCTAATTCGCAATGCGAATACGTAAATCGCAAC
1 GCGAATTTCCAAAATCGCAATGCGAATACGTAAATCGCAAC
** * *
1964348 GCGAATTTGGAAAATCGCAATGCGATTACGTAAATCGCAAT
1 GCGAATTTCCAAAATCGCAATGCGAATACGTAAATCGCAAC
* **
1964389 GCGAA-TACGTAAATCGCAATGCGA
1 GCGAATTTCCAAAATCGCAATGCGA
1964413 TTTACATAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 16 0.29
41 39 0.71
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGAATTTCCAAAATCGCAATGCGAATACGTAAATCGCAAC
Found at i:1964344 original size:61 final size:60
Alignment explanation
Indices: 1964279--1964415 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 60
1964269 GATTCTGACT
* * ** * *
1964279 ATCGCATTGCGATTTCCCAAATCGCGTTGCGATTTTCCTAATTCGCAATGCGAATACGTAA
1 ATCGCAATGCGATTTCCAAAATCGCAATGCGA-TTACCTAAATCGCAATGCGAATACGTAA
* ** *
1964340 ATCGCAACGCGAATTTGGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAA
1 ATCGCAATGCG-ATTTCCAAAATCGCAATGCGATTACCTAAATCGCAATGCGAATACGTAA
1964401 ATCGCAATGCGATTT
1 ATCGCAATGCGATTT
1964416 ACATAGCGCC
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
60 4 0.06
61 44 0.69
62 16 0.25
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (60 bp):
ATCGCAATGCGATTTCCAAAATCGCAATGCGATTACCTAAATCGCAATGCGAATACGTAA
Found at i:1964346 original size:20 final size:20
Alignment explanation
Indices: 1964321--1964412 Score: 130
Period size: 20 Copynumber: 4.5 Consensus size: 20
1964311 TTTTCCTAAT
1964321 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1964341 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
1964362 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1964382 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1964402 TCGCAATGCGA
1 TCGCAATGCGA
1964413 TTTACATAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 46 0.75
21 15 0.25
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1965008 original size:20 final size:20
Alignment explanation
Indices: 1964983--1965031 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1964973 CAACGAGTGA
1964983 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCAAAAATGACT
* * **
1965003 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCAAAAATGACT
1965023 ATCGCAACG
1 ATCGCAACG
1965032 AGAGAATCGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCAAAAATGACT
Found at i:1965113 original size:20 final size:20
Alignment explanation
Indices: 1965073--1965142 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
1965063 TGCGATTCTT
* **
1965073 GCGTTGTGATAGTCAAATTC
1 GCGTTGCGATAGTCATTTTC
1965093 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCATTTTC
* **
1965113 GTGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCATTTTC
*
1965133 GTGTTGCGAT
1 GCGTTGCGAT
1965143 TTAAAGTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTTC
Found at i:1965143 original size:20 final size:20
Alignment explanation
Indices: 1965090--1965144 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1965080 GATAGTCAAA
* **
1965090 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
1965110 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
1965130 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
1965145 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:1965152 original size:20 final size:20
Alignment explanation
Indices: 1965109--1965152 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1965099 CGATAGTCAT
** *
1965109 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
1965129 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
1965149 TTTC
1 TTTC
1965153 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:1967151 original size:20 final size:20
Alignment explanation
Indices: 1967011--1967148 Score: 171
Period size: 20 Copynumber: 7.2 Consensus size: 20
1967001 ATAGTTTACA
*
1967011 ATCGCAATGTGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1967031 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1967051 ATCGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
*
1967065 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
1967085 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
1967105 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
1967125 ATCGTAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
1967145 ATCG
1 ATCG
1967149 TAACGAAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.07
16 3 0.03
17 4 0.04
18 4 0.04
20 85 0.83
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1967235 original size:20 final size:20
Alignment explanation
Indices: 1967198--1967244 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1967188 GATTCTCTCG
*
1967198 TTGCGATAGTTAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
1967218 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
1967238 TTGCGAT
1 TTGCGAT
1967245 TTTGTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1967310 original size:20 final size:20
Alignment explanation
Indices: 1967285--1967331 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1967275 GATTCTCTCG
1967285 TTGCGATAGTCAAATTTGCA
1 TTGCGATAGTCAAATTTGCA
** *
1967305 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCAAATTTGCA
1967325 TTGCGAT
1 TTGCGAT
1967332 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCAAATTTGCA
Found at i:1967904 original size:21 final size:21
Alignment explanation
Indices: 1967813--1967917 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
1967803 GACTCACCTG
*
1967813 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
1967835 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
1967855 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
1967876 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
1967897 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
1967918 ACAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1967917 original size:42 final size:43
Alignment explanation
Indices: 1967810--1967917 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 43
1967800 CCCGACTCAC
* *
1967810 CTGTCATCGTTCAAGAGG--CCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCCCT-CCCTACCGTTCAAGAGGCCA
* **
1967852 CTATCATCCCTCAAGA-GTCCCCTCCC-ACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCCCTACCGTTCAAGAGGCCA
*
1967894 CTGTCATCGTTGAAGAGGTCCCTC
1 CTGTCATCGTTCAAGAGGTCCCTC
1967918 ACAACATTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.02
42 44 0.83
43 5 0.09
44 3 0.06
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.23
Consensus pattern (43 bp):
CTGTCATCGTTCAAGAGGTCCCTCCCTACCGTTCAAGAGGCCA
Found at i:1969289 original size:14 final size:14
Alignment explanation
Indices: 1969270--1969305 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1969260 ATTGTTTAAT
1969270 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1969284 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1969298 TGATTTGT
1 TGATTTGT
1969306 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1969457 original size:33 final size:33
Alignment explanation
Indices: 1969407--1969535 Score: 204
Period size: 33 Copynumber: 3.8 Consensus size: 33
1969397 AAAACAGACT
* ** *
1969407 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
1969441 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1969474 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1969507 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
1969536 CGAAACTAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
33 64 0.71
34 26 0.29
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
Found at i:1969570 original size:20 final size:19
Alignment explanation
Indices: 1969544--1969617 Score: 130
Period size: 19 Copynumber: 3.8 Consensus size: 19
1969534 CGCGAAACTA
1969544 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1969563 ATTTTCGCATTGCGATTTTC
1 A-TTTCGCATTGCGATTTTC
1969583 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
1969602 ATTTCACATTGCGATT
1 ATTTCGCATTGCGATT
1969618 CTCTCGTTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
19 34 0.64
20 19 0.36
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:1969571 original size:39 final size:39
Alignment explanation
Indices: 1969528--1969605 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
1969518 AAAATGAAAA
1969528 TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTT
1 TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTT
** *** *
1969567 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT
1 TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTT
1969606 CACATTGCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (39 bp):
TCGCAACGCGAAACTAATTTCGCATTGCGATTTTCATTT
Found at i:1969660 original size:20 final size:20
Alignment explanation
Indices: 1969627--1969710 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
1969617 TCTCTCGTTA
* *
1969627 CGATAATCATTTCCGCATTG
1 CGATAGTCAATTCCGCATTG
*
1969647 CGATAGTCAATTCCGCATTA
1 CGATAGTCAATTCCGCATTG
* ***
1969667 CGATAGTCATTTCCTTGTTG
1 CGATAGTCAATTCCGCATTG
*
1969687 CGATAGTCATATT-CGCGTTG
1 CGATAGTCA-ATTCCGCATTG
1969707 CGAT
1 CGAT
1969711 TTCTGCGTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 50 0.96
21 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (20 bp):
CGATAGTCAATTCCGCATTG
Found at i:1969679 original size:40 final size:41
Alignment explanation
Indices: 1969624--1969700 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
1969614 GATTCTCTCG
1969624 TTACGATAATCATTTCCGCATTGCGATAGTCA-ATTCCGCA
1 TTACGATAATCATTTCCGCATTGCGATAGTCATATTCCGCA
* ***
1969664 TTACGATAGTCATTTCCTTGTTGCGATAGTCATATTC
1 TTACGATAATCATTTCCGCATTGCGATAGTCATATTC
1969701 GCGTTGCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (41 bp):
TTACGATAATCATTTCCGCATTGCGATAGTCATATTCCGCA
Found at i:1973491 original size:17 final size:17
Alignment explanation
Indices: 1973469--1973502 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1973459 TTCATAAATC
*
1973469 CAAAATCCAACAATTCA
1 CAAAATCAAACAATTCA
1973486 CAAAATCAAACAATTCA
1 CAAAATCAAACAATTCA
1973503 AAATGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (17 bp):
CAAAATCAAACAATTCA
Found at i:1975425 original size:21 final size:21
Alignment explanation
Indices: 1975399--1975438 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1975389 CATAACCCCA
*
1975399 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1975420 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1975439 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1975473 original size:20 final size:21
Alignment explanation
Indices: 1975419--1975481 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
1975409 GATTCCCCTG
1975419 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
1975443 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
1975463 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
1975482 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:1979331 original size:22 final size:21
Alignment explanation
Indices: 1979289--1979328 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1979279 GAGTTTGTTT
*
1979289 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1979310 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1979329 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1981763 original size:24 final size:24
Alignment explanation
Indices: 1981712--1981763 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1981702 ATCAGAGTAT
** *
1981712 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1981736 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1981760 TGAC
1 TGAC
1981764 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1982658 original size:19 final size:20
Alignment explanation
Indices: 1982619--1982744 Score: 229
Period size: 20 Copynumber: 6.4 Consensus size: 20
1982609 CAGAATCTCG
*
1982619 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
1982639 TTGCGATTTACGT-ATCGCA
1 TTGCGATTTACGTAATCGCA
1982658 TTGCGATTTACGT-ATCGCA
1 TTGCGATTTACGTAATCGCA
1982677 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
1982697 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
1982717 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
1982737 TTGCGATT
1 TTGCGATT
1982745 GCGATTTTCC
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
19 37 0.36
20 67 0.64
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:1982810 original size:21 final size:21
Alignment explanation
Indices: 1982786--1982831 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1982776 TATTCGCATT
1982786 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
1982807 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1982828 GCGA
1 GCGA
1982832 TAGTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1983343 original size:104 final size:102
Alignment explanation
Indices: 1983150--1983357 Score: 355
Period size: 104 Copynumber: 2.0 Consensus size: 102
1983140 ATTTTGTTAA
1983150 AAATAATTTATTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTATTTGTTAAACCAA
1 AAATAATTTATTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTATTTGTTAAACCAA
*
1983215 TTAATAGAAAATTTGTCAGGCTTGTTAAACTAATGTC
66 TTAATAGAAAATTTGTCAAGCTTGTTAAACTAATGTC
* *
1983252 AAAT-ATTTTTTTTTTACTTTTTCATCTTTTTATTTTTTTTAATATTTATTATTTTAAGTTAAAC
1 AAATAATTTATTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTA-TTT--GTTAAAC
1983316 CAATTAATAGAAAATTTGTCAAGCTTGTTAAACTAATGTC
63 CAATTAATAGAAAATTTGTCAAGCTTGTTAAACTAATGTC
1983356 AA
1 AA
1983358 TTTTTTGCTA
Statistics
Matches: 100, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
101 45 0.45
102 7 0.07
104 48 0.48
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (102 bp):
AAATAATTTATTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTATTTGTTAAACCAA
TTAATAGAAAATTTGTCAAGCTTGTTAAACTAATGTC
Found at i:1983361 original size:101 final size:99
Alignment explanation
Indices: 1983154--1983363 Score: 341
Period size: 101 Copynumber: 2.1 Consensus size: 99
1983144 TGTTAAAAAT
*
1983154 AATTTATTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTATTTGTTAAACCAATTAA
1 AATTTTTTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTATTTGTTAAACCAATTAA
*
1983219 TAGAAAATTTGTCAGGCTTGTTAAACTAATGTCAA
66 TAGAAAATTTGTCAAGCTTGTTAAACTAATGTC-A
*
1983254 ATATTTTTTTTTTACTTTTTCATCTTTTTATTTTTTTTAATATTTATTATTTTAAGTTAAACCAA
1 A-ATTTTTTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTA-TTT--GTTAAACCAA
1983319 TTAATAGAAAATTTGTCAAGCTTGTTAAACTAATGTC-
62 TTAATAGAAAATTTGTCAAGCTTGTTAAACTAATGTCA
1983356 AATTTTTT
1 AATTTTTT
1983364 GCTAATGTTA
Statistics
Matches: 103, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
100 1 0.01
101 52 0.50
102 4 0.04
104 46 0.45
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (99 bp):
AATTTTTTTTTTACTTTTTCATCTTTTTATTTTTTTAAATATTTATTATTTGTTAAACCAATTAA
TAGAAAATTTGTCAAGCTTGTTAAACTAATGTCA
Found at i:1984510 original size:35 final size:36
Alignment explanation
Indices: 1984471--1984542 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 36
1984461 TTCATTAAAC
*
1984471 ATTTTTAT-ATTTTCAA-TTTTGTAAAAAATATATAA
1 ATTTTTATGAATTT-AATTTTTGTAAAAAATATATAA
* *
1984506 A-TTTTATGAATTTAATTTTTTTTAAAAATATATAA
1 ATTTTTATGAATTTAATTTTTGTAAAAAATATATAA
1984541 AT
1 AT
1984543 ATGTTTCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
34 8 0.26
35 23 0.74
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
ATTTTTATGAATTTAATTTTTGTAAAAAATATATAA
Found at i:1984717 original size:18 final size:19
Alignment explanation
Indices: 1984694--1984735 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
1984684 CAGTAATCCT
1984694 ATTCTC-TGGTAATCTTAC
1 ATTCTCATGGTAATCTTAC
1984712 ATTCTCATTGGTAATCTTAC
1 ATTCTCA-TGGTAATCTTAC
1984732 ATTC
1 ATTC
1984736 CGTGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (19 bp):
ATTCTCATGGTAATCTTAC
Found at i:1997656 original size:26 final size:27
Alignment explanation
Indices: 1997627--1997680 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
1997617 TGCTGATTAT
1997627 AAGCAAGTATAATGAG-AAAAAAATGA
1 AAGCAAGTATAATGAGAAAAAAAATGA
1997653 AAGCAAGTATAATGAGAAAAAAAATGA
1 AAGCAAGTATAATGAGAAAAAAAATGA
1997680 A
1 A
1997681 CTCGACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.63, C:0.04, G:0.19, T:0.15
Consensus pattern (27 bp):
AAGCAAGTATAATGAGAAAAAAAATGA
Found at i:2003395 original size:203 final size:203
Alignment explanation
Indices: 2003038--2003451 Score: 636
Period size: 203 Copynumber: 2.0 Consensus size: 203
2003028 TAAACATCCG
* *
2003038 AGAAGAATAGTAGAGAAAATTTTAAACGAAATTTTATCCCAATCTATAATCTGTAAGTATTATTC
1 AGAAGAATAGTAGAGAAAAGTTTAAACAAAATTTTATCCCAATCTATAATCTGTAAGTATTATTC
* * *
2003103 GAATAAAATTTTATTCGTATTCTAATGAAATATCTCTATTTCGGAAAGATTTTTAAAATATTATT
66 GAATAAAATTTTATTCGTATTCGAATGAAATATCTCTATTTCGAAAAGATTATTAAAATATTATT
* * * *
2003168 TTTACTATGTTATTGCATGTAAAAAAGAAGTGAGTAAGAAATTCGAAAATG-TTTTTTATAACGT
131 TTTAATATGTTATTGCAGGTAAAAAAGAAGTGAATAAGAAATTCGAAAA-GATTTTTTATAACAT
2003232 CAACTTGTC
195 CAACTTGTC
* * * **
2003241 GGAAGAATAGTAGAGAAAAGTTTGAACAAAATTTTCTTTCAATCTATAATCTGTAAGTATTATTC
1 AGAAGAATAGTAGAGAAAAGTTTAAACAAAATTTTATCCCAATCTATAATCTGTAAGTATTATTC
2003306 GAATAAAATTTTATTCGTATTCGAAT-AATATATCTCTATTTCGAAAA-AGTTATTAAAATATTA
66 GAATAAAATTTTATTCGTATTCGAATGAA-ATATCTCTATTTCGAAAAGA-TTATTAAAATATTA
*
2003369 TTTTTAATATGTTGTTGCAGGTAAAAAAGAAGTGAATAAGAAATTCGAAAAGATTTTTTTATAAC
129 TTTTTAATATGTTATTGCAGGTAAAAAAGAAGTGAATAAGAAATTCGAAAAGA-TTTTTTATAAC
2003434 ATCAACTTGTC
193 ATCAACTTGTC
2003445 AGAAGAA
1 AGAAGAA
2003452 ACTTTCAAGT
Statistics
Matches: 191, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
202 4 0.02
203 160 0.84
204 27 0.14
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (203 bp):
AGAAGAATAGTAGAGAAAAGTTTAAACAAAATTTTATCCCAATCTATAATCTGTAAGTATTATTC
GAATAAAATTTTATTCGTATTCGAATGAAATATCTCTATTTCGAAAAGATTATTAAAATATTATT
TTTAATATGTTATTGCAGGTAAAAAAGAAGTGAATAAGAAATTCGAAAAGATTTTTTATAACATC
AACTTGTC
Found at i:2003685 original size:25 final size:25
Alignment explanation
Indices: 2003651--2003698 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
2003641 ATTTGTAGTA
2003651 AAAAATAATATTTATTATAATGACG
1 AAAAATAATATTTATTATAATGACG
2003676 AAAAATAATATTTATTATAATGA
1 AAAAATAATATTTATTATAATGA
2003699 AAAAAATGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAAATAATATTTATTATAATGACG
Found at i:2003704 original size:25 final size:25
Alignment explanation
Indices: 2003650--2003704 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
2003640 TATTTGTAGT
*
2003650 AAAAAATAATATTTATTATAATGAC
1 AAAAAATAATATTTATTATAATGAA
*
2003675 GAAAAATAATATTTATTATAATGAA
1 AAAAAATAATATTTATTATAATGAA
2003700 AAAAA
1 AAAAA
2003705 TGGCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
AAAAAATAATATTTATTATAATGAA
Found at i:2003771 original size:45 final size:45
Alignment explanation
Indices: 2003712--2003801 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
2003702 AAATGGCAAA
* * * *
2003712 ATTAATTATCCATTAATAATCCGGGTAGGTTGGTGGTTGATGGTT
1 ATTAACTATCCATTAATAACCCGAGTAGGTTGGTGATTGATGGTT
* *
2003757 ATTAACTATTCATTAATAACCCGAGTAGGTTGGTGATTGGTGGTT
1 ATTAACTATCCATTAATAACCCGAGTAGGTTGGTGATTGATGGTT
2003802 GAACGGGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (45 bp):
ATTAACTATCCATTAATAACCCGAGTAGGTTGGTGATTGATGGTT
Found at i:2004039 original size:38 final size:38
Alignment explanation
Indices: 2003985--2004098 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
2003975 TAATAACACC
* *
2003985 ATTAATTATACGTTAATAACCCGGGTAGGTTGGTGGTT
1 ATTAATTATCCATTAATAACCCGGGTAGGTTGGTGGTT
*
2004023 ATTAATTATCCATTAATAACTCGGGTAGGTTGGTGGTT
1 ATTAATTATCCATTAATAACCCGGGTAGGTTGGTGGTT
* * * *
2004061 ATTAATTATCCATTAATATCCCAGGTAGATTAGTGGTT
1 ATTAATTATCCATTAATAACCCGGGTAGGTTGGTGGTT
2004099 GGTGGTTGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (38 bp):
ATTAATTATCCATTAATAACCCGGGTAGGTTGGTGGTT
Found at i:2024946 original size:11 final size:12
Alignment explanation
Indices: 2024930--2024959 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2024920 CTATACTACA
2024930 TATTTATA-TTT
1 TATTTATATTTT
2024941 TATTTATATTTT
1 TATTTATATTTT
2024953 TATTTAT
1 TATTTAT
2024960 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTATATTTT
Found at i:2024969 original size:16 final size:16
Alignment explanation
Indices: 2024929--2024968 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
2024919 ACTATACTAC
*
2024929 ATATTTATATTTTATTT
1 ATATTTTTA-TTTATTT
2024946 ATATTTTTATTTATTT
1 ATATTTTTATTTATTT
2024962 -TATTTTT
1 ATATTTTT
2024969 TGTGTCAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATATTTTTATTTATTT
Found at i:2025312 original size:23 final size:23
Alignment explanation
Indices: 2025278--2025348 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
2025268 ACACAGAAAA
2025278 AGGAGAGCACAAGATTTACAGAG
1 AGGAGAGCACAAGATTTACAGAG
*
2025301 AGGGGAGCACAAGATTTACAGAG
1 AGGAGAGCACAAGATTTACAGAG
2025324 AGGAGAGCACAAGATTTACAGAG
1 AGGAGAGCACAAGATTTACAGAG
2025347 AG
1 AG
2025349 AGTTTACACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.42, C:0.13, G:0.32, T:0.13
Consensus pattern (23 bp):
AGGAGAGCACAAGATTTACAGAG
Found at i:2026359 original size:13 final size:14
Alignment explanation
Indices: 2026343--2026384 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
2026333 TTATTTTTGC
2026343 TTAATAT-TATATT
1 TTAATATATATATT
2026356 TTAATATATATATAT
1 TTAATATATATAT-T
*
2026371 ATATATATATATAT
1 TTA-ATATATATAT
2026385 GTATATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 3 0.12
16 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATATATATATT
Found at i:2026366 original size:2 final size:2
Alignment explanation
Indices: 2026359--2026391 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2026349 TTATATTTTA
*
2026359 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2026392 CTTATAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2027568 original size:10 final size:10
Alignment explanation
Indices: 2027553--2027586 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2027543 TTCATTTACC
2027553 ATTTATTTTT
1 ATTTATTTTT
2027563 ATTTATTTTT
1 ATTTATTTTT
* *
2027573 ATCTATTTCT
1 ATTTATTTTT
2027583 ATTT
1 ATTT
2027587 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:2036997 original size:1 final size:1
Alignment explanation
Indices: 2036991--2037038 Score: 78
Period size: 1 Copynumber: 48.0 Consensus size: 1
2036981 TCCTAAGTTG
* *
2036991 AAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2037039 CGCTTAGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2037016 original size:20 final size:20
Alignment explanation
Indices: 2036991--2037038 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2036981 TCCTAAGTTG
2036991 AAAAAAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAAAAAACA
2037011 AAAAAAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAAAAAACA
2037031 AAAAAAAA
1 AAAAAAAA
2037039 CGCTTAGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAAACA
Found at i:2038000 original size:105 final size:105
Alignment explanation
Indices: 2037811--2038581 Score: 1223
Period size: 105 Copynumber: 7.4 Consensus size: 105
2037801 AGGTTTTACC
*
2037811 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* *
2037876 ACGAAGGGACCGCTAGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
2037916 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
2037981 ACGAAGGGACCGTTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
2038021 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
2038086 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
2038126 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
2038191 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
2038231 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
2038296 ACGAAGGGTCCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
* * *
2038336 CAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTTCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* * * *
2038401 ACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATCT
66 ACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCAATTT
* * *
2038441 CAGAGCC-A----AACTTCACAACGAAGAATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* ** * * *
2038501 ACGAAGGGATCGCTGGTTGTCAATAAATAATTT-TCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACGAA-CATTTCT-CAATTT
* * *
2038542 CAGAACCAATTTCAACTTCACATCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
2038582 GGAACAATAC
Statistics
Matches: 624, Mismatches: 33, Indels: 17
0.93 0.05 0.03
Matches are distributed among these distances:
100 71 0.11
101 14 0.02
102 1 0.00
104 4 0.01
105 510 0.82
106 24 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
Found at i:2039129 original size:11 final size:12
Alignment explanation
Indices: 2039113--2039142 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2039103 CTATACTACA
2039113 TATTTATA-TTT
1 TATTTATATTTT
2039124 TATTTATATTTT
1 TATTTATATTTT
2039136 TATTTAT
1 TATTTAT
2039143 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTATATTTT
Found at i:2039152 original size:16 final size:16
Alignment explanation
Indices: 2039112--2039151 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
2039102 ACTATACTAC
*
2039112 ATATTTATATTTTATTT
1 ATATTTTTA-TTTATTT
2039129 ATATTTTTATTTATTT
1 ATATTTTTATTTATTT
2039145 -TATTTTT
1 ATATTTTT
2039152 TGTGTCAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATATTTTTATTTATTT
Found at i:2039488 original size:23 final size:23
Alignment explanation
Indices: 2039452--2039528 Score: 136
Period size: 23 Copynumber: 3.3 Consensus size: 23
2039442 TAACTAGGAC
*
2039452 ACAGAAAGGAGAGCACAAGATTT
1 ACAGAGAGGAGAGCACAAGATTT
*
2039475 ACAGAGAGGGGAGCACAAGATTT
1 ACAGAGAGGAGAGCACAAGATTT
2039498 ACAGAGAGGAGAGCACAAGATTT
1 ACAGAGAGGAGAGCACAAGATTT
2039521 ACAGAGAG
1 ACAGAGAG
2039529 AGTTTACACG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.44, C:0.13, G:0.31, T:0.12
Consensus pattern (23 bp):
ACAGAGAGGAGAGCACAAGATTT
Found at i:2040547 original size:2 final size:2
Alignment explanation
Indices: 2040540--2040570 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2040530 TTATATTTTA
*
2040540 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2040571 CTTATAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2043317 original size:21 final size:21
Alignment explanation
Indices: 2043291--2043344 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
2043281 GCGTTGCATT
2043291 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
2043312 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
2043333 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2043345 TTTCCATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:2043361 original size:20 final size:20
Alignment explanation
Indices: 2043333--2043546 Score: 197
Period size: 20 Copynumber: 10.6 Consensus size: 20
2043323 TAGTTGAAAA
*
2043333 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
* * *
2043353 TCGCATTGCGGTTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
2043373 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
*
2043393 TCGCGTTGCGATTTTCCTGT
1 TCGCGTTGCGATTTTCCAGT
* *
2043413 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
* *
2043435 T-GTCATTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
* *
2043456 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
2043476 T-GCCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
*
2043497 T--CGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
2043515 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
2043535 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2043547 AGTTGAAAAT
Statistics
Matches: 161, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.02
19 22 0.14
20 103 0.64
21 10 0.06
22 23 0.14
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:2043473 original size:41 final size:41
Alignment explanation
Indices: 2043416--2043506 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
2043406 TTCCTGTTCG
*
2043416 CGTTGCGATAGTCTACAGTTGTCATTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGCCATTGCGATTTTCCAAATT
*
2043457 CGTTGCGATAGTCTACAGTTGCCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGCCATTGCGATTTTCCAAATT
2043498 CGTTGCGAT
1 CGTTGCGAT
2043507 TTTCCATTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGCCATTGCGATTTTCCAAATT
Found at i:2043485 original size:22 final size:21
Alignment explanation
Indices: 2043415--2043487 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
2043405 TTTCCTGTTC
2043415 GCGTTGCGATAGTCTACAGTT
1 GCGTTGCGATAGTCTACAGTT
* ** * *
2043436 GTCATTGCGATTTTCCA-AATT
1 G-CGTTGCGATAGTCTACAGTT
2043457 -CGTTGCGATAGTCTACAGTT
1 GCGTTGCGATAGTCTACAGTT
2043477 GCCGTTGCGAT
1 G-CGTTGCGAT
2043488 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
19 11 0.29
20 3 0.08
21 4 0.11
22 20 0.53
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (21 bp):
GCGTTGCGATAGTCTACAGTT
Found at i:2043570 original size:41 final size:41
Alignment explanation
Indices: 2043290--2043570 Score: 161
Period size: 41 Copynumber: 6.9 Consensus size: 41
2043280 CGCGTTGCAT
* * * * **
2043290 TTCGCGTTGCGATAATTGAAAATCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTCAAATTCGCGTTGCGAT-TTTCCAA
* * * * * * *
2043332 ATCGCGTTGCGAT-TTTCCATTTCGCATTGCGGTTTTCCAT
1 TTCGCGTTGCGATAGTTCAAATTCGCGTTGCGATTTTCCAA
* * * **
2043372 TTCGCGTTGCGAT-TTTCCAGTTCGCGTTGCGATTTTCCTG
1 TTCGCGTTGCGATAGTTCAAATTCGCGTTGCGATTTTCCAA
* *
2043412 TTCGCGTTGCGATAG-TCTACAGTT-GTCATTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTTC-A-AATTCG-CGTTGCGATTTTCC-AA
*
2043455 TT--CGTTGCGATAG-TCTACAGTT-GCCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTTC-A-AATTCG-CGTTGCGATTTTCC-AA
* * * *
2043496 TT--CGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTCCAG
1 TTCGCGTTGCGATAGTTCAAATTCGCGTTGCGATTTTCCAA
* *
2043534 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTT
1 TTCGCGTTGCGATAGTTCAAATTCGCGTTGCGATTTT
2043571 GTTGGTCATC
Statistics
Matches: 195, Mismatches: 34, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.02
39 17 0.09
40 62 0.32
41 82 0.42
42 29 0.15
43 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTCAAATTCGCGTTGCGATTTTCCAA
Found at i:2056358 original size:29 final size:29
Alignment explanation
Indices: 2056326--2056381 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
2056316 GAATTAAATT
*
2056326 TTTTGTACAAAAATAACAAAC-AAATTTAC
1 TTTTGAACAAAAATAA-AAACTAAATTTAC
* *
2056355 TTTTGAAGAAATATAAAAACTAAATTT
1 TTTTGAACAAAAATAAAAACTAAATTT
2056382 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (29 bp):
TTTTGAACAAAAATAAAAACTAAATTTAC
Found at i:2059147 original size:72 final size:72
Alignment explanation
Indices: 2059025--2059165 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 72
2059015 TGTTTTGACC
**
2059025 AATACATAAAGCTTCTAAATTTTTCAACTGCCCAAAACTTGGAGGAAGAGTACCATTTAATTGAT
1 AATACATAAAGCTTCTAAATTTGCCAACTGCCCAAAACTTGGAGGAAGAGTACCATTTAATTGAT
2059090 TTTCCCA
66 TTTCCCA
* * ** *
2059097 AATATATAAAGCTTCTAAATTTGCCAATTTTCCAAAATTTGGAGGAAGAGTACCATTTAATTGAT
1 AATACATAAAGCTTCTAAATTTGCCAACTGCCCAAAACTTGGAGGAAGAGTACCATTTAATTGAT
2059162 TTTC
66 TTTC
2059166 TGAAACATCA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (72 bp):
AATACATAAAGCTTCTAAATTTGCCAACTGCCCAAAACTTGGAGGAAGAGTACCATTTAATTGAT
TTTCCCA
Found at i:2061633 original size:20 final size:21
Alignment explanation
Indices: 2061608--2061700 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2061598 TTTTCACAAT
*
2061608 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2061628 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2061649 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2061669 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2061690 TCGCAATGCGA
1 TCGCAATGCGA
2061701 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2061653 original size:41 final size:41
Alignment explanation
Indices: 2061608--2061700 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2061598 TTTTCACAAT
2061608 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2061649 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2061690 TCGCAATGCGA
1 TCGCAATGCGA
2061701 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2061713 original size:41 final size:41
Alignment explanation
Indices: 2061627--2061761 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
2061617 GAATAAGTAA
* *
2061627 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
2061668 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
2061709 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
2061750 TTCGCAACGCGA
1 ATCGCAACGCGA
2061762 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:2061714 original size:20 final size:20
Alignment explanation
Indices: 2061689--2061803 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
2061679 AATTGGGAAA
*
2061689 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
2061709 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
2061730 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
2061750 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
2061770 TTCGCAACGCGATTCTGATT
1 ATCGCAACGCGATACTGACT
*
2061790 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2061804 ATACATAATC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 64 0.82
21 14 0.18
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2061762 original size:41 final size:41
Alignment explanation
Indices: 2061686--2061823 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 41
2061676 GCGAATTGGG
* * *
2061686 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
2061727 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
*** * * *
2061767 ACTTTCGCAACGCGATTCTGATTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
2061808 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
2061824 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 31 0.41
41 45 0.59
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:2062019 original size:22 final size:22
Alignment explanation
Indices: 2061991--2062034 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2061981 CACTCTCTCA
2061991 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2062013 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2062035 TGTCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2062339 original size:20 final size:20
Alignment explanation
Indices: 2062316--2062355 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2062306 AGTCGAATTG
2062316 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGATTTTCATTTTC
2062336 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGATTTTCATTTTC
2062356 AGAAACTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
GTGTTGCGATTTTCATTTTC
Found at i:2063690 original size:18 final size:18
Alignment explanation
Indices: 2063669--2063713 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2063659 TCCACTTCGG
*
2063669 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
2063687 GAGCTATTACCTCACCCA
1 GAGCCATCACCTCACCCA
2063705 GAGCCATCA
1 GAGCCATCA
2063714 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2064222 original size:20 final size:20
Alignment explanation
Indices: 2064197--2064236 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2064187 GTTTACTTTT
2064197 GCAACACGAAAATGACTATC
1 GCAACACGAAAATGACTATC
* *
2064217 GCAACACGGAAATGGCTATC
1 GCAACACGAAAATGACTATC
2064237 TCAATGCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
GCAACACGAAAATGACTATC
Found at i:2064269 original size:14 final size:14
Alignment explanation
Indices: 2064250--2064307 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2064240 ATGCGAAATG
2064250 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2064264 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
2064280 ATGAAATCACAACGAC
1 A--AAATCGCAACGAC
2064296 AAAATCGCAACG
1 AAAATCGCAACG
2064308 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2064280 original size:33 final size:33
Alignment explanation
Indices: 2064238--2064324 Score: 149
Period size: 32 Copynumber: 2.7 Consensus size: 33
2064228 ATGGCTATCT
2064238 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
2064271 CAATGCGAAATG-AAATCACAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
2064303 CAACGCGAAATGAAAATCGCAA
1 CAATGCGAAATGAAAATCGCAA
2064325 TGCGATTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
32 30 0.60
33 20 0.40
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:2064381 original size:19 final size:19
Alignment explanation
Indices: 2064355--2064421 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2064345 GCGATTTTGT
**
2064355 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
2064374 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
2064394 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
2064413 CGTTGCGAT
1 CGTTGCGAT
2064422 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2064401 original size:20 final size:19
Alignment explanation
Indices: 2064367--2064421 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
2064357 TTGCGATTTT
*
2064367 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2064386 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
2064406 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
2064422 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2068938 original size:33 final size:33
Alignment explanation
Indices: 2068881--2068979 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
2068871 ACGAGATAAT
*
2068881 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
2068915 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
2068948 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
2068980 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:2068973 original size:19 final size:19
Alignment explanation
Indices: 2068856--2069040 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
2068846 TCTTTTGGTT
*
2068856 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2068875 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2068895 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2068913 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2068929 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
2068947 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2068962 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
2068982 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2069001 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
2069020 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2069039 GA
1 GA
2069041 TTTTTGTTTC
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 61 0.45
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2068994 original size:39 final size:38
Alignment explanation
Indices: 2068951--2069040 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 38
2068941 GCGACCAGAC
2068951 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
2068990 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
2069028 AATCGCAATGCGA
1 AATCGCAACGCGA
2069041 TTTTTGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 23 0.46
39 27 0.54
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:2069052 original size:19 final size:19
Alignment explanation
Indices: 2069030--2069071 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2069020 GAAATAAAAA
*
2069030 TCGCAATGCGATTTTTGTT
1 TCGCAATGCGATTTTTATT
* *
2069049 TCGCATTGCGTTTTTTATT
1 TCGCAATGCGATTTTTATT
2069068 TCGC
1 TCGC
2069072 GTTGCGATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (19 bp):
TCGCAATGCGATTTTTATT
Found at i:2069076 original size:19 final size:19
Alignment explanation
Indices: 2069036--2069102 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
2069026 AAAATCGCAA
* *
2069036 TGCGATTTTTGTTTCGCAT
1 TGCGATTTTTATTTCGCGT
*
2069055 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
2069074 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
2069094 TGCGATTTT
1 TGCGATTTT
2069103 CATTCTCGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 27 0.69
20 12 0.31
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:2069642 original size:20 final size:20
Alignment explanation
Indices: 2069617--2069669 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2069607 GCGCTATGTA
2069617 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
2069637 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
2069657 TATCTCGTTGCGA
1 AATCGCGTTGCGA
2069670 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:2069703 original size:20 final size:20
Alignment explanation
Indices: 2069678--2069731 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2069668 GATTTTGTAT
*
2069678 TATCGCATTGTGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
2069698 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
2069718 TATCGCATTGCGAT
1 TATCGCATTGCGAT
2069732 TTTCCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:2079623 original size:2 final size:2
Alignment explanation
Indices: 2079616--2079656 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2079606 CCGAGTTAGT
2079616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2079657 ATGAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2084309 original size:13 final size:12
Alignment explanation
Indices: 2084291--2084329 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
2084281 TTTAAGTAAT
2084291 TTAATTTTTATTA
1 TTAATTTTT-TTA
2084304 TTAATTTTTTATA
1 TTAATTTTTT-TA
*
2084317 TTTATTTTTTTA
1 TTAATTTTTTTA
2084329 T
1 T
2084330 ATTTGTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTAATTTTTTTA
Found at i:2084333 original size:14 final size:14
Alignment explanation
Indices: 2084269--2084333 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 14
2084259 AATATATGTA
2084269 TATATTTTAATTTTT
1 TATA-TTTAATTTTT
*
2084284 AAGTAATTTAA-TTTT
1 TA-T-ATTTAATTTTT
2084299 TAT-TATTAATTTTT
1 TATAT-TTAATTTTT
*
2084313 TATATTTATTTTTT
1 TATATTTAATTTTT
2084327 TATATTT
1 TATATTT
2084334 GTATAATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.02
13 4 0.10
14 23 0.55
15 7 0.17
16 6 0.14
17 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TATATTTAATTTTT
Found at i:2085895 original size:18 final size:16
Alignment explanation
Indices: 2085868--2085914 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
2085858 ATATTTGTAA
2085868 TTTT-ATATAATTTATT
1 TTTTAATATAATTTA-T
*
2085884 TTTGTAATATAA-ATAT
1 TTT-TAATATAATTTAT
2085900 TTTTAATATAATTTA
1 TTTTAATATAATTTA
2085915 GTAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 8 0.31
16 9 0.35
17 3 0.12
18 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTTAATATAATTTAT
Found at i:2086520 original size:29 final size:30
Alignment explanation
Indices: 2086429--2086511 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
2086419 TCTCTAACAG
*
2086429 TAACACAAATACAACAACAAATTGAGATAA
1 TAACACAAATGCAACAACAAATTGAGATAA
*
2086459 TAACACAAATGCAACATCAAATTGAGATAA
1 TAACACAAATGCAACAACAAATTGAGATAA
2086489 TAACAC-AATGCAACAACAAATTG
1 TAACACAAATGCAACAACAAATTG
2086512 GAAATATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.18
Consensus pattern (30 bp):
TAACACAAATGCAACAACAAATTGAGATAA
Found at i:2095927 original size:22 final size:22
Alignment explanation
Indices: 2095902--2095952 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2095892 CTACGGCGAC
*
2095902 ATCCGTCCCCATCTCCGATGAA
1 ATCCGTCCCCATCTCCGACGAA
*
2095924 ATCCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
2095946 ATCCGTC
1 ATCCGTC
2095953 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2096257 original size:20 final size:20
Alignment explanation
Indices: 2096219--2096257 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2096209 ACTAAAATCA
* * *
2096219 CGTTGCGATTTTTATTTTCG
1 CGTTGCGAATTTAAGTTTCG
2096239 CGTTGCGAATTTAAGTTTC
1 CGTTGCGAATTTAAGTTTC
2096258 AGAAACTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.49
Consensus pattern (20 bp):
CGTTGCGAATTTAAGTTTCG
Found at i:2097978 original size:21 final size:21
Alignment explanation
Indices: 2097954--2098003 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
2097944 GTTAGAGGAA
* *
2097954 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAAGTCGGTACT
*
2097975 TTACGTCATGAAGTCGGTACT
1 TTACGTGATGAAGTCGGTACT
2097996 TTACGTGA
1 TTACGTGA
2098004 AGATAATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAAGTCGGTACT
Found at i:2098450 original size:42 final size:42
Alignment explanation
Indices: 2098403--2098520 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
2098393 GATGCACCTA
* * *
2098403 TCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCCCCTC-
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCC-CG
* *
2098445 TCATCA-TCGAAGAAGCCCCTCCCACCGTTTAAGAGGCCCCCG
1 TCATCATTC-AAGAGGCCCCTCCCACCGTTCAAGAGGCCCCCG
* * * *
2098487 TCATCGTTCAAGAGGTCCCACCCGCCGTTCAAGA
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGA
2098521 ACCCGATTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.05
42 57 0.92
43 2 0.03
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.20
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCCG
Found at i:2099943 original size:14 final size:14
Alignment explanation
Indices: 2099924--2099977 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
2099914 TTTTGATTAA
2099924 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2099938 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
2099952 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
2099966 TTGATTTGTAAA
1 TTGATTTGTAAA
2099978 TAAGAATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2100023 original size:80 final size:74
Alignment explanation
Indices: 2099874--2100026 Score: 207
Period size: 80 Copynumber: 2.0 Consensus size: 74
2099864 TTTTACATTG
2099874 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTGTAAAAGT
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTGTAAAAGT
2099939 TGATTTGTA
66 TGATTTGTA
** * * *
2099948 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGTTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAG----ATTTATTT-TTTGATTAATTGATTTGT
2100013 AAAAGTTGATTTGT
60 AAAAGTTGATTTGT
2100027 TGTTTCTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
74 17 0.25
75 13 0.19
79 7 0.10
80 31 0.46
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (74 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTGTAAAAGT
TGATTTGTA
Found at i:2100362 original size:39 final size:39
Alignment explanation
Indices: 2100308--2100394 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
2100298 TCAAGTTGTA
*
2100308 GATTTTGATTTCCTTTTACTTGACACCATATGAGATTTT
1 GATTTTGATTTCCTTTTACTTGACACCATATGAGATTTG
* * *
2100347 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTACTTGACACCATATGAGATTTG
2100386 GATTTTGAT
1 GATTTTGAT
2100395 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTACTTGACACCATATGAGATTTG
Found at i:2100728 original size:18 final size:18
Alignment explanation
Indices: 2100705--2100741 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2100695 CAAAATTTAT
2100705 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2100723 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2100741 A
1 A
2100742 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2101143 original size:25 final size:25
Alignment explanation
Indices: 2101115--2101166 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
2101105 CATTATTTTT
* *
2101115 TTCAAATAATGTACCCATAACAATG
1 TTCAAATAATATACCCACAACAATG
2101140 TTCAAATAATATACCCACAACAATG
1 TTCAAATAATATACCCACAACAATG
2101165 TT
1 TT
2101167 TAATTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (25 bp):
TTCAAATAATATACCCACAACAATG
Found at i:2101277 original size:34 final size:34
Alignment explanation
Indices: 2101232--2101312 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
2101222 TGTTGAAGGT
2101232 AAATTCGCAACGCGAAATAAGCATTGCGATAGTC
1 AAATTCGCAACGCGAAATAAGCATTGCGATAGTC
*
2101266 AAATTCACAACGCGAAATAAGCATTGCGATAGTC
1 AAATTCGCAACGCGAAATAAGCATTGCGATAGTC
2101300 AAATTCGCAACGC
1 AAATTCGCAACGC
2101313 TAAAGTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (34 bp):
AAATTCGCAACGCGAAATAAGCATTGCGATAGTC
Found at i:2101325 original size:20 final size:20
Alignment explanation
Indices: 2101300--2101344 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2101290 TGCGATAGTC
*
2101300 AAATTCGCAACGCTAAAGTA
1 AAATTCGCAACGCGAAAGTA
* *
2101320 AAATTCGCATCGCGAAAGTC
1 AAATTCGCAACGCGAAAGTA
2101340 AAATT
1 AAATT
2101345 TGGTTTGCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAGTA
Found at i:2101382 original size:20 final size:20
Alignment explanation
Indices: 2101357--2101419 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
2101347 GTTTGCGATT
*
2101357 TCGCGTTGTGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
2101377 TCGCGTTGCGAA-TT-ATCTT
1 TCGCGTTGCGAATTTGA-CTA
*
2101396 TCGGGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
2101416 TCGC
1 TCGC
2101420 AACGCTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.03
19 15 0.43
20 18 0.51
21 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:2104042 original size:24 final size:24
Alignment explanation
Indices: 2104008--2104061 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2103998 CCATCACATC
2104008 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
2104032 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
2104056 ATCAAA
1 ATCAAA
2104062 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2105003 original size:20 final size:20
Alignment explanation
Indices: 2104978--2105117 Score: 58
Period size: 20 Copynumber: 7.0 Consensus size: 20
2104968 TTGCAAAATT
2104978 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
* * *
2104998 AAATTC-AGTTACAAATTTG
1 AAATTCGCGTTGCGAATTTG
* *
2105017 -ACTATCGCGTTGCAAATTTGG
1 AAAT-TCGCGTTGCGAATTT-G
**
2105038 AAAATT-GCAATGCG-ATTT-
1 -AAATTCGCGTTGCGAATTTG
* *
2105056 ACATATTCGCGTTGCCAAATTGG
1 A-A-ATTCGCGTTG-CGAATTTG
* * *
2105079 AAACT-GGGTTGCGAAATTG
1 AAATTCGCGTTGCGAATTTG
* *
2105098 GAATTCTCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
2105118 TTGGTCATTT
Statistics
Matches: 84, Mismatches: 24, Indels: 24
0.64 0.18 0.18
Matches are distributed among these distances:
17 1 0.01
18 3 0.04
19 23 0.27
20 40 0.48
21 9 0.11
22 5 0.06
23 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:2106985 original size:9 final size:9
Alignment explanation
Indices: 2106973--2107028 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
2106963 ATTCTTATCA
2106973 TCATCCTCC
1 TCATCCTCC
2106982 TCAT-CT--
1 TCATCCTCC
*
2106988 TCATCGTCC
1 TCATCCTCC
2106997 TCATCCTCC
1 TCATCCTCC
*
2107006 TCTTCCTCC
1 TCATCCTCC
* *
2107015 TCCTCCTCG
1 TCATCCTCC
2107024 TCATC
1 TCATC
2107029 ATCACTCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 4 0.11
7 1 0.03
8 2 0.05
9 31 0.82
ACGTcount: A:0.09, C:0.50, G:0.04, T:0.38
Consensus pattern (9 bp):
TCATCCTCC
Found at i:2107012 original size:15 final size:15
Alignment explanation
Indices: 2106979--2107031 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
2106969 ATCATCATCC
* *
2106979 TCCTCATCTTCATCG
1 TCCTCATCCTCCTCG
*
2106994 TCCTCATCCTCCTCT
1 TCCTCATCCTCCTCG
*
2107009 TCCTCCTCCTCCTCG
1 TCCTCATCCTCCTCG
*
2107024 TCATCATC
1 TCCTCATC
2107032 ACTCTCAACA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.09, C:0.49, G:0.04, T:0.38
Consensus pattern (15 bp):
TCCTCATCCTCCTCG
Found at i:2109566 original size:23 final size:23
Alignment explanation
Indices: 2109540--2109584 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2109530 CACCACAGCT
*
2109540 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
2109563 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2109585 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:2109822 original size:149 final size:149
Alignment explanation
Indices: 2109565--2109866 Score: 559
Period size: 149 Copynumber: 2.0 Consensus size: 149
2109555 AAGTGCCCCG
* *
2109565 TAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
2109630 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
2109695 TATGTCCCGAAGAACCGCA
131 TATGTCCCGAAGAACCGCA
2109714 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
*
2109779 TATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
* *
2109844 TATGTCTCGAAGAACCGCG
131 TATGTCCCGAAGAACCGCA
2109863 TAGA
1 TAGA
2109867 CCCTCGACTC
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATACA
TATGTCCCGAAGAACCGCA
Found at i:2110104 original size:19 final size:20
Alignment explanation
Indices: 2110063--2110104 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
2110053 AATTCACATG
**
2110063 TCACATACTCATCATATTGT
1 TCACATACTCATCATATACT
*
2110083 TCACATA-TGATCATATACT
1 TCACATACTCATCATATACT
2110102 TCA
1 TCA
2110105 TATAGCAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (20 bp):
TCACATACTCATCATATACT
Done.