Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1696
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: 29609
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Found at i:7884 original size:32 final size:33
Alignment explanation
Indices: 7822--7890 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
7812 TTCAACGATT
*
7822 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
7855 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
7887 TGTA
1 TGTA
7891 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 21 0.62
33 13 0.38
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:8030 original size:52 final size:52
Alignment explanation
Indices: 7906--8052 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 52
7896 CTGCCAAAAA
* ** * * *
7906 ATGTATCGATACATTACTCTAATGTATCGATACATGCAGGTAAATCTGCCCAT
1 ATGTATCGATACACTA-TGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
7959 ATG--T--ATACGCTATGAAATGTATCGATACATACAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
8007 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
8053 TCATATTTGG
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
48 33 0.41
49 6 0.08
50 1 0.01
51 1 0.01
52 36 0.45
53 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:16254 original size:31 final size:30
Alignment explanation
Indices: 16199--16318 Score: 107
Period size: 30 Copynumber: 3.9 Consensus size: 30
16189 CTTCAAATAC
* * *
16199 CTTCTTAAAGTCCATGACTTAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCAAT-T
*
16230 CTTCTCAAAGCCCACGACTCAGTGGC-ATT
1 CTTCTCAAAGTCCACGACTCAGTGGCAATT
* *
16259 TTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 CT-TCTCAAAGTCCACGACTCAGTGGCA--ATT
* * * *
16292 TTTTTCAAAGTCCACAACTCTGTGGCA
1 CTTCTCAAAGTCCACGACTCAGTGGCA
16319 CCCTTTTAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
29 2 0.03
30 25 0.33
31 22 0.29
32 22 0.29
33 4 0.05
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (30 bp):
CTTCTCAAAGTCCACGACTCAGTGGCAATT
Found at i:16305 original size:32 final size:32
Alignment explanation
Indices: 16200--16325 Score: 125
Period size: 32 Copynumber: 4.0 Consensus size: 32
16190 TTCAAATACC
* * * *
16200 TTCTTAAAGTCCATGACTTAGTGGCAAT-C-TC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTTT
*
16231 TTCTCAAAGCCCACGACTCAGTGGCAT--TTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCCTTT
*
16261 GTCTCAAAGTCCACGACTCAGTGGCATCCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCCTTT
* * * *
16293 TTTTCAAAGTCCACAACTCTGTGGCACCCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCCTTT
16325 T
1 T
16326 AAGTCCACAA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
30 28 0.35
31 21 0.26
32 31 0.39
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (32 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCCTTT
Found at i:16333 original size:27 final size:27
Alignment explanation
Indices: 16299--16500 Score: 172
Period size: 27 Copynumber: 7.0 Consensus size: 27
16289 CTTTTTTTCA
*
16299 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
16326 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
16353 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
*
16387 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
16414 AAGCCCACAACTCCATGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
*
16448 AAGTCCACAACT-CGTGGCTCCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
16474 AAGCCCATAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
16501 TCCTTCTAAG
Statistics
Matches: 142, Mismatches: 18, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
26 15 0.11
27 79 0.56
29 2 0.01
31 1 0.01
32 1 0.01
33 5 0.04
34 39 0.27
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:16405 original size:34 final size:34
Alignment explanation
Indices: 16347--16533 Score: 181
Period size: 34 Copynumber: 6.0 Consensus size: 34
16337 TCCGTGGCAC
*
16347 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
16381 CCTTCTAAGTCCACAACTCTGTGGCA--C-----
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
16408 CCTTTTAAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
*
16442 CCTTCTAAGTCCACAACT-CGTGG--CTC-----
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
16468 CCTTTTAAGCCCATAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
*
16502 CCTTCTAAGTCCACAACTCCGTGGCAC-CTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTT
16534 CTTTTCAAAG
Statistics
Matches: 122, Mismatches: 16, Indels: 31
0.72 0.09 0.18
Matches are distributed among these distances:
26 15 0.12
27 27 0.22
29 4 0.03
31 3 0.02
32 1 0.01
33 9 0.07
34 63 0.52
ACGTcount: A:0.19, C:0.36, G:0.12, T:0.33
Consensus pattern (34 bp):
CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:16471 original size:26 final size:27
Alignment explanation
Indices: 16442--16492 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
16432 CACTCTTTTT
*
16442 CCTTCTAAGTCCACAACT-CGTGGCTC
1 CCTTCTAAGCCCACAACTCCGTGGCTC
* *
16468 CCTTTTAAGCCCATAACTCCGTGGC
1 CCTTCTAAGCCCACAACTCCGTGGC
16493 ACTCTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.20, C:0.37, G:0.16, T:0.27
Consensus pattern (27 bp):
CCTTCTAAGCCCACAACTCCGTGGCTC
Found at i:16494 original size:60 final size:61
Alignment explanation
Indices: 16320--16533 Score: 369
Period size: 61 Copynumber: 3.5 Consensus size: 61
16310 TCTGTGGCAC
*
16320 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
16381 CCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
16442 CCTTCTAAGTCCACAACT-CGTGGCTCCCTTTTAAGCCCATAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
16502 CCTTCTAAGTCCACAACTCCGTGGCA-CCTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACCCTTTT
16534 CTTTTCAAAG
Statistics
Matches: 144, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
60 62 0.43
61 82 0.57
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.32
Consensus pattern (61 bp):
CCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:16577 original size:33 final size:32
Alignment explanation
Indices: 16535--16666 Score: 201
Period size: 33 Copynumber: 4.1 Consensus size: 32
16525 GCACCTTTTC
* *
16535 TTTTCAAAGCCCACACAAGTAGGTGGTAACCT
1 TTTTCAAAGCCCACACAAGTCGGTGGCAACCT
*
16567 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTC-AAAGCCCACACAAGTCGGTGGCAACCT
16600 TTTTCAAAGCCCACACAAGTCGGTGGCAACCT
1 TTTTCAAAGCCCACACAAGTCGGTGGCAACCT
* *
16632 TTTTCTAAAGCCCACACAAGTTGGTGGTAACCT
1 TTTTC-AAAGCCCACACAAGTCGGTGGCAACCT
16665 TT
1 TT
16667 CTAAGCCCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
32 36 0.39
33 56 0.61
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (32 bp):
TTTTCAAAGCCCACACAAGTCGGTGGCAACCT
Found at i:16603 original size:65 final size:64
Alignment explanation
Indices: 16534--16675 Score: 223
Period size: 65 Copynumber: 2.2 Consensus size: 64
16524 GGCACCTTTT
*
16534 CTTTTCAAAGCCCACACAAGTAGGTGGTAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCACACAAGTAGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA-C
* * *
16599 CTTTTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTTGGTGGTAAC
1 CTTTTCAAAGCCCACACAAGTAGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAAC
*
16663 C-TTTCTAAGCCCA
1 CTTTTCAAAGCCCA
16676 ATATCATTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 11 0.15
64 2 0.03
65 59 0.82
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (64 bp):
CTTTTCAAAGCCCACACAAGTAGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAAC
Found at i:16777 original size:43 final size:43
Alignment explanation
Indices: 16712--17860 Score: 939
Period size: 43 Copynumber: 25.0 Consensus size: 43
16702 TGGCACCATT
* *
16712 ATCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
16755 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * *
16798 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C
* * * *
16844 TTTATCTTTTAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGA
1 ---ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * * *
16890 ACCTTCAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C
* *
16936 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGC
1 ---ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* *
16982 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCTGCACATTGGA
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * * *
17025 ACCTTTAAGTCCAATATAGATGGCCTTGAATCAGCATATTGGCACC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C
* *
17071 TTTATCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGC
1 ---ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
*
17117 ATCTTTAAGTCCAATGTCGCTCGCCTTGAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * * * *
17160 ACCTTTAAGTCCAATATAGATGGCCTTGATTCAGCATATTGGCACC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C
* * *
17206 TTTATCTTTAAGACCAACGTCGCTGGCCTTGAATCAGCGCATTGGC
1 ---ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* ** * *
17252 ACCTTTAAGTCCAATACCGCTAGCCTTGAATCAGCATATTGGCACC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C
* * *
17298 TTTATCTTTAAGACCAATGTCACTGGCCTTGAATCGGCACATTGGC
1 ---ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * *
17344 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG------C
*
17393 ATCTTTAAGTCCAATGTGGCTGGCCTTGAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * *
17436 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG------C
*
17485 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * *
17528 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG------C
* *
17577 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACCTTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* ** * * * *
17620 ACCTCCAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCCTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG------C
* * *
17669 ATCTTTTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGAC
1 ATC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
* * * *
17713 ACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAATGGCACCTTTGTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC---A---CA---TTGGC
* *
17765 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-T--TG-----G-C
* *
17817 ATTTTTAAGTCCAATGTCGCTGGCCTTTAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
17860 A
1 A
17861 CCTTCATCTT
Statistics
Matches: 895, Mismatches: 139, Indels: 144
0.76 0.12 0.12
Matches are distributed among these distances:
43 475 0.53
44 6 0.01
46 11 0.01
49 300 0.34
50 30 0.03
51 1 0.00
52 72 0.08
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
Found at i:16851 original size:92 final size:92
Alignment explanation
Indices: 16714--17806 Score: 1439
Period size: 92 Copynumber: 12.0 Consensus size: 92
16704 GCACCATTAT
** *
16714 CTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGG---C---ATCTTTAAGTCCAATGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
16773 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
16800 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTTAGACCAATGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
* *
16865 GCTGGCCTTGAATCAGCACATTAGAAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
16892 CTTCAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
* *
16957 GCTGGCCTTGAATCAACACATTGGCAT
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * * * * *
16984 CTTTAAGTCCAATGTCGCTGGCCTTGAATCTGCACATTGG-A-----ACCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
* *
17043 GATGGCCTTGAATCAGCATATTGGCACC
66 GCTGGCCTTGAATCAGCACATTGGCA-C
* * *
17071 TTTATCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGG---C---ATCTTTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
*
17130 ATGTCGCTCGCCTTGAATCAGCACATTGGCAC
61 ATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
17162 CTTTAAGTCCAATATAGATGGCCTTGATTCAGCATATTGGCACCTTTATCTTTAAGACCAACGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
*
17227 GCTGGCCTTGAATCAGCGCATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
** * *
17254 CTTTAAGTCCAATACCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
* *
17319 ACTGGCCTTGAATCGGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
17346 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
17411 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
17438 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
17503 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
17530 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
*
17595 GCTGGCCTTGAATCAGCACCTTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
** * * * * * *
17622 CTCCAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCCTCATCTTTTAAGCCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCCAATGT
* *
17687 CGCTGGCCTTAAATCAGCACATTGACAC
65 CGCTGGCCTTGAATCAGCACATTGGCAC
* * *
17715 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAATGGCACCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAAT
* *
17780 ATCGCTGGCCTTGAATCAGCATATTGG
63 GTCGCTGGCCTTGAATCAGCACATTGG
17807 TGCCTTTGTC
Statistics
Matches: 897, Mismatches: 87, Indels: 37
0.88 0.09 0.04
Matches are distributed among these distances:
86 111 0.12
89 2 0.00
91 2 0.00
92 667 0.74
93 77 0.09
94 1 0.00
95 34 0.04
96 3 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:16916 original size:135 final size:137
Alignment explanation
Indices: 16683--17864 Score: 1166
Period size: 135 Copynumber: 8.6 Consensus size: 137
16673 CCAATATCAT
* * *
16683 TGGCCTTGAATCAGCATATTGGCACCATTATCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * *
16748 CATTGGCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCA
66 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCA
16811 ATATAGC
131 ATATAGC
* *
16818 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTTAGACCAATGTCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * * * * *
16883 CATTAGAACCTTCAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG
66 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC----TCTTTAAG
*
16948 TCCAATGTAGC
127 TCCAATATAGC
* * *
16959 TGGCCTTGAATCAACACATTGG---C---ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCTGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * *
17018 CATTGGAACCTTTAAGTCCAATATAGATGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG
66 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC----TCTTTAAG
* *
17083 ACCAATGTAGC
127 TCCAATATAGC
* *
17094 TGGCCTTGAATCAGCACATTGG---C---ATCTTTAAGTCCAATGTCGCTCGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * *
17153 CATTGGCACCTTTAAGTCCAATATAGATGGCCTTGATTCAGCATATTGGCACCTTTATCTTTAAG
66 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC----TCTTTAAG
* ** *
17218 ACCAACGTCGC
127 TCCAATATAGC
** ** *
17229 TGGCCTTGAATCAGCGCATTGGCA-C-----CTTTAAGTCCAATACCGCTAGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * * *
17288 TATTGGCACCTTTATCTTTAAGACCAATGTCA-CTGGCCTTGAATCGGCACATTGGCA-C-CTTT
66 CATTGGCA-C-----CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTCTTT
17350 AAGTCCAATATAGC
124 AAGTCCAATATAGC
* *
17364 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTGGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
*
17429 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
66 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAG
*
17494 TCCAATGTAGC
127 TCCAATATAGC
* * *
17505 TGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * * *
17564 TATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACCTTGGCACCTC--CA
66 CATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTA
*
17627 AGTCCAATATCGC
125 AGTCCAATATAGC
* * * * * *
17640 TAGCCTTGAATCAACATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTAAATCAGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
* * * * *
17705 ACATTGACACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAATGGCACCTTTGTCATCTT
65 ACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----C-TCTT
*
17770 TAAGTCCAATATCGC
123 TAAGTCCAATATAGC
** * *
17785 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCATTTTTAAGTCCAATGTCGCTGGCCTTTAATCA
1 TGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCA
17850 GCACATTGGCACCTT
63 GCACATTGGCACCTT
17865 CATCTTTAAC
Statistics
Matches: 900, Mismatches: 94, Indels: 94
0.83 0.09 0.09
Matches are distributed among these distances:
134 1 0.00
135 538 0.60
136 40 0.04
137 4 0.00
138 3 0.00
139 2 0.00
140 4 0.00
141 188 0.21
142 37 0.04
143 2 0.00
145 36 0.04
146 1 0.00
147 42 0.05
148 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (137 bp):
TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCA
ATATAGC
Found at i:17793 original size:52 final size:52
Alignment explanation
Indices: 17715--17864 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
17705 ACATTGACAC
* *
17715 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAATGGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
**
17767 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * *
17819 TTTTAAGTCCAATGTCGCTGGCCTTTAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
17865 CATCTTTAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:18762 original size:13 final size:13
Alignment explanation
Indices: 18744--18768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18734 ATAAAGTGTT
18744 TGTATCGATACAA
1 TGTATCGATACAA
18757 TGTATCGATACA
1 TGTATCGATACA
18769 TAAGTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18784 original size:33 final size:34
Alignment explanation
Indices: 18723--18793 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 34
18713 TTCAACGATT
18723 TGTATCGATACATAAAGTGTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTTGTATCGATACAA
*
18757 TGTATCGATACAT-AAGTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTTGTATCGATACAA
18790 TGTA
1 TGTA
18794 AGCTACTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (34 bp):
TGTATCGATACATAAAGTGTTTGTATCGATACAA
Found at i:18849 original size:13 final size:13
Alignment explanation
Indices: 18831--18855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18821 ATTACTCTAA
18831 TGTATCGATACAT
1 TGTATCGATACAT
18844 TGTATCGATACA
1 TGTATCGATACA
18856 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18853 original size:34 final size:33
Alignment explanation
Indices: 18810--18876 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
18800 TGCGAAAAAA
*
18810 TGTATCGATACA-TTACTCTAATGTATCGATACAT
1 TGTATCGATACACTGA-TCT-ATGTATCGATACAT
*
18844 TGTATCGATACACTGATCTTTGTATCGATACAT
1 TGTATCGATACACTGATCTATGTATCGATACAT
18877 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 13 0.43
34 15 0.50
35 2 0.07
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTATCGATACACTGATCTATGTATCGATACAT
Found at i:18920 original size:52 final size:52
Alignment explanation
Indices: 18864--18989 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
18854 CACTGATCTT
18864 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATGAAA
* * *
18916 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATGAAA
*
18968 TGTATCGATACATGCCGGCAAA
1 TGTATCGATACATGCAGGCAAA
18990 CTTTCATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATGAAA
Found at i:22099 original size:13 final size:13
Alignment explanation
Indices: 22081--22105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22071 ACGACATTCA
22081 TGTATCGATACAT
1 TGTATCGATACAT
22094 TGTATCGATACA
1 TGTATCGATACA
22106 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:22195 original size:13 final size:13
Alignment explanation
Indices: 22177--22201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22167 CAATGATCAT
22177 GTATCGATACAAG
1 GTATCGATACAAG
22190 GTATCGATACAA
1 GTATCGATACAA
22202 AGCATAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAG
Found at i:22219 original size:33 final size:32
Alignment explanation
Indices: 22158--22220 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
22148 CCAGTTTCAT
* *
22158 GTATCGATACAATGATCATGTATCGATACAAG
1 GTATCGATACAAAGATAATGTATCGATACAAG
*
22190 GTATCGATACAAAGCATAATGTATTGATACA
1 GTATCGATACAAAG-ATAATGTATCGATACA
22221 TCTAGATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (32 bp):
GTATCGATACAAAGATAATGTATCGATACAAG
Found at i:23517 original size:149 final size:148
Alignment explanation
Indices: 23061--23567 Score: 510
Period size: 149 Copynumber: 3.4 Consensus size: 148
23051 ACTTACTCAG
* * * * *
23061 ATATCACTAAGACCTACCATCGACGTAGAAGTGCCCGAAGATCCT-AGTGGACTT-AAAAAGACA
1 ATATCCCTAAGGCTTACCATCGACTTAGAAGTGCCCGATGATCCTAAG-GGACTTGAAAAAG-CA
* * * *
23124 AAAACAAACCTACTCCTAATTCT-TACCTTCGACATAGAAGCAGACCTAGTAATTTTATAGAACT
64 AAAA-TAACCTACTCCTAATT-TATACCTTCGACATAGAAACAGACCTAGTAATTTTATAGGATT
23188 AGGTTTTGGGAGAAA-TGCTAAA
127 AGGTTTTGGGA-AAAGTGCTAAA
** * ** * * *
23210 AGGTCCCTAAGGCCTACCATCGACTTAGAAGTGCTTGGTGATCCTAAGGGACTTGAAAGA-TAAA
1 ATATCCCTAAGGCTTACCATCGACTTAGAAGTGCCCGATGATCCTAAGGGACTTGAAAAAGCAAA
* * * *
23274 AATAAGCCTACCCCTAATTTATACTTTCGACATAGAAAC-GAACCTAGTAATTTCATAGGGTTAG
66 AATAA-CCTACTCCTAATTTATACCTTCGACATAGAAACAG-ACCTAGTAATTTTATAGGATTAG
*
23338 GTTTCGGGAAAAAG-GCTAAA
129 GTTTTGGG-AAAAGTGCTAAA
* * *
23358 ATATCCCTAAGGTTTACCATCGACTTAGAAGTGCCTGATGATCTTAAGGGACTTGAAAAAGCAAA
1 ATATCCCTAAGGCTTACCATCGACTTAGAAGTGCCCGATGATCCTAAGGGACTTGAAAAAGCAAA
* ** * *
23423 AATGAACCTATTCCTAATTTATACCTTC-AGTGTAGAAACAGATCC-GGTAGTTTTATAGGATTA
66 AAT-AACCTACTCCTAATTTATACCTTCGA-CATAGAAACAGA-CCTAGTAATTTTATAGGATTA
* *
23486 GCTTTTAGGAAAAGTGCTAAA
128 GGTTTTGGGAAAAGTGCTAAA
* * * ***
23507 ATATCCCTAAGGCTTGCCATCGACTTAGGAGTACCCGATGATCCTAAAAAACTTGAAAAAG
1 ATATCCCTAAGGCTTACCATCGACTTAGAAGTGCCCGATGATCCTAAGGGACTTGAAAAAG
23568 ATTGCAAAGA
Statistics
Matches: 295, Mismatches: 50, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
147 4 0.01
148 126 0.43
149 154 0.52
150 11 0.04
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (148 bp):
ATATCCCTAAGGCTTACCATCGACTTAGAAGTGCCCGATGATCCTAAGGGACTTGAAAAAGCAAA
AATAACCTACTCCTAATTTATACCTTCGACATAGAAACAGACCTAGTAATTTTATAGGATTAGGT
TTTGGGAAAAGTGCTAAA
Found at i:25889 original size:165 final size:163
Alignment explanation
Indices: 25637--26181 Score: 408
Period size: 165 Copynumber: 3.3 Consensus size: 163
25627 ATAAATACAA
** * * * * * **
25637 AAAAAATTCAAAATTCATAAAATAAATTGAATTTTTCGAAATTGATTTAATAGGAATTCAATGGC
1 AAAAAATGAAAAAATCATAAAATAAA-TGGATTTTTCAAAATTGATTTAATATG-ATTAAATGAT
** * * * ** *
25702 AATATTAAATGAATTCTAAAAATTCTAAATCGAGAAAAATTCTCCCAAAAATATTTATAAAATAG
64 AATATTTGATAAATT-TAAAAATTCTAAACCAAGAAAAACCCTCCCAAAAACATTTATAAAATAG
* *
25767 AAAACTCGATTTCTTGAAAATGGGAGATTTTC-AAG
128 AAAACTCAATTTCTTGAAAATAGGAGATTTTCAAAG
* * *
25802 AAAAAAATGAACAACTCATAAAATAAATGGATTTTTCAAAATTGATTTACTATGATTTAAATGAT
1 -AAAAAATGAAAAAATCATAAAATAAATGGATTTTTCAAAATTGATTTAATATGA-TTAAATGAT
* * * *** **
25867 GATATTTGATAAATATTAAAAATTTTGAACCAAGAAAAACCCTCCTGTAAACATTTATGGAATAG
64 AATATTTGATAAAT-TTAAAAATTCTAAACCAAGAAAAACCCTCCCAAAAACATTTATAAAATAG
* * *
25932 AAAACTTAATTTTTTGGAAATAGGAGATTTTCAAAG
128 AAAACTCAATTTCTTGAAAATAGGAGATTTTCAAAG
* * * * * *
25968 AAAAAATGAAAAAATCATAAAAATAAATGGGTTTTTCAAAACTGATTAAATGGTGATTAGATAAT
1 AAAAAATGAAAAAATCAT-AAAATAAATGGATTTTTCAAAATTGATTTAAT-ATGATTAAATGAT
* * * * * * *
26033 AATATTTGATAAATTTTAAAAATTTTAATCTGATG-AAAATCCTCTCGAAAAA-ATTTAT--AGT
64 AATATTTGATAAA-TTTAAAAATTCTAAAC-CAAGAAAAACCCTC-CCAAAAACATTTATAAAAT
* *
26094 AGAAAACTTCATATTTC--GAAAATAAGAAGAATTTCAAA-
126 AGAAAAC-TCA-ATTTCTTGAAAAT-AGGAGATTTTCAAAG
* * * *
26132 AGAAAAT-AAAAAACTCATAGAAA-AAATGAATTTTTCAAAACTAATTTAAT
1 AAAAAATGAAAAAA-TCATA-AAATAAATGGATTTTTCAAAATTGATTTAAT
26182 GATAACTAAA
Statistics
Matches: 305, Mismatches: 61, Indels: 29
0.77 0.15 0.07
Matches are distributed among these distances:
163 30 0.10
164 28 0.09
165 133 0.44
166 104 0.34
167 10 0.03
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (163 bp):
AAAAAATGAAAAAATCATAAAATAAATGGATTTTTCAAAATTGATTTAATATGATTAAATGATAA
TATTTGATAAATTTAAAAATTCTAAACCAAGAAAAACCCTCCCAAAAACATTTATAAAATAGAAA
ACTCAATTTCTTGAAAATAGGAGATTTTCAAAG
Found at i:26136 original size:166 final size:167
Alignment explanation
Indices: 25795--26202 Score: 394
Period size: 166 Copynumber: 2.5 Consensus size: 167
25785 AATGGGAGAT
* * * * *
25795 TTTCAAGA-AAAAAATGAACAACTCAT-AAAATAAATGGATTTTTCAAAATTGATTTACT-ATGA
1 TTTCAAAAGAAAAAATGAAAAAATCATAAAAATAAATGGATTTTTCAAAACTGATTTAATGATGA
* * * *
25857 TTTAAATGATGATATTTGATAAATATTAAAAATTTTGAACCAAGAAAAACCCTCCTGTAAACATT
66 TTTAAATAATAATATTTGATAAATATTAAAAATTTTGAACCAAGAAAAACCCTCCTGAAAAAATT
* * * * *
25922 TATGGAATAGAAAACTTAATTTTTTGGAAATAGGAGAT
131 TAT-GAATAGAAAACTTAATATTTCGAAAATAGAAGAA
* * *
25960 TTTC-AAAGAAAAAATGAAAAAATCATAAAAATAAATGGGTTTTTCAAAACTGATTAAATGGTGA
1 TTTCAAAAGAAAAAATGAAAAAATCATAAAAATAAATGGATTTTTCAAAACTGATTTAATGATGA
* * * * *
26024 -TTAGATAATAATATTTGATAAATTTTAAAAATTTT-AATC-TGATGAAAATCCT-CTCGAAAAA
66 TTTAAATAATAATATTTGATAAATATTAAAAATTTTGAACCAAGA--AAAACCCTCCT-GAAAAA
* *
26085 ATTTAT-AGTAGAAAACTTCATATTTCGAAAATAAGAAGAA
128 ATTTATGAATAGAAAACTTAATATTTCGAAAAT-AGAAGAA
* * *
26125 TTTCAAAAG--AAAAT-AAAAAACTCATAGAAA-AAATGAATTTTTCAAAACTAATTTAATGAT-
1 TTTCAAAAGAAAAAATGAAAAAA-TCATAAAAATAAATGGATTTTTCAAAACTGATTTAATGATG
** *
26185 AACTAAATAATAGTATTT
65 ATTTAAATAATAATATTT
26203 AAAGAATTTT
Statistics
Matches: 200, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
162 1 0.00
163 44 0.22
164 38 0.19
165 34 0.17
166 80 0.40
167 3 0.01
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.33
Consensus pattern (167 bp):
TTTCAAAAGAAAAAATGAAAAAATCATAAAAATAAATGGATTTTTCAAAACTGATTTAATGATGA
TTTAAATAATAATATTTGATAAATATTAAAAATTTTGAACCAAGAAAAACCCTCCTGAAAAAATT
TATGAATAGAAAACTTAATATTTCGAAAATAGAAGAA
Found at i:29429 original size:24 final size:24
Alignment explanation
Indices: 29401--29466 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
29391 AAATTCTTTC
*
29401 ATAATTTACTAATAAAAAAAAATT
1 ATAATTTAATAATAAAAAAAAATT
* * *
29425 ATAATATTAAT-ATATAAATAATTT
1 ATAAT-TTAATAATAAAAAAAAATT
* *
29449 AAAATTTATTAATAAAAA
1 ATAATTTAATAATAAAAA
29467 TTATTTGATA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 4 0.12
24 25 0.76
25 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATTTAATAATAAAAAAAAATT
Done.