Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 144 of 310
Found at i:46907077 original size:29 final size:30
Alignment explanation
Indices: 46907038--46907116 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
46907028 CTTAATAATC
46907038 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
46907068 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46907097 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46907117 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46914179 original size:29 final size:30
Alignment explanation
Indices: 46914140--46914218 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
46914130 CTTAATAATC
46914140 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
46914170 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46914199 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46914219 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46927235 original size:43 final size:43
Alignment explanation
Indices: 46927182--46927264 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
46927172 GATCTATGTG
46927182 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
*
46927225 GCATCCGAGCTTGTTGAGAGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
46927265 TATACATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:46938653 original size:47 final size:49
Alignment explanation
Indices: 46938582--46938995 Score: 251
Period size: 48 Copynumber: 8.7 Consensus size: 49
46938572 AAGGTATACT
*
46938582 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCATC-CATCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * *
46938629 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGATATCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAAG
* *
46938678 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCA--AG
* ** * * * * * * *
46938727 TGCCGATGCCATCTCTTAAAGATGGTCTTACACTGACACCTC-TAT-ACG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * * * *
46938775 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGACACATCTCGT--A-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * *
46938822 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATC-TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-CATCAAG
* ** * * *
46938868 GCCGATG-CATGTCTCAGACAT-GTCTTGTACTAGCTC-TCGTC-TCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAAG
* ** * * * **
46938914 GCAGATGCTGTGTCTCAGACATGGTCTTACACTGGCTC-CCATAGT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACA-TCAAG
*
46938962 GCCGATG-CGTGTCCCAGACAT-GTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
46938996 ACACAAATAA
Statistics
Matches: 291, Mismatches: 57, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.01
44 14 0.05
45 14 0.05
46 63 0.22
47 59 0.20
48 65 0.22
49 39 0.13
50 33 0.11
51 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
Found at i:46938865 original size:46 final size:47
Alignment explanation
Indices: 46938582--46938995 Score: 189
Period size: 46 Copynumber: 8.7 Consensus size: 47
46938572 AAGGTATACT
* * * *
46938582 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGC-T-CATC-CATCAA
1 GCCGATG-CATGTCTCAGACAT-GTCTTACACTGGCTTACATCTCGT-AG
* * * * *
46938629 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCGATATC-AAG
1 GCCGATG-CATGTCTCAGACAT-GTCTTACACTGGCTTA-C-ATCTCGTAG
* * *
46938678 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-T-G
1 GCCGATG-CATGTCTCAGACAT-GTCTTACACTGGCT-T-ACATCTCGTAG
* * * * * * *
46938727 TGCCGATGCCATCTCTTAAAGATGGTCTTACACTGAC--ACCTCT-ATACG
1 -GCCGATG-CATGTCTCAGACAT-GTCTTACACTGGCTTACATCTCGTA-G
*
46938775 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 -GCCGATG-CATGTCTCAGACAT-GTCTTACACTGGCTTACATCTCGTAG
* *
46938822 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AG
1 GCCGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGTAG
** * * * *
46938868 GCCGATGCATGTCTCAGACATGTCTTGTACTAGCTCT-CGTCTC-AAT
1 GCCGATGCATGTCTCAGACATGTCTTACACTGGCT-TACATCTCGTAG
* * ** *
46938914 GCAGATGCTGTGTCTCAGACATGGTCTTACACTGGCTCCCATAGT-GT-G
1 GCCGATGC-ATGTCTCAGACAT-GTCTTACACTGGCTTACAT-CTCGTAG
* *
46938962 GCCGATGCGTGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCTCAGACATGTCTTACACTGGC
46938996 ACACAAATAA
Statistics
Matches: 298, Mismatches: 47, Indels: 45
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.04
45 14 0.05
46 75 0.25
47 59 0.20
48 59 0.20
49 39 0.13
50 36 0.12
51 3 0.01
52 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGTAG
Found at i:46944814 original size:49 final size:49
Alignment explanation
Indices: 46944757--46944924 Score: 189
Period size: 49 Copynumber: 3.4 Consensus size: 49
46944747 TATTGTGTGT
*
46944757 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
46944806 CAGTGTAAGACCTGCCTGGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* * * * **
46944855 CAATGTAAGACCTGTCTGGGACACGGCATCGACTTCAAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
*
46944902 CAGTGTAAGACCATGTCTAGGAC
1 CAGTGTAAGACC-TGTCTGGGAC
46944925 CATGTTAGCA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 15 0.15
48 10 0.10
49 75 0.75
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:46949714 original size:130 final size:130
Alignment explanation
Indices: 46949481--46949743 Score: 517
Period size: 130 Copynumber: 2.0 Consensus size: 130
46949471 TGTCTTAAAG
46949481 TTTAAACAATCAATGCATAAATGTCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATC
1 TTTAAACAATCAATGCATAAATGTCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATC
46949546 AATCAAATTTTATCCTAAATATGATATGAGAGCTTTTCAAGAGAACAAGGCAGTCATTCAGGGAT
66 AATCAAATTTTATCCTAAATATGATATGAGAGCTTTTCAAGAGAACAAGGCAGTCATTCAGGGAT
46949611 TTTAAACAATCAATGCATAAATGTCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATC
1 TTTAAACAATCAATGCATAAATGTCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATC
*
46949676 TATCAAATTTTATCCTAAATATGATATGAGAGCTTTTCAAGAGAACAAGGCAGTCATTCAGGGAT
66 AATCAAATTTTATCCTAAATATGATATGAGAGCTTTTCAAGAGAACAAGGCAGTCATTCAGGGAT
46949741 TTT
1 TTT
46949744 TCTGATAATG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (130 bp):
TTTAAACAATCAATGCATAAATGTCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATC
AATCAAATTTTATCCTAAATATGATATGAGAGCTTTTCAAGAGAACAAGGCAGTCATTCAGGGAT
Found at i:46955565 original size:68 final size:64
Alignment explanation
Indices: 46955493--46955700 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
46955483 CATCATGTGT
*
46955493 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
46955558 TAG
62 TAG
* * * * * *
46955561 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATG
46955625 TAG
62 TAG
* * * * * *
46955628 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
46955690 TACAAGAGAGC
1 -ACAAGAGAGC
46955701 CGAACTCTAT
Statistics
Matches: 116, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 23 0.20
65 7 0.06
66 21 0.18
67 32 0.28
68 13 0.11
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:46964894 original size:19 final size:20
Alignment explanation
Indices: 46964854--46964894 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
46964844 TTGCACAAGT
*
46964854 TGTGAAATAGGTAATAAATG
1 TGTGAAATAGGTAAGAAATG
*
46964874 TGTGAAATA-GTAAGAATTG
1 TGTGAAATAGGTAAGAAATG
46964893 TG
1 TG
46964895 GCCTACTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (20 bp):
TGTGAAATAGGTAAGAAATG
Found at i:46965503 original size:48 final size:49
Alignment explanation
Indices: 46965396--46965523 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 49
46965386 CTTGTTGTGT
*
46965396 GTCAGTGCAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAA
* * * * * *
46965445 GCCAGCGTAAGACCTGTCTAGGACAT-GCATCGTC-CTTGATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAAA
* * *
46965493 TTCAGTGTAAGACCTATCTGGGACACGGCAT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCAT
46965524 TGACTTCAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 1 0.02
48 37 0.58
49 26 0.41
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAA
Found at i:46968707 original size:18 final size:18
Alignment explanation
Indices: 46968684--46968720 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46968674 TCTTGGTCCC
46968684 AAAACCATTATTCCGACT
1 AAAACCATTATTCCGACT
46968702 AAAACCATTATTCCGACT
1 AAAACCATTATTCCGACT
46968720 A
1 A
46968721 GGCCCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAACCATTATTCCGACT
Found at i:46973859 original size:45 final size:45
Alignment explanation
Indices: 46973808--46973899 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
46973798 GAAGAAGCCA
46973808 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
1 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
*
46973853 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTTGGCTATGTCCC
1 TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
46973898 TA
1 TA
46973900 GTGAATGGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTTTGTGTGCTTAAATTTCTTAGTGAACATTCGGCTATGTCCC
Found at i:46974654 original size:39 final size:39
Alignment explanation
Indices: 46974576--46974695 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 39
46974566 TGTGAATATA
* * **
46974576 TATATGCGAGAATTATATCCAGACTACAGGTCCATAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
46974615 TATAAGCGAGAATTATATCCGGACTTCAAGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46974654 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
46974693 TAT
1 TAT
46974696 GTGCTGGACA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:46976942 original size:6 final size:6
Alignment explanation
Indices: 46976931--46977883 Score: 1870
Period size: 6 Copynumber: 158.8 Consensus size: 6
46976921 ACATGTGATA
46976931 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46976979 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977027 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977075 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977123 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977171 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977219 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977267 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977315 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977363 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977411 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977459 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977507 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977555 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977603 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977651 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977699 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
46977747 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
*
46977795 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTA TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
* * *
46977843 TATGTG TATGTG TATGTG AATGTT TATGTG TACGTG TATGT
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGT
46977884 TAAAATCCAT
Statistics
Matches: 939, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 939 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:46982162 original size:40 final size:40
Alignment explanation
Indices: 46982118--46982201 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
46982108 ATTCTAAGCC
*
46982118 TAAAAACTTAAAATATCCTAAGAAATAAAATAAAGTAAAG
1 TAAAAACTTAAAATATCCTAAGAAATAAAATAAAATAAAG
*
46982158 TAAAAACTTAAAATATCCTAGGAAATAAAATAAAATAAAG
1 TAAAAACTTAAAATATCCTAAGAAATAAAATAAAATAAAG
46982198 TAAA
1 TAAA
46982202 GAAAATATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (40 bp):
TAAAAACTTAAAATATCCTAAGAAATAAAATAAAATAAAG
Found at i:46987510 original size:44 final size:43
Alignment explanation
Indices: 46987449--46987537 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 43
46987439 TAATAAGTAA
* *
46987449 GTAAATGGCTGGCGACACGGTCGTGTGATCCTATTTTTGAATT
1 GTAAAAGGCTGGCGACACAGTCGTGTGATCCTATTTTTGAATT
* * ** *
46987492 GTAAAAGGCCTGGTGACACAGTCGTTTGATTTTATTTTTGCATT
1 GTAAAAGG-CTGGCGACACAGTCGTGTGATCCTATTTTTGAATT
46987536 GT
1 GT
46987538 GCATGTTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 7 0.18
44 31 0.82
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (43 bp):
GTAAAAGGCTGGCGACACAGTCGTGTGATCCTATTTTTGAATT
Found at i:46988405 original size:15 final size:16
Alignment explanation
Indices: 46988376--46988405 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46988366 CAAGCATACT
46988376 TTAACACATTATCAAA
1 TTAACACATTATCAAA
46988392 TTAACACA-TATCAA
1 TTAACACATTATCAA
46988406 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:46989131 original size:20 final size:21
Alignment explanation
Indices: 46989106--46989145 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46989096 GTATGAAACA
46989106 TGAAAT-CTTGGATTTTCAAT
1 TGAAATGCTTGGATTTTCAAT
* *
46989126 TGAAATGTTTGGTTTTTCAA
1 TGAAATGCTTGGATTTTCAA
46989146 CATGTTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (21 bp):
TGAAATGCTTGGATTTTCAAT
Found at i:46989985 original size:12 final size:12
Alignment explanation
Indices: 46989968--46989996 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46989958 TTGGGACGGC
46989968 AGCTTATTGTTT
1 AGCTTATTGTTT
46989980 AGCTTATTGTTT
1 AGCTTATTGTTT
46989992 AGCTT
1 AGCTT
46989997 TACCGTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.55
Consensus pattern (12 bp):
AGCTTATTGTTT
Found at i:47000066 original size:15 final size:15
Alignment explanation
Indices: 47000048--47000097 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
47000038 TGTGTTTTTC
47000048 TATATGTTATGAATA
1 TATATGTTATGAATA
* *
47000063 TATAT-TTTTTAATA
1 TATATGTTATGAATA
*
47000077 TTATATGTTACGAATA
1 -TATATGTTATGAATA
47000093 TATAT
1 TATAT
47000098 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 7 0.25
15 15 0.54
16 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (15 bp):
TATATGTTATGAATA
Found at i:47013219 original size:25 final size:26
Alignment explanation
Indices: 47013190--47013241 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
47013180 CCCACTAAAG
47013190 ACCCAAACACCCCAAA-ACAACCCAA
1 ACCCAAACACCCCAAATACAACCCAA
** *
47013215 ACCCACGCAGCCCAAATACAACCCAA
1 ACCCAAACACCCCAAATACAACCCAA
47013241 A
1 A
47013242 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.48, C:0.46, G:0.04, T:0.02
Consensus pattern (26 bp):
ACCCAAACACCCCAAATACAACCCAA
Found at i:47014462 original size:19 final size:19
Alignment explanation
Indices: 47014438--47014499 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
47014428 TATGTTAATA
47014438 TTATATGATGTCTATATTT
1 TTATATGATGTCTATATTT
* *
47014457 TTATAT-ATGTACGT-TAATA
1 TTATATGATGT-C-TATATTT
47014476 TTATATGATGTCTATATTT
1 TTATATGATGTCTATATTT
47014495 TTATA
1 TTATA
47014500 CATATGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.14
19 25 0.71
20 5 0.14
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (19 bp):
TTATATGATGTCTATATTT
Found at i:47014474 original size:38 final size:38
Alignment explanation
Indices: 47014423--47014499 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
47014413 TTATTAATGC
*
47014423 ATATGTATGTTAATATTATATGATGTCTATATTTTTAT
1 ATATGTACGTTAATATTATATGATGTCTATATTTTTAT
47014461 ATATGTACGTTAATATTATATGATGTCTATATTTTTAT
1 ATATGTACGTTAATATTATATGATGTCTATATTTTTAT
47014499 A
1 A
47014500 CATATGTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.53
Consensus pattern (38 bp):
ATATGTACGTTAATATTATATGATGTCTATATTTTTAT
Found at i:47014515 original size:38 final size:36
Alignment explanation
Indices: 47014428--47014516 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 36
47014418 AATGCATATG
47014428 TATGT-TA-ATATTATATGATGTCTATATTTTTATA
1 TATGTATATATATTATATGATGTCTATATTTTTATA
47014462 TATGTACGT-TAATATTATATGATGTCTATATTTTTATACA
1 TATGTA--TAT-ATATTATATGATGTCTATATTTTTAT--A
47014502 TATGTATATATATTA
1 TATGTATATATATTA
47014517 CGTATATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
34 5 0.11
37 1 0.02
38 33 0.70
39 1 0.02
40 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (36 bp):
TATGTATATATATTATATGATGTCTATATTTTTATA
Found at i:47022000 original size:22 final size:21
Alignment explanation
Indices: 47021975--47022036 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
47021965 TGTATTATAC
*
47021975 ATTTTAATAATTAATATAAATT
1 ATTTTAAAAATTAATATAAA-T
*
47021997 ATTTGAAAAATTAATA-AAAT
1 ATTTTAAAAATTAATATAAAT
*
47022017 ATATTAAAAATTAAATATAA
1 ATTTTAAAAATT-AATATAA
47022037 TAATAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.32
21 7 0.21
22 16 0.47
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTTAAAAATTAATATAAAT
Found at i:47022025 original size:20 final size:21
Alignment explanation
Indices: 47021977--47022036 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
47021967 TATTATACAT
*
47021977 TTTAATAATTAATATAAATTA
1 TTTAAAAATTAATATAAATTA
47021998 TTTGAAAAATTAATA-AAA-TA
1 TTT-AAAAATTAATATAAATTA
47022018 TATTAAAAATTAAATATAA
1 T-TTAAAAATT-AATATAA
47022037 TAATAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 10 0.29
21 12 0.35
22 12 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTAAAAATTAATATAAATTA
Found at i:47022034 original size:16 final size:16
Alignment explanation
Indices: 47022013--47022066 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
47022003 AAAATTAATA
47022013 AAATATATTAAAAATT
1 AAATATATTAAAAATT
*
47022029 AAATATAATAATAAA-T
1 AAATATATTAA-AAATT
47022045 -AATAT-TTAAATAATT
1 AAATATATTAAA-AATT
*
47022060 TAATATA
1 AAATATA
47022067 ATCATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
16 16 0.52
17 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATATTAAAAATT
Found at i:47022065 original size:31 final size:31
Alignment explanation
Indices: 47022014--47022086 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
47022004 AAATTAATAA
47022014 AATATATTAAA-AATTAAATATAATAATAAAT
1 AATAT-TTAAATAATTAAATATAATAATAAAT
* * *
47022045 AATATTTAAATAATTTAATATAATCATACAT
1 AATATTTAAATAATTAAATATAATAATAAAT
* *
47022076 AAAATATAAAT
1 AATATTTAAAT
47022087 TAATACAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATTTAAATAATTAAATATAATAATAAAT
Found at i:47022610 original size:30 final size:30
Alignment explanation
Indices: 47022575--47022634 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
47022565 TATTTTATTA
47022575 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
* *
47022605 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
47022635 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:47023854 original size:35 final size:35
Alignment explanation
Indices: 47023815--47023916 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
47023805 TTTTGGTCGC
47023815 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
1 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
** *
47023850 TTTGGG-TTT-G-G-G--TCCGTTCAAG-TTCTA-
1 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
* *
47023877 GTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTTAAT
1 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
47023912 TTTGG
1 TTTGG
47023917 ATTTGGGTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 9 0.18
30 1 0.02
31 2 0.04
32 1 0.02
33 9 0.18
34 6 0.12
35 10 0.20
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (35 bp):
TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
Found at i:47023890 original size:62 final size:62
Alignment explanation
Indices: 47023816--47023942 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
47023806 TTTGGTCGCT
* * *
47023816 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGGTTTGGGTCCGTTCAAGTTCTAG
1 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
* *
47023878 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTTAATTTTGGATTTGGGTCTATTCAAGTTCCAG
1 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
47023940 TTG
1 TTG
47023943 AAAAATTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (62 bp):
TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
Found at i:47025648 original size:12 final size:12
Alignment explanation
Indices: 47025631--47025655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47025621 GCTACCTCCT
47025631 GAAGATGCTGGA
1 GAAGATGCTGGA
47025643 GAAGATGCTGGA
1 GAAGATGCTGGA
47025655 G
1 G
47025656 TACATTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.44, T:0.16
Consensus pattern (12 bp):
GAAGATGCTGGA
Found at i:47026846 original size:50 final size:51
Alignment explanation
Indices: 47026807--47026925 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
47026797 TTCAGGTCAT
*
47026807 TTTCATTT-T-CATTTTTATTTTGGAGAAACCTACATTCATTTCCAAATAA
1 TTTCATTTCTCCATTTTCATTTTGGAGAAACCTACATTCATTTCCAAATAA
* **
47026856 TTTCATTTCTCCATTTTCATTTTGGAGAAATCATA-A-TCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCATTTTGGAGAAA-CCTACATTCATTTCCAAATAA
*
47026906 TTCTCATTTATCCATTTTCA
1 TT-TCATTTCTCCATTTTCA
47026926 CAATTTTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
49 8 0.13
50 15 0.25
51 35 0.57
52 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (51 bp):
TTTCATTTCTCCATTTTCATTTTGGAGAAACCTACATTCATTTCCAAATAA
Found at i:47035801 original size:31 final size:31
Alignment explanation
Indices: 47035763--47035822 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
47035753 TCACTATCCA
*
47035763 ATACAATTCAGATAGCATATATTGAGCTCAC
1 ATACAATTCACATAGCATATATTGAGCTCAC
47035794 ATACAATTCACATAGCATATATTGAGCTC
1 ATACAATTCACATAGCATATATTGAGCTC
47035823 TCATCTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (31 bp):
ATACAATTCACATAGCATATATTGAGCTCAC
Found at i:47036069 original size:46 final size:47
Alignment explanation
Indices: 47035967--47036130 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 47
47035957 GGTATAATGC
* *
47035967 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATAGCT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCA-AGGT
* * * *
47036014 -GGT-TCATGTCCCAGACATGTCTTACATTGGCTTACATCTCGAGGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGT
* * * * *
47036059 CGATG-CATGTCCTAGACATGTCTTACACTAGCTCT-CGTCTCAACGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAAGGT
*
47036105 CAATGCCATGTCCCAGACATGTCTTA
1 CGATGCCATGTCCCAGACATGTCTTA
47036131 TACTAGCACA
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.12
45 17 0.18
46 47 0.49
47 20 0.21
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGT
Found at i:47041184 original size:40 final size:40
Alignment explanation
Indices: 47041093--47041227 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 40
47041083 TACAATCTTG
* * * * * *
47041093 CACACTAAGTTCC-TTTCATAGCTGAAGCTATCTCATTCTCG
1 CACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCAAT-ACA
* * * *
47041134 CACACTAAGTGCCATATGTAGTCGAAGCTATTCTGAAT-CC
1 CACACTAAGTGCCATATATAGCCGAAGCTA-TCTCAATACA
***
47041174 CACACTAAGTGTTTTATATAGCCGAAGCTATCTCAATACA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACA
47041214 CACACTAAGTGCCA
1 CACACTAAGTGCCA
47041228 AACATAATCA
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
39 6 0.08
40 38 0.52
41 22 0.30
42 7 0.10
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACA
Found at i:47042822 original size:23 final size:23
Alignment explanation
Indices: 47042787--47042852 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
47042777 TGCCACACGG
* *
47042787 GCCAAAGAAAATACACCACATAA
1 GCCAAACAGAATACACCACATAA
* * * *
47042810 GCTAAACATAATACGCCACATAG
1 GCCAAACAGAATACACCACATAA
*
47042833 GCCAAACAGAATACTCCACA
1 GCCAAACAGAATACACCACA
47042853 AAGGCAATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.48, C:0.29, G:0.11, T:0.12
Consensus pattern (23 bp):
GCCAAACAGAATACACCACATAA
Found at i:47045690 original size:27 final size:27
Alignment explanation
Indices: 47045660--47045713 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
47045650 CCAAGTTTTT
47045660 TTCATTAGACAACATTATGAAA-GAGGA
1 TTCATTAGACAACATTAT-AAAGGAGGA
*
47045687 TTCATTAGACTACATTATAAAGGAGGA
1 TTCATTAGACAACATTATAAAGGAGGA
47045714 GGAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (27 bp):
TTCATTAGACAACATTATAAAGGAGGA
Found at i:47048019 original size:51 final size:51
Alignment explanation
Indices: 47047938--47048036 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
47047928 TGGAAAGAAT
*
47047938 AGGGTGGGATAGTCCCCAAATAGTCTTTAACATGCGTTGAAGTTGAATGAC
1 AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAATGAC
* * *
47047989 AGGGTGGGATAGTCCTCAAATATTCATTAACATGTGTTGAAGTTGAAT
1 AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAAT
47048037 AGTCCCCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAATGAC
Found at i:47048448 original size:28 final size:28
Alignment explanation
Indices: 47048416--47048500 Score: 161
Period size: 28 Copynumber: 3.0 Consensus size: 28
47048406 GTTTGCCTAG
47048416 AGATGAAAGGTGTACGGAGGAATGTTGA
1 AGATGAAAGGTGTACGGAGGAATGTTGA
47048444 AGATGAAAGGTGTACGGAGGAATGTTGA
1 AGATGAAAGGTGTACGGAGGAATGTTGA
*
47048472 AGATGAAAGGTGTATGGAGGAATGTTGA
1 AGATGAAAGGTGTACGGAGGAATGTTGA
47048500 A
1 A
47048501 TTACTATTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.36, C:0.02, G:0.39, T:0.22
Consensus pattern (28 bp):
AGATGAAAGGTGTACGGAGGAATGTTGA
Found at i:47049464 original size:45 final size:45
Alignment explanation
Indices: 47049400--47049492 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
47049390 GCATATTATG
47049400 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
1 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
*
47049445 GGAAAGGAGGTTAGTAATTTTTGTCTTAATATTTTGAACAATAAT
1 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
47049490 GGA
1 GGA
47049493 TCGATTGAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (45 bp):
GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
Found at i:47055376 original size:100 final size:98
Alignment explanation
Indices: 47055201--47055429 Score: 271
Period size: 100 Copynumber: 2.3 Consensus size: 98
47055191 TATTGTGAAG
* * * * *
47055201 TCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATATATAGTACT
* *
47055266 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCATACCAGATAA-TT-GA
* * * *
47055301 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGGTCACGTATATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATATATAGTAC
* **
47055365 TAAGTGTAGGCTACTACGTGTACCAGATAATTGA
65 TAAGTGCAGGCTACTACGCATACCAGATAATTGA
** *
47055399 TTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
47055430 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
98 30 0.27
99 4 0.04
100 77 0.69
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATATATAGTACT
AAGTGCAGGCTACTACGCATACCAGATAATTGA
Found at i:47055437 original size:49 final size:50
Alignment explanation
Indices: 47055201--47055439 Score: 241
Period size: 49 Copynumber: 4.8 Consensus size: 50
47055191 TATTGTGAAG
* * * * *
47055201 TCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * ** * *
47055250 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGA
* * * *
47055301 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * * *
47055350 TCACGTATATAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-GA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
** * *
47055399 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
47055440 TTAGCCTTGT
Statistics
Matches: 154, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 113 0.73
50 4 0.03
51 37 0.24
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
Found at i:47060051 original size:10 final size:10
Alignment explanation
Indices: 47060038--47060084 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
47060028 GAGCTCCATC
*
47060038 CAGCTCAATT
1 CAGCTCATTT
47060048 CAGCTCATTT
1 CAGCTCATTT
*
47060058 GAGCTCATTT
1 CAGCTCATTT
*
47060068 CAGCTCGTTT
1 CAGCTCATTT
*
47060078 GAGCTCA
1 CAGCTCA
47060085 ACCGAGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:47060062 original size:20 final size:20
Alignment explanation
Indices: 47060039--47060085 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
47060029 AGCTCCATCC
47060039 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
47060059 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
47060079 AGCTCAA
1 AGCTCAA
47060086 CCGAGCTTAC
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:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:47061667 original size:12 final size:12
Alignment explanation
Indices: 47061650--47061674 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47061640 GGTTCGTTGT
47061650 AAAAAAAATTCA
1 AAAAAAAATTCA
47061662 AAAAAAAATTCA
1 AAAAAAAATTCA
47061674 A
1 A
47061675 GTTGTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:47062742 original size:13 final size:12
Alignment explanation
Indices: 47062706--47062740 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
47062696 GAACAAAAAA
*
47062706 GAAAAATGAAATT
1 GAAAAA-GAAAGT
47062719 GAAAAAGAAAGT
1 GAAAAAGAAAGT
47062731 GAAAAAGAAA
1 GAAAAAGAAA
47062741 AGAGAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:47062743 original size:17 final size:17
Alignment explanation
Indices: 47062721--47062755 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47062711 ATGAAATTGA
47062721 AAAAGA-AAGTGAAAAAG
1 AAAAGAGAAG-GAAAAAG
47062738 AAAAGAGAAGGAAAAAG
1 AAAAGAGAAGGAAAAAG
47062755 A
1 A
47062756 GATCGAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
AAAAGAGAAGGAAAAAG
Found at i:47066653 original size:25 final size:25
Alignment explanation
Indices: 47066625--47066684 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
47066615 CCATTTACAT
47066625 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
47066650 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
* *
47066675 TAAATCCCAA
1 CAAAACCCAA
47066685 AATAAGAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.38, G:0.07, T:0.07
Consensus pattern (25 bp):
CAAAACCCAACAGTAGCCCAAACAC
Found at i:47066774 original size:28 final size:28
Alignment explanation
Indices: 47066723--47066776 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
47066713 CTCACCCTAG
*
47066723 CCACCGCCCCACTTGCCTCTGCCACCAC
1 CCACCGCCCCACTTGCCTCAGCCACCAC
*
47066751 CCACCGCCCCTCTT-CCGTCAGCCACC
1 CCACCGCCCCACTTGCC-TCAGCCACC
47066777 TCCTCCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.13, C:0.61, G:0.11, T:0.15
Consensus pattern (28 bp):
CCACCGCCCCACTTGCCTCAGCCACCAC
Found at i:47067910 original size:16 final size:15
Alignment explanation
Indices: 47067888--47067928 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
47067878 TATTAATAAT
47067888 GTATTATTATTACTA
1 GTATTATTATTACTA
*
47067903 GTTATTATTATTTCTA
1 G-TATTATTATTACTA
47067919 GTATTATTAT
1 GTATTATTAT
47067929 ATATATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (15 bp):
GTATTATTATTACTA
Found at i:47067976 original size:18 final size:20
Alignment explanation
Indices: 47067928--47067976 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
47067918 AGTATTATTA
47067928 TATATATAATATTAGTGTATG
1 TATATAT-ATATTAGTGTATG
*
47067949 T-TTTAT-TATATA-TGTATG
1 TATATATATAT-TAGTGTATG
47067967 TATATATATA
1 TATATATATA
47067977 GTATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 6 0.26
21 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATATATATTAGTGTATG
Found at i:47067983 original size:29 final size:28
Alignment explanation
Indices: 47067917--47067984 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
47067907 TTATTATTTC
*
47067917 TAGTATTATTATATATATAATATTAGTG
1 TAGTATTATTATATATATAATATTAGTA
* * *
47067945 TATGTTTTATTATATATGTATGTATATA-TA
1 TA-GTATTATTATATATATA-ATAT-TAGTA
47067975 TAGTATTATT
1 TAGTATTATT
47067985 TTAATTACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.06
29 22 0.69
30 6 0.19
31 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (28 bp):
TAGTATTATTATATATATAATATTAGTA
Found at i:47068183 original size:22 final size:21
Alignment explanation
Indices: 47068144--47068242 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 21
47068134 TTTTCTTTTA
47068144 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
47068167 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
*
47068189 ATATTTTTATATATTATGTAT
1 ATATTTTTATATATTATGTAC
* *
47068210 ATTTCTTTTACTAT-TTCATGTAT
1 ATAT-TTTTA-TATATT-ATGTAC
47068233 ATATTTTTAT
1 ATATTTTTAT
47068243 TTCATCTCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.20
22 33 0.51
23 19 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:47068292 original size:23 final size:24
Alignment explanation
Indices: 47068254--47068307 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
47068244 TCATCTCATG
* * *
47068254 TATAAATTTTTGAATACTATGTTA
1 TATATATTTTTGAATACCATCTTA
47068278 TATATATTTTT-AATACCATCTTA
1 TATATATTTTTGAATACCATCTTA
*
47068301 TGTATAT
1 TATATAT
47068308 ATTATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (24 bp):
TATATATTTTTGAATACCATCTTA
Found at i:47068675 original size:3 final size:3
Alignment explanation
Indices: 47068508--47068660 Score: 306
Period size: 3 Copynumber: 51.0 Consensus size: 3
47068498 CGTATGCATC
47068508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47068556 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47068604 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47068652 TTA TTA TTA
1 TTA TTA TTA
47068661 GTATATGTTT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 150 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47068718 original size:25 final size:26
Alignment explanation
Indices: 47068681--47068755 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 26
47068671 ATTATATATG
*
47068681 TATATATACGTATATA-TTTTAATAAC
1 TATAT-TATGTATATACTTTTAATAAC
* * *
47068707 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATACTTTTAATAAC
* * *
47068732 TATTTTATGTATACACTTTCAATA
1 TATATTATGTATATACTTTTAATA
47068756 TTATTGTGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 27 0.71
26 11 0.29
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (26 bp):
TATATTATGTATATACTTTTAATAAC
Found at i:47072716 original size:4 final size:4
Alignment explanation
Indices: 47072697--47072732 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
47072687 GTATGACTAA
* *
47072697 CATT CATT TATG CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT
47072733 GCATATCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:47077525 original size:92 final size:91
Alignment explanation
Indices: 47077356--47077531 Score: 237
Period size: 92 Copynumber: 1.9 Consensus size: 91
47077346 ACGCTGAGGT
*
47077356 TTTTTCAATTTCTGTTTTCGAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCC
1 TTTTTCAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCC
*
47077421 ACATGCCAAGGTATTTTCAAAATTTTA
65 ACAAGCCAAGGTATTTTCAAAATTTTA
* * * *
47077448 TTTTTCAATTTCTGTTTCTTC-CAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 TTTTTCAATTTCTG-TT-TTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGC
* **
47077512 CATAAGCGGAGGTATTTTCA
64 CACAAGCCAAGGTATTTTCA
47077532 TTTTTTCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 68 0.93
93 2 0.03
94 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (91 bp):
TTTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCCA
CAAGCCAAGGTATTTTCAAAATTTTA
Found at i:47077572 original size:163 final size:159
Alignment explanation
Indices: 47077294--47077850 Score: 533
Period size: 163 Copynumber: 3.4 Consensus size: 159
47077284 TGTTTTTATT
* * * * * * *
47077294 TTTTGTTCTAAAAATCAACTCATGTTGTGAGAGGTGAATTGAGCCTC-GG-GACACGCTGAGGTT
1 TTTT-TTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGC-GAGGTA
*
47077357 TTTTCAATTTCTGTTTTCGAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCCA
64 TTTTC-A-TT-T-TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--A
* *
47077422 CATGCCAAGGTATTTTCAAAATTTTATTTTTCAATTTC
122 CATGCCGAGGTATTTTCAAAATTTTATTTTTCAATTTA
* * *
47077460 TGTTTCTTCCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATAAGCGGAGGT
1 T-TTT-TTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGC-GAGGT
* *
47077525 ATTTTCA-TTTTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGAGG-CATGT
63 ATTTTCATTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGACATGC
* ** *
47077588 CGAGGTATTTTCAAAA-TCTGCTTTTCAAATTA
127 CGAGGTATTTTCAAAATTTTATTTTTCAATTTA
** * * * *
47077620 --AATTCCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTA
1 TTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGC-GAGGTA
*** * * *
47077682 TTTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCATCGGGACACG
64 TTTTC-A-TTTT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATG
* *
47077747 CTGAGGTATTTTC--AATTTCTGTTTTTTCAATTTA
126 CCGAGGTATTTTCAAAATTT-T-ATTTTTCAATTTA
*
47077781 TATTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTA
1 T-TTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATG-CGAGGTA
47077845 TTTTCA
64 TTTTCA
47077851 AAATCTGCTT
Statistics
Matches: 324, Mismatches: 49, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
155 2 0.01
156 54 0.17
157 1 0.00
158 2 0.01
159 6 0.02
160 65 0.20
161 29 0.09
162 1 0.00
163 92 0.28
164 12 0.04
165 1 0.00
166 2 0.01
167 40 0.12
168 3 0.01
169 14 0.04
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (159 bp):
TTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCGAGGTATT
TTCATTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCCGAG
GTATTTTCAAAATTTTATTTTTCAATTTA
Found at i:47078959 original size:10 final size:10
Alignment explanation
Indices: 47078944--47078979 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
47078934 AAATTTCGAA
47078944 TCTTTTGTTT
1 TCTTTTGTTT
47078954 TCTTTTGTTT
1 TCTTTTGTTT
* *
47078964 TGTTTTCTTT
1 TCTTTTGTTT
47078974 TCTTTT
1 TCTTTT
47078980 CTACATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.81
Consensus pattern (10 bp):
TCTTTTGTTT
Found at i:47078964 original size:15 final size:15
Alignment explanation
Indices: 47078944--47078979 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
47078934 AAATTTCGAA
47078944 TCTTTTGTTTTCTTT
1 TCTTTTGTTTTCTTT
*
47078959 TGTTTTGTTTTCTTT
1 TCTTTTGTTTTCTTT
47078974 TCTTTT
1 TCTTTT
47078980 CTACATACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.81
Consensus pattern (15 bp):
TCTTTTGTTTTCTTT
Found at i:47082142 original size:12 final size:12
Alignment explanation
Indices: 47082125--47082149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47082115 CCATCGAATT
47082125 CCCTTTTTCAAC
1 CCCTTTTTCAAC
47082137 CCCTTTTTCAAC
1 CCCTTTTTCAAC
47082149 C
1 C
47082150 TCAACTGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (12 bp):
CCCTTTTTCAAC
Found at i:47091877 original size:46 final size:47
Alignment explanation
Indices: 47091737--47091948 Score: 217
Period size: 46 Copynumber: 4.6 Consensus size: 47
47091727 TCAATAAGCC
* ** *
47091737 TGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCGATGCCA
** *
47091784 TGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTAA-CCGATG-CA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTC--AAGGCGATGCCA
47091829 TGTCCCAGACAT-GTCTTACACTGGCTTACATCT-AGAGGCTGATG-CA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-AGGC-GATGCCA
* * *
47091875 TGTCCCAAACAT-GTCTTACACTAGCTCT-CATCTCAATGCAGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAAGGC-GATGCCA
47091922 TGTCCCAGACATGGTCTTACACTGGCT
1 TGTCCCAGACATGGTCTTACACTGGCT
47091949 CATAATAACC
Statistics
Matches: 140, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.09
45 20 0.14
46 53 0.38
47 41 0.29
48 13 0.09
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCGATGCCA
Found at i:47098956 original size:29 final size:30
Alignment explanation
Indices: 47098923--47099000 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
47098913 ACTGAATTAA
47098923 AATAAAATTTCAT-TATAAAATTACACA-AG
1 AATAAAA-TTCATGTATAAAATTACACATAG
* * *
47098952 AATAAAGTTAATGTATAAAATTATACATTAG
1 AATAAAATTCATGTATAAAATTACACA-TAG
*
47098983 ATTAAAATTCATGTATAA
1 AATAAAATTCATGTATAA
47099001 TTTTAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.10
29 19 0.47
31 17 0.43
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (30 bp):
AATAAAATTCATGTATAAAATTACACATAG
Found at i:47101634 original size:21 final size:24
Alignment explanation
Indices: 47101593--47101635 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
47101583 AAACATGAGC
47101593 TTAAACATATTTTTAATATTTACA
1 TTAAACATATTTTTAATATTTACA
47101617 TTAAA-ATA-TTTT-ATATTTA
1 TTAAACATATTTTTAATATTTA
47101636 ATTCTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 3 0.16
24 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAACATATTTTTAATATTTACA
Found at i:47102213 original size:24 final size:23
Alignment explanation
Indices: 47102185--47102230 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
47102175 CGCTTCGATT
*
47102185 TTTATTTTTAATTCATATATTTTC
1 TTTATTTTTAATCCATAT-TTTTC
47102209 TTTATTTTTAATCCATATTTTT
1 TTTATTTTTAATCCATATTTTT
47102231 AATAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTTTTAATCCATATTTTTC
Found at i:47102715 original size:19 final size:19
Alignment explanation
Indices: 47102691--47102742 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
47102681 TAGTATGGTA
47102691 AATTATATTTAATAAAAAT
1 AATTATATTTAATAAAAAT
* *
47102710 AATTATATTTGA-AACAAT
1 AATTATATTTAATAAAAAT
* *
47102728 TATTTTATTTAATAA
1 AATTATATTTAATAA
47102743 TATTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTATATTTAATAAAAAT
Found at i:47111351 original size:13 final size:13
Alignment explanation
Indices: 47111333--47111357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47111323 TTTAGAACTT
47111333 AATACCGTCTTTG
1 AATACCGTCTTTG
47111346 AATACCGTCTTT
1 AATACCGTCTTT
47111358 ACTTATTAAC
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:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
AATACCGTCTTTG
Found at i:47120651 original size:20 final size:20
Alignment explanation
Indices: 47120608--47120653 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
47120598 ACTATTTTGT
*
47120608 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTACTGA
* *
47120627 AATGGGCCCAACTGTGCTGA
1 TATGGGCCCAACTGTACTGA
47120647 TATGGGC
1 TATGGGC
47120654 TAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTACTGA
Found at i:47121189 original size:36 final size:36
Alignment explanation
Indices: 47121149--47121220 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
47121139 TTTCAAAATG
47121149 AATAACCTTTTTAAATGGTTTTAAACGAATTGGTTT
1 AATAACCTTTTTAAATGGTTTTAAACGAATTGGTTT
47121185 AATAACCTTTTTAAATGGTTTTAAACGAATTGGTTT
1 AATAACCTTTTTAAATGGTTTTAAACGAATTGGTTT
47121221 TCCCTGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.44
Consensus pattern (36 bp):
AATAACCTTTTTAAATGGTTTTAAACGAATTGGTTT
Found at i:47123845 original size:26 final size:28
Alignment explanation
Indices: 47123814--47123880 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
47123804 ATTCTAGAGA
47123814 ATTTTTTTAAAATTTTTT-AA-CTTTAT
1 ATTTTTTTAAAATTTTTTAAATCTTTAT
* *
47123840 ATTTTTTT-AGATTTTTTGAAATTTTTAT
1 ATTTTTTTAAAATTTTTT-AAATCTTTAT
47123868 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
47123881 ATAAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 8 0.24
26 8 0.24
27 2 0.06
28 13 0.38
29 3 0.09
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (28 bp):
ATTTTTTTAAAATTTTTTAAATCTTTAT
Found at i:47123941 original size:20 final size:19
Alignment explanation
Indices: 47123892--47123956 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
47123882 TAAATTTTGG
* *
47123892 AATTTTTATAAATAATTTT
1 AATTTTTAAAAATTATTTT
*
47123911 AA-TTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
47123929 AAATTTTTAAAAATTATTTT
1 -AATTTTTAAAAATTATTTT
47123949 GAATTTTT
1 -AATTTTT
47123957 TTTGTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 13 0.33
19 4 0.10
20 22 0.56
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:47124714 original size:21 final size:18
Alignment explanation
Indices: 47124662--47124715 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
47124652 GTTTACGCTG
*
47124662 AAAAATATTTTTAATTTC
1 AAAAATATTTTTAACTTC
*
47124680 AAAATATATATTTATACCTTC
1 AAAA-ATAT-TTT-TAACTTC
47124701 AAAAATACTTTTTAA
1 AAAAATA-TTTTTAA
47124716 AAATGATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 9 0.31
21 10 0.34
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATTTTTAACTTC
Found at i:47129000 original size:20 final size:20
Alignment explanation
Indices: 47128975--47129012 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47128965 TTAGTCCTTC
47128975 TAAAAAAAATTAAAAAATTT
1 TAAAAAAAATTAAAAAATTT
*
47128995 TAAAAAAAATTATAAAAT
1 TAAAAAAAATTAAAAAAT
47129013 ATATGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAAAAATTAAAAAATTT
Found at i:47133469 original size:61 final size:61
Alignment explanation
Indices: 47133402--47133540 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
47133392 AATAGAGTTA
* *
47133402 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAATATC-AGAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-TAT
* * * * * *
47133463 ACTGGGCC-TAGCCCATGTTAGTATCAATCTGGGCCGTATCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
*
47133523 ATTGGGCCTT-GCCCATAT
1 ACTGGGCCTTAGCCCATAT
47133541 TAACACAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
60 47 0.72
61 18 0.28
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
Found at i:47138442 original size:20 final size:21
Alignment explanation
Indices: 47138394--47138443 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
47138384 TCAATAAGCC
*
47138394 TCAAAATTTTAATTAAACTTT
1 TCAAAATTTTAATTAAACTTG
47138415 TCAAAATTTTAATTAAA-TTCG
1 TCAAAATTTTAATTAAACTT-G
47138436 T-AAAATTT
1 TCAAAATTT
47138444 AATGCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (21 bp):
TCAAAATTTTAATTAAACTTG
Found at i:47144348 original size:31 final size:31
Alignment explanation
Indices: 47144310--47144373 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
47144300 CCTTTTCATA
47144310 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
47144341 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
47144372 TT
1 TT
47144374 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:47144617 original size:24 final size:24
Alignment explanation
Indices: 47144581--47144661 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
47144571 CTGGAGGCCT
*
47144581 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
47144606 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
47144630 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
47144653 AGCCCTTTT
1 AGCCCTTTT
47144662 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
23 23 0.43
24 27 0.50
25 4 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:47144642 original size:23 final size:23
Alignment explanation
Indices: 47144588--47144660 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
47144578 CCTAGCCTCT
*
47144588 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
47144611 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
47144635 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
47144658 TTT
1 TTT
47144661 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:47144733 original size:9 final size:9
Alignment explanation
Indices: 47144719--47144775 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
47144709 ATCTCATGTG
47144719 CATATCATA
1 CATATCATA
*
47144728 CATATCATGTG
1 CATATCA--TA
47144739 CATATCATA
1 CATATCATA
* *
47144748 CATGTCATGTG
1 CATATCA--TA
47144759 CATATCATA
1 CATATCATA
47144768 CATATCAT
1 CATATCAT
47144776 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:47144735 original size:20 final size:20
Alignment explanation
Indices: 47144707--47144777 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
47144697 GCATTTATGA
*
47144707 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
47144727 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
47144747 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
47144767 ACATATCATGT
1 ACATATCATGT
47144778 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:47144742 original size:11 final size:11
Alignment explanation
Indices: 47144712--47144766 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
47144702 TATGAACATC
47144712 TCATGTGCATA
1 TCATGTGCATA
*
47144723 TCA--TACATA
1 TCATGTGCATA
47144732 TCATGTGCATA
1 TCATGTGCATA
* *
47144743 TCA--TACATG
1 TCATGTGCATA
47144752 TCATGTGCATA
1 TCATGTGCATA
47144763 TCAT
1 TCAT
47144767 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:47144842 original size:25 final size:25
Alignment explanation
Indices: 47144814--47144861 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47144804 ATATATAAAC
* * *
47144814 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
47144839 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
47144862 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:47148554 original size:43 final size:42
Alignment explanation
Indices: 47148501--47148651 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 42
47148491 GCCATATCCT
* ** *
47148501 AGATATGGTCTTACATGTTATCAAATATCGATGCCACTGTCCC
1 AGATATGGTCTTACACGAAATCAAATAT-GATGCCAATGTCCC
* *
47148544 AGATAGGGTCTTACACGAAATCATATATGATGCCAATGTCCC
1 AGATATGGTCTTACACGAAATCAAATATGATGCCAATGTCCC
* * * *
47148586 AGACATGGTCTTACACGTAACCTCAGAT-CGATGCCAATGTCCC
1 AGATATGGTCTTACACG-AA-ATCAAATATGATGCCAATGTCCC
* ** *
47148629 AAACGTGGTCTTACACGATATCA
1 AGATATGGTCTTACACGAAATCA
47148652 CATCTCGGAA
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
41 3 0.03
42 29 0.32
43 54 0.59
44 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
AGATATGGTCTTACACGAAATCAAATATGATGCCAATGTCCC
Found at i:47150130 original size:25 final size:25
Alignment explanation
Indices: 47150084--47150131 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
47150074 AGCTTATTTT
* * *
47150084 CGAGCCATATATCAGGATGCTTAAA
1 CGAGCCATATAACAAGACGCTTAAA
*
47150109 CGAGCCATGTAACAAGACGCTTA
1 CGAGCCATATAACAAGACGCTTA
47150132 TCTGGGCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAAGACGCTTAAA
Found at i:47166321 original size:40 final size:39
Alignment explanation
Indices: 47166290--47166499 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
47166280 GGACTAAGAT
* *
47166290 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47166330 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47166370 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
47166410 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
47166450 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47166489 CCGAAGGCATT
1 CCGAAGGCATT
47166500 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47166453 original size:120 final size:120
Alignment explanation
Indices: 47166237--47166499 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
47166227 TTGAATGCTG
* *
47166237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47166301 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47166357 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
47166420 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47166476 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47166500 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47166519 original size:79 final size:80
Alignment explanation
Indices: 47166290--47166534 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
47166280 GGACTAAGAT
* * * * * * * ** *
47166290 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
47166353 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
47166370 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
47166435 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
47166450 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
47166514 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
47166528 CCGAAGG
1 CCGAAGG
47166535 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:47168798 original size:47 final size:49
Alignment explanation
Indices: 47168711--47168929 Score: 155
Period size: 49 Copynumber: 4.6 Consensus size: 49
47168701 ATAAAATGCT
* *
47168711 GATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCATAT-T-GAAGTC
1 GATGCCATGTCCCAGACA-GGTTTTACACTGACTAGCATATATCGAAGCC
* ** *
47168759 GATGCTATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTTTTACACTGACTAGCATATATCGAAGCC
* * * * ** * ** *
47168808 AATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGTGTC
1 GATGCCATGTCCCAGACAGGTTTTACACTGACTAGCATATATCGAAGCC
* * * * *
47168857 AATGCCATGTCCAAGACAGGTCTTACATTGAC-A-CACA-A-C-AAGCC
1 GATGCCATGTCCCAGACAGGTTTTACACTGACTAGCATATATCGAAGCC
* * * *
47168901 AACGTCATGTCCCAGACAGGTCTTACACT
1 GATGCCATGTCCCAGACAGGTTTTACACT
47168930 AGCTTGTATA
Statistics
Matches: 139, Mismatches: 30, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
44 27 0.19
45 1 0.01
46 1 0.01
47 21 0.15
48 18 0.13
49 71 0.51
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTTTTACACTGACTAGCATATATCGAAGCC
Found at i:47168834 original size:49 final size:49
Alignment explanation
Indices: 47168712--47168888 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 49
47168702 TAAAATGCTG
* * * * * *
47168712 ATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCATAT-T-GAAGTCG
1 ATGCCATGTCCCAAACA-GGTCTTACACTGACTATCATATATCGAGGTCA
* * * * *
47168760 ATGCTATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAGGCCA
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTATCATATATCGAGGTCA
* * *
47168809 ATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCA
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTATCATATATCGAG-GTCA
*
47168858 ATGCCATGT-CCAAGACAGGTCTTACATTGAC
1 ATGCCATGTCCCAA-ACAGGTCTTACACTGAC
47168889 ACACAACAAG
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
47 19 0.17
48 22 0.20
49 68 0.62
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTGACTATCATATATCGAGGTCA
Found at i:47168883 original size:98 final size:97
Alignment explanation
Indices: 47168712--47168888 Score: 221
Period size: 98 Copynumber: 1.8 Consensus size: 97
47168702 TAAAATGCTG
* * * * * *
47168712 ATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCATATTGAAGTCGATGCTATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCATATCGAAGTCAATGCCATGTCCAAGACA
*
47168777 GGTTTTACACTGACTTTCATATATCGAGGCCA
66 GGTCTTACACTGACTTTCATATATCGAGGCCA
** **
47168809 ATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCCATGTCCAAGA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCA--TATCGAAGTCAATGCCATGTCCAAGA
*
47168873 CAGGTCTTACATTGAC
64 CAGGTCTTACACTGAC
47168889 ACACAACAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
96 16 0.24
97 16 0.24
98 34 0.52
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (97 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCATATCGAAGTCAATGCCATGTCCAAGACA
GGTCTTACACTGACTTTCATATATCGAGGCCA
Found at i:47170959 original size:40 final size:40
Alignment explanation
Indices: 47170876--47171178 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
47170866 TTGAATGCTG
* * * * * *
47170876 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
47170916 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
47170956 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47170996 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47171036 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47171076 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47171116 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47171155 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47171179 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:47179908 original size:48 final size:46
Alignment explanation
Indices: 47179851--47179970 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
47179841 GTGGCAATGC
* * * * * *
47179851 CATGTCCCAGATAGGTCTTATACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCCGATG
* * *
47179899 CATGTCCCAGACATGTCATACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
47179945 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
47179971 TTCACATACC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 37 0.60
47 2 0.03
48 23 0.37
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:47231296 original size:21 final size:20
Alignment explanation
Indices: 47231268--47231306 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
47231258 CAAAACTTGT
47231268 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
47231288 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
47231307 CAAAACACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:47233748 original size:13 final size:13
Alignment explanation
Indices: 47233730--47233758 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47233720 CCAAACTATA
47233730 AAATTAACTAATC
1 AAATTAACTAATC
47233743 AAATTAACTAATC
1 AAATTAACTAATC
47233756 AAA
1 AAA
47233759 CGATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAACTAATC
Found at i:47236355 original size:40 final size:38
Alignment explanation
Indices: 47236279--47236374 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 38
47236269 TCATCTCCGT
* * * *
47236279 CCAACCCAACACACCATGTAGGGATAAGATCGACCCAC
1 CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAC
* *
47236317 CCAGCCCTACACACCAAGTATTGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTA--GGGATAAAATCAACCCAC
47236357 CCAACCCTACACACCAAG
1 CCAACCCTACACACCAAG
47236375 AGGTATCGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
38 17 0.35
40 32 0.65
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (38 bp):
CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAC
Found at i:47245455 original size:29 final size:28
Alignment explanation
Indices: 47245423--47245529 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
47245413 ATAATATGAT
47245423 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* * *
47245452 TTGGACCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * *
47245481 CTGGGCC-AGATGGACCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
* *
47245509 TTGGGCCTAGTGGGTCATATG
1 TTGGGCCTAATGGGCCATATG
47245530 CATGTATGTA
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
27 1 0.02
28 17 0.28
29 42 0.70
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:47245478 original size:58 final size:57
Alignment explanation
Indices: 47245415--47245527 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
47245405 GCATGAATAT
** * *
47245415 AATATGATTTGGGCCTA-ATGGGCCATATGAATGAGAATTGGACCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGACCATATGAATAAG-ATTGGACCTAGTGGGCCATAAG
* * *
47245473 AATATGAACTGGGCCAGATGGACCATTTGAATAAGATTGGGCCTAGTGGGTCATA
1 AATATGAACTGGGCCAGATGGACCATATGAATAAGATTGGACCTAGTGGGCCATA
47245528 TGCATGTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGACCATATGAATAAGATTGGACCTAGTGGGCCATAAG
Found at i:47251662 original size:16 final size:16
Alignment explanation
Indices: 47251641--47251672 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47251631 TTGTAACGCC
47251641 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
47251657 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
47251673 TATGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:47253206 original size:29 final size:28
Alignment explanation
Indices: 47253173--47253278 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 28
47253163 ATAATATTAT
47253173 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* *
47253202 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * *
47253231 CTGGGCC-AACTGGACCATTTGAATA-ATA
1 TTGGGCCTAA-TGGGCCATATGAATAGA-A
* *
47253259 TTGGTCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
47253279 ACATGTATGT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.02
28 16 0.26
29 44 0.72
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:47256549 original size:29 final size:29
Alignment explanation
Indices: 47256517--47256576 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
47256507 TATTTTTATA
47256517 TTATA-TATAATTAATTTATTATATATTAC
1 TTATATTATAATT-ATTTATTATATATTAC
*
47256546 TTATATTATTATTATTTATTATATATTAC
1 TTATATTATAATTATTTATTATATATTAC
47256575 TT
1 TT
47256577 TTCACAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTATATTATAATTATTTATTATATATTAC
Found at i:47256675 original size:20 final size:20
Alignment explanation
Indices: 47256507--47256678 Score: 60
Period size: 20 Copynumber: 8.4 Consensus size: 20
47256497 TTTTTAACCT
47256507 TATT-TTTATAT-TA-TATA
1 TATTATTTATATATATTATA
47256524 TAATTAATTTATTATATATTACTTA
1 T-ATT-ATTTA-TATATATTA--TA
*
47256549 TATTA-TTATTATTTATTATA
1 TATTATTTA-TATATATTATA
* * *
47256569 TATTACTTT-TCACAAAATAT-
1 TATTA-TTTAT-ATATATTATA
* *
47256589 TATTATTT-TACATTATTATT
1 TATTATTTATATA-TATTATA
*
47256609 TATATATCATTAT-TATATT-TT
1 TAT-TAT--TTATATATATTATA
*
47256630 TACTTGTATTATATAT-TTATGA
1 TA-TTAT-TTATATATATTAT-A
47256652 -ATTATTTATATATATTATA
1 TATTATTTATATATATTATA
47256671 TATTATTT
1 TATTATTT
47256679 TTACATATAC
Statistics
Matches: 121, Mismatches: 11, Indels: 43
0.69 0.06 0.25
Matches are distributed among these distances:
17 1 0.01
18 6 0.05
19 17 0.14
20 41 0.34
21 22 0.18
22 21 0.17
23 6 0.05
24 4 0.03
25 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (20 bp):
TATTATTTATATATATTATA
Found at i:47256957 original size:23 final size:22
Alignment explanation
Indices: 47256908--47256980 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
47256898 ATCATTAATT
*
47256908 ACTTATTTTATAT-TATTCTAA
1 ACTTATTTTATATATATTATAA
47256929 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATA-A
*
47256953 A-TTATTTTAT-TATAAATATAA
1 ACTTATTTTATATAT-ATTATAA
47256974 AC-TATTT
1 ACTTATTT
47256981 GACATATTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 16 0.36
22 17 0.38
23 10 0.22
24 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
ACTTATTTTATATATATTATAA
Found at i:47264003 original size:29 final size:28
Alignment explanation
Indices: 47263970--47264053 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
47263960 GCATGAATAT
47263970 AATATGATTTGGGCCTAATGGGCCATAAG
1 AATATGA-TTGGGCCTAATGGGCCATAAG
* * **
47263999 AATATGAACTGGGCC-AGATGGACCATTTG
1 AATATG-ATTGGGCCTA-ATGGGCCATAAG
* *
47264028 AATAAGATTGGGCCTAGTGGGCCATA
1 AATATGATTGGGCCTAATGGGCCATA
47264054 TACATGTATG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 15 0.35
29 27 0.63
30 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
AATATGATTGGGCCTAATGGGCCATAAG
Found at i:47265900 original size:21 final size:21
Alignment explanation
Indices: 47265874--47265923 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
47265864 TTGGTCAAGA
47265874 ATCGATACCTCAGTAGCTAGT
1 ATCGATACCTCAGTAGCTAGT
*
47265895 ATCGATACCTTAGTAGCTAGT
1 ATCGATACCTCAGTAGCTAGT
*
47265916 ATCAATAC
1 ATCGATAC
47265924 ATTTATCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (21 bp):
ATCGATACCTCAGTAGCTAGT
Found at i:47268766 original size:93 final size:93
Alignment explanation
Indices: 47268659--47268829 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47268649 GCCCCTAAGT
* *
47268659 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47268724 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47268752 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47268817 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47268830 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47268826 original size:46 final size:46
Alignment explanation
Indices: 47268654--47268826 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
47268644 AACCCGCCCC
* * *
47268654 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47268700 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
47268748 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47268793 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47268827 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47269283 original size:30 final size:30
Alignment explanation
Indices: 47269249--47269308 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47269239 ATTTAATACG
47269249 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47269279 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47269309 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47272952 original size:18 final size:18
Alignment explanation
Indices: 47272929--47272965 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47272919 ACAACCGGCA
47272929 CTGATTCAACTTTCTTTT
1 CTGATTCAACTTTCTTTT
47272947 CTGATTCAACTTTCTTTT
1 CTGATTCAACTTTCTTTT
47272965 C
1 C
47272966 AACTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.54
Consensus pattern (18 bp):
CTGATTCAACTTTCTTTT
Found at i:47290866 original size:30 final size:30
Alignment explanation
Indices: 47290832--47290889 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
47290822 ATTTTCAGGC
*
47290832 CTAGGGGTAAAATGGTCATTTTACCAAAAT
1 CTAGGGGGAAAATGGTCATTTTACCAAAAT
*
47290862 CTAGGGGGAAAATGGTTATTTTACCAAA
1 CTAGGGGGAAAATGGTCATTTTACCAAA
47290890 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (30 bp):
CTAGGGGGAAAATGGTCATTTTACCAAAAT
Found at i:47291284 original size:46 final size:45
Alignment explanation
Indices: 47291231--47291446 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
47291221 ATTGAGGGCT
* *
47291231 AGTGTAAGACATGTCCGGGACATGCATCAGCCATATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCAT-TGA-GACGAAGCC
* * *
47291277 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAAGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATTGAGACGAA-GCC
*
47291325 AGTGTAAGACATGTCTGGGACATGCATCGACC-TCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCATTGAGACG-AAGCC
* * * *
47291371 AGTGTAAGACATGTCTGGGACATGCATCGGC-TACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCAT-TGAGACGA-AGCC
*
47291417 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
47291447 AACACAAGAC
Statistics
Matches: 146, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
45 5 0.03
46 73 0.50
47 48 0.33
48 20 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATTGAGACGAAGCC
Found at i:47291298 original size:47 final size:45
Alignment explanation
Indices: 47291231--47291496 Score: 177
Period size: 47 Copynumber: 5.7 Consensus size: 45
47291221 ATTGAGGGCT
* *
47291231 AGTGTAAGACATGTCCGGGACAT-GCATCAGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCATA-GA-GAGAGCC
* * * *
47291277 AGTGTAAGACCATGTCTGGGACATGGCAT-TGGCATTGAGACGAAGGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCCATAGAGA-G-A-GCC
*
47291325 AGTGTAAGACATGTCTGGGACAT-GCATC-GACC-TCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-CCATAGAGA-G--AGCC
* * * * *
47291371 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCA-TAGA-GAGAGCC
* * * *
47291417 AGTGTAAGACCATGTTTGGGACATGGCATCAACACA-AGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGC-CATAGA-GAGAGCC
* *
47291464 AGTGTAAGATCGTGTCTGGGACATCGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGC
47291497 ACCTTACCCA
Statistics
Matches: 177, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.01
46 66 0.37
47 83 0.47
48 23 0.13
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCATAGAGAGAGCC
Found at i:47291483 original size:140 final size:141
Alignment explanation
Indices: 47291231--47291493 Score: 345
Period size: 140 Copynumber: 1.9 Consensus size: 141
47291221 ATTGAGGGCT
* *
47291231 AGTGTAAGACATGTCCGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
*** **
47291296 GACATGGCATTGGCATTGAGACGAAGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATGGCATCAACATCAAGACGAAGGCTAGTGTAAGACATGTCTGGGACATCGCATCGACCTCG
47291360 AGACGTAAGCC
131 AGACGTAAGCC
* * * * * *
47291371 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTG
*
47291435 GGACATGGCATCAACA-CAAGACG-AGTGCTAGTGTAAGATCGTGTCTGGGACATCGCATC
65 GGACATGGCATCAACATCAAGACGAAG-GCTAGTGTAAGA-CATGTCTGGGACATCGCATC
47291494 AGCACCTTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 2 0.02
139 17 0.16
140 80 0.76
141 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (141 bp):
AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAACATCAAGACGAAGGCTAGTGTAAGACATGTCTGGGACATCGCATCGACCTCG
AGACGTAAGCC
Found at i:47297789 original size:37 final size:32
Alignment explanation
Indices: 47297721--47297786 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
47297711 CTTCATAACA
47297721 AAATCACAAATACATATTCAATTCATTAACTT
1 AAATCACAAATACATATTCAATTCATTAACTT
47297753 AAATCACAAATACATATTCAATTCATTAACTT
1 AAATCACAAATACATATTCAATTCATTAACTT
47297785 AA
1 AA
47297787 CTTTTCAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (32 bp):
AAATCACAAATACATATTCAATTCATTAACTT
Found at i:47303641 original size:167 final size:167
Alignment explanation
Indices: 47303365--47303698 Score: 668
Period size: 167 Copynumber: 2.0 Consensus size: 167
47303355 ACTCATTCTC
47303365 ATATTTGATCACAGTAATAATCCTTCAATAACGAAACTCTGTAATTCCACACTTGTAAGCTTATT
1 ATATTTGATCACAGTAATAATCCTTCAATAACGAAACTCTGTAATTCCACACTTGTAAGCTTATT
47303430 TAAGCCATATAATACGGATTTCATTACAATACTCTACTGATGATGGTGGTGAGGGTCATAAAGCC
66 TAAGCCATATAATACGGATTTCATTACAATACTCTACTGATGATGGTGGTGAGGGTCATAAAGCC
47303495 TCAAATTTATATCTCACATATACATGCACATCACACA
131 TCAAATTTATATCTCACATATACATGCACATCACACA
47303532 ATATTTGATCACAGTAATAATCCTTCAATAACGAAACTCTGTAATTCCACACTTGTAAGCTTATT
1 ATATTTGATCACAGTAATAATCCTTCAATAACGAAACTCTGTAATTCCACACTTGTAAGCTTATT
47303597 TAAGCCATATAATACGGATTTCATTACAATACTCTACTGATGATGGTGGTGAGGGTCATAAAGCC
66 TAAGCCATATAATACGGATTTCATTACAATACTCTACTGATGATGGTGGTGAGGGTCATAAAGCC
47303662 TCAAATTTATATCTCACATATACATGCACATCACACA
131 TCAAATTTATATCTCACATATACATGCACATCACACA
47303699 TACTATTATG
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 167 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (167 bp):
ATATTTGATCACAGTAATAATCCTTCAATAACGAAACTCTGTAATTCCACACTTGTAAGCTTATT
TAAGCCATATAATACGGATTTCATTACAATACTCTACTGATGATGGTGGTGAGGGTCATAAAGCC
TCAAATTTATATCTCACATATACATGCACATCACACA
Found at i:47304918 original size:32 final size:32
Alignment explanation
Indices: 47304880--47304974 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
47304870 CAATTGAATC
*
47304880 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
*
47304912 TTCGTACATACCTGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
* * * *
47304944 TCCGTAAATACCTGTATCATCTCGTACCAAT
1 TCCGTACATACCTGTACCATATTGTACCAAT
47304975 CTCATACTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTGTACCAATT
Found at i:47313798 original size:42 final size:43
Alignment explanation
Indices: 47313752--47313856 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
47313742 TCCTAGATAG
* * * *
47313752 GGTCTTACACGAACTCATATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAACTCACAAATCGATGCCAACGTCCCAGACAT
* *
47313794 GGTCTTACACGTAAGTCACAAATCGATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AACTCACAAATCGATGCCAACGTCCCAGACAT
* *
47313838 GGCCTTACACGAAATCACA
1 GGTCTTACACGAACTCACA
47313857 TATTGGAATC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 11 0.21
43 14 0.26
44 28 0.53
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
GGTCTTACACGAACTCACAAATCGATGCCAACGTCCCAGACAT
Found at i:47321218 original size:21 final size:22
Alignment explanation
Indices: 47321192--47321233 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
47321182 GTGTATTTTG
47321192 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
47321213 ATGTTTATGGTTAGAGAAATG
1 ATGTTTATGGTTAGAGAAATG
47321234 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:47338718 original size:13 final size:13
Alignment explanation
Indices: 47338700--47338724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47338690 TACATGATAT
47338700 GTGTGAAAATTTC
1 GTGTGAAAATTTC
47338713 GTGTGAAAATTT
1 GTGTGAAAATTT
47338725 TATCGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Done.