Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007549.1 Hibiscus syriacus cultivar Beakdansim tig00021166_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 66916
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Found at i:5878 original size:26 final size:27
Alignment explanation
Indices: 5842--5902 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
5832 AGTTTACAAA
*
5842 ATTTGAAGTTTATGA-TAATTCATAGG
1 ATTTGGAGTTTATGAGTAATTCATAGG
*
5868 ATTTGGAGTTTATGATGTAATTTATAGG
1 ATTTGGAGTTTATGA-GTAATTCATAGG
*
5896 GTTTGGA
1 ATTTGGA
5903 TTAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 14 0.47
28 16 0.53
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.44
Consensus pattern (27 bp):
ATTTGGAGTTTATGAGTAATTCATAGG
Found at i:7772 original size:68 final size:67
Alignment explanation
Indices: 7639--7868 Score: 237
Period size: 68 Copynumber: 3.4 Consensus size: 67
7629 TACGATAATA
* * * * * *
7639 TGCTCCCTTGTGATTCACTCTAATCCTTTGGAGCTCCCGTGCGAGTCAACCAAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCATTCGGGGCT-CCGTGCGAGTC-ACCAAAATAATTACGAT
7704 TAGG
64 TAGG
* * * *
7708 TGCTCTCGTGCAAGTCACTCTAATCATTCGGGGCTCCGTGCAAGTCATCCGAAATAATTACGATT
1 TGCTCCCGTGCGAGTCACTCTAATCATTCGGGGCTCCGTGCGAGTCA-CCAAAATAATTACGATT
7773 AGG
65 AGG
* * * ** * *
7776 TGCTCCCGTGTGAGTCACTCTATTCATTC-TGGCTTTTGTGCGAGTCACCCAGAATAATCACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCATTCGGGGC-TCCGTGCGAGTCA-CCAAAATAATTACGAT
*
7840 TTGG
64 TAGG
*
7844 TGCTCCCTTGCGAGTCACTCTAATC
1 TGCTCCCGTGCGAGTCACTCTAATC
7869 CTTCTCCTGT
Statistics
Matches: 133, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
67 4 0.03
68 102 0.77
69 27 0.20
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (67 bp):
TGCTCCCGTGCGAGTCACTCTAATCATTCGGGGCTCCGTGCGAGTCACCAAAATAATTACGATTA
GG
Found at i:8136 original size:25 final size:26
Alignment explanation
Indices: 8103--8151 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
8093 TGAAATGAAT
*
8103 ACATAATTTTAGCACT-AAACTTATG
1 ACATAATTTCAGCACTGAAACTTATG
* *
8128 ACATGATTTCAGCAGTGAAACTTA
1 ACATAATTTCAGCACTGAAACTTA
8152 ACATTGACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (26 bp):
ACATAATTTCAGCACTGAAACTTATG
Found at i:8151 original size:76 final size:76
Alignment explanation
Indices: 8027--8882 Score: 1037
Period size: 76 Copynumber: 11.3 Consensus size: 76
8017 ACATTAACAT
* * * *
8027 GTAATTCCAGCACTAAA-TTAAACACATACAATTCTAGCAGTGAAACTTAACAATGACTTGCACC
1 GTAATTCCAGCACTAAACTT-ATCACAT--AATTCCAGCAGTGAAACTTAACATTGACTTACACC
8091 AGTGAAATGAATAC
63 AGTGAAATGAATAC
* ** * * *
8105 ATAATTTTAGCACTAAACTTATGACATGATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
8170 GAAATGAATAC
66 GAAATGAATAC
* * * * * * * *
8181 GTAATTCAAGCACCAAACTTATCACATCATTTCAGTAGTGAAATTTAACATTGACCTACACCA-A
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
8245 AAAATGAATAC
66 GAAATGAATAC
* * * **
8256 GTAATTCCAGAACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
8321 GAAATGAATAT
66 GAAATGAATAC
* * *
8332 GCAATTCCAACACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
8397 GAAATGAATAT
66 GAAATGAATAC
* * *
8408 GTAATTTCAGCACTAAACTTATCACCTAATTCCAGCAATGAAA-TTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
* * *
8472 AAAATAAATAT
66 GAAATGAATAC
* * * *
8483 GTAATTCCAACACTAAACTTATCACATAATTCCAGTAGCGAAACTTAACATTGACTTACATCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
8548 GAAATGAATAC
66 GAAATGAATAC
* * *
8559 GTAATTCTAGCACTAAACTTATCACATAATTCCCA-CAGTGAAATTTAACA-TGACTTACACCAA
1 GTAATTCCAGCACTAAACTTATCACATAATT-CCAGCAGTGAAACTTAACATTGACTTACACCAG
*
8622 TGAAACGAATAC
65 TGAAATGAATAC
* * * *
8634 GTAATTCCAGCACTAAACTTATCACATAATTTCTGCAGTGAAACTTGACATTGACTTACACCAGC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
8699 GAAATGAATAC
66 GAAATGAATAC
* * * * * * * *
8710 ATGATTCCAACATTAAATTTATCACCTAATTCCAGTAGTGAAACTTAACATTGACTTAAACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
8775 G-AATGAATAT
66 GAAATGAATAC
* * * *
8785 GTAAATTCCAGCACTAAACGTT-TCACATAAGTCAAGGAGTG-AA-TTGAACATTGACTTACACT
1 GT-AATTCCAGCACTAAAC-TTATCACATAATTCCAGCAGTGAAACTT-AACATTGACTTACACC
8847 AGTGAAATGAATAC
63 AGTGAAATGAATAC
*
8861 GTAATTCCATCACTAAACTTAT
1 GTAATTCCAGCACTAAACTTAT
8883 GATTTCACAT
Statistics
Matches: 667, Mismatches: 100, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
74 5 0.01
75 242 0.36
76 394 0.59
77 5 0.01
78 19 0.03
79 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:8273 original size:151 final size:152
Alignment explanation
Indices: 8025--8882 Score: 1011
Period size: 151 Copynumber: 5.7 Consensus size: 152
8015 GAACATTAAC
* * * * *
8025 ATGTAATTCCAGCACTAAA-TTAAACACATACAATTCTAGCAGTGAAACTTAACAATGACTTGCA
1 ATGTAATTCAAGCACTAAACTT-ATCACATA-ATTTC-AGCAGTGAAACTTAACATTGACTTACA
* ** * * *
8089 CCAGTGAAATGAATACATAATTTTAGCACTAAACTTATGACATGATTTCAGCAGTGAAACTTAAC
63 CCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAAC
8154 ATTGACTTACACCAGTGAAATGAAT
128 ATTGACTTACACCAGTGAAATGAAT
* * * * * *
8179 ACGTAATTCAAGCACCAAACTTATCACATCATTTCAGTAGTGAAATTTAACATTGACCTACACCA
1 ATGTAATTCAAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
** * *
8244 -AAAAATGAATACGTAATTCCAGAACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATT
66 GTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATT
* **
8308 AACTTACACCAACGAAATGAAT
131 GACTTACACCAGTGAAATGAAT
* * *
8330 ATGCAATTCCAA-CACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACC
1 ATGTAATT-CAAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACC
* * * *
8394 AGTGAAATGAATATGTAATTTCAGCACTAAACTTATCACCTAATTCCAGCAATGAAA-TTAACAT
65 AGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACAT
* *
8458 TGACTTACACCAGTAAAATAAAT
130 TGACTTACACCAGTGAAATGAAT
* * * *
8481 ATGTAATTCCAA-CACTAAACTTATCACATAATTCCAGTAGCGAAACTTAACATTGACTTACATC
1 ATGTAATT-CAAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACC
* *
8545 AGTGAAATGAATACGTAATTCTAGCACTAAACTTATCACATAATTCCCA-CAGTGAAATTTAACA
65 AGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATT-CCAGCAGTGAAACTTAACA
* *
8609 -TGACTTACACCAATGAAACGAAT
129 TTGACTTACACCAGTGAAATGAAT
* * * *
8632 ACGTAATTCCAGCACTAAACTTATCACATAATTTCTGCAGTGAAACTTGACATTGACTTACACCA
1 ATGTAATTCAAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
* * * * * * * *
8697 GCGAAATGAATACATGATTCCAACATTAAATTTATCACCTAATTCCAGTAGTGAAACTTAACATT
66 GTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATT
*
8762 GACTTAAACCAGTG-AATGAAT
131 GACTTACACCAGTGAAATGAAT
* * *
8783 ATGTAAATTCCAGCACTAAACGTT-TCACATAA-GTCAAGGAGTG-AA-TTGAACATTGACTTAC
1 ATGT-AATTCAAGCACTAAAC-TTATCACATAATTTC-AGCAGTGAAACTT-AACATTGACTTAC
* *
8844 ACTAGTGAAATGAATACGTAATTCCATCACTAAACTTAT
62 ACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTAT
8883 GATTTCACAT
Statistics
Matches: 599, Mismatches: 93, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
150 7 0.01
151 436 0.73
152 126 0.21
153 6 0.01
154 22 0.04
155 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (152 bp):
ATGTAATTCAAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
GTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATT
GACTTACACCAGTGAAATGAAT
Found at i:8489 original size:227 final size:228
Alignment explanation
Indices: 8027--8882 Score: 1075
Period size: 227 Copynumber: 3.8 Consensus size: 228
8017 ACATTAACAT
* * * * * *
8027 GTAATTCCAGCACTAAA-TTAAACACATACAATTCTAGCAGTGAAACTTAACAATGACTTGCACC
1 GTAATTCCAACACTAAACTT-ATCACAT--AATTCCAGTAGTGAAACTTAACATTGACTTACACC
* ** * * * *
8091 AGTGAAATGAATACATAATTTTAGCACTAAACTTATGACATGATTTCAGCAGTGAAACTTAACAT
63 AGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACAT
* * * *
8156 TGACTTACACCAGTGAAATGAATACGTAATTCAAGCACCAAACTTATCACATCATTTCAGTAGTG
128 TGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTG
* *
8221 AAATTTAACATTGACCTACACCA-AAAAATGAATAC
193 AAACTTAACATTGACTTACACCAGAAAAATGAATAC
* *
8256 GTAATTCCAGA-ACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATTAACTTACACCAA
1 GTAATTCCA-ACACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATTGACTTACACCAG
* * * *
8320 CGAAATGAATATGCAATTCCAACACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTG
65 TGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTG
* * * * *
8385 ACTTACACCAGTGAAATGAATATGTAATTTCAGCACTAAACTTATCACCTAATTCCAGCAATGAA
130 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAA
* * *
8450 A-TTAACATTGACTTACACCAGTAAAATAAATAT
195 ACTTAACATTGACTTACACCAGAAAAATGAATAC
* *
8483 GTAATTCCAACACTAAACTTATCACATAATTCCAGTAGCGAAACTTAACATTGACTTACATCAGT
1 GTAATTCCAACACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATTGACTTACACCAGT
* * *
8548 GAAATGAATACGTAATTCTAGCACTAAACTTATCACATAATTCCCACAGTGAAATTTAACA-TGA
66 GAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGA
* * *
8612 CTTACACCAATGAAACGAATACGTAATTCCAGCACTAAACTTATCACATAATTTCTGCAGTGAAA
131 CTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAA
* **
8677 CTTGACATTGACTTACACCAGCGAAATGAATAC
196 CTTAACATTGACTTACACCAGAAAAATGAATAC
* * * * * *
8710 ATGATTCCAACATTAAATTTATCACCTAATTCCAGTAGTGAAACTTAACATTGACTTAAACCAGT
1 GTAATTCCAACACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATTGACTTACACCAGT
* * *
8775 G-AATGAATATGTAAATTCCAGCACTAAACGTT-TCACATAAGT-CAAGGAGTG-AA-TTGAACA
66 GAAATGAATACGT-AATTCCAGCACTAAAC-TTATCACATAATTCCAA-CAGTGAAACTT-AACA
* *
8835 TTGACTTACACTAGTGAAATGAATACGTAATTCCATCACTAAACTTAT
127 TTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTAT
8883 GATTTCACAT
Statistics
Matches: 544, Mismatches: 73, Indels: 22
0.85 0.11 0.03
Matches are distributed among these distances:
225 2 0.00
226 97 0.18
227 420 0.77
228 2 0.00
229 21 0.04
230 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (228 bp):
GTAATTCCAACACTAAACTTATCACATAATTCCAGTAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGA
CTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAA
CTTAACATTGACTTACACCAGAAAAATGAATAC
Found at i:17484 original size:25 final size:25
Alignment explanation
Indices: 17456--17507 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
17446 TTGATCGACT
* *
17456 GTTGACCATTGATCGACTGTTGACC
1 GTTGACCATTGATCGACCGTTAACC
*
17481 GTTGACCGTTGATCGACCGTTAACC
1 GTTGACCATTGATCGACCGTTAACC
17506 GT
1 GT
17508 AAGCTGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (25 bp):
GTTGACCATTGATCGACCGTTAACC
Found at i:17501 original size:18 final size:18
Alignment explanation
Indices: 17438--17485 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
17428 CAGTCCGATC
17438 GTTGACCATTGATCGACT
1 GTTGACCATTGATCGACT
17456 GTTGACCATTGATCGACT
1 GTTGACCATTGATCGACT
*
17474 GTTGACCGTTGA
1 GTTGACCATTGA
17486 CCGTTGATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (18 bp):
GTTGACCATTGATCGACT
Found at i:18359 original size:39 final size:39
Alignment explanation
Indices: 18305--18466 Score: 155
Period size: 39 Copynumber: 4.2 Consensus size: 39
18295 ATCGCTTTCC
** * *
18305 GCAGGCTCCTCGGCTTTGTGCTTAGGGTAAGTCCTTACA
1 GCAGGCTCCTCGGCTTTGTGCACAGGATAAGACCTTACA
*** * *
18344 GCAGGCTCCTCGGCTTTGTGTTTAGGGTAAGTCCTTACTA
1 GCAGGCTCCTCGGCTTTGTGCACAGGATAAGACCTTAC-A
* * * *
18384 -CAGACTCATCTGCTTTGTGCACAGGATAAGACCTTACT
1 GCAGGCTCCTCGGCTTTGTGCACAGGATAAGACCTTACA
* ** *
18422 GCATGCTCCTATGCTTTGTGCACAGGATAAGACCTTACT
1 GCAGGCTCCTCGGCTTTGTGCACAGGATAAGACCTTACA
18461 GCAGGC
1 GCAGGC
18467 GTCTCTACCT
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 105 0.99
40 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (39 bp):
GCAGGCTCCTCGGCTTTGTGCACAGGATAAGACCTTACA
Found at i:18458 original size:78 final size:78
Alignment explanation
Indices: 18317--18500 Score: 181
Period size: 78 Copynumber: 2.4 Consensus size: 78
18307 AGGCTCCTCG
** * * * *** * *
18317 GCTTTGTGCTTAGGGTAAGTCCTTACAGCAGGCTCCTCGGCTTTGTGTTTAGGGTAAGTCCTTAC
1 GCTTTGTGCACAGGGTAAGACCTTACTGCAGGCTCCTAGGCTTTGTGCACAGGATAAGACCTTAC
18382 TACAGAC-TCATCT
66 TACAGACGTC-TCT
* * *
18395 GCTTTGTGCACAGGATAAGACCTTACTGCATGCTCCTATGCTTTGTGCACAGGATAAGACCTTAC
1 GCTTTGTGCACAGGGTAAGACCTTACTGCAGGCTCCTAGGCTTTGTGCACAGGATAAGACCTTAC
* *
18460 TGCAGGCGTCTCT
66 TACAGACGTCTCT
* * * *
18473 ACCTTATGCACAGGGTAAGCCCTTACTG
1 GCTTTGTGCACAGGGTAAGACCTTACTG
18501 GGTGTACAGG
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
78 83 0.98
79 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (78 bp):
GCTTTGTGCACAGGGTAAGACCTTACTGCAGGCTCCTAGGCTTTGTGCACAGGATAAGACCTTAC
TACAGACGTCTCT
Found at i:18483 original size:39 final size:38
Alignment explanation
Indices: 18401--18500 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 38
18391 ATCTGCTTTG
* * *
18401 TGCACAGGATAAGACCTTACTGCATGCTCCTATGCTTTG
1 TGCACAGGATAAGACCTTACTGCAGGCTCCTA-GCCTTA
18440 TGCACAGGATAAGACCTTACTGCAGGCGTCTCTA-CCTTA
1 TGCACAGGATAAGACCTTACTGCAGGC-TC-CTAGCCTTA
* *
18479 TGCACAGGGTAAGCCCTTACTG
1 TGCACAGGATAAGACCTTACTG
18501 GGTGTACAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 49 0.91
40 2 0.04
41 3 0.06
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (38 bp):
TGCACAGGATAAGACCTTACTGCAGGCTCCTAGCCTTA
Found at i:24632 original size:39 final size:39
Alignment explanation
Indices: 24564--24794 Score: 241
Period size: 39 Copynumber: 5.9 Consensus size: 39
24554 CTTTCCGCAT
* * * * *
24564 GCTCATCGGTTTTATGCTCAGGGTAAGTCCTTACAGCAG
1 GCTCCTCGGCTTTGTGCACAGGGTAAGTCCTTACTGCAG
* *
24603 GCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGTAG
1 GCTCCTCGGCTTTGTGCACAGGGTAAGTCCTTACTGCAG
* ** *
24642 GCTCATCGGCTTTGTGCTTAGGGTAAGTCTTTACTGCAG
1 GCTCCTCGGCTTTGTGCACAGGGTAAGTCCTTACTGCAG
* * * *
24681 AG-TTCTCTGCTTTGTGCACAGGATAAGACCTTACTGCAG
1 -GCTCCTCGGCTTTGTGCACAGGGTAAGTCCTTACTGCAG
* ** *
24720 GCTCCTCTGCTTTGTGCACAGTATAAGACCTTACTGCAG
1 GCTCCTCGGCTTTGTGCACAGGGTAAGTCCTTACTGCAG
* *
24759 GCGCCTCTGCTTTGTGCACAGGGTAAG-CTCTTACTG
1 GCTCCTCGGCTTTGTGCACAGGGTAAGTC-CTTACTG
24795 GGTGTACAGG
Statistics
Matches: 167, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
38 2 0.01
39 164 0.98
40 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.32
Consensus pattern (39 bp):
GCTCCTCGGCTTTGTGCACAGGGTAAGTCCTTACTGCAG
Found at i:24697 original size:78 final size:77
Alignment explanation
Indices: 24564--24794 Score: 266
Period size: 78 Copynumber: 3.0 Consensus size: 77
24554 CTTTCCGCAT
* * * * *
24564 GCTCATCGGTTTTATGCTCAGGGTAAGTCCTTACAGCAGGCTCCTCGGCTTTGTGCTCAGGGTAA
1 GCTCATCGGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCTGCTTTGTGCACAGGGTAA
*
24629 GTCCTTACTGTAG
66 G-CCTTACTGCAG
* * * *
24642 GCTCATCGGCTTTGTGCTTAGGGTAAGTCTTTACTGCAGAG-TTCTCTGCTTTGTGCACAGGATA
1 GCTCATCGGCTTTGTGCTCAGGGTAAGTCCTTACTGCAG-GCTCCTCTGCTTTGTGCACAGGGTA
24706 AGACCTTACTGCAG
65 AG-CCTTACTGCAG
* * * ** * *
24720 GCTCCTCTGCTTTGTGCACAGTATAAGACCTTACTGCAGGCGCCTCTGCTTTGTGCACAGGGTAA
1 GCTCATCGGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCTGCTTTGTGCACAGGGTAA
24785 GCTCTTACTG
66 GC-CTTACTG
24795 GGTGTACAGG
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
77 2 0.02
78 125 0.98
79 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.32
Consensus pattern (77 bp):
GCTCATCGGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCTGCTTTGTGCACAGGGTAA
GCCTTACTGCAG
Found at i:26707 original size:2 final size:2
Alignment explanation
Indices: 26700--26748 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
26690 CAAATTGTAT
26700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26742 TA -A TA TA
1 TA TA TA TA
26749 GCCTCATATG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:28778 original size:69 final size:68
Alignment explanation
Indices: 28600--28778 Score: 225
Period size: 69 Copynumber: 2.6 Consensus size: 68
28590 AAATACCCCT
* * *
28600 TGTGAGTCACTCTAATCATTCGGAGCTCCCGTGCGAGCCAACCGAAATAATTACGATTAGGTGCT
1 TGTGAGTCACTCTAATCCTTCGG-GCTCCCGTGCGAGTCACCCGAAATAATTACGATTAGGTGCT
28665 CCCG
65 CCCG
** *
28669 TGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGC-ATGTCACCCGAGATAATTACGATTAGGTGC
1 TGTGAGTCACTCTAATCCTTC-GGGCTCCCGTGCGA-GTCACCCGAAATAATTACGATTAGGTGC
*
28733 TCCTG
64 TCCCG
* **
28738 TGTGAGTCACTCTATTCCTTCAGGGCTTTCGTGCGAGTCAC
1 TGTGAGTCACTCTAATCCTTC-GGGCTCCCGTGCGAGTCAC
28779 TCTATTCCTT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 1 0.01
69 90 0.96
70 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (68 bp):
TGTGAGTCACTCTAATCCTTCGGGCTCCCGTGCGAGTCACCCGAAATAATTACGATTAGGTGCTC
CCG
Found at i:28779 original size:31 final size:31
Alignment explanation
Indices: 28741--28809 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
28731 GCTCCTGTGT
28741 GAGTCACTCTATTCCTTCAGGGCTTTCGTGC
1 GAGTCACTCTATTCCTTCAGGGCTTTCGTGC
**
28772 GAGTCACTCTATTCCTTTGGGGCTTTCGTGC
1 GAGTCACTCTATTCCTTCAGGGCTTTCGTGC
28803 GAGTCAC
1 GAGTCAC
28810 CCAGAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.13, C:0.28, G:0.25, T:0.35
Consensus pattern (31 bp):
GAGTCACTCTATTCCTTCAGGGCTTTCGTGC
Found at i:28802 original size:100 final size:100
Alignment explanation
Indices: 28667--28864 Score: 256
Period size: 100 Copynumber: 2.0 Consensus size: 100
28657 TAGGTGCTCC
*
28667 CGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGC-ATGTCACCC-GAGATAATTACGATTAGG
1 CGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCGA-GTCACCCAGA-ATAATCACGATTAGG
* * *
28730 TGCTCCTGTGTGAGTCACTCTATTCCTTCAGGGCTTT
64 TGCTCCTGTGCGAATCACTCTAATCCTTCAGGGCTTT
* * * ** *
28767 CGTGCGAGTCACTCTATTCCTTTGGGGCTTTCGTGCGAGTCACCCAGAATAATCATGATTAGGTG
1 CGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCACCCAGAATAATCACGATTAGGTG
* *
28832 CTCCTTTGCGAATCACTCTAATCCTTCATGGCT
66 CTCCTGTGCGAATCACTCTAATCCTTCAGGGCT
28865 CCTGTGCCAG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 81 0.96
101 3 0.04
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (100 bp):
CGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCACCCAGAATAATCACGATTAGGTG
CTCCTGTGCGAATCACTCTAATCCTTCAGGGCTTT
Found at i:29144 original size:76 final size:76
Alignment explanation
Indices: 29047--29570 Score: 658
Period size: 76 Copynumber: 6.9 Consensus size: 76
29037 AACACATTAC
* * * *
29047 AATTCTAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCTAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
*
29112 ATTTA-CGACAT
66 ACTTATC-ACAT
** * * * *
29123 GCTTTCAGCAGTGAAACTTAACATTAATTTACACCAGTGAAAT-AATACGTAATT-CAAGCACCA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAA-CACTA
*
29186 AATTTATCACAT
65 AACTTATCACAT
* * ** * ** * *
29198 CATTTCAATAGTGAAATTTAACATTGACTTACACCAGCAAAATGAATACGTAATTTCAACGCTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
29263 ACTTATCACAT
66 ACTTATCACAT
* * ** *
29274 AATTCCAGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATACGTGATTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
29339 ACTTATCACAT
66 ACTTATCACAT
* **
29350 AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGGACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
*
29415 ACTTATCACCT
66 ACTTATCACAT
* * *
29426 AATTCCAGCAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
*
29491 ACTTATCACGT
66 ACTTATCACAT
* * * * *
29502 AATTCCAGCAGCGAAACTTAACATTGACTTACATCAGCGAAATGAATACATAACTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
29567 ACTT
66 ACTT
29571 TGAAGCTTAA
Statistics
Matches: 388, Mismatches: 56, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
74 1 0.00
75 58 0.15
76 326 0.84
77 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (76 bp):
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
ACTTATCACAT
Found at i:29507 original size:228 final size:227
Alignment explanation
Indices: 29047--29570 Score: 726
Period size: 228 Copynumber: 2.3 Consensus size: 227
29037 AACACATTAC
* * * *
29047 AATTCTAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCTAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAACACTAA
* ** * * *
29112 ATTTACGACATGCTTTCAGCAGTGAAACTTAACATTAATTTACACCAGTGAAATAATACGTAATT
66 ACTTACGACATAATTCCAACAGTGAAACTTAACATTAACTTACACCAGTGAAATAATACGTAATT
* * * * *
29177 CAAGCACCAAATTTATCACATCATTTCAATAGTGAAATTTAACATTGACTTACACCAGCAAAATG
131 CAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGCAAAATG
* *
29242 AATACGTAATTTCAACGCTAAACTTATCACAT
196 AATACGTAATTCCAACACTAAACTTATCACAT
* * * * *
29274 AATTCCAGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATACGTGATTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAACACTAA
*
29339 ACTTATC-ACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAA
66 ACTTA-CGACATAATTCCAACAGTGAAACTTAACATTAACTTACACCAGTGAAAT-AATACGTAA
* * * * * *
29403 TTCCAGGACTAAACTTATCACCTAATTCCAGCAATGAAATTTAACATTGACTTACACCAGTAAAA
129 TTCAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGCAAAA
*
29468 TGAATACGTAATTCCAACACTAAACTTATCACGT
194 TGAATACGTAATTCCAACACTAAACTTATCACAT
* * *
29502 AATTCCAGCAGCGAAACTTAACATTGACTTACATCAGCGAAATGAATACATAACTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAACACTAA
29567 ACTT
66 ACTT
29571 TGAAGCTTAA
Statistics
Matches: 257, Mismatches: 38, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
227 101 0.39
228 156 0.61
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (227 bp):
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAACACTAA
ACTTACGACATAATTCCAACAGTGAAACTTAACATTAACTTACACCAGTGAAATAATACGTAATT
CAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGCAAAATG
AATACGTAATTCCAACACTAAACTTATCACAT
Found at i:29683 original size:134 final size:134
Alignment explanation
Indices: 29443--29705 Score: 355
Period size: 134 Copynumber: 2.0 Consensus size: 134
29433 GCAATGAAAT
* *
29443 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACGTAATTCC
1 TTAACATTGACTTACACCAGTAAAATGAAAACGTAATTCCAACACTAAACTTATCACATAATTCC
*
29508 AGCAGCGAAACTTAACATTGACTTACATCAGCGAAATGAATACATAACTCCAACACTAAACTTTG
66 AGCAGCGAAACTTAACATTGACTTACAACAGCGAAATGAATACATAACTCCAACACTAAACTTTG
29573 AAGC
131 AAGC
* * * * * * *
29577 TTAACATTGACTTACATCATTGAAATGAAAATGTAATTCTACCACTAAACTTGTCACATAATTCC
1 TTAACATTGACTTACACCAGTAAAATGAAAACGTAATTCCAACACTAAACTTATCACATAATTCC
* * * * * * * * *
29642 CGTAGTGAAATTTAACATTGACTTACAACAGTGAAATGAATACGTAATTCTAGCACTAAACTTT
66 AGCAGCGAAACTTAACATTGACTTACAACAGCGAAATGAATACATAACTCCAACACTAAACTTT
29706 TCACATAATT
Statistics
Matches: 110, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
134 110 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (134 bp):
TTAACATTGACTTACACCAGTAAAATGAAAACGTAATTCCAACACTAAACTTATCACATAATTCC
AGCAGCGAAACTTAACATTGACTTACAACAGCGAAATGAATACATAACTCCAACACTAAACTTTG
AAGC
Found at i:29703 original size:76 final size:76
Alignment explanation
Indices: 29577--29717 Score: 228
Period size: 76 Copynumber: 1.9 Consensus size: 76
29567 ACTTTGAAGC
* * *
29577 TTAACATTGACTTACATCATTGAAATGAAAATGTAATTCTACCACTAAACTTGTCACATAATTCC
1 TTAACATTGACTTACAACAGTGAAATGAAAACGTAATTCTACCACTAAACTTGTCACATAATTCC
29642 CGTAGTGAAAT
66 CGTAGTGAAAT
* * *
29653 TTAACATTGACTTACAACAGTGAAATGAATACGTAATTCTAGCACTAAACTTTTCACATAATTCC
1 TTAACATTGACTTACAACAGTGAAATGAAAACGTAATTCTACCACTAAACTTGTCACATAATTCC
29718 TGCAGTTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (76 bp):
TTAACATTGACTTACAACAGTGAAATGAAAACGTAATTCTACCACTAAACTTGTCACATAATTCC
CGTAGTGAAAT
Found at i:30941 original size:18 final size:17
Alignment explanation
Indices: 30899--30971 Score: 110
Period size: 18 Copynumber: 4.2 Consensus size: 17
30889 CGGTCACAAC
*
30899 CCGACCCGACCCGTTTA
1 CCGACCCGACCCGTTGA
*
30916 CCGACCCGACCAGTTGA
1 CCGACCCGACCCGTTGA
30933 CCTGACCCGACCCGTTGA
1 CC-GACCCGACCCGTTGA
30951 CCCGACCCGACCCGTTGA
1 -CCGACCCGACCCGTTGA
30969 CCG
1 CCG
30972 TTGACTGTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 20 0.39
18 29 0.57
19 2 0.04
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.14
Consensus pattern (17 bp):
CCGACCCGACCCGTTGA
Found at i:30970 original size:13 final size:13
Alignment explanation
Indices: 30935--30959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30925 CCAGTTGACC
30935 TGACCCGACCCGT
1 TGACCCGACCCGT
30948 TGACCCGACCCG
1 TGACCCGACCCG
30960 ACCCGTTGAC
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:0.16, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:30974 original size:7 final size:7
Alignment explanation
Indices: 30962--30998 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
30952 CCGACCCGAC
30962 CCGTTGA
1 CCGTTGA
30969 CCGTTGA
1 CCGTTGA
*
30976 CTGTTGA
1 CCGTTGA
30983 CCGTTGA
1 CCGTTGA
30990 CCGTTGA
1 CCGTTGA
30997 CC
1 CC
30999 AAAGTTGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.30, G:0.27, T:0.30
Consensus pattern (7 bp):
CCGTTGA
Found at i:35580 original size:7 final size:7
Alignment explanation
Indices: 35565--35596 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
35555 TTGGTCAACG
35565 ACGGTCA
1 ACGGTCA
*
35572 ACAGTCA
1 ACGGTCA
35579 ACGGTCA
1 ACGGTCA
35586 ACGGTCA
1 ACGGTCA
35593 ACGG
1 ACGG
35597 GTCGGGTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.12
Consensus pattern (7 bp):
ACGGTCA
Found at i:35611 original size:18 final size:17
Alignment explanation
Indices: 35587--35657 Score: 97
Period size: 18 Copynumber: 4.1 Consensus size: 17
35577 CAACGGTCAA
35587 CGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
35604 CGGGTCAACGGGTCGGGT
1 C-GGTCAACGGGTCGGGT
*
35622 CAGGTCAACTGGTCGGGT
1 C-GGTCAACGGGTCGGGT
* *
35640 CAGTAAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
35657 C
1 C
35658 TGGTTGTGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.31
18 33 0.69
ACGTcount: A:0.15, C:0.23, G:0.44, T:0.18
Consensus pattern (17 bp):
CGGTCAACGGGTCGGGT
Found at i:35615 original size:13 final size:13
Alignment explanation
Indices: 35599--35623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35589 GTCAACGGGT
35599 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
35612 CGGGTCGGGTCA
1 CGGGTCGGGTCA
35624 GGTCAACTGG
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:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:37808 original size:24 final size:24
Alignment explanation
Indices: 37781--37856 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
37771 TATATCAAAA
37781 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* *
37805 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
37829 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
37853 ATCA
1 ATCA
37857 GATCAGAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.09
24 42 0.91
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:37857 original size:24 final size:24
Alignment explanation
Indices: 37798--37909 Score: 147
Period size: 24 Copynumber: 4.7 Consensus size: 24
37788 CATAAATCAG
* * *
37798 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAA
37822 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
* *
37846 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAA
37870 GTC-AGATATCAGATCAGAAT-CAA
1 GTCAAG-TATCAGATCAGAATCCAA
37893 TGTCAAGTATCAGATCA
1 -GTCAAGTATCAGATCA
37910 TAATTCAAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
23 3 0.04
24 73 0.94
25 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:37929 original size:48 final size:48
Alignment explanation
Indices: 37829--37931 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 48
37819 CAGGTCAAGT
** *
37829 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
*
37877 ATCAGATCAGAAT-CAATGTCAAGTATCAGATCATAAT-TCAAATC-GAAA
1 ATCAGATCAGAATCCAA-GTCAAGTATCAGATCAGAATCT-AAATCAG-AA
37925 ATCAGAT
1 ATCAGAT
37932 AAAATATTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 5 0.10
48 43 0.90
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
Found at i:38849 original size:24 final size:24
Alignment explanation
Indices: 38778--38839 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
38768 TGATCTATTC
* * *
38778 ACTTGACTTGGATTCTGATCTGAT
1 ACTTGACCTGGATTTTGATATGAT
38802 ACTTGACCTGGATTTTGATATGAT
1 ACTTGACCTGGATTTTGATATGAT
38826 ACTTGACCT-GATTT
1 ACTTGACCTGGATTT
38840 ATGTTTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (24 bp):
ACTTGACCTGGATTTTGATATGAT
Found at i:40277 original size:11 final size:11
Alignment explanation
Indices: 40256--40329 Score: 62
Period size: 11 Copynumber: 6.4 Consensus size: 11
40246 AATATATATA
40256 ATATA-AAATT
1 ATATATAAATT
40266 ATATATAAATT
1 ATATATAAATT
* *
40277 ATATTTATATT
1 ATATATAAATT
40288 ATAAACTATATAATT
1 AT--A-TATA-AATT
40303 AT-TATAAACTAT
1 ATATATAAA-T-T
40315 ATATATAAATT
1 ATATATAAATT
40326 ATAT
1 ATAT
40330 TTATGTGAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
10 7 0.13
11 26 0.50
12 4 0.08
13 7 0.13
14 3 0.06
15 5 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATAAATT
Found at i:40299 original size:20 final size:20
Alignment explanation
Indices: 40265--40328 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 20
40255 AATATAAAAT
*
40265 TATA-TATAAA-T-TATATT
1 TATATTATAAACTATATATA
40282 TATATTATAAACTATATA-A
1 TATATTATAAACTATATATA
40301 T-TATTATAAACTATATATA
1 TATATTATAAACTATATATA
*
40320 TAAATTATA
1 TATATTATA
40329 TTTATGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.10
18 22 0.55
19 4 0.10
20 10 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTATAAACTATATATA
Found at i:40560 original size:15 final size:15
Alignment explanation
Indices: 40540--40589 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
40530 TTCGTTGGTG
40540 AACTATATATATATA
1 AACTATATATATATA
*
40555 AAC--TATGTATATA
1 AACTATATATATATA
* *
40568 AAGTATATATGTATA
1 AACTATATATATATA
40583 AACTATA
1 AACTATA
40590 AAAAGTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 11 0.39
15 17 0.61
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
AACTATATATATATA
Found at i:40567 original size:13 final size:13
Alignment explanation
Indices: 40545--40589 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
40535 TGGTGAACTA
40545 TATATATATAAAC
1 TATATATATAAAC
* *
40558 TATGTATATAAAG
1 TATATATATAAAC
40571 TATATATGTATAAAC
1 TATATA--TATAAAC
40586 TATA
1 TATA
40590 AAAAGTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 16 0.62
15 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:40575 original size:9 final size:9
Alignment explanation
Indices: 40561--40618 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
40551 TATAAACTAT
40561 GTATATAAA
1 GTATATAAA
40570 GTATAT--A
1 GTATATAAA
*
40577 -TGTATAAA
1 GTATATAAA
* *
40585 CTATAAAAA
1 GTATATAAA
40594 GTATATAAA
1 GTATATAAA
* *
40603 CTATAAAAA
1 GTATATAAA
40612 GTATATA
1 GTATATA
40619 GTTTATAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
6 4 0.11
7 1 0.03
8 1 0.03
9 31 0.84
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (9 bp):
GTATATAAA
Found at i:40628 original size:18 final size:18
Alignment explanation
Indices: 40579--40618 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
40569 AGTATATATG
40579 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
40597 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
40615 TATA
1 TATA
40619 GTTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
TATAAACTATAAAAAGTA
Found at i:40651 original size:36 final size:36
Alignment explanation
Indices: 40611--40728 Score: 105
Period size: 36 Copynumber: 3.2 Consensus size: 36
40601 AACTATAAAA
40611 AGTATATAGTTTATAAAATATTATTTATATTAATAT
1 AGTATATAGTTTATAAAATATTATTTATATTAATAT
* * * *
40647 AGTATATA-TATATAAAACTA-TATGTATAAACTATATAA
1 AGTATATAGTTTATAAAA-TATTAT-T-TATATTA-ATAT
* *** *
40685 AATATATAGTTTATATGTTATAATTTATATTAATAT
1 AGTATATAGTTTATAAAATATTATTTATATTAATAT
40721 AGTATATA
1 AGTATATA
40729 TATGTATGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
35 11 0.18
36 21 0.34
37 10 0.16
38 13 0.21
39 7 0.11
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.46
Consensus pattern (36 bp):
AGTATATAGTTTATAAAATATTATTTATATTAATAT
Found at i:40677 original size:13 final size:14
Alignment explanation
Indices: 40651--40683 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
40641 TAATATAGTA
40651 TATATATATAAAAC
1 TATATATATAAAAC
*
40665 TATATGTAT-AAAC
1 TATATATATAAAAC
40678 TATATA
1 TATATA
40684 AAATATATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (14 bp):
TATATATATAAAAC
Found at i:40757 original size:28 final size:28
Alignment explanation
Indices: 40715--40770 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
40705 TAATTTATAT
* *
40715 TAATATAGTATATATATGTATGTATAAC
1 TAATATAGTATATATATATATATATAAC
40743 TAATATAAGTAATATATATATATATATA
1 TAATAT-AGT-ATATATATATATATATA
40771 TTAAAGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 3 0.12
30 15 0.62
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (28 bp):
TAATATAGTATATATATATATATATAAC
Found at i:41008 original size:20 final size:20
Alignment explanation
Indices: 40985--41054 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
40975 ACAATAGTTA
40985 ATATATGTAACTTATAGTAT
1 ATATATGTAACTTATAGTAT
* * *
41005 ATATATGTATACATGTA-AACT
1 ATATATGTA-ACTTATAGTA-T
*
41026 ATATATGTAACTTATAGTAC
1 ATATATGTAACTTATAGTAT
*
41046 ATGTATGTA
1 ATATATGTA
41055 TAAACTATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (20 bp):
ATATATGTAACTTATAGTAT
Found at i:41177 original size:7 final size:7
Alignment explanation
Indices: 41167--41205 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
41157 TAGTTTATAA
41167 AAACCCT
1 AAACCCT
41174 AAACCCT
1 AAACCCT
41181 AAACCCT
1 AAACCCT
41188 AAACCCT
1 AAACCCT
41195 AAACCCT
1 AAACCCT
41202 AAAC
1 AAAC
41206 AAAAACCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:41356 original size:24 final size:22
Alignment explanation
Indices: 41296--41389 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 22
41286 ATCATGTACG
*
41296 TATAAACTAT-GTATA-GTGTA
1 TATAAACTATAGTATATGTATA
41316 TATAAACTAT-GTATA--TATA
1 TATAAACTATAGTATATGTATA
*
41335 TATAACCTATAGTATATGTATA
1 TATAAACTATAGTATATGTATA
*
41357 TATACAATCTAT-TTATATGT-TA
1 TATA-AA-CTATAGTATATGTATA
41379 TATAAACTATA
1 TATAAACTATA
41390 TATGTAACCT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.19
20 24 0.38
21 2 0.03
22 14 0.22
23 8 0.12
24 4 0.06
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
TATAAACTATAGTATATGTATA
Found at i:41374 original size:39 final size:39
Alignment explanation
Indices: 41296--41374 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
41286 ATCATGTACG
* *
41296 TATAAACTATGTATAGTGTATATAAACTATGTATATATA
1 TATAAACTATGTATAGTGTATATAAACAATCTATATATA
* * *
41335 TATAACCTATAGTATA-TGTATATATACAATCTATTTATA
1 TATAAACTAT-GTATAGTGTATATAAACAATCTATATATA
41374 T
1 T
41375 GTTATATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (39 bp):
TATAAACTATGTATAGTGTATATAAACAATCTATATATA
Found at i:41487 original size:21 final size:21
Alignment explanation
Indices: 41435--41487 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
41425 TAGTGTACTA
* *
41435 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
41456 TAT-GTTATATAATTTATAAAC
1 TATAGTT-TATAATTTATAAAC
41477 TATAGTTTATA
1 TATAGTTTATA
41488 TTAATGTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:41504 original size:22 final size:22
Alignment explanation
Indices: 41414--41516 Score: 83
Period size: 22 Copynumber: 4.8 Consensus size: 22
41404 TTTATATTCA
*
41414 ATAGTTTATATTAGTGTACTAT
1 ATAGTTTATATTAATGTACTAT
* * *
41436 ATAGTTTATACTTTAT-AAC-CT
1 ATAGTTTATA-TTAATGTACTAT
*
41457 AT-G-TTATA-TAATTTA-TAAACT
1 ATAGTTTATATTAATGTACT--A-T
41478 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTACTAT
41500 ATAGTTTATATTAATGT
1 ATAGTTTATATTAATGT
41517 TAATTATCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
17 3 0.05
18 1 0.02
19 5 0.08
20 1 0.02
21 6 0.10
22 31 0.49
23 9 0.14
24 6 0.10
25 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (22 bp):
ATAGTTTATATTAATGTACTAT
Found at i:41640 original size:21 final size:21
Alignment explanation
Indices: 41530--41640 Score: 64
Period size: 21 Copynumber: 5.2 Consensus size: 21
41520 TTATCTTAAC
* *
41530 TATAATTTATATTAATATAGTA
1 TATAATTTATA-AAATATAATA
* * *
41552 TATAGTTTATAAACTATATTA
1 TATAATTTATAAAATATAATA
** *
41573 TACTAATATTAT-TTATATTAA-C
1 TA-TAAT-TTATAAAATA-TAATA
* *
41595 TATAGTTTATAAAATATACTA
1 TATAATTTATAAAATATAATA
* *
41616 TATAATTTATAACATATAATT
1 TATAATTTATAAAATATAATA
41637 TATA
1 TATA
41641 TTAATATTAA
Statistics
Matches: 65, Mismatches: 19, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
20 6 0.09
21 36 0.55
22 17 0.26
23 6 0.09
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (21 bp):
TATAATTTATAAAATATAATA
Found at i:41649 original size:6 final size:6
Alignment explanation
Indices: 41638--41777 Score: 86
Period size: 6 Copynumber: 24.0 Consensus size: 6
41628 CATATAATTT
* * * * *
41638 ATATTA ATATTA ATGTTA TAGACT- ATATTTT ATATTA ATATTA ATTATAA
1 ATATTA ATATTA ATATTA -ATATTA ATA-TTA ATATTA ATATTA A-TATTA
*
41688 ATTATTA A-ACT- ATATT- ATATTA ATA-TA AT-TTA ATATTA ATATTA
1 A-TATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
41732 ATATT- A-ATT- ATATTA ATATTA AT-TATA ATATATA ATTATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATAT-TA ATAT-TA A-TATTA ATATTA
41778 TTAATTATAA
Statistics
Matches: 109, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
4 5 0.05
5 28 0.26
6 51 0.47
7 22 0.20
8 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:41670 original size:31 final size:30
Alignment explanation
Indices: 41618--41740 Score: 100
Period size: 31 Copynumber: 4.2 Consensus size: 30
41608 ATATACTATA
41618 TAATTTATAACATATAATTTATATTAATAT
1 TAATTTATAACATATAATTTATATTAATAT
*
41648 TAATGTTATAGAC-TATATTTTATATTAATAT
1 TAAT-TTATA-ACATATAATTTATATTAATAT
**
41679 TAA-TTATAA-ATTATTAAACTATATT-ATAT
1 TAATTTATAACA-TA-TAATTTATATTAATAT
*
41708 TAA--TAT-A-ATTTAATATTAATATTAATAT
1 TAATTTATAACATATAAT-TT-ATATTAATAT
41736 TAATT
1 TAATT
41741 ATATTAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
25 3 0.04
26 2 0.03
27 7 0.09
28 11 0.14
29 14 0.18
30 12 0.16
31 25 0.33
32 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
TAATTTATAACATATAATTTATATTAATAT
Found at i:41694 original size:51 final size:54
Alignment explanation
Indices: 41637--41754 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 54
41627 ACATATAATT
* * *
41637 TATATTAATATTAATGTTATA-GACTAT-ATTTTATATTAATATTAAT-TATAAA
1 TATATTAATATTAATATTATATGAATATAATTTAATATTAATATTAATAT-TAAA
* * *
41689 T-TATTAA-ACT-ATATTATATTAATATAATTTAATATTAATATTAATATTAAT
1 TATATTAATATTAATATTATATGAATATAATTTAATATTAATATTAATATTAAA
41740 TATATTAATATTAAT
1 TATATTAATATTAAT
41755 TATAATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
49 7 0.13
50 6 0.11
51 28 0.53
52 8 0.15
53 2 0.04
54 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (54 bp):
TATATTAATATTAATATTATATGAATATAATTTAATATTAATATTAATATTAAA
Found at i:41706 original size:66 final size:64
Alignment explanation
Indices: 41505--41779 Score: 205
Period size: 66 Copynumber: 4.2 Consensus size: 64
41495 ACTATATAGT
* * * * *
41505 TTATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTATTTAT-ATAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
* * * *
41570 TTATACTAATATTATTTATATTAACTATAGTTTATA-AAATATACTATATAATTTAT-AACATAT
1 TTATATTAATATTATTTATA-TAACTATAATTTATATTAATATAATATATAATTTATAAAC-TAT
41633 AA
64 -A
* * *
41635 TTTATATTAATATTAATGTTATA-GACTATATTTTATATTAATATTAAT-TATAAATTATTAAAC
1 -TTATATTAATATT-AT-TTATATAACTATAATTTATATTAATA-TAATATATAATTTA-TAAAC
41698 TATA
61 TATA
*
41702 TTATATTAATATAATTTAATATTAA-TATTAATATTA-ATT-ATATTAATAT-TAA-TTAT-AA-
1 TTATATTAATATTATTT-ATA-TAACTA-TAAT-TTATATTAATA-TAATATATAATTTATAAAC
41760 TATA
61 TATA
*
41764 TAATTATT-ATATTATT
1 TTA-TATTAATATTATT
41780 AATTATAAAT
Statistics
Matches: 174, Mismatches: 19, Indels: 37
0.76 0.08 0.16
Matches are distributed among these distances:
62 13 0.07
63 9 0.05
64 23 0.13
65 39 0.22
66 49 0.28
67 23 0.13
68 15 0.09
69 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (64 bp):
TTATATTAATATTATTTATATAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
Found at i:41725 original size:21 final size:22
Alignment explanation
Indices: 41699--41810 Score: 92
Period size: 22 Copynumber: 5.0 Consensus size: 22
41689 TTATTAAACT
41699 ATATTATATTAATATAATT-TA
1 ATATTATATTAATATAATTATA
41720 ATATTAATATTAATATTAATTAT-
1 ATATT-ATATTAATA-TAATTATA
*
41743 AT-TAATATTAATTATAATATATA
1 ATATTATATTAA-TATAAT-TATA
41766 ATTATTATATT-AT-TAATTATAA
1 A-TATTATATTAATATAATTAT-A
*
41788 ATAGTTA-ATTAATAAAAATTATA
1 ATA-TTATATTAAT-ATAATTATA
41811 TAGGGATGCT
Statistics
Matches: 75, Mismatches: 3, Indels: 24
0.74 0.03 0.24
Matches are distributed among these distances:
21 24 0.32
22 26 0.35
23 10 0.13
24 9 0.12
25 6 0.08
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
ATATTATATTAATATAATTATA
Found at i:41746 original size:15 final size:15
Alignment explanation
Indices: 41667--41798 Score: 99
Period size: 15 Copynumber: 9.2 Consensus size: 15
41657 AGACTATATT
41667 TTATATTAATATTAA
1 TTATATTAATATTAA
41682 TTATA--AATTATTAAA
1 TTATATTAA-TATT-AA
*
41697 CTATATT-ATATTAA
1 TTATATTAATATTAA
41711 -TATAATTTAATATT-A
1 TTAT-A-TTAATATTAA
41726 --ATATTAATATTAA
1 TTATATTAATATTAA
41739 TTATATTAATATTAA
1 TTATATTAATATTAA
*
41754 TTATAAT-ATA-TAA
1 TTATATTAATATTAA
*
41767 TTAT-TATATTATTAA
1 TTATAT-TAATATTAA
41782 TTATA--AATAGTTAA
1 TTATATTAATA-TTAA
41796 TTA
1 TTA
41799 ATAAAAATTA
Statistics
Matches: 97, Mismatches: 5, Indels: 31
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.08
13 18 0.19
14 21 0.22
15 44 0.45
16 6 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (15 bp):
TTATATTAATATTAA
Found at i:41764 original size:57 final size:55
Alignment explanation
Indices: 41669--41803 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 55
41659 ACTATATTTT
*
41669 ATATTAATATTAATTATAAATTATTAAACTATATTATATTAATATAATT-TAATATTA
1 ATATTAATATTAATTATAAATTATTAAACTATAATATA-TAAT-T-ATTATAATATTA
* *
41726 ATATTAATATTAATTATATTAA-TATT-AATTATAATATATAATTATTATATTATTA
1 ATATTAATATTAATTATA--AATTATTAAACTATAATATATAATTATTATAATATTA
*
41781 ATTATAAATAGTTAATTAATAAA
1 A-TATTAATA-TTAATT-ATAAA
41804 AATTATATAG
Statistics
Matches: 68, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
54 3 0.04
55 9 0.13
56 13 0.19
57 34 0.50
58 7 0.10
59 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (55 bp):
ATATTAATATTAATTATAAATTATTAAACTATAATATATAATTATTATAATATTA
Found at i:42290 original size:10 final size:10
Alignment explanation
Indices: 42275--42301 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42265 CACTCGAAAT
42275 TTCATCCTTG
1 TTCATCCTTG
42285 TTCATCCTTG
1 TTCATCCTTG
42295 TTCATCC
1 TTCATCC
42302 GAAAACCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.33, G:0.07, T:0.48
Consensus pattern (10 bp):
TTCATCCTTG
Found at i:42718 original size:7 final size:6
Alignment explanation
Indices: 42608--42834 Score: 156
Period size: 6 Copynumber: 38.3 Consensus size: 6
42598 CCTAAACTAG
*** * *
42608 AACCCA AACCCA AACCCA AACCCA AACTTG AACCCA ACCCCT AA-CCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * *
42655 AACCCT AACCCA ACCCCA AACCCCA AACCCA AACCCA ACCCCT AA-CCG
1 AACCCA AACCCA AACCCA AA-CCCA AACCCA AACCCA AACCCA AACCCA
* * * * * *
42703 AACCCA AACCCA AAACCA AACCCT AACTCA AACCGA AACCGA AACCCT
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * ** * *
42751 AACCCA AACCCG AA-CCT AACCCA AACCCG AACCTG AACCCG AA-CCG
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * ** * *
42797 AACCCG AACCCG AATTCG AACCCA AACCCG AACCCA AA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AA
42835 TCCTAACCCG
Statistics
Matches: 174, Mismatches: 42, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
5 17 0.10
6 151 0.87
7 6 0.03
ACGTcount: A:0.43, C:0.46, G:0.06, T:0.05
Consensus pattern (6 bp):
AACCCA
Found at i:42789 original size:29 final size:29
Alignment explanation
Indices: 42607--42843 Score: 119
Period size: 29 Copynumber: 8.2 Consensus size: 29
42597 CCCTAAACTA
* * **
42607 GAACCCAAACCCAAACCCAAACCCAAACTT
1 GAACCCAAACCCGAA-CCGAACCCAAACCC
* * * *
42637 GAACCCAACCCCTAACCAAACCCTAACCC
1 GAACCCAAACCCGAACCGAACCCAAACCC
*
42666 -AACCCCAAA-CC---CCAAACCCAAACCC
1 GAA-CCCAAACCCGAACCGAACCCAAACCC
* * *
42691 -AACCCCTAA-CCGAACCCAAACCCAAAACC
1 GAA-CCCAAACCCGAA-CCGAACCCAAACCC
* * * * *
42720 AAACCCTAACTCAAACCGAAACCGAAACCC
1 GAACCCAAACCCGAACCG-AACCCAAACCC
* *
42750 TAACCCAAACCCGAACCTAACCCAAACCC
1 GAACCCAAACCCGAACCGAACCCAAACCC
** *
42779 GAACCTGAACCCGAACCGAACCCGAACCC
1 GAACCCAAACCCGAACCGAACCCAAACCC
** * * *
42808 GAATTCGAACCCAAACCCGAACCCAAATCC
1 GAACCCAAACCCGAA-CCGAACCCAAACCC
*
42838 TAACCC
1 GAACCC
42844 GAATTCAAAA
Statistics
Matches: 164, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
25 23 0.14
28 4 0.02
29 82 0.50
30 55 0.34
ACGTcount: A:0.42, C:0.46, G:0.06, T:0.06
Consensus pattern (29 bp):
GAACCCAAACCCGAACCGAACCCAAACCC
Found at i:42860 original size:18 final size:18
Alignment explanation
Indices: 42800--42860 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
42790 CGAACCGAAC
* *
42800 CCGAACCCGAATTCGAAC
1 CCGAACCCGAATTCAAAA
* ** *
42818 CCAAACCCGAACCCAAAT
1 CCGAACCCGAATTCAAAA
*
42836 CCTAACCCGAATTCAAAA
1 CCGAACCCGAATTCAAAA
42854 CCGAACC
1 CCGAACC
42861 TAAAAAACCC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.39, C:0.41, G:0.10, T:0.10
Consensus pattern (18 bp):
CCGAACCCGAATTCAAAA
Found at i:43306 original size:102 final size:102
Alignment explanation
Indices: 43137--43348 Score: 370
Period size: 102 Copynumber: 2.1 Consensus size: 102
43127 AATTTGTTTA
*
43137 TACTATTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGGTTGCTTTTATAAGGTTGTCAGCTACC
1 TACTATTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTTTTATAAGGTTGTCAGCTACC
* *
43202 TTTATTTATAGTTTAAATAAACTGTTTAATTTGTAGC
66 TTTATTTACAGTTTAAATAAACTGTTTAATTTATAGC
* * *
43239 TACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTTTTATAAGGTTGTTAGCTGCC
1 TACTATTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTTTTATAAGGTTGTCAGCTACC
43304 TTTATTTACAGTTTAAATAAACTGTTTAATTTATAGC
66 TTTATTTACAGTTTAAATAAACTGTTTAATTTATAGC
43341 TACTATTG
1 TACTATTG
43349 GTTGTTCATT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (102 bp):
TACTATTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTTTTATAAGGTTGTCAGCTACC
TTTATTTACAGTTTAAATAAACTGTTTAATTTATAGC
Found at i:46143 original size:9 final size:9
Alignment explanation
Indices: 46129--46159 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
46119 GAGAGCTTAA
46129 ATTTTTTTC
1 ATTTTTTTC
46138 ATTTTTTTC
1 ATTTTTTTC
46147 A-TTTTTTC
1 ATTTTTTTC
46155 ATTTT
1 ATTTT
46160 ATTGTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:46464 original size:9 final size:9
Alignment explanation
Indices: 46450--46474 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46440 TAAATACTTT
46450 TATTATTAA
1 TATTATTAA
46459 TATTATTAA
1 TATTATTAA
46468 TATTATT
1 TATTATT
46475 TTTTTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATTAA
Found at i:46502 original size:14 final size:14
Alignment explanation
Indices: 46483--46529 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
46473 TTTTTTTCTT
46483 TATATAAATTAAAC
1 TATATAAATTAAAC
46497 TATAT-AATT----
1 TATATAAATTAAAC
46506 TATATAAATTAAAC
1 TATATAAATTAAAC
*
46520 TATATTAATT
1 TATATAAATT
46530 TTCATTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:46507 original size:23 final size:24
Alignment explanation
Indices: 46481--46530 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
46471 TATTTTTTTC
46481 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
46504 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
46528 TTT
1 TTT
46531 TCATTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:46807 original size:16 final size:16
Alignment explanation
Indices: 46786--46824 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
46776 AGGATCATTT
46786 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
*
46802 ACAGGTAAGGTTGAAA
1 ACAGGTCAGGTTGAAA
46818 ACAGGTC
1 ACAGGTC
46825 GGGTAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:46943 original size:64 final size:65
Alignment explanation
Indices: 46875--46995 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 65
46865 ATTCATATCA
* * *
46875 GTCGGATGCAGTTCGGGTTCGGGTAT-CAT-ATTTTC-GGTTCAATTCGGGTTCAGGTCGTTCTC
1 GTCGGATGCAGGTCGGGTTC-GG-ATCCATAATTTTCAGGTCCAAATCGGGTTCAGGTCGTTCTC
46937 AG
64 AG
46939 GTCGGATGCAGGTCGGGTTCGGATCCATAATTTTCAGGTCCAAATCGGGTTCAGGTC
1 GTCGGATGCAGGTCGGGTTCGGATCCATAATTTTCAGGTCCAAATCGGGTTCAGGTC
46996 AACACCAGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
62 2 0.04
63 5 0.10
64 25 0.49
65 19 0.37
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.32
Consensus pattern (65 bp):
GTCGGATGCAGGTCGGGTTCGGATCCATAATTTTCAGGTCCAAATCGGGTTCAGGTCGTTCTCAG
Found at i:49202 original size:46 final size:46
Alignment explanation
Indices: 49135--49224 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
49125 AATTATAACC
* * *
49135 CTCATTTTGAATTGGTCCTTAAACTTTTGAATATTCTAATTTCACT
1 CTCATTATAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCACT
*
49181 CTCATTATAAATTAGTCCTTAAACTTTTGAATATTTTAATTTCA
1 CTCATTATAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCA
49225 TCCCTAAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.48
Consensus pattern (46 bp):
CTCATTATAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCACT
Found at i:49525 original size:58 final size:60
Alignment explanation
Indices: 49413--49582 Score: 163
Period size: 60 Copynumber: 2.9 Consensus size: 60
49403 GTATATACGT
* * *
49413 ATAGTTTGGGATAAAATTGGAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATAAAATTGAAATGTTCAAAAAGTTTGAGGACCAATTTAAAATGAAGGTC
* **
49473 ATAGTTTGGG-TGAAATTGAAATGTTC-AAAAGTTTGAGGATTAATTTAAAATGATA-GTC
1 ATAGTTTGGGATAAAATTGAAATGTTCAAAAAGTTTGAGGACCAATTTAAAATGA-AGGTC
* * ** *
49531 AAAGTCTAGGGATGAAAA-TGAAACATTTAAAAA-TTT-AGAGACCAATTTAAAA
1 ATAGT-TTGGGAT-AAAATTGAAATGTTCAAAAAGTTTGAG-GACCAATTTAAAA
49583 AGAGATGTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
58 30 0.33
59 21 0.23
60 32 0.36
61 7 0.08
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (60 bp):
ATAGTTTGGGATAAAATTGAAATGTTCAAAAAGTTTGAGGACCAATTTAAAATGAAGGTC
Found at i:58116 original size:15 final size:15
Alignment explanation
Indices: 58096--58124 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58086 AAGGAGTAGC
58096 ATCGATACCAATGGT
1 ATCGATACCAATGGT
58111 ATCGATACCAATGG
1 ATCGATACCAATGG
58125 ACAAGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (15 bp):
ATCGATACCAATGGT
Found at i:58201 original size:19 final size:19
Alignment explanation
Indices: 58174--58221 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
58164 TGTAGAATGG
*
58174 GTATCGATACTGAAGAATA
1 GTATTGATACTGAAGAATA
58193 GTATTGATACTGAAGAATA
1 GTATTGATACTGAAGAATA
58212 GTATTGATAC
1 GTATTGATAC
58222 CATAGTGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (19 bp):
GTATTGATACTGAAGAATA
Found at i:58697 original size:14 final size:14
Alignment explanation
Indices: 58678--58786 Score: 85
Period size: 14 Copynumber: 7.4 Consensus size: 14
58668 TTATGTGAAA
58678 ATGTGATATAAGCT
1 ATGTGATATAAGCT
58692 ATGTGATACTTAA-CT
1 ATGTGATA--TAAGCT
* * *
58707 ACGTGATTATATGAAT
1 ATGTGA-TATAAG-CT
58723 ATGTGATATAAGCT
1 ATGTGATATAAGCT
* * *
58737 ATGTGACATGATCT
1 ATGTGATATAAGCT
**
58751 ATGTGATTATTTGTCT
1 ATGTGA-TATAAG-CT
58767 ATGTGATATAAGCT
1 ATGTGATATAAGCT
58781 ATGTGA
1 ATGTGA
58787 AATGGTATAA
Statistics
Matches: 73, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
14 36 0.49
15 18 0.25
16 19 0.26
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (14 bp):
ATGTGATATAAGCT
Found at i:58772 original size:44 final size:44
Alignment explanation
Indices: 58645--58786 Score: 176
Period size: 44 Copynumber: 3.2 Consensus size: 44
58635 TATATTTCAT
* * * *
58645 GCTATGCGATATGGTCTATGTGATTATGTGAAAATGTGATATAA
1 GCTATGTGATATGATCTATGTGATTATATGAATATGTGATATAA
* * *
58689 GCTATGTGATACTTAACTACGTGATTATATGAATATGTGATATAA
1 GCTATGTGATA-TGATCTATGTGATTATATGAATATGTGATATAA
* * **
58734 GCTATGTGACATGATCTATGTGATTATTTGTCTATGTGATATAA
1 GCTATGTGATATGATCTATGTGATTATATGAATATGTGATATAA
58778 GCTATGTGA
1 GCTATGTGA
58787 AATGGTATAA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 46 0.55
45 37 0.45
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (44 bp):
GCTATGTGATATGATCTATGTGATTATATGAATATGTGATATAA
Found at i:58896 original size:23 final size:23
Alignment explanation
Indices: 58866--59006 Score: 101
Period size: 23 Copynumber: 6.2 Consensus size: 23
58856 TCGAGGGTTC
58866 TACGCGGTCCTTCGGGACAATTA
1 TACGCGGTCCTTCGGGACAATTA
* * *
58889 TACGCGGTCCTTC-GAAAAATTC
1 TACGCGGTCCTTCGGGACAATTA
* * * *
58911 TAC-TGGTCCTTCGAGACATTTC
1 TACGCGGTCCTTCGGGACAATTA
58933 TACGCGGTCCTTCGGGACATATCTA
1 TACGCGGTCCTTCGGGACA-AT-TA
* * * *
58958 T--GTGGTCCTTTGGGACATTTC
1 TACGCGGTCCTTCGGGACAATTA
* * *
58979 TACGTGGTACTTCGGTACATATTA
1 TACGCGGTCCTTCGGGACA-ATTA
59003 TACG
1 TACG
59007 TGGCACTTCG
Statistics
Matches: 90, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
21 10 0.11
22 18 0.20
23 53 0.59
24 7 0.08
25 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
TACGCGGTCCTTCGGGACAATTA
Found at i:58937 original size:44 final size:46
Alignment explanation
Indices: 58871--58992 Score: 140
Period size: 44 Copynumber: 2.7 Consensus size: 46
58861 GGTTCTACGC
* *
58871 GGTCCTTCGGGACAATTATACGCGGTCCTTCGAAAAAT-TCTA-CT
1 GGTCCTTCGGGACATTTCTACGCGGTCCTTCGAAAAATATCTATCT
* ** * *
58915 GGTCCTTCGAGACATTTCTACGCGGTCCTTCGGGACATATCTATGT
1 GGTCCTTCGGGACATTTCTACGCGGTCCTTCGAAAAATATCTATCT
* * *
58961 GGTCCTTTGGGACATTTCTACGTGGTACTTCG
1 GGTCCTTCGGGACATTTCTACGCGGTCCTTCG
58993 GTACATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 32 0.49
45 4 0.06
46 29 0.45
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (46 bp):
GGTCCTTCGGGACATTTCTACGCGGTCCTTCGAAAAATATCTATCT
Found at i:58976 original size:46 final size:45
Alignment explanation
Indices: 58871--59000 Score: 145
Period size: 46 Copynumber: 2.9 Consensus size: 45
58861 GGTTCTACGC
* * * *
58871 GGTCCTTCGGGACAATTATACGCGGTCCTTCGAAAAAT-TCTACT
1 GGTCCTTCGGGACATTTCTACGCGGTCCTTCGGAACATATCTACT
* * *
58915 GGTCCTTCGAGACATTTCTACGCGGTCCTTCGGGACATATCTATGT
1 GGTCCTTCGGGACATTTCTACGCGGTCCTTCGGAACATATCTA-CT
* * * *
58961 GGTCCTTTGGGACATTTCTACGTGGTACTTCGGTACATAT
1 GGTCCTTCGGGACATTTCTACGCGGTCCTTCGGAACATAT
59001 TATACGTGGC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 32 0.44
45 4 0.06
46 36 0.50
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (45 bp):
GGTCCTTCGGGACATTTCTACGCGGTCCTTCGGAACATATCTACT
Found at i:59027 original size:24 final size:23
Alignment explanation
Indices: 58972--59028 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
58962 GTCCTTTGGG
* *
58972 ACATTTCTACGTGGTACTTCGGT
1 ACATTTATACGTGGCACTTCGGT
58995 ACATATTATACGTGGCACTTCGGT
1 ACAT-TTATACGTGGCACTTCGGT
*
59019 GCAATTTATA
1 AC-ATTTATA
59029 TGAGCAGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 23 0.79
25 2 0.07
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (23 bp):
ACATTTATACGTGGCACTTCGGT
Found at i:60726 original size:19 final size:18
Alignment explanation
Indices: 60688--60728 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
60678 TCGGTCAACG
**
60688 ACGGTCAACGCTTGGTCA
1 ACGGTCAACGCTCAGTCA
60706 ACGGTCAACGACTCAGTCA
1 ACGGTCAACG-CTCAGTCA
60725 ACGG
1 ACGG
60729 CTCACCTAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (18 bp):
ACGGTCAACGCTCAGTCA
Found at i:62324 original size:4 final size:4
Alignment explanation
Indices: 62315--63453 Score: 1851
Period size: 4 Copynumber: 289.8 Consensus size: 4
62305 ATGGAAACAG
* *
62315 TGTA TGTA TGTA TGTA TTTA TGTA TCTA TGTGAA TGTA TG-A GTGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT--A TGTA TGTA -TGTA TGTA
62365 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62413 TGTA TGTA TGTA TGTA TGTA TGTA T-TAA TGTA T-TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGT-A TGTA TGTA TGTA TGTA TGTA
62460 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62508 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62556 TGTA TGTA TGTA TGTA TGTA TGTA T-T- TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
62602 TGTA TGTA TGTA TGTA TGTA TGTA TGTTA TGTA TGTA TGTA TTTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TG-TA TGTA TGTA TGTA TGTA TGTA
*
62651 TGTA TGTA TG-- TGTA TTTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62696 TGTA TGTA TGTA TGTA TGTA T-T- TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62742 TGTA TGT- T-TAA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA
1 TGTA TGTA TGT-A TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62787 TGTA TGTA GTGTA TGTA TGTA TGTA TGTA TTGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA -TGTA TGTA TGTA TGTA TGTA -TGTA TGTA TGTA TGTA TGTA
*
62837 TGTA TGTA TTTA -GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62884 TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62930 TGGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA
1 T-GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
62977 TGTA TGTA TGTA TGTA TGTA TGTA TGTTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TG-TA TGTA TGTA TGTA TGTA TGTA
*
63026 T-TA TGTA TG-A TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-TA
63073 TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA T-TA TGT- TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
63117 TGTA TGTA TG-- TGTA TGTA TGTA TGTA GTGTA TGTA --TA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA -TGTA TGTA TGTA TGTA TGTA
63162 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
63210 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
63258 TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGT- TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
63304 TGTA TGTA TGTA TGTA TGTA TGTTA TGTTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TG-TA TG-TA TGTA TGTA TGTA TGTA TGTA
63354 --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
63399 TGTA TGTA TGTA GGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
63447 TGTA TGT
1 TGTA TGT
63454 GTGTTTGTTT
Statistics
Matches: 1074, Mismatches: 14, Indels: 94
0.91 0.01 0.08
Matches are distributed among these distances:
2 19 0.02
3 35 0.03
4 976 0.91
5 40 0.04
6 4 0.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Done.