Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005344.1 Hibiscus syriacus cultivar Beakdansim tig00012104_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: 640787
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 2 of 3
Found at i:306315 original size:32 final size:32
Alignment explanation
Indices: 306260--306342 Score: 130
Period size: 32 Copynumber: 2.5 Consensus size: 32
306250 CGCCTTCAAT
* *
306260 GAAGAGAAGGAAATAGAAAGGGGAAGAGAAAGGG
1 GAAGAG-AGGGAA-AGAAAGGGGAAGAGAAAGAG
306294 GAAGAGAGGGAAAGAAAGGGGAAGAGAAAGAG
1 GAAGAGAGGGAAAGAAAGGGGAAGAGAAAGAG
306326 GAAGAGAGGGAAAGAAA
1 GAAGAGAGGGAAAGAAA
306343 TTTTTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 36 0.77
33 5 0.11
34 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.45, T:0.01
Consensus pattern (32 bp):
GAAGAGAGGGAAAGAAAGGGGAAGAGAAAGAG
Found at i:306335 original size:22 final size:21
Alignment explanation
Indices: 306260--306340 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 21
306250 CGCCTTCAAT
* *
306260 GAAGAGAAGGAAATAGAAAGGG
1 GAAGAGAGGGAAAGAGAAA-GG
*
306282 GAAGAGAAAGGGGAAGAG--AGG
1 GAAGAG--AGGGAAAGAGAAAGG
* *
306303 GAAAGAAAGGGGAAGAGAAAGAG
1 G-AAGAGAGGGAAAGAGAAAG-G
306326 GAAGAGAGGGAAAGA
1 GAAGAGAGGGAAAGA
306341 AATTTTTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
20 10 0.21
21 3 0.06
22 25 0.53
23 2 0.04
24 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.46, T:0.01
Consensus pattern (21 bp):
GAAGAGAGGGAAAGAGAAAGG
Found at i:306500 original size:11 final size:11
Alignment explanation
Indices: 306484--306508 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
306474 ATTAAGTTTC
306484 AAAAAATAAAT
1 AAAAAATAAAT
306495 AAAAAATAAAT
1 AAAAAATAAAT
306506 AAA
1 AAA
306509 TTTGGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:306561 original size:14 final size:15
Alignment explanation
Indices: 306532--306561 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
306522 TCGACCTTTC
306532 AAAATAATTTTAAAA
1 AAAATAATTTTAAAA
306547 AAAATAATTTTAAAA
1 AAAATAATTTTAAAA
306562 TATAAAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAATTTTAAAA
Found at i:308143 original size:2 final size:2
Alignment explanation
Indices: 308136--308191 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
308126 AAATATGTTT
308136 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
308178 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
308192 AAGAGCATGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:308515 original size:60 final size:60
Alignment explanation
Indices: 308448--308581 Score: 250
Period size: 60 Copynumber: 2.2 Consensus size: 60
308438 CTTTAAAATA
308448 TTCTAATTTCATCTCTAAACTATGACTCTCATTCTATATTAGTCCTTGCACTTTTGAACG
1 TTCTAATTTCATCTCTAAACTATGACTCTCATTCTATATTAGTCCTTGCACTTTTGAACG
* *
308508 TTTTAATTTTATCTCTAAACTATGACTCTCATTCTATATTAGTCCTTGCACTTTTGAACG
1 TTCTAATTTCATCTCTAAACTATGACTCTCATTCTATATTAGTCCTTGCACTTTTGAACG
308568 TTCTAATTTCATCT
1 TTCTAATTTCATCT
308582 ATTATTCTCC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (60 bp):
TTCTAATTTCATCTCTAAACTATGACTCTCATTCTATATTAGTCCTTGCACTTTTGAACG
Found at i:309441 original size:25 final size:24
Alignment explanation
Indices: 309413--309460 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
309403 AATTTGAGGC
*
309413 TTTTTTCAGAAATAAAATATTTTTG
1 TTTTTTCAAAAATAAAA-ATTTTTG
* *
309438 TTTTTTTAAAAATATAAATTTTT
1 TTTTTTCAAAAATAAAAATTTTT
309461 AAAATTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTTTTCAAAAATAAAAATTTTTG
Found at i:311014 original size:31 final size:33
Alignment explanation
Indices: 310941--311027 Score: 106
Period size: 31 Copynumber: 2.7 Consensus size: 33
310931 AAAAATTTAT
* **
310941 GTACTAAAATGAAACAAAAAAGGTAACAGCGGGG
1 GTACTAAAATGAAAC-AAAAAGTTAACAGCAAGG
*
310975 GTATTAAAATGAAACAAAAAGTTAAC-G-AAGG
1 GTACTAAAATGAAACAAAAAGTTAACAGCAAGG
*
311006 GTACTAAAATGAAATAAAAAGT
1 GTACTAAAATGAAACAAAAAGT
311028 AAATATAGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 22 0.47
32 1 0.02
33 10 0.21
34 14 0.30
ACGTcount: A:0.54, C:0.08, G:0.21, T:0.17
Consensus pattern (33 bp):
GTACTAAAATGAAACAAAAAGTTAACAGCAAGG
Found at i:320098 original size:60 final size:59
Alignment explanation
Indices: 320000--320130 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 59
319990 AATTATACAT
*
320000 TCATAGTTTGGGATGAAATTACAATGTTCAAATATTTAAGGATTAATTTAAAATGAGAG
1 TCATAGTTTGGGATGAAATTACAATGTTCAAATATTTAAGGACTAATTTAAAATGAGAG
** ** * * *
320059 TCATAGTTTGAGGATTTAATTGGAATGTTTAAA-AGTTTAAGGACTAATTTGAAATGAGTG
1 TCATAGTTTG-GGATGAAATTACAATGTTCAAATA-TTTAAGGACTAATTTAAAATGAGAG
320119 TCATAGTTTGGG
1 TCATAGTTTGGG
320131 GATATATGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 13 0.21
60 49 0.79
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (59 bp):
TCATAGTTTGGGATGAAATTACAATGTTCAAATATTTAAGGACTAATTTAAAATGAGAG
Found at i:323832 original size:22 final size:21
Alignment explanation
Indices: 323807--323856 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
323797 AAATATTTAT
*
323807 AATAATTATACATATATAAAAA
1 AATAATTATAAAT-TATAAAAA
* *
323829 AATATTTTATAAATTTTAAAAA
1 AATA-ATTATAAATTATAAAAA
323851 AATAAT
1 AATAAT
323857 AAAAGGGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.65
23 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATTATAAATTATAAAAA
Found at i:323838 original size:23 final size:22
Alignment explanation
Indices: 323812--323854 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
323802 TTTATAATAA
*
323812 TTATACATATATAAAAAAATATT
1 TTATAAAT-TATAAAAAAATATT
*
323835 TTATAAATTTTAAAAAAATA
1 TTATAAATTATAAAAAAATA
323855 ATAAAAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTATAAATTATAAAAAAATATT
Found at i:324362 original size:24 final size:24
Alignment explanation
Indices: 324330--324384 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
324320 TGTATTATTG
324330 TAATTTAGTTTCTAAAATCATATA
1 TAATTTAGTTTCTAAAATCATATA
324354 TAATTTAGTTTCTAAAATCATATA
1 TAATTTAGTTTCTAAAATCATATA
324378 TAATTTA
1 TAATTTA
324385 TATGTATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (24 bp):
TAATTTAGTTTCTAAAATCATATA
Found at i:325021 original size:18 final size:18
Alignment explanation
Indices: 324994--325029 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
324984 TATGAATGTT
324994 ATGTTAGTTTATTTTCCC
1 ATGTTAGTTTATTTTCCC
* *
325012 ATGTTTGTTTCTTTTCCC
1 ATGTTAGTTTATTTTCCC
325030 TTGACATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.19, G:0.11, T:0.58
Consensus pattern (18 bp):
ATGTTAGTTTATTTTCCC
Found at i:326874 original size:19 final size:19
Alignment explanation
Indices: 326852--326917 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
326842 TATTATTGTG
326852 TGATTATGTTTCAATGTAA
1 TGATTATGTTTCAATGTAA
* * *
326871 TGATTCTCAGTGTTATTATTGT-G
1 TGA-T-T-A-TGTT-TCAATGTAA
326894 TGATTATGTTTCAATGTAA
1 TGATTATGTTTCAATGTAA
326913 TGATT
1 TGATT
326918 CCCAGTGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 12 0.34
20 2 0.06
21 2 0.06
22 2 0.06
23 7 0.20
24 5 0.14
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (19 bp):
TGATTATGTTTCAATGTAA
Found at i:326881 original size:42 final size:42
Alignment explanation
Indices: 326821--326952 Score: 237
Period size: 42 Copynumber: 3.1 Consensus size: 42
326811 TTTATAAATG
326821 AATGTTAATGATTCTCAGTGTTATTATTGTGTGATTATGTTTC
1 AATG-TAATGATTCTCAGTGTTATTATTGTGTGATTATGTTTC
326864 AATGTAATGATTCTCAGTGTTATTATTGTGTGATTATGTTTC
1 AATGTAATGATTCTCAGTGTTATTATTGTGTGATTATGTTTC
* *
326906 AATGTAATGATTCCCAGTGTTATTATTGTGTGATTATGTTTG
1 AATGTAATGATTCTCAGTGTTATTATTGTGTGATTATGTTTC
326948 AATGT
1 AATGT
326953 CAATTTAAGA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
42 83 0.95
43 4 0.05
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (42 bp):
AATGTAATGATTCTCAGTGTTATTATTGTGTGATTATGTTTC
Found at i:326897 original size:23 final size:23
Alignment explanation
Indices: 326829--326940 Score: 73
Period size: 23 Copynumber: 5.2 Consensus size: 23
326819 TGAATGTTAA
326829 TGATTCTCAGTGTTATTATTGTG
1 TGATTCTCAGTGTTATTATTGTG
* * *
326852 TGA-T-T-A-TGTT-TCAATGTAA
1 TGATTCTCAGTGTTATTATTGT-G
326871 TGATTCTCAGTGTTATTATTGTG
1 TGATTCTCAGTGTTATTATTGTG
* * *
326894 TGA-T-T-A-TGTT-TCAATGTAA
1 TGATTCTCAGTGTTATTATTGT-G
*
326913 TGATTCCCAGTGTTATTATTGTG
1 TGATTCTCAGTGTTATTATTGTG
326936 TGATT
1 TGATT
326941 ATGTTTGAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 24
0.63 0.13 0.24
Matches are distributed among these distances:
18 10 0.16
19 14 0.22
20 4 0.06
21 3 0.05
22 4 0.06
23 19 0.30
24 10 0.16
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (23 bp):
TGATTCTCAGTGTTATTATTGTG
Found at i:327082 original size:31 final size:31
Alignment explanation
Indices: 327044--327105 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
327034 TGGGCACAAC
*
327044 ATACTAAAGGGTAAATTACACATTTAGTACT
1 ATACTAAAGGATAAATTACACATTTAGTACT
327075 ATACTAAAGGATAAATTACACATTTAGTACT
1 ATACTAAAGGATAAATTACACATTTAGTACT
327106 TAAACTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
ATACTAAAGGATAAATTACACATTTAGTACT
Found at i:328544 original size:17 final size:16
Alignment explanation
Indices: 328511--328553 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
328501 TCGGTGATAG
328511 ATATTA-TTTTAAATA
1 ATATTATTTTTAAATA
328526 ATCA-TATTTTTACAATA
1 AT-ATTATTTTTA-AATA
328543 ATATTATTTTT
1 ATATTATTTTT
328554 CACCTCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 13 0.54
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTATTTTTAAATA
Found at i:329035 original size:11 final size:11
Alignment explanation
Indices: 329021--329046 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
329011 TAACATTTTC
329021 TAATAAATATT
1 TAATAAATATT
329032 TAATAAATATT
1 TAATAAATATT
329043 TAAT
1 TAAT
329047 TTAATGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAAATATT
Found at i:330601 original size:49 final size:49
Alignment explanation
Indices: 330528--330622 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
330518 TTGTGTCGAT
* * **
330528 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCGGGCAACCCCTCATC
1 CAGGGGCGAACCTCCATAGAGCCCGGGGTATCCCAAGCAACCCCTCATC
* *
330577 CAGGGGTGAACCTCCATAGTGCCCGGGGTATCCCAAGCAACCCCTC
1 CAGGGGCGAACCTCCATAGAGCCCGGGGTATCCCAAGCAACCCCTC
330623 CACAAGTGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (49 bp):
CAGGGGCGAACCTCCATAGAGCCCGGGGTATCCCAAGCAACCCCTCATC
Found at i:338069 original size:29 final size:29
Alignment explanation
Indices: 338037--338130 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
338027 CAAATATTTA
*
338037 AGGATTAATTTAAAATGAGTCATAGTTTG
1 AGGATTAATTTGAAATGAGTCATAGTTTG
* ** * * *
338066 AGGATTTAA-TTGGAATGTTTAAAAGTTTA
1 AGGA-TTAATTTGAAATGAGTCATAGTTTG
338095 AGGATTAATTTGAAATGAGTGTCATAGTTTG
1 AGGATTAATTTGAAATGA--GTCATAGTTTG
*
338126 GGGAT
1 AGGAT
338131 ATATGATGCA
Statistics
Matches: 47, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
28 4 0.09
29 28 0.60
30 4 0.09
31 11 0.23
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
AGGATTAATTTGAAATGAGTCATAGTTTG
Found at i:338095 original size:58 final size:58
Alignment explanation
Indices: 337999--338127 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 58
337989 AATTATACGT
337999 TCATAGTTTGGGATGAAATTACAATGTTCAAATATTTAAGGATTAATTTAAAATGA-G
1 TCATAGTTTGGGATGAAATTACAATGTTCAAATATTTAAGGATTAATTTAAAATGAGG
** ** * *
338056 TCATAGTTTGAGGATTTAATTGGAATGTTTAAA-AGTTTAAGGATTAATTTGAAATGAGTG
1 TCATAGTTTG-GGATGAAATTACAATGTTCAAATA-TTTAAGGATTAATTTAAAATGAG-G
338116 TCATAGTTTGGG
1 TCATAGTTTGGG
338128 GATATATGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 11 0.18
58 38 0.61
59 2 0.03
60 11 0.18
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.39
Consensus pattern (58 bp):
TCATAGTTTGGGATGAAATTACAATGTTCAAATATTTAAGGATTAATTTAAAATGAGG
Found at i:345714 original size:23 final size:23
Alignment explanation
Indices: 345688--345756 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
345678 TGTGGGATTA
345688 TGTTTCAATGTAATGATTCCCAG
1 TGTTTCAATGTAATGATTCCCAG
* * *
345711 TGTTATTATTGT-GTGATT---A-
1 TGTT-TCAATGTAATGATTCCCAG
*
345730 TGTTTCCATGTAATGATTCCCAG
1 TGTTTCAATGTAATGATTCCCAG
345753 TGTT
1 TGTT
345757 ATTATTGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 12
0.63 0.13 0.23
Matches are distributed among these distances:
18 4 0.12
19 9 0.27
20 1 0.03
22 1 0.03
23 13 0.39
24 5 0.15
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (23 bp):
TGTTTCAATGTAATGATTCCCAG
Found at i:345741 original size:42 final size:42
Alignment explanation
Indices: 345677--345782 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
345667 ATTAATGGAT
*
345677 TTGTGGGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
1 TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
*
345719 TTGTGTGATTATGTTTCCATGTAATGATTCCCAGTGTTATTA
1 TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
*
345761 TTGTGTGATTATGTTTGAATGT
1 TTGTGTGATTATGTTTCAATGT
345783 CAATTTAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.48
Consensus pattern (42 bp):
TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
Found at i:345769 original size:23 final size:23
Alignment explanation
Indices: 345701--345770 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
345691 TTCAATGTAA
345701 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
* *
345724 TGATT---A-TGTT-TCCA-TGTAA
1 TGATTCCCAGTGTTAT-TATTGT-G
345743 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
345766 TGATT
1 TGATT
345771 ATGTTTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 4 0.11
19 10 0.29
20 1 0.03
22 1 0.03
23 15 0.43
24 4 0.11
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (23 bp):
TGATTCCCAGTGTTATTATTGTG
Found at i:345907 original size:31 final size:31
Alignment explanation
Indices: 345869--345930 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
345859 TGGGCACAAC
*
345869 ATACTAAAGGGTAAATTACACATTTAGTACT
1 ATACTAAAGGATAAATTACACATTTAGTACT
345900 ATACTAAAGGATAAATTACACATTTAGTACT
1 ATACTAAAGGATAAATTACACATTTAGTACT
345931 TAAACTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
ATACTAAAGGATAAATTACACATTTAGTACT
Found at i:346915 original size:2 final size:2
Alignment explanation
Indices: 346905--346940 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
346895 GAATGTGTGG
*
346905 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
346941 GAAAGGTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:349769 original size:42 final size:42
Alignment explanation
Indices: 349673--349834 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
349663 TTTATCTATG
*** * *
349673 AGTGTTATTAGTGTGTGATTAATGGATTTGTGTGATTATGATTCCG
1 AGTGTTATTAGTGTGTGATT-AT--ATTTCAATG-TAATGATTCCC
349719 AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
1 AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
* *
349761 AGTGTTATTATTGTGTGATTATGTTTCAATGTAATGATTCCC
1 AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
* * *
349803 AGTGTTATTATTGTGTGATTATGTTTGAATGT
1 AGTGTTATTAGTGTGTGATTATATTTCAATGT
349835 CAATTTAAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 80 0.74
43 6 0.06
45 2 0.02
46 20 0.19
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (42 bp):
AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
Found at i:349779 original size:23 final size:23
Alignment explanation
Indices: 349753--349822 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
349743 TTCAATGTAA
349753 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
* * *
349776 TGATT---A-TGTT-TCAATGTAA
1 TGATTCCCAGTGTTATTATTGT-G
349795 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
349818 TGATT
1 TGATT
349823 ATGTTTGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 9 0.26
20 1 0.03
22 1 0.03
23 14 0.40
24 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (23 bp):
TGATTCCCAGTGTTATTATTGTG
Found at i:351456 original size:2 final size:2
Alignment explanation
Indices: 351449--351473 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
351439 ACTTAAAGCA
351449 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
351474 ATTTCAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:354332 original size:35 final size:35
Alignment explanation
Indices: 354285--354360 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
354275 TTGATCGGTG
* *
354285 TTTGATCCGGATTAGACTTCTTTGCCTCTACAGTA
1 TTTGATCCGGATTAGACGTCTTTGCCTCTACAATA
* *
354320 TTTGATCTGGATTAGTCGTCTTTGCCTCTACAATA
1 TTTGATCCGGATTAGACGTCTTTGCCTCTACAATA
354355 TTTGAT
1 TTTGAT
354361 TCGTATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (35 bp):
TTTGATCCGGATTAGACGTCTTTGCCTCTACAATA
Found at i:357382 original size:2 final size:2
Alignment explanation
Indices: 357375--357444 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
357365 TTAAATAACC
357375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
357417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
357445 CGTTACCACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:358146 original size:42 final size:42
Alignment explanation
Indices: 358050--358211 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
358040 TTTATCTATG
*** * *
358050 AGTGTTATTAGTGTGTGATTAATGGATTTGTGTGATTATGATTCCG
1 AGTGTTATTAGTGTGTGATT-AT--ATTTCAATG-TAATGATTCCC
358096 AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
1 AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
* *
358138 AGTGTTATTATTGTGTGATTATGTTTCAATGTAATGATTCCC
1 AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
* *
358180 AGTGTTATTATTGTGTGATTATGTTTCAATGT
1 AGTGTTATTAGTGTGTGATTATATTTCAATGT
358212 CAATTTAAGA
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
42 81 0.74
43 6 0.06
45 2 0.02
46 20 0.18
ACGTcount: A:0.23, C:0.07, G:0.22, T:0.48
Consensus pattern (42 bp):
AGTGTTATTAGTGTGTGATTATATTTCAATGTAATGATTCCC
Found at i:358156 original size:23 final size:23
Alignment explanation
Indices: 358130--358199 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
358120 TTCAATGTAA
358130 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
* * *
358153 TGATT---A-TGTT-TCAATGTAA
1 TGATTCCCAGTGTTATTATTGT-G
358172 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
358195 TGATT
1 TGATT
358200 ATGTTTCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 9 0.26
20 1 0.03
22 1 0.03
23 14 0.40
24 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (23 bp):
TGATTCCCAGTGTTATTATTGTG
Found at i:358344 original size:31 final size:31
Alignment explanation
Indices: 358298--358359 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
358288 TGGGCACAAC
*
358298 ATACAAAAGGGTAAATTACACATTTAGTACT
1 ATACAAAAGGATAAATTACACATTTAGTACT
*
358329 ATACTAAAGGATAAATTACACATTTAGTACT
1 ATACAAAAGGATAAATTACACATTTAGTACT
358360 TAAACTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (31 bp):
ATACAAAAGGATAAATTACACATTTAGTACT
Found at i:363189 original size:2 final size:2
Alignment explanation
Indices: 363177--363210 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
363167 TTAAATAACC
363177 AT AT AT GAT AT AT GAT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT -AT AT AT AT AT AT AT AT AT AT
363211 TCCTTCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:363440 original size:6 final size:6
Alignment explanation
Indices: 363429--363460 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
363419 CTTCGGTCAT
*
363429 AGCAAA AGCAAA AGCAAA AGCAAA AGCTAA AG
1 AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AG
363461 AGATTACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.62, C:0.16, G:0.19, T:0.03
Consensus pattern (6 bp):
AGCAAA
Found at i:364625 original size:15 final size:15
Alignment explanation
Indices: 364607--364644 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
364597 ATTTAATAAA
364607 CAATTTTTTATATAT
1 CAATTTTTTATATAT
364622 CAATTGTTTTTATATAT
1 CAA-T-TTTTTATATAT
364639 -AATTTT
1 CAATTTT
364645 CAATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 4 0.19
16 3 0.14
17 11 0.52
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (15 bp):
CAATTTTTTATATAT
Found at i:364633 original size:17 final size:16
Alignment explanation
Indices: 364611--364642 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
364601 AATAAACAAT
364611 TTTTTATATATCAATTG
1 TTTTTATATAT-AATTG
364628 TTTTTATATATAATT
1 TTTTTATATATAATT
364643 TTCAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTATATATAATTG
Found at i:366517 original size:31 final size:33
Alignment explanation
Indices: 366445--366522 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 33
366435 AAAATTTAGA
**
366445 TACTAAAATGAAACAAAAAAAGGTAACAGCGGGG
1 TACTAAAATGAAAC-AAAAAAGGTAACAGAAGGG
* *
366479 TATTAAAATGAAAC-AAAAAGTTAAC-GAAGGG
1 TACTAAAATGAAACAAAAAAGGTAACAGAAGGG
366510 TACTAAAATGAAA
1 TACTAAAATGAAA
366523 TGAAAAGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 16 0.41
32 10 0.26
34 13 0.33
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (33 bp):
TACTAAAATGAAACAAAAAAGGTAACAGAAGGG
Found at i:372207 original size:15 final size:16
Alignment explanation
Indices: 372175--372207 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
372165 AAAATCTTTC
372175 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
372191 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
372206 TT
1 TT
372208 GATCTGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:372980 original size:16 final size:17
Alignment explanation
Indices: 372953--372987 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
372943 TATCGCCGAC
372953 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
372970 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
372986 CG
1 CG
372988 TGAATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:376217 original size:2 final size:2
Alignment explanation
Indices: 376210--376288 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
376200 CAAATCAATA
376210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
376252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
376289 ACGACTATTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:376472 original size:60 final size:59
Alignment explanation
Indices: 376391--376556 Score: 183
Period size: 60 Copynumber: 2.7 Consensus size: 59
376381 TATGACCCTT
* * *
376391 ATTTCAAATTGGTCTCTAAACTTTTAAACATTTCAATTTTATCCTTAAAATATGACTA-TC
1 ATTTTAAATTAGTC-CTAAACTTTTGAACATTTCAATTTTATCCTTAAAATATGA-TATTC
* * *
376451 ATTTTAAATTAGTCCTAAAACTTTTGAACATTTC-ATTTTCATCCCTAAATTGTGATATTC
1 ATTTTAAATTAGTCCT-AAACTTTTGAACATTTCAATTTT-ATCCTTAAAATATGATATTC
* * *
376511 ATTCTAAATTAGTCCCCAAACTTTTTGAATATTTCAATTTTATCCT
1 ATTTTAAATTAGT-CCTAAAC-TTTTGAACATTTCAATTTTATCCT
376557 AAATTATATG
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
59 9 0.10
60 58 0.64
61 18 0.20
62 5 0.06
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (59 bp):
ATTTTAAATTAGTCCTAAACTTTTGAACATTTCAATTTTATCCTTAAAATATGATATTC
Found at i:376558 original size:60 final size:59
Alignment explanation
Indices: 376408--376563 Score: 190
Period size: 60 Copynumber: 2.6 Consensus size: 59
376398 ATTGGTCTCT
* * * *
376408 AAACTTTTAAACATTTCAATTTTATCCTTAAAATATGACTATCATTTTAAATTAGTCCTA
1 AAACTTTTGAACATTTCAATTTTATCC-TAAATTATGACTATCATTCTAAATTAGTCCCA
* *
376468 AAACTTTTGAACATTTC-ATTTTCATCCCTAAATTGTGA-TATTCATTCTAAATTAGTCCCC
1 AAACTTTTGAACATTTCAATTTT-AT-CCTAAATTATGACTA-TCATTCTAAATTAGTCCCA
*
376528 AAACTTTTTGAATATTTCAATTTTATCCTAAATTAT
1 AAAC-TTTTGAACATTTCAATTTTATCCTAAATTAT
376564 ATGTATATAC
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
59 7 0.08
60 55 0.66
61 16 0.19
62 5 0.06
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (59 bp):
AAACTTTTGAACATTTCAATTTTATCCTAAATTATGACTATCATTCTAAATTAGTCCCA
Found at i:376858 original size:59 final size:59
Alignment explanation
Indices: 376682--376869 Score: 209
Period size: 60 Copynumber: 3.2 Consensus size: 59
376672 TTTGGATGAA
* * * * * * * *
376682 TTTGGGGATGAAATTGTAATATCTAAAAGTCTAGGGACCAATTTAGAATGAGATTCATAG
1 TTTGAGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTA-AATGAGAGTCATAG
* *
376742 TTTGAGGATGAAATTGGAATGTTCAAAATTTTAAGGACTAATTTAAAATGAGAGTCATAG
1 TTTGAGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTT-AAATGAGAGTCATAG
* *
376802 TTTGAGGACT-TAATTGGAAT-TTTAAAAGTTTAAGGACTAATTTCAAATGAGGGTCATAG
1 TTTGAGGA-TGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTT-AAATGAGAGTCATAG
*
376861 TTTGGGGAT
1 TTTGAGGAT
376870 ACATGATGCA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
58 1 0.01
59 42 0.38
60 65 0.59
61 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (59 bp):
TTTGAGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTAAATGAGAGTCATAG
Found at i:380394 original size:22 final size:21
Alignment explanation
Indices: 380369--380418 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
380359 AAATATTTAT
*
380369 AATAATTATACATATATAAAAA
1 AATAATTATAAAT-TATAAAAA
* *
380391 AATATTTTATAAATTTTAAAAA
1 AATA-ATTATAAATTATAAAAA
380413 AATAAT
1 AATAAT
380419 AAAAGGGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.65
23 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATTATAAATTATAAAAA
Found at i:380400 original size:23 final size:22
Alignment explanation
Indices: 380374--380416 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
380364 TTTATAATAA
*
380374 TTATACATATATAAAAAAATATT
1 TTATAAAT-TATAAAAAAATATT
*
380397 TTATAAATTTTAAAAAAATA
1 TTATAAATTATAAAAAAATA
380417 ATAAAAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTATAAATTATAAAAAAATATT
Found at i:383243 original size:23 final size:23
Alignment explanation
Indices: 383217--383286 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
383207 TTCAATGTAA
383217 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
* * *
383240 TGATT---A-TGTT-TCAATGTAA
1 TGATTCCCAGTGTTATTATTGT-G
383259 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCAGTGTTATTATTGTG
383282 TGATT
1 TGATT
383287 ATGTTTCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 9 0.26
20 1 0.03
22 1 0.03
23 14 0.40
24 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (23 bp):
TGATTCCCAGTGTTATTATTGTG
Found at i:383252 original size:42 final size:42
Alignment explanation
Indices: 383193--383298 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
383183 ATTAATGGAT
*
383193 TTGTGTGATTATATTTCAATGTAATGATTCCCAGTGTTATTA
1 TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
383235 TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
1 TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
383277 TTGTGTGATTATGTTTCAATGT
1 TTGTGTGATTATGTTTCAATGT
383299 CAATTTAAGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (42 bp):
TTGTGTGATTATGTTTCAATGTAATGATTCCCAGTGTTATTA
Found at i:384555 original size:18 final size:19
Alignment explanation
Indices: 384515--384555 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
384505 TAGCTGCTTT
384515 ATGCCTCTAATTGGCAGTA
1 ATGCCTCTAATTGGCAGTA
384534 ATGCCTCTAATTGGCA-TA
1 ATGCCTCTAATTGGCAGTA
384552 ATGC
1 ATGC
384556 ATGAGATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (19 bp):
ATGCCTCTAATTGGCAGTA
Found at i:386800 original size:17 final size:16
Alignment explanation
Indices: 386767--386809 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
386757 TCGGTGATAG
386767 ATATTA-TTTTAAATA
1 ATATTATTTTTAAATA
386782 AT-TATATTTTTACAATA
1 ATAT-TATTTTTA-AATA
386799 ATATTATTTTT
1 ATATTATTTTT
386810 TTCACCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 4 0.17
16 5 0.21
17 13 0.54
18 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTATTTTTAAATA
Found at i:386808 original size:16 final size:15
Alignment explanation
Indices: 386767--386808 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
386757 TCGGTGATAG
386767 ATATTATTTTAAATA
1 ATATTATTTTAAATA
386782 AT-TATATTTTTACAATA
1 ATAT-TA-TTTTA-AATA
386799 ATATTATTTT
1 ATATTATTTT
386809 TTTCACCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.17
16 9 0.39
17 8 0.35
18 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTATTTTAAATA
Found at i:386991 original size:3 final size:3
Alignment explanation
Indices: 386983--387038 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
386973 TTTTTACCCA
*
386983 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
387031 TAT TAT TA
1 TAT TAT TA
387039 AATATATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:388505 original size:13 final size:13
Alignment explanation
Indices: 388489--388535 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
388479 ATATAATAAA
388489 TAAATATTTATTT
1 TAAATATTTATTT
*
388502 TAAATAAATTATTT
1 TAAAT-ATTTATTT
388516 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
388529 TCAATAT
1 TAAATAT
388536 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:389196 original size:17 final size:17
Alignment explanation
Indices: 389167--389210 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
389157 TTTAATTTTT
*
389167 AATTTTT-TCTTTTCAA
1 AATTTTTATATTTTCAA
*
389183 AATTTTTATATTTTCAT
1 AATTTTTATATTTTCAA
*
389200 AATATTTATAT
1 AATTTTTATAT
389211 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTTTATATTTTCAA
Found at i:399860 original size:9 final size:8
Alignment explanation
Indices: 399846--399893 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
399836 ATTATGCTTG
399846 AAGAAAAGA
1 AAGAAAA-A
399855 AAGAAAAA
1 AAGAAAAA
399863 AAGAAAAA
1 AAGAAAAA
399871 AA-AAGAAA
1 AAGAA-AAA
399879 AA-AAAAA
1 AAGAAAAA
399886 AA-AAAAA
1 AAGAAAAA
399893 A
1 A
399894 TGAAGGTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.34
8 18 0.47
9 7 0.18
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:399864 original size:1 final size:1
Alignment explanation
Indices: 399858--399893 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
399848 GAAAAGAAAG
* *
399858 AAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
399894 TGAAGGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:399871 original size:10 final size:10
Alignment explanation
Indices: 399858--399893 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
399848 GAAAAGAAAG
399858 AAAAAAAGAA
1 AAAAAAAGAA
399868 AAAAAAAGAA
1 AAAAAAAGAA
399878 AAAAAAA-AA
1 AAAAAAAGAA
399887 AAAAAAA
1 AAAAAAA
399894 TGAAGGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:399874 original size:22 final size:20
Alignment explanation
Indices: 399849--399893 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 20
399839 ATGCTTGAAG
399849 AAAAGAAAGAAAAAAAGAAAAA
1 AAAAGAAA-AAAAAAA-AAAAA
399871 AAAAGAAAAAAAAAAAAAAA
1 AAAAGAAAAAAAAAAAAAAA
399891 AAA
1 AAA
399894 TGAAGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 8 0.35
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAAAAAA
Found at i:399892 original size:18 final size:18
Alignment explanation
Indices: 399849--399892 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
399839 ATGCTTGAAG
* *
399849 AAAAGAAAGAAAAAAAGA
1 AAAAAAAAGAAAAAAAAA
399867 AAAAAAAAGAAAAAAAAA
1 AAAAAAAAGAAAAAAAAA
399885 AAAAAAAA
1 AAAAAAAA
399893 ATGAAGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAA
Found at i:401171 original size:83 final size:83
Alignment explanation
Indices: 401032--401860 Score: 1570
Period size: 83 Copynumber: 10.0 Consensus size: 83
401022 GAAAGAGACT
401032 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
401097 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401115 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
401180 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401198 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
401263 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401281 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
401346 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401364 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
401429 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401447 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
401512 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401530 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
*
401595 TTTAGAAGACGAATTTGC
66 TTTAGAAGATGAATTTGC
401613 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
*
401678 TTTATAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
*
401696 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
*
401761 TTTAGAAGATAAATTTGC
66 TTTAGAAGATGAATTTGC
* * * *
401779 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTAATCTGGTTGGGCAG-ACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
*
401843 TTTGGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
401861 TCATAGTAAA
Statistics
Matches: 735, Mismatches: 11, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
82 29 0.04
83 706 0.96
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAG
TTTAGAAGATGAATTTGC
Found at i:403044 original size:228 final size:223
Alignment explanation
Indices: 402647--403217 Score: 811
Period size: 228 Copynumber: 2.6 Consensus size: 223
402637 TAGCAAAGAT
* * *
402647 TCAAATCCATCACTTGATGGATCAACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
1 TCAAATCTATCACTTGATGGATC-ACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
* * *
402712 GAAGGAAGAAGAAGTTCATAATAAAAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGAT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGAT
*
402777 GGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAA
130 GGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAA
402842 TTCATAATGAGAAGAATTTGTTCAACCTTTTG
192 TTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
402874 CTCAAATCTATCACTTGATGGAGCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGA
1 -TCAAATCTATCACTTGATGGATCA-CTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGA
*
402939 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
* *
403004 TGGATCAATATTGCCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
129 TGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
403068 TCATAATGAGAATAATTTGTTCAACCTTTTG
193 TCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * *
403099 TCCGAAT-TCATCACATGATGGATTATTTTTGCCAGAGAAGGTTC---AT----A-AACTCATAT
1 T-CAAATCT-ATCACTTGATGGATCACTTTT-CCAGAGAA-GTTCATAATGAGAAGAACTCATCT
*
403155 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCAT
62 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCAT
403218 CTGAAGAATG
Statistics
Matches: 317, Mismatches: 20, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
218 69 0.22
219 1 0.00
223 2 0.01
224 6 0.02
225 78 0.25
226 5 0.02
227 1 0.00
228 152 0.48
229 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (223 bp):
TCAAATCTATCACTTGATGGATCACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
GATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
TAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:403073 original size:113 final size:113
Alignment explanation
Indices: 402654--403216 Score: 756
Period size: 113 Copynumber: 5.0 Consensus size: 113
402644 GATTCAAATC
*
402654 CATCACTTGATGGATCAACATTGCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * *
402718 AGAAGAAGTTCATAATAAAAAGAACTTGTTCAACTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
* * *
402766 CATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGA
* * *
402830 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG-CTCAAAT
62 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
* * *
402881 CTATCACTTGATGGAGCAGCT-TTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAG
1 C-ATCACTTGATGGATCA-ATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
402944 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATT
64 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
*
402994 CATCATTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
403059 AGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGTCCGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
* * * * *
403107 CATCACATGATGGATTATTTTTGCCAGAGAAGGTTC---AT----A-AACTCATATGAAGAAGGA
1 CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
403164 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
403212 CATCA
1 CATCA
403217 TCTGAAGAAT
Statistics
Matches: 404, Mismatches: 36, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
105 67 0.17
106 1 0.00
110 2 0.00
111 3 0.01
112 103 0.25
113 133 0.33
115 23 0.06
116 70 0.17
117 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
CATCACTTGATGGATCAATATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
Found at i:403231 original size:65 final size:65
Alignment explanation
Indices: 403149--403281 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
403139 GTTCATAAAC
*
403149 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCA
1 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
* *
403214 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
403279 TCA
1 TCA
403282 CTTGATGGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (65 bp):
TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
Found at i:403441 original size:114 final size:113
Alignment explanation
Indices: 403214--403479 Score: 396
Period size: 114 Copynumber: 2.3 Consensus size: 113
403204 TTTGAATTCA
* *
403214 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTAAATTCA
403279 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
66 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
* *
403327 TCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGATC-AAA-T
1 TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTTG-TCTAAATT
* **
403390 CTATTACTTGAT-GAGTTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAAC
64 C-ATCACTTGATGGA-TTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
403441 TCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAGAA
1 TCATCTGAAGAAAGAAGAAG-AAGTTCATAATGAGAAGAA
403480 CTCATCAAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
113 54 0.39
114 84 0.60
115 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (113 bp):
TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTAAATTCA
TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
Found at i:403739 original size:3 final size:3
Alignment explanation
Indices: 403731--403777 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
403721 TTTTTACCCA
*
403731 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
403778 AATATATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:406157 original size:11 final size:11
Alignment explanation
Indices: 406143--406168 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
406133 TAACATTTTC
406143 TAATAAATATT
1 TAATAAATATT
406154 TAATAAATATT
1 TAATAAATATT
406165 TAAT
1 TAAT
406169 TTAATGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAAATATT
Found at i:407567 original size:2 final size:2
Alignment explanation
Indices: 407560--407596 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
407550 GTGATACATT
407560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
407597 TCCTTCGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:409285 original size:10 final size:9
Alignment explanation
Indices: 409256--409282 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
409246 TCAGAAATTA
409256 AATATTTTT
1 AATATTTTT
409265 AATATTTTT
1 AATATTTTT
409274 AATATTTTT
1 AATATTTTT
409283 TAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AATATTTTT
Found at i:410766 original size:31 final size:31
Alignment explanation
Indices: 410693--410781 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
410683 TAAAAATTTA
410693 GGTACTAAAATGAAACAAAAAAAGTAACAGCGG
1 GGTACTAAAATGAAAC--AAAAAGTAACAGCGG
* *
410726 GGTATTAAAATGAAACAAAACGTTAAC-GAC-G
1 GGTACTAAAATGAAACAAAAAG-TAACAG-CGG
*
410757 GGTACTAAAATAAAACAAAAAGTAA
1 GGTACTAAAATGAAACAAAAAGTAA
410782 ACATTAGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 3 0.06
31 26 0.53
32 5 0.10
33 15 0.31
ACGTcount: A:0.55, C:0.11, G:0.18, T:0.16
Consensus pattern (31 bp):
GGTACTAAAATGAAACAAAAAGTAACAGCGG
Found at i:411827 original size:4 final size:4
Alignment explanation
Indices: 411804--411896 Score: 52
Period size: 4 Copynumber: 23.0 Consensus size: 4
411794 CATGTTAGAT
* ** *
411804 ATAA A-AA ATAA AGAAA ATAA ATAA ATAA ATTTAA CCAA A-AA A-AA AGAA
1 ATAA ATAA ATAA A-TAA ATAA ATAA ATAA A--TAA ATAA ATAA ATAA ATAA
*
411852 ATAAA ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA AT-G ATAA ATAA
1 AT-AA AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA
411897 GAATGATAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
3 12 0.17
4 44 0.61
5 13 0.18
6 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:411911 original size:19 final size:19
Alignment explanation
Indices: 411866--411934 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
411856 AATAAAATAA
411866 AATAATAAATAAATAA--AT
1 AATAATAAATAAA-AATGAT
* *
411884 AAATGATAAATAAGAATGAT
1 -AATAATAAATAAAAATGAT
411904 AATAAT-AATAAAAAATGAT
1 AATAATAAAT-AAAAATGAT
* *
411923 ATTAAAAAATAA
1 AATAATAAATAA
411935 TAAGTAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 5 0.12
19 30 0.75
20 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (19 bp):
AATAATAAATAAAAATGAT
Found at i:412008 original size:17 final size:18
Alignment explanation
Indices: 411977--412027 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
411967 ATAAGAATGA
* *
411977 AATATATATATAATACCAT
1 AATATATA-ATAATAACAG
411996 AATA-ATAATAATAACAG
1 AATATATAATAATAACAG
412013 AATATATAAT-ATAAC
1 AATATATAATAATAAC
412028 GTAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.59
18 8 0.28
19 4 0.14
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (18 bp):
AATATATAATAATAACAG
Found at i:412039 original size:18 final size:18
Alignment explanation
Indices: 412013--412057 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
412003 ATAATAACAG
* * *
412013 AATATATAATATAACGTA
1 AATAAATAATAAAAAGTA
*
412031 ATTAAATAATAAAAAGTA
1 AATAAATAATAAAAAGTA
412049 AATAAATAA
1 AATAAATAA
412058 ATAGAATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAAATAATAAAAAGTA
Found at i:413161 original size:16 final size:14
Alignment explanation
Indices: 413129--413167 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
413119 GAAAGTATAA
413129 ATATATATATTATT
1 ATATATATATTATT
413143 ATATAATATATTCATT
1 ATAT-ATATATT-ATT
413159 ATATGATAT
1 ATAT-ATAT
413168 GGTCGAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 11 0.50
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (14 bp):
ATATATATATTATT
Found at i:413838 original size:105 final size:105
Alignment explanation
Indices: 413629--414296 Score: 1129
Period size: 105 Copynumber: 6.4 Consensus size: 105
413619 ATATTGTTCC
* * * * * * ** *
413629 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATCGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAA
* * **** *
413694 TCAGCGGCCCCTTCGTCGTGAAGTTGAACTTATACTGTCTC
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
413735 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
413800 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
413840 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAACGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
413905 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
413945 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAACGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
414010 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
414050 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
414115 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
414155 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
414220 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
414260 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
414297 TTGGGTAAAA
Statistics
Matches: 541, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
105 495 0.91
106 46 0.09
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:415136 original size:1 final size:1
Alignment explanation
Indices: 415126--415177 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
415116 CGTTCTTCTC
* * * * * *
415126 TTTTTGTTTTTTTTGTTTTTTTGTTGTTTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
415178 CAACTTAGGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:415144 original size:8 final size:9
Alignment explanation
Indices: 415126--415176 Score: 77
Period size: 9 Copynumber: 5.6 Consensus size: 9
415116 CGTTCTTCTC
415126 TTTTTGTTT
1 TTTTTGTTT
415135 TTTTTG-TT
1 TTTTTGTTT
415143 TTTTTGTTGTT
1 TTTTTG-T-TT
415154 TTTTTGTTT
1 TTTTTGTTT
415163 TTTTTGTTT
1 TTTTTGTTT
415172 TTTTT
1 TTTTT
415177 TCAACTTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.21
9 22 0.56
10 1 0.03
11 8 0.21
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:415157 original size:19 final size:19
Alignment explanation
Indices: 415126--415177 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
415116 CGTTCTTCTC
415126 TTTTTG-TTTTTTTTG-TT
1 TTTTTGTTTTTTTTTGTTT
415143 TTTTTGTTGTTTTTTTGTTT
1 TTTTTGTT-TTTTTTTGTTT
415163 TTTTTGTTTTTTTTT
1 TTTTTGTTTTTTTTT
415178 CAACTTAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.19
18 1 0.03
19 15 0.47
20 10 0.31
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTGTTTTTTTTTGTTT
Found at i:415177 original size:20 final size:19
Alignment explanation
Indices: 415132--415177 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
415122 TCTCTTTTTG
415132 TTTTTTTTGTTTTTTTGTT
1 TTTTTTTTGTTTTTTTGTT
*
415151 GTTTTTTTGTTTTTTTTGTT
1 TTTTTTTTG-TTTTTTTGTT
415171 TTTTTTT
1 TTTTTTT
415178 CAACTTAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTTTGTTTTTTTGTT
Found at i:424620 original size:10 final size:10
Alignment explanation
Indices: 424595--424628 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
424585 AAGGTTAGTA
*
424595 AAATAGAAAT
1 AAATAAAAAT
*
424605 AGATAAAAAT
1 AAATAAAAAT
424615 AAATAAAAAT
1 AAATAAAAAT
424625 AAAT
1 AAAT
424629 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:425584 original size:5 final size:5
Alignment explanation
Indices: 425574--425599 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
425564 CAAAAAAAAG
425574 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
425600 TTAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:425737 original size:17 final size:18
Alignment explanation
Indices: 425706--425756 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
425696 ATAAGAATGA
* *
425706 AATATATATATAATACCAT
1 AATATATA-ATAATAACAG
425725 AATA-ATAATAATAACAG
1 AATATATAATAATAACAG
425742 AATATATAAT-ATAAC
1 AATATATAATAATAAC
425757 GTAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.59
18 8 0.28
19 4 0.14
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (18 bp):
AATATATAATAATAACAG
Found at i:425768 original size:18 final size:18
Alignment explanation
Indices: 425742--425786 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
425732 ATAATAACAG
* * *
425742 AATATATAATATAACGTA
1 AATAAATAATAAAAAGTA
*
425760 ATTAAATAATAAAAAGTA
1 AATAAATAATAAAAAGTA
425778 AATAAATAA
1 AATAAATAA
425787 ATAGAATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAAATAATAAAAAGTA
Found at i:426886 original size:16 final size:14
Alignment explanation
Indices: 426854--426892 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
426844 AAAAGTATAA
426854 ATATATATATTATT
1 ATATATATATTATT
426868 ATATAATATATTCATT
1 ATAT-ATATATT-ATT
426884 ATATGATAT
1 ATAT-ATAT
426893 GGTCGAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 11 0.50
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (14 bp):
ATATATATATTATT
Found at i:431226 original size:60 final size:60
Alignment explanation
Indices: 431113--431262 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 60
431103 AAATTGGTCT
*** *
431113 CTAAACTTTTAAACATTTCAATTTCATCGTTAAAATATGGCTATCATTTTAAATTAGTTC
1 CTAAACTTTTAAACATTTCAATTTCATCCCCAAAATATGGCTATCATTCTAAATTAGTTC
* * * *
431173 CTAAACTTTTAAACATTTCATTTTCATCCCCAAATTGTGATCT-TCATTCTAAATTAG-TC
1 CTAAACTTTTAAACATTTCAATTTCATCCCCAAAATATG-GCTATCATTCTAAATTAGTTC
* * * *
431232 CTCAAGCTTTTTGAATATTTCAATTTTATCC
1 CT-AAAC-TTTTAAACATTTCAATTTCATCC
431263 TAAATTATAT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
59 4 0.05
60 49 0.66
61 21 0.28
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (60 bp):
CTAAACTTTTAAACATTTCAATTTCATCCCCAAAATATGGCTATCATTCTAAATTAGTTC
Found at i:431484 original size:58 final size:58
Alignment explanation
Indices: 431388--431575 Score: 211
Period size: 60 Copynumber: 3.2 Consensus size: 58
431378 TTTGGATGAA
* * * *
431388 TTTGGGGATGAAATTGGAA-GATCTAAAAGTATAGGGACTAATTTAGAAT-GATTCATAG
1 TTTGGGGATAAAATTGGAATG-T-TAAAAGTTTAAGGACTAATTTAGAATAGAGTCATAG
*
431446 TTTGGGGATAAAATTGGAATGTTAAAAAATTTAAGGACTAATTTAGAATGAGAGTCATAG
1 TTTGGGGATAAAATTGGAATGTT-AAAAGTTTAAGGACTAATTTAGAAT-AGAGTCATAG
** **
431506 TTTAAGGATGTAATTGGAATGTTTAAAAGTTTAAGGACTAATTT-GAAATGAGAGTCATAG
1 TTTGGGGATAAAATTGGAATG-TTAAAAGTTTAAGGACTAATTTAG-AAT-AGAGTCATAG
431566 TTTGGGGATA
1 TTTGGGGATA
431576 TATGATGCAG
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.01
58 41 0.37
59 2 0.02
60 65 0.59
61 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (58 bp):
TTTGGGGATAAAATTGGAATGTTAAAAGTTTAAGGACTAATTTAGAATAGAGTCATAG
Found at i:431510 original size:31 final size:30
Alignment explanation
Indices: 431475--431568 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
431465 TGTTAAAAAA
431475 TTTAAGGACTAATTTAGAATGAGAGTCATAG
1 TTTAAGGACTAATTT-GAATGAGAGTCATAG
* * ** * *
431506 TTTAAGGATGTAATTGGAAT--GTTTAAAAG
1 TTTAAGGA-CTAATTTGAATGAGAGTCATAG
431535 TTTAAGGACTAATTTGAAATGAGAGTCATAG
1 TTTAAGGACTAATTTG-AATGAGAGTCATAG
431566 TTT
1 TTT
431569 GGGGATATAT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
28 6 0.13
29 16 0.34
31 20 0.43
32 5 0.11
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.36
Consensus pattern (30 bp):
TTTAAGGACTAATTTGAATGAGAGTCATAG
Found at i:436116 original size:36 final size:36
Alignment explanation
Indices: 436066--436135 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
436056 GTGTGATTAA
*
436066 TGGATTTGTGTGATTATG-TTTCAATGTCAATTTATT
1 TGGATTTGTATGATT-TGATTTCAATGTCAATTTATT
*
436102 TGGATTTGTATGATTTGATTTGAATGTCAATTTA
1 TGGATTTGTATGATTTGATTTCAATGTCAATTTA
436136 AGAATATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.51
Consensus pattern (36 bp):
TGGATTTGTATGATTTGATTTCAATGTCAATTTATT
Found at i:445344 original size:16 final size:18
Alignment explanation
Indices: 445306--445344 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
445296 TAATAAACAA
445306 TTTTTTATATATCAATTG
1 TTTTTTATATATCAATTG
445324 TTTTTTATATAT-AATT-
1 TTTTTTATATATCAATTG
445340 TTTTT
1 TTTTT
445345 AAAAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 4 0.19
18 12 0.57
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTATATATCAATTG
Found at i:447072 original size:33 final size:32
Alignment explanation
Indices: 447025--447109 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
447015 TAAAAAATTA
*
447025 GGTACTAAAATGAAACAAAAAAGGTAACAGTGG
1 GGTACTAAAATGAAACAAAAAAGGTAACAAT-G
* *
447058 GGTATTAAAATGAAAC-AAAAAGTTAACAATG
1 GGTACTAAAATGAAACAAAAAAGGTAACAATG
* *
447089 GGTACTAAAATAAAATAAAAA
1 GGTACTAAAATGAAACAAAAA
447110 GTAAACATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 14 0.31
32 16 0.36
33 15 0.33
ACGTcount: A:0.56, C:0.07, G:0.18, T:0.19
Consensus pattern (32 bp):
GGTACTAAAATGAAACAAAAAAGGTAACAATG
Found at i:447098 original size:31 final size:32
Alignment explanation
Indices: 447025--447116 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 32
447015 TAAAAAATTA
* *
447025 GGTACTAAAATGAAACAAAAAAGGTAACAGTGG
1 GGTACTAAAATGAAAC-AAAAAGTTAACAATGG
*
447058 GGTATTAAAATGAAACAAAAAGTTAACAAT-G
1 GGTACTAAAATGAAACAAAAAGTTAACAATGG
* * *
447089 GGTACTAAAATAAAATAAAAAGTAAACA
1 GGTACTAAAATGAAACAAAAAGTTAACA
447117 TTAGGTATGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
31 25 0.48
32 12 0.23
33 15 0.29
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.18
Consensus pattern (32 bp):
GGTACTAAAATGAAACAAAAAGTTAACAATGG
Found at i:452088 original size:25 final size:25
Alignment explanation
Indices: 452060--452117 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
452050 TGAGCATGCC
452060 CTGCATTTGACCCCGGGCACAGCGG
1 CTGCATTTGACCCCGGGCACAGCGG
*
452085 CTGCATTTGGCCCCGGGCACAGCGG
1 CTGCATTTGACCCCGGGCACAGCGG
452110 CTGCATTT
1 CTGCATTT
452118 ATTTCAGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.14, C:0.34, G:0.31, T:0.21
Consensus pattern (25 bp):
CTGCATTTGACCCCGGGCACAGCGG
Found at i:453594 original size:2 final size:2
Alignment explanation
Indices: 453587--453625 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
453577 AATTTACCCA
453587 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
453626 CGACTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:454120 original size:60 final size:58
Alignment explanation
Indices: 454017--454204 Score: 200
Period size: 60 Copynumber: 3.2 Consensus size: 58
454007 TTTGGATGAA
* * * * * * *
454017 TTTGGGGATGAAATTGTAATATCTAAAAGTCTAGGGACCAATTTAGAATGAGATTCATAT
1 TTTGGGGATGAAATTGGAATTTC-AAAAGTTTAAGGACTAATTTA-AATGAGAGTCATAG
*
454077 TTTGGGGATGAAATTGGAATGTTCAAAATTTTAAGGACTAATTTAAAATGAGAGTCATAG
1 TTTGGGGATGAAATTGGAAT-TTCAAAAGTTTAAGGACTAATTT-AAATGAGAGTCATAG
* * *
454137 TTTGAGGACT-TAATTGGAATTTTAAAAGTTTAAGGACTAATTTCAAATGATG-GTCATAG
1 TTTGGGGA-TGAAATTGGAATTTCAAAAGTTTAAGGACTAATTT-AAATGA-GAGTCATAG
454196 TTTGGGGAT
1 TTTGGGGAT
454205 ACATGATGCA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
58 1 0.01
59 41 0.37
60 64 0.58
61 4 0.04
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (58 bp):
TTTGGGGATGAAATTGGAATTTCAAAAGTTTAAGGACTAATTTAAATGAGAGTCATAG
Found at i:457555 original size:17 final size:16
Alignment explanation
Indices: 457514--457557 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
457504 TTAAAGTAAG
457514 ATATTATTTTTAAATA
1 ATATTATTTTTAAATA
*
457530 AT-TACATTTTTACAATA
1 ATAT-TATTTTTA-AATA
457547 ATATTATTTTT
1 ATATTATTTTT
457558 CTTCTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.39
17 12 0.52
18 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTATTTTTAAATA
Found at i:458256 original size:18 final size:19
Alignment explanation
Indices: 458228--458268 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
458218 GTATTTTATC
458228 TTTATTTTTTTATTATTTT
1 TTTATTTTTTTATTATTTT
*
458247 TTTA-TTTTTTATTTTTTT
1 TTTATTTTTTTATTATTTT
458265 TTTA
1 TTTA
458269 CTGCCGGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTATTTTTTTATTATTTT
Found at i:460626 original size:2 final size:2
Alignment explanation
Indices: 460619--460661 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
460609 AATTTACCCA
460619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
460661 A
1 A
460662 ACGACTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:460886 original size:60 final size:60
Alignment explanation
Indices: 460780--460928 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 60
460770 AATTGGTCTC
* **
460780 TAAACTTTTAAACATTTCAATTTTATCCTTAAAATATGACTATCATTTTAAATTAGTTCT
1 TAAACTTTTAAACATTTCAATTTTATCCCTAAAATATGACTATCATTCCAAATTAGTTCT
* * * * *
460840 TAAACTTTTGAACATTTC-ATTTTCATCCCTAAATTGTGA-TATTCATTCCAAATTAGTCCC
1 TAAACTTTTAAACATTTCAATTTT-ATCCCTAAAATATGACTA-TCATTCCAAATTAGTTCT
* * * *
460900 CAACCTTTTTGAATATTTCAATTTTATCC
1 TAAAC-TTTTAAACATTTCAATTTTATCC
460929 TCAATTATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 7 0.09
60 46 0.62
61 16 0.22
62 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (60 bp):
TAAACTTTTAAACATTTCAATTTTATCCCTAAAATATGACTATCATTCCAAATTAGTTCT
Found at i:461158 original size:60 final size:58
Alignment explanation
Indices: 461055--461242 Score: 200
Period size: 60 Copynumber: 3.2 Consensus size: 58
461045 TTTGGATGAA
* * * * * * *
461055 TTTGGGGATGAAATTGTAATATCTAAAAGTCTAGGGACCAATTTAGAATGAGATTCATAT
1 TTTGGGGATGAAATTGGAATTTC-AAAAGTTTAAGGACTAATTTA-AATGAGAGTCATAG
*
461115 TTTGGGGATGAAATTGGAATGTTCAAAATTTTAAGGACTAATTTAAAATGAGAGTCATAG
1 TTTGGGGATGAAATTGGAAT-TTCAAAAGTTTAAGGACTAATTT-AAATGAGAGTCATAG
* * *
461175 TTTGAGGACT-TAATTGGAATTTTAAAAGTTTAAGGACTAATTTCAAATGATG-GTCATAG
1 TTTGGGGA-TGAAATTGGAATTTCAAAAGTTTAAGGACTAATTT-AAATGA-GAGTCATAG
461234 TTTGGGGAT
1 TTTGGGGAT
461243 ACATGATGCA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
58 1 0.01
59 41 0.37
60 64 0.58
61 4 0.04
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (58 bp):
TTTGGGGATGAAATTGGAATTTCAAAAGTTTAAGGACTAATTTAAATGAGAGTCATAG
Found at i:465319 original size:18 final size:18
Alignment explanation
Indices: 465291--465330 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
465281 GTATTTTATC
465291 TTTATTTTTTTATTATTTT
1 TTTATTTTTTTATT-TTTT
465310 TTTA-TTTTTTATTTTTT
1 TTTATTTTTTTATTTTTT
465327 TTTA
1 TTTA
465331 CTGCCGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 9 0.43
19 4 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTATTTTTTTATTTTTT
Found at i:467698 original size:2 final size:2
Alignment explanation
Indices: 467691--467735 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
467681 AATTTACCCA
467691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
467733 AT A
1 AT A
467736 ACGACTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:467961 original size:60 final size:60
Alignment explanation
Indices: 467855--468003 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 60
467845 AATTGGTCTC
* **
467855 TAAACTTTTAAACATTTCAATTTTATCCTTAAAATATGACTATCATTTTAAATTAGTTCT
1 TAAACTTTTAAACATTTCAATTTTATCCCTAAAATATGACTATCATTCCAAATTAGTTCT
* * * * *
467915 TAAACTTTTGAACATTTC-ATTTTCATCCCTAAATTGTGA-TATTCATTCCAAATTAGTCCC
1 TAAACTTTTAAACATTTCAATTTT-ATCCCTAAAATATGACTA-TCATTCCAAATTAGTTCT
* * * *
467975 CAACCTTTTTGAATATTTCAATTTTATCC
1 TAAAC-TTTTAAACATTTCAATTTTATCC
468004 TCAATTATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 7 0.09
60 46 0.62
61 16 0.22
62 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (60 bp):
TAAACTTTTAAACATTTCAATTTTATCCCTAAAATATGACTATCATTCCAAATTAGTTCT
Found at i:468231 original size:60 final size:58
Alignment explanation
Indices: 468128--468315 Score: 200
Period size: 60 Copynumber: 3.2 Consensus size: 58
468118 TTTGGATGAA
* * * * * * *
468128 TTTGGGGATGAAATTGTAATATCTAAAAGTCTAGGGACCAATTTAGAATGAGATTCATAT
1 TTTGGGGATGAAATTGGAATTTC-AAAAGTTTAAGGACTAATTTA-AATGAGAGTCATAG
*
468188 TTTGGGGATGAAATTGGAATGTTCAAAATTTTAAGGACTAATTTAAAATGAGAGTCATAG
1 TTTGGGGATGAAATTGGAAT-TTCAAAAGTTTAAGGACTAATTT-AAATGAGAGTCATAG
* * *
468248 TTTGAGGACT-TAATTGGAATTTTAAAAGTTTAAGGACTAATTTCAAATGATG-GTCATAG
1 TTTGGGGA-TGAAATTGGAATTTCAAAAGTTTAAGGACTAATTT-AAATGA-GAGTCATAG
468307 TTTGGGGAT
1 TTTGGGGAT
468316 ACATGATGCA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
58 1 0.01
59 41 0.37
60 64 0.58
61 4 0.04
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (58 bp):
TTTGGGGATGAAATTGGAATTTCAAAAGTTTAAGGACTAATTTAAATGAGAGTCATAG
Found at i:472383 original size:22 final size:23
Alignment explanation
Indices: 472358--472400 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
472348 ACATGCATTG
*
472358 TATTTTA-TCTTTATTTTTTTAT
1 TATTTTATTATTTATTTTTTTAT
472380 TATTTTATTATTTATTTTTTT
1 TATTTTATTATTTATTTTTTT
472401 TTACTGCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (23 bp):
TATTTTATTATTTATTTTTTTAT
Found at i:472988 original size:13 final size:13
Alignment explanation
Indices: 472970--472994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
472960 TCATATCAAG
472970 ATTTTAATTTTTT
1 ATTTTAATTTTTT
472983 ATTTTAATTTTT
1 ATTTTAATTTTT
472995 GCATATATAC
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:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:475702 original size:23 final size:22
Alignment explanation
Indices: 475676--475745 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
475666 TTGAATGTAA
475676 TGATTCCCAGTGTTATTATTGTG
1 TGATTCCCA-TGTTATTATTGTG
* * *
475699 TGATT---ATGTT-TCAATGTAA
1 TGATTCCCATGTTATTATTGT-G
475718 TGATTCCCAATGTTATTATTGTG
1 TGATTCCC-ATGTTATTATTGTG
475741 TGATT
1 TGATT
475746 ATGTTTGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 9 0.26
20 1 0.03
23 15 0.43
24 5 0.14
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.49
Consensus pattern (22 bp):
TGATTCCCATGTTATTATTGTG
Found at i:475715 original size:42 final size:42
Alignment explanation
Indices: 475652--475757 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
475642 ATTAATGGAT
*
475652 TTGTGTGATTATGTTTGAATGTAATGATTCCCAGTGTTATTA
1 TTGTGTGATTATGTTTGAATGTAATGATTCCCAATGTTATTA
*
475694 TTGTGTGATTATGTTTCAATGTAATGATTCCCAATGTTATTA
1 TTGTGTGATTATGTTTGAATGTAATGATTCCCAATGTTATTA
475736 TTGTGTGATTATGTTTGAATGT
1 TTGTGTGATTATGTTTGAATGT
475758 CAATTTAAGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.49
Consensus pattern (42 bp):
TTGTGTGATTATGTTTGAATGTAATGATTCCCAATGTTATTA
Found at i:475882 original size:31 final size:31
Alignment explanation
Indices: 475844--475905 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
475834 TGGGCACAAC
*
475844 ATACTAAAGGGTAAATTACACATTTAGTACT
1 ATACTAAAGGATAAATTACACATTTAGTACT
475875 ATACTAAAGGATAAATTACACATTTAGTACT
1 ATACTAAAGGATAAATTACACATTTAGTACT
475906 TAAACTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
ATACTAAAGGATAAATTACACATTTAGTACT
Found at i:478410 original size:17 final size:16
Alignment explanation
Indices: 478377--478419 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
478367 TCGGTGATAG
478377 ATATTA-TTTTAAATA
1 ATATTATTTTTAAATA
478392 ATCA-TATTTTTACAATA
1 AT-ATTATTTTTA-AATA
478409 ATATTATTTTT
1 ATATTATTTTT
478420 TCACCTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 13 0.54
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTATTTTTAAATA
Found at i:478689 original size:12 final size:12
Alignment explanation
Indices: 478674--478707 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
478664 GAGAACGCGA
478674 GGAAGAATTGGG
1 GGAAGAATTGGG
478686 GGAAGAATTGGG
1 GGAAGAATTGGG
478698 GGAAGAATTG
1 GGAAGAATTG
478708 CGAATGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (12 bp):
GGAAGAATTGGG
Found at i:483817 original size:12 final size:12
Alignment explanation
Indices: 483802--483835 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
483792 GAGAACGCGA
483802 GGAAGAATTGGG
1 GGAAGAATTGGG
483814 GGAAGAATTGGG
1 GGAAGAATTGGG
483826 GGAAGAATTG
1 GGAAGAATTG
483836 CGAATGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (12 bp):
GGAAGAATTGGG
Found at i:484476 original size:11 final size:11
Alignment explanation
Indices: 484462--484487 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
484452 TTACATTTTC
484462 TAATAAATATT
1 TAATAAATATT
484473 TAATAAATATT
1 TAATAAATATT
484484 TAAT
1 TAAT
484488 TTAATGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAAATATT
Found at i:485023 original size:20 final size:20
Alignment explanation
Indices: 484986--485024 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
484976 TCGATTTTTT
*
484986 AAATTTTTTTTAGCAAAATC
1 AAATTTTTTTTAGAAAAATC
485006 AAATTTTTATTTA-AAAAAT
1 AAATTTTT-TTTAGAAAAAT
485025 AATAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (20 bp):
AAATTTTTTTTAGAAAAATC
Found at i:486425 original size:2 final size:2
Alignment explanation
Indices: 486413--486446 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
486403 TTAAATAACC
486413 AT AT AT GAT AT AT GAT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT -AT AT AT AT AT AT AT AT AT AT
486447 TCCTTCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:487000 original size:60 final size:60
Alignment explanation
Indices: 486903--487019 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
486893 TGTGTCTCCA
* * *
486903 AAACTATAACTTTCATTTTAAATTGATCCTTAAACTTTAAAATATTCTAATTTCATCCCT
1 AAACTATAACTCTCATTCTAAATTGATCCTTAAACTTTAAAACATTCTAATTTCATCCCT
* * ** *
486963 AAACTATGACTCTCATTCTAAATT-AGTCCTTACACTTTTGAACGTTCTAATTTCATC
1 AAACTATAACTCTCATTCTAAATTGA-TCCTTAAACTTTAAAACATTCTAATTTCATC
487020 TATTATTCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (60 bp):
AAACTATAACTCTCATTCTAAATTGATCCTTAAACTTTAAAACATTCTAATTTCATCCCT
Found at i:487631 original size:9 final size:10
Alignment explanation
Indices: 487605--487636 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
487595 TCAGAAATTA
487605 AATATTTTTT
1 AATATTTTTT
487615 AATATTTTTT
1 AATATTTTTT
*
487625 AATTTTTTTT
1 AATATTTTTT
487635 AA
1 AA
487637 AATTACTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
AATATTTTTT
Found at i:488563 original size:20 final size:20
Alignment explanation
Indices: 488538--488579 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
488528 AGCTACCCTC
488538 TTTTAACCCAAACATTACCA
1 TTTTAACCCAAACATTACCA
488558 TTTTAACCCAAACATTACCA
1 TTTTAACCCAAACATTACCA
488578 TT
1 TT
488580 AGACTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTTAACCCAAACATTACCA
Found at i:489142 original size:31 final size:31
Alignment explanation
Indices: 489069--489157 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
489059 TAAAAATTTA
489069 GGTACTAAAATGAAACAAAAAAAGTAACAGCGG
1 GGTACTAAAATGAAAC--AAAAAGTAACAGCGG
* *
489102 GGTATTAAAATGAAACAAAACGTTAAC-GAC-G
1 GGTACTAAAATGAAACAAAAAG-TAACAG-CGG
*
489133 GGTACTAAAATAAAACAAAAAGTAA
1 GGTACTAAAATGAAACAAAAAGTAA
489158 ACATTAGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 3 0.06
31 26 0.53
32 5 0.10
33 15 0.31
ACGTcount: A:0.55, C:0.11, G:0.18, T:0.16
Consensus pattern (31 bp):
GGTACTAAAATGAAACAAAAAGTAACAGCGG
Done.