Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 158 of 204
Found at i:47365449 original size:9 final size:9
Alignment explanation
Indices: 47365437--47365580 Score: 56
Period size: 9 Copynumber: 16.8 Consensus size: 9
47365427 GTAAAAGTGA
47365437 AAAAATTAT
1 AAAAATTAT
47365446 -AAAA-TAT
1 AAAAATTAT
*
47365453 AGAAATTTAT
1 A-AAAATTAT
*
47365463 AAAAATTCT
1 AAAAATTAT
** * *
47365472 ATGAATGAA
1 AAAAATTAT
47365481 AAAAATTAT
1 AAAAATTAT
* *
47365490 ATAAATAAT
1 AAAAATTAT
47365499 AAAAATTGA-
1 AAAAATT-AT
*
47365508 AAAAAAT-T
1 AAAAATTAT
*
47365516 CAAAATTA-
1 AAAAATTAT
47365524 AAAAA--AT
1 AAAAATTAT
*
47365531 AAAAAATA-
1 AAAAATTAT
**
47365539 AAAAAGAAT
1 AAAAATTAT
47365548 GAAAAATTAT
1 -AAAAATTAT
* *
47365558 ATAAATTAC
1 AAAAATTAT
47365567 AAAAA--AT
1 AAAAATTAT
47365574 AAAAATT
1 AAAAATT
47365581 CGGAAATTAT
Statistics
Matches: 94, Mismatches: 28, Indels: 26
0.64 0.19 0.18
Matches are distributed among these distances:
6 1 0.01
7 14 0.15
8 19 0.20
9 48 0.51
10 12 0.13
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (9 bp):
AAAAATTAT
Found at i:47365527 original size:44 final size:44
Alignment explanation
Indices: 47365436--47365573 Score: 117
Period size: 44 Copynumber: 3.2 Consensus size: 44
47365426 TGTAAAAGTG
* * * *
47365436 AAAAAATTATAAAATATAGAAATTTATAAAAATTCTATGAATGA
1 AAAAAATTATAAAATATAAAAATTGAAAAAAATTCTATAAATGA
*
47365480 AAAAAATTATATAAATAATAAAAATTGAAAAAAATTC-A-AAATTA
1 AAAAAATTATA-AAAT-ATAAAAATTGAAAAAAATTCTATAAATGA
* * *
47365524 AAAAAA-TA-AAAA-ATAAAAA-AGAATGAAAAATTATATAAATTA
1 AAAAAATTATAAAATATAAAAATTGAA--AAAAATTCTATAAATGA
47365566 CAAAAAAT
1 -AAAAAAT
47365574 AAAAATTCGG
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
38 3 0.04
39 7 0.09
40 7 0.09
41 4 0.05
42 7 0.09
43 8 0.10
44 21 0.27
45 5 0.06
46 17 0.22
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (44 bp):
AAAAAATTATAAAATATAAAAATTGAAAAAAATTCTATAAATGA
Found at i:47365528 original size:16 final size:15
Alignment explanation
Indices: 47365481--47365543 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
47365471 TATGAATGAA
47365481 AAAAATTATATAAATAAT
1 AAAAATTA-A-AAA-AAT
47365499 AAAAATTGAAAAAAATT
1 AAAAATT-AAAAAAA-T
*
47365516 CAAAATTAAAAAAAT
1 AAAAATTAAAAAAAT
*
47365531 AAAAAATAAAAAA
1 AAAAATTAAAAAA
47365544 GAATGAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 12 0.30
16 9 0.22
17 10 0.25
18 8 0.20
19 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAAATTAAAAAAAT
Found at i:47365551 original size:42 final size:43
Alignment explanation
Indices: 47365492--47365578 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 43
47365482 AAAATTATAT
*
47365492 AAATAATAAAAATTGAAAAAAATT-CA-AAATTA-AAAAAATAAA
1 AAATAATAAAAAATG--AAAAATTACATAAATTACAAAAAATAAA
*
47365534 AAATAA-AAAAGAATGAAAAATTATATAAATTACAAAAAATAAA
1 AAATAATAAAA-AATGAAAAATTACATAAATTACAAAAAATAAA
47365577 AA
1 AA
47365579 TTCGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
40 7 0.18
41 5 0.13
42 15 0.38
43 12 0.31
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (43 bp):
AAATAATAAAAAATGAAAAATTACATAAATTACAAAAAATAAA
Found at i:47365854 original size:17 final size:17
Alignment explanation
Indices: 47365832--47365876 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
47365822 CCAATTCTTT
47365832 TATAATTTTATAATTTA
1 TATAATTTTATAATTTA
* *
47365849 TATAATTTTTTTCATTTA
1 TATAA-TTTTATAATTTA
47365867 TAATAATTTT
1 T-ATAATTTT
47365877 CTATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 15 0.62
19 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATAATTTTATAATTTA
Found at i:47365859 original size:19 final size:18
Alignment explanation
Indices: 47365832--47365894 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
47365822 CCAATTCTTT
*
47365832 TATAATTTTATA-ATTTA
1 TATAATTTTTTATATTTA
47365849 TATAATTTTTT-TCATTTA
1 TATAATTTTTTAT-ATTTA
* *
47365867 TAATAATTTTCTATATTTT
1 T-ATAATTTTTTATATTTA
47365886 TAT-ATTTTT
1 TATAATTTTT
47365895 GCACTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 15 0.39
18 8 0.21
19 14 0.37
20 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TATAATTTTTTATATTTA
Found at i:47379967 original size:19 final size:19
Alignment explanation
Indices: 47379917--47379977 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
47379907 TTATTTCTTT
*
47379917 ATAAAC-AAGTATATAAAA
1 ATAAACAAAGTAAATAAAA
* * *
47379935 ATAAAAAAATTAAATTAAA
1 ATAAACAAAGTAAATAAAA
*
47379954 TTAAACAAAGTAAA-AAGAA
1 ATAAACAAAGTAAATAA-AA
47379973 ATAAA
1 ATAAA
47379978 ATAAAATCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (19 bp):
ATAAACAAAGTAAATAAAA
Found at i:47379977 original size:29 final size:28
Alignment explanation
Indices: 47379936--47379991 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
47379926 TATATAAAAA
* * *
47379936 TAAAAAAATTAAATTAAATTAAACAAAG
1 TAAAAAAAATAAAATAAAATAAACAAAG
*
47379964 TAAAAAGAAATAAAATAAAATCAACAAA
1 TAAAAA-AAATAAAATAAAATAAACAAA
47379992 AATGACCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (28 bp):
TAAAAAAAATAAAATAAAATAAACAAAG
Found at i:47380475 original size:29 final size:29
Alignment explanation
Indices: 47380443--47380499 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
47380433 AAAACTTATG
* *
47380443 ATTATTTATAAAAATAATTCATTTTAAAA
1 ATTATGTACAAAAATAATTCATTTTAAAA
*
47380472 ATTATGTACATAAATAATTCATTTTAAA
1 ATTATGTACAAAAATAATTCATTTTAAA
47380500 TAGTAAATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTATGTACAAAAATAATTCATTTTAAAA
Found at i:47400553 original size:24 final size:24
Alignment explanation
Indices: 47400526--47400571 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
47400516 CAAACAATCC
47400526 TGAACTAGTAGAGCCAAATGTTGT
1 TGAACTAGTAGAGCCAAATGTTGT
*
47400550 TGAACTAGTGGAGCCAAATGTT
1 TGAACTAGTAGAGCCAAATGTT
47400572 AATCTTGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (24 bp):
TGAACTAGTAGAGCCAAATGTTGT
Found at i:47402901 original size:20 final size:20
Alignment explanation
Indices: 47402873--47402921 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
47402863 TACATATTAT
*
47402873 CACTATTCATGATTTGACTC
1 CACTATTCATGACTTGACTC
*
47402893 CACTGTTCATGACTTGAC-C
1 CACTATTCATGACTTGACTC
*
47402912 CTCTATTCAT
1 CACTATTCAT
47402922 AGGACTGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (20 bp):
CACTATTCATGACTTGACTC
Found at i:47403356 original size:10 final size:9
Alignment explanation
Indices: 47403327--47403355 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
47403317 GTTAACTAGT
47403327 AAAGG-AAA
1 AAAGGAAAA
47403335 AAAGGAAAA
1 AAAGGAAAA
47403344 AAAGGAAAA
1 AAAGGAAAA
47403353 AAA
1 AAA
47403356 AAAAATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAGGAAAA
Found at i:47403360 original size:17 final size:17
Alignment explanation
Indices: 47403327--47403360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47403317 GTTAACTAGT
**
47403327 AAAGGAAAAAAGGAAAA
1 AAAGGAAAAAAAAAAAA
47403344 AAAGGAAAAAAAAAAAA
1 AAAGGAAAAAAAAAAAA
47403361 TTATGGATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGGAAAAAAAAAAAA
Found at i:47406354 original size:20 final size:20
Alignment explanation
Indices: 47406329--47406368 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47406319 CCAAAGATTA
47406329 GAATGAATATAATCCAATGT
1 GAATGAATATAATCCAATGT
*
47406349 GAATGAATATAGTCCAATGT
1 GAATGAATATAATCCAATGT
47406369 TCCCTTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (20 bp):
GAATGAATATAATCCAATGT
Found at i:47410490 original size:15 final size:15
Alignment explanation
Indices: 47410472--47410502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47410462 ATAGGTAAAT
*
47410472 AAGAAATAAAAATAA
1 AAGAAAGAAAAATAA
47410487 AAGAAAGAAAAATAA
1 AAGAAAGAAAAATAA
47410502 A
1 A
47410503 CTATCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAGAAAGAAAAATAA
Found at i:47411552 original size:66 final size:66
Alignment explanation
Indices: 47411473--47411604 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
47411463 TAAAGGAAAG
*
47411473 GAAAAGGAAATGTTACGACTATATGTTTAGCACACTTTGTGTGAGCTTCCCCGCATATCTGATGT
1 GAAAAGGAAATGTTACGACTATATGTTTAGCACACTTTATGTGAGCTTCCCCGCATATCTGATGT
47411538 T
66 T
* * **
47411539 GAAAAGGAAATGTTACGACTCTATGTTTAGTACACTTTATGTGAGCTTCCCCGTGTATCTGATGT
1 GAAAAGGAAATGTTACGACTATATGTTTAGCACACTTTATGTGAGCTTCCCCGCATATCTGATGT
47411604 T
66 T
47411605 ATTCTGAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (66 bp):
GAAAAGGAAATGTTACGACTATATGTTTAGCACACTTTATGTGAGCTTCCCCGCATATCTGATGT
T
Found at i:47425794 original size:49 final size:49
Alignment explanation
Indices: 47425722--47425819 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
47425712 TCCATATAGA
* * *
47425722 ACTACACTTCTTTTATTTTACTTTCATAAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCATCTATTTGACTTTCATAAGAATAAGGTTTTTCAACCTT
* *
47425771 ACTACACTTCATCTATTTGACTTTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCATCTATTTGACTTTCATAAGAATAAGGTTTTTCAACCTT
47425820 TAAGTAGATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (49 bp):
ACTACACTTCATCTATTTGACTTTCATAAGAATAAGGTTTTTCAACCTT
Found at i:47428538 original size:17 final size:17
Alignment explanation
Indices: 47428499--47428532 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47428489 GAATTGAGTT
*
47428499 GAAAATTTATTTAATTA
1 GAAAATTAATTTAATTA
47428516 GAAAATTAATTTAATTA
1 GAAAATTAATTTAATTA
47428533 ATAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
GAAAATTAATTTAATTA
Found at i:47435080 original size:50 final size:50
Alignment explanation
Indices: 47434897--47435076 Score: 216
Period size: 50 Copynumber: 3.6 Consensus size: 50
47434887 TAAATGGCAA
* * *
47434897 TATATATGCATATCAATGGCGGCTTGTCCACAAAATGTTATCAGTGGTAG
1 TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
* * * *
47434947 TATATCTGCATATCAATGGTGGCTTGGCCACAAAGTATTATTAGTGATAG
1 TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
* * * * *
47434997 TATATCTGCATATTAGTGGTGGCTTGTCCATAAAGTGTTATCAATGGCAG
1 TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
* * * *
47435047 TTTATCTACAAATCAATGGTGACTTGTCCA
1 TATATCTGCATATCAATGGTGGCTTGTCCA
47435077 TAAATGATGT
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (50 bp):
TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
Found at i:47438822 original size:6 final size:6
Alignment explanation
Indices: 47438796--47438844 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
47438786 AGGATTTAAA
* *
47438796 TTTTA- TTTTA- TTTTA- TTTTGT TTTTGT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
47438841 TTTT
1 TTTT
47438845 TCCTTTATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 14 0.34
6 27 0.66
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:47440941 original size:2 final size:2
Alignment explanation
Indices: 47440934--47440973 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
47440924 TTGATAAAGC
*
47440934 AT AT AT AT AT AT AT AT AT AT AT AT GT 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
47440974 CAACAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47448772 original size:16 final size:17
Alignment explanation
Indices: 47448739--47448773 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47448729 ATAAAATTAC
*
47448739 TAAATAATTAATACAAA
1 TAAATAATTAACACAAA
47448756 TAAATAA-TAACACAAA
1 TAAATAATTAACACAAA
47448772 TA
1 TA
47448774 TTTATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAATTAACACAAA
Found at i:47449233 original size:14 final size:14
Alignment explanation
Indices: 47449214--47449240 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47449204 CATGATAAAA
47449214 TAAAATACAAGTGG
1 TAAAATACAAGTGG
47449228 TAAAATACAAGTG
1 TAAAATACAAGTG
47449241 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:47450196 original size:16 final size:16
Alignment explanation
Indices: 47450171--47450204 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47450161 TCAGTGAGAA
47450171 GGTCTAATTGTTCGTG
1 GGTCTAATTGTTCGTG
*
47450187 GGTCTCATTGTTCGTG
1 GGTCTAATTGTTCGTG
47450203 GG
1 GG
47450205 AAACAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.35, T:0.41
Consensus pattern (16 bp):
GGTCTAATTGTTCGTG
Found at i:47455142 original size:16 final size:16
Alignment explanation
Indices: 47455123--47455153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47455113 TTATATACTC
47455123 TGTTTAAGCTATTGAA
1 TGTTTAAGCTATTGAA
*
47455139 TGTTTAAGTTATTGA
1 TGTTTAAGCTATTGA
47455154 TTGGGTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.48
Consensus pattern (16 bp):
TGTTTAAGCTATTGAA
Found at i:47455252 original size:2 final size:2
Alignment explanation
Indices: 47455245--47455282 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47455235 GTAAGGATTA
47455245 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
47455283 TGGCCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47456136 original size:2 final size:2
Alignment explanation
Indices: 47456131--47456161 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47456121 TAAAATCTAA
47456131 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 A
47456162 ATGTATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47459515 original size:49 final size:50
Alignment explanation
Indices: 47459410--47459518 Score: 120
Period size: 49 Copynumber: 2.2 Consensus size: 50
47459400 AAGAATGTTT
** * *
47459410 TATTTTTTTATGTAATTTATTTGTTATGTGTTTTTTAGGTTGATTAGATA
1 TATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATA
47459460 TA-TTTTTTATGTAATTTATTTGGCATGT-TATTTTA-ATT-ATTTTA-ATA
1 TATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGA--TTAGATA
47459507 TAATTTTTTTAT
1 T-ATTTTTTTAT
47459519 TTTTTATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
46 1 0.02
47 6 0.12
48 10 0.20
49 32 0.63
50 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.11, T:0.63
Consensus pattern (50 bp):
TATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATA
Found at i:47459678 original size:21 final size:22
Alignment explanation
Indices: 47459652--47459694 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
47459642 AGAATAAGAG
*
47459652 TTTATGTTTTT-TAAATTTTAT
1 TTTATGTTTTTATAAATATTAT
47459673 TTTATGTTTTTATAAATATTAT
1 TTTATGTTTTTATAAATATTAT
47459695 AAATGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTATGTTTTTATAAATATTAT
Found at i:47461131 original size:33 final size:33
Alignment explanation
Indices: 47461080--47461156 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
47461070 TAGTCCAGTA
* *
47461080 CCACCGCAGTACAGCACTCCTCC-CGGCCCGTAT
1 CCACCGCAGTACACCACTCCTCCTAGG-CCGTAT
* * * *
47461113 CCACCGCATTACTCCACTCTTCCTAGGTCGTAT
1 CCACCGCAGTACACCACTCCTCCTAGGCCGTAT
47461146 CCACCGCAGTA
1 CCACCGCAGTA
47461157 TAGCACTTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 34 0.94
34 2 0.06
ACGTcount: A:0.19, C:0.44, G:0.16, T:0.21
Consensus pattern (33 bp):
CCACCGCAGTACACCACTCCTCCTAGGCCGTAT
Found at i:47465035 original size:17 final size:18
Alignment explanation
Indices: 47465003--47465036 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47464993 AAAACATGCC
*
47465003 ATTTTAGTATTTTTTAAA
1 ATTTTAGTATTATTTAAA
47465021 ATTTTA-TATTATTTAA
1 ATTTTAGTATTATTTAA
47465037 GTAAAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTAGTATTATTTAAA
Found at i:47469896 original size:52 final size:53
Alignment explanation
Indices: 47469830--47469930 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 53
47469820 TTGTTATTAA
* * *
47469830 ATTTTAATAAAATTATTGTTAAATATAATTTATTAAAA-A-ATAATTTAACCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTA-AAAAATACATAATTTAACCAT
*
47469882 ATTTTAACATAATTATTATTAAATATAATTTAAAAAATACATAATTTAA
1 ATTTTAACAAAATTATTATTAAATATAATTTAAAAAATACATAATTTAA
47469931 TAACATTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 30 0.70
53 9 0.21
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (53 bp):
ATTTTAACAAAATTATTATTAAATATAATTTAAAAAATACATAATTTAACCAT
Found at i:47471731 original size:14 final size:14
Alignment explanation
Indices: 47471712--47471739 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47471702 GGCTGAGCAT
47471712 ACATGATTGACCAC
1 ACATGATTGACCAC
47471726 ACATGATTGACCAC
1 ACATGATTGACCAC
47471740 CAATGTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
ACATGATTGACCAC
Found at i:47474528 original size:28 final size:28
Alignment explanation
Indices: 47474494--47474548 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
47474484 GATTGAAATG
47474494 GATTGAATTGGTATGTACATTATGAATT
1 GATTGAATTGGTATGTACATTATGAATT
47474522 GATTGAATTGGTATGTACATTATGAAT
1 GATTGAATTGGTATGTACATTATGAAT
47474549 GTATTGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.42
Consensus pattern (28 bp):
GATTGAATTGGTATGTACATTATGAATT
Found at i:47474554 original size:28 final size:28
Alignment explanation
Indices: 47474490--47474555 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
47474480 AGTTGATTGA
*
47474490 AATGGATTGAATTGGTATGTACATTATG
1 AATGTATTGAATTGGTATGTACATTATG
47474518 AAT-TGATTGAATTGGTATGTACATTATG
1 AATGT-ATTGAATTGGTATGTACATTATG
47474546 AATGTATTGA
1 AATGTATTGA
47474556 TTATTTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (28 bp):
AATGTATTGAATTGGTATGTACATTATG
Found at i:47478831 original size:18 final size:16
Alignment explanation
Indices: 47478797--47478832 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
47478787 GTAAATTAAT
47478797 AGAAAAAAAAGAAGAA
1 AGAAAAAAAAGAAGAA
47478813 AGAAAAATAAAGAAAGAA
1 AGAAAAA-AAAG-AAGAA
47478831 AG
1 AG
47478833 GAAGGAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 4 0.22
18 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAGAAGAA
Found at i:47482352 original size:25 final size:24
Alignment explanation
Indices: 47482316--47482457 Score: 81
Period size: 25 Copynumber: 5.8 Consensus size: 24
47482306 GCTCTCTCTC
47482316 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCA-ATAACGGGAAGCTCATGT
* * * * * **
47482341 GAGCTATGTAACGGAAAGTTTATCC
1 GAGCCA-ATAACGGGAAGCTCATGT
* * **
47482366 GGGCTATATAACGGGAAGCTCATAA
1 GAGCCA-ATAACGGGAAGCTCATGT
*
47482391 GAGCC-ATAATCAGGAAGCTCATGT
1 GAGCCAATAA-CGGGAAGCTCATGT
* *
47482415 GAGCCAATAACGGGTAGCTCA-GAA
1 GAGCCAATAACGGGAAGCTCATG-T
* *
47482439 GAGCCATTAATGGGAAGCT
1 GAGCCAATAACGGGAAGCT
47482458 ACGGATAGCC
Statistics
Matches: 89, Mismatches: 25, Indels: 7
0.74 0.21 0.06
Matches are distributed among these distances:
23 5 0.06
24 41 0.46
25 43 0.48
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTCATGT
Found at i:47482406 original size:24 final size:23
Alignment explanation
Indices: 47482373--47482445 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
47482363 TCCGGGCTAT
*
47482373 ATAACGGGAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
**
47482396 ATAATCAGGAAGCTCATGTGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
* * *
47482420 AATAACGGGTAGCTCAGAAGAGCC
1 -ATAACAGGAAGCTCATAAGAGCC
47482444 AT
1 AT
47482446 TAATGGGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.15
24 30 0.75
25 4 0.10
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:47482457 original size:24 final size:23
Alignment explanation
Indices: 47482373--47482457 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
47482363 TCCGGGCTAT
* *
47482373 ATAACGGGAAGCTCATAAGAGCC
1 ATAATGGGAAGCTCAGAAGAGCC
* *
47482396 ATAATCAGGAAGCTCATG-TGAGCC
1 ATAAT-GGGAAGCTCA-GAAGAGCC
* *
47482420 AATAACGGGTAGCTCAGAAGAGCC
1 -ATAATGGGAAGCTCAGAAGAGCC
47482444 ATTAATGGGAAGCT
1 A-TAATGGGAAGCT
47482458 ACGGATAGCC
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
23 6 0.13
24 37 0.79
25 4 0.09
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (23 bp):
ATAATGGGAAGCTCAGAAGAGCC
Found at i:47484225 original size:103 final size:103
Alignment explanation
Indices: 47484037--47484250 Score: 286
Period size: 103 Copynumber: 2.1 Consensus size: 103
47484027 ACACAGCCTG
* * * * *
47484037 GCCATACGAGCGTGAGTCACACACGGGCAACACACATGGGCATGTATAACACACGGGCAACATAC
1 GCCACACGGGCGTGAGTCACACACGAGCAACACACATGGGCATATATAACACACGGGCAACACAC
* *
47484102 ATGGGCAAGTGACCCAAGTCA-AAGAGTTACACGGCCTA
66 ATGGGCAAGTGACCCAAGTCAGAA-AGCTACACGACCTA
* * * * * *
47484140 TCCACACGGGCGTGAGTTACACACGAGCAACACAGATGGGCATATGTCACACACGGGCAACACAT
1 GCCACACGGGCGTGAGTCACACACGAGCAACACACATGGGCATATATAACACACGGGCAACACAC
*
47484205 ATGGGCATGTGACCCAAGTCAGAAAGCTACACGACCTA
66 ATGGGCAAGTGACCCAAGTCAGAAAGCTACACGACCTA
47484243 GCCACACG
1 GCCACACG
47484251 AGTGTGTGTC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
103 93 0.98
104 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.14
Consensus pattern (103 bp):
GCCACACGGGCGTGAGTCACACACGAGCAACACACATGGGCATATATAACACACGGGCAACACAC
ATGGGCAAGTGACCCAAGTCAGAAAGCTACACGACCTA
Found at i:47485973 original size:29 final size:29
Alignment explanation
Indices: 47485916--47485972 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
47485906 TAGTATAATA
* *
47485916 TGCAATTCTATACATGTACTTTGATTTTG
1 TGCAATTCTATACATGAAATTTGATTTTG
*
47485945 TGCAATTTTATACATGAAAATTTGATTT
1 TGCAATTCTATACATG-AAATTTGATTT
47485973 GATCCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (29 bp):
TGCAATTCTATACATGAAATTTGATTTTG
Found at i:47497295 original size:41 final size:41
Alignment explanation
Indices: 47497238--47497332 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
47497228 ATTGAAATTT
47497238 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
*
47497279 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCTG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
47497320 GTGATCTGAATCA
1 GTGATCTGAATCA
47497333 AAGGAACAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:47497537 original size:16 final size:16
Alignment explanation
Indices: 47497516--47497554 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
47497506 TGATCTGAAT
47497516 CAGGCTATAAGCCTAG
1 CAGGCTATAAGCCTAG
47497532 CAGGCTATAAGCCTAG
1 CAGGCTATAAGCCTAG
47497548 CAGGCTA
1 CAGGCTA
47497555 AGTGCCGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (16 bp):
CAGGCTATAAGCCTAG
Found at i:47497589 original size:41 final size:41
Alignment explanation
Indices: 47497532--47497695 Score: 283
Period size: 41 Copynumber: 4.0 Consensus size: 41
47497522 ATAAGCCTAG
47497532 CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
1 CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
47497573 CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
1 CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
* * *
47497614 CAGGCTATAAGCCTAGTAGGCTAAATGCCGGTGATATGAAT
1 CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
* *
47497655 CAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAAT
1 CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
47497696 ATGTTAAATT
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
Found at i:47505335 original size:35 final size:36
Alignment explanation
Indices: 47505287--47505363 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
47505277 ATTTGTTAGA
* *
47505287 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATAATGAAAT
*
47505323 TATT-ATTATGTTTTAAGCTTGTTGGATAATGAAAT
1 TATTGATTATGTTTTAACCTTGTTGGATAATGAAAT
47505358 TATTGA
1 TATTGA
47505364 CAATGACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.51
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATAATGAAAT
Found at i:47506375 original size:43 final size:43
Alignment explanation
Indices: 47506319--47506418 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
47506309 GTGGTGTAAT
* * *
47506319 ATTATGCACTTGGACAATGTTGTTACTATGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTCACTATGTGGTGTACTACTA
47506362 ATTATGTATTTGGACAATGTTGTCACTATGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTCACTATGTGGTGTACTACTA
47506405 ATTATGTATTTGGA
1 ATTATGTATTTGGA
47506419 TAATATTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (43 bp):
ATTATGTATTTGGACAATGTTGTCACTATGTGGTGTACTACTA
Found at i:47506627 original size:19 final size:19
Alignment explanation
Indices: 47506582--47506653 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 19
47506572 AAATCATTGC
*
47506582 AATATATGTAAAAACAAATT
1 AATATATATAAAAA-AAATT
**
47506602 AA-A-ATATAAAAATTATT
1 AATATATATAAAAAAAATT
47506619 AATATATATGTAAAAAAAATT
1 AATATATA--TAAAAAAAATT
*
47506640 AATATATGTAAAAA
1 AATATATATAAAAA
47506654 CAACTTTTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 10 0.24
20 2 0.05
21 16 0.38
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (19 bp):
AATATATATAAAAAAAATT
Found at i:47506633 original size:21 final size:19
Alignment explanation
Indices: 47506582--47506653 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
47506572 AAATCATTGC
47506582 AATATATGTAAAAACAAATT
1 AATATATGTAAAAA-AAATT
* **
47506602 AA-A-ATATAAAAATTATT
1 AATATATGTAAAAAAAATT
47506619 AATATATATGTAAAAAAAATT
1 -A-ATATATGTAAAAAAAATT
47506640 AATATATGTAAAAA
1 AATATATGTAAAAA
47506654 CAACTTTTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
17 3 0.07
18 9 0.21
19 15 0.36
20 4 0.10
21 11 0.26
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (19 bp):
AATATATGTAAAAAAAATT
Found at i:47506787 original size:14 final size:14
Alignment explanation
Indices: 47506765--47506803 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47506755 TACAGAAAAG
47506765 TAAAACATTTTCCA
1 TAAAACATTTTCCA
* *
47506779 TAAATCATTTTCCG
1 TAAAACATTTTCCA
*
47506793 GAAAACATTTT
1 TAAAACATTTT
47506804 ACTGCCAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (14 bp):
TAAAACATTTTCCA
Found at i:47508305 original size:18 final size:17
Alignment explanation
Indices: 47508283--47508417 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 17
47508273 AATACTAAGA
47508283 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
47508300 ATTTT-TGTTAATT-TAT
1 ATTTTAT-TAAATTATAT
* *
47508316 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
47508330 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
47508349 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
* *
47508365 ATTTTAGTAATTTCATAT
1 ATTTTATTAAATT-ATAT
47508383 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
47508400 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
47508418 TTAATAATAA
Statistics
Matches: 89, Mismatches: 16, Indels: 25
0.68 0.12 0.19
Matches are distributed among these distances:
14 5 0.06
15 12 0.13
16 10 0.11
17 26 0.29
18 31 0.35
19 2 0.02
20 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:47508627 original size:44 final size:46
Alignment explanation
Indices: 47508577--47508669 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
47508567 TTACACCTCT
* * * *
47508577 ATTCCATTCAACCAAACACAAGAA-TACC-ATTATGTCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
47508621 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
47508667 ATT
1 ATT
47508670 ACGCATCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.53
45 4 0.09
46 16 0.37
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
Found at i:47508672 original size:16 final size:16
Alignment explanation
Indices: 47508651--47508720 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
47508641 AGAATTACCT
* *
47508651 ATTACGCCTATATTCC
1 ATTACACCTCTATTCC
* *
47508667 ATTACGCATCTATTCC
1 ATTACACCTCTATTCC
*
47508683 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
47508699 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
47508715 ATTACA
1 ATTACA
47508721 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.27, C:0.31, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:47509489 original size:28 final size:28
Alignment explanation
Indices: 47509432--47509486 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
47509422 ATAGAACCTT
*
47509432 CCCTCTAGCTTTTATGGCTCAACTAAAA
1 CCCTCTAGCTTTGATGGCTCAACTAAAA
*
47509460 CCCTCTAGCTTTGGT-GCTCAACTAAAA
1 CCCTCTAGCTTTGATGGCTCAACTAAAA
47509487 ACCTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (28 bp):
CCCTCTAGCTTTGATGGCTCAACTAAAA
Found at i:47515144 original size:17 final size:17
Alignment explanation
Indices: 47515124--47515156 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47515114 ATATTTACCT
*
47515124 AATAAAAATTAATATTA
1 AATAAAAAATAATATTA
47515141 AATAAAAAATAATATT
1 AATAAAAAATAATATT
47515157 CAATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAAAAATAATATTA
Found at i:47525396 original size:28 final size:29
Alignment explanation
Indices: 47525341--47525405 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
47525331 CCGATACTAA
**
47525341 CTAAATAAAAAAAACTATCTTTCCTTTTT
1 CTAAATAAAAAAAACTATCTTTAATTTTT
* *
47525370 CTAAATAATAATAA-TATCTTTAATTTTT
1 CTAAATAAAAAAAACTATCTTTAATTTTT
*
47525398 -AAAATAAA
1 CTAAATAAA
47525406 TATATTCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 6 0.20
28 12 0.40
29 12 0.40
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.42
Consensus pattern (29 bp):
CTAAATAAAAAAAACTATCTTTAATTTTT
Found at i:47537337 original size:2 final size:2
Alignment explanation
Indices: 47537330--47537367 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47537320 AGGTGAATAA
47537330 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
47537368 GAATAGAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47545557 original size:14 final size:14
Alignment explanation
Indices: 47545535--47545566 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
47545525 AAAGTATTTT
*
47545535 AAAATTAAAAATAA
1 AAAAATAAAAATAA
47545549 AAAAATAAAAATAA
1 AAAAATAAAAATAA
47545563 AAAA
1 AAAA
47545567 TATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:47546105 original size:21 final size:21
Alignment explanation
Indices: 47546075--47546117 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
47546065 AGATTTTTAA
47546075 ATCAAAAAATTTAGAGG-CTT
1 ATCAAAAAATTTAGAGGACTT
*
47546095 ATCAGAAAAATTTGGAGGACTT
1 ATCA-AAAAATTTAGAGGACTT
47546117 A
1 A
47546118 ACTTTAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (21 bp):
ATCAAAAAATTTAGAGGACTT
Found at i:47552279 original size:15 final size:16
Alignment explanation
Indices: 47552235--47552281 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
47552225 TAAAACTATG
47552235 ATAAA-TAAAAAATAT
1 ATAAATTAAAAAATAT
**
47552250 ATAAATTTATTAAATAT
1 ATAAA-TTAAAAAATAT
47552267 -TAAATTAAAAAATAT
1 ATAAATTAAAAAATAT
47552282 GCGTAGACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 14 0.54
16 4 0.15
17 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATTAAAAAATAT
Found at i:47555169 original size:20 final size:18
Alignment explanation
Indices: 47555130--47555169 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
47555120 AACCTCAGGG
*
47555130 GAATGATGCAACCTGGGA
1 GAATGATGCAACCGGGGA
47555148 GAATGATGCAACTCAGGGGA
1 GAATGATGCAAC-C-GGGGA
47555168 GA
1 GA
47555170 TAGTTCACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 1 0.05
20 6 0.32
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (18 bp):
GAATGATGCAACCGGGGA
Found at i:47555477 original size:20 final size:21
Alignment explanation
Indices: 47555439--47555477 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47555429 TCAATAAATA
47555439 AAAAATATTATGAAAAAAACG
1 AAAAATATTATGAAAAAAACG
* *
47555460 AAAAGTATTA-GAATAAAA
1 AAAAATATTATGAAAAAAA
47555478 TATAATACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAAATATTATGAAAAAAACG
Found at i:47565440 original size:22 final size:21
Alignment explanation
Indices: 47565399--47565440 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
47565389 TTTCCAAATA
* *
47565399 TTATTTATTTAATCAACTAAT
1 TTATTTATTAAACCAACTAAT
47565420 TTATTTAATTAAACCAACTAA
1 TTATTT-ATTAAACCAACTAA
47565441 ATTAATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATTTATTAAACCAACTAAT
Found at i:47565460 original size:17 final size:17
Alignment explanation
Indices: 47565438--47565470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47565428 TTAAACCAAC
47565438 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
*
47565455 TAAATTATTTTCTCAA
1 TAAATTAATTTCTCAA
47565471 CCACATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:47566859 original size:2 final size:2
Alignment explanation
Indices: 47566852--47566881 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47566842 ATAAAGAAGC
47566852 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47566882 TTTGACACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:47571642 original size:26 final size:26
Alignment explanation
Indices: 47571611--47571661 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
47571601 GATAATTAAG
*
47571611 TGGTATTAAAATTATTTCTATATTAT
1 TGGTATTAAAATTACTTCTATATTAT
* *
47571637 TGGTATTGAAATTACTTCTTTATTA
1 TGGTATTAAAATTACTTCTATATTA
47571662 CCGAATCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (26 bp):
TGGTATTAAAATTACTTCTATATTAT
Found at i:47578470 original size:3 final size:3
Alignment explanation
Indices: 47578422--47578457 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
47578412 TAATATACAC
47578422 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47578458 GGGTACTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47578481 original size:13 final size:13
Alignment explanation
Indices: 47578451--47578475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47578441 TTATTATTAT
47578451 TATTATTGGGTAC
1 TATTATTGGGTAC
47578464 TATTATTGGGTA
1 TATTATTGGGTA
47578476 TAATTAAGGT
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:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
TATTATTGGGTAC
Found at i:47579850 original size:128 final size:128
Alignment explanation
Indices: 47579618--47580048 Score: 605
Period size: 128 Copynumber: 3.4 Consensus size: 128
47579608 CCTCAAAGAG
*
47579618 CCACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
1 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
*
47579683 GTAGCGGAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAA
66 GTAGTGGAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAA
47579746 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
1 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
* * *
47579811 GTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
66 GTAGTGGAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAA
* * ** *
47579874 TCACGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTAATCCAA-TCTTATCTTCCTGAAG
1 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-CAAGTCTTATCTCCCT-AAG
** * * ** * * * * *
47579938 TTGCAGTGGAGCAAATTGAAGAAGTCAATCCTATCTTCTTGAAGTTGCAGTGAAGCGGGTTAAAA
64 CAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAA
** *
47580003 TGA-TGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCA
1 CCACAG-ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCA
47580049 GATTTTATTA
Statistics
Matches: 273, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
128 177 0.65
129 96 0.35
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (128 bp):
CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
GTAGTGGAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAA
Found at i:47579981 original size:85 final size:83
Alignment explanation
Indices: 47579833--47579988 Score: 190
Period size: 85 Copynumber: 1.8 Consensus size: 83
47579823 ACAGAAGAAA
** *
47579833 CCAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAATCACGGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAATCA--GATCCTATCTCTCTGAAGT
47579898 TGCAGTAGAGCAGATCTAAT
64 TGCAGTAGAGCAGATCTAAT
* * *
47579918 CCAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGAAGTCA-ATCCTATCT-TCTTGAA
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAACAAATT-AA-AA-TCAGATCCTATCTCTC-TGAA
47579981 GTTGCAGT
62 GTTGCAGT
47579989 GAAGCGGGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
84 2 0.03
85 52 0.85
86 2 0.03
87 2 0.03
88 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (83 bp):
CCAATCCTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAATCAGATCCTATCTCTCTGAAGTTG
CAGTAGAGCAGATCTAAT
Found at i:47580025 original size:44 final size:43
Alignment explanation
Indices: 47579706--47580041 Score: 141
Period size: 44 Copynumber: 7.8 Consensus size: 43
47579696 CAGAAGAAAT
* * * *
47579706 CAATCCTATCTAC-CTGAAGTTGCAGTGGAGCGGATTAAAA-CC
1 CAATCTTATCT-CTCTGAAGTTGCAGTGAAGCAGATTAAAATGC
***
47579748 ACAGATCTTATCTCTCTGAAGTTGCAGT-AGAGCAGA-TCGCAT--
1 -CA-ATCTTATCTCTCTGAAGTTGCAGTGA-AGCAGATTAAAATGC
* ** * * * **
47579790 CAAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGAAAC
1 CAA-TCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTA-AA-ATGC
* * *
47579834 CAATCCTATCTCCCTGAAGTTGCAGTGGAA-CGGATTAAAAT-C
1 CAATCTTATCTCTCTGAAGTTGCAGT-GAAGCAGATTAAAATGC
*
47579876 ACGGATCTTATCTCTCTGAAGTTGCAGT-AGAGCAGATCT--AAT-C
1 -C-AATCTTATCTCTCTGAAGTTGCAGTGA-AGCAGAT-TAAAATGC
* * *
47579919 CAATCTTATCT-TCCTGAAGTTGCAGTGGAGCAAATTGAAGAA-GT
1 CAATCTTATCTCT-CTGAAGTTGCAGTGAAGCAGATT-AA-AATGC
* * * *
47579963 CAATCCTATCT-TCTTGAAGTTGCAGTGAAGCGGGTTAAAATGAT
1 CAATCTTATCTCTC-TGAAGTTGCAGTGAAGCAGATTAAAATG-C
*
47580007 GAATCTTATCTCTCTGAAGTTGCAGT-AGAGCAGAT
1 CAATCTTATCTCTCTGAAGTTGCAGTGA-AGCAGAT
47580042 CGCATCAGAT
Statistics
Matches: 222, Mismatches: 41, Indels: 59
0.69 0.13 0.18
Matches are distributed among these distances:
40 16 0.07
41 41 0.18
42 6 0.03
43 28 0.13
44 125 0.56
45 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
CAATCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTAAAATGC
Found at i:47580315 original size:44 final size:44
Alignment explanation
Indices: 47580195--47580317 Score: 113
Period size: 45 Copynumber: 2.8 Consensus size: 44
47580185 GGATCACACT
* *
47580195 ATAACAAGTCTTATTTCCCTAGAGTTGCAGTGGAGCAAACTAAAG
1 ATAACAAGTCTTATCTCCCT-GAGTTGCAGTGGAACAAACTAAAG
* ** *** ***
47580240 ATATCAAACCTTATCTCCCTGAAGCCACAGTGGAACAGGTTAAAG
1 ATAACAAGTCTTATCTCCCTG-AGTTGCAGTGGAACAAACTAAAG
47580285 -TAACAAGTCTTATCTCCCTGATGTTGCAGTGGA
1 ATAACAAGTCTTATCTCCCTGA-GTTGCAGTGGA
47580318 GTAGATTAAA
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
43 1 0.02
44 26 0.44
45 32 0.54
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
ATAACAAGTCTTATCTCCCTGAGTTGCAGTGGAACAAACTAAAG
Found at i:47580327 original size:44 final size:44
Alignment explanation
Indices: 47580195--47580327 Score: 124
Period size: 44 Copynumber: 3.0 Consensus size: 44
47580185 GGATCACACT
* * *
47580195 ATAACAAGTCTTATTTCCCTAGAGTTGCAGTGGAGCAAACTAAAG
1 ATAACAAGTCTTATCTCCCT-GAGTTGCAGTGGAGCAGATTAAAG
* ** *** * *
47580240 ATATCAAACCTTATCTCCCTGAAGCCACAGTGGAACAGGTTAAAG
1 ATAACAAGTCTTATCTCCCTG-AGTTGCAGTGGAGCAGATTAAAG
*
47580285 -TAACAAGTCTTATCTCCCTGATGTTGCAGTGGAGTAGATTAAA
1 ATAACAAGTCTTATCTCCCTGA-GTTGCAGTGGAGCAGATTAAA
47580328 ACCACGAATC
Statistics
Matches: 66, Mismatches: 20, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
43 1 0.02
44 33 0.50
45 32 0.48
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
ATAACAAGTCTTATCTCCCTGAGTTGCAGTGGAGCAGATTAAAG
Found at i:47581831 original size:24 final size:23
Alignment explanation
Indices: 47581752--47581828 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 23
47581742 ATTATTATTA
*
47581752 CTATTATAAC-TATTTATATATAT
1 CTATTATATCTTA-TTATATATAT
47581775 CT-TTATATCTTATTATATATAT
1 CTATTATATCTTATTATATATAT
*
47581797 AT-TTATATCTTATTATATATAT
1 CTATTATATCTTATTATATATAT
47581819 CTA-TATATCT
1 CTATTATATCT
47581829 CTTTATAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 45 0.92
23 4 0.08
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (23 bp):
CTATTATATCTTATTATATATAT
Found at i:47581835 original size:10 final size:10
Alignment explanation
Indices: 47581762--47581826 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
47581752 CTATTATAAC
47581762 TATTTATATA
1 TATTTATATA
*
47581772 TATCTTTATATCT
1 TA--TTTATAT-A
47581785 TATTATATATA
1 TATT-TATATA
*
47581796 TATTTATATC
1 TATTTATATA
47581806 T-TATTATATA
1 TAT-TTATATA
*
47581816 TATCTATATA
1 TATTTATATA
47581826 T
1 T
47581827 CTCTTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
9 1 0.02
10 22 0.50
11 7 0.16
12 12 0.27
13 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:47581835 original size:22 final size:22
Alignment explanation
Indices: 47581765--47581828 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
47581755 TTATAACTAT
47581765 TTATATATATCTTTATATCTTA
1 TTATATATATCTTTATATCTTA
*
47581787 TTATATATATATTTATATCTTA
1 TTATATATATCTTTATATCTTA
*
47581809 TTATATATATCTATATATCT
1 TTATATATATCTTTATATCT
47581829 CTTTATAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATATATCTTTATATCTTA
Found at i:47581954 original size:2 final size:2
Alignment explanation
Indices: 47581949--47581986 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47581939 TTCTATAGTT
47581949 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
47581987 CATTCTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47582039 original size:30 final size:30
Alignment explanation
Indices: 47581982--47582037 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
47581972 ATATATATAT
* *
47581982 ATATACATTCTTACATTGTTTTATTTTACA
1 ATATACATACTTACATTCTTTTATTTTACA
*
47582012 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
47582038 TATGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.55
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACA
Found at i:47584057 original size:22 final size:22
Alignment explanation
Indices: 47584026--47584093 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
47584016 TATGCACAAA
*
47584026 TAAACGGAGAGCACTTAGGTGC
1 TAAACGGAGAGCACTAAGGTGC
* *
47584048 TATACGGAGAGCAC-AAGCATGC
1 TAAACGGAGAGCACTAAG-GTGC
* *
47584070 TAAACGGAGAGCACTGACGTGC
1 TAAACGGAGAGCACTAAGGTGC
47584092 TA
1 TA
47584094 GAAAATAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.05
22 34 0.92
23 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (22 bp):
TAAACGGAGAGCACTAAGGTGC
Found at i:47589167 original size:20 final size:19
Alignment explanation
Indices: 47589131--47589170 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
47589121 CCGTGTGGTT
*
47589131 AACCTACACACCTGTGTGC
1 AACCTACACACCCGTGTGC
*
47589150 AACCTCACACGCCCGTGTGC
1 AACCT-ACACACCCGTGTGC
47589170 A
1 A
47589171 TGGACAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.17
Consensus pattern (19 bp):
AACCTACACACCCGTGTGC
Found at i:47590125 original size:30 final size:31
Alignment explanation
Indices: 47590071--47590130 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
47590061 AAACCTTTTA
*
47590071 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
47590101 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
47590131 TTTCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:47590818 original size:29 final size:28
Alignment explanation
Indices: 47590784--47590859 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 28
47590774 TAAAAATTAA
47590784 AAAATTAAAAAAAGTTATAAATTGT-TTTT
1 AAAATT-AAAAAAGTTATAAATT-TATTTT
47590813 AAAATT-AAAAAG-TATTAAATTTATTTT
1 AAAATTAAAAAAGTTA-TAAATTTATTTT
*
47590840 AAAAGTATAAAAA-TTATAAA
1 AAAATTA-AAAAAGTTATAAA
47590860 AAATACTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
26 3 0.07
27 21 0.51
28 4 0.10
29 13 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
AAAATTAAAAAAGTTATAAATTTATTTT
Found at i:47590822 original size:27 final size:29
Alignment explanation
Indices: 47590792--47590859 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 29
47590782 AAAAAATTAA
47590792 AAAAAGTTATAAATTGT-TTTTAAAA-T-T
1 AAAAAGTTATAAATT-TATTTTAAAAGTAT
47590819 AAAAAG-TATTAAATTTATTTTAAAAGTAT
1 AAAAAGTTA-TAAATTTATTTTAAAAGTAT
47590848 AAAAA-TTATAAA
1 AAAAAGTTATAAA
47590860 AAATACTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
26 3 0.08
27 20 0.56
28 5 0.14
29 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (29 bp):
AAAAAGTTATAAATTTATTTTAAAAGTAT
Found at i:47593146 original size:33 final size:34
Alignment explanation
Indices: 47593100--47593173 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
47593090 ATAATATCAT
*
47593100 ATAATAT-TCTATTAGGAATCAAATTGCTAAGAG
1 ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
*
47593133 ATAATATCT-TATTATGAATCAAATTGCTAAAAG
1 ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
47593166 ATAATATC
1 ATAATATC
47593174 CCATAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (34 bp):
ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
Found at i:47594195 original size:21 final size:21
Alignment explanation
Indices: 47594167--47594210 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
47594157 CATGCGGATT
*
47594167 AATGTGATT-TTCTTTTCTTG
1 AATGTGATTGATCTTTTCTTG
*
47594187 AATGATGATTGATCTTTTGTTG
1 AATG-TGATTGATCTTTTCTTG
47594209 AA
1 AA
47594211 AATTTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (21 bp):
AATGTGATTGATCTTTTCTTG
Found at i:47595005 original size:5 final size:5
Alignment explanation
Indices: 47594995--47595024 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
47594985 AAATTGAGGA
47594995 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
47595025 ATAAACACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:47596640 original size:2 final size:2
Alignment explanation
Indices: 47596633--47596671 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
47596623 AACCTGGTGT
47596633 TA 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 TA T
47596672 GTTTGGAATT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47611853 original size:43 final size:43
Alignment explanation
Indices: 47611770--47611998 Score: 137
Period size: 43 Copynumber: 5.4 Consensus size: 43
47611760 CACCACAGTA
* **
47611770 CATCATCGAATAAACCGAAGAAAGTGTACTAGCATGCATAGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTAGCACACATAGTG
** * * *
47611813 CATCATCGAATAAATTGAAGAATGTATACTGGTACACATAGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTAGCACACATAGTG
* * * * * * *
47611856 CATCA-CTGAACAAGCCGAAGCAATTATATTAGCACGCATAATG
1 CATCATC-GAATAAACCGAAGAAAGTATACTAGCACACATAGTG
* * *
47611899 CATCATCGGATAAACAGAA-ACAA-TCATACTAG-A-ACGTAAGTG
1 CATCATCGAATAAACCGAAGA-AAGT-ATACTAGCACACAT-AGTG
** ** * * **
47611941 CATCATCGAATGTACCGAACTAATTATACTCGCACGTA-AGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTAGCACACATAGTG
*
47611983 CATCATCGACTAAACC
1 CATCATCGAATAAACC
47611999 AAAGTATAGA
Statistics
Matches: 136, Mismatches: 41, Indels: 19
0.69 0.21 0.10
Matches are distributed among these distances:
41 2 0.01
42 46 0.34
43 87 0.64
44 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (43 bp):
CATCATCGAATAAACCGAAGAAAGTATACTAGCACACATAGTG
Found at i:47611945 original size:42 final size:42
Alignment explanation
Indices: 47611897--47611997 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
47611887 GCACGCATAA
*
47611897 TGCATCATCGGATAAACAGAAAC-AATCATACTAGAACGTAAG
1 TGCATCATCGAATAAACAG-AACTAATCATACTAGAACGTAAG
** * * * *
47611939 TGCATCATCGAATGTACCGAACTAATTATACTCGCACGTAAG
1 TGCATCATCGAATAAACAGAACTAATCATACTAGAACGTAAG
*
47611981 TGCATCATCGACTAAAC
1 TGCATCATCGAATAAAC
47611998 CAAAGTATAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 3 0.06
42 45 0.94
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (42 bp):
TGCATCATCGAATAAACAGAACTAATCATACTAGAACGTAAG
Found at i:47617032 original size:176 final size:176
Alignment explanation
Indices: 47616738--47617088 Score: 596
Period size: 176 Copynumber: 2.0 Consensus size: 176
47616728 ATCCATTTTC
*
47616738 ATATCATATTGCTTGAATTGATTCAACATCTTTTCAATATCACGAAATTGTTCCATAACAGAACG
1 ATATCATATTGCTTGAATTGATTCAACATCTTTTCAATATCACGAAATTGTTCCATAACAGAACA
* * *
47616803 ACCAGCAACCATTTGATAATTATTGAAATGGCTGAGAAGAAATTTCTTACTTGTAACATCTTTGG
66 ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
*
47616868 TCATGTATCTTATCTCTAATTTGTCCCATAACTCTTTAACGGTGAA
131 TCATGTATCTTATCTCAAATTTGTCCCATAACTCTTTAACGGTGAA
*
47616914 ATATCATATTGCTTGAATTGATTCAACATCTTTTCAATATCAC-AGAATTGTTCCATAATAGAAC
1 ATATCATATTGCTTGAATTGATTCAACATCTTTTCAATATCACGA-AATTGTTCCATAACAGAAC
*
47616978 AACCAGCAACTATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCG
65 AACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCG
* * *
47617043 GTGATGTATCTTGTCTCAAATTTGTCCTATAACTCTTTAACGGTGA
130 GTCATGTATCTTATCTCAAATTTGTCCCATAACTCTTTAACGGTGA
47617089 CCTCGTTTTG
Statistics
Matches: 164, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 1 0.01
176 163 0.99
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (176 bp):
ATATCATATTGCTTGAATTGATTCAACATCTTTTCAATATCACGAAATTGTTCCATAACAGAACA
ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
TCATGTATCTTATCTCAAATTTGTCCCATAACTCTTTAACGGTGAA
Found at i:47632186 original size:13 final size:13
Alignment explanation
Indices: 47632168--47632233 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
47632158 AGTTTAGCAT
*
47632168 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
47632181 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
47632194 TG-TTGTGGAAAAA
1 TGCTT-TTGAAAAG
* *
47632207 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
*
47632220 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
47632233 T
1 T
47632234 TTGGTTTAAG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:47635725 original size:109 final size:109
Alignment explanation
Indices: 47635528--47635833 Score: 456
Period size: 109 Copynumber: 2.8 Consensus size: 109
47635518 AAAATTCAAG
* * * * * *
47635528 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTAATGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* * * *
47635590 GAATTTCCAAACGCAAAGCATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
*
47635634 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
47635699 GAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
*
47635743 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* * *
47635808 GATTTTCCAAACGCTAAATATTGCCT
66 GAATTTCCAAACGCAAAACATTGCCT
47635834 CAATTAGAAA
Statistics
Matches: 181, Mismatches: 16, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
106 26 0.14
108 24 0.13
109 131 0.72
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
Found at i:47636279 original size:13 final size:13
Alignment explanation
Indices: 47636261--47636294 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
47636251 GAATCATAAA
47636261 ATATAAAATACAT
1 ATATAAAATACAT
47636274 ATATAAAATACAT
1 ATATAAAATACAT
*
47636287 ATTTAAAA
1 ATATAAAA
47636295 AAATGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:47638296 original size:24 final size:23
Alignment explanation
Indices: 47638224--47638294 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
47638214 AAAGAGAATA
*
47638224 AAAAT-AAAA-TTATAACTTTTT
1 AAAATAAAAATTTAAAACTTTTT
* *
47638245 AAAATAACATTTTAAAACTTTTT
1 AAAATAAAAATTTAAAACTTTTT
47638268 AAAATAAAAATTTAAAACTTTTT
1 AAAATAAAAATTTAAAACTTTTT
47638291 AAAA
1 AAAA
47638295 ATGAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 36 0.84
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATAAAAATTTAAAACTTTTT
Found at i:47642566 original size:24 final size:23
Alignment explanation
Indices: 47642498--47642567 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 23
47642488 TATAACCATA
47642498 GCTGAAAGATGCTATGGCATCATG
1 GCTGAAAGATGCTATGGC-TCATG
* * * *
47642522 AC-GAAA-ATGAGTAAGAC-CATG
1 GCTGAAAGATG-CTATGGCTCATG
47642543 GCTGAAAGATGCTATGGCTTCATG
1 GCTGAAAGATGCTATGGC-TCATG
47642567 G
1 G
47642568 TAAATGGGAT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
21 5 0.15
22 11 0.33
23 11 0.33
24 6 0.18
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (23 bp):
GCTGAAAGATGCTATGGCTCATG
Found at i:47648618 original size:22 final size:22
Alignment explanation
Indices: 47648593--47648644 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
47648583 GTTAAGAGCA
*
47648593 TAGGGTTTAGGGATTA-TGGGCT
1 TAGGGTTTAGGGAGTAGT-GGCT
* *
47648615 TAGGGTCTAGGGGGTAGTGGCT
1 TAGGGTTTAGGGAGTAGTGGCT
47648637 TAGGGTTT
1 TAGGGTTT
47648645 TGAGTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.15, C:0.06, G:0.44, T:0.35
Consensus pattern (22 bp):
TAGGGTTTAGGGAGTAGTGGCT
Found at i:47648691 original size:7 final size:7
Alignment explanation
Indices: 47648681--47648865 Score: 58
Period size: 7 Copynumber: 26.6 Consensus size: 7
47648671 GTTCATAAGA
*
47648681 TTTAGGG
1 TTTATGG
47648688 TTTATGG
1 TTTATGG
47648695 TTTATGG
1 TTTATGG
* *
47648702 TTTAAGA
1 TTTATGG
*
47648709 TTTATGAT
1 TTTATG-G
*
47648717 TTTAGGG
1 TTTATGG
**
47648724 TTTATAA
1 TTTATGG
*
47648731 TTTATGA
1 TTTATGG
47648738 TTTATGG
1 TTTATGG
*
47648745 TTTATAG
1 TTTATGG
* *
47648752 CTTAGGG
1 TTTATGG
**
47648759 TGCAT-G
1 TTTATGG
*
47648765 TTTAGGG
1 TTTATGG
* **
47648772 TATAAAG
1 TTTATGG
*
47648779 TTTAAGG
1 TTTATGG
47648786 TTTATGG
1 TTTATGG
47648793 TTTA--G
1 TTTATGG
*
47648798 TGTTAAGAG
1 T-TTATG-G
47648807 TTTA-GTG
1 TTTATG-G
* *
47648814 TTTACGA
1 TTTATGG
47648821 TTTATGG
1 TTTATGG
*
47648828 TGTA-GG
1 TTTATGG
47648834 TTTATGG
1 TTTATGG
*
47648841 TCTA-GTG
1 TTTATG-G
*
47648848 TTTATTG
1 TTTATGG
*
47648855 TTTAAGG
1 TTTATGG
47648862 TTTA
1 TTTA
47648866 AGAGGTTAAA
Statistics
Matches: 128, Mismatches: 40, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
5 2 0.02
6 12 0.09
7 103 0.80
8 9 0.07
9 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:47648725 original size:22 final size:21
Alignment explanation
Indices: 47648688--47648750 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
47648678 AGATTTAGGG
*
47648688 TTTATGGTTTATGGTTTA-AGA
1 TTTATGATTTATGGTTTATA-A
*
47648709 TTTATGATTTTAGGGTTTATAA
1 TTTATGA-TTTATGGTTTATAA
47648731 TTTATGATTTATGGTTTATA
1 TTTATGATTTATGGTTTATA
47648751 GCTTAGGGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 18 0.49
22 18 0.49
23 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (21 bp):
TTTATGATTTATGGTTTATAA
Found at i:47648726 original size:29 final size:29
Alignment explanation
Indices: 47648688--47648743 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
47648678 AGATTTAGGG
* **
47648688 TTTATGGTTTATGGTTTAAGATTTATGAT
1 TTTAGGGTTTATAATTTAAGATTTATGAT
*
47648717 TTTAGGGTTTATAATTTATGATTTATG
1 TTTAGGGTTTATAATTTAAGATTTATG
47648744 GTTTATAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (29 bp):
TTTAGGGTTTATAATTTAAGATTTATGAT
Found at i:47648984 original size:23 final size:21
Alignment explanation
Indices: 47648958--47648999 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
47648948 ATTTAAGAGT
47648958 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
47648981 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
47649000 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:47649476 original size:115 final size:115
Alignment explanation
Indices: 47649123--47649581 Score: 439
Period size: 115 Copynumber: 4.0 Consensus size: 115
47649113 TTTGTCTAAT
* * * * * *
47649123 TTTTTAGTGGCGATTTTT-CTTAAATGCCGCAAAATGAGTTAT-ATTAGTGGCGTTTCTACGAAA
1 TTTTTAGTGGCG-TTTTTACTAAAACGCCGCAAAA-G-GATATGTTTAGTGGCGTTTTTACTAAA
* * ** * * *
47649186 AACGACGCAATTATGTTTTTTGTCTTTGTTAAACGTTGTCGTTTTTATCTATG
63 AACGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
* * * * **
47649239 TTTTCAGTGGCATTTTTTGC-AAAACGCCGCAAAATGATATGTGTTAGTGGCG-TTTT-C-AGGT
1 TTTTTAGTGGC-GTTTTTACTAAAACGCCGCAAAAGGATATGT-TTAGTGGCGTTTTTACTA-AA
* * * *
47649300 AACGTCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTCGTTTTTATCTACA
63 AACGCCGCAATTATGTTATAAGT-GTTTGCTAAACGTTGTCGTTTTTATCTACG
* * * *
47649353 TTATTAGTGGCGTTTTTACAAAAACGCCGCAAAAGGTTATGTGATAGTGGCGTTTTTA-TAAAAA
1 TTTTTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATGT-TTAGTGGCGTTTTTACTAAAAA
* *
47649417 TGCCGCAATTATGTTATAAGTGTTCGCTAAACGTTGTCGTTTTTATCTACG
65 CGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
* * ** * *
47649468 TTTTTAGTGGCGTTTGTACTAAAATGCCGGTAAAGGATATAGTTTAGTGGCGTTTTTATTATAAA
1 TTTTTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATAT-GTTTAGTGGCGTTTTTACTAAAAA
* *
47649533 CGCCGCAATTATGTTTTAAGTGTTTGCTAAACATTGTCGTTTTCTATCT
65 CGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTT-TATCT
47649582 GGGATTTTTT
Statistics
Matches: 285, Mismatches: 44, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
113 7 0.02
114 88 0.31
115 101 0.35
116 83 0.29
117 6 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (115 bp):
TTTTTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATGTTTAGTGGCGTTTTTACTAAAAAC
GCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
Found at i:47649789 original size:25 final size:25
Alignment explanation
Indices: 47649756--47649803 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
47649746 CCCCGATTTC
*
47649756 ATTTCCCCCCAATTCCTTTTCCCCTA
1 ATTT-CCCCCAATTCCATTTCCCCTA
*
47649782 ATTT-CCCCAATTTCATTTCCCC
1 ATTTCCCCCAATTCCATTTCCCC
47649804 AAATCCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
26 4 0.20
ACGTcount: A:0.17, C:0.44, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTTCCCCCAATTCCATTTCCCCTA
Found at i:47653566 original size:17 final size:17
Alignment explanation
Indices: 47653531--47653572 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
47653521 ATATATAAAT
* *
47653531 AATTAAA-TCAATTGGA
1 AATTAAATTAAATTGAA
47653547 AATTAAATTAAATTGAA
1 AATTAAATTAAATTGAA
47653564 AATTAAATT
1 AATTAAATT
47653573 CGGATATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (17 bp):
AATTAAATTAAATTGAA
Found at i:47656496 original size:29 final size:30
Alignment explanation
Indices: 47656464--47656533 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
47656454 ACATTCGGGC
47656464 CCCTAAAATTTCTAAAAATTACA-TTTTAG-
1 CCCTAAAATTTCTAAAAATTACACTTTT-GT
* * * *
47656493 CCCTATATTTTTTTAAAATTACACTTTTGT
1 CCCTAAAATTTCTAAAAATTACACTTTTGT
*
47656523 CCCAAAAATTT
1 CCCTAAAATTT
47656534 TACGCCTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (30 bp):
CCCTAAAATTTCTAAAAATTACACTTTTGT
Found at i:47656884 original size:21 final size:21
Alignment explanation
Indices: 47656870--47656945 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
47656860 AAAGCCAATA
47656870 AAAAAAAAAGCAAAGACAAAG
1 AAAAAAAAAGCAAAGACAAAG
* *
47656891 AAAAAAAACAGCAAACAAAAAAGGG
1 AAAAAAAA-AGCAAA-GACAAA--G
*
47656916 AAAAAAAGAGCAAAG--AAAG
1 AAAAAAAAAGCAAAGACAAAG
47656935 AAAATAAAAAG
1 AAAA-AAAAAG
47656946 AAGAAAAGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.11
20 5 0.11
21 11 0.24
22 6 0.13
23 4 0.09
24 6 0.13
25 8 0.18
ACGTcount: A:0.75, C:0.08, G:0.16, T:0.01
Consensus pattern (21 bp):
AAAAAAAAAGCAAAGACAAAG
Found at i:47656897 original size:22 final size:21
Alignment explanation
Indices: 47656869--47656954 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
47656859 GAAAGCCAAT
47656869 AAAAAAAAAAGCAAAGACAAAG
1 AAAAAAAAAAGCAAAGA-AAAG
* *
47656891 AAAAAAAACAGCAAACAAAA-
1 AAAAAAAAAAGCAAAGAAAAG
47656911 AAGGGAAAAAAAGAGCAAAG-AAAG
1 AA---AAAAAAA-AGCAAAGAAAAG
*
47656935 AAAATAAAAAG--AAGAAAAG
1 AAAAAAAAAAGCAAAGAAAAG
47656954 A
1 A
47656955 GGGGAGAGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
18 3 0.06
19 5 0.09
20 4 0.08
21 9 0.17
22 15 0.28
23 9 0.17
24 8 0.15
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.01
Consensus pattern (21 bp):
AAAAAAAAAAGCAAAGAAAAG
Found at i:47656944 original size:25 final size:24
Alignment explanation
Indices: 47656869--47656949 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 24
47656859 GAAAGCCAAT
* *
47656869 AAAAAAAAAAGCAAAG--ACAAAG
1 AAAAAAAAGAGCAAAGAAAAAAAG
* * *
47656891 AAAAAAAACAGCAAACAAAAAAGG
1 AAAAAAAAGAGCAAAGAAAAAAAG
* *
47656915 GAAAAAAAGAGCAAAGAAAGAAAAT
1 AAAAAAAAGAGCAAAGAAA-AAAAG
*
47656940 AAAAAGAAGA
1 AAAAAAAAGA
47656950 AAAGAGGGGA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
22 14 0.31
24 20 0.44
25 11 0.24
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.01
Consensus pattern (24 bp):
AAAAAAAAGAGCAAAGAAAAAAAG
Found at i:47657044 original size:11 final size:11
Alignment explanation
Indices: 47657028--47657074 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
47657018 GGCTGATCGG
47657028 GAAAGAAAGAA
1 GAAAGAAAGAA
47657039 GAAAGAAAGAA
1 GAAAGAAAGAA
**
47657050 GAAA-AGGGGAA
1 GAAAGA-AAGAA
47657061 G-AAGAAAGAA
1 GAAAGAAAGAA
47657071 GAAA
1 GAAA
47657075 AAAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
GAAAGAAAGAA
Found at i:47657273 original size:50 final size:52
Alignment explanation
Indices: 47657219--47657366 Score: 198
Period size: 50 Copynumber: 2.9 Consensus size: 52
47657209 AGAAAAAAAA
** *
47657219 CAGCCCAGCAGCTTCAAAGCAGGCCTGTCCAGTAGCAGGCCCAA-C-GCAGG
1 CAGCCCAGCAGCAACAAAGCAGGCCTGTCCAGCAGCAGGCCCAATCAGCAGG
47657269 CAGCCCAGCAGCAACAAAGCAGGCCTGTCCAGCAGCAGGCCCAATCAGCAGG
1 CAGCCCAGCAGCAACAAAGCAGGCCTGTCCAGCAGCAGGCCCAATCAGCAGG
*
47657321 CGGCCCAGCAG-AA-AAAGCAGG-CTGTCCAGCAGGCCCAGGCCCAATC
1 CAGCCCAGCAGCAACAAAGCAGGCCTGTCCAGCA-G--CAGGCCCAATC
47657367 CGAAGCAGGC
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 10 0.11
50 50 0.56
51 3 0.03
52 26 0.29
ACGTcount: A:0.28, C:0.36, G:0.28, T:0.07
Consensus pattern (52 bp):
CAGCCCAGCAGCAACAAAGCAGGCCTGTCCAGCAGCAGGCCCAATCAGCAGG
Found at i:47657558 original size:13 final size:14
Alignment explanation
Indices: 47657530--47657560 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
47657520 TTTATGCATT
47657530 TTTATATTTTTGTA
1 TTTATATTTTTGTA
47657544 TTTATATTTTT-TA
1 TTTATATTTTTGTA
47657557 TTTA
1 TTTA
47657561 ATCCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTATATTTTTGTA
Found at i:47657989 original size:18 final size:17
Alignment explanation
Indices: 47657961--47658028 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 17
47657951 CGCGTGTTTC
*
47657961 AAAATTGTCGTGTTTTT
1 AAAATTTTCGTGTTTTT
* *
47657978 AAGAATTTTCGTGTCTCT
1 AA-AATTTTCGTGTTTTT
* * *
47657996 AAAATTCTCCTGTTTTA
1 AAAATTTTCGTGTTTTT
47658013 AAAATTTTTCGTGTTT
1 AAAA-TTTTCGTGTTT
47658029 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 16 0.41
18 23 0.59
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTT
Found at i:47658010 original size:35 final size:34
Alignment explanation
Indices: 47657953--47658026 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
47657943 AAAAAATTCG
* * * *
47657953 CGTGTTTCAAAATTGTCGTGTTTTTAAGAA-TTTT
1 CGTGTCTCAAAATTCTCCTG-TTTTAAAAATTTTT
47657987 CGTGTCTCTAAAATTCTCCTGTTTTAAAAATTTTT
1 CGTGTCTC-AAAATTCTCCTGTTTTAAAAATTTTT
47658022 CGTGT
1 CGTGT
47658027 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 15 0.44
35 19 0.56
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.49
Consensus pattern (34 bp):
CGTGTCTCAAAATTCTCCTGTTTTAAAAATTTTT
Found at i:47658034 original size:34 final size:33
Alignment explanation
Indices: 47657944--47658032 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
47657934 GTTTTCAAAA
** * *
47657944 AAAAATTCGCGTGTTTCAAAATTGTCGTGTTTTT
1 AAAAATTTTCGTGTTT-AAAATTCTCCTGTTTTT
*
47657978 AAGAATTTTCGTGTCTCTAAAATTCTCCTG-TTTT
1 AAAAATTTTCGTGT-T-TAAAATTCTCCTGTTTTT
47658012 AAAAATTTTTCGTGTTTAAAA
1 AAAAA-TTTTCGTGTTTAAAA
47658033 ATAAAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 5 0.11
34 20 0.43
35 20 0.43
36 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (33 bp):
AAAAATTTTCGTGTTTAAAATTCTCCTGTTTTT
Found at i:47658083 original size:18 final size:18
Alignment explanation
Indices: 47658048--47658084 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47658038 AAATAAAAAA
**
47658048 TGTTTTAAAAAATGTTCG
1 TGTTTTAAAAAAAATTCG
47658066 TGTTTTAAAAAAAATTCG
1 TGTTTTAAAAAAAATTCG
47658084 T
1 T
47658085 AATTTGATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (18 bp):
TGTTTTAAAAAAAATTCG
Found at i:47669849 original size:2 final size:2
Alignment explanation
Indices: 47669842--47669867 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47669832 TAACTCCTTT
47669842 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
47669868 ATGCCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47671959 original size:3 final size:3
Alignment explanation
Indices: 47671951--47671990 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
47671941 TGCTACAGGT
47671951 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
47671991 TTGAGGCGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:47676038 original size:18 final size:18
Alignment explanation
Indices: 47676015--47676205 Score: 222
Period size: 18 Copynumber: 10.6 Consensus size: 18
47676005 GCATGATTTG
*
47676015 AACTTGGAGCACAGTGCA
1 AACTTGGAGCACAATGCA
* * *
47676033 AACTTGGAACAAAATGCG
1 AACTTGGAGCACAATGCA
*
47676051 AACTTGGAGCACATTGCA
1 AACTTGGAGCACAATGCA
47676069 AACTTGGAGCAC-ATGGCA
1 AACTTGGAGCACAAT-GCA
47676087 AACTTGGAGCACAATGCA
1 AACTTGGAGCACAATGCA
* *
47676105 AACTTGGAGCATATTGCA
1 AACTTGGAGCACAATGCA
** * *
47676123 AACTTACAGCAGATTGCA
1 AACTTGGAGCACAATGCA
47676141 AACTTGGAGCACAATGCA
1 AACTTGGAGCACAATGCA
* * *
47676159 AACTTAGAGCACATTGCT
1 AACTTGGAGCACAATGCA
*
47676177 AACTTGGAGCACAATGCT
1 AACTTGGAGCACAATGCA
*
47676195 AACTTAGAGCA
1 AACTTGGAGCA
47676206 TAGTGTGGAC
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
17 1 0.01
18 144 0.98
19 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (18 bp):
AACTTGGAGCACAATGCA
Found at i:47676199 original size:54 final size:54
Alignment explanation
Indices: 47676015--47676205 Score: 249
Period size: 54 Copynumber: 3.5 Consensus size: 54
47676005 GCATGATTTG
* * * *
47676015 AACTTGGAGCACAGTGCAAACTTGGAACAAAATGCGAACTTGGAGCACATTGCA
1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
*
47676069 AACTTGGAGCAC-ATGGCAAACTTGGAGCACAATGCAAACTTGGAGCATATTGCA
1 AACTTGGAGCACAAT-GCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
** * * * *
47676123 AACTTACAGCAGATTGCAAACTTGGAGCACAATGCAAACTTAGAGCACATTGCT
1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
* *
47676177 AACTTGGAGCACAATGCTAACTTAGAGCA
1 AACTTGGAGCACAATGCAAACTTGGAGCA
47676206 TAGTGTGGAC
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 115 0.98
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
Found at i:47689916 original size:25 final size:25
Alignment explanation
Indices: 47689879--47689944 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
47689869 TAATTTTTTT
* * *
47689879 TCCAAATTTTATACTTTGTTTTAGA
1 TCCAAAATGTATACTTTGTTTTACA
* *
47689904 TTCTAAATGTATACTTTGTTTTACA
1 TCCAAAATGTATACTTTGTTTTACA
*
47689929 TCCAAAATGTACACTT
1 TCCAAAATGTATACTT
47689945 ATTTACAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (25 bp):
TCCAAAATGTATACTTTGTTTTACA
Found at i:47694443 original size:26 final size:26
Alignment explanation
Indices: 47694414--47694470 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
47694404 TACCAAGGGC
* *
47694414 AAAATTGTCAAAATTTTA-TCGGAGGT
1 AAAATCGTCAAAATTTTACT-AGAGGT
*
47694440 AAAATCGTTAAAATTTTACTAGAGGT
1 AAAATCGTCAAAATTTTACTAGAGGT
47694466 AAAAT
1 AAAAT
47694471 AAAGATGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAGAGGT
Found at i:47695680 original size:24 final size:25
Alignment explanation
Indices: 47695634--47695680 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
47695624 AGGAATTTGG
*
47695634 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
47695659 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
47695681 TCGGCTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Done.