Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 71 of 284
Found at i:24587511 original size:20 final size:20
Alignment explanation
Indices: 24587488--24587527 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24587478 ATTTATTTTC
*
24587488 ATTTATTTTTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
*
24587508 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTAATTATCTTT
24587528 TAGAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:24589543 original size:25 final size:24
Alignment explanation
Indices: 24589481--24589548 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 24
24589471 CATATTTGCA
*
24589481 TTTTATTTTGT-ATTTTAT-TTAT
1 TTTTATTTTGTAATTTTATATCAT
* *
24589503 ATTTATATTGTAATTTTATATCAT
1 TTTTATTTTGTAATTTTATATCAT
24589527 TTTTATTTTTGTAATTTTATAT
1 TTTTA-TTTTGTAATTTTATAT
24589549 TTTTTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 9 0.24
23 7 0.18
24 7 0.18
25 15 0.39
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTTATTTTGTAATTTTATATCAT
Found at i:24589654 original size:20 final size:20
Alignment explanation
Indices: 24589631--24589685 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
24589621 TTTTAAAATA
24589631 TTTTAAACATTTTTCATAAT
1 TTTTAAACATTTTTCATAAT
*
24589651 TTTT-ACCACTTTTTCATAAT
1 TTTTAAACA-TTTTTCATAAT
24589671 TTATATAAA-ATTTTT
1 TT-T-TAAACATTTTT
24589686 AAAAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 17 0.59
21 6 0.21
22 2 0.07
23 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTAAACATTTTTCATAAT
Found at i:24589754 original size:8 final size:8
Alignment explanation
Indices: 24589730--24589823 Score: 59
Period size: 9 Copynumber: 11.4 Consensus size: 8
24589720 ATGCAATTTC
24589730 TTTATATT
1 TTTATATT
24589738 TTATATATT
1 TT-TATATT
24589747 TTTATATT
1 TTTATATT
*
24589755 TTT-TACT
1 TTTATATT
*
24589762 TTAAT-TT
1 TTTATATT
24589769 TTTATAATT
1 TTTAT-ATT
**
24589778 TTTA-AAA
1 TTTATATT
*
24589785 TTAATGATT
1 TTTAT-ATT
24589794 TTTATGATT
1 TTTAT-ATT
*
24589803 TTCTATAAT
1 TT-TATATT
24589812 TTTATGATT
1 TTTAT-ATT
24589821 TTT
1 TTT
24589824 TTAATAATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
7 14 0.21
8 15 0.23
9 34 0.52
10 3 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (8 bp):
TTTATATT
Found at i:24589788 original size:23 final size:23
Alignment explanation
Indices: 24589742--24589804 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
24589732 TATATTTTAT
* **
24589742 ATATTTTTATATTTTTTACTTTA
1 ATATTTTTATATTTTTAAAATTA
24589765 AT-TTTTTATAATTTTTAAAATTA
1 ATATTTTTAT-ATTTTTAAAATTA
24589788 ATGATTTTTATGATTTT
1 AT-ATTTTTAT-ATTTT
24589805 CTATAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.21
23 14 0.42
25 12 0.36
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (23 bp):
ATATTTTTATATTTTTAAAATTA
Found at i:24591193 original size:35 final size:35
Alignment explanation
Indices: 24591154--24591224 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
24591144 CATTTCCGGA
* * *
24591154 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATAGAAAGGAATCTTCAAAGATAT
* *
24591189 GCTTGGAAAATATAGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATAGAAAGGAATCTTCAAAGATAT
24591224 G
1 G
24591225 TGATCCTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATAGAAAGGAATCTTCAAAGATAT
Found at i:24596375 original size:35 final size:35
Alignment explanation
Indices: 24596336--24596406 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
24596326 CATCTCCGGA
* * *
24596336 GCTTGGCAAATATAGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAAAATAGAAAGGAATCTTCAAAGATAT
* * *
24596371 GCTTGGAAAAAATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAAAATAGAAAGGAATCTTCAAAGATAT
24596406 G
1 G
24596407 TGATCCTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (35 bp):
GCTTGGAAAAAATAGAAAGGAATCTTCAAAGATAT
Found at i:24598126 original size:20 final size:20
Alignment explanation
Indices: 24598095--24598132 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24598085 TTTTTATAAA
24598095 TATTTTAAATTTT-AAAAGT
1 TATTTTAAATTTTGAAAAGT
24598114 TATTTTCAAATTTTGAAAA
1 TATTTT-AAATTTTGAAAA
24598133 TTACTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTTAAATTTTGAAAAGT
Found at i:24600959 original size:38 final size:38
Alignment explanation
Indices: 24600908--24601056 Score: 280
Period size: 38 Copynumber: 3.9 Consensus size: 38
24600898 TGGAATACTT
24600908 GTATTGATACATATTTCAAGGAGAACGGGTTCAAATAA
1 GTATTGATACATATTTCAAGGAGAACGGGTTCAAATAA
*
24600946 GTATTGATACATATTTCAAGGAGAACAGGTTCAAATAA
1 GTATTGATACATATTTCAAGGAGAACGGGTTCAAATAA
*
24600984 GTATTGATACATATTTCAAGGAGAACGAGTTCAAATAA
1 GTATTGATACATATTTCAAGGAGAACGGGTTCAAATAA
24601022 GTATTGATACATATTTCAAGGAGAACGGGTTCAAA
1 GTATTGATACATATTTCAAGGAGAACGGGTTCAAA
24601057 CAATGTCCCT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 107 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (38 bp):
GTATTGATACATATTTCAAGGAGAACGGGTTCAAATAA
Found at i:24617134 original size:3 final size:3
Alignment explanation
Indices: 24617126--24617153 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24617116 GAAATTTCAA
24617126 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
24617154 TGCTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:24619845 original size:14 final size:14
Alignment explanation
Indices: 24619826--24619854 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24619816 CATTCTGACA
24619826 TATGAAATGCTAAG
1 TATGAAATGCTAAG
24619840 TATGAAATGCTAAG
1 TATGAAATGCTAAG
24619854 T
1 T
24619855 GCACCTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (14 bp):
TATGAAATGCTAAG
Found at i:24626750 original size:27 final size:28
Alignment explanation
Indices: 24626699--24626752 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
24626689 TTAGCTTGAC
**
24626699 AAAACTATAAAAAGAAGGTCCAATAAAA
1 AAAACTATAAAAAGAAGGTAAAATAAAA
24626727 AAAACTATAAAAAGAAGG-AAAATAAA
1 AAAACTATAAAAAGAAGGTAAAATAAA
24626753 GGGGTAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (28 bp):
AAAACTATAAAAAGAAGGTAAAATAAAA
Found at i:24626906 original size:16 final size:16
Alignment explanation
Indices: 24626887--24626917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24626877 CTTCTTCACT
24626887 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24626903 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24626918 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24626923 original size:20 final size:20
Alignment explanation
Indices: 24626884--24626923 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24626874 AAACTTCTTC
* *
24626884 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24626904 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24626924 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24627299 original size:55 final size:53
Alignment explanation
Indices: 24627156--24627363 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
24627146 ATCCTTTTGA
* *
24627156 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * *
24627209 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
24627263 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
24627317 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
24627364 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 9 0.07
55 71 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:24627300 original size:108 final size:110
Alignment explanation
Indices: 24627156--24627356 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
24627146 ATCCTTTTGA
* *
24627156 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
24627219 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
24627264 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
24627329 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
24627357 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:24628427 original size:48 final size:46
Alignment explanation
Indices: 24628326--24628450 Score: 130
Period size: 47 Copynumber: 2.7 Consensus size: 46
24628316 GTTATTGTGG
* *
24628326 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATAAGAGC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCA--CACATTAGAAGAGC
*
24628374 -C-AGTGTAAGACCATGTCTGGAACATAGCATCA-ACATTGAGACGAGC
1 GCTAGTGTAAGA-CATGTCTGGAACAT-GCATCACACATT-AGAAGAGC
* * *
24628420 GCTAGTGTAAGATATGTATGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGAACATGCATC
24628451 GGCCTCAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
45 5 0.08
46 20 0.30
47 26 0.39
48 15 0.23
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCACACATTAGAAGAGC
Found at i:24631300 original size:43 final size:42
Alignment explanation
Indices: 24631226--24631392 Score: 203
Period size: 43 Copynumber: 3.9 Consensus size: 42
24631216 CAGAAAGCTC
* * *
24631226 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
*
24631268 ATATCGATGTC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAA
*
24631311 ATACGATGCCAACGTCCCAGACGTGGTCTTACACATAAATCAAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACAC-GAAATC-AA
* * *
24631355 ATTCGATGCCAACGTCCCAAACGTAGTCTTACACGAAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAA
24631393 ATATATATCG
Statistics
Matches: 108, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.28
43 43 0.40
44 34 0.31
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:24635618 original size:40 final size:36
Alignment explanation
Indices: 24635547--24635625 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 36
24635537 CTTATTTTAT
24635547 TTTTTAAAAAGAAAATATATATATGAATTTCCTATA
1 TTTTTAAAAAGAAAATATATATATGAATTTCCTATA
*
24635583 TTTTTAAAAAGCAAAAGTATATATATACGATTTTCCTATA
1 TTTTTAAAAAG-AAAA-TATATATAT--GAATTTCCTATA
24635623 TTT
1 TTT
24635626 GATAATAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 11 0.29
37 4 0.11
38 9 0.24
40 14 0.37
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (36 bp):
TTTTTAAAAAGAAAATATATATATGAATTTCCTATA
Found at i:24637157 original size:30 final size:31
Alignment explanation
Indices: 24637075--24637168 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 31
24637065 ATATCTTATG
* * *
24637075 TATCATTATATTAAATTACTTAAATATCA-T
1 TATCATTATATTAAAGTATTTAAATATAATT
*
24637105 TATCATTATATTAAATTATTTAAATATAATT
1 TATCATTATATTAAAGTATTTAAATATAATT
* * * *
24637136 TATTATTATATTTAAGT-TTTAAAAATATTT
1 TATCATTATATTAAAGTATTTAAATATAATT
24637166 TAT
1 TAT
24637169 GTATCATTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 41 0.73
31 15 0.27
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (31 bp):
TATCATTATATTAAAGTATTTAAATATAATT
Found at i:24642173 original size:59 final size:60
Alignment explanation
Indices: 24642063--24642193 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 60
24642053 TACACCATAG
* * *
24642063 GTCACTCAACTATTGCCTATTTTCTTTTTTGGTCATACAACTATCAATTTTTTTAATTTA
1 GTCACCCAACTATTGCCTATTTTATTTTTTGGTCATACAACTACCAATTTTTTTAATTTA
* * *
24642123 GTC-CCCAACTATTGCCCT-TTTTATTTTTTGGTCA-CCAACTACCATTTTTTTTTAATTTG
1 GTCACCCAACTATTG-CCTATTTTATTTTTTGGTCATACAACTACCA-ATTTTTTTAATTTA
24642182 GTCACCCAACTA
1 GTCACCCAACTA
24642194 ATTGAGATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 8 0.13
59 40 0.65
60 14 0.23
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.47
Consensus pattern (60 bp):
GTCACCCAACTATTGCCTATTTTATTTTTTGGTCATACAACTACCAATTTTTTTAATTTA
Found at i:24643562 original size:35 final size:36
Alignment explanation
Indices: 24643523--24643601 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
24643513 ATGTTGAACA
*
24643523 TTTTCTTTACTT-TTCATATTTTTAGATTAGG-TTT-C
1 TTTTCTTTACTTCTT-AT-TTTTTAAATTAGGCTTTCC
*
24643558 TTTTCTTTTCTTCTTATTTTTTAAATTAGGCTTTCC
1 TTTTCTTTACTTCTTATTTTTTAAATTAGGCTTTCC
*
24643594 CTTTCTTT
1 TTTTCTTT
24643602 TTAGAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 12 0.32
35 16 0.42
36 10 0.26
ACGTcount: A:0.14, C:0.15, G:0.06, T:0.65
Consensus pattern (36 bp):
TTTTCTTTACTTCTTATTTTTTAAATTAGGCTTTCC
Found at i:24644730 original size:13 final size:13
Alignment explanation
Indices: 24644712--24644741 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
24644702 TCTATAATTG
24644712 AGTAAGATCAAGT
1 AGTAAGATCAAGT
24644725 AGTAAGATCAAGT
1 AGTAAGATCAAGT
24644738 AGTA
1 AGTA
24644742 GTAATGCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (13 bp):
AGTAAGATCAAGT
Found at i:24649778 original size:13 final size:13
Alignment explanation
Indices: 24649762--24649787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24649752 CTGTGTTCAA
24649762 TTTCTCAATTTTT
1 TTTCTCAATTTTT
24649775 TTTCTCAATTTTT
1 TTTCTCAATTTTT
24649788 ACTTGTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTCAATTTTT
Found at i:24653349 original size:50 final size:51
Alignment explanation
Indices: 24653268--24653396 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
24653258 GACTATGGCA
*
24653268 ACAAGTGATAAGTGATAGCTTCGGCTGCACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
24653319 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
24653369 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
24653397 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:24653410 original size:31 final size:31
Alignment explanation
Indices: 24653372--24653551 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
24653362 ACAAATGACA
*
24653372 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
24653403 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
24653434 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
24653465 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
24653496 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
24653527 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
24653552 AAGTGACAAG
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
30 2 0.01
31 137 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:24653639 original size:47 final size:46
Alignment explanation
Indices: 24653569--24653692 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
24653559 AAGTGATTTC
* *
24653569 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
24653615 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
24653662 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
24653693 ATATGTGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:24653721 original size:42 final size:42
Alignment explanation
Indices: 24653651--24653777 Score: 179
Period size: 42 Copynumber: 3.0 Consensus size: 42
24653641 GCATCAGTGA
24653651 GATATGTG-AT-TCGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATAT-GTGTAAGACCATAGCTGGGCTATGGCATC
24653692 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* * **
24653734 -ATTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCATC
1 GA-TATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
24653776 GA
1 GA
24653778 GAAAACGAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
41 9 0.12
42 67 0.86
43 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:24655322 original size:48 final size:49
Alignment explanation
Indices: 24655266--24655506 Score: 217
Period size: 47 Copynumber: 4.9 Consensus size: 49
24655256 TTCATATAAT
24655266 GATGCCATAGCCCAGCTATGGTCTTACACAG-ATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACAGAATCACATATCACATATC
* * *
24655314 AATGCCATAGCCCAACTATGGTCTTACAC-GAATCACATATCTCAT-T-
1 GATGCCATAGCCCAGCTATGGTCTTACACAGAATCACATATCACATATC
* * * * * * *
24655360 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC--ACC
1 GATGCCATAGCCCAGCTATGGTCTTACACAGAATCACATATCACATATC
* * * * * *
24655407 GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTCC
1 GATGCCATAGCCCAGCTATGGTCTTACACAGAATCACAT-ATCACA--TAT-C
* *
24655460 GATGCCATAGCCTAGCTATGGTCTTATAC-GCAAATCACATATCACAT
1 GATGCCATAGCCCAGCTATGGTCTTACACAG--AATCACATATCACAT
24655507 GTTGCCATGG
Statistics
Matches: 159, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
46 24 0.15
47 48 0.30
48 45 0.28
51 1 0.01
52 1 0.01
53 33 0.21
54 7 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (49 bp):
GATGCCATAGCCCAGCTATGGTCTTACACAGAATCACATATCACATATC
Found at i:24655485 original size:53 final size:53
Alignment explanation
Indices: 24655360--24655506 Score: 148
Period size: 53 Copynumber: 2.9 Consensus size: 53
24655350 ATATCTCATT
* * *
24655360 GATGCCATATCCCAGATATGGTCTTATA--CAGTAGCATATATCACA-----CC
1 GATGCCATAGCCCAGATATGGTCTTATACGCA-AAGCACATATCACATCTCTCC
* *
24655407 GATGCCATATCCCAGATATGGTCTTATACG-GAAGCACATAATCACATCTCTCC
1 GATGCCATAGCCCAGATATGGTCTTATACGCAAAGCACAT-ATCACATCTCTCC
* * *
24655460 GATGCCATAGCCTAGCTATGGTCTTATACGCAAATCACATATCACAT
1 GATGCCATAGCCCAGATATGGTCTTATACGCAAAGCACATATCACAT
24655507 GTTGCCATGG
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
47 34 0.41
48 6 0.07
53 36 0.43
54 7 0.08
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (53 bp):
GATGCCATAGCCCAGATATGGTCTTATACGCAAAGCACATATCACATCTCTCC
Found at i:24659156 original size:24 final size:24
Alignment explanation
Indices: 24659129--24659176 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
24659119 AAAAGTTAGG
24659129 TCACGTCAAAGCAGATCGTTATAA
1 TCACGTCAAAGCAGATCGTTATAA
*
24659153 TCACGTCAAAGTAGATCGTTATAA
1 TCACGTCAAAGCAGATCGTTATAA
24659177 ACTGTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TCACGTCAAAGCAGATCGTTATAA
Found at i:24660622 original size:12 final size:12
Alignment explanation
Indices: 24660605--24660631 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24660595 AATGAATATT
24660605 AATAAAAATTAA
1 AATAAAAATTAA
24660617 AATAAAAATTAA
1 AATAAAAATTAA
24660629 AAT
1 AAT
24660632 GAAATTCGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAAAAATTAA
Found at i:24661437 original size:46 final size:48
Alignment explanation
Indices: 24661369--24661464 Score: 169
Period size: 46 Copynumber: 2.0 Consensus size: 48
24661359 AAAAATGAGA
*
24661369 TGAATTTTTTTTTTCTGAAAATGGATTATTTGGTACAATACTCGTTGG
1 TGAATTTTTGTTTTCTGAAAATGGATTATTTGGTACAATACTCGTTGG
24661417 TGAA-TTTTGTTTT-TGAAAATGGATTATTTGGTACAATACTCGTTGG
1 TGAATTTTTGTTTTCTGAAAATGGATTATTTGGTACAATACTCGTTGG
24661463 TG
1 TG
24661465 CCGCTTGACA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 35 0.74
47 8 0.17
48 4 0.09
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (48 bp):
TGAATTTTTGTTTTCTGAAAATGGATTATTTGGTACAATACTCGTTGG
Found at i:24672045 original size:52 final size:52
Alignment explanation
Indices: 24671988--24672092 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
24671978 GAACCCAATT
*
24671988 ACATGTATCGCACCCATTATGAACTCGGACCAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCACCAATTATGAACTCGGACCAACTCAACGAGCTCGGATGCC
*** *
24672040 ACATGTATCGTTTCAATTATGAACTTGGACCAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCACCAATTATGAACTCGGACCAACTCAACGAGCTCGGATGCC
24672092 A
1 A
24672093 TATACATATC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (52 bp):
ACATGTATCGCACCAATTATGAACTCGGACCAACTCAACGAGCTCGGATGCC
Found at i:24675948 original size:44 final size:44
Alignment explanation
Indices: 24675770--24675936 Score: 262
Period size: 44 Copynumber: 3.8 Consensus size: 44
24675760 GTAGATAAAA
* *
24675770 TAATATTAAAATAACCTATATTAATCAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTATACTAATCAAAGTTTAAATGGGAAAC
* * *
24675814 TAATATTAAAAGAACCTCTACTAATCAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTATACTAATCAAAGTTTAAATGGGAAAC
* *
24675858 TAATATTAAAGTAACCTATACTAATCAAATTTTAAATGGGAAAC
1 TAATATTAAAATAACCTATACTAATCAAAGTTTAAATGGGAAAC
*
24675902 TAATACTAAAATAACCTATACTAATCAAAGTTTAA
1 TAATATTAAAATAACCTATACTAATCAAAGTTTAA
24675937 GTAAGAAACT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 112 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTATACTAATCAAAGTTTAAATGGGAAAC
Found at i:24675957 original size:88 final size:88
Alignment explanation
Indices: 24675781--24675957 Score: 237
Period size: 88 Copynumber: 2.0 Consensus size: 88
24675771 AATATTAAAA
* * * * *
24675781 TAACCTATATTAATCAGAGTTTAAATGGGAAACTAATATTAAAAGAACCTCTACTAATCAGAGTT
1 TAACCTATACTAATCAAAGTTTAAATGGGAAACTAATACTAAAAGAACCTATACTAATCAAAGTT
** * **
24675846 TAAATGGGAAACTAATATTAAAG
66 TAAATAAGAAACTAAAAACAAAG
* *
24675869 TAACCTATACTAATCAAATTTTAAATGGGAAACTAATACTAAAATAACCTATACTAATCAAAGTT
1 TAACCTATACTAATCAAAGTTTAAATGGGAAACTAATACTAAAAGAACCTATACTAATCAAAGTT
*
24675934 TAAGTAAGAAACTAAAAACAAAG
66 TAAATAAGAAACTAAAAACAAAG
24675957 T
1 T
24675958 TTAACTAGGA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (88 bp):
TAACCTATACTAATCAAAGTTTAAATGGGAAACTAATACTAAAAGAACCTATACTAATCAAAGTT
TAAATAAGAAACTAAAAACAAAG
Found at i:24677008 original size:18 final size:17
Alignment explanation
Indices: 24676987--24677021 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24676977 TTATTATTAA
*
24676987 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24677005 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24677022 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24677093 original size:25 final size:26
Alignment explanation
Indices: 24677065--24677114 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
24677055 ATAATAATAT
24677065 ATGA-TACTATAAAATATAATTTAAC
1 ATGATTACTATAAAATATAATTTAAC
* * *
24677090 ATGATTATTATTAAATATATTTTAA
1 ATGATTACTATAAAATATAATTTAA
24677115 TTAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
ATGATTACTATAAAATATAATTTAAC
Found at i:24677125 original size:18 final size:17
Alignment explanation
Indices: 24677102--24677138 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
24677092 GATTATTATT
24677102 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
24677118 AAATATATGATTTAATA
1 AAATATATGATTTAATA
24677135 AAAT
1 AAAT
24677139 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:24677197 original size:61 final size:60
Alignment explanation
Indices: 24677015--24677199 Score: 161
Period size: 60 Copynumber: 3.1 Consensus size: 60
24677005 ATATAATTTA
*
24677015 ATAAAATTCTTAATAATCAATATTCTTATATGAATTT-C-ATATAATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAATAATAATATATGATACT
* * * * * * * *
24677073 ATAAAATATAATTTAA-CATGATTATTATTAAAT-ATATTT--TAATTAA-AATATATGAT-TT
1 ATAAAAT-T--CTTAATAATCAATATTCTTATATGA-ATTTACTAAATAATAATATATGATACT
* *
24677131 AATAAAATTCTTAATAATCAATTTTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT-AAATAATAATATATGATACT
24677193 ATAAAAT
1 ATAAAAT
24677200 ATAATTTGAA
Statistics
Matches: 95, Mismatches: 19, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
56 4 0.04
57 15 0.16
58 10 0.11
59 20 0.21
60 24 0.25
61 21 0.22
62 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAATAATAATATATGATACT
Found at i:24677245 original size:18 final size:17
Alignment explanation
Indices: 24677222--24677258 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
24677212 AATTATTATT
24677222 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
24677238 AAATATATGATTTAATA
1 AAATATATGATTTAATA
24677255 AAAT
1 AAAT
24677259 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:24677268 original size:120 final size:117
Alignment explanation
Indices: 24676967--24677259 Score: 498
Period size: 117 Copynumber: 2.5 Consensus size: 117
24676957 TTAATCATAT
*
24676967 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
24677032 CAATATTCTTATATGAATTTCATATAATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTCAAATAATAATATATGATACTATAAAATATAA
*
24677084 TTTAACATGATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
* *
24677149 CAATTTTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTT-C--AAATAATAATATATGATACTATAAAATATAA
24677204 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
24677260 TAAAATAATT
Statistics
Matches: 166, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
117 82 0.49
118 1 0.01
120 81 0.49
121 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (117 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTCAAATAATAATATATGATACTATAAAATATAA
Found at i:24677309 original size:47 final size:46
Alignment explanation
Indices: 24677241--24677408 Score: 161
Period size: 47 Copynumber: 3.7 Consensus size: 46
24677231 TTAATTAAAA
*
24677241 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* * *
24677288 TATTTGAATTTGTATAATTTAAAATAATTATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
24677333 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
24677379 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
24677409 ATATTAAATA
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
43 3 0.03
44 21 0.22
45 10 0.10
46 9 0.09
47 46 0.48
48 7 0.07
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:24677350 original size:44 final size:43
Alignment explanation
Indices: 24677300--24677442 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
24677290 TTTGAATTTG
24677300 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
24677344 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
24677391 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
24677435 TATAATTT
1 TATAATTT
24677443 TATAAATTTC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.39
45 10 0.13
46 10 0.13
47 22 0.28
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:24677378 original size:91 final size:91
Alignment explanation
Indices: 24677266--24677481 Score: 342
Period size: 91 Copynumber: 2.4 Consensus size: 91
24677256 AATTTAAAAT
* * * * *
24677266 AATTATTACTAATAAATTTTCTTATTTGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
24677331 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
24677357 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
* *
24677422 TTTAATAATGATATATAATTTTATAA
66 TTTAATAATAATATATAATTTCATAA
* *
24677448 ATTTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
24677482 CTAAAATCAT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 114 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:24677464 original size:47 final size:45
Alignment explanation
Indices: 24677322--24677466 Score: 136
Period size: 47 Copynumber: 3.2 Consensus size: 45
24677312 TAATTATTAT
* *
24677322 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTTAT-AAATTCTTAATAA
* * ** *
24677369 TAAAT-T-TTCTTATATGAATTTATATAA-TTTA-AAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTTATAAATTCTTAATAA
24677413 TAAATATAATTTAATAATGATATATAATTTTATAAATTTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTTATAAA-TTCTTAATAA
24677460 TAAATAT
1 TAAATAT
24677467 TCTTATATGA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.30
45 9 0.12
46 11 0.14
47 28 0.36
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (45 bp):
TAAATATAATTTAATAATATATATAATTTTATAAATTCTTAATAA
Found at i:24691329 original size:17 final size:17
Alignment explanation
Indices: 24691307--24691341 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24691297 ATTGGTTGTC
24691307 TTTATATTCTAGAAGGA
1 TTTATATTCTAGAAGGA
24691324 TTTATATTCTAGAAGGA
1 TTTATATTCTAGAAGGA
24691341 T
1 T
24691342 CAATAGTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (17 bp):
TTTATATTCTAGAAGGA
Found at i:24692504 original size:275 final size:275
Alignment explanation
Indices: 24691867--24692682 Score: 1474
Period size: 275 Copynumber: 3.0 Consensus size: 275
24691857 TGTGTTTACA
* *
24691867 TTTTGAGGGTTTTTATTTTGAGTTTCGGGGTTTAGTTTTATCTCCATC-TTCTACTCTTCCTTTT
1 TTTTGAGGGTTCTTATTTTGAGTTTCGGGGTTTAGTTTTATCTCCATCTTTGTACTCTTCCTTTT
24691931 TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTCGGAGGGGTTTTTCCACGT
66 TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTCGGAGGGGTTTTTCCACGT
* * *
24691996 AAAATATTTGGGTTCGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATTGAGTT
131 AAAATATTTGTGTTCGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATCGGGTT
* * *
24692061 TATCGCCAACACAT-TTTTAGTTAGTATAATTGAAGTCACATGCTCACGCCAATGGAAAGTTGCA
196 TATCCCCAACACATCGTATAGTTAGTATAATTGAAGTCACATGCTCACGCCAATGGAAAGTTGCA
24692125 CTTCATTTGCTCACG
261 CTTCATTTGCTCACG
*
24692140 TTTTGAGGGTTCTTATTTTGAGTTTCGGGGTTTAGTTTTATCTCCATCTTCGTACTCTTCCTTTT
1 TTTTGAGGGTTCTTATTTTGAGTTTCGGGGTTTAGTTTTATCTCCATCTTTGTACTCTTCCTTTT
*
24692205 TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTTGGAGGGGTTTTTCCACGT
66 TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTCGGAGGGGTTTTTCCACGT
*
24692270 AAAATATTTGTGTTAGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATCGGGTT
131 AAAATATTTGTGTTCGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATCGGGTT
*
24692335 TATCCCCAACACATCGTATAGTTAGTATAATTGAAGTCACATGCTCATGCCAATGGAAAGTTGCA
196 TATCCCCAACACATCGTATAGTTAGTATAATTGAAGTCACATGCTCACGCCAATGGAAAGTTGCA
*
24692400 TTTCATTTGCTCACG
261 CTTCATTTGCTCACG
* *
24692415 TTTTGGGGGTTCTTATTTTGAGTTTTGGGGTTTAGTTTTATCTCCATCTTTGTACTCTTCCTTTT
1 TTTTGAGGGTTCTTATTTTGAGTTTCGGGGTTTAGTTTTATCTCCATCTTTGTACTCTTCCTTTT
24692480 TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTCGGAGGGGTTTTTCCACGT
66 TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTCGGAGGGGTTTTTCCACGT
24692545 AAAATATTTGTGTTCGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATCGGGTT
131 AAAATATTTGTGTTCGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATCGGGTT
*
24692610 TATCCCTAACACATCGTATAGTTAGTATAATTGAAGTCACATGCTCACGCCAATGGAAAGTTGCA
196 TATCCCCAACACATCGTATAGTTAGTATAATTGAAGTCACATGCTCACGCCAATGGAAAGTTGCA
24692675 CTTCATTT
261 CTTCATTT
24692683 ACTATATCCA
Statistics
Matches: 520, Mismatches: 21, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
273 47 0.09
274 152 0.29
275 321 0.62
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (275 bp):
TTTTGAGGGTTCTTATTTTGAGTTTCGGGGTTTAGTTTTATCTCCATCTTTGTACTCTTCCTTTT
TGTGGTTATAGTGAAATTATCTTTACTCATGGTTTTTTATCCTCTTCGGAGGGGTTTTTCCACGT
AAAATATTTGTGTTCGATTTTTTTAATTTCTTTGTTATTTTACTTGTTCATTGTTTAATCGGGTT
TATCCCCAACACATCGTATAGTTAGTATAATTGAAGTCACATGCTCACGCCAATGGAAAGTTGCA
CTTCATTTGCTCACG
Found at i:24692899 original size:44 final size:44
Alignment explanation
Indices: 24692850--24692940 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
24692840 ATAATTGTAA
* * ** * *
24692850 ATTAAATTATAGTTATTTTTAAATGTGTGATTATCAAAATTTTT
1 ATTAAATCATAATTATTTTTAAATGAATAATTATCAAAAATTTT
24692894 ATTAAATCATAATTATTTTTAAATGAATAATTATCAAAAATTTT
1 ATTAAATCATAATTATTTTTAAATGAATAATTATCAAAAATTTT
24692938 ATT
1 ATT
24692941 TTATGTCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (44 bp):
ATTAAATCATAATTATTTTTAAATGAATAATTATCAAAAATTTT
Found at i:24696751 original size:13 final size:14
Alignment explanation
Indices: 24696724--24696755 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
24696714 AAGGTCAACC
24696724 TCATTTTATTTGCA
1 TCATTTTATTTGCA
24696738 TCATTTTA-TTGCA
1 TCATTTTATTTGCA
24696751 TCATT
1 TCATT
24696756 AGTGGTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (14 bp):
TCATTTTATTTGCA
Found at i:24698980 original size:43 final size:43
Alignment explanation
Indices: 24698824--24698981 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
24698814 ATGAGTTATT
* *
24698824 GTGTAAGACCAGGTTTGGGACGTTGGCATC-A-ACTTATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATA-TT-TGA-TTAC
* * * **
24698868 GTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
24698910 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTAC
* * *
24698953 ATGTAAGACCACGTCTGAGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
24698982 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 29 0.31
43 34 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:24704891 original size:22 final size:21
Alignment explanation
Indices: 24704861--24704907 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
24704851 TACAAATTAA
24704861 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
24704883 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
24704904 ATCT
1 ATCT
24704908 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:24704913 original size:19 final size:19
Alignment explanation
Indices: 24704878--24704937 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
24704868 AGATTACAAG
24704878 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
24704899 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
24704916 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
24704935 ATC
1 ATC
24704938 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:24705484 original size:87 final size:88
Alignment explanation
Indices: 24705369--24705848 Score: 316
Period size: 87 Copynumber: 5.5 Consensus size: 88
24705359 ACAATACAGA
* * * * *
24705369 GATGCCAAATCATCTTAGATCTGTTTCAGCGT-AAACATGTGAAAGCCAAATCTGCTATGTCTTT
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAAACATCTGAAAGTCAAATCTGCTATGTCTTT
24705433 GATTTGCTCCTTGTGAACACAAG
66 GATTTGCTCCTTGTGAACACAAG
* * * *
24705456 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAAATCATCTGAAGGTTAGATCTGCTATGTATT
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTT
**
24705519 TG--TT-CTCC--GTCGAA-A-TGG
65 TGATTTGCTCCTTGT-GAACACAAG
* ** *
24705537 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTAT
1 -GATGCCAAATC----ATCTTGGATCTGCTTCAGTGTAA-AACATCTGAAAGTCAAATCTGCTAT
* * *
24705602 GTCTTCGATTTGTTCCTTGTAAACACAAG
60 GTCTTTGATTTGCTCCTTGTGAACACAAG
* * * * * * *
24705631 AATGCCAAATCATCTTGGATCTGCTTCAGTAT-AAACATCTGAAGGTTAGACCTGCTATGTAC-C
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAAACATCTGAAAGTCAAATCTGCTATGT-CTT
* **
24705694 TG--CT-CTCC--GTCGAA-A-TGG
65 TGATTTGCTCCTTGT-GAACACAAG
* ** * * *
24705712 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTACTAT
1 -GATGCCAAATC----ATCTTGGATCTGCTTCAGTGT-AAAACATCTGAAAGTCAAATCTGCTAT
** * *
24705777 GTCTTCAATTTGTTCCTTGTAAACACAAG
60 GTCTTTGATTTGCTCCTTGTGAACACAAG
* *
24705806 AATGCCAAATCATCTTGGATCTGCTTCAGTAT-AAACATCTGAA
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAAACATCTGAA
24705849 TGTTAGAGTT
Statistics
Matches: 291, Mismatches: 67, Indels: 70
0.68 0.16 0.16
Matches are distributed among these distances:
81 2 0.01
82 25 0.09
83 5 0.02
84 7 0.02
85 5 0.02
86 36 0.12
87 83 0.29
88 51 0.18
89 38 0.13
90 3 0.01
91 6 0.02
92 4 0.01
93 24 0.08
94 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (88 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAAACATCTGAAAGTCAAATCTGCTATGTCTTT
GATTTGCTCCTTGTGAACACAAG
Found at i:24705706 original size:175 final size:175
Alignment explanation
Indices: 24705409--24705855 Score: 761
Period size: 175 Copynumber: 2.6 Consensus size: 175
24705399 GTAAACATGT
* * * * *
24705409 GAAAGCCAAATCTGCTATGTCTTTGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* ** *
24705474 ATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATTTGTTCTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
24705538 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
24705584 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
24705649 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
*
24705714 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
* *
24705759 GAAAGTCAAATCTACTATGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
24705824 ATCTGCTTCAGTATAAACATCTGAATGTTAGA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGA
24705856 GTTCTTTCTG
Statistics
Matches: 258, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
175 255 0.99
176 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
Found at i:24706077 original size:44 final size:44
Alignment explanation
Indices: 24706009--24706323 Score: 230
Period size: 44 Copynumber: 7.1 Consensus size: 44
24705999 CGAAAATCAG
* *
24706009 ATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAA
1 ATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
24706055 ATCTGCTATCTTC-AACTCGTTCCCTATAAACATAGGGATGCCAT
1 ATCTGCTATCTTCGATCT-GTTCCCTATAAACACAGGGATGCCAA
* *** * * * * * * * * * * *
24706099 GT-TAAAATCTTTGATTTGTTTCGCTGTAAGCAAAAGAACGTCAG
1 ATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
24706143 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
24706187 ATCTCCTATCTTC-AACTTGTTCCTTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * *
24706229 ATGCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAGTAT--CAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGG-G-ATGCCAA
24706275 ATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
24706320 ATCT
1 ATCT
24706324 TGTTTCTTTG
Statistics
Matches: 202, Mismatches: 53, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
42 2 0.01
43 23 0.11
44 117 0.58
45 48 0.24
46 12 0.06
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:24706173 original size:132 final size:132
Alignment explanation
Indices: 24706004--24706323 Score: 478
Period size: 132 Copynumber: 2.4 Consensus size: 132
24705994 ACATCCGAAA
* * *
24706004 ATCAGATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCA
1 ATCAGATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTCCTATCTTCA
* * * *
24706069 ACTCGTTCCCTATAAACATAGGGATGCCATGTTAAAATCTTTGATTTGTTTCGCTGTAAGCAAAA
64 ACTCGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGTTTCGCTGTAAGCAAAA
24706134 GAAC
129 GAAC
*
24706138 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTCCTATCTTCAAC
1 ATCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTCCTATCTTCAAC
* * * * *
24706203 TTGTTCCTTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGA
66 TCGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGTTTCGCTGTAAGCAAAAGA
**
24706268 GT
131 AC
24706270 ATCAGATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATGCCAAATCT
1 ATCAGATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCT
24706324 TGTTTCTTTG
Statistics
Matches: 169, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
132 128 0.76
133 29 0.17
134 12 0.07
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
ATCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTCCTATCTTCAAC
TCGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGTTTCGCTGTAAGCAAAAGA
AC
Found at i:24707272 original size:13 final size:12
Alignment explanation
Indices: 24707239--24707290 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
24707229 CTCTCTATTT
24707239 TTTTTTCTTTT-
1 TTTTTTCTTTTC
*
24707250 TATTTT-TTTTC
1 TTTTTTCTTTTC
24707261 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
24707274 TTTTTTCCTTTT-
1 TTTTTT-CTTTTC
24707286 TTTTT
1 TTTTT
24707291 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 4 0.11
11 6 0.17
12 14 0.40
13 11 0.31
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:24707279 original size:29 final size:30
Alignment explanation
Indices: 24707230--24707289 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
24707220 CACCTTGGCC
*
24707230 TCTCTATTTTTTTTTCTTTTT-ATTTTTTT
1 TCTCTATTTTCTTTTCTTTTTCATTTTTTT
*
24707259 TCTCT-TTTTCTTTTCTTTTTTCCTTTTTTT
1 TCTCTATTTTCTTTTC-TTTTTCATTTTTTT
24707289 T
1 T
24707290 TGAAATAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 9 0.33
29 10 0.37
30 8 0.30
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (30 bp):
TCTCTATTTTCTTTTCTTTTTCATTTTTTT
Found at i:24707285 original size:28 final size:29
Alignment explanation
Indices: 24707230--24707287 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
24707220 CACCTTGGCC
* *
24707230 TCTCTATTTTTTTTTCTTTTTATTTTTTT
1 TCTCTATTTTCTTTTCTTTTTATCTTTTT
24707259 TCTCT-TTTTCTTTTCTTTTT-TCCTTTTT
1 TCTCTATTTTCTTTTCTTTTTAT-CTTTTT
24707287 T
1 T
24707288 TTTGAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 1 0.04
28 20 0.77
29 5 0.19
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (29 bp):
TCTCTATTTTCTTTTCTTTTTATCTTTTT
Found at i:24712943 original size:22 final size:21
Alignment explanation
Indices: 24712913--24712978 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
24712903 TACAAATTAA
24712913 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
24712935 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
24712956 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
24712975 ATCT
1 ATCT
24712979 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:24712965 original size:19 final size:19
Alignment explanation
Indices: 24712930--24713027 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
24712920 AGATTACAAG
24712930 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
24712951 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
24712970 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
24712987 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
24713006 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
24713025 ATC
1 ATC
24713028 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:24712994 original size:36 final size:37
Alignment explanation
Indices: 24712930--24713027 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
24712920 AGATTACAAG
24712930 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
24712970 ATCATATCTAAGATTG-TATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
24713006 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
24713028 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:24716136 original size:20 final size:20
Alignment explanation
Indices: 24716111--24716151 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24716101 TCCAAACTCT
24716111 TTATAATATGAAAATTAAAA
1 TTATAATATGAAAATTAAAA
24716131 TTATAATATGAAAATTAAAA
1 TTATAATATGAAAATTAAAA
24716151 T
1 T
24716152 ATACTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATAATATGAAAATTAAAA
Found at i:24717146 original size:11 final size:11
Alignment explanation
Indices: 24717130--24717170 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
24717120 TAAGAAAAAT
24717130 AAATAAAACAA
1 AAATAAAACAA
24717141 AAATAAAAACAA
1 AAAT-AAAACAA
*
24717153 AAATAAAA-TA
1 AAATAAAACAA
24717163 AAATAAAA
1 AAATAAAA
24717171 ATAAATGGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (11 bp):
AAATAAAACAA
Found at i:24717171 original size:11 final size:11
Alignment explanation
Indices: 24717124--24717175 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
24717114 AAGTCTTAAG
24717124 AAAAAT-AAAT
1 AAAAATAAAAT
24717134 AAAACA-AAAAT
1 AAAA-ATAAAAT
*
24717145 AAAAACAAAA-
1 AAAAATAAAAT
24717155 ATAAAATAAAAT
1 A-AAAATAAAAT
24717167 AAAAATAAA
1 AAAAATAAA
24717176 TGGGCTCAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 6 0.17
11 29 0.81
12 1 0.03
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:24718731 original size:10 final size:10
Alignment explanation
Indices: 24718716--24718751 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
24718706 AAATCAAAAT
24718716 AATAAACAAA
1 AATAAACAAA
24718726 AATAAA-AGAA
1 AATAAACA-AA
24718736 AATAAACAAA
1 AATAAACAAA
24718746 AATAAA
1 AATAAA
24718752 TAAAGTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.11
Consensus pattern (10 bp):
AATAAACAAA
Found at i:24721481 original size:10 final size:10
Alignment explanation
Indices: 24721466--24721493 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24721456 GTTTTATACC
24721466 TAGGAGAGCG
1 TAGGAGAGCG
24721476 TAGGAGAGCG
1 TAGGAGAGCG
24721486 TAGGAGAG
1 TAGGAGAG
24721494 TGAAAGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.50, T:0.11
Consensus pattern (10 bp):
TAGGAGAGCG
Found at i:24721980 original size:53 final size:52
Alignment explanation
Indices: 24721909--24722021 Score: 172
Period size: 53 Copynumber: 2.2 Consensus size: 52
24721899 GAACAGTAAC
* * *
24721909 AGTAACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAA
1 AGTAACAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAA
* *
24721961 TAGTAACAATAACATTACGGTACACAGAGTACCTCATCAGAACAAATCTGAAA
1 -AGTAACAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAA
24722014 AGTAACAA
1 AGTAACAA
24722022 GCCTTAACTT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 8 0.15
53 47 0.85
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (52 bp):
AGTAACAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAA
Found at i:24722287 original size:53 final size:52
Alignment explanation
Indices: 24722221--24722333 Score: 181
Period size: 53 Copynumber: 2.2 Consensus size: 52
24722211 TTATTAATTT
* *
24722221 CAATAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAATAGTAA
1 CAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAA-AGTAA
* *
24722274 CAATAACATTACGGTACACAGAGTACCTCATCAGAACAAATCTGAAAAGTAA
1 CAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAAAGTAA
24722326 CAATAACA
1 CAATAACA
24722334 ATATCCGACA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
52 13 0.23
53 43 0.77
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (52 bp):
CAATAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAAAGTAA
Found at i:24722376 original size:12 final size:12
Alignment explanation
Indices: 24722359--24722383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24722349 AGTGCTGAAT
24722359 CGGTAACAGTAA
1 CGGTAACAGTAA
24722371 CGGTAACAGTAA
1 CGGTAACAGTAA
24722383 C
1 C
24722384 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:24722532 original size:16 final size:16
Alignment explanation
Indices: 24722503--24722536 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
24722493 TAATTCATTT
24722503 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
24722519 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
24722535 TT
1 TT
24722537 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:24729886 original size:44 final size:42
Alignment explanation
Indices: 24729822--24729980 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 42
24729812 TATGTGTTAT
*
24729822 CGTGTAAGACCATGTATGGGATGTTGGCATCGACTTGTGATTTA
1 CGTGTAAGACCATGTTTGGGATGTTGGCATCGA-TT-TGATTTA
* * *
24729866 CGTGTAAGACCATGTTTGGGATATCGGTATCGTATTTGATTT-
1 CGTGTAAGACCATGTTTGGGATGTTGGCATCG-ATTTGATTTA
* *
24729908 CGTGTAAGACCCTGTTTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTTTGGGA-TGTTGGCATCG--ATTTGATTTA
* * * * *
24729951 CATGTAAGACTACGTCTAGGATGTTGGCAT
1 CGTGTAAGACCATGTTTGGGATGTTGGCAT
24729981 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.31
43 34 0.36
44 30 0.32
45 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (42 bp):
CGTGTAAGACCATGTTTGGGATGTTGGCATCGATTTGATTTA
Found at i:24729924 original size:42 final size:41
Alignment explanation
Indices: 24729821--24729960 Score: 147
Period size: 44 Copynumber: 3.3 Consensus size: 41
24729811 ATATGTGTTA
* *
24729821 TCGTGTAAGACCATGTATGGGATGTTGGCATCG-ACTTGTGATT
1 TCGTGTAAGACCATGTTTGGGAT-ATGGCATCGTA-TT-TGATT
*
24729864 TACGTGTAAGACCATGTTTGGGATATCGGTATCGTATTTGATT
1 T-CGTGTAAGACCATGTTTGGGATAT-GGCATCGTATTTGATT
* *
24729907 TCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTTTGGGATA-TGGCATCG-TATTTGATT
* *
24729950 ACATGTAAGAC
1 TCGTGTAAGAC
24729961 TACGTCTAGG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
42 27 0.32
43 27 0.32
44 29 0.35
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (41 bp):
TCGTGTAAGACCATGTTTGGGATATGGCATCGTATTTGATT
Found at i:24731570 original size:35 final size:35
Alignment explanation
Indices: 24731524--24731593 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
24731514 CAAGAGTTAG
24731524 TAACAATGGCCATGGCTGATAGATTTTTTTTTCTA
1 TAACAATGGCCATGGCTGATAGATTTTTTTTTCTA
* *
24731559 TAACAGTGGCCATGGTTGATAGATTTTTTTTTCTA
1 TAACAATGGCCATGGCTGATAGATTTTTTTTTCTA
24731594 GATGTAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (35 bp):
TAACAATGGCCATGGCTGATAGATTTTTTTTTCTA
Found at i:24742526 original size:27 final size:27
Alignment explanation
Indices: 24742496--24742673 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
24742486 ATATTGAGTC
* *
24742496 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24742523 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24742550 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24742578 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
24742605 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
24742632 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24742659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24742674 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24749734 original size:90 final size:90
Alignment explanation
Indices: 24749581--24749760 Score: 335
Period size: 90 Copynumber: 2.0 Consensus size: 90
24749571 TCTATAAAAT
24749581 GCATTAAACATGAGGGAAAAATATGTAAAATTTACGGTTTATCAAATACCCCCACACTTAAGCAT
1 GCATTAAACATGAGGGAAAAATATGTAAAATTTACGGTTTATCAAATACCCCCACACTTAAGCAT
24749646 TTGCTTGTCCTCAAGCAAAATTCTC
66 TTGCTTGTCCTCAAGCAAAATTCTC
*
24749671 GCATTAAACATG-GGGTAAAAATATGTATAATTTACGGTTTATCAAATACCCCCACACTTAAGCA
1 GCATTAAACATGAGGG-AAAAATATGTAAAATTTACGGTTTATCAAATACCCCCACACTTAAGCA
24749735 TTTGCTTGTCCTCAAGCAAAATTCTC
65 TTTGCTTGTCCTCAAGCAAAATTCTC
24749761 AACTCATAAT
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
89 3 0.03
90 85 0.97
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (90 bp):
GCATTAAACATGAGGGAAAAATATGTAAAATTTACGGTTTATCAAATACCCCCACACTTAAGCAT
TTGCTTGTCCTCAAGCAAAATTCTC
Found at i:24750951 original size:27 final size:27
Alignment explanation
Indices: 24750919--24750972 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24750909 TATGATATGC
24750919 GAGTTTTTCATGAGAACAAGGTGATTA
1 GAGTTTTTCATGAGAACAAGGTGATTA
24750946 GAGTTTTTCATGAGAACAAGGTGATTA
1 GAGTTTTTCATGAGAACAAGGTGATTA
24750973 TTCAGGGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (27 bp):
GAGTTTTTCATGAGAACAAGGTGATTA
Found at i:24752180 original size:13 final size:13
Alignment explanation
Indices: 24752162--24752186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24752152 TACCCTGTTT
24752162 TCGCACGGCCGTA
1 TCGCACGGCCGTA
24752175 TCGCACGGCCGT
1 TCGCACGGCCGT
24752187 GTTACCAGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.40, G:0.32, T:0.16
Consensus pattern (13 bp):
TCGCACGGCCGTA
Found at i:24770650 original size:15 final size:17
Alignment explanation
Indices: 24770611--24770653 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
24770601 AGTACCCTTG
*
24770611 AATACATAATCAATTTC
1 AATAAATAATCAATTTC
24770628 ATATAAATAAT-AATTT-
1 A-ATAAATAATCAATTTC
24770644 AATAAATAAT
1 AATAAATAAT
24770654 TTAATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
17 6 0.25
18 8 0.33
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AATAAATAATCAATTTC
Found at i:24771532 original size:13 final size:13
Alignment explanation
Indices: 24771514--24771542 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24771504 ATTTAAGAAA
24771514 ATATTATTATATT
1 ATATTATTATATT
24771527 ATATTATTATATT
1 ATATTATTATATT
24771540 ATA
1 ATA
24771543 ACTAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:24773897 original size:19 final size:20
Alignment explanation
Indices: 24773862--24773907 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
24773852 TTATGACTAA
24773862 ATTATGATATGTATGTT-AT
1 ATTATGATATGTATGTTCAT
*
24773881 ATTATTATATG-ATTGTTCAT
1 ATTATGATATGTA-TGTTCAT
24773901 ATT-TGAT
1 ATTATGAT
24773908 CTAAAATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.54
Consensus pattern (20 bp):
ATTATGATATGTATGTTCAT
Found at i:24776365 original size:18 final size:18
Alignment explanation
Indices: 24776342--24776376 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24776332 GTTTTTGGAT
24776342 AAATTTTGTAA-AATTTTG
1 AAATTTT-TAAGAATTTTG
24776360 AAATTTTTAAGAATTTT
1 AAATTTTTAAGAATTTT
24776377 TCCCCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
AAATTTTTAAGAATTTTG
Found at i:24779737 original size:19 final size:20
Alignment explanation
Indices: 24779691--24779741 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
24779681 TTGGATTTCT
*
24779691 AGAATTTGAGTATTTGATTA
1 AGAATTTGAGTATTTCATTA
*
24779711 A-AATTTTGTGT-TTTCATTA
1 AGAA-TTTGAGTATTTCATTA
24779730 AGAATTTGAGTA
1 AGAATTTGAGTA
24779742 AATAGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (20 bp):
AGAATTTGAGTATTTCATTA
Found at i:24780300 original size:22 final size:21
Alignment explanation
Indices: 24780275--24780315 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24780265 ACTATATAAA
* *
24780275 TATAATATTAATATATAAATTG
1 TATAAAATTAAAATA-AAATTG
24780297 TATAAAATTAAAATAAAAT
1 TATAAAATTAAAATAAAAT
24780316 AAAGTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAAAATTAAAATAAAATTG
Found at i:24782257 original size:21 final size:21
Alignment explanation
Indices: 24782231--24782322 Score: 74
Period size: 21 Copynumber: 4.6 Consensus size: 21
24782221 GTTTTATAAT
24782231 ATATATTTTTTAAAATTTTAA
1 ATATATTTTTTAAAATTTTAA
*
24782252 ATATATATTTTTGAAA---T--
1 ATATAT-TTTTTAAAATTTTAA
24782269 -TAT-TTTTTTAAAATTTTAA
1 ATATATTTTTTAAAATTTTAA
**
24782288 ATATTATTTTTT-AAATACTAA
1 ATA-TATTTTTTAAAATTTTAA
24782309 ATATATATTTTTAA
1 ATATAT-TTTTTAA
24782323 TAATATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 21
0.69 0.05 0.26
Matches are distributed among these distances:
14 8 0.14
15 1 0.02
16 3 0.05
17 1 0.02
19 1 0.02
20 5 0.09
21 22 0.39
22 15 0.27
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (21 bp):
ATATATTTTTTAAAATTTTAA
Found at i:24782273 original size:25 final size:25
Alignment explanation
Indices: 24782213--24782274 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 25
24782203 GAAATGTATA
*
24782213 TTTGAAATGTTTTATAATATATATT
1 TTTGAAATATTTTATAATATATATT
*
24782238 TTTTAAA-ATTTTA-AATATATATT
1 TTTGAAATATTTTATAATATATATT
24782261 TTTGAAATTATTTT
1 TTTGAAA-TATTTT
24782275 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 16 0.50
24 5 0.16
25 11 0.34
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (25 bp):
TTTGAAATATTTTATAATATATATT
Found at i:24782296 original size:35 final size:36
Alignment explanation
Indices: 24782236--24782303 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
24782226 ATAATATATA
24782236 TTTTTTAAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTTTAAAATTTTAAATATATATTTTTGAAATTAT
*
24782272 TTTTTTAAAATTTTAAATAT-TATTTTTTAAAT
1 TTTTTTAAAATTTTAAATATATATTTTTGAAAT
24782304 ACTAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 11 0.35
36 20 0.65
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (36 bp):
TTTTTTAAAATTTTAAATATATATTTTTGAAATTAT
Found at i:24782324 original size:20 final size:21
Alignment explanation
Indices: 24782267--24782320 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
24782257 TATTTTTGAA
**
24782267 ATTATTTTTTTAAAATTTTAAAT
1 ATTA-TTTTTT-AAATACTAAAT
24782290 ATTATTTTTTAAATACTAAAT
1 ATTATTTTTTAAATACTAAAT
24782311 ATATATTTTT
1 AT-TATTTTT
24782321 AATAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 13 0.46
23 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATTTTTTAAATACTAAAT
Found at i:24782327 original size:23 final size:20
Alignment explanation
Indices: 24782269--24782331 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
24782259 TTTTTGAAAT
*
24782269 TATT-TTTTTAAAATTTTAAA
1 TATTATTTTTAAAA-TATAAA
*
24782289 TATTATTTTTTAAATACTAAA
1 TATTATTTTTAAAATA-TAAA
24782310 TATATATTTTTAATAATATAAA
1 TAT-TATTTTTAA-AATATAAA
24782332 AATTTAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.14
21 15 0.42
22 12 0.33
23 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATTTTTAAAATATAAA
Found at i:24782416 original size:21 final size:20
Alignment explanation
Indices: 24782386--24782435 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
24782376 TTTTAAAATA
*
24782386 TTTTTAATATTTTTAATTTG
1 TTTTTAATATTTTAAATTTG
24782406 TTTTATAATATTTTAAATTATG
1 TTTT-TAATATTTTAAATT-TG
24782428 ATTTTTAA
1 -TTTTTAA
24782436 ATTATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 5 0.19
23 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTTAATATTTTAAATTTG
Found at i:24782571 original size:20 final size:20
Alignment explanation
Indices: 24782543--24782583 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
24782533 AATAAAAAAA
24782543 TTGTTAAAAAATG-ATTTAT
1 TTGTTAAAAAATGAATTTAT
24782562 TTGTTAAAAAATGAATTTAT
1 TTGTTAAAAAATGAATTTAT
24782582 TT
1 TT
24782584 AAAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TTGTTAAAAAATGAATTTAT
Found at i:24782624 original size:7 final size:7
Alignment explanation
Indices: 24782600--24782638 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
24782590 ATATATATTT
24782600 AAAATTAA
1 AAAATT-A
24782608 AAAATT-
1 AAAATTA
24782614 -AAATTA
1 AAAATTA
24782620 AAAATTA
1 AAAATTA
24782627 AAAATTA
1 AAAATTA
24782634 AAAAT
1 AAAAT
24782639 ATATTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
7 18 0.62
8 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:24782692 original size:13 final size:14
Alignment explanation
Indices: 24782674--24782710 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
24782664 AGTTTTTTGA
24782674 AATTTCAAAAA-AT
1 AATTTCAAAAATAT
24782687 AATTTCAAAAATAT
1 AATTTCAAAAATAT
24782701 ATATTT-AAAA
1 A-ATTTCAAAA
24782711 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.50
14 7 0.32
15 4 0.18
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTTCAAAAATAT
Found at i:24782744 original size:25 final size:23
Alignment explanation
Indices: 24782687--24782747 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
24782677 TTCAAAAAAT
*
24782687 AATTTCAAAAATATATATTTAAA
1 AATTTCAAATATATATATTTAAA
* *
24782710 ATTTTTAAATATATATATTATAAA
1 AATTTCAAATATATATATT-TAAA
24782734 ACATTTCAAATATA
1 A-ATTTCAAATATA
24782748 CATTTCAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 16 0.52
24 5 0.16
25 10 0.32
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTCAAATATATATATTTAAA
Found at i:24784401 original size:19 final size:19
Alignment explanation
Indices: 24784377--24784414 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24784367 AAAGTTAATA
*
24784377 ACAAATTTGATTACAATGG
1 ACAAATTTAATTACAATGG
24784396 ACAAATTTAATTACAATGG
1 ACAAATTTAATTACAATGG
24784415 GTGACAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (19 bp):
ACAAATTTAATTACAATGG
Found at i:24789421 original size:32 final size:32
Alignment explanation
Indices: 24789385--24789453 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
24789375 TAACATGCGA
*
24789385 ATACTTTTCACT-GTTAAGTACAAATCACGCGG
1 ATACTTTTCA-TGGTTAAGCACAAATCACGCGG
* **
24789417 ATACTTTTCATGGTTAAGCACAATTCTTGCGG
1 ATACTTTTCATGGTTAAGCACAAATCACGCGG
24789449 ATACT
1 ATACT
24789454 CAGTCATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (32 bp):
ATACTTTTCATGGTTAAGCACAAATCACGCGG
Found at i:24794532 original size:13 final size:14
Alignment explanation
Indices: 24794507--24794536 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24794497 ACAAGGTTTA
24794507 ATTGAATTTTTTTG
1 ATTGAATTTTTTTG
24794521 ATTGAA-TTTTTTG
1 ATTGAATTTTTTTG
24794534 ATT
1 ATT
24794537 AATAATAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (14 bp):
ATTGAATTTTTTTG
Found at i:24796576 original size:24 final size:24
Alignment explanation
Indices: 24796538--24796596 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
24796528 ATTATGAAGT
* * *
24796538 ACACGGCCTGAGACATGGGCTGTC
1 ACACGGCCTGGGACAAGGGCTATC
*
24796562 ACACGGTCTGGGACAAGGGCTATC
1 ACACGGCCTGGGACAAGGGCTATC
24796586 ACACGGCCTGG
1 ACACGGCCTGG
24796597 CAACACTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.29, G:0.34, T:0.15
Consensus pattern (24 bp):
ACACGGCCTGGGACAAGGGCTATC
Found at i:24799340 original size:27 final size:27
Alignment explanation
Indices: 24799310--24799390 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
24799300 AATCTCATAT
* *
24799310 CTGTAGGCTAGTATTACTGAAACACCC
1 CTGTAGGCTAGAATTACTGAAATACCC
*
24799337 CTGTAGGCTAGAATTACTGAAATGCCC
1 CTGTAGGCTAGAATTACTGAAATACCC
*
24799364 CTGTAAGG-TAGAATTACTAAAATACCC
1 CTGT-AGGCTAGAATTACTGAAATACCC
24799391 TTGCTTTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 45 0.94
28 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTGAAATACCC
Found at i:24799405 original size:27 final size:27
Alignment explanation
Indices: 24799375--24799742 Score: 216
Period size: 27 Copynumber: 13.7 Consensus size: 27
24799365 TGTAAGGTAG
*
24799375 AATTACTAAAATACCCTTGCTTTACAA
1 AATTACTAAAATACCCTTGATTTACAA
* * * *
24799402 AATTACT-GAATAACTTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTACAA
24799428 AATTACTAAAATA-CCTTCGA-TTAGCAA
1 AATTACTAAAATACCCTT-GATTTA-CAA
* * * **
24799455 AATTGCCAAAATACCCCTG-TTTGTAA
1 AATTACTAAAATACCCTTGATTTACAA
* * * **
24799481 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACTAAAATACCCTTGATTTACAA
* * **
24799508 AATTACT-AAATACCCTTAACTTGTAA
1 AATTACTAAAATACCCTTGATTTACAA
* ** **
24799534 AATTACTGAAATACCCTCAATTTTTAA
1 AATTACTAAAATACCCTTGATTTACAA
* * * **
24799561 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTAAAATACCCTTGATTTACAA
* *
24799588 AATTACCAAAATACCCTTGATTTAGAA
1 AATTACTAAAATACCCTTGATTTACAA
*
24799615 AATTA-TAGAAATACCCCTGATTTACAA
1 AATTACTA-AAATACCCTTGATTTACAA
24799642 AATTAC-AGAAATACCCTTGACTTT-CAAA
1 AATTACTA-AAATACCCTTGA-TTTAC-AA
* ** *
24799670 AATTACAAAAATACTATTGGTTTGA-AA
1 AATTACTAAAATACCCTTGATTT-ACAA
* **
24799697 AATTA-TCGAAATACCCTTGATTTGTAA
1 AATTACT-AAAATACCCTTGATTTACAA
* * *
24799724 ATTTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
24799743 TAAGGTGAAA
Statistics
Matches: 278, Mismatches: 46, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
26 72 0.26
27 182 0.65
28 23 0.08
29 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTACAA
Found at i:24799413 original size:26 final size:27
Alignment explanation
Indices: 24799375--24799444 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 27
24799365 TGTAAGGTAG
*
24799375 AATTACTAAAATACCCTTGCTTTACAA
1 AATTACTAAAATAACCTTGCTTTACAA
* * *
24799402 AATTACT-GAATAACTTTGGTTTACAA
1 AATTACTAAAATAACCTTGCTTTACAA
24799428 AATTACTAAAAT-ACCTT
1 AATTACTAAAATAACCTT
24799445 CGATTAGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 26 0.72
27 10 0.28
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (27 bp):
AATTACTAAAATAACCTTGCTTTACAA
Found at i:24799483 original size:53 final size:53
Alignment explanation
Indices: 24799426--24799656 Score: 173
Period size: 53 Copynumber: 4.3 Consensus size: 53
24799416 TTTGGTTTAC
* * * *
24799426 AAAATTACTAAAATACCTTCGATTAGCAAAATTGCCAAAATACCCCT-GTTTGT
1 AAAATTACCAAAATACCTTCAATTAGTAAAATT-CCAAAATACCCCTAATTTGT
* * * * * *
24799479 AAAATTACCAAAATACC-CCTAATTTGTAAAATTACTAAATACCCTTAACTTGT
1 AAAATTACCAAAATACCTTC-AATTAGTAAAATTCCAAAATACCCCTAATTTGT
** * ** *
24799532 AAAATTACTGAAATACCCTCAATTTTTAAAATTACCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATACCTTCAATTAGTAAAATT-CCAAAATACCCCTAATTTGT
* * ** * **
24799586 AAAATTACCAAAATACCCTTGATTTAG-AAAATTATAGAAATACCCCTGATTTAC
1 AAAATTACCAAAATA-CCTTCAATTAGTAAAATTCCA-AAATACCCCTAATTTGT
24799640 AAAATTA-CAGAAATACC
1 AAAATTACCA-AAATACC
24799657 CTTGACTTTC
Statistics
Matches: 140, Mismatches: 31, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
52 11 0.08
53 62 0.44
54 61 0.44
55 6 0.04
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCTTCAATTAGTAAAATTCCAAAATACCCCTAATTTGT
Found at i:24799654 original size:81 final size:80
Alignment explanation
Indices: 24799463--24799739 Score: 267
Period size: 82 Copynumber: 3.4 Consensus size: 80
24799453 AAAATTGCCA
* * * *
24799463 AAATACCCCTG-TTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTA-CTAAATACCCTTA
1 AAATACCCCTGATTTATAAAATTACCAAAATACCCCTAATTTGAAAAATTACCAAAATACCCTTG
* *
24799526 ACTTGTAAAATTACTG
66 ATTTGAAAAATTA-TG
* * *
24799542 AAATA-CCCTCAATTTTTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAAATACCCTT
1 AAATACCCCT-GATTTATAAAATTACCAAAATACCCCTAATTTGAAAAATTACCAAAATACCCTT
24799606 GATTT-AGAAAATTATAG
65 GATTTGA-AAAATTAT-G
* * * * * **
24799623 AAATACCCCTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCAAAAATTACAAAAATACTAT
1 AAATACCCCTGATTTATAAAATTACCA-AAATACCCCT-AATTTGAAAAATTACCAAAATACCCT
*
24799687 TGGTTTGAAAAATTATCG
64 TGATTTGAAAAATTAT-G
* * * *
24799705 AAATACCCTTGATTTGTAAATTTACCAAAACACCC
1 AAATACCCCTGATTTATAAAATTACCAAAATACCC
24799740 TTGTAAGGTG
Statistics
Matches: 164, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.02
79 5 0.03
80 40 0.24
81 47 0.29
82 65 0.40
83 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (80 bp):
AAATACCCCTGATTTATAAAATTACCAAAATACCCCTAATTTGAAAAATTACCAAAATACCCTTG
ATTTGAAAAATTATG
Found at i:24799740 original size:82 final size:82
Alignment explanation
Indices: 24799426--24799742 Score: 240
Period size: 82 Copynumber: 3.9 Consensus size: 82
24799416 TTTGGTTTAC
* ** * * *
24799426 AAAATTACTAAAATACC-TTCGA-TTAGCAAAATTGCCAAAATACCCCTG-TTTGTAAAATTACC
1 AAAATTACAAAAATACCATT-GATTTAG-AAAATTATCGAAATACCCTTGATTTATAAAATTACC
* **
24799488 AAAATACCCCT-AATTTGT
64 AAAATACCCTTGAATTTCA
* * * * ** *
24799506 AAAATTAC-TAAATACCCTTAACTT-GTAAAATTA-CTGAAATACCCTCAATTTTTAAAATTACC
1 AAAATTACAAAAATACCATTGATTTAG-AAAATTATC-GAAATACCCTTGATTTATAAAATTACC
* **
24799568 AAAATACCCCT-AATTTGG
64 AAAATACCCTTGAATTTCA
* * * * *
24799586 AAAATTACCAAAATACCCTTGATTTAGAAAATTATAGAAATACCCCTGATTTACAAAATTA-CAG
1 AAAATTACAAAAATACCATTGATTTAGAAAATTATCGAAATACCCTTGATTTATAAAATTACCA-
*
24799650 AAATACCCTTGACTTTCA
65 AAATACCCTTGAATTTCA
* * * *
24799668 AAAATTACAAAAATACTATTGGTTT-GAAAAATTATCGAAATACCCTTGATTTGTAAATTTACCA
1 AAAATTACAAAAATACCATTGATTTAG-AAAATTATCGAAATACCCTTGATTTATAAAATTACCA
*
24799732 AAACACCCTTG
65 AAATACCCTTG
24799743 TAAGGTGAAA
Statistics
Matches: 193, Mismatches: 33, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
78 1 0.01
79 23 0.12
80 52 0.27
81 50 0.26
82 65 0.34
83 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (82 bp):
AAAATTACAAAAATACCATTGATTTAGAAAATTATCGAAATACCCTTGATTTATAAAATTACCAA
AATACCCTTGAATTTCA
Found at i:24807124 original size:26 final size:26
Alignment explanation
Indices: 24807088--24807171 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
24807078 CATGAAATTC
24807088 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24807114 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
24807140 TTATCATGGAACATTCACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24807166 TTATCA
1 TTATCA
24807172 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24807712 original size:41 final size:40
Alignment explanation
Indices: 24807637--24807846 Score: 183
Period size: 41 Copynumber: 5.2 Consensus size: 40
24807627 GTAAAAATTG
* ** *
24807637 TAAAACACAGAGCAATAGCGGCG-TTTTAACAAAAATGCCGC
1 TAAAA-ACAGAGCAATAGTGGCGCTTTT-AGTAAAACGCCGC
* *
24807678 TAAAAACAGAGCAATAATGACG-TTTTAGTAAAAAACG-CGC
1 TAAAAACAGAGCAATAGTGGCGCTTTTAGT--AAAACGCCGC
* * *
24807718 TAAAAATAGAGCATTAGTGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGTGGCGCTTTTAGTAAAACGCCGC
* *
24807758 TAAAAACCAGAGCATTAGTGGCGCTTTTCGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGTGGCGCTTTTAGTAAAACGCCGC
* * * * * **
24807799 TAAAAACAAGAGTATTAGCGGCGTTTTTGGTAAAACGTAGC
1 TAAAAAC-AGAGCAATAGTGGCGCTTTTAGTAAAACGCCGC
24807840 TAAAAAC
1 TAAAAAC
24807847 CAAAGCATTA
Statistics
Matches: 144, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.05
40 49 0.34
41 88 0.61
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGTGGCGCTTTTAGTAAAACGCCGC
Found at i:24807830 original size:82 final size:80
Alignment explanation
Indices: 24807668--24807857 Score: 222
Period size: 82 Copynumber: 2.4 Consensus size: 80
24807658 CGTTTTAACA
* * * *
24807668 AAAATGCCGCTAAAAA-CAGAGCAATAATGACGTTTTAGTAAAAAACGCGCTAAAAATAGAGCAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGTGACGTTTTAGT-AAAAACGCGCTAAAAAAAGAGCAT
*
24807732 TAGTGGCGCTTTTGGT
65 TAGCGGCGCTTTTGGT
* * *
24807748 AAAACGCCGCTAAAAACCAGAGCATTAGTGGCGCTTTTCGT-AAAACGCCGCTAAAAACAAGAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGTGACG-TTTTAGTAAAAACG-CGCTAAAAA-AAGAGC
*
24807812 ATTAGCGGCGTTTTTGGT
63 ATTAGCGGCGCTTTTGGT
** *
24807830 AAAACGTAGCTAAAAACCAAAGCATTAG
1 AAAACGCCGCTAAAAACCAGAGCATTAG
24807858 CAGCGTTTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 21 0.22
81 22 0.23
82 51 0.54
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (80 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGTGACGTTTTAGTAAAAACGCGCTAAAAAAAGAGCATT
AGCGGCGCTTTTGGT
Found at i:24807857 original size:41 final size:41
Alignment explanation
Indices: 24807709--24807866 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
24807699 GTTTTAGTAA
* * *
24807709 AAAACG-CGCTAAAAA-TAGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
* * *
24807748 AAAACGCCGCTAAAAACCAGAGCATTAGTGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
* *
24807789 AAAACGCCGCTAAAAA-CAAGAGTATTAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAA-AGCATTAGCGGCGCTTTTGGT
** *
24807830 AAAACGTAGCTAAAAACCAAAGCATTAGCAGCG-TTTT
1 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTT
24807867 ACTAAAAGTC
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
39 6 0.06
40 15 0.14
41 80 0.77
42 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
Found at i:24808051 original size:14 final size:14
Alignment explanation
Indices: 24808029--24808133 Score: 75
Period size: 14 Copynumber: 7.2 Consensus size: 14
24808019 TTAATTATCA
*
24808029 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
24808043 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
24808057 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
24808071 TTAAGGTTTATGAGT
1 TTATGGTTTAAG-GT
*
24808086 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGGT
* *
24808103 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
24808117 TTAAGGTTTAAAGT
1 TTATGGTTTAAGGT
24808131 TTA
1 TTA
24808134 AGAGTTAACT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
14 56 0.81
15 3 0.04
17 1 0.01
18 9 0.13
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:24808064 original size:21 final size:21
Alignment explanation
Indices: 24808040--24808121 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
24808030 TATAGTTTAA
*
24808040 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
* *
24808061 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTAGGGTTTAAGATATAT
*
24808082 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
24808107 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
24808122 GTTTAAAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 29 0.58
22 3 0.06
24 3 0.06
25 15 0.30
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:24808127 original size:7 final size:7
Alignment explanation
Indices: 24808034--24808135 Score: 60
Period size: 7 Copynumber: 14.0 Consensus size: 7
24808024 TATCATTATA
24808034 GTTTAAG
1 GTTTAAG
*
24808041 GTTTATG
1 GTTTAAG
24808048 GTTTAAG
1 GTTTAAG
* * *
24808055 ATATATG
1 GTTTAAG
*
24808062 GTTTAGG
1 GTTTAAG
24808069 GTTTAAG
1 GTTTAAG
*
24808076 GTTTATG
1 GTTTAAG
*
24808083 AGTTAACTATG
1 -GTT---TAAG
24808094 GTTTAAG
1 GTTTAAG
* * *
24808101 ATATATG
1 GTTTAAG
*
24808108 GTTTAGG
1 GTTTAAG
24808115 GTTTAAG
1 GTTTAAG
*
24808122 GTTTAAA
1 GTTTAAG
24808129 GTTTAAG
1 GTTTAAG
24808136 AGTTAACTAG
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
7 61 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (7 bp):
GTTTAAG
Found at i:24808240 original size:21 final size:21
Alignment explanation
Indices: 24808228--24808303 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
24808218 AAGGTGTAAG
*
24808228 GGTTTGGGGTTAAGGGTTAAA
1 GGTTTAGGGTTAAGGGTTAAA
* *
24808249 GGTTTAGGGTTTAGGGTT-TA
1 GGTTTAGGGTTAAGGGTTAAA
* *
24808269 GTGTTTATGGGATAGGGGTTAAGA
1 G-GTTTA-GGGTTAAGGGTTAA-A
24808293 GGTTTAGGGTT
1 GGTTTAGGGTT
24808304 TAAATTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.05
21 21 0.49
22 13 0.30
23 5 0.12
24 2 0.05
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (21 bp):
GGTTTAGGGTTAAGGGTTAAA
Found at i:24808305 original size:7 final size:7
Alignment explanation
Indices: 24808188--24808305 Score: 64
Period size: 7 Copynumber: 16.6 Consensus size: 7
24808178 GGAAATATGA
*
24808188 TTTAGGA
1 TTTAGGG
24808195 TTTAAGGG
1 TTT-AGGG
24808203 -TTAGGG
1 TTTAGGG
24808209 -TT-GGAG
1 TTTAGG-G
*
24808215 TTTAAGG
1 TTTAGGG
*
24808222 TGTAAGGG
1 T-TTAGGG
*
24808230 TTTGGGG
1 TTTAGGG
*
24808237 TTAAGGG
1 TTTAGGG
* *
24808244 TTAAAGG
1 TTTAGGG
24808251 TTTAGGG
1 TTTAGGG
24808258 TTTAGGG
1 TTTAGGG
*
24808265 TTTAGTG
1 TTTAGGG
24808272 TTTATGGG
1 TTTA-GGG
*
24808280 -ATAGGGG
1 TTTA-GGG
*
24808287 TTAAGAGG
1 TTTAG-GG
24808295 TTTAGGG
1 TTTAGGG
24808302 TTTA
1 TTTA
24808306 AATTAATTAG
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 58 0.68
8 18 0.21
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:24809616 original size:39 final size:40
Alignment explanation
Indices: 24809562--24809641 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
24809552 GGGTGAAGAG
24809562 GATAAAGGGAAAAGGAAGTTGAAAAC-TGTCTGCAGTTGC
1 GATAAAGGGAAAAGGAAGTTGAAAACTTGTCTGCAGTTGC
24809601 GATAAAGGGAAAAGGAAGTTGAAAACTTTGTCTGCAGTTGC
1 GATAAAGGGAAAAGGAAGTTGAAAAC-TTGTCTGCAGTTGC
24809642 TGAGTAATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 26 0.67
41 13 0.33
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.23
Consensus pattern (40 bp):
GATAAAGGGAAAAGGAAGTTGAAAACTTGTCTGCAGTTGC
Found at i:24813279 original size:30 final size:29
Alignment explanation
Indices: 24813244--24813329 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 29
24813234 ACTTGCTGTA
24813244 TTTTATTTATATCTTTATATTTAATCTA-AT
1 TTTTATTT-TAT-TTTATATTTAATCTATAT
*
24813274 TTTTATTATTTATTTTAGT-TTTGATTCTATAT
1 TTTTA-T-TTTATTTTA-TATTT-AATCTATAT
24813306 TTTTATTTTATTTTAATATTTAAT
1 TTTTATTTTATTTT-ATATTTAAT
24813330 AACTTGAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
30 23 0.49
31 15 0.32
32 9 0.19
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTATTTTATTTTATATTTAATCTATAT
Found at i:24813695 original size:43 final size:43
Alignment explanation
Indices: 24813567--24813696 Score: 197
Period size: 43 Copynumber: 3.0 Consensus size: 43
24813557 TTTTTAATTT
* *
24813567 CACGGCTTTTAGCGGCGTCTGTGGGAAAAACGCCGCTAAAGGT
1 CACGGCTTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGC
24813610 CACGGCTTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGC
1 CACGGCTTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGC
* * ** *
24813653 CACGGCCTTTAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGC
1 CACGGCTTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGC
24813696 C
1 C
24813697 TAAAAAAATG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.21
Consensus pattern (43 bp):
CACGGCTTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGC
Found at i:24826442 original size:20 final size:18
Alignment explanation
Indices: 24826417--24826456 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
24826407 GGTAGAATTG
24826417 TTATTCTTAGAAAATATAAT
1 TTATTC-TAGAAAATA-AAT
*
24826437 TTATTCTAGTAAATAAAT
1 TTATTCTAGAAAATAAAT
24826455 TT
1 TT
24826457 CCATTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (18 bp):
TTATTCTAGAAAATAAAT
Found at i:24830408 original size:44 final size:43
Alignment explanation
Indices: 24830266--24830436 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
24830256 CTCGTACAAC
* * * * **
24830266 GCCAACGTCCCAGACATGGTCTTATATGTAATCTCATATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGAT
* * * * * *
24830309 GACACTGTCCCAGACAAGGTCTTACACGAACTCATATA-CAAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGAT
* *
24830351 GCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAAATTGAT
1 GCCAATGTCCCAGACATGGTCTTACACG-AAATCAAATATCGAT
* * *
24830395 GCCAATGTCCCAGACGTGGTCTTACATGAAATCACATATCGA
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGA
24830437 AATCCTATGT
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
42 28 0.27
43 46 0.45
44 28 0.27
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGAT
Found at i:24831558 original size:13 final size:13
Alignment explanation
Indices: 24831540--24831564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24831530 CAAACGATAC
24831540 AATTTTCACACAA
1 AATTTTCACACAA
24831553 AATTTTCACACA
1 AATTTTCACACA
24831565 TTAATTAACA
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTTTCACACAA
Done.