Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 169 of 311
Found at i:57724543 original size:69 final size:69
Alignment explanation
Indices: 57724440--57724613 Score: 294
Period size: 69 Copynumber: 2.5 Consensus size: 69
57724430 GTTCTGGTAG
*
57724440 CCTCGCTGCAATCTGGTGGCCTCGCCACATATATATCTGTTCTGGTGACTTCGTTACAATATCTG
1 CCTCGCTGCAATCTGGTGGCCTCGCCACATATATATCTGTTCTGGTGACTTCGTCACAATATCTG
57724505 GCAA
66 GCAA
* *
57724509 CCTCGCTGCAACCTGGTGGCCTCGCCACATATATATCTGTTTTGGTGACTTCGTCACAATATCTG
1 CCTCGCTGCAATCTGGTGGCCTCGCCACATATATATCTGTTCTGGTGACTTCGTCACAATATCTG
*
57724574 GCAG
66 GCAA
* *
57724578 CCTCGCTGCAATCTGGTGGCTTTGCCACATATATAT
1 CCTCGCTGCAATCTGGTGGCCTCGCCACATATATAT
57724614 ATATCTGTTC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 98 1.00
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.32
Consensus pattern (69 bp):
CCTCGCTGCAATCTGGTGGCCTCGCCACATATATATCTGTTCTGGTGACTTCGTCACAATATCTG
GCAA
Found at i:57726767 original size:26 final size:26
Alignment explanation
Indices: 57726729--57726812 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
57726719 CCCTGTTTAG
* *
57726729 AATACTTTAGTTTACCAAATTACCAA
1 AATACTCTAGTTTACAAAATTACCAA
* *** *
57726755 AATACTCTGGTTTGTGAAATTGCCAA
1 AATACTCTAGTTTACAAAATTACCAA
* * *
57726781 AATACCCTCGATTAGCAAAATTACCAA
1 AATACTCTAGTTTA-CAAAATTACCAA
57726808 AATAC
1 AATAC
57726813 CCCTGATTTG
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
26 30 0.68
27 14 0.32
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AATACTCTAGTTTACAAAATTACCAA
Found at i:57726807 original size:27 final size:27
Alignment explanation
Indices: 57726745--57726841 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
57726735 TTAGTTTACC
* * *
57726745 AAATTACCAAAATACTCT-GGTTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
57726771 AAATTGCCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
57726798 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
**
57726825 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
57726842 CTGTAAGGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 17 0.29
27 41 0.71
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:57726856 original size:27 final size:27
Alignment explanation
Indices: 57726799--57726965 Score: 160
Period size: 27 Copynumber: 6.2 Consensus size: 27
57726789 CGATTAGCAA
* ** *
57726799 AATTACCAAAATACCCCTG-ATTTGTAA
1 AATTACTAAAATACCCCTGTA-GGGTAG
* *
57726826 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
57726853 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-AAAATACCCCTGTAGGGTAG
* * *
57726880 ATTTACTAAAATATCCCTGTAAGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
57726907 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
57726934 AAATACTAAAAT-CCTCCTGTAGGGTAG
1 AATTACTAAAATACC-CCTGTAGGGTAG
57726961 AATTA
1 AATTA
57726966 TCGAGATACC
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 110 0.96
28 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:57726857 original size:54 final size:54
Alignment explanation
Indices: 57726799--57726993 Score: 198
Period size: 54 Copynumber: 3.6 Consensus size: 54
57726789 CGATTAGCAA
** *
57726799 AATTACCAAAATACCCCTG-ATTTGTAAAATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCAAAATACCCCTGTA-GGGTAAAATTACTAAAATACCCCTGTAAGGTAG
* * * * * *
57726853 AATTATCGAAATACCCTTGTAGGGTAGATTTACTAAAATATCCCTGTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAAAATTACTAAAATACCCCTGTAAGGTAG
* *
57726907 AATTACCAAAATACCCTTGTAGGGTAGAAA-TACTAAAAT-CCTCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTA-AAATTACTAAAATACC-CCTGTAAGGTAG
* * * * *
57726961 AATTATCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACCAAAATACCCCTGTAGGGTAAAATTAC
57726994 CATTTTGCCC
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
53 4 0.03
54 112 0.95
55 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGTAGGGTAAAATTACTAAAATACCCCTGTAAGGTAG
Found at i:57726985 original size:27 final size:26
Alignment explanation
Indices: 57726834--57726993 Score: 144
Period size: 27 Copynumber: 6.0 Consensus size: 26
57726824 AAAATTACTG
* * *
57726834 AAATACCCCTGTAAGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTA-CA
*
57726861 AAATACCCTTGTAGGGTAGATTTACTA
1 AAATACCCTTGTAGGGTAGAATTAC-A
*
57726888 AAATATCCC-TGTAAGGTAGAATTACCA
1 AAATA-CCCTTGTAGGGTAGAATTA-CA
*
57726915 AAATACCCTTGTAGGGTAGAAATACTA
1 AAATACCCTTGTAGGGTAGAATTAC-A
* *
57726942 AAAT-CCTCCTGTAGGGTAGAATTATCG
1 AAATACC-CTTGTAGGGTAGAATTA-CA
* * *
57726969 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
57726994 CATTTTGCCC
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
26 8 0.07
27 95 0.86
28 7 0.06
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (26 bp):
AAATACCCTTGTAGGGTAGAATTACA
Found at i:57729245 original size:19 final size:19
Alignment explanation
Indices: 57729223--57729260 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57729213 TGTGTGCAAG
57729223 CTCAAAGACAACTGAATAC
1 CTCAAAGACAACTGAATAC
57729242 CTCAAAGACAACTGAATAC
1 CTCAAAGACAACTGAATAC
57729261 TAACATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
CTCAAAGACAACTGAATAC
Found at i:57733698 original size:23 final size:23
Alignment explanation
Indices: 57733656--57733708 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
57733646 ACGGTAAGCT
**
57733656 TCTTCTTCTTCTTCTTTACTGC-
1 TCTTCTTCTTCTTCACTACTGCA
57733678 TACTTCTTCTTCTTCACTACTGCA
1 T-CTTCTTCTTCTTCACTACTGCA
57733702 TCTTCTT
1 TCTTCTT
57733709 TTTGCAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 25 0.93
24 1 0.04
ACGTcount: A:0.09, C:0.32, G:0.04, T:0.55
Consensus pattern (23 bp):
TCTTCTTCTTCTTCACTACTGCA
Found at i:57733705 original size:20 final size:20
Alignment explanation
Indices: 57733662--57733708 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57733652 AGCTTCTTCT
* * *
57733662 TCTTCTTCTTTACTGCTACT
1 TCTTCTTCTTCACTACTACA
*
57733682 TCTTCTTCTTCACTACTGCA
1 TCTTCTTCTTCACTACTACA
57733702 TCTTCTT
1 TCTTCTT
57733709 TTTGCAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.32, G:0.04, T:0.53
Consensus pattern (20 bp):
TCTTCTTCTTCACTACTACA
Found at i:57736803 original size:24 final size:21
Alignment explanation
Indices: 57736761--57736804 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
57736751 TTATTGTTGT
*
57736761 AACTTTATATTATTTTTTATC
1 AACTTTATATTATTATTTATC
57736782 AACTTTATTATCTAATTATTTAT
1 AACTTTA-TAT-T-ATTATTTAT
57736805 TCTTATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 1 0.05
24 8 0.42
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (21 bp):
AACTTTATATTATTATTTATC
Found at i:57737131 original size:11 final size:11
Alignment explanation
Indices: 57737065--57737134 Score: 70
Period size: 11 Copynumber: 6.4 Consensus size: 11
57737055 TTCTCACTGC
57737065 TGCTG-TTTGG
1 TGCTGTTTTGG
* *
57737075 TGCTTTTTTTTG
1 TGC-TGTTTTGG
*
57737087 TGATGTTTTGG
1 TGCTGTTTTGG
* *
57737098 AGCTGTTTTGA
1 TGCTGTTTTGG
*
57737109 TGTTGTTTTGG
1 TGCTGTTTTGG
57737120 TGCTGTTTTGG
1 TGCTGTTTTGG
57737131 TGCT
1 TGCT
57737135 ACTTTTGTGG
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 3 0.07
11 37 0.80
12 6 0.13
ACGTcount: A:0.04, C:0.07, G:0.31, T:0.57
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:57737751 original size:26 final size:25
Alignment explanation
Indices: 57737722--57737781 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
57737712 TTAAAAGTTT
57737722 ATAAAAATAGGGATAAATATATAAAA
1 ATAAAAATAGGGA-AAATATATAAAA
* * *
57737748 ATAAAATATATGTAAAATATCTAAAA
1 ATAAAA-ATAGGGAAAATATATAAAA
57737774 ATATAAAA
1 ATA-AAAA
57737782 AATTATCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.27
Consensus pattern (25 bp):
ATAAAAATAGGGAAAATATATAAAA
Found at i:57738174 original size:22 final size:22
Alignment explanation
Indices: 57738148--57738197 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
57738138 CCACTGTCAG
57738148 TTATTTTATTGCT-TTATTATT
1 TTATTTTATTGCTATTATTATT
*
57738169 ATTA-TTTATTTCTATTATTATT
1 -TTATTTTATTGCTATTATTATT
57738191 TT-TTTTA
1 TTATTTTA
57738198 CTAGTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (22 bp):
TTATTTTATTGCTATTATTATT
Found at i:57738207 original size:18 final size:19
Alignment explanation
Indices: 57738165--57738216 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
57738155 ATTGCTTTAT
*
57738165 TATTATTATTTATTTCTAT
1 TATTATTATTTATTTCTAG
57738184 TATTATT-TTT-TTTACTAG
1 TATTATTATTTATTT-CTAG
*
57738202 TATTATTAATTATTT
1 TATTATTATTTATTT
57738217 TTCTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 3 0.11
18 13 0.46
19 9 0.32
20 3 0.11
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTATTATTTATTTCTAG
Found at i:57738410 original size:19 final size:20
Alignment explanation
Indices: 57738386--57738424 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
57738376 ATTAAGTTAC
*
57738386 TTGTTATTTTTCTT-TATTA
1 TTGTTATTATTCTTATATTA
57738405 TTGTTATTATTCTTATATTA
1 TTGTTATTATTCTTATATTA
57738425 CATCTGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (20 bp):
TTGTTATTATTCTTATATTA
Found at i:57739845 original size:6 final size:6
Alignment explanation
Indices: 57739834--57739900 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
57739824 CCATTTATCA
* * *
57739834 TTTATT TTTATT TTTAAT TTTATT CTATTATT TTTAGT TTTATT TCTATT
1 TTTATT TTTATT TTTATT TTTATT -T-TTATT TTTATT TTTATT TTTATT
* *
57739884 TTTATG TTTATT GTTAT
1 TTTATT TTTATT TTTAT
57739901 GATTTTAGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
6 43 0.86
7 2 0.04
8 5 0.10
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTATT
Found at i:57739866 original size:20 final size:21
Alignment explanation
Indices: 57739841--57739883 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
57739831 TCATTTATTT
57739841 TTATTTTTAATTTTA-TTCTA
1 TTATTTTTAATTTTATTTCTA
*
57739861 TTATTTTTAGTTTTATTTCTA
1 TTATTTTTAATTTTATTTCTA
57739882 TT
1 TT
57739884 TTTATGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATTTTTAATTTTATTTCTA
Found at i:57742089 original size:46 final size:46
Alignment explanation
Indices: 57742039--57742208 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
57742029 GTTGAGCATT
57742039 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * * *
57742085 CGAACTCCTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* ***
57742132 CGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCGAACACC
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
57742177 CGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTA
57742209 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 26 0.26
46 35 0.35
47 27 0.27
49 3 0.03
50 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (46 bp):
CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:57742197 original size:92 final size:93
Alignment explanation
Indices: 57742034--57742203 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 93
57742024 GGATGGTTGA
* *** *
57742034 GCATTCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCCTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGT
57742099 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
57742127 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCGAACACCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGT
57742191 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57742204 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 43 0.61
93 27 0.39
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57747772 original size:217 final size:217
Alignment explanation
Indices: 57747390--57747824 Score: 825
Period size: 217 Copynumber: 2.0 Consensus size: 217
57747380 GTGCTCTTTT
*
57747390 AGTTGAGTTATCAATGTGTGATTATTTATGAATTATGATAAAACATTATTGATAGGAATTATCAA
1 AGTTGAATTATCAATGTGTGATTATTTATGAATTATGATAAAACATTATTGATAGGAATTATCAA
57747455 TTGAGAGAGTTAAATTTTAATTTTGAGTTGAGGATTTTAATTTTAATTTTAATTATGATAAAACA
66 TTGAGAGAGTTAAATTTTAATTTTGAGTTGAGGATTTTAATTTTAATTTTAATTATGATAAAACA
*
57747520 TGGTCTTACATGATTTCCTTGTCTTGTAGAACTTACCAATGTCATGCCTTGGCATGGTTTTACTT
131 TGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATGTCATGCCTTGGCATGGTTTTACTT
57747585 GGTATCTTTAAACCCTAATGTC
196 GGTATCTTTAAACCCTAATGTC
57747607 AGTTGAATTATCAATGTGTGATTATTTATGAATTATGATAAAACATTATTGATAGGAATTATCAA
1 AGTTGAATTATCAATGTGTGATTATTTATGAATTATGATAAAACATTATTGATAGGAATTATCAA
*
57747672 TTGAGAGAGTTTAATTTTAATTTTGAGTTGAGGATTTTAATTTTAATTTTAATTATGATAAAACA
66 TTGAGAGAGTTAAATTTTAATTTTGAGTTGAGGATTTTAATTTTAATTTTAATTATGATAAAACA
*
57747737 TGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATGTCATGCCTTGGCATGTTTTTACTT
131 TGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATGTCATGCCTTGGCATGGTTTTACTT
*
57747802 GGTATCTTTAAATCCTAATGTC
196 GGTATCTTTAAACCCTAATGTC
57747824 A
1 A
57747825 TGACATTTGT
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 213 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (217 bp):
AGTTGAATTATCAATGTGTGATTATTTATGAATTATGATAAAACATTATTGATAGGAATTATCAA
TTGAGAGAGTTAAATTTTAATTTTGAGTTGAGGATTTTAATTTTAATTTTAATTATGATAAAACA
TGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATGTCATGCCTTGGCATGGTTTTACTT
GGTATCTTTAAACCCTAATGTC
Found at i:57758415 original size:2 final size:2
Alignment explanation
Indices: 57758408--57758439 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57758398 TAAGGAATCC
57758408 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
57758440 TATGAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57761984 original size:20 final size:20
Alignment explanation
Indices: 57761945--57761984 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
57761935 TTTGATTTAA
*
57761945 AATTTAAGAAAAATATAATT
1 AATTTAAGAAAAAAATAATT
57761965 AATTT-AGAAAAAAATGAATT
1 AATTTAAGAAAAAAAT-AATT
57761985 TTTTTAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
AATTTAAGAAAAAAATAATT
Found at i:57769721 original size:42 final size:43
Alignment explanation
Indices: 57769614--57769759 Score: 204
Period size: 43 Copynumber: 3.4 Consensus size: 43
57769604 CAAAAGTCAC
* * * *
57769614 TAGAACATGACCTTTAACGGTGCTTTTCTAATAAACGCCGCTA
1 TAGAACATGACCTTTAGCGGCGCTTTTCTTACAAACGCCGCTA
* *
57769657 TAGAATATGACCTTTAGCGGCGCTTTTCTTACAAACACCGCTA
1 TAGAACATGACCTTTAGCGGCGCTTTTCTTACAAACGCCGCTA
* *
57769700 TA-AACATGACCTTTAGTGGCGCTTTTCCTACAAACGCCGCTA
1 TAGAACATGACCTTTAGCGGCGCTTTTCTTACAAACGCCGCTA
*
57769742 TATAACATGACCTTTAGC
1 TAGAACATGACCTTTAGC
57769760 AGCATTTTTC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 38 0.42
43 53 0.58
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (43 bp):
TAGAACATGACCTTTAGCGGCGCTTTTCTTACAAACGCCGCTA
Found at i:57769769 original size:43 final size:42
Alignment explanation
Indices: 57769617--57769783 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 42
57769607 AAGTCACTAG
* * *
57769617 AACATGACCTTTAACGGTGCTTTT-CTAATAAACGCCGCTATA
1 AACATGACCTTTAGCGGCGCTTTTCCT-ACAAACGCCGCTATA
* * *
57769659 GAATATGACCTTTAGCGGCGCTTTTCTTACAAACACCGCTATA
1 -AACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATA
*
57769702 AACATGACCTTTAGTGGCGCTTTTCCTACAAACGCCGCTATA
1 AACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATA
* ** * *
57769744 TAACATGACCTTTAGCAGCATTTTTCCCAAAAACGCCGCT
1 -AACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCT
57769784 GAAGACCATA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 38 0.36
43 67 0.63
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
AACATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATA
Found at i:57769783 original size:85 final size:85
Alignment explanation
Indices: 57769617--57769783 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 85
57769607 AAGTCACTAG
* * * * *
57769617 AACATGACCTTTAACGGTGCTTTTCTAATAAACGCCGCTATAGAATATGACCTTTAGCGGCGCTT
1 AACATGACCTTTAACGGCGCTTTTCTAACAAACGCCGCTATAGAACATGACCTTTAGCAGCACTT
** *
57769682 TTCTTACAAACACCGCTATA
66 TTCCCAAAAACACCGCTATA
** * *
57769702 AACATGACCTTTAGTGGCGCTTTTCCT-ACAAACGCCGCTATATAACATGACCTTTAGCAGCATT
1 AACATGACCTTTAACGGCGCTTTT-CTAACAAACGCCGCTATAGAACATGACCTTTAGCAGCACT
*
57769766 TTTCCCAAAAACGCCGCT
65 TTTCCCAAAAACACCGCT
57769784 GAAGACCATA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 66 0.97
86 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (85 bp):
AACATGACCTTTAACGGCGCTTTTCTAACAAACGCCGCTATAGAACATGACCTTTAGCAGCACTT
TTCCCAAAAACACCGCTATA
Found at i:57777264 original size:27 final size:26
Alignment explanation
Indices: 57777228--57777396 Score: 185
Period size: 27 Copynumber: 6.2 Consensus size: 26
57777218 AGCATGGCTG
* *
57777228 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
57777254 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
57777282 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
57777309 CCAGATCAGATATTAATCGTGGCAGAGCCA
1 CCAGAACAG--A-TAAT-GTGGCAGAGCCA
*
57777339 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
57777366 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
57777393 CCAG
1 CCAG
57777397 GACGCTTCCT
Statistics
Matches: 124, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.04
27 75 0.60
28 20 0.16
29 3 0.02
30 21 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:57777339 original size:57 final size:57
Alignment explanation
Indices: 57777228--57777396 Score: 244
Period size: 57 Copynumber: 3.1 Consensus size: 57
57777218 AGCATGGCTG
* * *
57777228 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAG--A-TAATCGTGGCAGAGCCA
1 CCAGAATAGATATATGTGGCAGAGCCACCAGAT-CAGATATTAATCGTGGCAGAGCCA
57777282 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTAATCGTGGCAGAGCCA
1 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTAATCGTGGCAGAGCCA
*
57777339 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATT--T-GTGGCATAGCCA
1 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTAATCGTGGCAGAGCCA
57777393 CCAG
1 CCAG
57777397 GACGCTTCCT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
54 29 0.27
55 19 0.18
56 1 0.01
57 58 0.54
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (57 bp):
CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTAATCGTGGCAGAGCCA
Found at i:57777366 original size:84 final size:84
Alignment explanation
Indices: 57777238--57777396 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 84
57777228 CCAGAACAGA
*
57777238 TAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAT-AGATATATGTGGC
1 TAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG-ATCAGATATATGTGGC
57777302 AGAGCCACCAGATCAGATAT
65 AGAGCCACCAGATCAGATAT
* * *
57777322 TAATCGTGGCAGAGCCACCAGA-ATAGATATAT-GTGGCAGAGCCACCAGATCAGATATTTGTGG
1 TAAT-GTGACAGAGCCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGATCAGATATATGTGG
*
57777385 CATAGCCACCAG
64 CAGAGCCACCAG
57777397 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 48 0.72
85 17 0.25
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (84 bp):
TAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGATCAGATATATGTGGCA
GAGCCACCAGATCAGATAT
Found at i:57779013 original size:26 final size:26
Alignment explanation
Indices: 57778977--57779084 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
57778967 TGAAATGCTC
*
57778977 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
57779003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
57779029 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
57779055 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57779081 ATCA
1 ATCA
57779085 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57784532 original size:27 final size:27
Alignment explanation
Indices: 57784502--57784590 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
57784492 CGTAAACAGA
*
57784502 TGATTGGCAAACTGTATCATGAATAGG
1 TGATTGGCAGACTGTATCATGAATAGG
* * * **
57784529 TGATTAGCAGATTGTCTCACAAATAGG
1 TGATTGGCAGACTGTATCATGAATAGG
* * *
57784556 TGACTGACAGACTATATCATGAATAGG
1 TGATTGGCAGACTGTATCATGAATAGG
*
57784583 TAATTGGC
1 TGATTGGC
57784591 GGGCTATATC
Statistics
Matches: 45, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (27 bp):
TGATTGGCAGACTGTATCATGAATAGG
Found at i:57787422 original size:10 final size:10
Alignment explanation
Indices: 57787395--57787434 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
57787385 AAAAGTACAA
57787395 AAAAATAAAAT
1 AAAAA-AAAAT
57787406 ACGAAAAAAAAT
1 A--AAAAAAAAT
57787418 AAAAAAAAAT
1 AAAAAAAAAT
57787428 AAAAAAA
1 AAAAAAA
57787435 TTCTGTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 16 0.59
11 1 0.04
12 6 0.22
13 4 0.15
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:57792129 original size:66 final size:67
Alignment explanation
Indices: 57792023--57792160 Score: 215
Period size: 66 Copynumber: 2.1 Consensus size: 67
57792013 CATTGCTATC
* ** * *
57792023 AACAAGAAACTGTGATGGAACACGAATAGCGCCTAAAAC-AAACCTAGCAAGTTACAGCCTTCAA
1 AACAAGAAACTATGACAGAACACGAATAGCACCTAAAACAAAACCTAGCAAGTTACAACCTTCAA
57792087 GA
66 GA
*
57792089 AACAAGAAACTATGACAGAACACTAATAGCACCTAAAACAAAACCTAGCAAGTTACAACCTTCAA
1 AACAAGAAACTATGACAGAACACGAATAGCACCTAAAACAAAACCTAGCAAGTTACAACCTTCAA
57792154 GA
66 GA
57792156 AACAA
1 AACAA
57792161 CATTACCATC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
66 34 0.52
67 31 0.48
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (67 bp):
AACAAGAAACTATGACAGAACACGAATAGCACCTAAAACAAAACCTAGCAAGTTACAACCTTCAA
GA
Found at i:57808226 original size:25 final size:24
Alignment explanation
Indices: 57808168--57808226 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
57808158 AAATTCCAAT
*
57808168 AAATAAAAATATATAAAATTATTA
1 AAATAAAAATAAATAAAATTATTA
*
57808192 AATATTAAAATAAAATAAATATT-TTA
1 AA-ATAAAAAT-AAATAAA-ATTATTA
57808218 AAATAAAAA
1 AAATAAAAA
57808227 ATAATATGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 2 0.07
25 13 0.45
26 11 0.38
27 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAAAATAAATAAAATTATTA
Found at i:57808232 original size:20 final size:19
Alignment explanation
Indices: 57808196--57808233 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
57808186 TTATTAAATA
*
57808196 TTAAAATAAAATAAATATT
1 TTAAAATAAAAAAAATATT
57808215 TTAAAATAAAAAATAATAT
1 TTAAAATAAAAAA-AATAT
57808234 GGGCAGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAATAAAAAAAATATT
Found at i:57808263 original size:48 final size:48
Alignment explanation
Indices: 57808205--57808299 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
57808195 ATTAAAATAA
57808205 AATAAATATTTTAAAATAAAAAATAATATGGGCAGACCTAAAATGGGT
1 AATAAATATTTTAAAATAAAAAATAATATGGGCAGACCTAAAATGGGT
**
57808253 AATAAATATTTTAAAATAAAAAATAATATGGGTGGACCTAAAATGGG
1 AATAAATATTTTAAAATAAAAAATAATATGGGCAGACCTAAAATGGG
57808300 CTTAGGTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (48 bp):
AATAAATATTTTAAAATAAAAAATAATATGGGCAGACCTAAAATGGGT
Found at i:57812139 original size:14 final size:14
Alignment explanation
Indices: 57812122--57812148 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57812112 AAATGTTTTT
57812122 TGGAAAATAATTTC
1 TGGAAAATAATTTC
57812136 TGGAAAATAATTT
1 TGGAAAATAATTT
57812149 ACTTTTCTGG
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:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
TGGAAAATAATTTC
Found at i:57812256 original size:18 final size:18
Alignment explanation
Indices: 57812235--57812270 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57812225 AAAAGTTATT
57812235 TTTACATATATTAATAAA
1 TTTACATATATTAATAAA
*
57812253 TTTATATATATTAATAAA
1 TTTACATATATTAATAAA
57812271 ATTATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTACATATATTAATAAA
Found at i:57812261 original size:16 final size:18
Alignment explanation
Indices: 57812240--57812282 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
57812230 TTATTTTTAC
*
57812240 ATATATTAATAAATTTAT
1 ATATATTAATAAATATAT
57812258 ATATATTAATAAA-AT-T
1 ATATATTAATAAATATAT
*
57812274 ATATTTTAA
1 ATATATTAA
57812283 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATATTAATAAATATAT
Found at i:57812275 original size:18 final size:18
Alignment explanation
Indices: 57812240--57812277 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57812230 TTATTTTTAC
*
57812240 ATATATTAATAAATTTAT
1 ATATATTAATAAAATTAT
57812258 ATATATTAATAAAATTAT
1 ATATATTAATAAAATTAT
57812276 AT
1 AT
57812278 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATTAATAAAATTAT
Found at i:57818673 original size:18 final size:18
Alignment explanation
Indices: 57818647--57818681 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57818637 AATGTGTACT
*
57818647 AAATTACATAATATATAA
1 AAATAACATAATATATAA
57818665 AAATAACATAATATATA
1 AAATAACATAATATATA
57818682 GTATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:57823548 original size:93 final size:95
Alignment explanation
Indices: 57823314--57823572 Score: 266
Period size: 93 Copynumber: 2.8 Consensus size: 95
57823304 CGATGCCATA
* * * *
57823314 TCCCAGACATGGTCTTACTCTGACTCAT-ATCTCAA-GTCGATGCCATGTCCCAGATATGGTCTT
1 TCCCAGACATGCTCTCACACTGACT-ATCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTT
* *
57823377 ACATTGGCTCATATCTCAAGTCGATTCCATG
65 ACATTGGCTCACATCTCAAGTCGATTACATG
* * *
57823408 TCCCATACATGCTCTCACACTGACTATCATCTC-GTAGCCGATG-CATGTCCCAGACAT-GTCTT
1 TCCCAGACATGCTCTCACACTGACTATCATCTCAAT-GTCGATGCCATGTCCCAGACATGGTCTT
* * * *
57823470 ACACTGGCTTACGTCTCGAGGTCGA-TACATG
65 ACATTGGCTCACATCTC-AAGTCGATTACATG
* * * *
57823501 TCCCAGACATG-TTTTACACT-AGCTCTCGTCTCAATGTCGATGCCATGTCCCAGACATGGTC-T
1 TCCCAGACATGCTCTCACACTGA-CTATCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTT
57823563 ACATTGGCTC
65 ACATTGGCTC
57823573 TCATAATATG
Statistics
Matches: 135, Mismatches: 22, Indels: 17
0.78 0.13 0.10
Matches are distributed among these distances:
91 1 0.01
92 21 0.16
93 59 0.44
94 48 0.36
95 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (95 bp):
TCCCAGACATGCTCTCACACTGACTATCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTA
CATTGGCTCACATCTCAAGTCGATTACATG
Found at i:57823573 original size:47 final size:48
Alignment explanation
Indices: 57823301--57823618 Score: 252
Period size: 47 Copynumber: 6.8 Consensus size: 48
57823291 GTGGGTAAGG
* * *
57823301 TGTCGATGCCATATCCCAGACATGGTCTTACTCTGACTCAT-ATCTCAA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCAA
* *
57823349 -GTCGATGCCATGTCCCAGATATGGTCTTACATTGGCTCAT-ATCTCAA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCAA
* * * * * * *
57823396 -GTCGATTCCATGTCCCATACATGCTCTCACACTGACTATCATCTC-G
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA
* * *
57823442 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGA
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAA
* * * * *
57823489 GGTCGAT-ACATGTCCCAGACAT-GTTTTACACTAGCTCTCGTCTCAA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA
* *
57823535 TGTCGATGCCATGTCCCAGACATGGTC-TACATTGGCTCTCA--TAATA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-A
* * *
57823581 TGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTC
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
57823619 ACAAACAAAT
Statistics
Matches: 220, Mismatches: 38, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
45 6 0.03
46 85 0.39
47 122 0.55
48 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA
Found at i:57831825 original size:12 final size:12
Alignment explanation
Indices: 57831808--57831833 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57831798 AAAACAGGTC
57831808 TTTAGCGGCGTT
1 TTTAGCGGCGTT
57831820 TTTAGCGGCGTT
1 TTTAGCGGCGTT
57831832 TT
1 TT
57831834 CTCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:57831965 original size:41 final size:41
Alignment explanation
Indices: 57831888--57832148 Score: 353
Period size: 41 Copynumber: 6.4 Consensus size: 41
57831878 CGTTTTACCA
** * * *
57831888 AAAACGCCGCT-AAAAGCAGAGCAATAGTGGCTCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
57831928 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* * * *
57831969 AAAACGTCGTTAAAAATTAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* * ** * * *
57832010 ATAGCGCCGCTAAAAATCGGAGTATTTGGGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
57832051 AAAACGCCGCTAAAAATAAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
57832092 AAAACACCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
57832133 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
57832149 GTTTAGGGTT
Statistics
Matches: 190, Mismatches: 30, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
40 11 0.06
41 179 0.94
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
Found at i:57832264 original size:7 final size:7
Alignment explanation
Indices: 57832254--57832280 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57832244 TATGATTTAA
57832254 GGGTTAG
1 GGGTTAG
57832261 GGGTTAG
1 GGGTTAG
57832268 GGGTTAG
1 GGGTTAG
57832275 GGGTTA
1 GGGTTA
57832281 ATACTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:57832528 original size:21 final size:21
Alignment explanation
Indices: 57832502--57832545 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
57832492 TTATGGTTAG
* *
57832502 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
57832523 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
57832544 GG
1 GG
57832546 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:57832886 original size:26 final size:26
Alignment explanation
Indices: 57832857--57832909 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
57832847 AATTTCCCCG
*
57832857 ATTTCCCCCAACTTCTTCTCCCTCAA
1 ATTTCCCCCAACTTCTTCTCCCCCAA
57832883 ATTTCCCCCAACTTCTTCTCCCCCAA
1 ATTTCCCCCAACTTCTTCTCCCCCAA
57832909 A
1 A
57832910 ATTTTTACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.47, G:0.00, T:0.32
Consensus pattern (26 bp):
ATTTCCCCCAACTTCTTCTCCCCCAA
Found at i:57832906 original size:15 final size:15
Alignment explanation
Indices: 57832860--57832908 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
57832850 TTCCCCGATT
57832860 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
* *
57832875 TCCCTCAA---ATT-
1 TCCCCCAACTTCTTC
57832886 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
57832901 TCCCCCAA
1 TCCCCCAA
57832909 AATTTTTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 7 0.27
12 2 0.08
14 2 0.08
15 15 0.58
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (15 bp):
TCCCCCAACTTCTTC
Found at i:57836139 original size:183 final size:183
Alignment explanation
Indices: 57835831--57836382 Score: 1014
Period size: 183 Copynumber: 3.0 Consensus size: 183
57835821 GATATAGTTC
* * * *
57835831 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
* *
57835896 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTATTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
57835961 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
*
57836014 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCTGTTACTGATTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
*
57836079 ACTATTGGTTCAACTGAAGCTTCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
57836144 GTTTTTATATTTGCTTGAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
57836197 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
57836262 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
57836327 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
57836380 CAT
1 CAT
57836383 CTGTTCTAGG
Statistics
Matches: 356, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 356 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (183 bp):
CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:57836603 original size:15 final size:15
Alignment explanation
Indices: 57836583--57836611 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57836573 GGAGTAGACC
57836583 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
57836598 AGGTACGTTTTATT
1 AGGTACGTTTTATT
57836612 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:57837803 original size:275 final size:275
Alignment explanation
Indices: 57836873--57838250 Score: 2681
Period size: 274 Copynumber: 5.0 Consensus size: 275
57836863 CCAACCTTAT
57836873 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
57836938 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGGATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57837003 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
57837068 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTA-TTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
57837132 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
57837147 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
57837212 GCAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57837277 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
57837342 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTC-AATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
57837406 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
57837421 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57837486 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57837551 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
57837616 AAAATTAAACTACGATTC-TTTTTTATTATTATTATATTCAAATTACTATTTTTTTATATTAATA
196 AAAATTAAACTACGATTCTTTTTTTA-TATTATTATATTCAAATTACTATTTTTTTATATTAATA
57837680 ATGTTTGATTTTAATA
260 ATGTTTGATTTTAATA
57837696 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57837761 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57837826 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
*
57837891 AAAATTAAACTACAATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTTATATTAATA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTA-TTTTTTTATATTAATA
57837956 ATGTTTGATTTTAATA
260 ATGTTTGATTTTAATA
57837972 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57838037 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57838102 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
*
57838167 AAAATTAAACTACAATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
57838232 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
57838247 TTTA
1 TTTA
57838251 CGATTCTTTT
Statistics
Matches: 1095, Mismatches: 4, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
273 15 0.01
274 488 0.45
275 310 0.28
276 282 0.26
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (275 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
TGTTTGATTTTAATA
Found at i:57838207 original size:551 final size:549
Alignment explanation
Indices: 57836873--57838250 Score: 2679
Period size: 551 Copynumber: 2.5 Consensus size: 549
57836863 CCAACCTTAT
57836873 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
57836938 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGGATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57837003 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
57837068 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTA-TTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
57837132 TGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTT
261 TGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTT
*
57837197 GCCTTATATCGAGCTGCAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAA
326 GCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAA
57837262 TCTTAAAAAATTCAAAAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATT
391 TCTTAAAAAATTCAAAAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATT
*
57837327 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAATTACTATTT
456 TCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTATATTATTATATTCAATTACTATTT
57837392 TTTTATATTAATAATGTTTGATTTTAATA
521 TTTTATATTAATAATGTTTGATTTTAATA
57837421 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57837486 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57837551 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
57837616 AAAATTAAACTACGATTC-TTTTTTATTATTATTATATTCAAATTACTATTTTTTTATATTAATA
196 AAAATTAAACTACGATTCTTTTTTTA-TATTATTATATTCAAATTACTATTTTTTTATATTAATA
57837680 ATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGT
260 ATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGT
57837745 TGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGA
325 TGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGA
57837810 ATCTTAAAAAATTCAAAAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTAT
390 ATCTTAAAAAATTCAAAAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTAT
57837875 TTCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTATATTATTATATTCAAATTACTAT
455 TTCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTATATTATTATATTC-AATTACTA-
57837940 TTTTTTTATATTAATAATGTTTGATTTTAATA
518 TTTTTTTATATTAATAATGTTTGATTTTAATA
57837972 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57838037 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57838102 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
*
57838167 AAAATTAAACTACAATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
57838232 TGTTTGATTTTAATATTTA
261 TGTTTGATTTTAATATTTA
57838251 CGATTCTTTT
Statistics
Matches: 821, Mismatches: 4, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
547 7 0.01
548 234 0.29
549 263 0.32
550 8 0.01
551 302 0.37
552 7 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (549 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
TGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTT
GCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAA
TCTTAAAAAATTCAAAAAGACTTGAAAATAGTTCTATCGAGCTCATTTACTATTGAATATTTATT
TCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTATATTATTATATTCAATTACTATTT
TTTTATATTAATAATGTTTGATTTTAATA
Found at i:57838336 original size:70 final size:72
Alignment explanation
Indices: 57838181--57838339 Score: 277
Period size: 72 Copynumber: 2.2 Consensus size: 72
57838171 TTAAACTACA
57838181 ATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAAT
1 ATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAAT
57838246 ATTTACG
66 ATTTACG
* **
57838253 ATTCTTTTTTTATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATTTTTGATTTTTTT
1 ATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAAT
57838317 A-TTACG
66 ATTTACG
57838323 ATTCTTTTTTTATATTA
1 ATTCTTTTTTTATATTA
57838340 ATATGTACTT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
70 22 0.26
71 28 0.33
72 34 0.40
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (72 bp):
ATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAAT
ATTTACG
Found at i:57838485 original size:15 final size:15
Alignment explanation
Indices: 57838467--57838496 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57838457 ATAATTTTTA
57838467 TAAATATTATTTAAT
1 TAAATATTATTTAAT
57838482 TAAATATTATTTAAT
1 TAAATATTATTTAAT
57838497 CCTGCTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATATTATTTAAT
Found at i:57838641 original size:9 final size:9
Alignment explanation
Indices: 57838601--57838790 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
57838591 TATTTGATAT
*
57838601 CATAATTTA
1 CATAACTTA
*
57838610 TATAACTTA
1 CATAACTTA
* *
57838619 CAAAACGTA
1 CATAACTTA
57838628 CATAACTTA
1 CATAACTTA
*
57838637 TATAACTTA
1 CATAACTTA
* *
57838646 GATAA-ATA
1 CATAACTTA
*
57838654 TATAACTTA
1 CATAACTTA
57838663 CATAACTTA
1 CATAACTTA
57838672 CATAATACTTA
1 CAT-A-ACTTA
* *
57838683 AATATATTTTATA
1 CATA-A--CT-TA
*
57838696 TCATAATTTA
1 -CATAACTTA
57838706 CATAACTTA
1 CATAACTTA
57838715 CATAACTTA
1 CATAACTTA
*
57838724 TATAACTTA
1 CATAACTTA
* *
57838733 GATAA-ATA
1 CATAACTTA
* *
57838741 TATAATTTA
1 CATAACTTA
*
57838750 CATAA-ATA
1 CATAACTTA
* * *
57838758 TATATCATA
1 CATAACTTA
57838767 TCATAACTTA
1 -CATAACTTA
57838777 CATAACTTA
1 CATAACTTA
57838786 CATAA
1 CATAA
57838791 TACTTAAATA
Statistics
Matches: 142, Mismatches: 29, Indels: 20
0.74 0.15 0.10
Matches are distributed among these distances:
8 17 0.12
9 97 0.68
10 12 0.08
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:57838657 original size:17 final size:17
Alignment explanation
Indices: 57838635--57838790 Score: 93
Period size: 17 Copynumber: 8.9 Consensus size: 17
57838625 GTACATAACT
*
57838635 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
57838652 TATATAACTTACATAACT
1 TATATAACTTACATAA-A
* *
57838670 TACATAA--TACTTAAA
1 TATATAACTTACATAAA
** *
57838685 TATAT-TTTATATCATAATT
1 TATATAACT-TA-CATAA-A
* *
57838704 TACATAACTTACATAACT
1 TATATAACTTACATAA-A
*
57838722 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
57838739 TATATAATTTACATAAA
1 TATATAACTTACATAAA
* * *
57838756 TATATATCATATCATAACT
1 TATATAACTTA-CATAA-A
*
57838775 TACATAACTTACATAA
1 TATATAACTTACATAA
57838791 TACTTAAATA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 40 0.38
18 40 0.38
19 14 0.13
20 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:57838772 original size:96 final size:96
Alignment explanation
Indices: 57838574--57838781 Score: 231
Period size: 96 Copynumber: 2.1 Consensus size: 96
57838564 ATAAAAAACT
* *
57838574 TACATAATACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAACTTATA
1 TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
* * * *
57838639 TAACTTAGATAAATATATAACTTACATAACT
66 TAACATAGATAAATACATAACATACATAACA
* * * * *
57838670 TACATAATACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTATATAACTTAGA
1 TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
* * * *
57838735 TAA-ATATATAATTTACATAA-ATATATATCA
66 TAACATAGATAA-ATACATAACATACATAACA
57838765 TATCATAACTTACATAA
1 TA-CATAA--TACATAA
57838782 CTTACATAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
95 14 0.15
96 72 0.78
98 6 0.07
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (96 bp):
TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
TAACATAGATAAATACATAACATACATAACA
Found at i:57844353 original size:39 final size:40
Alignment explanation
Indices: 57844253--57844437 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
57844243 TCGAATGATG
* * *
57844253 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
57844292 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
57844333 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57844372 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57844411 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57844438 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57844459 original size:79 final size:79
Alignment explanation
Indices: 57844306--57844470 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
57844296 GGACTAAGAT
* * **
57844306 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
57844371 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57844385 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
57844448 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57844464 CCGAAGG
1 CCGAAGG
57844471 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57852526 original size:39 final size:40
Alignment explanation
Indices: 57852336--57852519 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
57852326 TCGAATGATG
* * * *
57852336 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
57852376 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57852416 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57852455 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57852496 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57852520 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 54 0.44
40 60 0.48
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57852526 original size:79 final size:78
Alignment explanation
Indices: 57852389--57852552 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 78
57852379 GGACTAAGAT
* * **
57852389 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATACTCGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
57852453 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
57852468 CCGAAGGCATTTGTGCGAGTTACT-ATAAC-CGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACTCGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
57852531 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
57852546 CCGAAGG
1 CCGAAGG
57852553 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 24 0.33
79 49 0.67
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACTCGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:57852550 original size:39 final size:39
Alignment explanation
Indices: 57852343--57852552 Score: 187
Period size: 39 Copynumber: 5.3 Consensus size: 39
57852333 ATGTCCGGGC
* * * *
57852343 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGG-T
* *
57852383 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCTGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TC-CGGT
* *
57852423 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGT
* *
57852462 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGT
* **
57852501 TATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGT
* *
57852540 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
57852553 TACGTGATTC
Statistics
Matches: 142, Mismatches: 19, Indels: 19
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.01
39 76 0.54
40 54 0.38
41 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGT
Found at i:57856123 original size:31 final size:31
Alignment explanation
Indices: 57856077--57856143 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
57856067 TGGTTGTATT
* *
57856077 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
57856108 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
57856139 TTTTA
1 TTTTA
57856144 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:57856702 original size:55 final size:56
Alignment explanation
Indices: 57856637--57856751 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
57856627 AGCACGGCTG
* * *
57856637 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
57856693 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
57856748 CCAG
1 CCAG
57856752 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:57856748 original size:28 final size:27
Alignment explanation
Indices: 57856662--57856751 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
57856652 GTGACAGAGT
*
57856662 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
57856691 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
57856718 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
57856746 CACCAG
1 CACCAG
57856752 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:57856904 original size:28 final size:28
Alignment explanation
Indices: 57856857--57856921 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
57856847 AAATTAACCC
*
57856857 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
57856885 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
57856913 TAGGGGTAT
1 TAGGGGTAT
57856922 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:57858005 original size:12 final size:13
Alignment explanation
Indices: 57857986--57858018 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
57857976 GGGTTCGGCT
57857986 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
57857999 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
57858011 ATGGAGAA
1 ATGGAGAA
57858019 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:57858707 original size:46 final size:47
Alignment explanation
Indices: 57858624--57858838 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 47
57858614 AAGTCGATTC
* *
57858624 CATGTCCTAGACATGGTCTTACACT-GAC-TATCATCTCGTGGCCAACG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTATCATCTCGAGGCCAACG
* * * *
57858671 CTTGTCCCAGACATGTCTTACACTAGCTTA-CGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCATCTCGAGGCCAACG
* * * *** ***
57858717 CATGTCCCAAACATGTCTTACACTAGC-TCTCATCTCAATATCGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCATCTCGAGGCCAACG
* * * * *
57858763 CCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTTATCAT-CTCGAGGCCAACG
57858811 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
57858839 CACAAACAAA
Statistics
Matches: 135, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 70 0.52
47 42 0.31
48 21 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATCATCTCGAGGCCAACG
Found at i:57868004 original size:20 final size:20
Alignment explanation
Indices: 57867966--57868004 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57867956 CATATCAATC
*
57867966 ACATATAAGCATATATAGTT
1 ACATATAAGCACATATAGTT
* *
57867986 ACATATAATCACATTTAGT
1 ACATATAAGCACATATAGT
57868005 CATAGTGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (20 bp):
ACATATAAGCACATATAGTT
Found at i:57870850 original size:14 final size:14
Alignment explanation
Indices: 57870831--57870870 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57870821 TTGATTGCCA
57870831 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
57870845 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
57870859 GGAAAATGTTTT
1 GTAAAATGTTTT
57870871 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:57870879 original size:20 final size:20
Alignment explanation
Indices: 57870854--57870892 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57870844 CGTAAAATGA
*
57870854 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
57870874 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
57870893 CAGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:57878230 original size:9 final size:10
Alignment explanation
Indices: 57878204--57878244 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
57878194 CAATTAAGGT
57878204 TAGTTAATTA
1 TAGTTAATTA
57878214 TAGTTAATTA
1 TAGTTAATTA
*
57878224 -GGTTAATTA
1 TAGTTAATTA
*
57878233 TAATTAATTA
1 TAGTTAATTA
57878243 TA
1 TA
57878245 AATTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (10 bp):
TAGTTAATTA
Found at i:57878230 original size:19 final size:19
Alignment explanation
Indices: 57878181--57878242 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
57878171 ATGCTCACTA
*
57878181 AATT-GGTTAATTACAATT
1 AATTAGGTTAATTATAATT
*
57878199 AAGGTTA-GTTAATTATAGTT
1 AA--TTAGGTTAATTATAATT
57878219 AATTAGGTTAATTATAATT
1 AATTAGGTTAATTATAATT
57878238 AATTA
1 AATTA
57878243 TAAATTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.14
19 17 0.46
20 15 0.41
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:57879025 original size:12 final size:11
Alignment explanation
Indices: 57878997--57879029 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
57878987 GGGACCTAAT
57878997 TGTAAAATG-G
1 TGTAAAATGTG
57879007 TGTAAAATGTG
1 TGTAAAATGTG
57879018 TGGTAAAATGTG
1 T-GTAAAATGTG
57879030 AATAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:57882126 original size:48 final size:48
Alignment explanation
Indices: 57882041--57882315 Score: 290
Period size: 48 Copynumber: 5.7 Consensus size: 48
57882031 TAAAGTACTA
* * *
57882041 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAACGCTG
* * * * *
57882089 ATGCCATTTCCCTGACATGGTCTTACACTGGCACACATATAAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
* *
57882137 ATGCCATGTCCCAAACATGGTCTTACATTGGCACACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
* ** *
57882185 ATGCCAAGTCTTAGACATGGTCTTACACTGGCACACTTATCAACG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCT-G
* * **
57882233 ATGCCATGTCCCAG--ATCGAGTCTTACACAGGCACACATATCAATGCCA
1 ATGCCATGTCCCAGACAT-G-GTCTTACACTGGCACACATATCAACGCTG
* *
57882281 ATGCCATGTCCCAGGCATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACA
57882316 TTTAGCACGG
Statistics
Matches: 191, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 181 0.95
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTG
Found at i:57889757 original size:47 final size:48
Alignment explanation
Indices: 57889580--57889893 Score: 438
Period size: 48 Copynumber: 6.6 Consensus size: 48
57889570 GCCATATACA
* * *
57889580 ATGCCATGTCCCAGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAACGCCG
*
57889628 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACAAATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
*
57889676 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* **
57889724 ATGCCATG-CCTAGACATGGTCTTACACTGGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* *
57889771 ATGCCATG-CCTAGACATGGTCTTACACTGGTACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
* * * * *
57889818 ATGCCATATCCCAAACAGGGTCTTACACAGGCACACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
*
57889866 ATGCCATGTCCCATACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
57889894 CAGTACATTT
Statistics
Matches: 242, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 88 0.36
48 151 0.62
49 1 0.00
50 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCG
Found at i:57893558 original size:26 final size:25
Alignment explanation
Indices: 57893510--57893560 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
57893500 TAACTCATAA
57893510 ATTTCACATTTCACAAATTAGTCCCC
1 ATTTCACATTTCACAAA-TAGTCCCC
57893536 ATTTCACATTTTCATCAAA-AGTCCC
1 ATTTCACA-TTTCA-CAAATAGTCCC
57893561 TTAACAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCC
Found at i:57900284 original size:101 final size:99
Alignment explanation
Indices: 57900106--57900289 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 99
57900096 GTACGCATAG
* * *
57900106 TAGCCTGCACTTAGTACTACACATGCGATCAACAGTTTGGTACACGTAGTAGCTTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACACGCGATCAACAGTTTGGTACACATAGTAGCCTGCACTTAGTA
57900171 CTACACACGTGACCTCACCATCTAATACACGTAA
66 CTACACACGTGACCTCACCATCTAATACACGTAA
* *
57900205 TAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCAGGTACGCATAGTAGCCTGCACTTA
1 TAGCCTGCACTTAGTACTACACACGCGATCAACAG-TTT--GGTACACATAGTAGCCTGCACTTA
*
57900269 GTACTACACATGTGACCTCAC
63 GTACTACACACGTGACCTCAC
57900290 AATAGATCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
98 4 0.05
99 31 0.41
101 41 0.54
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACACGCGATCAACAGTTTGGTACACATAGTAGCCTGCACTTAGTA
CTACACACGTGACCTCACCATCTAATACACGTAA
Found at i:57902472 original size:15 final size:15
Alignment explanation
Indices: 57902416--57902480 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
57902406 TAAAGATAAC
*
57902416 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
57902430 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
57902445 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
57902460 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
57902475 AAGAAA
1 AAGAAA
57902481 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:57902482 original size:30 final size:31
Alignment explanation
Indices: 57902416--57902484 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
57902406 TAAAGATAAC
*
57902416 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
57902446 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
57902475 AAGAAACCCA
1 AAGAAACCCA
57902485 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:57905558 original size:49 final size:49
Alignment explanation
Indices: 57905486--57905679 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
57905476 GCCGAAGCTA
* *
57905486 TCTGGTACACATAGTAGCCTGCACTTAGTACTACCCATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
57905535 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGAC--CAACAG
* ** ** * * *
57905585 TTTAATACATGTAGTAGCCTACACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
57905633 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
57905680 TCACAATAGA
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 40 0.34
50 36 0.31
51 37 0.32
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:57911480 original size:40 final size:40
Alignment explanation
Indices: 57911425--57911582 Score: 289
Period size: 40 Copynumber: 4.0 Consensus size: 40
57911415 AAAAAAAAAA
*
57911425 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
57911465 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
57911505 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
57911545 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
57911583 GTTACATCCG
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:57911606 original size:80 final size:80
Alignment explanation
Indices: 57911440--57911608 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 80
57911430 CCGGGTTAAG
57911440 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * ** *
57911505 TATAACCGGGTTAAG
66 TACAACCGAGCCAAA
* * * *
57911520 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
57911585 TACATCCGAGCCAAA
66 TACAACCGAGCCAAA
*
57911600 TTCCGAAGG
1 TCCCGAAGG
57911609 TATTTATGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
TACAACCGAGCCAAA
Found at i:57913663 original size:21 final size:21
Alignment explanation
Indices: 57913626--57913685 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
57913616 TCCCTAAAAT
*
57913626 AGGGCAAC-CGCCTGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
57913646 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
57913667 AGGGCAGCACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
57913686 ACCAACTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 8 0.22
21 29 0.78
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:57914891 original size:47 final size:47
Alignment explanation
Indices: 57914822--57915043 Score: 188
Period size: 47 Copynumber: 4.7 Consensus size: 47
57914812 GGTAAGGTGC
* *
57914822 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTATATCTC-AAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAAGT
* * *
57914869 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATTATCTCGTAG-
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAAGT
* * * * *
57914916 CTAATG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCCCGAGGT
1 C-GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGT
* * * * *
57914963 CGATG-CATGTCCTAGACATGTCTTACACTAGCTCT-CGTCT-TAATGA
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GT
*
57915009 AGATGCCATGTCCCAGACATCGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT
57915044 CTCATAATTT
Statistics
Matches: 144, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 56 0.39
47 69 0.48
48 18 0.12
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGT
Found at i:57915080 original size:140 final size:141
Alignment explanation
Indices: 57914822--57915085 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 141
57914812 GGTAAGGTGC
* * **
57914822 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTATATCTCAAGTCGATGCCATGTCCCAGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTACATCTCAAGAAGATGCCATGTCCCAGAC
* * * *
57914887 ATGGTCTTACACTGACTATTATCTCGTAGCTAATGCATGTCCCAAACATGTCTTACACTGGCTTA
66 ATCGTCTTACACTGACTATCATATCGTAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTA
57914952 CGTCCCGAGGT
131 CGTCCCGAGGT
* *
57914963 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCT-CGTCTTAATGAAGATGCCATGTCCCAG
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCT-TACATCTCAA-GAAGATGCCATGTCCCAG
* * * * * * *
57915025 ACATCGTCTTACACTGGCTCTCATAAT-TTGGCCGATGCATGTTCTAAACATGTCTTACACT
64 ACATCGTCTTACACTGACTATCAT-ATCGTAGCCAATGCATGTCCCAAACATGTCTTACACT
57915086 AGCTCACAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
139 18 0.17
140 79 0.77
141 6 0.06
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (141 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTACATCTCAAGAAGATGCCATGTCCCAGAC
ATCGTCTTACACTGACTATCATATCGTAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTA
CGTCCCGAGGT
Found at i:57916637 original size:20 final size:20
Alignment explanation
Indices: 57916601--57916639 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57916591 TCAAATAACC
*
57916601 AGTAGTTCATCCGTATAAAT
1 AGTAGTTCATCCATATAAAT
*
57916621 AGTAGTTCATCTATATAAA
1 AGTAGTTCATCCATATAAA
57916640 CACATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
AGTAGTTCATCCATATAAAT
Found at i:57916812 original size:24 final size:23
Alignment explanation
Indices: 57916785--57916841 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
57916775 GAGCCATGAT
57916785 CGGTAAGCTCT-TCTTGAACTGAAA
1 CGGTAAGCTCTATC--GAACTGAAA
* *
57916809 CGGTAAACTCTATCGAGCTGAAA
1 CGGTAAGCTCTATCGAACTGAAA
57916832 CGGTAAGCTC
1 CGGTAAGCTC
57916842 CAATGAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.59
24 10 0.34
25 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAACTGAAA
Found at i:57916849 original size:23 final size:24
Alignment explanation
Indices: 57916803--57916865 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
57916793 TCTTCTTGAA
* *
57916803 CTGAAACGGTAAACT-CTATCGAG
1 CTGAAACGGTAAGCTCCAATCGAG
57916826 CTGAAACGGTAAGCTCCAAT-GAG
1 CTGAAACGGTAAGCTCCAATCGAG
* *
57916849 CTAAAAACAGTAAGCTC
1 CT-GAAACGGTAAGCTC
57916866 TTACGAGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (24 bp):
CTGAAACGGTAAGCTCCAATCGAG
Found at i:57916873 original size:24 final size:26
Alignment explanation
Indices: 57916846--57916900 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
57916836 AAGCTCCAAT
*
57916846 GAGCTAA-A-AACAGTAAGCTCTTAC
1 GAGCTAATATAACAGTAAGCTCATAC
* *
57916870 GAGCTAATATATCTGTAAGCTCATAC
1 GAGCTAATATAACAGTAAGCTCATAC
57916896 GAGCT
1 GAGCT
57916901 GTGGTGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 1 0.04
26 18 0.69
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (26 bp):
GAGCTAATATAACAGTAAGCTCATAC
Found at i:57920263 original size:8 final size:8
Alignment explanation
Indices: 57920239--57920272 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
57920229 TATTTTATTA
57920239 TTTA-CAT
1 TTTACCAT
57920246 TTTAACCAT
1 TTT-ACCAT
57920255 TTTACCAT
1 TTTACCAT
57920263 TTTACCAT
1 TTTACCAT
57920271 TT
1 TT
57920273 AATAATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 3 0.12
8 16 0.64
9 6 0.24
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTACCAT
Found at i:57925512 original size:23 final size:23
Alignment explanation
Indices: 57925486--57925719 Score: 285
Period size: 23 Copynumber: 10.2 Consensus size: 23
57925476 GCTACATTTC
*
57925486 AGTGGTAGCTTCGACTACAATAT
1 AGTGGTAGCTTCGGCTACAATAT
* *
57925509 AGTGGTAGCTTTGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
* *
57925531 CAGTGGTAGCTTCAGCTACAATAC
1 -AGTGGTAGCTTCGGCTACAATAT
*
57925555 AGTGGTAGCTTCTGCTACAATAT
1 AGTGGTAGCTTCGGCTACAATAT
*
57925578 AGTGGTAGCTTCGGCTACAATAC
1 AGTGGTAGCTTCGGCTACAATAT
* *
57925601 AGTGGTAGCTTTGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
57925623 CAGTGGTAGCTTCGGCTACAATAT
1 -AGTGGTAGCTTCGGCTACAATAT
*
57925647 AGTGGTAGCTTCGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
**
57925669 CAGTGGTAGCTTCGGCTACGTTAT
1 -AGTGGTAGCTTCGGCTACAATAT
* * *
57925693 AGTGATAGCTTCGGCTATATTAT
1 AGTGGTAGCTTCGGCTACAATAT
57925716 AGTG
1 AGTG
57925720 TAGTACTTTG
Statistics
Matches: 183, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
22 8 0.04
23 168 0.92
24 7 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACAATAT
Found at i:57925542 original size:46 final size:46
Alignment explanation
Indices: 57925475--57925709 Score: 339
Period size: 46 Copynumber: 5.1 Consensus size: 46
57925465 GGAATCTATA
* *
57925475 GGCTACATTTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTT
* *
57925521 GGCTACATCTCAGTGGTAGCTTCAGCTACAATACAGTGGTAGCTTCT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTT-T
* *
57925568 -GCTACAATAT-AGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTT
1 GGCTAC-ATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTT
*
57925613 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTT
** * *
57925659 GGCTACATCTCAGTGGTAGCTTCGGCTACGTTATAGTGATAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTT
57925705 GGCTA
1 GGCTA
57925710 TATTATAGTG
Statistics
Matches: 173, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
45 4 0.02
46 165 0.95
47 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTT
Found at i:57925587 original size:69 final size:69
Alignment explanation
Indices: 57925475--57925719 Score: 323
Period size: 69 Copynumber: 3.6 Consensus size: 69
57925465 GGAATCTATA
* * * *
57925475 GGCTACATTTCAGTGGTAGCTTCGACTACAATATAGTGGTAGCTTTGGCTACATCTCAGTGGTAG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
57925540 CTTC
66 CTTC
* * *
57925544 AGCTACAATACAGTGGTAGCTTCTGCTACAATATAGTGGTAGCTTCGGCTACAAT-ACAGTGGTA
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTAC-ATCTCAGTGGTA
*
57925608 GCTTT
65 GCTTC
*
57925613 GGCTAC-ATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTA
1 GGCTACAAT-ACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTA
57925677 GCTTC
65 GCTTC
** * * * *
57925682 GGCTACGTTATAGTGATAGCTTCGGCTATATTATAGTG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTG
57925720 TAGTACTTTG
Statistics
Matches: 153, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
68 4 0.03
69 146 0.95
70 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (69 bp):
GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
CTTC
Found at i:57928550 original size:32 final size:32
Alignment explanation
Indices: 57928514--57928579 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
57928504 CAGAGACAAC
57928514 TATGATTGTTTGTTTTCTGATGAAAGTATCGT
1 TATGATTGTTTGTTTTCTGATGAAAGTATCGT
57928546 TATGATTGTTTGTTTTCTGATGAAAGTATCGT
1 TATGATTGTTTGTTTTCTGATGAAAGTATCGT
57928578 TA
1 TA
57928580 GTCTGATTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (32 bp):
TATGATTGTTTGTTTTCTGATGAAAGTATCGT
Found at i:57931916 original size:46 final size:46
Alignment explanation
Indices: 57931841--57932120 Score: 420
Period size: 46 Copynumber: 6.1 Consensus size: 46
57931831 GGAATCTATG
* * * *
57931841 GGCTACATTTCAGTGGTAGCTCCGGCTACAATATAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
*
57931887 GGCTACATCTCAGTGGTAGCTTCGTCTACAATACAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
* * *
57931933 GGCTAGAATAT-AGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTT
1 GGCTA-CATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
*
57931979 GGCTACATCTTAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
*
57932025 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
* *
57932071 GGCTACAAT-ACAGTGGTAGCTTTGGCTACAATACAGTGGTAGCTTC
1 GGCTAC-ATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
57932117 GGCT
1 GGCT
57932121 GCGTTATAGT
Statistics
Matches: 214, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 3 0.01
46 206 0.96
47 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
Found at i:57932131 original size:23 final size:23
Alignment explanation
Indices: 57931841--57932120 Score: 379
Period size: 23 Copynumber: 12.2 Consensus size: 23
57931831 GGAATCTATG
* * *
57931841 GGCTACATTTCAGTGGTAGCTCC
1 GGCTACAATACAGTGGTAGCTTC
* *
57931864 GGCTACAATATAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
*
57931887 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAAT-ACAGTGGTAGCTTC
*
57931910 GTCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* *
57931933 GGCTAGAATATAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
*
57931956 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
57931979 GGCTAC-AT-CTTAGTGGTAGCTTC
1 GGCTACAATAC--AGTGGTAGCTTC
57932002 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
*
57932025 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAAT-ACAGTGGTAGCTTC
*
57932048 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
*
57932071 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
57932094 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
57932117 GGCT
1 GGCT
57932121 GCGTTATAGT
Statistics
Matches: 228, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.00
22 6 0.03
23 214 0.94
24 6 0.03
25 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCTACAATACAGTGGTAGCTTC
Found at i:57933545 original size:40 final size:40
Alignment explanation
Indices: 57933474--57933648 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
57933464 ACCCAAGTAT
*
57933474 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
57933513 CTTCGGGTCCTAGCCCGGATACAGCAAGTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
57933553 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
57933593 CTTCGGGTCTTAGCCCAG-T-TATC-ATTTGATACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCG-CACAAATGC
57933631 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
57933649 TTATCATCTG
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
37 3 0.03
38 29 0.24
39 11 0.09
40 77 0.64
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:57941671 original size:40 final size:40
Alignment explanation
Indices: 57941613--57941694 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
57941603 CGGGATTTAG
*
57941613 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCCTAGC
1 CCGGATACAACAACTCGCACAAATGCCTTCGGGTCCTAGC
* * *
57941653 CCGGATACAGCAAGTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATACAACAACTCGCACAAATGCCTTCGGGTCCTAGC
57941693 CC
1 CC
57941695 AGTTATCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.20
Consensus pattern (40 bp):
CCGGATACAACAACTCGCACAAATGCCTTCGGGTCCTAGC
Found at i:57945489 original size:26 final size:26
Alignment explanation
Indices: 57945459--57945528 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
57945449 TTGTAGATTC
* *
57945459 TCTAAAGCCAGTGTTAGCAGCATCG-
1 TCTAAAGCTAGTGTTAGCAACATCGA
* * *
57945484 TACT-AAGCTAGTGATAGCAACCTTGA
1 T-CTAAAGCTAGTGTTAGCAACATCGA
57945510 TCTAAAGCTAGTGTTAGCA
1 TCTAAAGCTAGTGTTAGCA
57945529 CCCTGAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (26 bp):
TCTAAAGCTAGTGTTAGCAACATCGA
Found at i:57952697 original size:41 final size:42
Alignment explanation
Indices: 57952640--57952730 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
57952630 AGCTACAAGG
* *
57952640 GACACACAGTCGTGTCACCTGGCCGTGTGT-CACACGGTTGA
1 GACACACAGTCGTGTCACCCGGCCGTGTATACACACGGTTGA
*
57952681 GACACACAGTCGTGTCACCCGGTCGTGTATCACACACGGTTGA
1 GACACACAGTCGTGTCACCCGGCCGTGTAT-ACACACGGTTGA
57952724 GACACAC
1 GACACAC
57952731 GCTCATGTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 27 0.60
43 18 0.40
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (42 bp):
GACACACAGTCGTGTCACCCGGCCGTGTATACACACGGTTGA
Found at i:57953452 original size:24 final size:24
Alignment explanation
Indices: 57953382--57953441 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
57953372 CTGTCAGGAG
57953382 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
57953406 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
57953430 AGGATTTAGGAG
1 AGGATTTAGGAG
57953442 CAAATAAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:57954904 original size:27 final size:27
Alignment explanation
Indices: 57954864--57954975 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
57954854 AGGAAGCGTC
*
57954864 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
57954891 CTGGTGGCTTTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
57954918 ATGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
57954946 CTAGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
57954972 CTGG
1 CTGG
57954976 CAGTCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.67
28 16 0.23
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:57954970 original size:54 final size:54
Alignment explanation
Indices: 57954865--57954971 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
57954855 GGAAGCGTCC
* * * *
57954865 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATTTCTGTTA
1 TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTTA
* * *
57954919 TGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
57954972 CTGGCAGTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 29 0.64
55 16 0.36
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTTA
Found at i:57962196 original size:21 final size:22
Alignment explanation
Indices: 57962151--57962201 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
57962141 AGCAGGGCTC
**
57962151 ACACGCCCGTGTAGTCCTAGGG
1 ACACGCCCGTGTAACCCTAGGG
57962173 ACACGCCCGTGTAACCCT-GGG
1 ACACGCCCGTGTAACCCTAGGG
57962194 ACACGCCC
1 ACACGCCC
57962202 TTGTTACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTAACCCTAGGG
Found at i:57965294 original size:24 final size:24
Alignment explanation
Indices: 57965218--57965297 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
57965208 TCCTATAAAT
* *
57965218 GTATGCTCACACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTAT-AATCG
* **
57965243 GTATGCTCTCACGGGCTATACCCG
1 GTATGCTCTCACGAGCTATAATCG
*
57965267 GTATGCTCTCACGAGCTATAATCA
1 GTATGCTCTCACGAGCTATAATCG
57965291 GTATGCT
1 GTATGCT
57965298 TTCATGAGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 30 0.65
25 16 0.35
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTATAATCG
Found at i:57979215 original size:16 final size:16
Alignment explanation
Indices: 57979194--57979264 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
57979184 GTTTGGTTCA
*
57979194 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
57979210 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
57979226 CTGTAATGAAACAGAG
1 CTGTAATGGAATAGAG
57979242 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
57979258 CTGTAAT
1 CTGTAAT
57979265 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:57979337 original size:44 final size:46
Alignment explanation
Indices: 57979246--57979339 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 46
57979236 ACAGAGCTGT
*
57979246 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
* *
57979292 AATGGTATAGAACTGTAAT-AGT-ATTC-TTATGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
57979336 AATG
1 AATG
57979340 ATATTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 3 0.07
46 17 0.39
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:57979524 original size:58 final size:58
Alignment explanation
Indices: 57979445--57979568 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
57979435 TTTTAATAAG
* * *
57979445 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATCTAATCATATT-TTTACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAACAATCTAATAATATTCTTAACATA
* * * *
57979503 ATTATTATTAAATATAATTTAATAAAATAATATACAATTTAATAATATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAACAATCTAATAATATTCTTAACATA
57979561 ATTATTAT
1 ATTATTAT
57979569 ATGAATTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 22 0.38
58 36 0.62
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAACAATCTAATAATATTCTTAACATA
Found at i:57983389 original size:17 final size:18
Alignment explanation
Indices: 57983367--57983400 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57983357 TAACTAGACC
57983367 AATGATG-GGTTTGTTCA
1 AATGATGTGGTTTGTTCA
*
57983384 AATGATGTGTTTTGTTC
1 AATGATGTGGTTTGTTC
57983401 CATATGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (18 bp):
AATGATGTGGTTTGTTCA
Found at i:58001369 original size:93 final size:93
Alignment explanation
Indices: 58001257--58001428 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
58001247 CGCCCATAAG
* *
58001257 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58001322 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
58001350 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58001415 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
58001429 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58001425 original size:46 final size:46
Alignment explanation
Indices: 58001250--58001425 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
58001240 TGTAACCCGC
* * *
58001250 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
58001296 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
58001346 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
58001389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58001426 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58019325 original size:12 final size:12
Alignment explanation
Indices: 58019307--58019354 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
58019297 TTTTCTTTTC
58019307 TTTTATGTTTAT
1 TTTTATGTTTAT
* *
58019319 GTTTATGTCTAT
1 TTTTATGTTTAT
58019331 TTTTAGTTGTTTTAT
1 TTTTA--TG-TTTAT
58019346 TTTTATGTT
1 TTTTATGTT
58019355 CTTAGACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 16 0.55
13 2 0.07
14 2 0.07
15 9 0.31
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (12 bp):
TTTTATGTTTAT
Found at i:58021211 original size:30 final size:30
Alignment explanation
Indices: 58021176--58021263 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
58021166 CTGGGCATTT
*
58021176 CCACACGAGCTGGACACATGCACTTGTGTG
1 CCACACGAGCTGGACACATGCCCTTGTGTG
* *
58021206 CCACACGGGTTGGACACATGCCCTTGTGTG
1 CCACACGAGCTGGACACATGCCCTTGTGTG
* *
58021236 CCACA-TAGGCTGCACACATGCCCTTGTG
1 CCACACGA-GCTGGACACATGCCCTTGTG
58021264 CCAACCCGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.20, C:0.32, G:0.26, T:0.22
Consensus pattern (30 bp):
CCACACGAGCTGGACACATGCCCTTGTGTG
Found at i:58021911 original size:26 final size:26
Alignment explanation
Indices: 58021875--58021927 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
58021865 GAAAGATATT
58021875 TCAAATAATCAAACTAGAGTCAGTTG
1 TCAAATAATCAAACTAGAGTCAGTTG
58021901 TCAAATAATCAAACTAGAGTCAGTTG
1 TCAAATAATCAAACTAGAGTCAGTTG
58021927 T
1 T
58021928 TCTTACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (26 bp):
TCAAATAATCAAACTAGAGTCAGTTG
Found at i:58023608 original size:27 final size:27
Alignment explanation
Indices: 58023550--58023607 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
58023540 ATGAATTTTC
*
58023550 TCAAAATTTTA-CTAGGGTTAAAATCT
1 TCAAAATTTTATCTAGGGGTAAAATCT
58023576 TCAAAATTTTATC-AGGGGTAAAAT-T
1 TCAAAATTTTATCTAGGGGTAAAATCT
58023601 GTCAAAA
1 -TCAAAA
58023608 AATTTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 1 0.03
26 27 0.93
27 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (27 bp):
TCAAAATTTTATCTAGGGGTAAAATCT
Found at i:58033859 original size:46 final size:45
Alignment explanation
Indices: 58033806--58034071 Score: 161
Period size: 46 Copynumber: 5.7 Consensus size: 45
58033796 TTGTGAGCTA
58033806 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-C-CATTA-GAGAGCCT
* * *
58033852 GTGTAAGACCATGTCTGTGACATGGCATCGG-CATTGACACGAGTGCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATT-AGA-GAG-CCT
* * * *
58033899 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCC-TCGAGACGTAAGTCA
1 -GTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-TAGA-G--AGCCT
* * * * * *
58033946 ATGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCATTAGA-GAGCCT
** * *
58033990 GCATAAGACCATGTATGGGACATGGCATCGGCACAGATATGCTAGAGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-CA-TTA-G--AGAGCCT
*
58034040 GTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
58034072 ACCTTACCCC
Statistics
Matches: 175, Mismatches: 27, Indels: 32
0.75 0.12 0.14
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 65 0.37
47 31 0.18
48 18 0.10
49 1 0.01
50 32 0.18
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCATTAGAGAGCCT
Found at i:58036776 original size:39 final size:38
Alignment explanation
Indices: 58036722--58036968 Score: 305
Period size: 39 Copynumber: 6.3 Consensus size: 38
58036712 CTGGACTTTA
* * *
58036722 AGCCCGGATATAATACCAGCACAAAGCCTGCGGGACTTT
1 AGCCCGGATATAACACCAGCACAATGCCTTCGGGAC-TT
* * * *
58036761 AGCCCGGATATAATACCAGCATAAAGCCTGCGGGACTTT
1 AGCCCGGATATAACACCAGCACAATGCCTTCGGGAC-TT
* *
58036800 AGCCCGGATATAACACCGGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCAC-AATGCCTTCGGGACTT
* * *
58036839 AACCCAGATATAACACCAGCATGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCA-CAATGCCTTCGGGACTT
58036878 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCAC-AATGCCTTCGGGACTT
* *
58036917 AGCCCAGATATAACACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCAC-AATGCCTTCGGGACTT
*
58036956 AGCCCGAATATAA
1 AGCCCGGATATAA
58036969 TTCTCCATTA
Statistics
Matches: 186, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 175 0.94
40 11 0.06
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (38 bp):
AGCCCGGATATAACACCAGCACAATGCCTTCGGGACTT
Found at i:58037494 original size:110 final size:110
Alignment explanation
Indices: 58037301--58037520 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
58037291 TGTGGATAGG
*
58037301 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCCCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
58037366 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
58037411 CTACTCGATTGCTTTCCCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCCCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
58037476 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
58037521 AATAGTCACA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTCCCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:58047425 original size:6 final size:6
Alignment explanation
Indices: 58047414--58047465 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
58047404 AGTCCAATTA
* *
58047414 TTTTAT TTTTAT TTTTAT TTTTAT TTTCAT GTTTAT TTTGT-T TTTCTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTT-TAT
58047463 TTT
1 TTT
58047466 GAACTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTAT
Done.