Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 6 of 16
Found at i:843669 original size:15 final size:15
Alignment explanation
Indices: 843632--843669 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
843622 ATAATAATTG
843632 AAATAA-AATATAAA
1 AAATAATAATATAAA
843646 ATAAT-ATAATATAAA
1 A-AATAATAATATAAA
843661 AAATAATAA
1 AAATAATAA
843670 AATTTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATAATATAAA
Found at i:847181 original size:33 final size:33
Alignment explanation
Indices: 847107--847182 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
847097 AAAAAATAAA
*
847107 TAAATAAAATTTTCAAGTTTCAAATTTAAATTG
1 TAAATTAAATTTTCAAGTTTCAAATTTAAATTG
**** *
847140 GCCGTTAAATTTTCAAGTTTCAAGTTTCAAATT-
1 TAAATTAAATTTTCAAGTTTCAAATTT-AAATTG
847173 TAAATTAAAT
1 TAAATTAAAT
847183 GTCAAATTTG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (33 bp):
TAAATTAAATTTTCAAGTTTCAAATTTAAATTG
Found at i:850114 original size:11 final size:11
Alignment explanation
Indices: 850098--850131 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
850088 ATAATTTATG
850098 TATTTATTTTA
1 TATTTATTTTA
850109 TATTTATTTTA
1 TATTTATTTTA
*
850120 TAATTATATTTA
1 TATTTAT-TTTA
850132 AATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:850123 original size:31 final size:31
Alignment explanation
Indices: 850083--850146 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
850073 TTTTAAATAG
**
850083 ATTTAATAATT-TATGTATTTATTTTATATTT
1 ATTTAATAATTATATGTAAATATTTT-TATTT
* *
850114 ATTTTATAATTATATTTAAATATTTTTATTT
1 ATTTAATAATTATATGTAAATATTTTTATTT
850145 AT
1 AT
850147 ATAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
ATTTAATAATTATATGTAAATATTTTTATTT
Found at i:850162 original size:26 final size:26
Alignment explanation
Indices: 850111--850164 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
850101 TTATTTTATA
850111 TTTATTTTATAATTATATTTAAATATT
1 TTTATTTTATAA-TATATTTAAATATT
850138 TTTATTTATATAA-AT-TTTAATATATT
1 TTTATTT-TATAATATATTTAA-ATATT
850164 T
1 T
850165 ATAATTCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.20
26 8 0.32
27 7 0.28
28 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTATTTTATAATATATTTAAATATT
Found at i:850543 original size:14 final size:13
Alignment explanation
Indices: 850514--850551 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
850504 TTATTTATTT
850514 ATTTATTTT--TA
1 ATTTATTTTAGTA
850525 ATTTATTTTAGTA
1 ATTTATTTTAGTA
850538 ATTTTATTTTAGTA
1 A-TTTATTTTAGTA
850552 TATAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.38
13 3 0.12
14 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (13 bp):
ATTTATTTTAGTA
Found at i:850892 original size:12 final size:12
Alignment explanation
Indices: 850870--850921 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
850860 GGTGTTGTCG
850870 TCAATTTTGAAAT
1 TCAA-TTTGAAAT
*
850883 TCAATTTGAAACAG
1 TCAATTTG-AA-AT
*
850897 TAAATTATGAAAT
1 TCAATT-TGAAAT
850910 TCAATTTGAAAT
1 TCAATTTGAAAT
850922 AGTGAAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 10 0.31
13 12 0.38
14 8 0.25
15 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (12 bp):
TCAATTTGAAAT
Found at i:855607 original size:12 final size:12
Alignment explanation
Indices: 855590--855621 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
855580 GAAAACAAAG
855590 GCTGCCAACTGT
1 GCTGCCAACTGT
855602 GCTGCCAACTGT
1 GCTGCCAACTGT
*
855614 GCCGCCAA
1 GCTGCCAA
855622 TTTTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.19
Consensus pattern (12 bp):
GCTGCCAACTGT
Found at i:855658 original size:27 final size:27
Alignment explanation
Indices: 855620--855672 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
855610 CTGTGCCGCC
*
855620 AATTTTGAAATTCAATTTGAAACAGTA
1 AATTATGAAATTCAATTTGAAACAGTA
855647 AATTATGAAATTCAATTTGAAACAGT
1 AATTATGAAATTCAATTTGAAACAGT
855673 GAAGGTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (27 bp):
AATTATGAAATTCAATTTGAAACAGTA
Found at i:857453 original size:14 final size:16
Alignment explanation
Indices: 857434--857465 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
857424 ATAATTTTAT
857434 ATTATAAT-T-AAATA
1 ATTATAATATAAAATA
857448 ATTATAATATAAAATA
1 ATTATAATATAAAATA
857464 AT
1 AT
857466 AAACAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTATAATATAAAATA
Found at i:857840 original size:24 final size:23
Alignment explanation
Indices: 857807--857859 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
857797 GTATGGACAA
**
857807 AATATTATATAATTATAA-TATAT
1 AATATTATATAAAAATAATTAT-T
857830 AATATTAATATAAAAATAATTATT
1 AATATT-ATATAAAAATAATTATT
857854 AATATT
1 AATATT
857860 TTTATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 17 0.65
25 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATTATATAAAAATAATTATT
Found at i:857841 original size:18 final size:18
Alignment explanation
Indices: 857805--857858 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
857795 TTGTATGGAC
857805 AAAAT-ATTATATAATTATA
1 AAAATAATTAT-TAA-TATA
*
857824 ATATATAA-TATTAATATA
1 A-AAATAATTATTAATATA
857842 AAAATAATTATTAATAT
1 AAAATAATTATTAATAT
857859 TTTTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.17
18 14 0.47
19 4 0.13
20 6 0.20
21 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATAATTATTAATATA
Found at i:858596 original size:13 final size:13
Alignment explanation
Indices: 858578--858603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
858568 TGACGCAATC
858578 ATAATTCTACCAT
1 ATAATTCTACCAT
858591 ATAATTCTACCAT
1 ATAATTCTACCAT
858604 TTGAAAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTCTACCAT
Found at i:861066 original size:75 final size:75
Alignment explanation
Indices: 860925--861066 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
860915 GTTTTAAAAG
* ** * * * * *
860925 AAAATGCTAAAATGACCCTAAATGTTCTATTTTGATATGAAAGTGCTAACATGACCTTAAAGGAT
1 AAAATACTAAAATGACCCTAAAAATGCGATTTTGAAATGAAAGTGCTAACACGACCTTAAAAGAT
860990 TTTAATGCAA
66 TTTAATGCAA
861000 AAAATACTAAAATGACCCTAAAAATGCGATTTTGAAATGAAAGTGCTAACACGA-CTCTAAAAGA
1 AAAATACTAAAATGACCCTAAAAATGCGATTTTGAAATGAAAGTGCTAACACGACCT-TAAAAGA
861064 TTT
65 TTT
861067 GTTTTTGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 2 0.03
75 56 0.97
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (75 bp):
AAAATACTAAAATGACCCTAAAAATGCGATTTTGAAATGAAAGTGCTAACACGACCTTAAAAGAT
TTTAATGCAA
Found at i:861297 original size:37 final size:37
Alignment explanation
Indices: 861247--861333 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
861237 TGTCATTTCC
861247 TAAGCTTGATCTCAGCTTAAGATATAATCGAACTATT
1 TAAGCTTGATCTCAGCTTAAGATATAATCGAACTATT
861284 TAAGCTTGATCTCAGCTTAAGATATAATCGAACTATT
1 TAAGCTTGATCTCAGCTTAAGATATAATCGAACTATT
861321 TAAGCTTGA-CTCA
1 TAAGCTTGATCTCA
861334 ATAAGCTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 4 0.08
37 46 0.92
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (37 bp):
TAAGCTTGATCTCAGCTTAAGATATAATCGAACTATT
Found at i:865259 original size:21 final size:21
Alignment explanation
Indices: 865233--865309 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
865223 TTTTGATCCA
865233 AATGTATCGATACATTTGTAC
1 AATGTATCGATACATTTGTAC
**
865254 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAC
* *
865275 AATGTATCAATACA-TTCTAC
1 AATGTATCGATACATTTGTAC
865295 AAATGTATCGATACA
1 -AATGTATCGATACA
865310 AGGTCCCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 3 0.06
21 45 0.94
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAC
Found at i:865405 original size:13 final size:13
Alignment explanation
Indices: 865387--865411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
865377 ACATAAGTGT
865387 TGTATCGATACAA
1 TGTATCGATACAA
865400 TGTATCGATACA
1 TGTATCGATACA
865412 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:865411 original size:32 final size:32
Alignment explanation
Indices: 865366--865438 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
865356 ACATTCAGAA
*
865366 AATGTATCTATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
865398 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
865430 AATGTATCG
1 AATGTATCG
865439 CTAGGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:865424 original size:19 final size:18
Alignment explanation
Indices: 865368--865430 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
865358 ATTCAGAAAA
*
865368 TGTATCTATACATAAGTGT
1 TGTATCGATACATAAGT-T
865387 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
865400 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
865419 TGTATCGATACA
1 TGTATCGATACA
865431 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:865500 original size:13 final size:13
Alignment explanation
Indices: 865482--865507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
865472 CATTTTTTTG
865482 TGTATCGATACAT
1 TGTATCGATACAT
865495 TGTATCGATACAT
1 TGTATCGATACAT
865508 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:867929 original size:51 final size:50
Alignment explanation
Indices: 867873--867993 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 50
867863 CAATTCTCCG
* * *
867873 TAATCGGGGATATTCTC-ACTCTGATTTTATTTTC-AAAACACTAATTTTCT
1 TAATCGGGGATACTC-CAACTCCGATTTTATTTTCAAAAACACCAATTTT-T
867923 ATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAAACACCAATTTTT
1 -TAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACCAATTTTT
*
867975 TCATCGGGGATACTCCAAC
1 TAATCGGGGATACTCCAAC
867994 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
50 1 0.02
51 48 0.76
52 1 0.02
53 13 0.21
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTT
Found at i:868013 original size:27 final size:28
Alignment explanation
Indices: 867975--868050 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
867965 ACCAATTTTT
867975 TCATCGGGGATACTCCAACCCCGTTA-A
1 TCATCGGGGATACTCCAACCCCGTTATA
*
868002 TCATCGGGGATACTCCAACCCCGTTATT
1 TCATCGGGGATACTCCAACCCCGTTATA
*
868030 TC-TGAGGGGATACTCCAACCC
1 TCAT-CGGGGATACTCCAACCC
868051 TTGCTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 27 0.60
28 18 0.40
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (28 bp):
TCATCGGGGATACTCCAACCCCGTTATA
Found at i:868155 original size:79 final size:79
Alignment explanation
Indices: 868004--868178 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 79
867994 CCCGTTAATC
* * * * *
868004 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTTGCTTTATTCTTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCTAGCTTTATTCTCAAAAC
* *
868069 ATTAATTTCTCATA
66 ATCAATTTCCCATA
*
868083 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCTAATCCC-AG-TTTCATT-TCCAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAA-CCCTAGCTTT-ATTCT-CAA
*
868145 AACATCAATTTCCCTTA
63 AACATCAATTTCCCATA
868162 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
868179 TCCGATTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 4 0.05
79 77 0.92
80 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCTAGCTTTATTCTCAAAAC
ATCAATTTCCCATA
Found at i:868259 original size:52 final size:50
Alignment explanation
Indices: 868115--868281 Score: 174
Period size: 51 Copynumber: 3.3 Consensus size: 50
868105 TATTTCCGAA
* * * * * *
868115 GGGATACTCTAA-TCCCAGTTTCATTTCCAAAACATCAATTTCCCTTAATC
1 GGGATACTCCAACTCCGA-TTTTATTTCCAAAACACCAATTTTCCATAATC
** *
868165 GGGGATACTCCAACTCCGATTTTATTTTTAAAACACCCATTTTCCATAATC
1 -GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATC
* * *
868216 GGGAATACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGG-ATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTTTCCATAATC
868268 GAGGATACTCCAAC
1 G-GGATACTCCAAC
868282 CTCATTATTT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
50 3 0.03
51 58 0.60
52 34 0.35
53 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATC
Found at i:868387 original size:79 final size:78
Alignment explanation
Indices: 868295--868497 Score: 228
Period size: 78 Copynumber: 2.6 Consensus size: 78
868285 ATTATTTCAT
** *
868295 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GATTTATTCCC-AAATCA
* *
868359 TTGATTTCTCATAAT
64 TTGATTTCTCACAAC
* * * * * ** *
868374 TGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAATCCCGATTTTTTTTCTAATCATT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTATTCCCAAATCATT
868439 GATTTCTCACAAC
66 GATTTCTCACAAC
* * * *
868452 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGGACACTCCAACCCC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC
868498 ATTATTATCT
Statistics
Matches: 102, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.03
78 59 0.58
79 40 0.39
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTATTCCCAAATCATT
GATTTCTCACAAC
Found at i:868390 original size:289 final size:287
Alignment explanation
Indices: 867873--868419 Score: 801
Period size: 289 Copynumber: 1.9 Consensus size: 287
867863 CAATTCTCCG
* * * * *
867873 TAATCGGGGATATTCTCACTCTGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 TAATCGGGGATACTCTCACTCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGAATACT
* * *
867938 CCAACTCCGATTTTATTTTCAAAAAACACCAATTTTTTCATCGGGGATACTCCAACCCCGTTAAT
66 CCAACTCCGATTTTATTTTCAAAAAACACCAATTTTTACATCGAGGATACTCCAACCCCATTAAT
** * ** **
868003 CATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTTGCTTTATTCTTAAAA
131 CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAA
*
868068 TATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCTAATCCCAG
196 TATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAATCCCAG
868133 TTTCATTTCCAAAACATCAATTTCCCT
261 TTTCATTTCCAAAACATCAATTTCCCT
* *
868160 TAATCGGGGATACTC-CAACTCCGATTTTATTTTTAAAACACCCATTTTCCATAATCGGGAATAC
1 TAATCGGGGATACTCTC-ACTCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGAATAC
* * *
868224 TCCAACTTCGATTTTA-TTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATT
65 TCCAACTCCGATTTTATTTTCAAAAAACACCAATTTTT-AC-ATCGAGGATACTCCAACCCCATT
*
868288 ATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
128 A-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
* * * * *
868353 AAAATATTGATTTCTCATAATTGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAATC
192 AAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAATC
868418 CC
257 CC
868420 GATTTTTTTT
Statistics
Matches: 229, Mismatches: 27, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
286 21 0.09
287 71 0.31
288 21 0.09
289 116 0.51
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (287 bp):
TAATCGGGGATACTCTCACTCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGAATACT
CCAACTCCGATTTTATTTTCAAAAAACACCAATTTTTACATCGAGGATACTCCAACCCCATTAAT
CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAA
TATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAATCCCAG
TTTCATTTCCAAAACATCAATTTCCCT
Found at i:880865 original size:12 final size:12
Alignment explanation
Indices: 880848--880882 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
880838 TTCTTTTTCA
880848 AAAAAAAACAAC
1 AAAAAAAACAAC
880860 AAAAAAAACAAC
1 AAAAAAAACAAC
880872 AAAAAAAACAA
1 AAAAAAAACAA
880883 AACAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:880895 original size:17 final size:16
Alignment explanation
Indices: 880847--880887 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
880837 ATTCTTTTTC
*
880847 AAAAAAA-AAC-AACA
1 AAAAAAACAACAAAAA
880861 AAAAAAACAACAAAAA
1 AAAAAAACAACAAAAA
880877 AAACAAAACAA
1 AAA-AAAACAA
880888 AGAAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 3 0.13
16 6 0.26
17 7 0.30
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACAACAAAAA
Found at i:882013 original size:100 final size:99
Alignment explanation
Indices: 881854--882037 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 99
881844 CCTTCCGCTT
* *
881854 TTTAGCCCTCAAAGAGCAGGATGCCTTTCCTTTTAAAGCCCCCACAAGTTGGTGGCACTTCCCAG
1 TTTAGCCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
*
881919 TCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
66 TCCTCAAAGAGCAGAACGCTCTCTCCTTTCGCCC
* **
881953 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 TTTAGCCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
882018 GTCCTCAAAGAGCAGAACGC
65 GTCCTCAAAGAGCAGAACGC
882038 CTTTCAAAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 25 0.32
100 53 0.68
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (99 bp):
TTTAGCCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
TCCTCAAAGAGCAGAACGCTCTCTCCTTTCGCCC
Found at i:882132 original size:55 final size:55
Alignment explanation
Indices: 881951--882417 Score: 660
Period size: 55 Copynumber: 8.4 Consensus size: 55
881941 CTCCTTTCGC
881951 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
* *
882011 CTTTTCAGTCCTCAAAGAGCAGAACGCCTTTCAAAG-CCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
882065 -TTTTCCAATCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTAGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
882120 CCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
882175 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG-CCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
882229 -TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
882284 CCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
882339 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
882394 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
882418 TACACTTTAT
Statistics
Matches: 371, Mismatches: 25, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
53 7 0.02
54 92 0.25
55 237 0.64
56 6 0.02
59 1 0.00
60 5 0.01
61 23 0.06
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:882155 original size:109 final size:110
Alignment explanation
Indices: 881951--882417 Score: 660
Period size: 109 Copynumber: 4.2 Consensus size: 110
881941 CTCCTTTCGC
*
881951 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACCTT
*
882015 TCAGTCCTCAAAGAGCAGAACGCCTTTCAAAG-CCACACAAGTTGGTGGCA
60 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
882065 -TTTTCCAATCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTAGCACCTTTCAG
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
882128 TCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
64 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
882175 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG-CCACACAAGTTGGTGGCA-TTTTCCAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
*
882238 CCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
65 CCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
882284 CCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
882349 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
882394 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
882418 TACACTTTAT
Statistics
Matches: 318, Mismatches: 24, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
108 3 0.01
109 153 0.48
110 130 0.41
111 6 0.02
113 3 0.01
115 22 0.07
116 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (110 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:882171 original size:164 final size:164
Alignment explanation
Indices: 881982--882417 Score: 784
Period size: 164 Copynumber: 2.7 Consensus size: 164
881972 GACGCCTTCT
* * *
881982 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGAACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
*
882047 CCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGT
882112 TGGTAGCACCTTTCAGTCCTCAAAGAGTAGGATG
131 TGGTAGCACCTTTCAGTCCTCAAAGAGTAGGATG
882146 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
882211 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGT
*
882276 TGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATG
131 TGGTAGCACCTTTCAGTCCTCAAAGAGTAGGATG
882310 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
* *
882375 CCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
66 -CCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
882418 TACACTTTAT
Statistics
Matches: 263, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
164 224 0.85
165 35 0.13
166 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (164 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGT
TGGTAGCACCTTTCAGTCCTCAAAGAGTAGGATG
Found at i:883267 original size:19 final size:18
Alignment explanation
Indices: 883216--883305 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
883206 TTGAATTCCA
883216 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
883233 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
883254 ATAAGTGTTGTATCGAT--
1 ATAAGT-TTGTATCGATAC
883271 ATAA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
883286 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
883305 A
1 A
883306 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 9 0.16
15 4 0.07
17 5 0.09
18 2 0.03
19 22 0.38
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:883282 original size:32 final size:32
Alignment explanation
Indices: 883241--883313 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
883231 ACATTCAGTA
*
883241 AATGTATCGATACATAAGTGTTGTATCGATAT
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
883273 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
883305 AATGTATCG
1 AATGTATCG
883314 CTAGGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:883375 original size:13 final size:13
Alignment explanation
Indices: 883357--883382 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
883347 CATTTTTTTG
883357 TGTATCGATACAT
1 TGTATCGATACAT
883370 TGTATCGATACAT
1 TGTATCGATACAT
883383 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:885598 original size:79 final size:78
Alignment explanation
Indices: 885399--885620 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 78
885389 TCTATAATCG
* * *
885399 GGGATACTCCAATTCCGATTTTATTTCCAAAAAACACCAATTT-T-TTCATCGGGGATACTCCAA
1 GGGATACTCCAATCCCGA-TTTATTTCC--AAAACATCAATTTCTCTTAATCGGGGATACTCCAA
*
885462 CCCCGTTATTTCCGAG
63 CCCCGTTATTTCCGAA
* * * ** *
885478 GGGATACTCCAA-CCCTTGCTTTA-TTCTTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGATACTCCAATCCC--GATTTATTTC-CAAAACATCAATTTCTCTTAATCGGGGATACTCCAA
*
885541 CCTCGTTATTTCCGAA
63 CCCCGTTATTTCCGAA
* *
885557 GGGATACTCTAATCCCGATTTCATTTCCAAAACATCAATTTCTCTTAATCGGGGATAGTCCAAC
1 GGGATACTCCAATCCCGATTT-ATTTCCAAAACATCAATTTCTCTTAATCGGGGATACTCCAAC
885621 TCCGATTTTA
Statistics
Matches: 116, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
77 9 0.08
78 10 0.09
79 90 0.78
80 7 0.06
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGATACTCCAATCCCGATTTATTTCCAAAACATCAATTTCTCTTAATCGGGGATACTCCAACCC
CGTTATTTCCGAA
Found at i:885716 original size:52 final size:51
Alignment explanation
Indices: 885557--885723 Score: 210
Period size: 51 Copynumber: 3.3 Consensus size: 51
885547 TATTTCCGAA
* * * * *
885557 GGGATACTCTAA-TCCCGATTTCATTTCCAAAACATCAATTTCTCTTAATCG
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTTTCATAATCG
* * * *
885608 GGGATAGTCCAACTCCGATTTTATTTCTAAAACACCTATTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAATCG
*
885659 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTTTTCATAATCG
*
885711 AGGATACTCCAAC
1 GGGATACTCCAAC
885724 CTCGTTATTT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
51 66 0.67
52 33 0.33
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAATCG
Found at i:885735 original size:31 final size:28
Alignment explanation
Indices: 885707--885783 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
885697 ATTTTTCACA
*
885707 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
885735 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
885763 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
885784 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:885916 original size:78 final size:78
Alignment explanation
Indices: 885740--885969 Score: 212
Period size: 78 Copynumber: 2.9 Consensus size: 78
885730 ATTTCATCGG
** *
885740 GGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATATTGA
* ** *
885805 TTTCTCATAATTGG
65 TTTCTCACAACCGA
** * * ** * *
885819 GGATACTCCAACCTTGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCATTGC
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-ATTGA
885883 TTTCTCACAACCGA
65 TTTCTCACAACCGA
* * * * *
885897 GGATACTCCAGCCCCGTTATTTTCAAGGGGACACTCCAACCCCGTTATTA-TCTCCAAAATATTA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAT-TTATTC-CCAAAATATT-
*
885961 AATTTCTCA
63 GATTTCTCA
885970 TCGAGAAATA
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
77 3 0.03
78 60 0.51
79 44 0.38
80 10 0.09
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATTGAT
TTCTCACAACCGA
Found at i:888658 original size:79 final size:79
Alignment explanation
Indices: 888570--888737 Score: 230
Period size: 79 Copynumber: 2.1 Consensus size: 79
888560 AATAACGGGG
*
888570 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCCGA-TCGTGAAAAATCGATGATTTA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCCGACT-ATGAAAAATCGATGATTTA
*
888634 GAAATAAAATCGAGA
65 GAAATAAAACCGAGA
* * ** * *
888649 TTGGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGATGTTTTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCCGACTATGAAAAATCGATGATTTAG
* *
888714 AAATAAAACCGGGG
66 AAATAAAACCGAGA
888728 TTGGAGTATC
1 TTGGAGTATC
888738 TCCGATTAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 77 0.99
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCCGACTATGAAAAATCGATGATTTAG
AAATAAAACCGAGA
Found at i:888751 original size:51 final size:51
Alignment explanation
Indices: 888672--888790 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
888662 TCGGAAATAA
* *
888672 CGGGGTTGGAGTATCCCCGACTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGACTAAGAAAAATTGATATTTTAGAAATAAAAC
* * *
888723 CGGGGTTGGAGTATCTCCGATTAAGAAAAATTGATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGACTAAGAAAAATTGATATTTTAGAAATAAAAC
*
888774 CGGGGTTGGGGTATCCC
1 CGGGGTTGGAGTATCCC
888791 TTCGAAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGACTAAGAAAAATTGATATTTTAGAAATAAAAC
Found at i:888769 original size:130 final size:127
Alignment explanation
Indices: 888617--888861 Score: 332
Period size: 130 Copynumber: 1.9 Consensus size: 127
888607 CCCCGATCGT
* *
888617 GAAAAATCGATGATTTAGAAATAAAATCGAGATTGGAGTAT-CCTCTCGGAAATAACGGGGTTGG
1 GAAAAATCGATGATTTAGAAATAAAACCGAGATTGGAGTATCCCT-TCGAAAATAACGGGGTTGG
888681 AGTATCCCCGACTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCCGATTA
65 AGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCCGATTA
888746 A
127 A
* * * * *
888747 GAAAAATTGAT-ATTTTAGAAATAAAGCCGGGGTTGGGGTATCCCTTCGAAAATAACGGGGTTGG
1 GAAAAATCGATGA-TTTAGAAATAAAACCGAGATTGGAGTATCCCTTCGAAAATAACGGGGTTGG
* * **
888811 AGTATCCCTGATGACAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGT
65 AGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
888862 GTCCCCTCGA
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
127 38 0.37
129 1 0.01
130 60 0.59
131 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (127 bp):
GAAAAATCGATGATTTAGAAATAAAACCGAGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGA
GTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCCGATTAA
Found at i:888855 original size:76 final size:77
Alignment explanation
Indices: 888723--888894 Score: 222
Period size: 76 Copynumber: 2.2 Consensus size: 77
888713 GAAATAAAAC
* *
888723 CGGGGTTGGAGTATCTCCGATTAAGAAAAATTGATATTTTAGAAATAAAGCCGGGGTTGGGGTAT
1 CGGGGTTGGAGTATC-CCGATT-AGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
888788 CCCTTCGAAAATAA
64 CCCCTCGAAAATAA
* * ** *
888802 CGGGGTTGGAGTATCCCTGA-T-GACAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTGTC
1 CGGGGTTGGAGTATCCC-GATTAGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATC
888865 CCCTCGAAAATAA
65 CCCTCGAAAATAA
*
888878 CGAGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
888895 AAATTATGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
76 63 0.76
78 3 0.04
79 17 0.20
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCGATTAGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAA
Found at i:888905 original size:206 final size:207
Alignment explanation
Indices: 888547--888995 Score: 526
Period size: 206 Copynumber: 2.2 Consensus size: 207
888537 GAGAAATTTA
* *
888547 ATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCC
1 ATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCC
* * *
888611 GATCGTGAAAAATCGATGATTTAGAAATAAAATCGAGATTGGAGTATCCTCTCGGAAATAACGGG
65 GA-C-TGAAAAATCGATGATTTAGAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATAACGAG
** * * * * *
888676 GTTGGAGTATCCCCGACTATGAAAAAT-TGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCTC
128 GTTGGAGTATCCCAAACTATGAAAAGTCAG-TGTTTTAGAAATAAAACCGGAGTTAGAGTATCCC
*
888740 CGATTAAGAAAAATTG
192 CGATTAAGAAAAATGG
* * * ** *
888756 ATATTTTAGAAATAAAGCCGGGGTTGGGGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCTG
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCCG
* * * * * * *
888821 A-TGACAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTGTCCCCTCGAAAATAACGAGGTT
66 ACTGAAAAATCGATGATTTAGAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATAACGAGGTT
* * *
888885 GGAGTATCCCAAATTATGAAAAGTCAGTGTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGAT
131 GGAGTATCCCAAACTATGAAAAGTCAGTGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCGAT
* *
888950 TATGGAAAATGG
196 TAAGAAAAATGG
* * * *
888962 GTGTTTTAGAAATAAAATCGGAGTTGGAGTATCC
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
888996 ACGAGATGAA
Statistics
Matches: 201, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
206 143 0.71
207 1 0.00
208 1 0.00
209 56 0.28
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (207 bp):
ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAACATCCCCG
ACTGAAAAATCGATGATTTAGAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATAACGAGGTT
GGAGTATCCCAAACTATGAAAAGTCAGTGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCGAT
TAAGAAAAATGG
Found at i:888941 original size:51 final size:51
Alignment explanation
Indices: 888886--888995 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
888876 AACGAGGTTG
*
888886 GAGTATCCCAAATTAT-GAAAAGTCAGTGTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCAAATTATGGAAAA-TCAGTGTTTTAGAAATAAAATCGGAGTTA
** ** *
888937 GAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTG
1 GAGTATCCCAAATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGAGTTA
888988 GAGTATCC
1 GAGTATCC
888996 ACGAGATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 47 0.90
52 5 0.10
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (51 bp):
GAGTATCCCAAATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGAGTTA
Found at i:891356 original size:20 final size:19
Alignment explanation
Indices: 891311--891366 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
891301 GATACGTTGT
*
891311 AAAATGTATCAATACAATG
1 AAAATGTATCGATACAATG
*
891330 AGCAATGTATCGATACAATG
1 A-AAATGTATCGATACAATG
891350 CAAAATGTATCGATACA
1 -AAAATGTATCGATACA
891367 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (19 bp):
AAAATGTATCGATACAATG
Found at i:899731 original size:2 final size:2
Alignment explanation
Indices: 899724--899762 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
899714 AAATTTTCTG
899724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
899763 TTGCAACTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:899875 original size:23 final size:21
Alignment explanation
Indices: 899834--899881 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
899824 TTACATATGG
*
899834 AAATAAAAATAAATATATTTT
1 AAATAAAAATAAATATATTGT
899855 AAATAAGAAA-AATATAGTATTGT
1 AAATAA-AAATAA-ATA-TATTGT
899878 AAAT
1 AAAT
899882 TTTGATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AAATAAAAATAAATATATTGT
Found at i:900047 original size:15 final size:15
Alignment explanation
Indices: 900027--900061 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
900017 ACATTAAAAT
900027 TTATATTTTAATAAA
1 TTATATTTTAATAAA
**
900042 TTATATTTTTGTAAA
1 TTATATTTTAATAAA
900057 TTATA
1 TTATA
900062 CTCCAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTATATTTTAATAAA
Found at i:900502 original size:29 final size:28
Alignment explanation
Indices: 900448--900502 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
900438 TCAAGTTATG
* * *
900448 AAATTTTTTAAATTAAGTGATCAAAATA
1 AAATTTTTTAAAATAAATAATCAAAATA
*
900476 AAATTTTTTAAAAATAAATAATTAAAA
1 AAATTTTTT-AAAATAAATAATCAAAA
900503 ATGTTATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 9 0.41
29 13 0.59
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
AAATTTTTTAAAATAAATAATCAAAATA
Found at i:903613 original size:12 final size:12
Alignment explanation
Indices: 903588--903619 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
903578 TAGCACACGA
903588 ATAA-AAAT-TT
1 ATAACAAATATT
903598 ATAACAAATATT
1 ATAACAAATATT
903610 ATAACAAATA
1 ATAACAAATA
903620 ACAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.20
11 4 0.20
12 12 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAACAAATATT
Found at i:903855 original size:15 final size:15
Alignment explanation
Indices: 903811--903857 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
903801 AATTTAATAC
903811 TTCAAGATAAGATAA
1 TTCAAGATAAGATAA
* * *
903826 -TGAAAATAAAAATAA
1 TTCAAGAT-AAGATAA
903841 TTCAAGATAAGATAA
1 TTCAAGATAAGATAA
903856 TT
1 TT
903858 TAATACTTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (15 bp):
TTCAAGATAAGATAA
Found at i:903880 original size:23 final size:23
Alignment explanation
Indices: 903836--903881 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
903826 TGAAAATAAA
*
903836 AATAATTCAAGATAAGATAATTT
1 AATAATTCAAGATAAGACAATTT
* *
903859 AATACTTCAAGATAAGGCAATTT
1 AATAATTCAAGATAAGACAATTT
903882 TAAAACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
AATAATTCAAGATAAGACAATTT
Found at i:905775 original size:2 final size:2
Alignment explanation
Indices: 905768--905794 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
905758 AATAGATAGA
905768 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
905795 AAGCACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:906567 original size:13 final size:13
Alignment explanation
Indices: 906535--906568 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
906525 AGTTAATAAG
906535 TTAATAATCAGAT
1 TTAATAATCAGAT
**
906548 TCGATAATCAGAT
1 TTAATAATCAGAT
906561 TTAATAAT
1 TTAATAAT
906569 TACGTTATTA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (13 bp):
TTAATAATCAGAT
Found at i:907428 original size:18 final size:18
Alignment explanation
Indices: 907402--907439 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
907392 TTATAATAAA
* *
907402 TTATTTAACTAATTAATT
1 TTATATAACAAATTAATT
907420 TTATATAACAAATTAATT
1 TTATATAACAAATTAATT
907438 TT
1 TT
907440 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATATAACAAATTAATT
Found at i:910845 original size:17 final size:17
Alignment explanation
Indices: 910823--910855 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
910813 AAGTCCGTGA
910823 CAGTTCTAGATTTGCAG
1 CAGTTCTAGATTTGCAG
*
910840 CAGTTCTATATTTGCA
1 CAGTTCTAGATTTGCA
910856 TGGTAAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (17 bp):
CAGTTCTAGATTTGCAG
Found at i:911464 original size:40 final size:40
Alignment explanation
Indices: 911409--911489 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
911399 ATTATGGAGT
911409 AACTTTTGAATTGTTAAAACAATTGACATCCGAAGCATTC
1 AACTTTTGAATTGTTAAAACAATTGACATCCGAAGCATTC
911449 AACTTTTGAATTGTTAAAACAATTGACATCCGAAGCATTC
1 AACTTTTGAATTGTTAAAACAATTGACATCCGAAGCATTC
911489 A
1 A
911490 TTTTATTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (40 bp):
AACTTTTGAATTGTTAAAACAATTGACATCCGAAGCATTC
Found at i:914596 original size:24 final size:27
Alignment explanation
Indices: 914523--914593 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
914513 AAACAAGCTT
* *
914523 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
914551 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
914578 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
914594 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:916514 original size:21 final size:22
Alignment explanation
Indices: 916476--916521 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
916466 ATCTGTTGAA
**
916476 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGTTGCGGAGTACT
916497 ACTCCACCTGTTGCGGAGTACT
1 ACTCCACCTGTTGCGGAGTACT
916519 ACT
1 ACT
916522 TGTCTGAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (22 bp):
ACTCCACCTGTTGCGGAGTACT
Found at i:918993 original size:20 final size:20
Alignment explanation
Indices: 918968--919013 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
918958 AAGAATTGAA
*
918968 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
**
918988 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
919008 GAGGGA
1 GAGGGA
919014 GCCTCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.50, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:919163 original size:24 final size:27
Alignment explanation
Indices: 919090--919160 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
919080 AAACAAGCCT
* *
919090 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
919118 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
919145 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
919161 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:925817 original size:37 final size:38
Alignment explanation
Indices: 925774--925920 Score: 149
Period size: 38 Copynumber: 3.9 Consensus size: 38
925764 AACCGGTTAC
*
925774 AACCATGCCACCGATTAA-AAGAGTGATTTTTGTTTTG
1 AACCATGCCACCGATTAAGAATAGTGATTTTTGTTTTG
* * * *
925811 ACCCATGCCACCG-GTAAGAATAGTGGTTTTTGTTCTG
1 AACCATGCCACCGATTAAGAATAGTGATTTTTGTTTTG
** * *
925848 AACTGTGCCATCGATTAAGATTAGT-AGTTTTTGTTTTG
1 AACCATGCCACCGATTAAGAATAGTGA-TTTTTGTTTTG
* *
925886 AACCATACCACCGATTGAGAATAGT-AGTTTTTGTT
1 AACCATGCCACCGATTAAGAATAGTGA-TTTTTGTT
925921 CTAACCTATA
Statistics
Matches: 88, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
36 3 0.03
37 37 0.42
38 48 0.55
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (38 bp):
AACCATGCCACCGATTAAGAATAGTGATTTTTGTTTTG
Found at i:931677 original size:17 final size:17
Alignment explanation
Indices: 931648--931680 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
931638 ATTAAATTTA
931648 CTTGAAAATAAAAATAT
1 CTTGAAAATAAAAATAT
931665 CTTGTAAAA-AAAAATA
1 CTTG-AAAATAAAAATA
931681 AAGATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (17 bp):
CTTGAAAATAAAAATAT
Found at i:931703 original size:16 final size:15
Alignment explanation
Indices: 931672--931705 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
931662 TATCTTGTAA
*
931672 AAAAAAATAAAGATT
1 AAAAAAATAAAAATT
931687 AAAAAAATAAATAATT
1 AAAAAAATAAA-AATT
931703 AAA
1 AAA
931706 TTAAACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAAATAAAAATT
Found at i:932793 original size:185 final size:187
Alignment explanation
Indices: 932423--932797 Score: 650
Period size: 186 Copynumber: 2.0 Consensus size: 187
932413 ATCCATAAAT
932423 TTAAAAACTAATCATAAATACTATACTTAAAGTGTTCTATTACAAAATTTACATTTTTTTTGAAA
1 TTAAAAACTAATCATAAATACTATACTTAAAGTGTTCTATTACAAAATTTACATTTTTTTTGAAA
*
932488 TCTAAATTTCCAAATGCAACCTTAAAAAATTATAATAAATGGACTAAAAATCTAATAGAACAAAA
66 TCTAAATTTCCAAATGCAACCTTAAAAAAATATAATAAATGGACTAAAAATCTAATAGAACAAAA
932553 CAAAATAAAGAAAAATAAAAAAAAATTATTAGACTAAGTAAATAAGAACCCAATTAG
131 CAAAATAAAGAAAAATAAAAAAAAATTATTAGACTAAGTAAATAAGAACCCAATTAG
* *
932610 TTAAAAA-TAATCATAAATGA-TATACTTAAAGTGTTCTATTACACAATTTATA-TTTTTTTGAA
1 TTAAAAACTAATCATAAAT-ACTATACTTAAAGTGTTCTATTACAAAATTTACATTTTTTTTGAA
*
932672 ATCTAAATTTCCAAATGCAACCTTTAAAAAAATATAATAACTGGACTAAAAATCTAATAGAACAA
65 ATCTAAATTTCCAAATGCAACC-TTAAAAAAATATAATAAATGGACTAAAAATCTAATAGAACAA
* *
932737 AACAAAATAAAGAAAAAT-AAAAAATATTATTAGACTAAGTAAATAAGAATCCAATTAG
129 AACAAAATAAAGAAAAATAAAAAAAAATTATTAGACTAAGTAAATAAGAACCCAATTAG
932795 TTA
1 TTA
932798 CTGGGTTAAG
Statistics
Matches: 180, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
185 73 0.41
186 99 0.55
187 8 0.04
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (187 bp):
TTAAAAACTAATCATAAATACTATACTTAAAGTGTTCTATTACAAAATTTACATTTTTTTTGAAA
TCTAAATTTCCAAATGCAACCTTAAAAAAATATAATAAATGGACTAAAAATCTAATAGAACAAAA
CAAAATAAAGAAAAATAAAAAAAAATTATTAGACTAAGTAAATAAGAACCCAATTAG
Found at i:933658 original size:2 final size:2
Alignment explanation
Indices: 933651--933694 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
933641 CCTCCAACCA
933651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
933693 AT
1 AT
933695 TCCCAAAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:935329 original size:97 final size:96
Alignment explanation
Indices: 935163--935403 Score: 410
Period size: 97 Copynumber: 2.5 Consensus size: 96
935153 AAAAAAATGG
* *
935163 GGTTGGAGTATCCTCTCGGAGGAATAGGGTTGGAGTGTCCCCGACGATGACAATTTAAGCGAGAA
1 GGTTGGAGTATCC-CTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGAA
935228 TAAGATTTGAATCTTGACAAGTTTAAAAGCGA
65 TAAGATTTGAATCTTGACAAGTTTAAAAGCGA
935260 GGTTGGAGTATTCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGAA
1 GGTTGGAGTA-TCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGAA
*
935325 TAAGATTTGAATCTTGACAAGTTTAAAAGCGG
65 TAAGATTTGAATCTTGACAAGTTTAAAAGCGA
* *
935357 GGTTAGAGTATCCCTTCGGAGGAATGGGGTTGGAGTATCCCCGATGA
1 GGTTGGAGTATCCC-TCGGAGGAATGGGGTTGGAGTGTCCCCGATGA
935404 ATAAAATTTT
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
96 4 0.03
97 130 0.95
98 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (96 bp):
GGTTGGAGTATCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGAAT
AAGATTTGAATCTTGACAAGTTTAAAAGCGA
Found at i:937631 original size:40 final size:39
Alignment explanation
Indices: 937571--937648 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
937561 GGTAAAAAGA
*
937571 CATAATGTATCGATACATTGAAGAATATATCAATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* * *
937610 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACAT
937649 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:937638 original size:20 final size:20
Alignment explanation
Indices: 937574--937648 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
937564 AAAAAGACAT
*
937574 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* * * *
937594 AATATATCAATACATTCATA
1 AATGTATCGATACATTGAAA
* *
937614 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
937634 AATGTATCGATACAT
1 AATGTATCGATACAT
937649 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:938312 original size:29 final size:29
Alignment explanation
Indices: 938213--939099 Score: 1327
Period size: 29 Copynumber: 30.9 Consensus size: 29
938203 AAAAAAAATG
*
938213 GTGCCACTAACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
** *
938244 GTTGCCACCAACTCGTGTGGGCTTTG-AAAGG
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
938275 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
938304 GTGCCACTGACTCGTGGGCTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938332 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
938361 GTGTCACTGAATTATGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938389 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
938418 GTGCCATTAATTTGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938446 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938475 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938504 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
938533 GCGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938561 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
938590 GTGCCACTGAATTGTGGGC-TTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938617 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938646 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938674 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
938703 GTGCCACTGATTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938731 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938760 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938789 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938817 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938846 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
938874 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
938903 GTGCCATTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938931 GTGCCACTGACTTGTGGGCTTT-AAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
938958 GTTGCCACTGACTTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGA
938988 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
939017 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
939045 GTGCCACTGACTCGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
939074 GTACCACTGACTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
939100 GGGATGAACA
Statistics
Matches: 779, Mismatches: 59, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
27 23 0.03
28 298 0.38
29 420 0.54
30 10 0.01
31 7 0.01
32 21 0.03
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:938336 original size:57 final size:58
Alignment explanation
Indices: 938207--939099 Score: 1337
Period size: 57 Copynumber: 15.6 Consensus size: 58
938197 TTTTTTAAAA
* * **
938207 AAAATGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG
*
938270 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTCGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
938326 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGTCACTGAATTATGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
938384 AAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTAATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
938441 AAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
938498 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGCGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
938556 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGTGGGC-TTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
938612 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
938669 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
938726 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
938783 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
938840 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
938897 AAAAGAGTGCCATTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
938953 AAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
939011 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTCGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
939068 AAAAGAGTACCACTGACTTGTGGGCTTTGAAA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
939100 GGGATGAACA
Statistics
Matches: 777, Mismatches: 45, Indels: 21
0.92 0.05 0.02
Matches are distributed among these distances:
56 80 0.10
57 546 0.70
58 109 0.14
59 9 0.01
60 18 0.02
61 1 0.00
62 14 0.02
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (58 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:938382 original size:86 final size:87
Alignment explanation
Indices: 938213--939099 Score: 1327
Period size: 86 Copynumber: 10.3 Consensus size: 87
938203 AAAAAAAATG
* ** *
938213 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTG-AAAGGGT
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAGAGT
938277 GCCACTGACTTGTGGGCTTTGAAAAGA
61 GCCACTGACTTGTGGGCTTTGAAAAGA
* * *
938304 GTGCCACTGACTCGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGTCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
938368 TGAATTATGGGCTTTGAAAAG-
66 TGACTTGTGGGCTTTGAAAAGA
* * *
938389 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTAATTTGTGGGCTTTGAAAAG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
938453 TGACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAAGA
* * *
938475 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGCGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
938540 TGACTTGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAAGA
* *
938561 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGTGGGC-TTG-AAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
938624 TGACTTGTGGGCTTTGAAAGGA
66 TGACTTGTGGGCTTTGAAAAGA
*
938646 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
938710 TGATTTGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAAGA
*
938731 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
938796 TGACTTGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAAGA
* *
938817 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
938881 TGATTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAAGA
* *
938903 GTGCCATTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT-AAAAG-GTTGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCA
938965 CTGACTTGTGGGCTTTGAAAAGA
65 CTGACTTGTGGGCTTTGAAAAGA
*
938988 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
939052 TGACTCGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAAGA
*
939074 GTACCACTGACTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
939100 GGGATGAACA
Statistics
Matches: 729, Mismatches: 53, Indels: 33
0.89 0.07 0.04
Matches are distributed among these distances:
84 48 0.07
85 220 0.30
86 403 0.55
87 32 0.04
88 6 0.01
89 9 0.01
90 1 0.00
91 10 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (87 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
TGACTTGTGGGCTTTGAAAAGA
Found at i:940357 original size:11 final size:12
Alignment explanation
Indices: 940342--940371 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
940332 TTTTCTTGGT
940342 TTTTTTGTTTTG
1 TTTTTTGTTTTG
940354 TTTTTTGTTTT-
1 TTTTTTGTTTTG
940365 TTTTTTG
1 TTTTTTG
940372 GTGTAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTGTTTTG
Found at i:950087 original size:19 final size:19
Alignment explanation
Indices: 950063--950102 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
950053 AAATAATGGG
*
950063 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
950082 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
950101 AA
1 AA
950103 AATGGCCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:952159 original size:97 final size:97
Alignment explanation
Indices: 951993--952228 Score: 418
Period size: 97 Copynumber: 2.4 Consensus size: 97
951983 AAAAAAAACG
* * *
951993 GGGTTAGAGTATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATTATGACAATTTAAGCGAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGA
952058 ATAAGATTTGAATCTTGACAAGTTTAAAAGCA
66 ATAAGATTTGAATCTTGACAAGTTTAAAAGCA
952090 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGA
952155 ATAAGATTTGAATCTTGACAAGTTTAAAAGCA
66 ATAAGATTTGAATCTTGACAAGTTTAAAAGCA
* * *
952187 GGGTTGGAGTATCCCTTCAGAGGAATGGGGTTGGAGTATCCC
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCC
952229 AATGAATAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 133 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGA
ATAAGATTTGAATCTTGACAAGTTTAAAAGCA
Found at i:954450 original size:40 final size:38
Alignment explanation
Indices: 954402--954478 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 38
954392 GGTAAAAAGA
*
954402 CATAATGTATCAATACATTGAAGAATATATCGATACATT
1 CATAATGTATCAATACATTGAAAAATATATC-ATACATT
* * *
954441 CATACATGTATCGATATATTGAAAAATGTATCATACAT
1 CATA-ATGTATCAATACATTGAAAAATATATCATACAT
954479 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 10 0.30
40 23 0.70
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (38 bp):
CATAATGTATCAATACATTGAAAAATATATCATACATT
Found at i:954452 original size:20 final size:20
Alignment explanation
Indices: 954405--954478 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
954395 AAAAAGACAT
* * *
954405 AATGTATCAATACATTGAAG
1 AATGTATCGATACATTCAAA
* *
954425 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
954445 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
954465 AATGTATC-ATACAT
1 AATGTATCGATACAT
954479 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:962155 original size:21 final size:22
Alignment explanation
Indices: 962109--962153 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
962099 TTGCAAGATG
962109 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
962131 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
962151 AAA
1 AAA
962154 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:963977 original size:15 final size:15
Alignment explanation
Indices: 963957--963987 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
963947 TAAAAATGTC
*
963957 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
963972 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
963987 C
1 C
963988 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:966069 original size:13 final size:13
Alignment explanation
Indices: 966051--966102 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
966041 ACATTTTTCT
966051 TTGTATCGATACA
1 TTGTATCGATACA
966064 TTGTATCGATACA
1 TTGTATCGATACA
966077 TTGTATCGATACA
1 TTGTATCGATACA
966090 TTGTATCGATACA
1 TTGTATCGATACA
966103 GGGTGATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:966266 original size:20 final size:20
Alignment explanation
Indices: 966223--966268 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
966213 AAATCTTTTG
966223 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
966244 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
966264 CAAAA
1 CAAAA
966269 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:968666 original size:13 final size:13
Alignment explanation
Indices: 968648--968673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
968638 TACACCAAGT
968648 ATGTATCGATACA
1 ATGTATCGATACA
968661 ATGTATCGATACA
1 ATGTATCGATACA
968674 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:968671 original size:32 final size:33
Alignment explanation
Indices: 968630--968693 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
968620 TAGCCAAACT
* **
968630 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
968662 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
968694 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:976773 original size:13 final size:13
Alignment explanation
Indices: 976755--976780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
976745 AATGAACATT
976755 GGATTATCATTTA
1 GGATTATCATTTA
976768 GGATTATCATTTA
1 GGATTATCATTTA
976781 TGTACGGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GGATTATCATTTA
Found at i:977239 original size:1 final size:1
Alignment explanation
Indices: 977233--977259 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
977223 GTGATTGATT
977233 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
977260 ATTTCTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:977691 original size:2 final size:2
Alignment explanation
Indices: 977679--977717 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
977669 AATAGTTAGC
*
977679 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
977718 TTACTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:982624 original size:164 final size:164
Alignment explanation
Indices: 982349--982667 Score: 548
Period size: 164 Copynumber: 1.9 Consensus size: 164
982339 AGATTACTAA
* * *
982349 AATGTTTTTACTGGTATTCGCTTAGATAGCGGTTAACTGTTGGTGAAACTATTAGTGATAATTTT
1 AATGTTTTTACTAGCATTCGCCTAGATAGCGGTTAACTGTTGGTGAAACTATTAGTGATAATTTT
* * *
982414 TTGACCTTTTATCGACATTTATAAGTGTCGATAGAATTGACTTTTCTTGTAGTGTTACTTGGTTC
66 TTGACCTTTTATCGACATTTATAAGTGTCAATAAAATTGACTTTTCTTGTAATGTTACTTGGTTC
982479 ACTAGTAGTGTATAAATTTATACATATACATTAG
131 ACTAGTAGTGTATAAATTTATACATATACATTAG
* *
982513 AATGTTTTTACTAGCATTTGCCTAGCTAGCGGTTAACTGTTGGTGAAACTATTAGTGATAATTTT
1 AATGTTTTTACTAGCATTCGCCTAGATAGCGGTTAACTGTTGGTGAAACTATTAGTGATAATTTT
* *
982578 TTGACCTTTTATCGACATTTATAAGTGTCAATAAAATTGGCTTTTCTTGTAATGTTATTTGGTTC
66 TTGACCTTTTATCGACATTTATAAGTGTCAATAAAATTGACTTTTCTTGTAATGTTACTTGGTTC
982643 ACTAGTAGTGTATAAATTTATACAT
131 ACTAGTAGTGTATAAATTTATACAT
982668 GTGCATCAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 145 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (164 bp):
AATGTTTTTACTAGCATTCGCCTAGATAGCGGTTAACTGTTGGTGAAACTATTAGTGATAATTTT
TTGACCTTTTATCGACATTTATAAGTGTCAATAAAATTGACTTTTCTTGTAATGTTACTTGGTTC
ACTAGTAGTGTATAAATTTATACATATACATTAG
Found at i:984575 original size:76 final size:78
Alignment explanation
Indices: 984493--984645 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 78
984483 TATTGAAATA
* * * ** * *
984493 AATTTTAGATTTTTTAATAATG-AA-ACATTTATTGCATACAAA-TATGAAAAATTAAAATTTTT
1 AATTTTAAATTATATAATAATGAAATACATTTATCACATAAAAATTAT-AAAAAATAAAATTTTT
984555 AATATTAATAGACC
65 AATATTAATAGACC
* *
984569 AATTTTAAATTATATAATAATGAAATACATTTATCATATAAAAATTATAAAAAATAAATTTTTTA
1 AATTTTAAATTATATAATAATGAAATACATTTATCACATAAAAATTATAAAAAATAAAATTTTTA
*
984634 ATATTTATAGAC
66 ATATTAATAGAC
984646 TACTTCTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
76 19 0.30
77 2 0.03
78 40 0.62
79 3 0.05
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (78 bp):
AATTTTAAATTATATAATAATGAAATACATTTATCACATAAAAATTATAAAAAATAAAATTTTTA
ATATTAATAGACC
Found at i:987060 original size:13 final size:13
Alignment explanation
Indices: 987042--987068 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
987032 ATAAAGAATC
987042 AGATTCAATAATT
1 AGATTCAATAATT
987055 AGATTCAATAATT
1 AGATTCAATAATT
987068 A
1 A
987069 CATTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AGATTCAATAATT
Found at i:989222 original size:94 final size:94
Alignment explanation
Indices: 989045--989240 Score: 229
Period size: 94 Copynumber: 2.1 Consensus size: 94
989035 AAGGTCCTTA
* * * *
989045 ATCCCATAGTTTCTTTAATGGGAAAATTCCATCATGGTTAAGTAATTAAGAGTCATAAACTTTCT
1 ATCCCATAATTTCATTAATGGGAAAATTCCATCATGCTTAAGTAATTAAGAGTCATAAACTATCT
*
989110 TTATTTTATGTTTTATTAATTTGTTAATC
66 TTATTATATGTTTTATTAATTTGTTAATC
* * * **
989139 ATCCCATAATTTCATTAGTGGGAAAATTTCATCCTGCTTAAGTAATTAAGAGTCATGCAC-ATC-
1 ATCCCATAATTTCATTAATGGGAAAATTCCATCATGCTTAAGTAATTAAGAGTCATAAACTATCT
* ** *
989202 -TATTATATATTTT-TTAATTAATTAGTC
66 TTATTATATGTTTTATTAATTTGTTAATC
*
989229 ATTCCATAATTT
1 ATCCCATAATTT
989241 ACTGTGTCTT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
90 22 0.25
91 11 0.13
93 2 0.02
94 52 0.60
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (94 bp):
ATCCCATAATTTCATTAATGGGAAAATTCCATCATGCTTAAGTAATTAAGAGTCATAAACTATCT
TTATTATATGTTTTATTAATTTGTTAATC
Found at i:997058 original size:32 final size:33
Alignment explanation
Indices: 997017--997100 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 33
997007 CTTAGTTAAA
*
997017 AATAAAATTAATTAGAATTATTAA-TTACTAAG-
1 AATAAAATTAATTAGAATT-TTAATTTAATAAGT
997049 AATAAAATTAATTA-ATATTTTAATTTAATAAGT
1 AATAAAATTAATTAGA-ATTTTAATTTAATAAGT
*
997082 AAAAAAATTAATTAAGAAT
1 AATAAAATTAATT-AGAAT
997101 AAAAAGAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
31 5 0.11
32 24 0.53
33 12 0.27
34 3 0.07
35 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (33 bp):
AATAAAATTAATTAGAATTTTAATTTAATAAGT
Found at i:997094 original size:21 final size:20
Alignment explanation
Indices: 997068--997120 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
997058 AATTAATATT
997068 TTAATTTAATAAGTAAAAA-AA
1 TTAA-TTAATAA-TAAAAAGAA
* *
997089 TTAATTAAGAATAAAAAGAG
1 TTAATTAATAATAAAAAGAA
997109 TTAACTTAATAA
1 TTAA-TTAATAA
997121 ATTGTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.22
20 11 0.41
21 10 0.37
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (20 bp):
TTAATTAATAATAAAAAGAA
Found at i:1004437 original size:20 final size:20
Alignment explanation
Indices: 1004414--1004486 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1004404 ACAATTCAAA
1004414 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1004434 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1004455 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1004475 GTATCGATACAT
1 GTATCGATACAT
1004487 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1004458 original size:21 final size:21
Alignment explanation
Indices: 1004432--1004507 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1004422 ACATGTTGCA
1004432 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1004453 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1004473 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1004494 ATGTATCGATACAT
1 ATGTATCGATACAT
1004508 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1004465 original size:41 final size:41
Alignment explanation
Indices: 1004414--1004507 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1004404 ACAATTCAAA
*
1004414 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1004455 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1004496 GTATCGATACAT
1 GTATCGATACAT
1004508 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1004564 original size:13 final size:13
Alignment explanation
Indices: 1004546--1004571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1004536 TACAGCAAGT
1004546 ATGTATCGATACA
1 ATGTATCGATACA
1004559 ATGTATCGATACA
1 ATGTATCGATACA
1004572 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1006818 original size:21 final size:21
Alignment explanation
Indices: 1006785--1006829 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1006775 TTGCAAGTTG
*
1006785 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1006807 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1006827 AAA
1 AAA
1006830 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1008654 original size:15 final size:15
Alignment explanation
Indices: 1008634--1008664 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1008624 TAAAAATGTC
*
1008634 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1008649 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1008664 C
1 C
1008665 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1010754 original size:13 final size:13
Alignment explanation
Indices: 1010736--1010773 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1010726 CATTTTTATT
1010736 TGTATCGATACAA
1 TGTATCGATACAA
*
1010749 TGTATCGATACAC
1 TGTATCGATACAA
1010762 TGTATCGATACA
1 TGTATCGATACA
1010774 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1013225 original size:20 final size:20
Alignment explanation
Indices: 1013202--1013274 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1013192 ACAATTCAAA
1013202 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1013222 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1013243 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1013263 GTATCGATACAT
1 GTATCGATACAT
1013275 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1013246 original size:21 final size:21
Alignment explanation
Indices: 1013220--1013295 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1013210 ACATGTTGCA
1013220 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1013241 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1013261 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1013282 ATGTATCGATACAT
1 ATGTATCGATACAT
1013296 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1013253 original size:41 final size:41
Alignment explanation
Indices: 1013202--1013295 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1013192 ACAATTCAAA
*
1013202 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1013243 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1013284 GTATCGATACAT
1 GTATCGATACAT
1013296 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1013352 original size:13 final size:13
Alignment explanation
Indices: 1013334--1013359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1013324 TACAGCAAGT
1013334 ATGTATCGATACA
1 ATGTATCGATACA
1013347 ATGTATCGATACA
1 ATGTATCGATACA
1013360 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1016652 original size:21 final size:21
Alignment explanation
Indices: 1016615--1016655 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1016605 TCATCTAACA
1016615 AGCCTATGTTCACGCATTTTG
1 AGCCTATGTTCACGCATTTTG
*
1016636 AGCC-ATGTTACATGCATTTT
1 AGCCTATGTT-CACGCATTTT
1016656 AACATGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (21 bp):
AGCCTATGTTCACGCATTTTG
Found at i:1017737 original size:13 final size:13
Alignment explanation
Indices: 1017719--1017744 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1017709 TTGCTCCCAA
1017719 AATGGGATAGCAC
1 AATGGGATAGCAC
1017732 AATGGGATAGCAC
1 AATGGGATAGCAC
1017745 GAATACTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (13 bp):
AATGGGATAGCAC
Found at i:1018405 original size:20 final size:20
Alignment explanation
Indices: 1018380--1018556 Score: 111
Period size: 20 Copynumber: 8.8 Consensus size: 20
1018370 TTTTCACAAT
1018380 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* *
1018400 TTGTATCAATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1018420 TTGTATCGATACATTCTGGGTTTACCTA
1 TTGTATCGATACA-T-T--G-TT--C-A
*
1018448 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
* **
1018469 TTGTATCGATACGTTACTCA
1 TTGTATCGATACATTGTTCA
1018489 TTGTATCGAT--A----T-A
1 TTGTATCGATACATTGTTCA
*
1018502 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1018522 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
* *
1018542 ATGTATTGATACATT
1 TTGTATCGATACATT
1018557 CAGGCATTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
13 11 0.09
14 1 0.01
15 1 0.01
19 2 0.02
20 86 0.68
21 3 0.02
22 2 0.02
23 2 0.02
24 1 0.01
25 1 0.01
27 2 0.02
28 2 0.02
29 12 0.10
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1018510 original size:33 final size:33
Alignment explanation
Indices: 1018468--1018532 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1018458 TACATTTTGC
*
1018468 ATTGTATCGATACGTTACTCATTGTATCGATAT
1 ATTGTATCGATACATTACTCATTGTATCGATAT
*
1018501 ATTGTATCGATACATTGCTCATTGTATCGATA
1 ATTGTATCGATACATTACTCATTGTATCGATA
1018533 CATTTTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
ATTGTATCGATACATTACTCATTGTATCGATAT
Found at i:1018536 original size:13 final size:13
Alignment explanation
Indices: 1018487--1018517 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1018477 ATACGTTACT
1018487 CATTGTATCGATA
1 CATTGTATCGATA
*
1018500 TATTGTATCGATA
1 CATTGTATCGATA
1018513 CATTG
1 CATTG
1018518 CTCATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1020977 original size:51 final size:50
Alignment explanation
Indices: 1020844--1021019 Score: 178
Period size: 51 Copynumber: 3.5 Consensus size: 50
1020834 ATTTCTAGAT
* * *
1020844 TTTTCAT-CTCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAA
1 TTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAA
* ** * * * *
1020893 TTTTTCTTAAT-TAGGATACTCCAACTCCAATTTTATTTCTAAAACACCCA
1 -TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAA
*
1020943 TTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCGAC
1 TTTT-CATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC-AA
* *
1020995 TTTTCACAATCGGGGATACTTCAAC
1 TTTTCATAATCGGGGATACTCCAAC
1021020 CCCGTTATTT
Statistics
Matches: 101, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.04
50 40 0.40
51 53 0.52
52 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (50 bp):
TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAA
Found at i:1021126 original size:76 final size:77
Alignment explanation
Indices: 1020955--1021437 Score: 549
Period size: 79 Copynumber: 6.2 Consensus size: 77
1020945 TTCCATAATC
* * * * *
1020955 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCGACTTTTCACAATCGGGGATACTTCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATC-AATTTT-TCAATCGGGGATACTCCAAC
*
1021020 CCCGTTATTTTTGA
64 CCCGTTATTTTCGA
* *
1021034 GGGGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTC-ATCGGGGACACTCCAACCC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCC
1021098 CGTTATTTTCGA
66 CGTTATTTTCGA
* * * * *
1021110 GAGGATACCCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC-ATCGGAGATATTCCAACCC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCC
*
1021174 CGTTATTTTCAA
66 CGTTATTTTCGA
* * ** * * * * *
1021186 GGGGATACCCCAACCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCAGGGATATTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTC--AATCGGGGATACTCCAAC
* *
1021251 CCCGTTATTTCCAA
64 CCCGTTATTTTCGA
* *
1021265 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAATATCAATTTTTCATAGTCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCA-A-TCGGGGATACTCCAAC
*
1021329 CCCCTTATTTTCGA
64 CCCGTTATTTTCGA
* * ** * *
1021343 GAGGATACTCCAATCCCGATTTTATTTCTAAATTATCGATTTTTCACAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTT--CAATCGGGGATACTCCAAC
*
1021408 CCCGTTATTTTTGA
64 CCCGTTATTTTCGA
*
1021422 GGGGATACTCTAACCC
1 GGGGATACTCCAACCC
1021438 TATTATTATC
Statistics
Matches: 351, Mismatches: 45, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
76 136 0.39
77 2 0.01
78 69 0.20
79 141 0.40
80 1 0.00
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (77 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCC
CGTTATTTTCGA
Found at i:1021374 original size:157 final size:153
Alignment explanation
Indices: 1020955--1021437 Score: 567
Period size: 157 Copynumber: 3.1 Consensus size: 153
1020945 TTCCATAATC
* * * * *
1020955 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCGACTTTTCACAATCGGGGATACTTCAAC
1 GGGGATACTCCAAC-CCGGTTTTATTTCTAAAACATC-AATTTT-TCAATCGGGGATACTCCAAC
* * * * *
1021020 CCCGTTATTTTTGAGGGGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTT--TCATCG
63 CCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTTATTTCTAAAATATCAATTTTCATAATCA
*
1021083 GGGACACTCCAACCCCGTTATTTTCGA
127 GGGATACTCCAACCCCGTTATTTTCGA
* * * *
1021110 GAGGATACCCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC-ATCGGAGATATTCCAACCC
1 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCC
* * ** *
1021174 CGTTATTTTCAAGGGGATACCCCAACCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCAG
65 CGTTATTTTCGAGGGGATACTCCAACCC-GATTTTATTTCTAAAATATCAATTT-TCATAATCAG
* * *
1021239 GGATATTCCAACCCCGTTATTTCCAA
128 GGATACTCCAACCCCGTTATTTTCGA
*
1021265 GGGGATACTCCAACCCGGTTTTATTTCTAAAATATCAATTTTTCATAGTCGGGGATACTCCAACC
1 GGGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTTCA-A-TCGGGGATACTCCAACC
* * * * *
1021330 CCCTTATTTTCGAGAGGATACTCCAATCCCGATTTTATTTCTAAATTATCGATTTTTCACAATCA
64 CCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTTATTTCTAAAATATC-AATTTTCATAATCA
*
1021395 GGGATACTCCAACCCCGTTATTTTTGA
127 GGGATACTCCAACCCCGTTATTTTCGA
*
1021422 GGGGATACTCTAACCC
1 GGGGATACTCCAACCC
1021438 TATTATTATC
Statistics
Matches: 275, Mismatches: 43, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
151 3 0.01
152 58 0.21
153 2 0.01
154 35 0.13
155 69 0.25
156 2 0.01
157 99 0.36
158 7 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (153 bp):
GGGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCCC
GTTATTTTCGAGGGGATACTCCAACCCGATTTTATTTCTAAAATATCAATTTTCATAATCAGGGA
TACTCCAACCCCGTTATTTTCGA
Found at i:1024679 original size:17 final size:17
Alignment explanation
Indices: 1024657--1024691 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1024647 ACACTTTTGG
1024657 TTAACCTTGATCATAGA
1 TTAACCTTGATCATAGA
1024674 TTAACCTTGATCATAGA
1 TTAACCTTGATCATAGA
1024691 T
1 T
1024692 ATTATACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (17 bp):
TTAACCTTGATCATAGA
Found at i:1024811 original size:108 final size:108
Alignment explanation
Indices: 1024679--1024900 Score: 295
Period size: 108 Copynumber: 2.1 Consensus size: 108
1024669 ATAGATTAAC
*
1024679 CTTGATCATAGATATTATACACTTTTGGTTAACCTTGATCAAA-TTTCTTAA-AGTTGTTTGACA
1 CTTGATCATAGATATTATACACTTTTGATTAACCTTGATCAAATTTTC-TAAGA-TTGTTTGACA
* * **
1024742 TGGTAGTTTGCTTCTTTCTTAAAAAAGAAAGTTCTTATATTACAA
64 TGATAGTTTGCGTCTTTCACAAAAAAGAAAGTTCTTATATTACAA
* * ** *
1024787 CTTGATCATAGATGTTATATACTTTTGATTAATTTTGATTAAATTTTCTAAGATTGTTTGACATG
1 CTTGATCATAGATATTATACACTTTTGATTAACCTTGATCAAATTTTCTAAGATTGTTTGACATG
* * *
1024852 ATAGTTTGCGTCTTTCACAAAAAAGAGAGTTTTTATGTTACAA
66 ATAGTTTGCGTCTTTCACAAAAAAGAAAGTTCTTATATTACAA
1024895 CTTGAT
1 CTTGAT
1024901 TTATTTTATT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
108 94 0.95
109 5 0.05
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (108 bp):
CTTGATCATAGATATTATACACTTTTGATTAACCTTGATCAAATTTTCTAAGATTGTTTGACATG
ATAGTTTGCGTCTTTCACAAAAAAGAAAGTTCTTATATTACAA
Found at i:1027283 original size:90 final size:91
Alignment explanation
Indices: 1027108--1027283 Score: 255
Period size: 90 Copynumber: 1.9 Consensus size: 91
1027098 ATAATCATAT
* * *
1027108 ACAACCTTTTTGATCAGTTAATAAAGTGCTTAACTTTTAATTTCATTAATCAAGATTCAATCAGG
1 ACAACCTTTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAATCAAGATTCAATCAGG
* *
1027173 ATTCTTAGTGCCATAATCTTATATTG
66 ATTCTTACTGCCAGAATCTTATATTG
* * *
1027199 ACAACC-TTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAATCAAGATTTAATTATG
1 ACAACCTTTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAATCAAGATTCAATCAGG
* *
1027263 ATTCTTACTGTCAGACTCTTA
66 ATTCTTACTGCCAGAATCTTA
1027284 GTTTCAATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 69 0.92
91 6 0.08
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (91 bp):
ACAACCTTTATGATCAATGAATAAAGTGCTTAACTTTTAATTTCATTAATCAAGATTCAATCAGG
ATTCTTACTGCCAGAATCTTATATTG
Found at i:1032416 original size:13 final size:13
Alignment explanation
Indices: 1032407--1032440 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
1032397 AGTGATACAA
1032407 GAGAGGGATACTT
1 GAGAGGGATACTT
1032420 GAGAGGGATACTT
1 GAGAGGGATACTT
1032433 GAGAGGGA
1 GAGAGGGA
1032441 GAAGGGAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (13 bp):
GAGAGGGATACTT
Found at i:1032529 original size:23 final size:25
Alignment explanation
Indices: 1032494--1032539 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1032484 AATAAAAATT
*
1032494 AGCCACTAA-TTTTGACAAACAACA
1 AGCCACTAATTTTTGAAAAACAACA
1032518 AGCCAC-AATTTTTGAAAAACAA
1 AGCCACTAATTTTTGAAAAACAA
1032540 AAAGGAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.22
Consensus pattern (25 bp):
AGCCACTAATTTTTGAAAAACAACA
Found at i:1032556 original size:27 final size:27
Alignment explanation
Indices: 1032520--1032598 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
1032510 AAACAACAAG
* * *
1032520 CCACAATTTTTGAAAAACAAAAAGGAA
1 CCACCATTTTTGACAAACACAAAGGAA
* *
1032547 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACACAAAGGAA
1032574 CCACCATTTTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACACAAAGG
1032599 GTAGCTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.22
Consensus pattern (27 bp):
CCACCATTTTTGACAAACACAAAGGAA
Found at i:1036873 original size:24 final size:24
Alignment explanation
Indices: 1036845--1036890 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1036835 AATAAAAATT
1036845 AGCCACAAATTTTCACAAACAACA
1 AGCCACAAATTTTCACAAACAACA
* *
1036869 AGCCACAATTTTTTACAAACAA
1 AGCCACAAATTTTCACAAACAA
1036891 AAAGGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (24 bp):
AGCCACAAATTTTCACAAACAACA
Found at i:1036913 original size:27 final size:27
Alignment explanation
Indices: 1036871--1036949 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
1036861 AAACAACAAG
* * *
1036871 CCACAATTTTTTACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACACAAAGGAA
* * * **
1036898 TCATCATTTTTGACAAATACAAATTAA
1 CCACCATTTTTGACAAACACAAAGGAA
1036925 CCACCATTTTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACACAAAGG
1036950 GTGGCTTTTG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
CCACCATTTTTGACAAACACAAAGGAA
Done.