Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold372
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: 1060101
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 7 of 9
Found at i:818432 original size:13 final size:13
Alignment explanation
Indices: 818414--818486 Score: 83
Period size: 13 Copynumber: 5.6 Consensus size: 13
818404 AAAGAATTGA
*
818414 AGAGGGATACAAG
1 AGAGGGATACATG
* *
818427 AGAGGGATGCTTG
1 AGAGGGATACATG
* *
818440 AAAGGGATACAAG
1 AGAGGGATACATG
* *
818453 AGAGGGATGCTTG
1 AGAGGGATACATG
818466 AGAGGGATACATG
1 AGAGGGATACATG
818479 AGAGGGAT
1 AGAGGGAT
818487 TAGGGAGCCT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.37, C:0.07, G:0.41, T:0.15
Consensus pattern (13 bp):
AGAGGGATACATG
Found at i:818446 original size:26 final size:26
Alignment explanation
Indices: 818410--818486 Score: 127
Period size: 26 Copynumber: 2.9 Consensus size: 26
818400 TGAGAAAGAA
818410 TTGAAGAGGGATACAAGAGAGGGATGC
1 TTGAA-AGGGATACAAGAGAGGGATGC
818437 TTGAAAGGGATACAAGAGAGGGATGC
1 TTGAAAGGGATACAAGAGAGGGATGC
* *
818463 TTGAGAGGGATACATGAGAGGGAT
1 TTGAAAGGGATACAAGAGAGGGAT
818487 TAGGGAGCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 43 0.90
27 5 0.10
ACGTcount: A:0.36, C:0.06, G:0.40, T:0.17
Consensus pattern (26 bp):
TTGAAAGGGATACAAGAGAGGGATGC
Found at i:818596 original size:27 final size:26
Alignment explanation
Indices: 818566--818636 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 26
818556 AACAACAAGC
* *
818566 CACCATTTTTTACAAACAAAAAATAAT
1 CACCATATTTGACAAACAAAAAA-AAT
*
818593 CACCATATTTGACAAATACAAAAGAAAT
1 CACCATATTTGAC-AA-ACAAAAAAAAT
818621 CACCATATTTGACAAA
1 CACCATATTTGACAAA
818637 TACAAAGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 13 0.33
28 18 0.46
29 7 0.18
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (26 bp):
CACCATATTTGACAAACAAAAAAAAT
Found at i:818624 original size:28 final size:29
Alignment explanation
Indices: 818581--818642 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
818571 TTTTTTACAA
818581 ACAAAAAATAATCACCATATTTGACAAAT
1 ACAAAAAATAATCACCATATTTGACAAAT
*
818610 ACAAAAGA-AATCACCATATTTGACAAAT
1 ACAAAAAATAATCACCATATTTGACAAAT
818638 ACAAA
1 ACAAA
818643 GGGTGATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (29 bp):
ACAAAAAATAATCACCATATTTGACAAAT
Found at i:819505 original size:19 final size:20
Alignment explanation
Indices: 819471--819511 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
819461 TAAAATACAT
*
819471 ATTTTTTATTATATTTTTAA
1 ATTTTTTATTATATTTATAA
819491 ATTTTTTATTA-ATTTATAA
1 ATTTTTTATTATATTTATAA
819510 AT
1 AT
819512 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTATTATATTTATAA
Found at i:820390 original size:12 final size:12
Alignment explanation
Indices: 820363--820417 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
820353 GTAAAATTAA
*
820363 TTAAATATTA-T
1 TTAATTATTATT
820374 TTAATTATTATT
1 TTAATTATTATT
*
820386 TTAATT-TTTTAT
1 TTAATTATTAT-T
820398 TTAATATATTATT
1 TTAAT-TATTATT
*
820411 TTTATTA
1 TTAATTA
820418 AATAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 12 0.33
12 15 0.42
13 6 0.17
14 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAATTATTATT
Found at i:822222 original size:21 final size:21
Alignment explanation
Indices: 822197--822283 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 21
822187 TTTTTTTGGT
**
822197 TAAAATTTATTTAATAGATAA
1 TAAAATTTAAATAATAGATAA
*
822218 TAAAATTAAAAATAATA-ATAA
1 TAAAATT-TAAATAATAGATAA
* *
822239 TAAAA-TTAATTATTATGATAA
1 TAAAATTTAAATAATA-GATAA
*
822260 TAAAA-TTATAT-ATAG-TAA
1 TAAAATTTAAATAATAGATAA
822278 TAAAAT
1 TAAAAT
822284 ATTTATCTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.15
19 7 0.13
20 3 0.06
21 29 0.55
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAAATTTAAATAATAGATAA
Found at i:822244 original size:42 final size:43
Alignment explanation
Indices: 822197--822289 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
822187 TTTTTTTGGT
822197 TAAAATTTATTTAATA-GATAATAAAATTAAAAATAATAATAA
1 TAAAATTTATTTAATATGATAATAAAATTAAAAATAATAATAA
* * * * *
822239 TAAAA-TTAATTATTATGATAATAAAATTATATATAGTAATAA
1 TAAAATTTATTTAATATGATAATAAAATTAAAAATAATAATAA
*
822281 -AATATTTAT
1 TAAAATTTAT
822290 CTAAACTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 11 0.26
42 31 0.74
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (43 bp):
TAAAATTTATTTAATATGATAATAAAATTAAAAATAATAATAA
Found at i:824174 original size:24 final size:24
Alignment explanation
Indices: 824138--824209 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
824128 ATTTTGCAAT
* *
824138 AGCCACCAATTTTGACAAACA-ACA
1 AGCCATCATTTTTGACAAACATA-A
824162 AGCCATCATTTTTGACAAACATAA
1 AGCCATCATTTTTGACAAACATAA
*
824186 AGGAATCATCATTTTTGACAAACA
1 A-G--CCATCATTTTTGACAAACA
824210 CAAATGGTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 21 0.51
25 2 0.05
27 18 0.44
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (24 bp):
AGCCATCATTTTTGACAAACATAA
Found at i:827055 original size:37 final size:35
Alignment explanation
Indices: 827009--827098 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 35
826999 TAAATGTGGG
* *
827009 ATAAGTATAATAATATATTATACATGATTATTTTATA
1 ATAAATATAATAATATATT-TACATGATTA-ATTATA
** *
827046 ATAAATAT-A-AATATAATTTTTATGATTAATTATT
1 ATAAATATAATAATAT-ATTTACATGATTAATTATA
827080 ATAAATATAATAATTATAT
1 ATAAATATAATAA-TATAT
827099 ATAATACTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
34 12 0.27
35 14 0.32
36 8 0.18
37 10 0.23
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (35 bp):
ATAAATATAATAATATATTTACATGATTAATTATA
Found at i:827095 original size:15 final size:15
Alignment explanation
Indices: 827042--827097 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
827032 ATGATTATTT
*
827042 TATAATAAATATAAA
1 TATAATAATTATAAA
** *
827057 TATAATTTTTAT-GA
1 TATAATAATTATAAA
*
827071 T-TAATTATTATAAA
1 TATAATAATTATAAA
827085 TATAATAATTATA
1 TATAATAATTATA
827098 TATAATACTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TATAATAATTATAAA
Found at i:827103 original size:28 final size:29
Alignment explanation
Indices: 827042--827104 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
827032 ATGATTATTT
**
827042 TATAATAAATATAAATATAATTTTTATGA
1 TATAATAAATATAAATATAATAATTATGA
* *
827071 T-TAATTATTATAAATATAATAATTAT-A
1 TATAATAAATATAAATATAATAATTATGA
827098 TATAATA
1 TATAATA
827105 CTAAAAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.07
28 25 0.89
29 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TATAATAAATATAAATATAATAATTATGA
Found at i:832241 original size:21 final size:21
Alignment explanation
Indices: 832162--832228 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 21
832152 AAAATTAATC
* *
832162 ATAATAAAATTA-AAATAATA
1 ATAATAAAATTATATATTATA
*
832182 ATAATAATATTATTAATTATTATA
1 ATAATAAAATTA-T-A-TATTATA
832206 ATAATAAAATTATATATTATA
1 ATAATAAAATTATATATTATA
832227 AT
1 AT
832229 GATGAGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 11 0.28
21 9 0.23
22 1 0.03
23 2 0.05
24 16 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAATAAAATTATATATTATA
Found at i:832330 original size:27 final size:28
Alignment explanation
Indices: 832291--832353 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
832281 TAAAAATCAG
832291 ATAAATAAATTTAATAATTTT-TTAATT-
1 ATAAATAAATTTAAT-ATTTTATTAATTC
** *
832318 ATAAATATTTTTAATATTTTATTATTTC
1 ATAAATAAATTTAATATTTTATTAATTC
832346 ATAAATAA
1 ATAAATAA
832354 TAATTAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.17
27 18 0.60
28 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAAATAAATTTAATATTTTATTAATTC
Found at i:832800 original size:12 final size:11
Alignment explanation
Indices: 832764--832811 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
832754 ATTTAGTTCA
*
832764 AAATATATTTT
1 AAATAAATTTT
*
832775 AAATTAAAATTT
1 AAA-TAAATTTT
832787 AAATAAATTATT
1 AAATAAATT-TT
*
832799 AAAAAAATTTT
1 AAATAAATTTT
832810 AA
1 AA
832812 TGCCATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 12 0.39
12 19 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATAAATTTT
Found at i:834158 original size:11 final size:12
Alignment explanation
Indices: 834112--834163 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 12
834102 ATAATACTAA
834112 TTAA-ATATTAT
1 TTAATATATTAT
834123 TTAAT-TATTATT
1 TTAATATATTA-T
834135 TATATATATATATAT
1 T-TA-ATATAT-TAT
834150 TTAATATATTAT
1 TTAATATATTAT
834162 TT
1 TT
834164 TTATTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 9 0.26
12 7 0.20
13 8 0.23
14 4 0.11
15 5 0.14
16 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATATATTAT
Found at i:834167 original size:30 final size:30
Alignment explanation
Indices: 834113--834197 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 30
834103 TAATACTAAT
834113 TAAATAT-TATTTAAT-TATTA--TTTATA
1 TAAATATATATTTAATATATTATTTTTATA
*
834139 TATATATATATTTAATATATTATTTTTAT-
1 TAAATATATATTTAATATATTATTTTTATA
* *
834168 TAAATA-AAATATAATATA-TATTATTTATA
1 TAAATATATATTTAATATATTATT-TTTATA
834197 T
1 T
834198 TTTTTTTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 6 0.12
27 12 0.24
28 20 0.41
29 6 0.12
30 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TAAATATATATTTAATATATTATTTTTATA
Found at i:834185 original size:39 final size:39
Alignment explanation
Indices: 834136--834211 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
834126 ATTATTATTT
834136 ATATATATATATATT-TAATATATTATTTTTATTAAATAAA
1 ATATATATATATATTAT-ATATATTATTTTTA-TAAATAAA
* *
834176 ATATA-ATATATATTATTTATATTTTTTTTATAAATA
1 ATATATATATATATTATATATATTATTTTTATAAATA
834212 TTATATTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 6 0.18
39 21 0.64
40 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (39 bp):
ATATATATATATATTATATATATTATTTTTATAAATAAA
Found at i:836296 original size:17 final size:18
Alignment explanation
Indices: 836274--836314 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
836264 AAAATATTAT
*
836274 ATTAAAATTTGTAA-ATA
1 ATTAAAATTTATAATATA
836291 ATT-AAATTTATAATATA
1 ATTAAAATTTATAATATA
*
836308 TTTAAAA
1 ATTAAAA
836315 AGGTAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 8 0.40
18 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAAATTTATAATATA
Found at i:836630 original size:17 final size:19
Alignment explanation
Indices: 836603--836665 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 19
836593 AAAATAATAT
*
836603 ATATTAATTATATTTTTTA
1 ATATAAATTATATTTTTTA
**
836622 A-A-AAATTATATTAATTA
1 ATATAAATTATATTTTTTA
836639 ATATAAATTA-ATTTTTTTAA
1 ATATAAATTATA-TTTTTT-A
836659 ATATAAA
1 ATATAAA
836666 AAAATATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 13 0.37
18 3 0.09
19 11 0.31
20 8 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATAAATTATATTTTTTA
Found at i:836639 original size:50 final size:50
Alignment explanation
Indices: 836546--836645 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
836536 AATATTATTT
* * * * * *
836546 AATAATTATTTTAATATTTTTATTTAATATATTATTTTTATTAA-ATAAA
1 AATAATTATATTAATATATTTATTTAAAAAATTATATTAATTAATATAAA
836595 AATAATATATATTAATTATATTT-TTTAAAAAATTATATTAATTAATATAAA
1 AATAAT-TATATTAA-TATATTTATTTAAAAAATTATATTAATTAATATAAA
836646 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
49 6 0.14
50 25 0.60
51 11 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (50 bp):
AATAATTATATTAATATATTTATTTAAAAAATTATATTAATTAATATAAA
Found at i:840468 original size:28 final size:27
Alignment explanation
Indices: 840415--840468 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
840405 TAAATAAAAT
**
840415 AATATATATTAATTATAATTTTTTATA
1 AATATATATTAATTATAATTAATTATA
840442 AATATTATATTAATTAATAA-TAATTAT
1 AATA-TATATTAATT-ATAATTAATTAT
840469 TATCATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 15 0.65
29 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATATATATTAATTATAATTAATTATA
Found at i:856267 original size:36 final size:35
Alignment explanation
Indices: 856188--856267 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
856178 TCAAAATGAC
*
856188 AAAA-AAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
856222 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
856257 AACAACAAAAA
1 AA-AACAAAAA
856268 TAAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 10 0.26
35 11 0.28
36 18 0.46
ACGTcount: A:0.71, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:856538 original size:14 final size:14
Alignment explanation
Indices: 856519--856546 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
856509 ACCTAATCCT
856519 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
856533 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
856547 TTTTCACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACC
Found at i:857641 original size:27 final size:27
Alignment explanation
Indices: 857598--858066 Score: 715
Period size: 27 Copynumber: 17.2 Consensus size: 27
857588 GTGGCATTTT
* *
857598 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
857626 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
857653 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
857681 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
857708 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
857736 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
857763 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
857790 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
857817 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
857844 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
857872 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
857899 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
857926 CTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
857954 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
*
857981 CTTTTAAGTCCACAACTCCGTGCCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
858008 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
858035 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
858062 CTTTT
1 CTTTT
858067 TGGCATCCCT
Statistics
Matches: 408, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
27 306 0.75
28 102 0.25
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:857666 original size:55 final size:54
Alignment explanation
Indices: 857598--858066 Score: 715
Period size: 55 Copynumber: 8.6 Consensus size: 54
857588 GTGGCATTTT
* * *
857598 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
857653 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
857708 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
857763 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
857817 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
857872 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
857926 CTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACC
* *
857981 CTTTTAAGTCCACAACTCCGTGCCACCCTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
858035 CTTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT
858067 TGGCATCCCT
Statistics
Matches: 385, Mismatches: 25, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
54 174 0.45
55 211 0.55
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.30
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:857698 original size:82 final size:81
Alignment explanation
Indices: 857598--858066 Score: 751
Period size: 82 Copynumber: 5.7 Consensus size: 81
857588 GTGGCATTTT
* *
857598 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
857663 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * *
857681 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
857746 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
857763 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
857828 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
857844 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
857909 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
857926 CTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGT
*
857990 CCACAACTCCGTGCCACC
64 CCACAACTCCGTGGCACC
* * *
858008 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
858067 TGGCATCCCT
Statistics
Matches: 363, Mismatches: 19, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
81 99 0.27
82 235 0.65
83 29 0.08
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.30
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:858106 original size:27 final size:27
Alignment explanation
Indices: 858067--858455 Score: 571
Period size: 27 Copynumber: 14.2 Consensus size: 27
858057 GCACTCTTTT
858067 TGGCATCCCTTTTAAGTCCACAACTCCG
1 TGGCA-CCCTTTTAAGTCCACAACTCCG
*
858095 TGGCACCCTTTTAAGACCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCG
* * *
858122 TGGCACTCTTTTAAGTCCATAACTCCA
1 TGGCACCCTTTTAAGTCCACAACTCCG
858149 TGGCATCCCTTTTAAGTCCACAACTCCG
1 TGGCA-CCCTTTTAAGTCCACAACTCCG
*
858177 TGGCACCCTTTTAAGACCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCG
*
858204 TAGCACCCTTTTAAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCG
* *
858231 TGGCACCCTTTTAAGTCCATAACTCTG
1 TGGCACCCTTTTAAGTCCACAACTCCG
** *
858258 TGGCATCTTTTTTAAGTCCACAACTCTG
1 TGGCA-CCCTTTTAAGTCCACAACTCCG
858286 TGGCACCCTTTTAAAGTCCACAACTCCG
1 TGGCACCCTTTT-AAGTCCACAACTCCG
*
858314 TGGCACCCTTTTTAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCG
*
858341 TGGCACCCTTTTTAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCG
858368 TGGCATCCCTTTTAAGTCCACAACTCCG
1 TGGCA-CCCTTTTAAGTCCACAACTCCG
858396 TGGCACCCTTTTAAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCG
* * * *
858423 TGGCATCCCTTTTAAATTCACAAATCGG
1 TGGCA-CCCTTTTAAGTCCACAACTCCG
858451 TGGCA
1 TGGCA
858456 ACCCATTCCA
Statistics
Matches: 330, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
27 202 0.61
28 128 0.39
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
TGGCACCCTTTTAAGTCCACAACTCCG
Found at i:858115 original size:67 final size:67
Alignment explanation
Indices: 858006--858133 Score: 238
Period size: 67 Copynumber: 1.9 Consensus size: 67
857996 CTCCGTGCCA
* *
858006 CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTGGC
1 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACTCTTTTTGGC
858071 AT
66 AT
858073 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACTCTTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACTCTTTT
858134 AAGTCCATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (67 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACTCTTTTTGGC
AT
Found at i:858170 original size:55 final size:55
Alignment explanation
Indices: 858067--858455 Score: 586
Period size: 55 Copynumber: 7.1 Consensus size: 55
858057 GCACTCTTTT
*
858067 TGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGACCACAACTCCG
1 TGGCA-CCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
* * *
858122 TGGCACTCTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
* *
858177 TGGCACCCTTTTAAGACCACAACTCCGTAGCA-CCCTTTTAAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
* * ** *
858231 TGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTG
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
*
858286 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTTAGTCCACAACTCCG
1 TGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
*
858341 TGGCACCCTTTTTAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
* * * *
858396 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGG
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
858451 TGGCA
1 TGGCA
858456 ACCCATTCCA
Statistics
Matches: 301, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
54 93 0.31
55 190 0.63
56 18 0.06
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (55 bp):
TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCG
Found at i:858204 original size:82 final size:81
Alignment explanation
Indices: 858067--858437 Score: 571
Period size: 82 Copynumber: 4.5 Consensus size: 81
858057 GCACTCTTTT
*
858067 TGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACTCTT
1 TGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTT
* *
858132 TTAAGTCCATAACTCCA
65 TTAAGTCCACAACTCCG
*
858149 TGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTAGCACCCTT
1 TGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTT
858214 TTAAGTCCACAACTCCG
65 TTAAGTCCACAACTCCG
* * ** * *
858231 TGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACCCTT
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGACCACAACTCCGTGGCACCCTT
858296 TTAAAGTCCACAACTCCG
65 TT-AAGTCCACAACTCCG
* * *
858314 TGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCATCCCTT
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCA-CCCTT
858379 TTAAGTCCACAACTCCG
65 TTAAGTCCACAACTCCG
858396 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAA
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAA
858438 ATTCACAAAT
Statistics
Matches: 265, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
81 25 0.09
82 181 0.68
83 59 0.22
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTT
TAAGTCCACAACTCCG
Found at i:858483 original size:32 final size:32
Alignment explanation
Indices: 858441--858851 Score: 662
Period size: 32 Copynumber: 12.8 Consensus size: 32
858431 CTTTTAAATT
* *
858441 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
858473 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
858505 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
858537 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
858569 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
858601 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
858633 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
858665 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
858697 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
858729 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
858761 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
858793 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
858825 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
858852 TCACCATTTT
Statistics
Matches: 358, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 352 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:863133 original size:23 final size:27
Alignment explanation
Indices: 863107--863167 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
863097 TTTTTGACAA
*
863107 ACAAAAATAAA-CAACCA-T-TT-TTG
1 ACAAATATAAAGCAACCACTATTGTTG
*
863130 ACAAATATAAAGTAACCACTATTGTTG
1 ACAAATATAAAGCAACCACTATTGTTG
863157 ACAAATATAAA
1 ACAAATATAAA
863168 TGGTGGCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 10 0.31
24 5 0.16
25 1 0.03
26 2 0.06
27 14 0.44
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (27 bp):
ACAAATATAAAGCAACCACTATTGTTG
Found at i:863369 original size:21 final size:21
Alignment explanation
Indices: 863327--863388 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
863317 AAAATTATTC
*
863327 ATAATAA-AACTAA-AAAAATA
1 ATAATAATAA-TAATAAAATTA
863347 ATAATAATAATAATAAAATTA
1 ATAATAATAATAATAAAATTA
* * *
863368 ATTATTATGATAATAAAATTA
1 ATAATAATAATAATAAAATTA
863389 TGTATCGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAATAATAATAATAAAATTA
Found at i:863401 original size:21 final size:21
Alignment explanation
Indices: 863353--863432 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
863343 AATAATAATA
*
863353 ATAATAATAAAATTAATTATT
1 ATAATAATAAAATTAATTATC
*
863374 ATGATAATAAAATT-ATGTATC
1 ATAATAATAAAATTAAT-TATC
* * *
863395 GTAATAATAAAAATATATTATT
1 ATAATAATAAAATTA-ATTATC
* *
863417 TTAAT-TTAAAATTAAT
1 ATAATAATAAAATTAAT
863433 AATAATTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.09
21 34 0.72
22 7 0.15
23 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (21 bp):
ATAATAATAAAATTAATTATC
Found at i:863440 original size:26 final size:29
Alignment explanation
Indices: 863406--863462 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
863396 TAATAATAAA
*
863406 AATATATT-ATTTTAATTT-AAAATTA-AT
1 AATATATTAAATTT-ATTTAAAAATTAGAT
863433 AATA-ATTAAATTTATTTAAAAATTAGAT
1 AATATATTAAATTTATTTAAAAATTAGAT
863461 AA
1 AA
863463 ATAAATTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 7 0.27
27 15 0.58
28 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AATATATTAAATTTATTTAAAAATTAGAT
Found at i:864056 original size:34 final size:33
Alignment explanation
Indices: 864018--864081 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
864008 TTGATTTGAA
*
864018 TTAA-TTTAAAAAATTATAATTAATATATTATATT
1 TTAATTTTAAAAAA-TATAATCAA-ATATTATATT
864052 TTAATTTTAAAAAATATAATCAAATATTAT
1 TTAATTTTAAAAAATATAATCAAATATTAT
864082 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.25
34 12 0.43
35 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (33 bp):
TTAATTTTAAAAAATATAATCAAATATTATATT
Found at i:864186 original size:22 final size:22
Alignment explanation
Indices: 864151--864195 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
864141 CTTTTAAACT
*
864151 AATTTTTACTATTATATTTTTAA
1 AATTTTTACTATTA-ATTTATAA
*
864174 AATTTTTTC-ATTAATTTATAA
1 AATTTTTACTATTAATTTATAA
864195 A
1 A
864196 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTTTACTATTAATTTATAA
Found at i:866428 original size:4 final size:4
Alignment explanation
Indices: 866419--866446 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
866409 GTTTGTGTAT
866419 ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG
866447 TGAAACATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
ATGG
Found at i:866890 original size:17 final size:17
Alignment explanation
Indices: 866838--866923 Score: 62
Period size: 15 Copynumber: 5.4 Consensus size: 17
866828 AAATATATCT
866838 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
*
866854 -AGAA-TTAT-TAACATA
1 TAAAATTTATATAA-ATA
866869 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
* *
866887 TAAAATTT-TTTTAA-A
1 TAAAATTTATATAAATA
866902 TAAAA-TTATAATAAA-A
1 TAAAATTTAT-ATAAATA
866918 TAAAAT
1 TAAAAT
866924 ATGTGAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
13 1 0.02
14 7 0.13
15 13 0.24
16 13 0.24
17 11 0.20
18 7 0.13
19 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:867051 original size:2 final size:2
Alignment explanation
Indices: 867032--867074 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
867022 GGAATCAATG
* *
867032 AT AT AA AT AT AC 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
867074 A
1 A
867075 GTAGGACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:867787 original size:37 final size:36
Alignment explanation
Indices: 867746--867818 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
867736 GAAAAACTTG
* *
867746 ATGTTCTTAATTATTGAAAAATAATAATTTTGATATT
1 ATGTTCTTAATTAATGAAAAATAAT-ATATTGATATT
* *
867783 ATGTTCTTCATTAATGATAAATAATATATTGATATT
1 ATGTTCTTAATTAATGAAAAATAATATATTGATATT
867819 CTAATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 10 0.31
37 22 0.69
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (36 bp):
ATGTTCTTAATTAATGAAAAATAATATATTGATATT
Found at i:868504 original size:21 final size:21
Alignment explanation
Indices: 868478--868518 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
868468 AAATCTTATA
*
868478 ATTATAGTTTGAGTTTTTTCG
1 ATTATAATTTGAGTTTTTTCG
868499 ATTATAATTTGAGTTTTTTC
1 ATTATAATTTGAGTTTTTTC
868519 AAGCTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.59
Consensus pattern (21 bp):
ATTATAATTTGAGTTTTTTCG
Found at i:872556 original size:2 final size:2
Alignment explanation
Indices: 872551--872584 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
872541 CACACACATA
872551 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
872585 TTTTGGTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877115 original size:19 final size:20
Alignment explanation
Indices: 877081--877121 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
877071 TAAAATAGAT
*
877081 ATTTTTTATTATATTTTTAA
1 ATTTTTTATTATATTTATAA
877101 ATTTTTTATTA-ATTTATAA
1 ATTTTTTATTATATTTATAA
877120 AT
1 AT
877122 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTATTATATTTATAA
Found at i:879296 original size:14 final size:14
Alignment explanation
Indices: 879277--879368 Score: 73
Period size: 14 Copynumber: 6.4 Consensus size: 14
879267 TAATTAAAAA
879277 TAATATATATTAAT
1 TAATATATATTAAT
879291 TAATATATATTAAT
1 TAATATATATTAAT
* * *
879305 T-ATAAATTTTTAT
1 TAATATATATTAAT
*
879318 AAATATTATATTAAT
1 TAATA-TATATTAAT
879333 TAATA-ATAATT-AT
1 TAATATAT-ATTAAT
*
879346 TATCATTAAATATTAAT
1 TA--A-TATATATTAAT
879363 TAATAT
1 TAATAT
879369 TTTTTAAATA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 15 0.25
14 23 0.38
15 12 0.20
16 5 0.08
17 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATATATTAAT
Found at i:879333 original size:28 final size:27
Alignment explanation
Indices: 879292--879379 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 27
879282 TATATTAATT
879292 AATATATATTAATTATAAATTTTTATA
1 AATATATATTAATTATAAATTTTTATA
* *
879319 AATATTATATTAATTAATAATAATTATTATC
1 AATA-TATATTAATT-AT-A-AATTTTTATA
* * *
879350 ATTAAATATTAATTA-ATATTTTT-TA
1 AATATATATTAATTATAAATTTTTATA
879375 AATAT
1 AATAT
879380 TAAAAAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 5 0.10
28 10 0.21
29 3 0.06
30 10 0.21
31 11 0.23
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
AATATATATTAATTATAAATTTTTATA
Found at i:879369 original size:10 final size:10
Alignment explanation
Indices: 879264--879369 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 10
879254 TAATTATTTT
879264 TATTAATTAA
1 TATTAATTAA
* *
879274 AAATAA-TATA
1 TATTAATTA-A
879284 TATTAATTAA
1 TATTAATTAA
879294 TA-TATATTAA
1 TATTA-ATTAA
* **
879304 TTATAAATTTT
1 -TATTAATTAA
* *
879315 TATAAATATTA
1 TATTAAT-TAA
879326 TATTAATTAA
1 TATTAATTAA
* *
879336 TAATAATTAT
1 TATTAATTAA
*
879346 TA-TCATTAAA
1 TATTAATT-AA
879356 TATTAATTAA
1 TATTAATTAA
879366 TATT
1 TATT
879370 TTTTAAATAT
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
9 8 0.11
10 45 0.62
11 19 0.26
12 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (10 bp):
TATTAATTAA
Found at i:879378 original size:11 final size:11
Alignment explanation
Indices: 879264--879382 Score: 50
Period size: 10 Copynumber: 10.5 Consensus size: 11
879254 TAATTATTTT
879264 TATTAATTAAA
1 TATTAATTAAA
* *
879275 -AATAA-TATA
1 TATTAATTAAA
879284 TATTAATTAATATA
1 TATTAATT-A-A-A
879298 TATTAATTATAA
1 TATTAATTA-AA
**
879310 -ATTTTTATAAA
1 TATTAAT-TAAA
*
879321 TATTATATTAAT
1 TATTA-ATTAAA
* *
879333 TAATAA-TAAT
1 TATTAATTAAA
879343 TATTATCATTAAA
1 TATTA--ATTAAA
879356 TATTAATT-AA
1 TATTAATTAAA
**
879366 TATTTTTTAAA
1 TATTAATTAAA
879377 TATTAA
1 TATTAA
879383 AAAAATAATA
Statistics
Matches: 80, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
9 3 0.04
10 24 0.30
11 17 0.21
12 15 0.19
13 12 0.15
14 9 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTAATTAAA
Found at i:880097 original size:12 final size:11
Alignment explanation
Indices: 880061--880107 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
880051 ATTTCATCCA
*
880061 AAATATATTTT
1 AAATAAATTTT
*
880072 AAATTAAAATTT
1 AAA-TAAATTTT
880084 AAATAAATTATT
1 AAATAAATT-TT
880096 AAA-AAATTTT
1 AAATAAATTTT
880106 AA
1 AA
880108 TATCATTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.13
11 13 0.42
12 14 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AAATAAATTTT
Found at i:880213 original size:22 final size:23
Alignment explanation
Indices: 880161--880216 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
880151 ATTATATTTT
*
880161 AAATTTT-TTAAAAAATATAATC
1 AAATTTTATTTAAAAATATAATC
* *
880183 AAATATTATTTAAAATTA-AATC
1 AAATTTTATTTAAAAATATAATC
880205 AAATTTTATTTA
1 AAATTTTATTTA
880217 TTTGTATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTTTATTTAAAAATATAATC
Found at i:881514 original size:2 final size:2
Alignment explanation
Indices: 881507--881531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
881497 TCTTCACGGT
881507 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 T
881532 GGTGGGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:881598 original size:27 final size:27
Alignment explanation
Indices: 881564--881636 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
881554 GCTACCCATT
881564 TGTTTGTCAAAAATGGTGATTAT-TTTG
1 TGTTTGTCAAAAATGGTGATT-TCTTTG
*
881591 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTCAAAAATGGTGATTT-CTTTG
* *
881619 TATTTGTCAAATATGGTG
1 TGTTTGTCAAAAATGGTG
881637 GCTTGTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 20 0.49
28 20 0.49
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGATTTCTTTG
Found at i:881619 original size:28 final size:27
Alignment explanation
Indices: 881564--881637 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
881554 GCTACCCATT
*
881564 TGTTTGTCAAAAATGGTGATTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
881591 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
881619 TATTTGTCAAATATGGTGG
1 TGTTTGTCAAAAATGGTGG
881638 CTTGTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 20 0.48
28 21 0.50
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:886091 original size:27 final size:28
Alignment explanation
Indices: 886053--886123 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
886043 GCCACCCATT
886053 TGTTTGTCAAAAATGGTGG-TTATTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
* * *
886080 TGTTTGTAAAAAATGATGGTTTCTTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
* *
886108 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
886124 AGGCTTGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 17 0.47
28 19 0.53
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTTATTTTG
Found at i:886107 original size:28 final size:27
Alignment explanation
Indices: 886053--886114 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
886043 GCCACCCATT
* *
886053 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTAAAAAATGATGGTTATTTTG
*
886080 TGTTTGTAAAAAATGATGGTTTCTTTTG
1 TGTTTGTAAAAAATGATGG-TTATTTTG
*
886108 TATTTGT
1 TGTTTGT
886115 CAAATATGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.52
Consensus pattern (27 bp):
TGTTTGTAAAAAATGATGGTTATTTTG
Found at i:888087 original size:16 final size:16
Alignment explanation
Indices: 888062--888093 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
888052 ATTAAAGATA
*
888062 TTATATTAAAATTTAT
1 TTATAATAAAATTTAT
888078 TTATAATAAAATTTAT
1 TTATAATAAAATTTAT
888094 AATATACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATAATAAAATTTAT
Found at i:890256 original size:94 final size:94
Alignment explanation
Indices: 890090--890312 Score: 252
Period size: 94 Copynumber: 2.4 Consensus size: 94
890080 AGAGGTAATA
* * * * * *
890090 AGGGCAGAACCTTC-AGTTAAAATATTGACCAAGGCGAAACCATGATAGTTAAAGAAGATGATTA
1 AGGGCAAAACCTTCTA-TGAAAAGATTGACCAAGACGAAACCATGATAGTCAAAGAAGATGATAA
**
890154 AGCTGAAACCTATTCTTTGAGAAGATGACC
65 AGCTGAAACCTATTAGTTGAGAAGATGACC
* * *
890184 AGGGCAAAACTTTCTATGAAAAGATTGATCAAGACGAAACCATGATAGTCGAAGAAGATGACTAA
1 AGGGCAAAACCTTCTATGAAAAGATTGACCAAGACGAAACCATGATAGTCAAAGAAGATGA-TAA
* *
890249 AGC-GAAACTTATTAGTTGAGAAGATGACT
65 AGCTGAAACCTATTAGTTGAGAAGATGACC
*** *
890278 AGGTTGAAACCTTCTATTAGAAAGATTGACCAAGA
1 AGGGCAAAACCTTCTATGA-AAAGATTGACCAAGA
890313 AATAACTTTG
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
94 87 0.81
95 20 0.19
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (94 bp):
AGGGCAAAACCTTCTATGAAAAGATTGACCAAGACGAAACCATGATAGTCAAAGAAGATGATAAA
GCTGAAACCTATTAGTTGAGAAGATGACC
Found at i:891169 original size:16 final size:17
Alignment explanation
Indices: 891138--891170 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
891128 ATTATTTTAA
891138 TATTTTTATTTAAAATAT
1 TATTTTTA-TTAAAATAT
891156 TATTTTTA-TAAAATA
1 TATTTTTATTAAAATA
891171 AAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTTTATTAAAATAT
Found at i:891224 original size:26 final size:27
Alignment explanation
Indices: 891169--891230 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
891159 TTTTATAAAA
**
891169 TAAAAATAATATATTAATTATATTTTT
1 TAAAAATAATATATTAATTATATTAAT
*
891196 TAAAAA-ATTATATTAATTA-ATATAAT
1 TAAAAATAATATATTAATTATAT-TAAT
*
891222 TAAATATAA
1 TAAAAATAA
891231 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 2 0.07
26 19 0.68
27 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAAAAATAATATATTAATTATATTAAT
Found at i:891233 original size:20 final size:20
Alignment explanation
Indices: 891205--891251 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
891195 TTAAAAAATT
*
891205 ATATTAATTAATATAATTAA
1 ATATAAATTAATATAATTAA
* **
891225 ATATAAATTAATTTTTTTAA
1 ATATAAATTAATATAATTAA
891245 ATATAAA
1 ATATAAA
891252 AAAATATTGA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATAAATTAATATAATTAA
Found at i:893846 original size:19 final size:20
Alignment explanation
Indices: 893822--893859 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
893812 TTTTTCATTA
893822 ATTTATA-AATAAAAAATTT
1 ATTTATATAATAAAAAATTT
*
893841 ATTTATATATTAAAAAATT
1 ATTTATATAATAAAAAATT
893860 ACAAACTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTATATAATAAAAAATTT
Found at i:895628 original size:28 final size:28
Alignment explanation
Indices: 895590--895651 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
895580 ATAAATGTCA
895590 TTTTTTATATTTATCAAATAT-AGTAATT
1 TTTTTTATATTTATCAAATATGA-TAATT
895618 TTTTTTATATTTATCAAATATGATAATT
1 TTTTTTATATTTATCAAATATGATAATT
*
895646 ATTTTT
1 TTTTTT
895652 GTTTGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTTATATTTATCAAATATGATAATT
Found at i:900231 original size:28 final size:28
Alignment explanation
Indices: 900171--900232 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
900161 AAATGTCACC
*
900171 CTTTGTATTTGTCAAATATGGTGGTTTT
1 CTTTGTATTTGTCAAATATGGTGATTTT
900199 CTTTGTATTTGTCAAATATGGTGATTATT
1 CTTTGTATTTGTCAAATATGGTGATT-TT
900228 -TTTGT
1 CTTTGT
900233 TTGTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (28 bp):
CTTTGTATTTGTCAAATATGGTGATTTT
Found at i:900782 original size:20 final size:20
Alignment explanation
Indices: 900757--900795 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
900747 TTAAATAAAT
* *
900757 AATAAAATTAATCATAATAA
1 AATAAAAATAATAATAATAA
900777 AATAAAAATAATAATAATA
1 AATAAAAATAATAATAATA
900796 CTAATATTAT
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:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAAAATAATAATAATAA
Found at i:901528 original size:20 final size:22
Alignment explanation
Indices: 901492--901534 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
901482 TTAAACAAAT
*
901492 TTTTTTCTATTATATTTTTAAA
1 TTTTTTCTATTATATTTATAAA
901514 TTTTTTC-ATTA-ATTTATAAA
1 TTTTTTCTATTATATTTATAAA
901534 T
1 T
901535 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTTCTATTATATTTATAAA
Found at i:902477 original size:12 final size:12
Alignment explanation
Indices: 902460--902512 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
902450 TAATATCATG
902460 TTTATATTATTT
1 TTTATATTATTT
*
902472 TTTATATTATAT
1 TTTATATTATTT
* *
902484 ATTATATT-TTA
1 TTTATATTATTT
*
902495 TTTAT-TAATTT
1 TTTATATTATTT
902506 TTTATAT
1 TTTATAT
902513 CATATTATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 1 0.03
11 12 0.38
12 19 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:903000 original size:19 final size:19
Alignment explanation
Indices: 902976--903021 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
902966 CTTGGCCAAA
902976 AGTTTTATACTTAGAAACT
1 AGTTTTATACTTAGAAACT
*
902995 AGTTTTACACTTAGAAACT
1 AGTTTTATACTTAGAAACT
*
903014 AGATTTAT
1 AGTTTTAT
903022 TCGTACACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
AGTTTTATACTTAGAAACT
Found at i:903592 original size:16 final size:16
Alignment explanation
Indices: 903540--903595 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
903530 CTTGAAAGTT
* * *
903540 ATATAATATTATTAAA
1 ATATAAAATTTTTTAA
*
903556 ATATTAAAATTTATATAA
1 ATA-TAAAATTT-TTTAA
903574 ATATAAAATTTTTTAA
1 ATATAAAATTTTTTAA
903590 ATATAA
1 ATATAA
903596 TTATAGCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 13 0.39
17 14 0.42
18 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAAAATTTTTTAA
Found at i:906531 original size:2 final size:2
Alignment explanation
Indices: 906524--906551 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
906514 ATAAATATTG
906524 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
906552 GTGTATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:906800 original size:22 final size:24
Alignment explanation
Indices: 906756--906809 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
906746 TGATATTTAT
906756 ATAATTTTATAATTAAATTTAAATA
1 ATAATTTTATAATTAAA-TTAAATA
*
906781 ATAATTTT-TTATTAAA-TAAATA
1 ATAATTTTATAATTAAATTAAATA
*
906803 ATGATTT
1 ATAATTT
906810 AAGCCAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATAATTTTATAATTAAATTAAATA
Found at i:907644 original size:19 final size:19
Alignment explanation
Indices: 907622--907664 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
907612 ATAATTAAAT
*
907622 TAAATAACTAT-AAATTATA
1 TAAA-AACTATAAAAATATA
*
907641 TAAAAATTATAAAAATATA
1 TAAAAACTATAAAAATATA
907660 TAAAA
1 TAAAA
907665 TTAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAACTATAAAAATATA
Found at i:908538 original size:21 final size:21
Alignment explanation
Indices: 908500--908539 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
908490 TTTAAAAAAT
*
908500 TATTTTACATTAATATTTATA
1 TATTTTAAATTAATATTTATA
908521 TATTTTATAATTAA-ATTTA
1 TATTTTA-AATTAATATTTA
908540 AATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTAAATTAATATTTATA
Found at i:909833 original size:15 final size:15
Alignment explanation
Indices: 909813--909866 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
909803 ATAGTATTTA
909813 AAAATATTAATTAA-
1 AAAATATTAATTAAT
*
909827 AATAATATATTATTAATT
1 AA-AATAT-TAATTAA-T
909845 AAAAT-TTAATTAAT
1 AAAATATTAATTAAT
909859 AAAATATT
1 AAAATATT
909867 TTAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 8 0.24
15 13 0.39
16 7 0.21
17 3 0.09
18 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATATTAATTAAT
Found at i:909877 original size:39 final size:39
Alignment explanation
Indices: 909833--909909 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
909823 TTAAAATAAT
*
909833 ATATTATTAATTAAAATTTAATTAATAA-AATATTTTAAA
1 ATATTATTAATTAAAATTTAA-TAAAAATAATATTTTAAA
**
909872 ATATTATTTTTTAAAATTTAATAAAAATAATATTTTAA
1 ATATTATTAATTAAAATTTAATAAAAATAATATTTTAA
909910 TTACATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (39 bp):
ATATTATTAATTAAAATTTAATAAAAATAATATTTTAAA
Found at i:910806 original size:17 final size:19
Alignment explanation
Indices: 910784--910824 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
910774 TATAGATTTA
910784 ATAATTTTA-AATAT-AAT
1 ATAATTTTATAATATAAAT
*
910801 ATAATTTTATCATATAAAT
1 ATAATTTTATAATATAAAT
910820 ATAAT
1 ATAAT
910825 ATAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 4 0.19
19 8 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTTTATAATATAAAT
Found at i:910809 original size:26 final size:23
Alignment explanation
Indices: 910772--910958 Score: 64
Period size: 22 Copynumber: 7.7 Consensus size: 23
910762 ATAAGGTGTA
*
910772 AATATAGATTTAATAATTTTAAATAT
1 AATATA-ATTT-ATAA-TATAAATAT
*
910798 AATATAATTTTATCATATAAATAT
1 AATATAA-TTTATAATATAAATAT
** *
910822 AATATAA-AAATAA-ATTAAAAAT
1 AATATAATTTATAATA-TAAATAT
*
910844 AAATTAAAATTTATATAATATAAATTATT
1 -AA-TATAA-TT-TATAATATAAA-TA-T
*
910873 AATATATAAAAATTTAT-ATATATATAT
1 -A-ATAT---AATTTATAATATAAATAT
*
910900 AATAT--TTTA-AATATAATTAT
1 AATATAATTTATAATATAAATAT
**
910920 AATATAA-AAATAATATAAATAT
1 AATATAATTTATAATATAAATAT
* * *
910942 AAAATAAATTAGAATAT
1 AATATAATTTATAATAT
910959 TCGTGCCTAT
Statistics
Matches: 121, Mismatches: 21, Indels: 41
0.66 0.11 0.22
Matches are distributed among these distances:
20 17 0.14
21 2 0.02
22 25 0.21
23 8 0.07
24 19 0.16
25 8 0.07
26 10 0.08
27 9 0.07
28 4 0.03
29 11 0.09
30 4 0.03
31 2 0.02
32 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (23 bp):
AATATAATTTATAATATAAATAT
Found at i:910828 original size:11 final size:11
Alignment explanation
Indices: 910791--910950 Score: 73
Period size: 11 Copynumber: 14.5 Consensus size: 11
910781 TTAATAATTT
910791 TAAATATAATA
1 TAAATATAATA
* *
910802 TAATTTTATCATA
1 TAA--ATATAATA
910815 TAAATATAATA
1 TAAATATAATA
*
910826 TAAAAATAA-A
1 TAAATATAATA
*
910836 TTAAAAATAA-A
1 -TAAATATAATA
*
910847 TTAAA-AT-TTA
1 -TAAATATAATA
910857 TATAATATAAATTA
1 TA-AATAT-AA-TA
*
910871 TTAATAT-ATA
1 TAAATATAATA
* *
910881 AAAATTTATATA
1 TAAATATA-ATA
*
910893 TATATATAATA
1 TAAATATAATA
**
910904 T-TTTA-AATA
1 TAAATATAATA
*
910913 TAATTATAATA
1 TAAATATAATA
*
910924 TAAAAATAATA
1 TAAATATAATA
*
910935 TAAATATAAAA
1 TAAATATAATA
910946 TAAAT
1 TAAAT
910951 TAGAATATTC
Statistics
Matches: 116, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
9 7 0.06
10 18 0.16
11 66 0.57
12 8 0.07
13 14 0.12
14 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAATATAATA
Found at i:910868 original size:32 final size:33
Alignment explanation
Indices: 910831--910898 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
910821 TAATATAAAA
*
910831 ATAAATTAAAAATAAATTAAAATTTATATA-AT
1 ATAAATTAAAAATAAATAAAAATTTATATATAT
** *
910863 ATAAATTATTAATATATAAAAATTTATATATAT
1 ATAAATTAAAAATAAATAAAAATTTATATATAT
910896 ATA
1 ATA
910899 TAATATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATAAATTAAAAATAAATAAAAATTTATATATAT
Found at i:910880 original size:20 final size:19
Alignment explanation
Indices: 910812--910941 Score: 60
Period size: 17 Copynumber: 7.5 Consensus size: 19
910802 TAATTTTATC
910812 ATATAAATA-TAATATA-A
1 ATATAAATATTAATATATA
* * *
910829 AAATAAAT-TAAAAATA-A
1 ATATAAATATTAATATATA
910846 AT-TAAA-ATT--TATATA
1 ATATAAATATTAATATATA
910861 ATATAAATTATTAATATAT-
1 ATATAAA-TATTAATATATA
910880 A-A-AAAT-TT-ATATATA
1 ATATAAATATTAATATATA
*
910895 TATATAATATTTTAA-ATATA
1 -ATATAA-ATATTAATATATA
*
910915 AT-TATAATA-TAA-AAATA
1 ATATA-AATATTAATATATA
910932 ATATAAATAT
1 ATATAAATAT
910942 AAAATAAATT
Statistics
Matches: 87, Mismatches: 8, Indels: 35
0.67 0.06 0.27
Matches are distributed among these distances:
14 9 0.10
15 5 0.06
16 11 0.13
17 31 0.36
18 12 0.14
19 6 0.07
20 12 0.14
21 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATAAATATTAATATATA
Found at i:910889 original size:18 final size:18
Alignment explanation
Indices: 910849--910901 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 18
910839 AAAATAAATT
910849 AAAATTTA-T-ATA-ATA
1 AAAATTTATTAATATATA
*
910864 TAAA-TTATTAATATATA
1 AAAATTTATTAATATATA
910881 AAAATTTATATATATATATA
1 AAAATTTAT-TA-ATATATA
910901 A
1 A
910902 TATTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 3 0.10
17 6 0.20
18 4 0.13
19 2 0.07
20 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTATTAATATATA
Found at i:910913 original size:18 final size:19
Alignment explanation
Indices: 910856--910924 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
910846 ATTAAAATTT
910856 ATATAATATAA-ATTATT-A
1 ATATAATATAATATT-TTAA
* *
910874 ATAT-ATA-AA-AATTTAT
1 ATATAATATAATATTTTAA
910890 ATATATATATAATATTTTAA
1 ATATA-ATATAATATTTTAA
910910 ATATAATTATAATAT
1 ATATAA-TATAATAT
910925 AAAAATAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.05
16 8 0.20
17 3 0.07
18 7 0.17
19 3 0.07
20 18 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATATAATATTTTAA
Found at i:910932 original size:17 final size:17
Alignment explanation
Indices: 910907--910958 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
910897 TATAATATTT
*
910907 TAAATATAATTATAATA
1 TAAAAATAATTATAATA
910924 TAAAAATAA-TATAA-A
1 TAAAAATAATTATAATA
*
910939 TATAAAATAAATTAGAATA
1 TA-AAAAT-AATTATAATA
910958 T
1 T
910959 TCGTGCCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 3 0.10
16 10 0.34
17 10 0.34
18 4 0.14
19 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAATAATTATAATA
Found at i:911176 original size:19 final size:19
Alignment explanation
Indices: 911154--911193 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
911144 TATATTTTTT
*
911154 ATATTATA-ATTATATTTAA
1 ATATTATATATT-TATATAA
911173 ATATTATATATTTATATAA
1 ATATTATATATTTATATAA
911192 AT
1 AT
911194 TTTAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATATATTTATATAA
Found at i:911235 original size:27 final size:27
Alignment explanation
Indices: 911140--911237 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
911130 GCGGAATCTT
*
911140 ATTTT-ATAT-TTTTTATATTATA-ATT
1 ATTTTAATATATTTTTATATTATATA-A
*
911165 ATATTTAA-ATA-TTATATATTTATATAA
1 AT-TTTAATATATTTTTATA-TTATATAA
*
911192 ATTTTAATA-ATAATTTATATTATATAA
1 ATTTTAATATAT-TTTTATATTATATAA
911219 ATTTTAATATATTTTTATA
1 ATTTTAATATATTTTTATA
911238 ATTGTATTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
25 2 0.03
26 17 0.29
27 32 0.54
28 8 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTTTAATATATTTTTATATTATATAA
Found at i:911420 original size:131 final size:128
Alignment explanation
Indices: 911148--911388 Score: 295
Period size: 131 Copynumber: 1.8 Consensus size: 128
911138 TTATTTTATA
*
911148 TTTTTTATATTATAATTATATTTAAATATTATATATTTATATAAATTTTAATAATAATTTATATT
1 TTTTTTATATTAT-ATTATATTTAAATATTATATATTTATATAAATTTTAATAATAATTTATATA
* * * *
911213 ATATAAATTTTAATATATTTTTATAATTGTATTATATTTATACTTTTATATCGCATCATGTTTAT
65 ATATAAATTTTAATATATTTATATAATTATATTATATTTATACTGTTATATC-CATCATGTTCAT
*
911278 TTTTTTAATATTATATTATGTTTAAAGTATTATATATTTATATAAATTTTAATATATTAATGATT
1 TTTTTT-ATATTATATTATATTTAAA-TATTATATATTTATATAAATTTTAATA-A-TAAT--TT
* * * * *
911343 TTAATAATGTAAATTTTGATAT-TTTATATATTTATATTATTTTTAT
60 AT-ATAATATAAATTTTAATATATTTATATAATTATATTATATTTAT
911389 GTTATTCATT
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
130 17 0.18
131 34 0.36
132 1 0.01
133 4 0.04
135 23 0.24
136 16 0.17
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (128 bp):
TTTTTTATATTATATTATATTTAAATATTATATATTTATATAAATTTTAATAATAATTTATATAA
TATAAATTTTAATATATTTATATAATTATATTATATTTATACTGTTATATCCATCATGTTCAT
Found at i:912965 original size:18 final size:18
Alignment explanation
Indices: 912938--912972 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
912928 ATAAAATAAT
912938 AAAATAA-TTTTAAACCA
1 AAAATAATTTTTAAACCA
912955 AAAATTAATTTTTAAACC
1 AAAA-TAATTTTTAAACC
912973 GTAAAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 3 0.19
19 9 0.56
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATAATTTTTAAACCA
Found at i:913117 original size:85 final size:85
Alignment explanation
Indices: 913022--913192 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
913012 TTCACCTACG
* *
913022 TTTCAATAATTGTGAGATCTCTACCCAGCGATCAGTTTTTATCATTTGGACCATACAATAAATGA
1 TTTCAATAATTGTGAGATCTCTACCCAGCGATAAGTTGTTATCATTTGGACCATACAATAAATGA
913087 AATTTATTGCTAATATTAAA
66 AATTTATTGCTAATATTAAA
*
913107 TTTCAATAATTGTGAGATCTCTACCCAGTGATAAGTTGTTATCATTTGGACCATACAATAAATGA
1 TTTCAATAATTGTGAGATCTCTACCCAGCGATAAGTTGTTATCATTTGGACCATACAATAAATGA
*
913172 AATTTATTGTTAATATTAAA
66 AATTTATTGCTAATATTAAA
913192 T
1 T
913193 GATAAAAACG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (85 bp):
TTTCAATAATTGTGAGATCTCTACCCAGCGATAAGTTGTTATCATTTGGACCATACAATAAATGA
AATTTATTGCTAATATTAAA
Found at i:913722 original size:26 final size:27
Alignment explanation
Indices: 913670--913764 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
913660 CTACTTATAC
* * * *
913670 TATAATATTATATATTTATTTTTTATAT
1 TATAAAATTATATATATATTATATA-AT
*
913698 TATAAAATTATATA-ATATATATATAAA
1 TATAAAATTATATATATAT-TATATAAT
913725 TATAAAATTA-ATATATATTATATAAT
1 TATAAAATTATATATATATTATATAAT
*
913751 TAAAAAAATTATAT
1 T-ATAAAATTATAT
913765 CAGATCTTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 11 0.20
27 26 0.46
28 19 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATAAAATTATATATATATTATATAAT
Found at i:913740 original size:23 final size:24
Alignment explanation
Indices: 913693--913755 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
913683 ATTTATTTTT
* *
913693 TATATTATAAAATT-ATA-TAATA
1 TATATTATATAATTAAAATTAATA
913715 TATA-TATA-AATATAAAATTAATA
1 TATATTATATAAT-TAAAATTAATA
913738 TATATTATATAATTAAAA
1 TATATTATATAATTAAAA
913756 AAATTATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 3 0.09
21 5 0.14
22 6 0.17
23 9 0.26
24 9 0.26
25 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATTATATAATTAAAATTAATA
Found at i:913819 original size:17 final size:16
Alignment explanation
Indices: 913795--913839 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
913785 TAAAATTTGA
*
913795 TTATTTTTTAATAAGT
1 TTATTTTTTAATAAAT
*
913811 TTAATTTTTTATTTAAAT
1 TT-ATTTTTTA-ATAAAT
913829 TTATTTTTTAA
1 TTATTTTTTAA
913840 ATATAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.08
17 16 0.67
18 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTTTTAATAAAT
Found at i:913838 original size:13 final size:13
Alignment explanation
Indices: 913813--913888 Score: 64
Period size: 13 Copynumber: 5.5 Consensus size: 13
913803 TAATAAGTTT
913813 AATTT-TTTATTTA
1 AATTTATTT-TTTA
913826 AATTTATTTTTTA
1 AATTTATTTTTTA
* * *
913839 AATATAATATTTA
1 AATTTATTTTTTA
*
913852 AATTTATTTATTA
1 AATTTATTTTTTA
913865 AATATAATATTTTTTA
1 AAT-T--TATTTTTTA
913881 AATCTTAT
1 AAT-TTAT
913889 CAAATATTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
13 31 0.62
14 7 0.14
16 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTATTTTTTA
Found at i:913850 original size:26 final size:26
Alignment explanation
Indices: 913820--913876 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
913810 TTTAATTTTT
*
913820 TATTTAAATTTATTTTTTAAATATAA
1 TATTTAAATTTATTTATTAAATATAA
913846 TATTTAAATTTATTTATTAAATATAA
1 TATTTAAATTTATTTATTAAATATAA
913872 TATTT
1 TATTT
913877 TTTAAATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTAAATTTATTTATTAAATATAA
Found at i:914491 original size:19 final size:18
Alignment explanation
Indices: 914467--914519 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 18
914457 AATTTTAATA
*
914467 ATTTATGTATTTATATTAT
1 ATTTATATATTTATATT-T
914486 ATTTATATATTTATATTT
1 ATTTATATATTTATATTT
914504 A-TTATA-A-TTATATTT
1 ATTTATATATTTATATTT
914519 A
1 A
914520 AAAATTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 9 0.27
16 1 0.03
17 5 0.15
18 2 0.06
19 16 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTATATATTTATATTT
Found at i:914514 original size:15 final size:15
Alignment explanation
Indices: 914464--914519 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
914454 TATAATTTTA
*
914464 ATAATT-TATGTATT
1 ATAATTATATTTATT
914478 -TATATTATATTTA-T
1 ATA-ATTATATTTATT
*
914492 ATATTTATATTTATT
1 ATAATTATATTTATT
914507 ATAATTATATTTA
1 ATAATTATATTTA
914520 AAAATTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 13 0.37
15 20 0.57
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATAATTATATTTATT
Found at i:914555 original size:28 final size:28
Alignment explanation
Indices: 914524--914579 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
914514 TATTTAAAAA
914524 TTATATTATATAA-ATTTTAATATATTTT
1 TTATATTATATAATA-TTTAATATATTTT
* *
914552 TTATATTATATCATATTTAATTTATTTT
1 TTATATTATATAATATTTAATATATTTT
914580 CATGAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATATTATATAATATTTAATATATTTT
Found at i:918079 original size:23 final size:25
Alignment explanation
Indices: 918053--918104 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
918043 AAATTATTAT
*
918053 TTAAATAAT-AATTTTTTA-AAAAA
1 TTAAATAATAAATATTTTATAAAAA
*
918076 TT-AATTATAAATATTTTATAAAAA
1 TTAAATAATAAATATTTTATAAAAA
918100 -TAAAT
1 TTAAAT
918105 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 5 0.21
23 11 0.46
24 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TTAAATAATAAATATTTTATAAAAA
Found at i:918109 original size:23 final size:22
Alignment explanation
Indices: 918066--918116 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
918056 AATAATAATT
*
918066 TTTTAAAAAATTAATTATAAATA
1 TTTTAAAAAATAAATTATAAA-A
918089 TTTTATAAAAATAAATT-TAAAA
1 TTTTA-AAAAATAAATTATAAAA
918111 TTTTAA
1 TTTTAA
918117 TATTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 6 0.23
23 9 0.35
24 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTAAAAAATAAATTATAAAA
Found at i:918119 original size:30 final size:29
Alignment explanation
Indices: 918085--918159 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 29
918075 ATTAATTATA
*
918085 AATATTTTATAAAAATAAATTTAAAATTTT
1 AATATTTTATAAAAAT-AATATAAAATTTT
* *
918115 AATATTATTTTAAATAATTATATAAAATTTT
1 AATATT-TTATAAA-AATAATATAAAATTTT
*
918146 AA-A-TTAATAAAAAT
1 AATATTTTATAAAAAT
918160 TTAATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 3 0.08
28 5 0.13
29 1 0.03
30 7 0.18
31 19 0.50
32 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATTTTATAAAAATAATATAAAATTTT
Found at i:918167 original size:15 final size:15
Alignment explanation
Indices: 918129--918167 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
918119 TTATTTTAAA
*
918129 TAATTATATAAAATTT
1 TAATTA-ATAAAAATT
918145 TAAATTAATAAAAATT
1 T-AATTAATAAAAATT
918161 TAATTAA
1 TAATTAA
918168 ATTTATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAATAAAAATT
Found at i:919264 original size:21 final size:23
Alignment explanation
Indices: 919216--919267 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
919206 TAGTTATGAG
*
919216 AAGATTAT-TTATTATAATTATG
1 AAGATTATGTTATTATAATTATC
919238 AA-ATTATGTT-TTATAATTA-C
1 AAGATTATGTTATTATAATTATC
919258 AAGATTATGT
1 AAGATTATGT
919268 GTTTGTGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 21 0.78
22 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (23 bp):
AAGATTATGTTATTATAATTATC
Found at i:919350 original size:14 final size:15
Alignment explanation
Indices: 919333--919369 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
919323 TTAAAAATAT
919333 TATAT-TAAAATTTA
1 TATATATAAAATTTA
919347 TATATAATAAAATTTA
1 TATAT-ATAAAATTTA
919363 TA-ATATA
1 TATATATA
919370 TTTAAGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 2 0.10
16 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATATAAAATTTA
Found at i:920618 original size:14 final size:15
Alignment explanation
Indices: 920596--920624 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
920586 TGATAATTTT
920596 TTAATTATAAAAATA
1 TTAATTATAAAAATA
920611 TTAA-TATAAAAATA
1 TTAATTATAAAAATA
920625 ATTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTATAAAAATA
Found at i:922760 original size:17 final size:16
Alignment explanation
Indices: 922734--922765 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
922724 TATTTATATA
922734 TTATTTTAATATATTT
1 TTATTTTAATATATTT
922750 TTATATTTAATATATT
1 TTAT-TTTAATATATT
922766 AATCTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTAATATATTT
Found at i:923200 original size:19 final size:20
Alignment explanation
Indices: 923174--923226 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
923164 ATTTACTTAA
923174 TAATTAAATATAT-AATT-T
1 TAATTAAATATATAAATTAT
923192 TATATTAAATATAATAAATTAT
1 TA-ATTAAATAT-ATAAATTAT
*
923214 TAATAAAATATAT
1 TAATTAAATATAT
923227 CTTTAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.07
19 9 0.30
20 4 0.13
21 12 0.40
22 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTAAATATATAAATTAT
Found at i:923896 original size:14 final size:14
Alignment explanation
Indices: 923872--923920 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
923862 ATTTAATTAT
*
923872 TAAAATATATTAAAA
1 TAAAAT-TATTATAA
*
923887 TAAAATTATTATTA
1 TAAAATTATTATAA
* *
923901 TAATATTTTTATAA
1 TAAAATTATTATAA
923915 TAAAAT
1 TAAAAT
923921 GAGCTTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATTATTATAA
Found at i:923897 original size:27 final size:28
Alignment explanation
Indices: 923867--923920 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
923857 TTTAAATTTA
923867 ATTATTAAAATA-TATTAAAATAAAATT
1 ATTATTAAAATATTATTAAAATAAAATT
* * *
923894 ATTATTATAATATTTTTATAATAAAAT
1 ATTATTAAAATATTATTAAAATAAAAT
923921 GAGCTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTATTAAAATATTATTAAAATAAAATT
Found at i:924629 original size:22 final size:22
Alignment explanation
Indices: 924582--924623 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
924572 TTAAGCATCT
924582 ATTTTTTATTTAAAAAACTATA
1 ATTTTTTATTTAAAAAACTATA
*
924604 ATTTTTTA-TTAAATAACTAT
1 ATTTTTTATTTAAAAAACTAT
924624 CCATTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTTATTTAAAAAACTATA
Found at i:925220 original size:17 final size:18
Alignment explanation
Indices: 925179--925258 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 18
925169 GATAATTTTT
*
925179 TATATGAAATAAATTTATA
1 TATAT-AAATAAATTTAAA
925198 -ATATAAA-AAATTTAAA
1 TATATAAATAAATTTAAA
* *
925214 TATATAAATATATTAAAA
1 TATATAAATAAATTTAAA
*
925232 TTTATATAATATAAATTATTAA
1 --TATATAA-ATAAATT-TAAA
925254 TATAT
1 TATAT
925259 TAAAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.16
17 10 0.20
18 11 0.22
20 12 0.24
21 6 0.12
22 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (18 bp):
TATATAAATAAATTTAAA
Found at i:925237 original size:18 final size:18
Alignment explanation
Indices: 925211--925268 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
925201 TAAAAAATTT
*
925211 AAATATATAAATATATTA
1 AAATTTATAAATATATTA
*
925229 AAATTTATATA-ATA-T-
1 AAATTTATAAATATATTA
*
925244 AAA-TTATTAATATATTA
1 AAATTTATAAATATATTA
925261 AAATTTAT
1 AAATTTAT
925269 TATTTTAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 2 0.06
17 6 0.19
18 13 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTATAAATATATTA
Found at i:925243 original size:25 final size:23
Alignment explanation
Indices: 925204--925262 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
925194 TATAATATAA
925204 AAAATTTAAATATATAAATATATT
1 AAAATTTAAATATATAAAT-TATT
*
925228 AAAATTTATATAATATAAATTATT
1 AAAATTTAAAT-ATATAAATTATT
*
925252 AATATATTAAA
1 AAAAT-TTAAA
925263 ATTTATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATTTAAATATATAAATTATT
Found at i:925251 original size:24 final size:24
Alignment explanation
Indices: 925215--925262 Score: 53
Period size: 25 Copynumber: 2.0 Consensus size: 24
925205 AAATTTAAAT
*
925215 ATATAAATATATTAAAATTTATAT
1 ATATAAATATATTAAAATTTAAAT
*
925239 AATATAAAT-TATTAATATATTAAA
1 -ATATAAATATATTAAAAT-TTAAA
925263 ATTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATAAATATATTAAAATTTAAAT
Found at i:925642 original size:27 final size:26
Alignment explanation
Indices: 925612--925683 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
925602 TTATAAAAAA
925612 AATAATTGATATCTATAAAATAATTTT
1 AATAATTGATATCTATAAAAT-ATTTT
** * *
925639 AATAA-AAATAATGTATTAAATATTTT
1 AATAATTGAT-ATCTATAAAATATTTT
925665 --TAATTGATATCTATAAAAT
1 AATAATTGATATCTATAAAAT
925684 TTGATAAGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
24 12 0.34
25 2 0.06
26 7 0.20
27 14 0.40
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (26 bp):
AATAATTGATATCTATAAAATATTTT
Found at i:925974 original size:6 final size:6
Alignment explanation
Indices: 925963--926008 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
925953 GGATGGGTGC
* * *
925963 ATGTGA ATGTGA CTGTGA ATGTGA CTGTGA CTGTGA ATGTGA ATGT
1 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGT
926009 TTCACTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.35
Consensus pattern (6 bp):
ATGTGA
Found at i:925979 original size:12 final size:12
Alignment explanation
Indices: 925964--926008 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
925954 GATGGGTGCA
925964 TGTGAATGTGAC
1 TGTGAATGTGAC
925976 TGTGAATGTGAC
1 TGTGAATGTGAC
* *
925988 TGTGACTGTGAA
1 TGTGAATGTGAC
926000 TGTGAATGT
1 TGTGAATGT
926009 TTCACTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.33, T:0.36
Consensus pattern (12 bp):
TGTGAATGTGAC
Found at i:925986 original size:18 final size:18
Alignment explanation
Indices: 925963--926008 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
925953 GGATGGGTGC
925963 ATGTGAATGTGACTGTGA
1 ATGTGAATGTGACTGTGA
*
925981 ATGTGACTGTGACTGTGA
1 ATGTGAATGTGACTGTGA
925999 ATGTGAATGT
1 ATGTGAATGT
926009 TTCACTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.35
Consensus pattern (18 bp):
ATGTGAATGTGACTGTGA
Found at i:926409 original size:10 final size:10
Alignment explanation
Indices: 926390--926439 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
926380 ATTTTGATTT
926390 TTTATATTAA
1 TTTATATTAA
*
926400 TTTGTATTAA
1 TTTATATTAA
*
926410 TTTATATTGA
1 TTTATATTAA
* *
926420 TGTATATTGA
1 TTTATATTAA
926430 TTTATATTAA
1 TTTATATTAA
926440 GAAATATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (10 bp):
TTTATATTAA
Found at i:926519 original size:24 final size:25
Alignment explanation
Indices: 926452--926519 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 25
926442 AATATAATAT
926452 TTTAATATTTTATATTTTTTTAAAAA
1 TTTAAT-TTTTATATTTTTTTAAAAA
* *
926478 TTTTATTTATT-TAATTTTTT-AAAA
1 TTTAATTT-TTATATTTTTTTAAAAA
926502 -TTAATTTTTGATATTTTT
1 TTTAATTTTT-ATATTTTT
926520 ATCTTAGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
24 10 0.29
25 10 0.29
26 7 0.20
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (25 bp):
TTTAATTTTTATATTTTTTTAAAAA
Found at i:926802 original size:18 final size:19
Alignment explanation
Indices: 926779--926816 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
926769 ATAAAAAAAT
926779 ATTTAAAA-AATATAATAA
1 ATTTAAAATAATATAATAA
*
926797 ATTTAAAATAATATATTAA
1 ATTTAAAATAATATAATAA
926816 A
1 A
926817 ATATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTAAAATAATATAATAA
Found at i:926830 original size:16 final size:16
Alignment explanation
Indices: 926785--926848 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
926775 AAATATTTAA
*
926785 AAAATATAATAA-ATTT
1 AAAATATATTAATA-TT
926801 AAAATA-A-T-ATATT
1 AAAATATATTAATATT
926814 AAAATATATTAATATT
1 AAAATATATTAATATT
* * *
926830 AATATCTATTAATAAT
1 AAAATATATTAATATT
926846 AAA
1 AAA
926849 GCAAATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.22
14 3 0.08
15 2 0.05
16 26 0.65
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATATATTAATATT
Done.