Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 296 of 318
Found at i:94202076 original size:27 final size:28
Alignment explanation
Indices: 94202041--94202107 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
94202031 TATGAGATTT
* *
94202041 ATAACTTTAAATT-AAATATTGAAATTA
1 ATAAATTTAAATTCAAATATTAAAATTA
*
94202068 ATAAATTTAAATTCAAATATTAAAATTG
1 ATAAATTTAAATTCAAATATTAAAATTA
*
94202096 A-AAATTAAAATT
1 ATAAATTTAAATT
94202108 GTGTGATGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAAATTTAAATTCAAATATTAAAATTA
Found at i:94202108 original size:13 final size:13
Alignment explanation
Indices: 94202070--94202108 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
94202060 TGAAATTAAT
* *
94202070 AAATTTAAATTCA
1 AAATTAAAATTGA
94202083 AATATTAAAATTGA
1 AA-ATTAAAATTGA
94202097 AAATTAAAATTG
1 AAATTAAAATTG
94202109 TGTGATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (13 bp):
AAATTAAAATTGA
Found at i:94207177 original size:26 final size:25
Alignment explanation
Indices: 94207148--94207224 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
94207138 ACAGAATAAC
94207148 ATATGAAAATTTAAAATAAATAATAT
1 ATAT-AAAATTTAAAATAAATAATAT
* * *
94207174 ATATAATGATTTAACATAAATAATGT
1 ATATAA-AATTTAAAATAAATAATAT
* *
94207200 ATA-AAATATTTAGAATAAATGATAT
1 ATATAAA-ATTTAAAATAAATAATAT
94207225 GAAAAGAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATAAAATTTAAAATAAATAATAT
Found at i:94223418 original size:27 final size:28
Alignment explanation
Indices: 94223350--94223419 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
94223340 CCGTTAACTG
94223350 AACCGAATTTTTTTCAAAAAAAACTAACCA
1 AACC-AATTTTTTT-AAAAAAAACTAACCA
* * *
94223380 AATCGAA-CTTTTT-AAAAAAATTAACCA
1 AA-CCAATTTTTTTAAAAAAAACTAACCA
94223407 AACCAATTTTTTT
1 AACCAATTTTTTT
94223420 TCGATTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
26 3 0.09
27 20 0.61
29 5 0.15
30 4 0.12
31 1 0.03
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (28 bp):
AACCAATTTTTTTAAAAAAAACTAACCA
Found at i:94223525 original size:9 final size:9
Alignment explanation
Indices: 94223495--94223527 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
94223485 ATAAGTATAA
94223495 AATTAACCG
1 AATTAACCG
*
94223504 AATCAACCG
1 AATTAACCG
94223513 AATTAACCG
1 AATTAACCG
94223522 AATTAA
1 AATTAA
94223528 ATTATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:94227886 original size:6 final size:6
Alignment explanation
Indices: 94227887--94227917 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
94227877 TTAGTTTTAG
94227887 ACTTTT ACTTTT ACTTTT ACTTTT ACTTTT A
1 ACTTTT ACTTTT ACTTTT ACTTTT ACTTTT A
94227918 GATTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (6 bp):
ACTTTT
Found at i:94227934 original size:12 final size:12
Alignment explanation
Indices: 94227887--94227934 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
94227877 TTAGTTTTAG
*
94227887 ACTTTTACTTTT
1 ACTTTTATTTTT
*
94227899 ACTTTTACTTTT
1 ACTTTTATTTTT
94227911 ACTTTTAGATTTTT
1 ACTTTT--ATTTTT
*
94227925 ATTTTTATTT
1 ACTTTTATTT
94227935 ATTAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (12 bp):
ACTTTTATTTTT
Found at i:94241574 original size:13 final size:14
Alignment explanation
Indices: 94241550--94241578 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94241540 GTAATGTGAT
94241550 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
94241564 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
94241577 TT
1 TT
94241579 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:94244703 original size:32 final size:32
Alignment explanation
Indices: 94244667--94244730 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
94244657 AAGTTTTAAT
94244667 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
94244699 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
94244731 AGTCTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (32 bp):
CACAACCAAATCATGTTACACAATCAATTCTA
Found at i:94244720 original size:18 final size:18
Alignment explanation
Indices: 94244667--94244721 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
94244657 AAGTTTTAAT
94244667 CACAACCAAATCATGTTA
1 CACAACCAAATCATGTTA
* *
94244685 CACAATC-AAT--T-CTA
1 CACAACCAAATCATGTTA
94244699 CACAACCAAATCATGTTA
1 CACAACCAAATCATGTTA
94244717 CACAA
1 CACAA
94244722 TCAATTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
17 4 0.14
18 13 0.45
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.22
Consensus pattern (18 bp):
CACAACCAAATCATGTTA
Found at i:94252063 original size:17 final size:17
Alignment explanation
Indices: 94252038--94252071 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
94252028 TCGTAAATCG
94252038 CAGTCTCACTACAGTTT
1 CAGTCTCACTACAGTTT
* *
94252055 CAGTTTCACTACCGTTT
1 CAGTCTCACTACAGTTT
94252072 TTAGTTTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (17 bp):
CAGTCTCACTACAGTTT
Found at i:94256410 original size:23 final size:23
Alignment explanation
Indices: 94256361--94256410 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
94256351 GGAACTTATG
**
94256361 ATTTAATTAACTTAATTAACCTT
1 ATTTAATTAACTTAATTAACCAA
*
94256384 ATTTACTTAA-TTAATTAAACCAA
1 ATTTAATTAACTTAATT-AACCAA
94256407 ATTT
1 ATTT
94256411 TAAGCTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTAACTTAATTAACCAA
Found at i:94260889 original size:20 final size:19
Alignment explanation
Indices: 94260863--94260907 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
94260853 TTTTTAATTA
* *
94260863 TTAAAATCTTTTAATATTT
1 TTAAAATATATTAATATTT
*
94260882 TATAAAATATATTATTATTT
1 T-TAAAATATATTAATATTT
94260902 TTAAAA
1 TTAAAA
94260908 ATTGAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATATATTAATATTT
Found at i:94271958 original size:14 final size:15
Alignment explanation
Indices: 94271934--94271962 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94271924 TTTGTGACTC
94271934 GACTAATATAGGTTA
1 GACTAATATAGGTTA
94271949 GACT-ATATAGGTTA
1 GACTAATATAGGTTA
94271963 AAACTTAAAA
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:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
GACTAATATAGGTTA
Found at i:94272634 original size:60 final size:60
Alignment explanation
Indices: 94272560--94272681 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
94272550 GGTTCTTAAA
*
94272560 TCAAAAAGATAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
94272620 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
94272680 TC
1 TC
94272682 CTATGGTAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (60 bp):
TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
Found at i:94273896 original size:19 final size:20
Alignment explanation
Indices: 94273869--94273927 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
94273859 TCTTCGAAGA
*
94273869 TATGCAATCTTAGATATG-G
1 TATGTAATCTTAGATATGAG
*
94273888 TATGTAATCTTAAAAGATATGAT
1 TATGTAATCTT---AGATATGAG
*
94273911 TTTGTAATCTTAGATAT
1 TATGTAATCTTAGATAT
94273928 TTAATTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
22 7 0.21
23 10 0.30
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
TATGTAATCTTAGATATGAG
Found at i:94273908 original size:22 final size:23
Alignment explanation
Indices: 94273880--94273922 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
94273870 ATGCAATCTT
94273880 AGATATG-GTATGTAATCTTAAA
1 AGATATGAGTATGTAATCTTAAA
* *
94273902 AGATATGATTTTGTAATCTTA
1 AGATATGAGTATGTAATCTTA
94273923 GATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAGTATGTAATCTTAAA
Found at i:94279042 original size:17 final size:17
Alignment explanation
Indices: 94278992--94279042 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
94278982 TGGAAACATG
*
94278992 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
94279009 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
94279028 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
94279043 ATTTTGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:94280105 original size:21 final size:21
Alignment explanation
Indices: 94280081--94280144 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
94280071 GAAGTTGAAA
94280081 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
* * **
94280102 CATGTAAGTTA-GTAAG---AA
1 CATG-AATTTACTTAAGCTTGC
94280120 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
94280141 CATG
1 CATG
94280145 TAAGTTAGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (21 bp):
CATGAATTTACTTAAGCTTGC
Found at i:94280122 original size:39 final size:39
Alignment explanation
Indices: 94280079--94280157 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
94280069 AGGAAGTTGA
94280079 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
94280118 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
94280157 A
1 A
94280158 TGAAGTAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (39 bp):
AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
Found at i:94280156 original size:21 final size:21
Alignment explanation
Indices: 94280093--94280156 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
94280083 TGAATTTACT
94280093 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
** * *
94280114 TAAG---AACATG-AATTTACT
1 TAAGCTTGCCATGTAAGTTA-G
94280132 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
94280153 TAAG
1 TAAG
94280157 ATGAAGTAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TAAGCTTGCCATGTAAGTTAG
Found at i:94285265 original size:214 final size:217
Alignment explanation
Indices: 94284875--94285305 Score: 604
Period size: 214 Copynumber: 2.0 Consensus size: 217
94284865 GTATGTTAAT
* * * *
94284875 TTGTTAAACTGAAAAGGTGAAGAATCCATCCAAAAGAAACCGTTGAGTTTAAACATATATATACG
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * * *
94284940 ATATATGTAAGTCATGCAAAAATTTAAAGCACATGGAACTAGGCATGCACAAAATGACAGACTAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
* * *
94285005 CAAAGAAGCAATAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTTGCAAT-AG
131 CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
94285069 ACCTTGTTTCAGTGGCAAGGAG
196 ACCTTGTTTCAGTGGCAAGGAG
* * *
94285091 TTGTTACATTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATA-T
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * **
94285155 A-ATATGTAAGTCATACAAAAATTTAAATCACATAGAACTAGGTATGCA-AAAAAG-TTGACCAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
** *
94285217 CAAAGAAGCAAAAGATTATTA-GAACCATCATTTGAACTTCATGAGCATATTCAATATTCGCAAT
131 CAAAGAAGCAAAAGA-TA--AGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAAT
94285281 GAAACCTTGTTTCAGTGGCAAGGAG
193 GAAACCTTGTTTCAGTGGCAAGGAG
94285306 GAGGCTTTGG
Statistics
Matches: 190, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
212 19 0.10
213 7 0.04
214 82 0.43
215 25 0.13
216 57 0.30
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (217 bp):
TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
ACCTTGTTTCAGTGGCAAGGAG
Found at i:94288031 original size:18 final size:18
Alignment explanation
Indices: 94288008--94288066 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
94287998 ATAAGTATAA
*
94288008 AATTAATTGAATTAATCG
1 AATTAACTGAATTAATCG
* *
94288026 AATTAACTAAATT-ATACA
1 AATTAACTGAATTAAT-CG
*
94288044 AATTAACTGAATTAACCG
1 AATTAACTGAATTAATCG
94288062 AATTA
1 AATTA
94288067 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (18 bp):
AATTAACTGAATTAATCG
Found at i:94289406 original size:18 final size:18
Alignment explanation
Indices: 94289379--94289414 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94289369 TTTTATCAAT
94289379 ATTTAGTAAATATATATA
1 ATTTAGTAAATATATATA
* *
94289397 ATTTATTAAATATCTATA
1 ATTTAGTAAATATATATA
94289415 CATAGAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTAGTAAATATATATA
Found at i:94293102 original size:42 final size:42
Alignment explanation
Indices: 94293055--94293139 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
94293045 TAGTTGAACA
94293055 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
*
94293097 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTTTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
94293139 T
1 T
94293140 ATGAAAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (42 bp):
TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
Found at i:94306517 original size:23 final size:23
Alignment explanation
Indices: 94306487--94306537 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
94306477 AATCAATAAT
*
94306487 TTGCACCAAAGTGCCACTATCAC
1 TTGCACCAAAGTGCCACAATCAC
*
94306510 TTGCACCAAAGTGTCACAATCAC
1 TTGCACCAAAGTGCCACAATCAC
94306533 TTGCA
1 TTGCA
94306538 TGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACAATCAC
Found at i:94316725 original size:15 final size:15
Alignment explanation
Indices: 94316705--94316736 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
94316695 ACATATATGG
*
94316705 AAAATAAAATAAGAT
1 AAAATAAAATAACAT
94316720 AAAATAAAATAACAT
1 AAAATAAAATAACAT
94316735 AA
1 AA
94316737 TATATAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAAAATAACAT
Found at i:94316987 original size:3 final size:3
Alignment explanation
Indices: 94316972--94317004 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
94316962 AATAGTAAGG
*
94316972 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94317005 CTAAACAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94316987 original size:12 final size:12
Alignment explanation
Indices: 94316956--94317001 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
94316946 TGAATGTAAA
*
94316956 AATAGTAATAGT
1 AATAATAATAGT
**
94316968 AAGGATAATAGT
1 AATAATAATAGT
*
94316980 AATAATAATAAT
1 AATAATAATAGT
94316992 AATAATAATA
1 AATAATAATA
94317002 ATACTAAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:94318297 original size:1 final size:1
Alignment explanation
Indices: 94318291--94318381 Score: 173
Period size: 1 Copynumber: 91.0 Consensus size: 1
94318281 TTTAGATGGG
94318291 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
94318356 TTTTTTTTTTTTTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
94318382 GTAATGTGGG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 88 1.00
ACGTcount: A:0.01, C:0.00, G:0.00, T:0.99
Consensus pattern (1 bp):
T
Found at i:94328693 original size:21 final size:22
Alignment explanation
Indices: 94328653--94328693 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
94328643 ATTTTAAAAA
*
94328653 ATTTTCTTTTCGAAATTTTTAG
1 ATTTTCTTTTCGAAAATTTTAG
*
94328675 ATTTTTTTTTC-AAAATTTT
1 ATTTTCTTTTCGAAAATTTT
94328694 GGAATTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTTCTTTTCGAAAATTTTAG
Found at i:94328786 original size:8 final size:8
Alignment explanation
Indices: 94328773--94328798 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
94328763 TTAATTAGTT
94328773 TTTTAAAA
1 TTTTAAAA
94328781 TTTTAAAA
1 TTTTAAAA
94328789 TTTTAAAA
1 TTTTAAAA
94328797 TT
1 TT
94328799 AAACTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:94346894 original size:3 final size:3
Alignment explanation
Indices: 94346879--94346911 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
94346869 AATAGTAAGG
*
94346879 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94346912 CTAAACAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94346894 original size:12 final size:12
Alignment explanation
Indices: 94346863--94346908 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
94346853 TGAATGTAAA
*
94346863 AATAGTAATAGT
1 AATAATAATAGT
**
94346875 AAGGATAATAGT
1 AATAATAATAGT
*
94346887 AATAATAATAAT
1 AATAATAATAGT
94346899 AATAATAATA
1 AATAATAATA
94346909 ATACTAAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:94352575 original size:131 final size:129
Alignment explanation
Indices: 94352365--94352821 Score: 402
Period size: 131 Copynumber: 3.5 Consensus size: 129
94352355 ACACTTGGTT
* * * *** * *
94352365 ATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTACCCAAAGTAATCGAAGGT
1 ATTCG-GGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATGT
* * * * * * * *
94352430 CCCTTTAGAATTTCACTCATGTCTTCCAAAAATCCTTTAAAACGAAGGTAATACTCGGTGTTTGA
65 TCC-TTAGGATTTCATTCATGTCTTCTAAAAA-CCTTTAAAACGAAGGAAATATTCGATGTTTGG
*
94352495 TA
128 CA
* **
94352497 ATTCGGGAATCATACCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAATAATCGAATGTT
1 ATTCGGGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATGTT
* * ** ** * **
94352562 CCTTCAGGTTTTCATTCATGT-TTATTAAAAACCTTCCGAAACGAAGGCGATTTTAAATGTTTGG
66 CCTT-AGGATTTCATTCATGTCTT-CTAAAAACCTT-TAAAACGAAGGAAATATTCGATGTTTGG
*
94352626 CG
128 CA
* * * * * *
94352628 ATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCATATTT-TCGTTTGTTCAAAACAATC-AAAGA
1 ATTCGGGAATCATGCCCTATCGTGCTGGGTTGCA-ATTTCTCATTTGTTCAAAATAATCGAATG-
* * *
94352691 CTCCTTAGGAATTTCATTCATG-CTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCGATGTTT
64 TTCCTTAGG-ATTTCATTCATGTC-TTCTAAAAA-CCTTTAAAACGAAGGAAATATTCGATGTTT
94352755 GGCA
126 GGCA
*
94352759 ATTCGGTGAAT-AGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAT
1 ATTCGG-GAATCA-TGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAAT
94352822 ATATCTTCGG
Statistics
Matches: 257, Mismatches: 55, Indels: 25
0.76 0.16 0.07
Matches are distributed among these distances:
130 14 0.05
131 182 0.71
132 59 0.23
133 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (129 bp):
ATTCGGGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCGAATGTT
CCTTAGGATTTCATTCATGTCTTCTAAAAACCTTTAAAACGAAGGAAATATTCGATGTTTGGCA
Found at i:94375154 original size:28 final size:29
Alignment explanation
Indices: 94375118--94375174 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
94375108 TTATTTGGGG
*
94375118 TTTCTGGTTGTAATTTTGGAC-TTTGAACT
1 TTTCTGGTTGTAATTTCGG-CTTTTGAACT
*
94375147 TTTC-GGTTTTAATTTCGGCTTTTGAACT
1 TTTCTGGTTGTAATTTCGGCTTTTGAACT
94375175 GTGGATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.04
28 20 0.80
29 4 0.16
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (29 bp):
TTTCTGGTTGTAATTTCGGCTTTTGAACT
Found at i:94378910 original size:21 final size:21
Alignment explanation
Indices: 94378884--94378925 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
94378874 TAGCAGCACA
94378884 GCCGTAATTACCTAATTATGT
1 GCCGTAATTACCTAATTATGT
94378905 GCCGTAATTACCTAATTATGT
1 GCCGTAATTACCTAATTATGT
94378926 ACCACATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
GCCGTAATTACCTAATTATGT
Found at i:94380417 original size:15 final size:15
Alignment explanation
Indices: 94380397--94380426 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94380387 TATCTTGTTA
94380397 GTACAAAACTCCGGT
1 GTACAAAACTCCGGT
94380412 GTACAAAACTCCGGT
1 GTACAAAACTCCGGT
94380427 AAGGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
GTACAAAACTCCGGT
Found at i:94389832 original size:22 final size:22
Alignment explanation
Indices: 94389762--94389833 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
94389752 TGCACCAGTA
* *
94389762 TATGAGAGCCCTTTAAGGGACG
1 TATGAGAGCCCTTTATGAGACG
* * *
94389784 TTTGAGAGCCCCTTGTGTAGGACG
1 TATGAGAGCCCTTTATG-A-GACG
*
94389808 TATGAAAGCCCTTTATGAGACG
1 TATGAGAGCCCTTTATGAGACG
94389830 TATG
1 TATG
94389834 GAAGACCATG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 21 0.54
23 1 0.03
24 17 0.44
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGACG
Found at i:94389893 original size:28 final size:28
Alignment explanation
Indices: 94389862--94389956 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
94389852 AATATATAAT
*
94389862 ATGTGGGAAGTCCATCAGGACTATTTAA
1 ATGTGGGAAGTCCATCAAGACTATTTAA
* * * * *
94389890 ATGTGGGGAGCCCTTCAAGACTGTCTAA
1 ATGTGGGAAGTCCATCAAGACTATTTAA
* * * *
94389918 ATGTAGGCAGTCCGTCAAGACGATCTTAA
1 ATGTGGGAAGTCCATCAAGACTAT-TTAA
94389947 ATGT-GGAAGT
1 ATGTGGGAAGT
94389957 TGTCCAAGAC
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
28 45 0.87
29 7 0.13
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (28 bp):
ATGTGGGAAGTCCATCAAGACTATTTAA
Found at i:94389964 original size:28 final size:29
Alignment explanation
Indices: 94389915--94389989 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
94389905 CAAGACTGTC
* * *
94389915 TAAATGTAGGCAGTCCGT-CAAGACGATCT
1 TAAATG-AGGAAGTCTGTCCAAGACAATCT
*
94389944 TAAATGTGGAAGT-TGTCCAAGACAATCT
1 TAAATGAGGAAGTCTGTCCAAGACAATCT
94389972 TAAATGAGGAAGTCTGTC
1 TAAATGAGGAAGTCTGTC
94389990 TAAATGTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 27 0.69
29 10 0.26
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (29 bp):
TAAATGAGGAAGTCTGTCCAAGACAATCT
Found at i:94403762 original size:22 final size:22
Alignment explanation
Indices: 94403724--94403767 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94403714 TTGCCCGGGC
* *
94403724 CCAAAACCAGACACAAATAAAA
1 CCAAAACCAAACACAAAAAAAA
94403746 CCAAAACCAAA-ACCAAAAAAAA
1 CCAAAACCAAACA-CAAAAAAAA
94403768 AAACAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.68, C:0.27, G:0.02, T:0.02
Consensus pattern (22 bp):
CCAAAACCAAACACAAAAAAAA
Found at i:94404981 original size:16 final size:17
Alignment explanation
Indices: 94404949--94404985 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
94404939 TATTCTTATT
94404949 TTTATTTCTCGTTGCTTA
1 TTTATTTCTC-TTGCTTA
94404967 TTTATTTCT-TTGCTTA
1 TTTATTTCTCTTGCTTA
94404983 TTT
1 TTT
94404986 TTACACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTATTTCTCTTGCTTA
Found at i:94404988 original size:18 final size:19
Alignment explanation
Indices: 94404943--94404988 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
94404933 CGTCATTATT
94404943 CTTATTTTTATTTCTCGTTG
1 CTTATTTTTATTTCTC-TTG
94404963 CTTA--TTTATTTCT-TTG
1 CTTATTTTTATTTCTCTTG
94404979 CTTATTTTTA
1 CTTATTTTTA
94404989 CACTTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.29
18 13 0.54
20 4 0.17
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (19 bp):
CTTATTTTTATTTCTCTTG
Found at i:94406702 original size:87 final size:87
Alignment explanation
Indices: 94406552--94406752 Score: 357
Period size: 87 Copynumber: 2.3 Consensus size: 87
94406542 TGAATTCAAT
94406552 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
1 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
94406617 CATATCCCAGAGTTTGGATGGA
66 CATATCCCAGAGTTTGGATGGA
*
94406639 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAGTGAGTT
1 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
*
94406704 CATATCCCAGAGTTTGGATGGT
66 CATATCCCAGAGTTTGGATGGA
* * *
94406726 CCTATTGAGACGAACTTGATGAATTCA
1 CCTATTCAGATGGACTTGATGAATTCA
94406753 CCGAATTTAA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 109 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (87 bp):
CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
CATATCCCAGAGTTTGGATGGA
Found at i:94410576 original size:3 final size:3
Alignment explanation
Indices: 94410570--94410597 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
94410560 TCATCAAACC
94410570 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
94410598 TTCAAGTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:94416519 original size:28 final size:28
Alignment explanation
Indices: 94416471--94416524 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
94416461 TTTTGGGCTC
*
94416471 AAATTAAATTATATATTTTTACTAGTAA
1 AAATTAAATTATATATTTTTAATAGTAA
94416499 AAATATAAATT-TATCA-TTTTAATAGT
1 AAAT-TAAATTATAT-ATTTTTAATAGT
94416525 TTATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
AAATTAAATTATATATTTTTAATAGTAA
Found at i:94419086 original size:18 final size:19
Alignment explanation
Indices: 94419046--94419090 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
94419036 CAGTCGGTAA
94419046 CAATCAATTATTCAATAAT
1 CAATCAATTATTCAATAAT
* *
94419065 -AATCAGTTATTCAGT-AT
1 CAATCAATTATTCAATAAT
94419082 CAATCAATT
1 CAATCAATT
94419091 GATCGGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (19 bp):
CAATCAATTATTCAATAAT
Found at i:94419100 original size:26 final size:27
Alignment explanation
Indices: 94419070--94419126 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
94419060 ATAATAATCA
*
94419070 GTTATTC-AGTATCAATCAATTGATCG
1 GTTATTCTAGTAACAATCAATTGATCG
94419096 GTTA-TCTAGTAACAATCAATTGATCG
1 GTTATTCTAGTAACAATCAATTGATCG
94419122 GTTAT
1 GTTAT
94419127 CCAATAGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
GTTATTCTAGTAACAATCAATTGATCG
Found at i:94419127 original size:26 final size:26
Alignment explanation
Indices: 94419077--94419127 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
94419067 TCAGTTATTC
*
94419077 AGTATCAATCAATTGATCGGTTATCT
1 AGTAACAATCAATTGATCGGTTATCT
94419103 AGTAACAATCAATTGATCGGTTATC
1 AGTAACAATCAATTGATCGGTTATC
94419128 CAATAGCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (26 bp):
AGTAACAATCAATTGATCGGTTATCT
Found at i:94419140 original size:26 final size:26
Alignment explanation
Indices: 94419082--94419142 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
94419072 TATTCAGTAT
* *
94419082 CAATCAATTGATCGGTTATCTAGTAA
1 CAATCAATTGATCGGTTATCCAATAA
*
94419108 CAATCAATTGATCGGTTATCCAATAG
1 CAATCAATTGATCGGTTATCCAATAA
*
94419134 CAGTCAATT
1 CAATCAATT
94419143 ATTCAGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (26 bp):
CAATCAATTGATCGGTTATCCAATAA
Found at i:94419158 original size:18 final size:18
Alignment explanation
Indices: 94419137--94419174 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
94419127 CCAATAGCAG
*
94419137 TCAATTATTCAGTAAAAA
1 TCAAATATTCAGTAAAAA
*
94419155 TCAAATATTCAGTAACAA
1 TCAAATATTCAGTAAAAA
94419173 TC
1 TC
94419175 GATCTTTCCA
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:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
TCAAATATTCAGTAAAAA
Found at i:94419416 original size:12 final size:12
Alignment explanation
Indices: 94419399--94419423 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94419389 AGTGCCGAAT
94419399 CGGTAACAGTAA
1 CGGTAACAGTAA
94419411 CGGTAACAGTAA
1 CGGTAACAGTAA
94419423 C
1 C
94419424 AGTAGTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:94420515 original size:5 final size:5
Alignment explanation
Indices: 94420507--94420545 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
94420497 TTCTTTAGTT
94420507 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
94420546 GTTAAAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:94421394 original size:36 final size:35
Alignment explanation
Indices: 94421329--94421396 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
94421319 AAAATAATAG
*
94421329 CAAAAATAACAATAAAACAAGAGTCATATAATATC
1 CAAAAATAACAATAAAACAAGAGTAATATAATATC
*
94421364 CAAACAATAACAATAAAA-TAGTAGTAATATAAT
1 CAAA-AATAACAATAAAACAAG-AGTAATATAAT
94421397 GATGAAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.22
Consensus pattern (35 bp):
CAAAAATAACAATAAAACAAGAGTAATATAATATC
Found at i:94423933 original size:26 final size:26
Alignment explanation
Indices: 94423902--94423956 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
94423892 TTGCAAAAGT
* *
94423902 AAAAC-TACATATATAAACAAGACTAA
1 AAAACTTACAGATAAAAACAAGA-TAA
*
94423928 AAAACTTATAGATAAAAACAAGATAA
1 AAAACTTACAGATAAAAACAAGATAA
94423954 AAA
1 AAA
94423957 CTTTCAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.18
Consensus pattern (26 bp):
AAAACTTACAGATAAAAACAAGATAA
Found at i:94426261 original size:13 final size:13
Alignment explanation
Indices: 94426245--94426269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94426235 TTTATTTTCC
94426245 ACGGTGGCCGGCA
1 ACGGTGGCCGGCA
94426258 ACGGTGGCCGGC
1 ACGGTGGCCGGC
94426270 GGTGGTGACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.48, T:0.08
Consensus pattern (13 bp):
ACGGTGGCCGGCA
Found at i:94427040 original size:22 final size:22
Alignment explanation
Indices: 94427015--94427114 Score: 94
Period size: 22 Copynumber: 4.3 Consensus size: 22
94427005 ATTATGCATA
**
94427015 TATATATTAATATTATATTATG
1 TATATATTTTTATTATATTATG
*
94427037 TATATTATTTTT-TTAAATATTATA
1 TATA-TATTTTTATT--ATATTATG
*
94427061 TATATGTATTTTTTTATATATTATG
1 TATA--TATTTTTAT-TATATTATG
*
94427086 TATATATTTTTAATATATTATG
1 TATATATTTTTATTATATTATG
94427108 TATATAT
1 TATATAT
94427115 ATTATGTACA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
22 22 0.34
23 12 0.18
24 11 0.17
25 18 0.28
26 1 0.02
27 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TATATATTTTTATTATATTATG
Found at i:94427076 original size:25 final size:24
Alignment explanation
Indices: 94427029--94427117 Score: 112
Period size: 25 Copynumber: 3.7 Consensus size: 24
94427019 TATTAATATT
94427029 ATATTATGTATATTATTTTTTTAA
1 ATATTATGTATATTATTTTTTTAA
* *
94427053 ATATTATATATATGTATTTTTTTAT
1 ATATTATGTATAT-TATTTTTTTAA
94427078 ATATTATGTATA-TA--TTTTTAA
1 ATATTATGTATATTATTTTTTTAA
94427099 TATATTATGTATATATATT
1 -ATATTATGTATAT-TATT
94427118 ATGTACATAC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.11
22 12 0.22
23 2 0.04
24 14 0.25
25 21 0.38
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATATTATGTATATTATTTTTTTAA
Found at i:94427150 original size:11 final size:11
Alignment explanation
Indices: 94427015--94427178 Score: 73
Period size: 11 Copynumber: 15.2 Consensus size: 11
94427005 ATTATGCATA
*
94427015 TATATATTA-A
1 TATATATTATG
94427025 TATTATATTATG
1 TA-TATATTATG
*
94427037 TATATTATT-TT
1 TATA-TATTATG
* *
94427048 TTTA-AATAT-
1 TATATATTATG
94427057 TATATA-TATG
1 TATATATTATG
*
94427067 TAT-T-TT-TT
1 TATATATTATG
94427075 TATATATTATG
1 TATATATTATG
*
94427086 TATATATT-TT
1 TATATATTATG
94427096 TAATATATTATG
1 T-ATATATTATG
94427108 TATATATATTATG
1 --TATATATTATG
*
94427121 TACATACTTAT-
1 TATATA-TTATG
*
94427132 AATATTATTATG
1 TATA-TATTATG
* *
94427144 TATTTATTCT-
1 TATATATTATG
94427154 TA-ATATATATG
1 TATATAT-TATG
94427165 TATATATTTATG
1 TATATA-TTATG
94427177 TA
1 TA
94427179 GTATTATTAA
Statistics
Matches: 116, Mismatches: 17, Indels: 40
0.67 0.10 0.23
Matches are distributed among these distances:
8 4 0.03
9 14 0.12
10 15 0.13
11 47 0.41
12 24 0.21
13 11 0.09
14 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATTATG
Found at i:94427280 original size:24 final size:24
Alignment explanation
Indices: 94427226--94427321 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 24
94427216 CTAATATGTA
94427226 TATATTATGTAAATATTTTTAATAC
1 TATATTATGTAAATATTTTT-ATAC
*
94427251 TATATTATGTATATATTTTT-TAC
1 TATATTATGTAAATATTTTTATAC
* * *
94427274 ATGTATTATGTACATATTTTCAATAAC
1 -TATATTATGTAAATATTTT-TAT-AC
*
94427301 TATATCATATGTATATATTTT
1 TATAT--TATGTAAATATTTT
94427322 ATGTACATAC
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
23 3 0.05
24 17 0.29
25 19 0.32
26 5 0.08
27 2 0.03
28 13 0.22
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (24 bp):
TATATTATGTAAATATTTTTATAC
Found at i:94427283 original size:198 final size:194
Alignment explanation
Indices: 94427022--94427466 Score: 531
Period size: 204 Copynumber: 2.2 Consensus size: 194
94427012 ATATATATAT
* * * * *
94427022 TAATAT-TATATTATGTATATTATTTTTTTAAATATTATATATATGTATTTTTTTATATATTATG
1 TAATATATATATTATGTA-AATATTTTTATATATATTATGTATA--TATTTTTTCATATATTATG
*
94427086 TATATATTTT-TAA-TATAT-TATGTATATATATTATGTACATACTTATAATATTATTATGTATT
63 TACATATTTTATAACTATATATATGTATATATATTATGTACATACTTATAATATTATTATGTATT
* * *
94427148 TATTCTTAATATATATGTATATATTTATGTAGTATTATTAATAGTT-GCTTTTAATATTATTATT
128 TATTCTTAATATATA--TATATATATATGTA-TATTATTAATAGTTAGCTTTTAACATTATTATC
94427212 ATTTC
190 ATTTC
*
94427217 TAATATGTATATATTATGTAAATATTTTTAATACTATATTATGTATATATTTTTTACATGTATTA
1 TAATA--TATATATTATGTAAATATTTTT-ATA-TATATTATGTATATATTTTTT-CATATATTA
* *
94427282 TGTACATATTTTCAATAACTATATCATATGTATATATTTTATGTACATACTTTTAATATTATTAT
61 TGTACATATTTT--ATAACTATAT-ATATGTATATATATTATGTACATACTTATAATATTATTAT
* * * **
94427347 GTATTTATTTTTAATATATATATGTATATATTTATATTATTAATAGTTATTTTTTAACATTATTA
123 GTATTTATTCTTAATATATATATATATATATGTATATTATTAATAGTTAGCTTTTAACATTATTA
94427412 TCATTTC
188 TCATTTC
* * *
94427419 TAATATATATGTGTATCGTATATGTTTTTATATATATTATGTATATAT
1 TAATATATATAT-TAT-GTAAATATTTTTATATATATTATGTATATAT
94427467 CTTTAGTATT
Statistics
Matches: 215, Mismatches: 20, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
195 5 0.02
197 17 0.08
198 31 0.14
199 11 0.05
200 22 0.10
201 23 0.11
202 50 0.23
204 56 0.26
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (194 bp):
TAATATATATATTATGTAAATATTTTTATATATATTATGTATATATTTTTTCATATATTATGTAC
ATATTTTATAACTATATATATGTATATATATTATGTACATACTTATAATATTATTATGTATTTAT
TCTTAATATATATATATATATATGTATATTATTAATAGTTAGCTTTTAACATTATTATCATTTC
Found at i:94427347 original size:88 final size:87
Alignment explanation
Indices: 94427219--94427379 Score: 220
Period size: 88 Copynumber: 1.8 Consensus size: 87
94427209 ATTATTTCTA
* *
94427219 ATATGTATATATTATGTAAATATTTTTAATACTATATTATGTATATATTTTTTACATGTAT-TAT
1 ATATGTATATATTATGTAAATACTTTTAATACTATATTATGTATATA-TTTTTA-ATATATATAT
94427283 GTACATATTTTCAATAACTATATC
64 GTACATATTTTCAATAACTATATC
* *
94427307 ATATGTATATATTTTATGTACATACTTTTAATA-T-TATTATGTATTTATTTTTAATATATATAT
1 ATATGTATATA--TTATGTAAATACTTTTAATACTATATTATGTATATATTTTTAATATATATAT
*
94427370 GTATATATTT
64 GTACATATTT
94427380 ATATTATTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
86 5 0.08
87 18 0.28
88 23 0.35
89 1 0.02
90 18 0.28
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (87 bp):
ATATGTATATATTATGTAAATACTTTTAATACTATATTATGTATATATTTTTAATATATATATGT
ACATATTTTCAATAACTATATC
Found at i:94427464 original size:23 final size:23
Alignment explanation
Indices: 94427098--94427321 Score: 92
Period size: 23 Copynumber: 9.4 Consensus size: 23
94427088 TATATTTTTA
*
94427098 ATATATTATGTATATATATTATGT
1 ATATATT-TTTATATATATTATGT
* * *
94427122 ACATACTTATA-ATATTATTATGT
1 ATATATTTTTATATA-TATTATGT
* *
94427145 ATTTATTCTTA-ATATA-TATGT
1 ATATATTTTTATATATATTATGT
*
94427166 ATATA--TTTATGTAGTATTAT-T
1 ATATATTTTTATATA-TATTATGT
94427187 A-ATAGTTGCTTT-TA-ATATTAT-T
1 ATATA-TT--TTTATATATATTATGT
94427209 AT-TATTTCTAATATGTATATATTATGT
1 ATATATTT-T--TA--TATATATTATGT
*
94427236 AAATATTTTTAATACTATATTATGT
1 ATATATTTTT-ATA-TATATTATGT
* *
94427261 ATATATTTTTTACATGTATTATGT
1 ATATA-TTTTTATATATATTATGT
* *
94427285 ACATATTTTCAATAACTATATCATATGT
1 ATATATTTT-TAT-A-TATAT--TATGT
94427313 ATATATTTT
1 ATATATTTT
94427322 ATGTACATAC
Statistics
Matches: 152, Mismatches: 21, Indels: 50
0.68 0.09 0.22
Matches are distributed among these distances:
19 4 0.03
20 6 0.04
21 15 0.10
22 19 0.12
23 25 0.16
24 22 0.14
25 23 0.15
26 17 0.11
27 3 0.02
28 18 0.12
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (23 bp):
ATATATTTTTATATATATTATGT
Found at i:94427471 original size:23 final size:22
Alignment explanation
Indices: 94427075--94427788 Score: 118
Period size: 24 Copynumber: 31.5 Consensus size: 22
94427065 TGTATTTTTT
* * *
94427075 TATATATTATGTATATATT-TT
1 TATATATTTTATATATATTATG
94427096 TAATATATTATGTATATATATTATG
1 T-ATATATT-T-TATATATATTATG
* *
94427121 TACATA-CTTATAATATTATTATG
1 TATATATTTTAT-ATA-TATTATG
*
94427144 TATTTATTCTTA-ATATA-TATG
1 TATATATT-TTATATATATTATG
*
94427165 TATATA-TTTATGTAGTATTAT-
1 TATATATTTTATATA-TATTATG
*
94427186 TA-ATAGTTGCTTTTA-ATATTAT-
1 TATATA-TT--TTATATATATTATG
94427208 TAT-TATTTCTAATATGTATATATTATG
1 TATATA-TT-T--TA--TATATATTATG
*
94427235 TAAATATTTTTAATACTATATTATG
1 TATATA-TTTT-ATA-TATATTATG
* *
94427260 TATATATTTTTTACATGTATTATG
1 TATATA--TTTTATATATATTATG
*
94427284 TACATATTTTCAATAACTATATCATATG
1 TATATATTTT--AT-A-TATAT--TATG
* *
94427312 TATATATTTTATGTACA-TACT-
1 TATATATTTTATATATATTA-TG
* * *
94427333 TTTA-ATATTAT-TAT-GTAT-
1 TATATATTTTATATATATTATG
* *
94427351 T-TATTTTTAATATATA-TATG
1 TATATATTTTATATATATTATG
94427371 TATATA-TTTATAT-TATTAATAG
1 TATATATTTTATATATATT-AT-G
*
94427393 T-TAT-TTTT-TA-ACATTAT-
1 TATATATTTTATATATATTATG
*
94427410 TATCAT-TTCTAATATATATGTGTATCG
1 TAT-ATATT-T--TATATATAT-TAT-G
*
94427437 TATATGTTTTTATATATATTATG
1 TATAT-ATTTTATATATATTATG
94427460 TATATATCTTTAGTAT-TATTA-G
1 TATATAT-TTTA-TATATATTATG
* *
94427482 TTATATGTTTTTTATACTATTTCATG
1 -TATATATTTTATATA-TA-TT-ATG
*
94427508 TATATATTTTTATATTATCCTTAT-
1 TATATA-TTTTATA-TAT-ATTATG
94427532 TAT-TATTATTAT-TAATATTA-G
1 TATATATT-TTATAT-ATATTATG
* *
94427553 TATGTGTTTTAT-TATA--A-G
1 TATATATTTTATATATATTATG
94427571 TATATATCTTTA-ATATA-TATG
1 TATATAT-TTTATATATATTATG
*
94427592 TATATA-TTTATGTAATATTAT-
1 TATATATTTTATAT-ATATTATG
* * * *
94427613 TAATAGTTGTTTTTTAAAACATTAT-
1 T-ATA--TATTTTAT-ATATATTATG
94427638 TAT-TATTTCTAATATGTATATACTATG
1 TATATATTT-T-ATA--TATAT--TATG
*
94427665 TAAATATTTTAATACTATATTATG
1 TATATATTTT-ATA-TATATTATG
* *
94427689 TATACATTTTTTATATATATTACG
1 TAT--ATATTTTATATATATTATG
*
94427713 TATATATATCTT-T-T-TAATAT-
1 TATATAT-T-TTATATATATTATG
* *
94427733 TGTAT-TTTTATATATGTTATG
1 TATATATTTTATATATATTATG
*
94427754 TATATATCTTTAATACTATATTATT
1 TATATAT-TTT-ATA-TATATTATG
*
94427779 TTTATATTTT
1 TATATATTTT
94427789 CTATTTTTCA
Statistics
Matches: 519, Mismatches: 71, Indels: 203
0.65 0.09 0.26
Matches are distributed among these distances:
17 5 0.01
18 16 0.03
19 35 0.07
20 39 0.08
21 73 0.14
22 62 0.12
23 53 0.10
24 79 0.15
25 71 0.14
26 45 0.09
27 16 0.03
28 25 0.05
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (22 bp):
TATATATTTTATATATATTATG
Found at i:94427842 original size:57 final size:54
Alignment explanation
Indices: 94427735--94427842 Score: 119
Period size: 57 Copynumber: 1.9 Consensus size: 54
94427725 TTTAATATTG
* * *
94427735 TATTTTTATATATGTTATGTATATATCTTTAATACTATATTATTTTTATATTTTC
1 TATTTTTATATATCTTACGTATATATCTTTAATACTATATTA-TTGTATATTTTC
* *
94427790 TATTTTTCATATTATCTTACGTATATATTTTTTAATAACTGTATTA-TGTATAT
1 TATTTTT-ATA-TATCTTACGTATATA-TCTTTAAT-ACTATATTATTGTATAT
94427843 ACTATTACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
55 7 0.16
56 3 0.07
57 19 0.43
58 7 0.16
59 8 0.18
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (54 bp):
TATTTTTATATATCTTACGTATATATCTTTAATACTATATTATTGTATATTTTC
Found at i:94430205 original size:21 final size:20
Alignment explanation
Indices: 94430120--94430208 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 20
94430110 AGACATATGA
*
94430120 AAATGATACTATTTATAAAAAT
1 AAAT-ATACTA-TAATAAAAAT
*
94430142 ATATATACGTATAAT-AAAAT
1 AAATATAC-TATAATAAAAAT
* * *
94430162 ATATATACTAATATTAATAAT
1 AAATATACT-ATAATAAAAAT
*
94430183 AAATATACTAGGAATAAAAAT
1 AAATATACTA-TAATAAAAAT
94430204 AAATA
1 AAATA
94430209 AAATAATAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
19 1 0.02
20 18 0.33
21 31 0.56
22 5 0.09
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
AAATATACTATAATAAAAAT
Found at i:94430745 original size:22 final size:23
Alignment explanation
Indices: 94430707--94430765 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
94430697 ATATACACGA
* *
94430707 AATAGTATAAAAAATATATA-ACT
1 AATAATATATAAAATATATACA-T
94430730 AATAATAT-TAAAATATATACAT
1 AATAATATATAAAATATATACAT
*
94430752 GATAATATATAAAA
1 AATAATATATAAAA
94430766 AATGATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (23 bp):
AATAATATATAAAATATATACAT
Found at i:94430884 original size:2 final size:2
Alignment explanation
Indices: 94430871--94430942 Score: 53
Period size: 2 Copynumber: 38.0 Consensus size: 2
94430861 TTGCATAAAC
* * * *
94430871 AT AT AC AT AT AT AT AT -T AA AG AT AT AT AT AT AT AC AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
94430911 AT AT AT A- AA AT AT AT AC A- AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94430943 TGGAAATGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (2 bp):
AT
Found at i:94430897 original size:13 final size:13
Alignment explanation
Indices: 94430877--94430926 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 13
94430867 AAACATATAC
94430877 ATATATATATTAAA
1 ATATATATA-TAAA
*
94430891 GATATATATATATAC
1 -ATATATATATA-AA
94430906 ATAATATATATAAA
1 AT-ATATATATAAA
94430920 ATATATA
1 ATATATA
94430927 CAATATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 7 0.23
15 19 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATATATATAAA
Found at i:94430912 original size:11 final size:11
Alignment explanation
Indices: 94430898--94430939 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
94430888 AAAGATATAT
94430898 ATATATACATA
1 ATATATACATA
* *
94430909 ATATATATAAA
1 ATATATACATA
94430920 ATATATAC--A
1 ATATATACATA
94430929 ATATATACATA
1 ATATATACATA
94430940 TATTGGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 9 0.35
11 17 0.65
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATATACATA
Found at i:94431075 original size:21 final size:21
Alignment explanation
Indices: 94431031--94431075 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
94431021 ATAGTGTTAG
* *
94431031 AAATATACAATATAATATTAA
1 AAATATACAATACAATAGTAA
94431052 AAATATAC-ATACAATAGTATA
1 AAATATACAATACAATAGTA-A
94431073 AAA
1 AAA
94431076 GATGTATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATATACAATACAATAGTAA
Found at i:94443261 original size:26 final size:26
Alignment explanation
Indices: 94443230--94443337 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
94443220 TGAAATTCCC
*
94443230 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
*
94443256 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
94443282 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
94443308 GTCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
94443334 ATCA
1 ATCA
94443338 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:94451291 original size:29 final size:29
Alignment explanation
Indices: 94451232--94451291 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
94451222 AGTTATAATA
* *
94451232 ATCACTCAACTGTTTAATTTTATTTTTTT
1 ATCACTCAACTGTTTAATTTTATATTCTT
* *
94451261 ATCACTCAA-TTTTTAATTATTCTATTCTT
1 ATCACTCAACTGTTTAATT-TTATATTCTT
94451290 AT
1 AT
94451292 GTTATCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.57
Consensus pattern (29 bp):
ATCACTCAACTGTTTAATTTTATATTCTT
Found at i:94452505 original size:17 final size:17
Alignment explanation
Indices: 94452474--94452507 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
94452464 AGTTTAATAT
* *
94452474 ATATTATTCATATTTAA
1 ATATTATTAAAATTTAA
94452491 ATATTATTAAAATTTAA
1 ATATTATTAAAATTTAA
94452508 CTAATTCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTATTAAAATTTAA
Found at i:94453990 original size:7 final size:7
Alignment explanation
Indices: 94453980--94454010 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
94453970 AAAATAAATA
94453980 TTATATT
1 TTATATT
94453987 TTATATT
1 TTATATT
94453994 TTATATT
1 TTATATT
94454001 TTATATT
1 TTATATT
94454008 TTA
1 TTA
94454011 AAATTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATATT
Found at i:94459800 original size:29 final size:30
Alignment explanation
Indices: 94459765--94459847 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 30
94459755 AAGCATTAAC
94459765 CTAAATTTTAAAATTTAAAAAGTAAA-GAA
1 CTAAATTTTAAAATTTAAAAAGTAAAGGAA
*
94459794 CTAAATTTTTAAAA-AT-AAAAGTAAAGGAA
1 CTAAA-TTTTAAAATTTAAAAAGTAAAGGAA
*
94459823 TTAAATTTT-AAATTTATGAAAAGTA
1 CTAAATTTTAAAATTTA--AAAAGTA
94459848 GAGATATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 3 0.07
28 14 0.31
29 13 0.29
30 8 0.18
31 7 0.16
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.34
Consensus pattern (30 bp):
CTAAATTTTAAAATTTAAAAAGTAAAGGAA
Found at i:94472784 original size:40 final size:40
Alignment explanation
Indices: 94472738--94472889 Score: 187
Period size: 40 Copynumber: 4.0 Consensus size: 40
94472728 GAATATTTTA
*
94472738 TTTTATCTTTTAGTAGTTGAATAGAATAAAGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
* * *
94472778 TTTTATCTTTTATTAGTTTATTAGAATAAGGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
94472818 TTTTATC--TT--TA---G--TAGAATAAAGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
* *
94472849 TTTTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
94472889 T
1 T
94472890 CCCAATTAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
31 25 0.26
33 2 0.02
35 2 0.02
36 2 0.02
38 2 0.02
40 62 0.65
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (40 bp):
TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
Found at i:94472835 original size:31 final size:32
Alignment explanation
Indices: 94472794--94472864 Score: 117
Period size: 31 Copynumber: 2.2 Consensus size: 32
94472784 CTTTTATTAG
* *
94472794 TTTATTAGAATAAGGGAATTATTTTTTTATC-
1 TTTAGTAGAATAAAGGAATTATTTTTTTATCT
94472825 TTTAGTAGAATAAAGGAATTATTTTTTTATCT
1 TTTAGTAGAATAAAGGAATTATTTTTTTATCT
94472857 TTTAGTAG
1 TTTAGTAG
94472865 TTTATTAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (32 bp):
TTTAGTAGAATAAAGGAATTATTTTTTTATCT
Found at i:94479183 original size:3 final size:3
Alignment explanation
Indices: 94479175--94479205 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
94479165 CAACCAATAA
94479175 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
94479206 ACTAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:94479928 original size:29 final size:30
Alignment explanation
Indices: 94479880--94479947 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
94479870 TTTTTATAGT
94479880 TTAT-ATTTTTATAATTTTTAAAAAATTAA
1 TTATAATTTTTATAATTTTTAAAAAATTAA
* *
94479909 TTCA-AATTTTTATAA-TTTTAAGAGATTAA
1 TT-ATAATTTTTATAATTTTTAAAAAATTAA
94479938 TTATAATTTT
1 TTATAATTTT
94479948 ATCTTTACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 22 0.65
30 11 0.32
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATAATTTTTATAATTTTTAAAAAATTAA
Found at i:94481841 original size:48 final size:48
Alignment explanation
Indices: 94481769--94481956 Score: 243
Period size: 48 Copynumber: 3.9 Consensus size: 48
94481759 TAGGGAATTT
* * *
94481769 ATTGATTTGGCTTCAAGACC-TGATATTGGCACTTCGGGTGTGAGCTTC
1 ATTGATTTGGCTTC-GGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
* *
94481817 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCTGGTGCAAGCTTC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
* * * *
94481865 ATTGATTTGGCTTCGGGCCATAATATTAGCCCTTCGGGTGCGAGCTAC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
* * * *
94481913 ATTGATTTGGCTTCGAGCCATGATATTGACACTTAGGGTACGAG
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
94481957 ACTCTCGAGT
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
47 3 0.02
48 118 0.98
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
Found at i:94486513 original size:28 final size:28
Alignment explanation
Indices: 94486479--94486558 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
94486469 TTTGAATTTG
94486479 CGACCACAAAAGTTTAAAGTATATTTAC
1 CGACCACAAAAGTTTAAAGTATATTTAC
* * *
94486507 CGACCACGGAGAAGTGT-CA-TATATTTAC
1 CGACCAC--AAAAGTTTAAAGTATATTTAC
94486535 CGACCACAAAAGTTTAAAGTATAT
1 CGACCACAAAAGTTTAAAGTATAT
94486559 AATGACTCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 6 0.14
27 1 0.02
28 28 0.67
29 1 0.02
30 6 0.14
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (28 bp):
CGACCACAAAAGTTTAAAGTATATTTAC
Found at i:94487099 original size:18 final size:18
Alignment explanation
Indices: 94487076--94487116 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
94487066 GATTTGTCAG
94487076 CAAGTTAAAGCTAAACAT
1 CAAGTTAAAGCTAAACAT
94487094 CAAGTTAAAGCTAAACAT
1 CAAGTTAAAGCTAAACAT
94487112 CAAGT
1 CAAGT
94487117 ACCTTCGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (18 bp):
CAAGTTAAAGCTAAACAT
Found at i:94503374 original size:47 final size:47
Alignment explanation
Indices: 94503291--94503380 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
94503281 CTTGGGTAAC
* *
94503291 TATGCATAATATTAAAAACATAAGGTTCAGTATGGTGGTTGCTTAAT
1 TATGCATAATATCAAAAACATAAGGTTCAGTATGGTGATTGCTTAAT
* * * *
94503338 TATGTATAATATCAAAATCATAAGGTAT-GGTGTGGTGATTGCT
1 TATGCATAATATCAAAAACATAAGGT-TCAGTATGGTGATTGCT
94503381 CACCTTGTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
47 35 0.97
48 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (47 bp):
TATGCATAATATCAAAAACATAAGGTTCAGTATGGTGATTGCTTAAT
Found at i:94504093 original size:53 final size:53
Alignment explanation
Indices: 94504035--94504142 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
94504025 TCTCTTTTAC
*
94504035 AAGGAAAAATTAAAATTAATTTTTTTTAAAAATTAAGAAAATTAAGAAATTAA
1 AAGGAAAAACTAAAATTAATTTTTTTTAAAAATTAAGAAAATTAAGAAATTAA
94504088 AAGGAAAAACTAAAATTAATTTTTTTTAAAAATTAAGAAAATTAAGAAATTAA
1 AAGGAAAAACTAAAATTAATTTTTTTTAAAAATTAAGAAAATTAAGAAATTAA
94504141 AA
1 AA
94504143 AGATAATATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (53 bp):
AAGGAAAAACTAAAATTAATTTTTTTTAAAAATTAAGAAAATTAAGAAATTAA
Found at i:94506106 original size:38 final size:38
Alignment explanation
Indices: 94506055--94506131 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
94506045 CATTATGATA
*
94506055 TACAATTAAATCTAAAACTAATTTGAGCTTACGAATGC
1 TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
*
94506093 TACAATTAAATCTAAGACTAATTCGAGCTTACGAATGC
1 TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
94506131 T
1 T
94506132 TTTTATAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (38 bp):
TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
Found at i:94507693 original size:22 final size:22
Alignment explanation
Indices: 94507668--94507710 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
94507658 TATCCAAATA
94507668 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
94507690 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
94507711 AATAGGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:94507714 original size:11 final size:11
Alignment explanation
Indices: 94507675--94507715 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
94507665 ATAATAACAA
94507675 CAAAATAGTAG
1 CAAAATAGTAG
* *
94507686 CAACATAATAG
1 CAAAATAGTAG
*
94507697 TAAAATAGTAG
1 CAAAATAGTAG
94507708 CAAAATAG
1 CAAAATAG
94507716 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:94508923 original size:22 final size:24
Alignment explanation
Indices: 94508895--94508938 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
94508885 ACTTTGTTCA
94508895 ACTTTAACTT-TTAT-TCAAAACC
1 ACTTTAACTTGTTATATCAAAACC
*
94508917 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
94508939 TATATGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAACC
Found at i:94513406 original size:15 final size:14
Alignment explanation
Indices: 94513382--94513422 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
94513372 TAAATTCAAC
94513382 ACTTAAATTTTTAAT
1 ACTT-AATTTTTAAT
94513397 ACTTATATTTTTAAT
1 ACTTA-ATTTTTAAT
94513412 ACTTAATTTTT
1 ACTTAATTTTT
94513423 CAGTTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
ACTTAATTTTTAAT
Found at i:94514332 original size:51 final size:52
Alignment explanation
Indices: 94514235--94514337 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 52
94514225 AGAATAAGGC
*
94514235 AAGTCCTACATTCTTGTTGGATGTTGTACTGTTTTTAGGTAAAAATAGACAACA
1 AAGTCCTACACTCTTGTTGGA--TTGTACTGTTTTTAGGTAAAAATAGACAACA
94514289 AAGTCCTACACTCTTGTTGGA-TGTACTGTTTTTAGGTAAAAATAGACAA
1 AAGTCCTACACTCTTGTTGGATTGTACTGTTTTTAGGTAAAAATAGACAA
94514338 AAATAATAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
51 28 0.58
54 20 0.42
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (52 bp):
AAGTCCTACACTCTTGTTGGATTGTACTGTTTTTAGGTAAAAATAGACAACA
Found at i:94516269 original size:22 final size:22
Alignment explanation
Indices: 94516241--94516287 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
94516231 TAAATTATAA
94516241 TAAAATGATAATGATACTACTT
1 TAAAATGATAATGATACTACTT
*
94516263 TAAAATGATAATGGTACTACTT
1 TAAAATGATAATGATACTACTT
94516285 TAA
1 TAA
94516288 TGTAGCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
TAAAATGATAATGATACTACTT
Found at i:94538954 original size:20 final size:20
Alignment explanation
Indices: 94538929--94538970 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
94538919 TTTCATGTAC
94538929 GTGGTATTGTAATGTAAGTT
1 GTGGTATTGTAATGTAAGTT
94538949 GTGGTATTGTAATGTAAGTT
1 GTGGTATTGTAATGTAAGTT
94538969 GT
1 GT
94538971 AGATGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
GTGGTATTGTAATGTAAGTT
Found at i:94538982 original size:7 final size:7
Alignment explanation
Indices: 94538972--94538997 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94538962 GTAAGTTGTA
94538972 GATGTTT
1 GATGTTT
94538979 GATGTTT
1 GATGTTT
94538986 GATGTTT
1 GATGTTT
94538993 GATGT
1 GATGT
94538998 GCCTAGCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (7 bp):
GATGTTT
Found at i:94542117 original size:15 final size:17
Alignment explanation
Indices: 94542093--94542129 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
94542083 CGTGTACTCT
94542093 ATTTTGATAT-TTTT-A
1 ATTTTGATATCTTTTGA
*
94542108 ATTTTTATATCTTTTGA
1 ATTTTGATATCTTTTGA
94542125 ATTTT
1 ATTTT
94542130 AAAGTTTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 4 0.21
17 6 0.32
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTGATATCTTTTGA
Found at i:94549403 original size:16 final size:18
Alignment explanation
Indices: 94549382--94549416 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
94549372 ATAAATATTA
94549382 ATATTATAT-T-ATTTTT
1 ATATTATATGTCATTTTT
94549398 ATATTATATGTCATTTTT
1 ATATTATATGTCATTTTT
94549416 A
1 A
94549417 AATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATATTATATGTCATTTTT
Found at i:94565605 original size:25 final size:25
Alignment explanation
Indices: 94565544--94565605 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
94565534 TTTGCTTGAA
*
94565544 AATTTATGTGATAGGAAAATCGTATG
1 AATTTA-GTGATAGGAAAATCGTATC
** * **
94565570 AAAATATTGATAGGAAAATTTTATC
1 AATTTAGTGATAGGAAAATCGTATC
94565595 AATTTAGTGAT
1 AATTTAGTGAT
94565606 TAGTTAGAAA
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (25 bp):
AATTTAGTGATAGGAAAATCGTATC
Found at i:94570085 original size:50 final size:50
Alignment explanation
Indices: 94570010--94570110 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
94570000 ACTTTTTTCT
*
94570010 GTCTATCATTACGATACTCTAATCTAATGGTATTAATTTCTAGCATTGGA
1 GTCTATCATTACGATACTCTAATCTAATGGTATTAATTTCTAACATTGGA
*
94570060 GTCTATCATTACGGTACTCTAATCTAATGGTATTAATTTCTAACATTGGA
1 GTCTATCATTACGATACTCTAATCTAATGGTATTAATTTCTAACATTGGA
94570110 G
1 G
94570111 AACACTAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (50 bp):
GTCTATCATTACGATACTCTAATCTAATGGTATTAATTTCTAACATTGGA
Found at i:94570561 original size:20 final size:19
Alignment explanation
Indices: 94570524--94570572 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
94570514 AAAATTCTCC
94570524 CTTTATTTTTTTTCTCTTT
1 CTTTATTTTTTTTCTCTTT
* *
94570543 CTTTCTTTTCTTTTTTCTTT
1 CTTTATTTT-TTTTCTCTTT
*
94570563 -TTAATTTTTT
1 CTTTATTTTTT
94570573 CTTCCCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 9 0.36
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
CTTTATTTTTTTTCTCTTT
Found at i:94586725 original size:15 final size:15
Alignment explanation
Indices: 94586705--94586779 Score: 75
Period size: 15 Copynumber: 5.2 Consensus size: 15
94586695 GGCATTGTTT
* *
94586705 ATGATGAAGATGAAG
1 ATGATGGAGATGATG
*
94586720 ATGATGGGGATGATG
1 ATGATGGAGATGATG
*
94586735 ATGATGGTGATGATG
1 ATGATGGAGATGATG
94586750 ATGATGGA-A-G-TG
1 ATGATGGAGATGATG
* *
94586762 ATGATGGTGATGGTG
1 ATGATGGAGATGATG
94586777 ATG
1 ATG
94586780 CATGCAACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
12 9 0.18
13 2 0.04
14 2 0.04
15 38 0.75
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (15 bp):
ATGATGGAGATGATG
Found at i:94586737 original size:6 final size:6
Alignment explanation
Indices: 94586705--94586779 Score: 62
Period size: 6 Copynumber: 12.5 Consensus size: 6
94586695 GGCATTGTTT
* * ** *
94586705 ATGATG AAGATG AAGATG ATGGGG ATGATG ATGATG GTGATG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
* * *
94586753 ATGGAAG -TGATG ATGGTG ATGGTG ATG
1 AT-GATG ATGATG ATGATG ATGATG ATG
94586780 CATGCAACAC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
5 3 0.05
6 50 0.89
7 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (6 bp):
ATGATG
Found at i:94586754 original size:9 final size:9
Alignment explanation
Indices: 94586705--94586779 Score: 62
Period size: 9 Copynumber: 8.3 Consensus size: 9
94586695 GGCATTGTTT
*
94586705 ATGATGAAG
1 ATGATGATG
*
94586714 ATGAAGATG
1 ATGATGATG
**
94586723 ATGGGGATG
1 ATGATGATG
94586732 ATGATGATG
1 ATGATGATG
*
94586741 GTGATGATG
1 ATGATGATG
*
94586750 ATGATGGAAG
1 ATGAT-GATG
94586760 -TGATGATG
1 ATGATGATG
* *
94586768 GTGATGGTG
1 ATGATGATG
94586777 ATG
1 ATG
94586780 CATGCAACAC
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
8 3 0.06
9 46 0.88
10 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (9 bp):
ATGATGATG
Found at i:94586762 original size:18 final size:16
Alignment explanation
Indices: 94586713--94586779 Score: 77
Period size: 15 Copynumber: 4.2 Consensus size: 16
94586703 TTATGATGAA
*
94586713 GATGAAGATGATGGG-
1 GATGATGATGATGGGT
94586728 GATGATGATGAT-GGT
1 GATGATGATGATGGGT
94586743 GATGATGATGATGGAAGT
1 GATGATGATGATGG--GT
*
94586761 GATGATGGTGAT-GGT
1 GATGATGATGATGGGT
94586776 GATG
1 GATG
94586780 CATGCAACAC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.04
15 29 0.63
16 1 0.02
17 1 0.02
18 13 0.28
ACGTcount: A:0.28, C:0.00, G:0.43, T:0.28
Consensus pattern (16 bp):
GATGATGATGATGGGT
Found at i:94607249 original size:39 final size:39
Alignment explanation
Indices: 94607206--94607325 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 39
94607196 CCGGGTACCA
* * *
94607206 TTCCAACACGTAGCCTGCAGACTTCAAGTCCAGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCAGATATAT
*
94607245 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCAGATATAT
* * *
94607284 TTCCAGCATATAGCCTGCGGACCTCATGTCCAGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCAGATATAT
94607323 TTC
1 TTC
94607326 AAATACCATG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCAGATATAT
Found at i:94608630 original size:21 final size:21
Alignment explanation
Indices: 94608605--94608645 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
94608595 CGACAATTTC
94608605 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
94608626 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
94608646 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:94610012 original size:24 final size:25
Alignment explanation
Indices: 94609984--94610035 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
94609974 AGAGAAAAGG
* *
94609984 AAAAATGTGCTACAAAACGGAAAAA
1 AAAAACGTGCTACAAAACAGAAAAA
*
94610009 AAAAACGTGCTACAAAGCAGAAAAA
1 AAAAACGTGCTACAAAACAGAAAAA
94610034 AA
1 AA
94610036 CACTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.10
Consensus pattern (25 bp):
AAAAACGTGCTACAAAACAGAAAAA
Found at i:94610033 original size:26 final size:26
Alignment explanation
Indices: 94609970--94610035 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
94609960 TGAAACTAGA
** *
94609970 ACAAAG-AGAAAAGGAAAAATGTGCT
1 ACAAAGCAGAAAAAAAAAAACGTGCT
* *
94609995 ACAAAAC-GGAAAAAAAAAACGTGCT
1 ACAAAGCAGAAAAAAAAAAACGTGCT
94610020 ACAAAGCAGAAAAAAA
1 ACAAAGCAGAAAAAAA
94610036 CACTATTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.62, C:0.12, G:0.18, T:0.08
Consensus pattern (26 bp):
ACAAAGCAGAAAAAAAAAAACGTGCT
Found at i:94611094 original size:14 final size:14
Alignment explanation
Indices: 94611064--94611097 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
94611054 TCAGAAATGT
*
94611064 AAATTATTTTTTAA
1 AAATTATTTTTCAA
*
94611078 AAATTATTTTTCGA
1 AAATTATTTTTCAA
94611092 AAATTA
1 AAATTA
94611098 CTTTCAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:94622990 original size:4 final size:4
Alignment explanation
Indices: 94622981--94623006 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
94622971 ACCCAAACAC
94622981 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
94623007 AACCTTGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:94623192 original size:23 final size:22
Alignment explanation
Indices: 94623165--94623210 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
94623155 TTGGTTTTTA
94623165 TGGAGAAGGATTGTTCTTTGTTT
1 TGGAGAAGG-TTGTTCTTTGTTT
* * *
94623188 TGGAGGAGGTTTTTTTTTGTTT
1 TGGAGAAGGTTGTTCTTTGTTT
94623210 T
1 T
94623211 TTTGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.54
Consensus pattern (22 bp):
TGGAGAAGGTTGTTCTTTGTTT
Found at i:94623559 original size:3 final size:3
Alignment explanation
Indices: 94623545--94623626 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
94623535 AAGCTTTGTT
* *
94623545 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
94623588 TCTCA TGTA TATA TTA TTT TTA -TA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
94623627 ATATGCCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
2 8 0.13
3 47 0.75
4 6 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:94623580 original size:24 final size:24
Alignment explanation
Indices: 94623548--94623626 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
94623538 CTTTGTTTTA
*
94623548 TTATTTTATTATTTTTACTATTAT
1 TTATATTATTATTTTTACTATTAT
*
94623572 TTATATTATTATTATTT-C--TCAT
1 TTATATTATTATT-TTTACTATTAT
*
94623594 GTATA-TATTATTTTTA-TATTATT
1 TTATATTATTATTTTTACTATTA-T
94623617 ATTATATTAT
1 -TTATATTAT
94623627 ATATGCCCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
20 3 0.07
21 7 0.16
22 9 0.21
23 1 0.02
24 17 0.40
25 6 0.14
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (24 bp):
TTATATTATTATTTTTACTATTAT
Found at i:94623605 original size:27 final size:27
Alignment explanation
Indices: 94623546--94623607 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
94623536 AGCTTTGTTT
* *
94623546 TATTATTTTATTATTTTTACTATTATT
1 TATTATTTTATTATTTCTACTATTATA
94623573 TA-TATTATTATTATTTCT-C-ATGTATA
1 TATTATT-TTATTATTTCTACTAT-TATA
94623599 TATTATTTT
1 TATTATTTT
94623608 TATATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.07
26 12 0.40
27 16 0.53
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (27 bp):
TATTATTTTATTATTTCTACTATTATA
Found at i:94623613 original size:11 final size:11
Alignment explanation
Indices: 94623545--94623626 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
94623535 AAGCTTTGTT
94623545 TTATTATTT-TA
1 TTATT-TTTATA
94623556 TTATTTTTACTA
1 TTATTTTTA-TA
94623568 TTA--TTTATA
1 TTATTTTTATA
* *
94623577 TTATTATTATT
1 TTATTTTTATA
* *
94623588 TCTCATGTATATA
1 T-T-ATTTTTATA
94623601 TTATTTTTATA
1 TTATTTTTATA
*
94623612 TTATTATTATA
1 TTATTTTTATA
94623623 TTAT
1 TTAT
94623627 ATATGCCCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
9 5 0.09
10 7 0.12
11 31 0.55
12 7 0.12
13 6 0.11
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:94623868 original size:18 final size:19
Alignment explanation
Indices: 94623832--94623888 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
94623822 ACTATTACTA
*
94623832 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
94623852 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
94623869 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
94623887 TT
1 TT
94623889 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:94623990 original size:12 final size:12
Alignment explanation
Indices: 94623973--94624002 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
94623963 GTATTTCTAT
94623973 TATATACATATA
1 TATATACATATA
*
94623985 TATATACATTTA
1 TATATACATATA
94623997 TATATA
1 TATATA
94624003 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:94636326 original size:44 final size:44
Alignment explanation
Indices: 94636149--94636726 Score: 434
Period size: 44 Copynumber: 13.1 Consensus size: 44
94636139 TCATTAAAGT
* * * *
94636149 AGATCTTGTCTTCATGTATTGGCGTGAAGCAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * * * * * *
94636193 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAGGAT-GC
1 AGATCTTGTCTTCCTATATTG-GAGTGAAGTAGATCGAAGATAGC
* * * * *
94636236 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * * *
94636281 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * * *
94636325 AGATCCTATCTTTCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * * * *
94636368 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * *
94636413 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * * * * * *
94636457 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAATAT-GC
1 AGATCTTGTCTTCCTATATTG-GAGTGAAGTAGATCGAAGATAGC
* * * * *
94636500 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * *
94636545 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * * * * *
94636589 AGGTCCTATCTTCCTATATTGATAG-GAAGTCGATCCAAGAT-GC
1 AGATCTTGTCTTCCTATATTG-GAGTGAAGTAGATCGAAGATAGC
* * * * *
94636632 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGATTGC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * * * * *
94636677 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
1 AGATCTTGTCTTCCTATA-TTGG-AGTGAAGTAGATCGAAGATAGC
94636723 AGAT
1 AGAT
94636727 TTTACCTTCC
Statistics
Matches: 407, Mismatches: 111, Indels: 30
0.74 0.20 0.05
Matches are distributed among these distances:
43 81 0.20
44 219 0.54
45 84 0.21
46 23 0.06
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
Found at i:94636386 original size:132 final size:132
Alignment explanation
Indices: 94636144--94636724 Score: 946
Period size: 132 Copynumber: 4.4 Consensus size: 132
94636134 TGAAGTCATT
* *
94636144 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGCAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
*
94636209 TATTGATAGGAAGTGGATCCAGGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
94636274 AG
131 AG
* * *
94636276 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTTCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
* *
94636341 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
94636406 AG
131 AG
94636408 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
*
94636473 TATTGATAGGAAGTGGATCCAATATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
94636538 AG
131 AG
94636540 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
* * * * *
94636605 TATTGATAGGAAGTCGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGA
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
94636670 AG
131 AG
** * * * * * *
94636672 ATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
1 AAAGCAGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGATAGCAG
94636725 ATTTTACCTT
Statistics
Matches: 419, Mismatches: 28, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
132 395 0.94
133 5 0.01
134 19 0.05
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
AG
Found at i:94636736 original size:46 final size:46
Alignment explanation
Indices: 94636669--94636871 Score: 114
Period size: 46 Copynumber: 4.5 Consensus size: 46
94636659 AAGTAGATTG
* * *
94636669 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCA
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATCA
*** * * * * *
94636715 AAGATGGCAGATTTTACCTTCCTG-A--CCACAGTGGAGTACA-CTG
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATC-A
** ** * * * * **
94636758 AAGCCGATA-ATTCTATC-TCCTGTATTTGGCAGTGGAA-TAGATTG
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAG-CGAAGCAGATCA
* * *
94636802 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCA
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATCA
*
94636848 AAGATGGCAGATTTTACCTCCCTG
1 AAGATGGCAGATTTTACCTTCCTG
94636872 ACCACAGTGG
Statistics
Matches: 107, Mismatches: 41, Indels: 18
0.64 0.25 0.11
Matches are distributed among these distances:
41 5 0.05
42 8 0.07
43 13 0.12
44 11 0.10
45 10 0.09
46 60 0.56
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATCA
Done.