Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold500
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: 2046043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:865660 original size:2 final size:2
Alignment explanation
Indices: 865653--865677 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
865643 AACATACGAT
865653 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
865678 TTTTTTTTTT
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:869985 original size:21 final size:21
Alignment explanation
Indices: 869961--870021 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
869951 TCTTTTATAA
869961 ATTTTAATATAATTATATTAT
1 ATTTTAATATAATTATATTAT
**
869982 ATTTTAA-ATTTTTTATATTA-
1 ATTTTAATA-TAATTATATTAT
*
870002 AATTT-ATATAATTATATTAT
1 ATTTTAATATAATTATATTAT
870022 GTCTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 10 0.31
20 6 0.19
21 16 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTAATATAATTATATTAT
Found at i:870245 original size:27 final size:27
Alignment explanation
Indices: 870193--870246 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
870183 AGATATAATT
* *
870193 TAATTAAAATATAATATTATATAAAAA
1 TAATTAAAATATAATATAACATAAAAA
*
870220 TAATTAAAA-ATAATATAACATCAAAA
1 TAATTAAAATATAATATAACATAAAAA
870246 T
1 T
870247 TTATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
TAATTAAAATATAATATAACATAAAAA
Found at i:870322 original size:20 final size:21
Alignment explanation
Indices: 870283--870323 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
870273 TAAAATTTAT
870283 TAAAATATATAACATATGAAA
1 TAAAATATATAACATATGAAA
* *
870304 TAAAAT-TATAATATGTGAAA
1 TAAAATATATAACATATGAAA
870324 AAATAATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
TAAAATATATAACATATGAAA
Found at i:872836 original size:3 final size:3
Alignment explanation
Indices: 872830--872858 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
872820 AAACGAGGAG
872830 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
872859 GGAGGAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:872875 original size:24 final size:25
Alignment explanation
Indices: 872848--872901 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
872838 AGAAGAAGAA
872848 GAAGAAG-AAGAGG-AGGAGGAACAG
1 GAAGAAGCAAGAGGAAGG-GGAACAG
*
872872 GAAG-AGCAAGAGGAAGGGGAACGG
1 GAAGAAGCAAGAGGAAGGGGAACAG
872896 GAAGAA
1 GAAGAA
872902 ATAATCATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 20 0.77
25 4 0.15
ACGTcount: A:0.48, C:0.06, G:0.46, T:0.00
Consensus pattern (25 bp):
GAAGAAGCAAGAGGAAGGGGAACAG
Found at i:873350 original size:16 final size:16
Alignment explanation
Indices: 873331--873363 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
873321 AATTTTTTTA
*
873331 TTTAAAATAATAAAAT
1 TTTAAAATAACAAAAT
873347 TTTAAAATAACAAAAT
1 TTTAAAATAACAAAAT
873363 T
1 T
873364 ATATGATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
TTTAAAATAACAAAAT
Found at i:878391 original size:2 final size:2
Alignment explanation
Indices: 878386--878429 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
878376 CAAAAAAAGG
878386 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
878428 GA
1 GA
878430 ATAAGAACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:878927 original size:40 final size:41
Alignment explanation
Indices: 878872--878951 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
878862 GATTATAACT
878872 TTCAAAATTCATCAAAACGAGA-TAGCCAACACTAGGCCAC
1 TTCAAAATTCATCAAAACGAGATTAGCCAACACTAGGCCAC
* *
878912 TTCAAAATTCATCAAAATGAGATTAGCCAAGACTAGGCCA
1 TTCAAAATTCATCAAAACGAGATTAGCCAACACTAGGCCA
878952 TATGCCTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 21 0.57
41 16 0.43
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (41 bp):
TTCAAAATTCATCAAAACGAGATTAGCCAACACTAGGCCAC
Found at i:879671 original size:28 final size:28
Alignment explanation
Indices: 879639--879698 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
879629 GTTCACAAAA
879639 TTCTCATAAATGCAGTTATCAATTTTCT
1 TTCTCATAAATGCAGTTATCAATTTTCT
879667 TTCTCATAAATGCAGTTATCAATTTTCT
1 TTCTCATAAATGCAGTTATCAATTTTCT
879695 TTCT
1 TTCT
879699 GTCACGGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (28 bp):
TTCTCATAAATGCAGTTATCAATTTTCT
Found at i:882833 original size:3 final size:3
Alignment explanation
Indices: 882825--882857 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
882815 ATGAAATAAA
882825 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
882858 TAACTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:883788 original size:30 final size:30
Alignment explanation
Indices: 883754--883823 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
883744 TAAATCAATT
* *
883754 ATTTAAAAATATATATTTA-TTA-AATTTAAA
1 ATTTAAAAAT-TAAATTTATTTATAAATT-AA
*
883784 ATTTAAGTAATTAAATTTATTTATAAATTAA
1 ATTTAA-AAATTAAATTTATTTATAAATTAA
883815 ATTTAAAAA
1 ATTTAAAAA
883824 ATTAGATTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 15 0.45
31 14 0.42
32 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
ATTTAAAAATTAAATTTATTTATAAATTAA
Found at i:885362 original size:6 final size:6
Alignment explanation
Indices: 885353--885381 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
885343 TTTATATAAT
885353 AATATA AATATA AATATA AATAT- AATATA
1 AATATA AATATA AATATA AATATA AATATA
885382 TTTATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:885370 original size:12 final size:11
Alignment explanation
Indices: 885351--885393 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
885341 TATTTATATA
885351 ATAATATAAAT
1 ATAATATAAAT
885362 ATAAATATAAAT
1 AT-AATATAAAT
**
885374 ATAATATATTT
1 ATAATATAAAT
885385 ATAATATAA
1 ATAATATAA
885394 TAAAATACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:885387 original size:23 final size:22
Alignment explanation
Indices: 885351--885393 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
885341 TATTTATATA
885351 ATAATATAAATATAAATATAAAT
1 ATAATATAAATAT-AATATAAAT
**
885374 ATAATATATTTATAATATAA
1 ATAATATAAATATAATATAA
885394 TAAAATACAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATATAAATATAATATAAAT
Found at i:889188 original size:50 final size:50
Alignment explanation
Indices: 889134--889307 Score: 188
Period size: 50 Copynumber: 3.5 Consensus size: 50
889124 AAAAGTATTT
* *
889134 TTTTTGATAATAAAGAGAAGTAGA-TGTAATTGTTGATGATTTTTTATTAA
1 TTTTTGATAATAGAGAGAAGT-GATTGTAATTGTTGATGATTTTTTACTAA
* * * *
889184 TTTTTTATAATAGGGAGAAGTGATTGTAATTGTTGATGATTCTTTACTCA
1 TTTTTGATAATAGAGAGAAGTGATTGTAATTGTTGATGATTTTTTACTAA
* * * * * *
889234 TCTTTGATAATAGAGAGAGGTGATTATAATTGTTGACGATTTTTCACCAA
1 TTTTTGATAATAGAGAGAAGTGATTGTAATTGTTGATGATTTTTTACTAA
* * * *
889284 CTTTTGACAATAGAAAAAAGTGAT
1 TTTTTGATAATAGAGAGAAGTGAT
889308 CATAATTATT
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
49 2 0.02
50 99 0.98
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (50 bp):
TTTTTGATAATAGAGAGAAGTGATTGTAATTGTTGATGATTTTTTACTAA
Found at i:889313 original size:50 final size:50
Alignment explanation
Indices: 889201--889320 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
889191 TAATAGGGAG
* * * * * *
889201 AAGTGATTGTAATTGTTGATGATTCTTTACTCATCTTTGATAATAGAGAG
1 AAGTGATTATAATTGTTGACGATTCTTTACTCAACTTTGACAATAGAAAA
*
889251 AGGTGATTATAATTGTTGACGATT-TTTCAC-CAACTTTTGACAATAGAAAA
1 AAGTGATTATAATTGTTGACGATTCTTT-ACTCAAC-TTTGACAATAGAAAA
* *
889301 AAGTGATCATAATTATTGAC
1 AAGTGATTATAATTGTTGAC
889321 TCTAAGTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
49 6 0.10
50 52 0.90
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (50 bp):
AAGTGATTATAATTGTTGACGATTCTTTACTCAACTTTGACAATAGAAAA
Found at i:890445 original size:255 final size:255
Alignment explanation
Indices: 889994--890502 Score: 1000
Period size: 255 Copynumber: 2.0 Consensus size: 255
889984 ATGGTAGAAT
889994 CTACATCGATGACTGATCACATCAACACCTTGAAGACTTTATTCTCCCAGCTAACAATGTTGGGA
1 CTACATCGATGACTGATCACATCAACACCTTGAAGACTTTATTCTCCCAGCTAACAATGTTGGGA
890059 CACAAGATAGAGGAAAATGAACGTGCGGAGCTTCTACTTCAGAGTTTACCAGATTCGTATGATCA
66 CACAAGATAGAGGAAAATGAACGTGCGGAGCTTCTACTTCAGAGTTTACCAGATTCGTATGATCA
890124 ACTCATCATCAATTTAACAAGCAATAACCAAACAAACTGCCTAGTCTTCGATTATGTTGCAGCCT
131 ACTCATCATCAATTTAACAAGCAATAACCAAACAAACTGCCTAGTCTTCGATTATGTTGCAGCCT
*
890189 CTGTTTTAAATGAAGAAAGTAGGCAGAAAAACAAGGAAGATAGACATGTAAGTTAACAAA
196 CTGTTTTAAATGAAGAAAGCAGGCAGAAAAACAAGGAAGATAGACATGTAAGTTAACAAA
890249 CTACATCGATGACTGATCACATCAACACCTTGAAGACTTTATTCTCCCAGCTAACAATGTTGGGA
1 CTACATCGATGACTGATCACATCAACACCTTGAAGACTTTATTCTCCCAGCTAACAATGTTGGGA
890314 CACAAGATAGAGGAAAATGAACGTGCGGAGCTTCTACTTCAGAGTTTACCAGATTCGTATGATCA
66 CACAAGATAGAGGAAAATGAACGTGCGGAGCTTCTACTTCAGAGTTTACCAGATTCGTATGATCA
*
890379 ACTTATCATCAATTTAACAAGCAATAACCAAACAAACTGCCTAGTCTTCGATTATGTTGCAGCCT
131 ACTCATCATCAATTTAACAAGCAATAACCAAACAAACTGCCTAGTCTTCGATTATGTTGCAGCCT
890444 CTGTTTTAAATGAAGAAAGCAGGCAGAAAAACAAGGAAGATAGACATGTAAGTTAACAA
196 CTGTTTTAAATGAAGAAAGCAGGCAGAAAAACAAGGAAGATAGACATGTAAGTTAACAA
890503 CAGGCAGAAG
Statistics
Matches: 252, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 252 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (255 bp):
CTACATCGATGACTGATCACATCAACACCTTGAAGACTTTATTCTCCCAGCTAACAATGTTGGGA
CACAAGATAGAGGAAAATGAACGTGCGGAGCTTCTACTTCAGAGTTTACCAGATTCGTATGATCA
ACTCATCATCAATTTAACAAGCAATAACCAAACAAACTGCCTAGTCTTCGATTATGTTGCAGCCT
CTGTTTTAAATGAAGAAAGCAGGCAGAAAAACAAGGAAGATAGACATGTAAGTTAACAAA
Found at i:894014 original size:50 final size:50
Alignment explanation
Indices: 893957--894144 Score: 252
Period size: 50 Copynumber: 3.8 Consensus size: 50
893947 GGTGGAAAGT
* * * *
893957 ACCTTTGACAATAAACAGAGGTGGTCACAATTGTTGACGATTTTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTTTTCACCA
* *
894007 ACCTTTGATAATAGAGAGAGGTGGCCGTAATTGTTGACGATTCTTT-ACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATT-TTTCACCA
* * *
894057 ACTTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTATTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTTTTCACCA
* * *
894107 AACTTTGACAATAGAGAAATGTGGCCATAATTGTTGAC
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGAC
894145 TCTAAGTATA
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 2 0.02
50 115 0.96
51 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (50 bp):
ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTTTTCACCA
Found at i:894864 original size:39 final size:38
Alignment explanation
Indices: 894818--894895 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
894808 GTTCTCAAGG
*
894818 TCAGTAAGTTATA-GAATTAAAAAAAAAATTGATAAATGA
1 TCAGTAAGTTA-ACAAATT-AAAAAAAAATTGATAAATGA
* *
894857 TCAGTAAGTTAACAAATTTAAAAAAATTTGATAAATGA
1 TCAGTAAGTTAACAAATTAAAAAAAAATTGATAAATGA
894895 T
1 T
894896 TTCCAGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 20 0.57
39 15 0.43
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.31
Consensus pattern (38 bp):
TCAGTAAGTTAACAAATTAAAAAAAAATTGATAAATGA
Found at i:901868 original size:33 final size:33
Alignment explanation
Indices: 901808--901882 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
901798 AAGCCTGAGG
*
901808 TTTATGATAAAAGGAGGAACTTAAAGTCTCAGA
1 TTTATGATAAAAGAAGGAACTTAAAGTCTCAGA
* * * *
901841 TTTATGATAAAAGAAGTG-ATTTTAAGTCTGAGG
1 TTTATGATAAAAGAAG-GAACTTAAAGTCTCAGA
901874 TTTATGATA
1 TTTATGATA
901883 TGACCTTGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (33 bp):
TTTATGATAAAAGAAGGAACTTAAAGTCTCAGA
Found at i:904296 original size:21 final size:20
Alignment explanation
Indices: 904272--904325 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
904262 ATATATAATT
*
904272 TTAAGAGGATTGGATTTTTTG
1 TTAAGAAGATT-GATTTTTTG
* *
904293 TTAAAAAAGATTTATTTTTTG
1 TT-AAGAAGATTGATTTTTTG
904314 TTAAGAAAGATT
1 TTAAG-AAGATT
904326 AGTTTTGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 18 0.67
22 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (20 bp):
TTAAGAAGATTGATTTTTTG
Found at i:904331 original size:21 final size:21
Alignment explanation
Indices: 904285--904325 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
904275 AGAGGATTGG
904285 ATTTTTTGTTAAAAAAGATTT
1 ATTTTTTGTTAAAAAAGATTT
*
904306 ATTTTTTGTTAAGAAAGATT
1 ATTTTTTGTTAAAAAAGATT
904326 AGTTTTGTTA
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:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
ATTTTTTGTTAAAAAAGATTT
Found at i:904333 original size:19 final size:21
Alignment explanation
Indices: 904288--904335 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
904278 GGATTGGATT
*
904288 TTTTGTTAAAAAAGATTTATT
1 TTTTGTTAAAAAAGATTTATG
*
904309 TTTTGTTAAGAAAGA-TTA-G
1 TTTTGTTAAAAAAGATTTATG
904328 TTTTGTTA
1 TTTTGTTA
904336 CATATAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 3 0.12
21 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (21 bp):
TTTTGTTAAAAAAGATTTATG
Found at i:905623 original size:20 final size:20
Alignment explanation
Indices: 905598--905636 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
905588 TTTTAATAAT
905598 ATTTTAAAT-AATTATAAATA
1 ATTTTAAATCAA-TATAAATA
*
905618 ATTTTATATCAATATAAAT
1 ATTTTAAATCAATATAAAT
905637 CTGATTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAAATCAATATAAATA
Found at i:905625 original size:12 final size:11
Alignment explanation
Indices: 905580--905622 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
905570 AATTAATATA
905580 AAATAATTTTT
1 AAATAATTTTT
*
905591 TAATAATATTTT
1 AAATAAT-TTTT
*
905603 AAATAA-TTAT
1 AAATAATTTTT
905613 AAATAATTTT
1 AAATAATTTT
905623 ATATCAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.35
11 8 0.31
12 9 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:906056 original size:34 final size:34
Alignment explanation
Indices: 906001--906217 Score: 276
Period size: 34 Copynumber: 6.4 Consensus size: 34
905991 GGTGCCAATC
*
906001 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * * *
906034 TATTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
906068 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* **
906102 TGTTGATTAAATGAGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
906136 TATTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
906170 TGTTGACTAAAT-GGTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGT-GATTTGGTAGCTTACCAT
906204 TGTTGATTAAATGG
1 TGTTGATTAAATGG
906218 TGGTTTTTAC
Statistics
Matches: 158, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
33 14 0.09
34 143 0.91
35 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
Found at i:906193 original size:102 final size:101
Alignment explanation
Indices: 906001--906217 Score: 353
Period size: 102 Copynumber: 2.1 Consensus size: 101
905991 GGTGCCAATC
** * * *
906001 TGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
906066 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
906102 TGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
* * *
906167 CATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
65 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
906204 TGTTGATTAAATGG
1 TGTTGATTAAATGG
906218 TGGTTTTTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 14 0.13
102 93 0.87
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:910688 original size:34 final size:34
Alignment explanation
Indices: 910631--910849 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
910621 AAGTGGGAGA
*
910631 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
910664 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
910698 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
910732 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
910766 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
910800 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
910834 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
910850 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 16 0.10
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:910771 original size:102 final size:101
Alignment explanation
Indices: 910631--910849 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
910621 AAGTGGGAGA
** * * *
910631 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
910696 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
910732 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
910797 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
910834 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
910850 TGGTTTTTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:914552 original size:27 final size:26
Alignment explanation
Indices: 914521--914609 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
914511 AATATTAGAC
914521 ATAATATGA-AAAAATTTAAAATATAAT
1 ATAATAT-ACAAAAATTTAAAATAT-AT
914548 ATAATATACAAAAATTTAAACATGATAT
1 ATAATATACAAAAATTTAAA-AT-ATAT
* **
914576 A-AATATATAACAGTTTTAAAATATAT
1 ATAATATACAA-AAATTTAAAATATAT
914602 ATAATATA
1 ATAATATA
914610 AATATTAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
26 6 0.11
27 34 0.63
28 12 0.22
29 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (26 bp):
ATAATATACAAAAATTTAAAATATAT
Found at i:916521 original size:2 final size:2
Alignment explanation
Indices: 916472--916512 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
916462 ATCCTATAAC
916472 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
916513 GAGTATATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:916952 original size:2 final size:2
Alignment explanation
Indices: 916945--916970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
916935 CATAAACTTT
916945 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
916971 ATAATGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:917620 original size:6 final size:6
Alignment explanation
Indices: 917609--917639 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
917599 TCGGTAAGAA
*
917609 ATACAT ATACAT ATACAT ATATAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT ATACAT A
917640 ATTATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (6 bp):
ATACAT
Found at i:917645 original size:10 final size:10
Alignment explanation
Indices: 917620--917656 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
917610 TACATATACA
917620 TATACATATAT
1 TATACATA-AT
917631 ATATACATAAT
1 -TATACATAAT
917642 TATACATAAT
1 TATACATAAT
917652 TATAC
1 TATAC
917657 GTAGAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 2 0.08
12 8 0.32
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (10 bp):
TATACATAAT
Found at i:919397 original size:22 final size:22
Alignment explanation
Indices: 919347--919399 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
919337 ATTATTTTTT
919347 TATTTT-ATAATTATATTTTAA
1 TATTTTAATAATTATATTTTAA
*
919368 TATATTAATAATTAT-TTATATAA
1 TATTTTAATAATTATATT-T-TAA
919391 -ATTTTAATA
1 TATTTTAATA
919400 TATTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 17 0.63
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTAATAATTATATTTTAA
Found at i:924356 original size:14 final size:15
Alignment explanation
Indices: 924320--924365 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
924310 ATAATTATAA
*
924320 TAATATTTAATAAATT
1 TAATATTT-ATAATTT
*
924336 AAATATTTA-AATTT
1 TAATATTTATAATTT
924350 TAATATTTATAATTT
1 TAATATTTATAATTT
924365 T
1 T
924366 TTAAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:924363 original size:57 final size:57
Alignment explanation
Indices: 924283--924391 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
924273 AAAAAAATAA
924283 ATTTAAAATTTAATTTAATTAA-TTTATATAATTATAA-TAATATTTAATAAATTAAAT
1 ATTTAAAATTTAATTTAATTAATTTTATA-AATTATAATTAAT-TTTAATAAATTAAAT
* * *
924340 ATTTAAATTTTAATATTTA-TAATTTTTTAAATTATAATTTAATTTTAATAAA
1 ATTTAAAATTTAAT-TTAATTAATTTTATAAATTATAA-TTAATTTTAATAAA
924392 AAATGAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
57 24 0.53
58 17 0.38
59 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (57 bp):
ATTTAAAATTTAATTTAATTAATTTTATAAATTATAATTAATTTTAATAAATTAAAT
Found at i:927792 original size:11 final size:11
Alignment explanation
Indices: 927776--927842 Score: 70
Period size: 11 Copynumber: 6.5 Consensus size: 11
927766 TATACGTTTA
*
927776 TATATTTAAAT
1 TATATTTATAT
*
927787 TATATTTTTAT
1 TATATTTATAT
*
927798 TATTTTTATAT
1 TATATTTATAT
*
927809 TATATTTTTA-
1 TATATTTATAT
927819 T-TATTT-T-T
1 TATATTTATAT
927827 TATATTTATAT
1 TATATTTATAT
927838 TATAT
1 TATAT
927843 AAAAATATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 2 0.04
9 10 0.22
10 2 0.04
11 32 0.70
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATATTTATAT
Found at i:932138 original size:1 final size:1
Alignment explanation
Indices: 932132--932157 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
932122 GCAGACTTAT
932132 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
932158 CCCTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:934649 original size:2 final size:2
Alignment explanation
Indices: 934642--934676 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
934632 GAAGTTGTAA
* *
934642 AT AT AT AT TT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
934677 CAAGCAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:939281 original size:159 final size:159
Alignment explanation
Indices: 938992--939465 Score: 650
Period size: 159 Copynumber: 3.0 Consensus size: 159
938982 TGGTCCCGCC
* * * **
938992 GTCCCACGTTTGAAGG-TCGGCTCTCTTTAGTCTCGTTCTGAAAAGTCTTGGTCTTTCTCAACTT
1 GTCCCGCGTTTGAAGGCT-GGCTCTCTTTAGTCTCGTTCTGGAAATTCTTGGTCTTTCTCAGTTT
* * ** * *
939056 TCCTTAACGCTACTTTAATATTTTCCCCGTTTTACACGACATTGAATTGATAACGTTCC-TCACA
65 TCCTGAACGCAACTTTAATATTTTCCTTGTTTTACACGACATTAAATTAATAACG-TCCTTCACA
939120 GGCGGATCAAAAGCTAGCACGGTTTCACCAG
129 GGCGGATCAAAAGCTAGCACGGTTTCACCAG
*
939151 GTCCCGCGTTTGAAGGCTGGCTCTCTTTAGTCTCGTTCTGGAAATTCTAGGTCTTTCTCAGTTTT
1 GTCCCGCGTTTGAAGGCTGGCTCTCTTTAGTCTCGTTCTGGAAATTCTTGGTCTTTCTCAGTTTT
* *
939216 CCTGAACGCAACTTTAAGATTTTCCTTGTTTTACACGACATTAAATTAATAGCGTCCTTCACAGG
66 CCTGAACGCAACTTTAATATTTTCCTTGTTTTACACGACATTAAATTAATAACGTCCTTCACAGG
939281 CGGATCAAAAGCTAGCACGGTTTCACCAG
131 CGGATCAAAAGCTAGCACGGTTTCACCAG
* * * *
939310 GTCCAGCGTTTGAAGGCTGCCTCTCTTTAGCCTCGATGC-GGAAATTCTTGGTCTTTCTCAGTTT
1 GTCCCGCGTTTGAAGGCTGGCTCTCTTTAGTCTCG-TTCTGGAAATTCTTGGTCTTTCTCAGTTT
* * * * *
939374 TCCTGAACGCAACTTTAATATTCTCCTTGTTTTACACGAGATTCAATCAATATCGTCCCTT-ACA
65 TCCTGAACGCAACTTTAATATTTTCCTTGTTTTACACGACATTAAATTAATAACGT-CCTTCACA
* * *
939438 GACAGATCAAAAGCTAGCACAGTTTCAC
129 GGCGGATCAAAAGCTAGCACGGTTTCAC
939466 TGTTTAACAC
Statistics
Matches: 283, Mismatches: 28, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
158 3 0.01
159 273 0.96
160 7 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (159 bp):
GTCCCGCGTTTGAAGGCTGGCTCTCTTTAGTCTCGTTCTGGAAATTCTTGGTCTTTCTCAGTTTT
CCTGAACGCAACTTTAATATTTTCCTTGTTTTACACGACATTAAATTAATAACGTCCTTCACAGG
CGGATCAAAAGCTAGCACGGTTTCACCAG
Found at i:946717 original size:6 final size:6
Alignment explanation
Indices: 946706--946730 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
946696 TATTTTAATA
946706 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
946731 TATATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:948074 original size:12 final size:13
Alignment explanation
Indices: 948050--948078 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
948040 TACTAGTAAA
948050 TTTTCTTTAATTT
1 TTTTCTTTAATTT
948063 TTTTCTTT-ATTT
1 TTTTCTTTAATTT
948075 TTTT
1 TTTT
948079 AATTCGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTAATTT
Found at i:951321 original size:29 final size:29
Alignment explanation
Indices: 951289--951346 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
951279 CATCGGGCTC
951289 ATGTTTTACTAGTTTAAACATTTTTGAGT
1 ATGTTTTACTAGTTTAAACATTTTTGAGT
951318 ATGTTTTACTAGTTTAAACATTTTTGAGT
1 ATGTTTTACTAGTTTAAACATTTTTGAGT
951347 TGAACTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (29 bp):
ATGTTTTACTAGTTTAAACATTTTTGAGT
Found at i:951355 original size:29 final size:29
Alignment explanation
Indices: 951294--951356 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
951284 GGCTCATGTT
**
951294 TTACTAGTTTAAACATTTTTGAGTATGTT
1 TTACTAGTTTAAACATTTTTGAGTATGAC
951323 TTACTAGTTTAAACATTTTTGAGT-TGAAC
1 TTACTAGTTTAAACATTTTTGAGTATG-AC
951352 TTACT
1 TTACT
951357 TTATTTTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.49
Consensus pattern (29 bp):
TTACTAGTTTAAACATTTTTGAGTATGAC
Found at i:951443 original size:19 final size:18
Alignment explanation
Indices: 951399--951446 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
951389 ATAACATAAA
951399 AAATAATA-AATAAAATT
1 AAATAATATAATAAAATT
* *
951416 ATATCAATATATTAAAATTT
1 AAAT-AATATAATAAAA-TT
951436 AAATAATATAA
1 AAATAATATAA
951447 AATTTTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 4 0.17
19 12 0.50
20 5 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAATATAATAAAATT
Found at i:958291 original size:9 final size:9
Alignment explanation
Indices: 958271--958304 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
958261 TTTCTGTAGA
958271 TTTTTAAA-
1 TTTTTAAAT
958279 TTTTTAAAT
1 TTTTTAAAT
958288 TTTTT-AAT
1 TTTTTAAAT
958296 TTTTTAAAT
1 TTTTTAAAT
958305 ATTCTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:958291 original size:17 final size:17
Alignment explanation
Indices: 958271--958304 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
958261 TTTCTGTAGA
958271 TTTTTAAATTTTTAAAT
1 TTTTTAAATTTTTAAAT
*
958288 TTTTTAATTTTTTAAAT
1 TTTTTAAATTTTTAAAT
958305 ATTCTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAAATTTTTAAAT
Found at i:966527 original size:14 final size:16
Alignment explanation
Indices: 966507--966544 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
966497 AATATAATAA
966507 ATTAATAT-ATTTACT
1 ATTAATATAATTTACT
*
966522 -TTAATATAATTTATT
1 ATTAATATAATTTACT
966537 ATTAATAT
1 ATTAATAT
966545 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 7 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAATATAATTTACT
Found at i:966713 original size:17 final size:17
Alignment explanation
Indices: 966691--966753 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
966681 ATGTCGAATT
966691 TAAATATATATTTAATA
1 TAAATATATATTTAATA
* * *
966708 TAAATATGTTGGATGTCGAATT
1 TAAATAT-AT--AT-T-TAATA
966730 TAAATATATATTTAATA
1 TAAATATATATTTAATA
966747 TAAATAT
1 TAAATAT
966754 GTTTGATACA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 17 0.49
18 2 0.06
19 2 0.06
20 2 0.06
21 2 0.06
22 10 0.29
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (17 bp):
TAAATATATATTTAATA
Found at i:966754 original size:39 final size:39
Alignment explanation
Indices: 966681--966756 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
966671 TAAAACATGA
966681 ATGTCGAATTTAAATATATATTTAATATAAATATGTTGG
1 ATGTCGAATTTAAATATATATTTAATATAAATATGTTGG
966720 ATGTCGAATTTAAATATATATTTAATATAAATATGTT
1 ATGTCGAATTTAAATATATATTTAATATAAATATGTT
966757 TGATACAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (39 bp):
ATGTCGAATTTAAATATATATTTAATATAAATATGTTGG
Found at i:969542 original size:21 final size:22
Alignment explanation
Indices: 969511--969551 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
969501 TGAAAGAAGA
969511 AAAAATATATAT-TTATATTTAT
1 AAAAATATATATATT-TATTTAT
969533 AAAAAT-TATATATTTATTT
1 AAAAATATATATATTTATTT
969552 CACGTATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAAATATATATATTTATTTAT
Found at i:976966 original size:14 final size:15
Alignment explanation
Indices: 976943--976977 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
976933 AATATTAATA
*
976943 AAATACATA-TTTTT
1 AAATAAATATTTTTT
976957 AAATAAATATTTTTT
1 AAATAAATATTTTTT
976972 AAATAA
1 AAATAA
976978 GAATTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATAAATATTTTTT
Found at i:977332 original size:15 final size:15
Alignment explanation
Indices: 977314--977390 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 15
977304 TTAAAATTTT
* *
977314 TAATTTATTTATATA
1 TAATTTATATAAATA
977329 TAATTTATATAAATA
1 TAATTTATATAAATA
* *
977344 TAATATAAAATATAATAA
1 TAAT-TTATATA-AAT-A
*
977362 TCAATTTAAATAAATA
1 T-AATTTATATAAATA
977378 TTAA-TTATATAAA
1 -TAATTTATATAAA
977391 AATATTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
15 25 0.49
16 8 0.16
17 7 0.14
18 8 0.16
19 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTTATATAAATA
Found at i:977553 original size:15 final size:17
Alignment explanation
Indices: 977525--977569 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
977515 TTGAAAAAAT
*
977525 AATATTATTATTTT-AA
1 AATATTAATATTTTAAA
977541 AATA-TAATATTTTAAA
1 AATATTAATATTTTAAA
977557 AATATTAATATTT
1 AATATTAATATTT
977570 ATATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 10 0.38
17 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTAATATTTTAAA
Found at i:978530 original size:22 final size:23
Alignment explanation
Indices: 978487--978532 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
978477 AAAAAATATT
*
978487 TTTATTTAAATATAATTATAAAA
1 TTTATATAAATATAATTATAAAA
*
978510 TTTATATAAAT-TAATTTTAAAA
1 TTTATATAAATATAATTATAAAA
978532 T
1 T
978533 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTATATAAATATAATTATAAAA
Found at i:978565 original size:30 final size:30
Alignment explanation
Indices: 978523--978587 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
978513 ATATAAATTA
* *
978523 ATTTTAAAATAAT-TTTTTAATATTTTAATAT
1 ATTTTAAAATAATAATTTAAAT-TTTTAA-AT
978554 ATTTT-AAATAATAATTTAAATTTTTAAAT
1 ATTTTAAAATAATAATTTAAATTTTTAAAT
978583 ATTTT
1 ATTTT
978588 TACACTCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.23
30 13 0.42
31 11 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTTAAAATAATAATTTAAATTTTTAAAT
Found at i:978571 original size:22 final size:20
Alignment explanation
Indices: 978540--978583 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
978530 AATAATTTTT
*
978540 TAATATTTTAATATATTTTAAA
1 TAATAATTTAA-AT-TTTTAAA
978562 TAATAATTTAAATTTTTAAA
1 TAATAATTTAAATTTTTAAA
978582 TA
1 TA
978584 TTTTTACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATAATTTAAATTTTTAAA
Found at i:978581 original size:8 final size:9
Alignment explanation
Indices: 978536--978587 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
978526 TTAAAATAAT
*
978536 TTTTTAATA
1 TTTTAAATA
978545 TTTTAATATA
1 TTTTAA-ATA
978555 TTTTAAATAA
1 TTTTAAAT-A
978565 TAATTTAAAT-
1 T--TTTAAATA
978575 TTTTAAATA
1 TTTTAAATA
978584 TTTT
1 TTTT
978588 TACACTCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
8 7 0.19
9 11 0.30
10 12 0.32
12 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAATA
Found at i:978589 original size:30 final size:30
Alignment explanation
Indices: 978491--978589 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 30
978481 AATATTTTTA
978491 TTTAAAT-ATAATTATAAAATTTATATAAATTAATT
1 TTTAAATAATAATT-T-AAATTT-T-TAAA-T-ATT
* * *
978526 TTAAAATAAT-TTTTTAATATTTT-AATATAT
1 TTTAAATAATAATTTAAAT-TTTTAAATAT-T
978556 TTTAAATAATAATTTAAATTTTTAAATATT
1 TTTAAATAATAATTTAAATTTTTAAATATT
978586 TTTA
1 TTTA
978590 CACTCTAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
29 2 0.04
30 20 0.38
31 13 0.25
32 1 0.02
33 4 0.08
34 3 0.06
35 8 0.15
36 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTAAATAATAATTTAAATTTTTAAATATT
Found at i:989780 original size:64 final size:65
Alignment explanation
Indices: 989672--989796 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
989662 AACAACTAAT
* *
989672 ATTTTCTTTTCATATCTTATAAAAAAATTACATTAAATTTATTTAATAAATTACTATAAATTGGG
1 ATTTTCTTTTCATATCTTATAAAAAAATTAAATTAAATTTATTTAATAAACTACTATAAATTGGG
* *
989737 ATTTTC-TTTCTATATCTTA-CAAAAAATTAAATTAAATTTATTTAATAGACTACTATAAAT
1 ATTTTCTTTTC-ATATCTTATAAAAAAATTAAATTAAATTTATTTAATAAACTACTATAAAT
989797 AAAAATTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 41 0.75
65 14 0.25
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (65 bp):
ATTTTCTTTTCATATCTTATAAAAAAATTAAATTAAATTTATTTAATAAACTACTATAAATTGGG
Found at i:990135 original size:17 final size:17
Alignment explanation
Indices: 990105--990138 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
990095 TAATAGTCTA
*
990105 CTATAAATATTAATTTT
1 CTATAAATAGTAATTTT
*
990122 CTATAAATGGTAATTTT
1 CTATAAATAGTAATTTT
990139 GAGCTATTTA
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:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
CTATAAATAGTAATTTT
Found at i:1002113 original size:20 final size:20
Alignment explanation
Indices: 1002088--1002126 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1002078 GCATCGTATG
1002088 TTTCTTTCTTTCC-TTCATTC
1 TTTCTTTC-TTCCTTTCATTC
1002108 TTTCTTTCTTCCTTTCATT
1 TTTCTTTCTTCCTTTCATT
1002127 TTGACAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTCTTCCTTTCATTC
Found at i:1004332 original size:2 final size:2
Alignment explanation
Indices: 1004325--1004368 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1004315 AAAATCCCAA
1004325 TC TC TC TC TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1004366 TC T
1 TC T
1004369 TTTTCTTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1004378 original size:19 final size:20
Alignment explanation
Indices: 1004331--1004390 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
1004321 CCAATCTCTC
*
1004331 TCTCTCTCTCTCTCTCTTCTC
1 TCTCTCTCTCTCTCTCTT-TT
1004352 TCTCTCTCTCTCTCTCTTTT
1 TCTCTCTCTCTCTCTCTTTT
1004372 TCT-TCTC-CT-TCTCATTTT
1 TCTCTCTCTCTCTCTC-TTTT
1004390 T
1 T
1004391 AAGTTTTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 4 0.11
18 7 0.19
19 4 0.11
20 4 0.11
21 18 0.49
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.58
Consensus pattern (20 bp):
TCTCTCTCTCTCTCTCTTTT
Found at i:1008106 original size:2 final size:2
Alignment explanation
Indices: 1008099--1008131 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1008089 AGTATTATAA
1008099 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1008132 TATATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1009532 original size:21 final size:20
Alignment explanation
Indices: 1009503--1009602 Score: 82
Period size: 21 Copynumber: 5.0 Consensus size: 20
1009493 GGATTTTGGG
* *
1009503 TTTTGATATGATTTTAATAGT
1 TTTTAATAT-ATTTTAATAAT
*
1009524 TTTTAATATAAATTTAATAAT
1 TTTTAATAT-ATTTTAATAAT
* *
1009545 ATTTAATAAAATTTTAAT-A-
1 TTTTAAT-ATATTTTAATAAT
*
1009564 TTTT-ATA-ATGTTAATAAT
1 TTTTAATATATTTTAATAAT
1009582 TTTTAATATATTTTTAATAAT
1 TTTTAATATA-TTTTAATAAT
1009603 ATTTGATACG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
16 7 0.11
17 2 0.03
18 6 0.10
19 6 0.10
20 2 0.03
21 39 0.62
22 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTAATATATTTTAATAAT
Found at i:1009541 original size:11 final size:10
Alignment explanation
Indices: 1009525--1009563 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
1009515 TTTAATAGTT
1009525 TTTAATATAAA
1 TTTAATA-AAA
*
1009536 TTTAATAATA
1 TTTAATAAAA
1009546 TTTAATAAAA
1 TTTAATAAAA
1009556 TTTTAATA
1 -TTTAATA
1009564 TTTTATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 11 0.44
11 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTAATAAAA
Found at i:1009548 original size:10 final size:10
Alignment explanation
Indices: 1009515--1009606 Score: 73
Period size: 10 Copynumber: 9.3 Consensus size: 10
1009505 TTGATATGAT
* *
1009515 TTTAATAGTT
1 TTTAATAATA
*
1009525 TTTAATATAAA
1 TTTAATA-ATA
1009536 TTTAATAATA
1 TTTAATAATA
*
1009546 TTTAATAAAA
1 TTTAATAATA
1009556 TTT--TAATA
1 TTTAATAATA
*
1009564 TTTTATAAT-
1 TTTAATAATA
* *
1009573 GTTAATAATT
1 TTTAATAATA
*
1009583 TTTAATATATT
1 TTTAATA-ATA
1009594 TTTAATAATA
1 TTTAATAATA
1009604 TTT
1 TTT
1009607 GATACGAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
8 7 0.10
9 7 0.10
10 36 0.54
11 17 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTTAATAATA
Found at i:1009599 original size:27 final size:27
Alignment explanation
Indices: 1009547--1009599 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1009537 TTAATAATAT
1009547 TTAATAAAATTTTAATATTTTATAATG
1 TTAATAAAATTTTAATATTTTATAATG
* *
1009574 TTAAT-AATTTTTAATATATTTTTAAT
1 TTAATAAAATTTTAATAT-TTTATAAT
1009600 AATATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TTAATAAAATTTTAATATTTTATAATG
Found at i:1009636 original size:58 final size:53
Alignment explanation
Indices: 1009503--1009652 Score: 142
Period size: 58 Copynumber: 2.7 Consensus size: 53
1009493 GGATTTTGGG
* * * *
1009503 TTTTGATATGATTTTAATAGTTTTTAATATAAATTTAATAATATTTAATAAAA
1 TTTTAATATTATTTTAATAATTTTTAATATAAATTTAATAATATTTAAGAAAA
**
1009556 TTTTAATATTTTATAATGTTAATAATTTTTAATATATTTTTAATAATATTTGATACGAGATAA
1 TTTTAATA--TTAT--T-TTAATAATTTTTAATATAAATTTAATAATATTT-A-A-GA-A-AA
1009619 TTTTAATATTATTTTAATAATTTTT-ATA-AAATTT
1 TTTTAATATTATTTTAATAATTTTTAATATAAATTT
1009653 TTTAAAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
53 7 0.09
55 3 0.04
56 4 0.05
57 4 0.05
58 42 0.53
59 2 0.03
60 1 0.01
61 5 0.06
62 1 0.01
63 10 0.13
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.54
Consensus pattern (53 bp):
TTTTAATATTATTTTAATAATTTTTAATATAAATTTAATAATATTTAAGAAAA
Found at i:1009652 original size:20 final size:20
Alignment explanation
Indices: 1009513--1009653 Score: 75
Period size: 21 Copynumber: 7.2 Consensus size: 20
1009503 TTTTGATATG
*
1009513 ATTTTAATAGTTTTTAATATAA
1 ATTTTAATA-ATTTTAATA-AA
1009535 A-TTTAATAATATTTAATAAA
1 ATTTTAATAAT-TTTAATAAA
1009555 ATTTTAAT-ATTTT-AT--A
1 ATTTTAATAATTTTAATAAA
* *
1009571 ATGTTAATAATTTTTAATATA
1 ATTTTAATAA-TTTTAATAAA
* * **
1009592 TTTTTAATAATATTTGATACG
1 ATTTTAATAAT-TTTAATAAA
* **
1009613 A----GATAATTTTAATATT
1 ATTTTAATAATTTTAATAAA
*
1009629 ATTTTAATAATTTTTATAAA
1 ATTTTAATAATTTTAATAAA
1009649 ATTTT
1 ATTTT
1009654 TTAAAAAAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
16 15 0.16
17 6 0.07
18 6 0.07
19 5 0.05
20 23 0.25
21 35 0.38
22 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTTTAATAATTTTAATAAA
Found at i:1013442 original size:27 final size:27
Alignment explanation
Indices: 1013404--1013455 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1013394 ATGCAGGAGC
*
1013404 ATTTTGTTATGTTATTTGAATTTTAGT
1 ATTTTATTATGTTATTTGAATTTTAGT
1013431 ATTTTATTATGTTATTTGAATTTTA
1 ATTTTATTATGTTATTTGAATTTTA
1013456 ATATGAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (27 bp):
ATTTTATTATGTTATTTGAATTTTAGT
Found at i:1014466 original size:2 final size:2
Alignment explanation
Indices: 1014459--1014485 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1014449 AATCTGATAC
1014459 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1014486 AACAACTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1018445 original size:2 final size:2
Alignment explanation
Indices: 1018438--1018464 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1018428 TAATTTATTA
1018438 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1018465 AACGTTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1020771 original size:17 final size:17
Alignment explanation
Indices: 1020718--1020761 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1020708 TTTATTTTAC
**
1020718 TAAAATTTAAATAATAAAA
1 TAAAATTT-AA-AATAATT
1020737 TAAAATTTAAAATAATT
1 TAAAATTTAAAATAATT
1020754 TAAAATTT
1 TAAAATTT
1020762 TAATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 13 0.57
18 2 0.09
19 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAATTTAAAATAATT
Found at i:1023270 original size:24 final size:24
Alignment explanation
Indices: 1023225--1023273 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1023215 CATAAACATA
* *
1023225 AATTATTTTATATTTTAGATTTTT
1 AATTATTTTATATTTAAAATTTTT
1023249 AATTATATTTATA-TTAAAATTTTT
1 AATTAT-TTTATATTTAAAATTTTT
1023273 A
1 A
1023274 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATTATTTTATATTTAAAATTTTT
Found at i:1026735 original size:2 final size:2
Alignment explanation
Indices: 1026728--1026756 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1026718 CATACAAATA
1026728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1026757 CAAATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1027775 original size:39 final size:40
Alignment explanation
Indices: 1027728--1027807 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
1027718 TATTTTGTGA
* *
1027728 TTGAGCGGCGA-CCAATCTGTTTTTTTTCTCGTTTTTGGT
1 TTGAGCGGCGATCAAATCTGTTTTTTTTCTCGTTTCTGGT
1027767 TTGAGCGGCGATCAAATCTGTTTTTTTTCTCGTTTCTGGT
1 TTGAGCGGCGATCAAATCTGTTTTTTTTCTCGTTTCTGGT
1027807 T
1 T
1027808 CAAACTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 11 0.29
40 27 0.71
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (40 bp):
TTGAGCGGCGATCAAATCTGTTTTTTTTCTCGTTTCTGGT
Found at i:1028078 original size:16 final size:15
Alignment explanation
Indices: 1028059--1028096 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
1028049 TATAAGTAGT
1028059 TATATTATAAAAATAA
1 TATATTATAAAAA-AA
*
1028075 TATATTTTAAAAAAA
1 TATATTATAAAAAAA
1028090 TATATTA
1 TATATTA
1028097 CAATAGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATTATAAAAAAA
Found at i:1029067 original size:32 final size:32
Alignment explanation
Indices: 1029023--1029122 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 32
1029013 ACCTGAATCA
* * *
1029023 ACCCGAACCCGAAATAACTT-GAATCCGAAATG
1 ACCCGAATCCGAAATAA-TTCGAACCCAAAATG
* *
1029055 ACTCGAATCCGAAATGATTCGAACCCAAAATG
1 ACCCGAATCCGAAATAATTCGAACCCAAAATG
* * **
1029087 ACCCGAATCCGAAGTGACCCGAACCCAAAATG
1 ACCCGAATCCGAAATAATTCGAACCCAAAATG
1029119 ACCC
1 ACCC
1029123 AAACTCGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 2 0.03
32 56 0.97
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.14
Consensus pattern (32 bp):
ACCCGAATCCGAAATAATTCGAACCCAAAATG
Found at i:1029078 original size:48 final size:48
Alignment explanation
Indices: 1029026--1029119 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
1029016 TGAATCAACC
* ** * * *
1029026 CGAACCCGAAATAACTTGAATCCGAAATGACTCGAATCCGAAATGATT
1 CGAACCCAAAATAACCCGAATCCGAAATGACCCGAACCCAAAATGATT
* *
1029074 CGAACCCAAAATGACCCGAATCCGAAGTGACCCGAACCCAAAATGA
1 CGAACCCAAAATAACCCGAATCCGAAATGACCCGAACCCAAAATGA
1029120 CCCAAACTCG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (48 bp):
CGAACCCAAAATAACCCGAATCCGAAATGACCCGAACCCAAAATGATT
Found at i:1029185 original size:15 final size:15
Alignment explanation
Indices: 1029167--1029205 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1029157 AAAATTTTAA
1029167 AACCCAAAATAA-CC
1 AACCCAAAATAATCC
*
1029181 TAACCCGAAATAATCC
1 -AACCCAAAATAATCC
1029197 AACCCAAAA
1 AACCCAAAA
1029206 CCAACTCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.54, C:0.33, G:0.03, T:0.10
Consensus pattern (15 bp):
AACCCAAAATAATCC
Found at i:1029335 original size:13 final size:13
Alignment explanation
Indices: 1029309--1029348 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
1029299 TACTCATATT
1029309 TAAATATAAAAATA
1 TAAATAT-AAAATA
*
1029323 TACATATAAAATA
1 TAAATATAAAATA
1029336 TAAATATAAAATA
1 TAAATATAAAATA
1029349 CGAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAATATAAAATA
Found at i:1031523 original size:13 final size:13
Alignment explanation
Indices: 1031492--1031529 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1031482 CAAACATAAA
*
1031492 TAATATTT-TATA
1 TAATATTTATATT
*
1031504 AAATATTTATATT
1 TAATATTTATATT
1031517 TAATATTTATATT
1 TAATATTTATATT
1031530 AAACATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TAATATTTATATT
Found at i:1033911 original size:2 final size:2
Alignment explanation
Indices: 1033904--1033940 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1033894 AATTTCCATT
*
1033904 TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1033941 TCAGTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
TC
Found at i:1040593 original size:3 final size:3
Alignment explanation
Indices: 1040587--1040628 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1040577 TGTTGCAAGA
* *
1040587 ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1040629 CTTTTATCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1046690 original size:12 final size:12
Alignment explanation
Indices: 1046668--1046696 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1046658 AACTCCAATC
1046668 AAATT-CAATAT
1 AAATTACAATAT
1046679 AAATTACAATAT
1 AAATTACAATAT
1046691 AAATTA
1 AAATTA
1046697 ATCGAGCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTACAATAT
Found at i:1047769 original size:2 final size:2
Alignment explanation
Indices: 1047762--1047794 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1047752 TTTGCAACAC
1047762 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1047795 CCTGCTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1051867 original size:16 final size:17
Alignment explanation
Indices: 1051848--1051895 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
1051838 TAATATATAA
*
1051848 TAAATATTTTAAATT-T
1 TAAATATTATAAATTAT
*
1051864 TAAATAATATAAATTAT
1 TAAATATTATAAATTAT
1051881 T-AATA-TATAAATTAT
1 TAAATATTATAAATTAT
1051896 CATATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.34
16 17 0.59
17 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATATTATAAATTAT
Found at i:1051902 original size:14 final size:15
Alignment explanation
Indices: 1051857--1051905 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
1051847 ATAAATATTT
1051857 TAAATT-TTAAATAATA
1 TAAATTATT-AAT-ATA
1051873 TAAATTATTAATATA
1 TAAATTATTAATATA
*
1051888 TAAATTA-TCATATA
1 TAAATTATTAATATA
1051902 TAAA
1 TAAA
1051906 AAAATTACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.32
15 10 0.32
16 9 0.29
17 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAATTATTAATATA
Found at i:1051989 original size:21 final size:21
Alignment explanation
Indices: 1051965--1052005 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1051955 TTTTTATTTA
1051965 AATATATATAAAAA-TAAAATT
1 AATAT-TATAAAAATTAAAATT
*
1051986 AATATTTTAAAAATTAAAAT
1 AATATTATAAAAATTAAAAT
1052006 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATATTATAAAAATTAAAATT
Found at i:1052177 original size:29 final size:29
Alignment explanation
Indices: 1052144--1052199 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1052134 TTTGGTACAT
1052144 ATTTTAAATTA-TAATTAATATATTTTAAA
1 ATTTTAAATTATTAATTAATAT-TTTTAAA
* *
1052173 ATTTTATATTATTTATTAATATTTTTA
1 ATTTTAAATTATTAATTAATATTTTTA
1052200 TGAACAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTTTAAATTATTAATTAATATTTTTAAA
Found at i:1052801 original size:20 final size:21
Alignment explanation
Indices: 1052778--1052829 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1052768 TTTTTAAAAT
1052778 TAATTTAAATTAT-TATTTTA
1 TAATTTAAATTATATATTTTA
** *
1052798 TAATAAAAATTATATTTTTTA
1 TAATTTAAATTATATATTTTA
*
1052819 AAATTTAAATT
1 TAATTTAAATT
1052830 TAATTAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTTAAATTATATATTTTA
Found at i:1066086 original size:21 final size:21
Alignment explanation
Indices: 1066060--1066100 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1066050 CCATTGTCCC
*
1066060 CCCCACATGGTTGCACCCACA
1 CCCCACATGGCTGCACCCACA
1066081 CCCCACATGGCTGCACCCAC
1 CCCCACATGGCTGCACCCAC
1066101 CATCTGTGTC
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:0.51, G:0.15, T:0.12
Consensus pattern (21 bp):
CCCCACATGGCTGCACCCACA
Found at i:1067653 original size:22 final size:22
Alignment explanation
Indices: 1067590--1067657 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
1067580 TTAATTAATC
*
1067590 ATAATTTTAAATTATACAAAATTT
1 ATAATTTTAAATGAT--AAAATTT
1067614 ATAAAATTATT-AA-G-TAAAATTT
1 AT--AATT-TTAAATGATAAAATTT
1067636 ATAATTTTAAATGATAAAATTT
1 ATAATTTTAAATGATAAAATTT
1067658 TATATAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
19 2 0.05
20 6 0.16
21 1 0.03
22 17 0.46
24 3 0.08
26 6 0.16
27 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (22 bp):
ATAATTTTAAATGATAAAATTT
Found at i:1068169 original size:17 final size:17
Alignment explanation
Indices: 1068149--1068200 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1068139 AAATATTATA
1068149 AAATTTAAAATAAAAAT
1 AAATTTAAAATAAAAAT
* *
1068166 AAATTTAATATATAAAT
1 AAATTTAAAATAAAAAT
*
1068183 ACAATATAAATATAAAAA
1 A-AATTTAAA-ATAAAAA
1068201 AATTATCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 16 0.57
18 6 0.21
19 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTTAAAATAAAAAT
Found at i:1068878 original size:16 final size:16
Alignment explanation
Indices: 1068841--1068878 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1068831 AATTATCTTT
*
1068841 AATTACTATTAAATTA
1 AATTATTATTAAATTA
1068857 AATTATTATTAAATTA
1 AATTATTATTAAATTA
*
1068873 TATTAT
1 AATTAT
1068879 AATTCAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATTATTAAATTA
Found at i:1069664 original size:28 final size:31
Alignment explanation
Indices: 1069604--1069663 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1069594 ATCAAATCTT
*
1069604 ATAAAAAAAAGTATTATTCAAATTTTAAAAA
1 ATAAAAAAAAGTATTATTCAAAATTTAAAAA
* *
1069635 ATAAATAAAATTATT-TT-AAAATTTAAAAA
1 ATAAAAAAAAGTATTATTCAAAATTTAAAAA
1069664 TCATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
30 2 0.08
31 13 0.50
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (31 bp):
ATAAAAAAAAGTATTATTCAAAATTTAAAAA
Found at i:1069826 original size:4 final size:4
Alignment explanation
Indices: 1069817--1069843 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1069807 ACCATGAAAG
1069817 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1069844 TTGGGTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1071312 original size:13 final size:13
Alignment explanation
Indices: 1071294--1071342 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
1071284 AATATTAAAA
1071294 TTTAAATTAATTT
1 TTTAAATTAATTT
1071307 TTTAAA-TAATTAT
1 TTTAAATTAATT-T
1071320 TTT-AATT-ATTT
1 TTTAAATTAATTT
1071331 TAATTAAATTAA
1 T--TTAAATTAA
1071343 AATTTAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.07
12 10 0.33
13 13 0.43
14 4 0.13
15 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTAAATTAATTT
Found at i:1071348 original size:25 final size:24
Alignment explanation
Indices: 1071287--1071351 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 24
1071277 AATTATAAAT
1071287 ATTAAAATTTAAATTAATTTTTTAA
1 ATTAAAATTT-AATTAATTTTTTAA
*
1071312 A-TAATTATTTTAATT-ATTTTAATTAA
1 ATTAA--AATTTAATTAATTTT--TTAA
1071338 ATTAAAATTTAATT
1 ATTAAAATTTAATT
1071352 GACTCTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
24 8 0.24
25 13 0.39
26 9 0.27
27 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTAAAATTTAATTAATTTTTTAA
Found at i:1071846 original size:31 final size:31
Alignment explanation
Indices: 1071807--1071895 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 31
1071797 CAATCAATTA
* *
1071807 AATATAATATAGTTATTTATATTATATTATAT
1 AATATAATATA-TTATTTATATTAAATAATAT
1071839 ATATAATAATTATATT-TTTA-A-TAAATAATAT
1 A-AT-ATAA-TATATTATTTATATTAAATAATAT
*
1071870 AATATAATATATTATTAATATATAAA
1 AATATAATATATTATTTATAT-TAAA
1071896 ATATACTACA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
28 6 0.13
29 7 0.15
30 3 0.06
31 9 0.19
32 6 0.13
33 6 0.13
34 6 0.13
35 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATAATATATTATTTATATTAAATAATAT
Found at i:1071887 original size:28 final size:27
Alignment explanation
Indices: 1071839--1071894 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
1071829 TATATTATAT
* *
1071839 ATATAATAATTATATTTTTAATAAATA
1 ATATAATAAATATATTATTAATAAATA
*
1071866 ATATAATATAATATATTATTAATATATA
1 ATATAATA-AATATATTATTAATAAATA
1071894 A
1 A
1071895 AATATACTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATATAATAAATATATTATTAATAAATA
Found at i:1071917 original size:30 final size:29
Alignment explanation
Indices: 1071839--1071924 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
1071829 TATATTATAT
* *
1071839 ATATAATA-ATTATATT-TTTAATA-AATA
1 ATATAATACAATATATTATTAAATATAA-A
*
1071866 ATATAATATAATATATTATTAATATATAAA
1 ATATAATACAATATATTATTAA-ATATAAA
*
1071896 ATATACTACAATA-ATTAATTAAATATAAA
1 ATATAATACAATATATT-ATTAAATATAAA
1071925 TCTATTTTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.16
28 7 0.14
29 13 0.26
30 20 0.40
31 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATAATACAATATATTATTAAATATAAA
Found at i:1074665 original size:16 final size:15
Alignment explanation
Indices: 1074622--1074671 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
1074612 ATTAAATTTT
*
1074622 TAAA-AAATATTAAA
1 TAAATAAATATTTAA
1074636 TATAATAAATATTTAA
1 TA-AATAAATATTTAA
*
1074652 TAAATAATATATTTAT
1 TAAATAA-ATATTTAA
1074668 TAAA
1 TAAA
1074672 AATGTATCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 2 0.06
15 7 0.23
16 22 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATAAATATTTAA
Found at i:1074671 original size:27 final size:27
Alignment explanation
Indices: 1074612--1074671 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
1074602 ATTCAATTAC
* *
1074612 ATTAAATTTTTAAAAAATATTAAATAT
1 ATTAAATATTTAAAAAATAATAAATAT
* * * *
1074639 AATAAATATTTAATAAATAATATATTT
1 ATTAAATATTTAAAAAATAATAAATAT
1074666 ATTAAA
1 ATTAAA
1074672 AATGTATCCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTAAATATTTAAAAAATAATAAATAT
Found at i:1075789 original size:17 final size:18
Alignment explanation
Indices: 1075753--1075801 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
1075743 TAACTAAATT
*
1075753 TAAATATAAATATTATATA
1 TAAATATATAT-TTATATA
1075772 TAAATATATATTTA-ATA
1 TAAATATATATTTATATA
*
1075789 TAAATATGTATTT
1 TAAATATATATTT
1075802 TTAAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.54
18 3 0.11
19 10 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAATATATATTTATATA
Found at i:1080100 original size:2 final size:2
Alignment explanation
Indices: 1080093--1080118 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1080083 AGAAAGATAA
1080093 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
1080119 CACTAACCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1081214 original size:31 final size:31
Alignment explanation
Indices: 1081173--1081231 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1081163 CAATATCTGG
*
1081173 TTTTCCATTTTTTCATTAACCCATGAGCGGT
1 TTTTACATTTTTTCATTAACCCATGAGCGGT
*
1081204 TTTTACATTTTTTCATTAATCCATGAGC
1 TTTTACATTTTTTCATTAACCCATGAGC
1081232 CAAAAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.47
Consensus pattern (31 bp):
TTTTACATTTTTTCATTAACCCATGAGCGGT
Found at i:1081687 original size:22 final size:21
Alignment explanation
Indices: 1081662--1081705 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
1081652 AAATGTATAT
1081662 ATATATATATATATCATGTTTC
1 ATATATATATATAT-ATGTTTC
* * *
1081684 ATATTTTTATATATATTTTTC
1 ATATATATATATATATGTTTC
1081705 A
1 A
1081706 GATAAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATATATATATATGTTTC
Found at i:1083406 original size:2 final size:2
Alignment explanation
Indices: 1083401--1083426 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1083391 ATTAAAAAAT
1083401 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1083427 AAGGTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1085379 original size:26 final size:26
Alignment explanation
Indices: 1085350--1085457 Score: 72
Period size: 26 Copynumber: 4.3 Consensus size: 26
1085340 TATATTTAAA
1085350 ATATTATATATTTATATTTATTATTT
1 ATATTATATATTTATATTTATTATTT
*
1085376 ATATCT-TATA--TA-ATTTTTTATTT
1 ATAT-TATATATTTATATTTATTATTT
* *
1085399 ATATTAT-TATATCATATTT-TATAATT
1 ATATTATATAT-TTATATTTAT-TATTT
* *
1085425 ATA-T-TATGTTTATAATTATTATATT
1 ATATTATATATTTATATTTATTAT-TT
1085450 ATA-TATAT
1 ATATTATAT
1085458 TTTTGAATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
22 3 0.05
23 15 0.23
24 11 0.17
25 12 0.19
26 22 0.34
27 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (26 bp):
ATATTATATATTTATATTTATTATTT
Found at i:1085427 original size:18 final size:16
Alignment explanation
Indices: 1085384--1085443 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
1085374 TTATATCTTA
*
1085384 TATAATT-TTTTATTT
1 TATAATTATATTATTT
*
1085399 ATATTATTATATCATATTT
1 -TATAATTATAT--TATTT
1085418 TATAATTATATTATGTT
1 TATAATTATATTAT-TT
1085435 TATAATTAT
1 TATAATTAT
1085444 TATATTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.24
17 13 0.35
18 10 0.27
19 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TATAATTATATTATTT
Found at i:1085522 original size:18 final size:18
Alignment explanation
Indices: 1085495--1085534 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1085485 AATGTGGGAG
*
1085495 AAAATTATAAAAAGTAAA
1 AAAATAATAAAAAGTAAA
**
1085513 AAAATAATAAAATTTAAA
1 AAAATAATAAAAAGTAAA
1085531 AAAA
1 AAAA
1085535 AACTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATAATAAAAAGTAAA
Found at i:1086435 original size:2 final size:2
Alignment explanation
Indices: 1086428--1086454 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1086418 TAGTTCCGTT
1086428 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1086455 AAAATTCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1090745 original size:27 final size:27
Alignment explanation
Indices: 1090703--1090875 Score: 124
Period size: 28 Copynumber: 6.2 Consensus size: 27
1090693 ATATTTATTA
1090703 ATATAAATATATTAAAATTTATATAAAT
1 ATAT-AATATATTAAAATTTATATAAAT
* *
1090731 ATATAATAT-TTTAAATATA-ATTATAAT
1 ATATAATATATTAAAATTTATA-TA-AAT
* *
1090758 ATA-AAAATAATT-AAATATTATATTAAT
1 ATATAATAT-ATTAAAAT-TTATATAAAT
1090785 ATATAAATATATTAAAATTTATATAAAT
1 ATAT-AATATATTAAAATTTATATAAAT
* *
1090813 ATATAATATTTTAAATATGATTATA-ACAT
1 ATATAATATATTAAA-AT--TTATATAAAT
* * *
1090842 ATA-AAAATAATATAAATATAATATAAAT
1 ATATAATATATTA-AAAT-TTATATAAAT
1090870 ATATAA
1 ATATAA
1090876 ATTTTTAAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
25 1 0.01
26 14 0.12
27 36 0.31
28 41 0.35
29 19 0.16
30 5 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
ATATAATATATTAAAATTTATATAAAT
Found at i:1090767 original size:17 final size:16
Alignment explanation
Indices: 1090742--1090775 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1090732 TATAATATTT
*
1090742 TAAATATAATTATAATA
1 TAAAAATAATTA-AATA
1090759 TAAAAATAATTAAATA
1 TAAAAATAATTAAATA
1090775 T
1 T
1090776 TATATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAAATAATTAAATA
Found at i:1090809 original size:82 final size:83
Alignment explanation
Indices: 1090663--1090877 Score: 341
Period size: 82 Copynumber: 2.6 Consensus size: 83
1090653 AAATTAATTA
1090663 AAATATGA-TATAATATAAAAAATAATATAAATATT-TATT-A-ATATAAATATATTAAAATTTA
1 AAATATGATTATAATAT-AAAAATAATATAAATATTATATTAATATATAAATATATTAAAATTTA
1090724 TATAAATATATAATATTTT
65 TATAAATATATAATATTTT
*
1090743 AAATATAATTATAATATAAAAATAAT-TAAATATTATATTAATATATAAATATATTAAAATTTAT
1 AAATATGATTATAATATAAAAATAATATAAATATTATATTAATATATAAATATATTAAAATTTAT
1090807 ATAAATATATAATATTTT
66 ATAAATATATAATATTTT
* *
1090825 AAATATGATTATAACATATAAAAATAATATAAATATAATATAAATATATAAAT
1 AAATATGATTAT-A-ATATAAAAATAATATAAATATTATATTAATATATAAAT
1090878 TTTTAAATTG
Statistics
Matches: 124, Mismatches: 4, Indels: 9
0.91 0.03 0.07
Matches are distributed among these distances:
79 8 0.06
80 20 0.16
81 9 0.07
82 51 0.41
83 1 0.01
84 13 0.10
85 22 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (83 bp):
AAATATGATTATAATATAAAAATAATATAAATATTATATTAATATATAAATATATTAAAATTTAT
ATAAATATATAATATTTT
Done.