Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 132 of 322
Found at i:43237017 original size:78 final size:78
Alignment explanation
Indices: 43236935--43237092 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
43236925 ATTGAGAGGT
43236935 GTGGATATGCTTGGCAATGATTAGCCATTGGAATGGTTAATCATGATCATATTTTGTGCTATATA
1 GTGGATATGCTTGGCAATGATTAGCCATTGGAATGGTTAATCATGATCATATTTTGTGCTATATA
43237000 TGCTAAAGGGCTA
66 TGCTAAAGGGCTA
*
43237013 GTGGATATGCTTGGCAATGATTGGCCATTGGAATGGTTAATCATGATCATATTTTGTGCTATATA
1 GTGGATATGCTTGGCAATGATTAGCCATTGGAATGGTTAATCATGATCATATTTTGTGCTATATA
43237078 TGCTAAAGGGCTA
66 TGCTAAAGGGCTA
43237091 GT
1 GT
43237093 TGAATCATGA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.36
Consensus pattern (78 bp):
GTGGATATGCTTGGCAATGATTAGCCATTGGAATGGTTAATCATGATCATATTTTGTGCTATATA
TGCTAAAGGGCTA
Found at i:43237630 original size:46 final size:46
Alignment explanation
Indices: 43237563--43237652 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
43237553 CGACCAAAAC
*
43237563 TTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGAA
1 TTCTAGAAAAAAATATGTAGATGGACATATGAGTCTAGTTTCAGAA
43237609 TTCTAGAAAAAAATATGTAGATGGACATATGAGTCTAGTTTCAG
1 TTCTAGAAAAAAATATGTAGATGGACATATGAGTCTAGTTTCAG
43237653 GGAAAAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (46 bp):
TTCTAGAAAAAAATATGTAGATGGACATATGAGTCTAGTTTCAGAA
Found at i:43238475 original size:38 final size:38
Alignment explanation
Indices: 43238411--43238522 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 38
43238401 AATCCGAGTT
*
43238411 TAAAGACCCG-CGGACTATATGA-AGAGATTATGTCCGGG
1 TAAAGACCCGACGG-CTATGT-ACAGAGATTATGTCCGGG
43238449 TAAAGACCCGACGGCTATGTACAGAGATTATGTCCGGG
1 TAAAGACCCGACGGCTATGTACAGAGATTATGTCCGGG
*
43238487 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCG
1 TAAAGACCCGACGGCTATGTACAGAGATTATGTCCG
43238523 AATTAAAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.01
38 66 0.94
39 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (38 bp):
TAAAGACCCGACGGCTATGTACAGAGATTATGTCCGGG
Found at i:43238639 original size:40 final size:40
Alignment explanation
Indices: 43238577--43239540 Score: 1786
Period size: 40 Copynumber: 24.1 Consensus size: 40
43238567 AGGTCTCGAC
43238577 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
43238616 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238656 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238696 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238736 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238776 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238816 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238856 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238896 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238936 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43238976 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239016 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239056 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239096 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239136 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239176 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239216 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239256 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239296 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239336 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
43239376 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAAT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
43239416 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
43239456 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * *
43239496 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
43239536 GATGT
1 GATGT
43239541 GTATTCGGGC
Statistics
Matches: 902, Mismatches: 22, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 4 0.00
40 898 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:43241569 original size:5 final size:5
Alignment explanation
Indices: 43241559--43241586 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43241549 TAAACACCCA
43241559 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
43241587 ACCTCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:43242646 original size:21 final size:21
Alignment explanation
Indices: 43242622--43242673 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
43242612 GACACATAAA
43242622 GTGCCTAAAACAACACACGAG
1 GTGCCTAAAACAACACACGAG
* ** *
43242643 GTGCCTGATTCGACACACGAG
1 GTGCCTAAAACAACACACGAG
*
43242664 ATGCCTAAAA
1 GTGCCTAAAA
43242674 TACGACACAT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACAACACACGAG
Found at i:43243089 original size:15 final size:14
Alignment explanation
Indices: 43243065--43243104 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
43243055 TATATATTAT
43243065 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
43243079 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
43243094 ATAAATTCAAT
1 AT-AATTCAAT
43243105 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:43243971 original size:13 final size:14
Alignment explanation
Indices: 43243953--43243988 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
43243943 TTTAAATTTC
43243953 CCTTTCTTTCTT-T
1 CCTTTCTTTCTTCT
43243966 CCTTTCTTT-TTCT
1 CCTTTCTTTCTTCT
43243979 CC-TTCTTTCT
1 CCTTTCTTTCT
43243989 CCCCTGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
CCTTTCTTTCTTCT
Found at i:43244232 original size:17 final size:20
Alignment explanation
Indices: 43244211--43244251 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
43244201 ATTATTTAAT
43244211 TAATAAATATCTTTT-ATAAA
1 TAATAAATATCTTTTAAT-AA
43244231 TAATAAATATCTTTTAATAA
1 TAATAAATATCTTTTAATAA
43244251 T
1 T
43244252 TAAATACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAAATATCTTTTAATAA
Found at i:43249149 original size:23 final size:23
Alignment explanation
Indices: 43249078--43249152 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 23
43249068 CCTGATCAGT
** *
43249078 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
*
43249100 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
43249120 ATTCGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
43249143 ATACGACACA
1 ATACGACACA
43249153 TAAAATGCCT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.02
21 31 0.74
22 1 0.02
23 9 0.21
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:43249560 original size:15 final size:14
Alignment explanation
Indices: 43249534--43249575 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
43249524 CATATATATT
43249534 ATATAATTCAATCCA
1 ATATAATTCAAT-CA
43249549 A-ATAATTTCAATCA
1 ATATAA-TTCAATCA
43249563 ATATAAATTCAAT
1 ATAT-AATTCAAT
43249576 AAATTCATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:43250436 original size:13 final size:14
Alignment explanation
Indices: 43250412--43250453 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
43250402 AGCTTTAAAT
*
43250412 TTCTCTTTTCTTTC
1 TTCTCCTTTCTTTC
43250426 TT-TCCTTTCTTT-
1 TTCTCCTTTCTTTC
43250438 TTCTCC-TTCTTTC
1 TTCTCCTTTCTTTC
43250451 TTC
1 TTC
43250454 CCCTGATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 8 0.32
13 15 0.60
14 2 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTCCTTTCTTTC
Found at i:43250661 original size:31 final size:32
Alignment explanation
Indices: 43250603--43250666 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
43250593 CATACATTTT
*
43250603 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
43250635 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
43250666 T
1 T
43250667 TTTATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:43250676 original size:17 final size:20
Alignment explanation
Indices: 43250655--43250695 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
43250645 ATTATTTAAT
43250655 TAATAAATATCTTTT-ATAAA
1 TAATAAATATCTTTTAAT-AA
43250675 TAATAAATATCTTTTAATAA
1 TAATAAATATCTTTTAATAA
43250695 T
1 T
43250696 TAAATACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAAATATCTTTTAATAA
Found at i:43251493 original size:41 final size:42
Alignment explanation
Indices: 43251406--43251510 Score: 160
Period size: 41 Copynumber: 2.5 Consensus size: 42
43251396 ATAGTGATAT
*
43251406 ATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATGAC
1 ATCAGGCTTATTGCCTAGCAGGATTTGATGCCGGTGTATGAC
43251448 ATCAGGCTTATTGCCTAGCAGGATTT-ATGCCGGTGTATTGA-
1 ATCAGGCTTATTGCCTAGCAGGATTTGATGCCGGTGTA-TGAC
* *
43251489 ATCAGGTTTATTACCTAGCAGG
1 ATCAGGCTTATTGCCTAGCAGG
43251511 TCCTGTGCCG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
41 31 0.53
42 28 0.47
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
ATCAGGCTTATTGCCTAGCAGGATTTGATGCCGGTGTATGAC
Found at i:43251520 original size:41 final size:41
Alignment explanation
Indices: 43251406--43251524 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 41
43251396 ATAGTGATAT
43251406 ATCAGGCTTATTGCCTAGCAGG-CTTTGATGCCGGTGTATGAC
1 ATCAGGCTTATTGCCTAGCAGGTC-TTG-TGCCGGTGTATGAC
*
43251448 ATCAGGCTTATTGCCTAGCAGGAT-TTATGCCGGTGTATTGA-
1 ATCAGGCTTATTGCCTAGCAGG-TCTTGTGCCGGTGTA-TGAC
* * *
43251489 ATCAGGTTTATTACCTAGCAGGTCCTGTGCCGGTGT
1 ATCAGGCTTATTGCCTAGCAGGTCTTGTGCCGGTGT
43251525 TTTATACAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
40 1 0.01
41 40 0.59
42 27 0.40
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (41 bp):
ATCAGGCTTATTGCCTAGCAGGTCTTGTGCCGGTGTATGAC
Found at i:43252973 original size:6 final size:6
Alignment explanation
Indices: 43252955--43253085 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
43252945 AAGAAACATT
* *
43252955 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAAA ATTA-A
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
43253002 GTGACAAA ATCAGA ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * *
43253053 ATCAGT ATTAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
43253086 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
5 9 0.09
6 78 0.79
7 6 0.06
8 6 0.06
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:43253044 original size:31 final size:31
Alignment explanation
Indices: 43252976--43253085 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
43252966 AATCAGAATC
* ** * * *
43252976 AGAATCAGAATCAGAATCAAAATTAAGTGAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAT
* * *
43253007 AAAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATTAGGTAAT
43253038 AGAATCAAAATCAGAATCAGTATTAGGTAAT
1 AGAATCAAAATCAGAATCAGTATTAGGTAAT
43253069 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
43253086 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATTAGGTAAT
Found at i:43253047 original size:37 final size:37
Alignment explanation
Indices: 43252963--43253085 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 37
43252953 TTATCAGAAC
* * *
43252963 TAGAATCAGAATCAGAATCAGAATCAGAATCA--AAA
1 TAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
*
43252998 TTA-AGTGACAAAATCAGAATCAGAATCAGTATCAGGTAA
1 -TAGAAT--CAAAATCAGAATCAGAATCAGTATCAGGTAA
43253037 TAGAATCAAAATCAGAATCAG--T-A-T-T-AGGTAA
1 TAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
43253068 TAGAATCAAAATCAGAAT
1 TAGAATCAAAATCAGAAT
43253086 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 5, Indels: 15
0.79 0.05 0.15
Matches are distributed among these distances:
31 24 0.31
32 1 0.01
33 1 0.01
34 1 0.01
35 3 0.04
36 2 0.03
37 39 0.51
38 2 0.03
39 4 0.05
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.22
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
Found at i:43253542 original size:27 final size:27
Alignment explanation
Indices: 43253506--43254102 Score: 695
Period size: 27 Copynumber: 22.2 Consensus size: 27
43253496 GAGTTTCTTC
*
43253506 GTAATGCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43253533 -TTATTCCTACCCTACAAGGGTATTTCG
1 GTAATT-CTACCCTACAGGGGTATTTCA
43253560 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
43253587 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
43253614 ATAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
43253640 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
43253668 GTTATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43253694 GATAATTCTACCTTACAGGGATATTT-T
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
43253721 GATAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
43253749 GTAATTCTACCATATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43253776 GTAATTTTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * * *
43253803 GTCATTTTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43253830 GTCATTTTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43253856 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43253883 GTAATTCTACACTATAGGGGTA-TTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43253909 GTAATTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
43253936 GCAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
43253963 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43253990 GTAATTGTACCATACA-GGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43254016 GTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43254043 GTAATTCTACTCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43254070 GTAATTCTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
43254097 GTAATT
1 GTAATT
43254103 TTACAAATTG
Statistics
Matches: 496, Mismatches: 64, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
26 69 0.14
27 421 0.85
28 6 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:43254180 original size:26 final size:26
Alignment explanation
Indices: 43253737--43254183 Score: 129
Period size: 27 Copynumber: 16.7 Consensus size: 26
43253727 TCTACCCTAC
* * *
43253737 AGGGGTATTTTAGTAATTCTACCATAT
1 AGGGGTATTTCAGTAATTTTACAAT-T
*
43253764 AGGGGTATTTCAGTAATTTTAC-CTT
1 AGGGGTATTTCAGTAATTTTACAATT
* * *
43253789 ACAGGGGTATTTTAGTCATTTTAC-CTT
1 --AGGGGTATTTCAGTAATTTTACAATT
* * * **
43253816 ACAAGGGTATTTTAGTCATTTTAC-CCT
1 --AGGGGTATTTCAGTAATTTTACAATT
* * * **
43253843 ACAGGGTATTTCGGTAATTCTACCTTAT
1 A-GGGGTATTTCAGTAATTTTACAAT-T
* *
43253871 AGGGGTATTTCAGTAATTCTACACTAT
1 AGGGGTATTTCAGTAATTTTACAAT-T
* *
43253898 AGGGGTA-TTCAGTAATTCTAC-CTT
1 AGGGGTATTTCAGTAATTTTACAATT
* * * * ** *
43253922 ACAAGGGTATTTTAGCAATTCTACCCTAC
1 --AGGGGTATTTCAGTAATTTTACAAT-T
* ** * *
43253951 AAGGGTATTTTGGTAATTCTAC-CTT
1 AGGGGTATTTCAGTAATTTTACAATT
* *
43253976 ACAGGGGTATTTCAGTAATTGTACCA-T
1 --AGGGGTATTTCAGTAATTTTACAATT
* * **
43254003 ACAGGGTATTTCAGTAATTCTACCTTAT
1 A-GGGGTATTTCAGTAATTTTACAAT-T
* * ** *
43254031 AGGGGTATTTTAGTAATTCTACTCTAC
1 AGGGGTATTTCAGTAATTTTACAAT-T
* * **
43254058 AAGGGTATTTCAGTAATTCTACCTTAT
1 AGGGGTATTTCAGTAATTTTACAAT-T
*
43254085 AGGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCAGTAATTTTAC-AATT
* ** * *
43254112 -GAGGATATTTGGGTAATTTTATAAATC
1 AG-GGGTATTTCAGTAATTTTA-CAATT
* *
43254139 GGGGGTACTTT-GGTAATTTTACAATT
1 AGGGGTA-TTTCAGTAATTTTACAATT
*
43254165 GGGGGTATTTCAGTAATTT
1 AGGGGTATTTCAGTAATTT
43254184 GGTAAACTAA
Statistics
Matches: 343, Mismatches: 55, Indels: 45
0.77 0.12 0.10
Matches are distributed among these distances:
24 1 0.00
25 8 0.02
26 78 0.23
27 245 0.71
28 11 0.03
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (26 bp):
AGGGGTATTTCAGTAATTTTACAATT
Found at i:43256018 original size:43 final size:43
Alignment explanation
Indices: 43255959--43256126 Score: 259
Period size: 43 Copynumber: 3.9 Consensus size: 43
43255949 GCTAGTATTA
* *
43255959 TATTTGGGCCTTCGTGCCTAGCAGGCT-TAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGG-TGTAATGCCGGTGATGTG
* *
43256002 TATTCGGGCCTTCGTGCCTAGCAGGCT-TAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGG-TGTAATGCCGGTGATGTG
*
43256045 TATTCGGGCCTTCGTGCCTAGCAGGTGTAATACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGTGTAATGCCGGTGATGTG
43256088 TATTCGGGCCTTCGTGCCTAGCAGGTGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGTGTAATGCCGGTGA
43256127 AATGATATGT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 117 0.99
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGTGTAATGCCGGTGATGTG
Found at i:43256061 original size:86 final size:84
Alignment explanation
Indices: 43255938--43256112 Score: 262
Period size: 86 Copynumber: 2.1 Consensus size: 84
43255928 GATAAATCCC
* * * *
43255938 GCAGGCCTAGTGCTAGTATTATATTTGGGCCTTCGTGCCTAGCAGGCT-TAGTGCCGGTGATGTG
1 GCAGGCCTAGTGCCAGTATTATATTCGGGCCTTCGTGCCTAGCAGG-TGTAATACCGGTGATGTG
43256002 TATTCGGGCCTTCGTGCCTA
65 TATTCGGGCCTTCGTGCCTA
* *
43256022 GCAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGTGTAATACCGGTGATGT
1 GCAGGCCTAGTGCCAGT-AT-TATATTCGGGCCTTCGTGCCTAGCAGGTGTAATACCGGTGATGT
43256087 GTATTCGGGCCTTCGTGCCTA
64 GTATTCGGGCCTTCGTGCCTA
43256108 GCAGG
1 GCAGG
43256113 TGTAATGCCG
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
84 15 0.18
85 3 0.04
86 64 0.78
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (84 bp):
GCAGGCCTAGTGCCAGTATTATATTCGGGCCTTCGTGCCTAGCAGGTGTAATACCGGTGATGTGT
ATTCGGGCCTTCGTGCCTA
Found at i:43259656 original size:15 final size:15
Alignment explanation
Indices: 43259636--43259674 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
43259626 CACAATCGCA
43259636 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
43259651 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
43259666 ACAAGTAAT
1 ACAAGTAAT
43259675 GTTGAGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.21
Consensus pattern (15 bp):
ACAAGTAATAAAGTG
Found at i:43265599 original size:39 final size:39
Alignment explanation
Indices: 43265555--43265915 Score: 528
Period size: 39 Copynumber: 9.3 Consensus size: 39
43265545 TGCCTCCGAT
* *
43265555 ACTTAGCCCGGATATAACATCAGCAAGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
*
43265594 ACTTAGCCCAGATATAATATCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
*
43265633 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
** *
43265672 ACTTAATCAGGATATAATATCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
*
43265711 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
** *
43265750 ACTTAATCAGGATATAATATCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
*
43265789 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
** *
43265828 ACTTAATCAGGATATAATATCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
* * *
43265867 ACTTAGCCCGGATATAAATCTCA-CAC-AAGGCCTGCGGG
1 ACTTAGCCCGGATAT-AATATCAGCACGAATGCCTTCGGG
*
43265905 TCTTAGCCCGG
1 ACTTAGCCCGG
43265916 TTAAAATCCT
Statistics
Matches: 289, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
38 20 0.07
39 263 0.91
40 6 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (39 bp):
ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
Found at i:43265674 original size:78 final size:78
Alignment explanation
Indices: 43265555--43265883 Score: 597
Period size: 78 Copynumber: 4.2 Consensus size: 78
43265545 TGCCTCCGAT
* * * **
43265555 ACTTAGCCCGGATATAACATCAGCAAGAATGCCTTCGGGACTTAGCCCA-GATATAATATCAGCA
1 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTA-ATCAGGATATAATATCAGCA
43265619 CGAATGCCTTCGGG
65 CGAATGCCTTCGGG
43265633 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
1 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
43265698 GAATGCCTTCGGG
66 GAATGCCTTCGGG
43265711 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
1 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
43265776 GAATGCCTTCGGG
66 GAATGCCTTCGGG
43265789 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
1 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
43265854 GAATGCCTTCGGG
66 GAATGCCTTCGGG
43265867 ACTTAGCCCGGATATAA
1 ACTTAGCCCGGATATAA
43265884 ATCTCACACA
Statistics
Matches: 245, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
77 2 0.01
78 243 0.99
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (78 bp):
ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAATCAGGATATAATATCAGCAC
GAATGCCTTCGGG
Found at i:43267389 original size:61 final size:62
Alignment explanation
Indices: 43267315--43267447 Score: 232
Period size: 61 Copynumber: 2.2 Consensus size: 62
43267305 ATTCCTTCTT
*
43267315 TAATAACCATAGCCGAATGTTCCATCCATCCATCAAAATTTAAAAATTTAGCATGGGCTAAG
1 TAATAACCATAGCCGAATGCTCCATCCATCCATCAAAATTTAAAAATTTAGCATGGGCTAAG
*
43267377 -AATAACCATAGCCGAATGCTCCATCCATCCATCAAACTTTAAAAATTTAGCATGGGCTAAG
1 TAATAACCATAGCCGAATGCTCCATCCATCCATCAAAATTTAAAAATTTAGCATGGGCTAAG
*
43267438 TAAGAACCAT
1 TAATAACCAT
43267448 GATAATTAAC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 59 0.88
62 8 0.12
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (62 bp):
TAATAACCATAGCCGAATGCTCCATCCATCCATCAAAATTTAAAAATTTAGCATGGGCTAAG
Found at i:43273896 original size:39 final size:38
Alignment explanation
Indices: 43273841--43273986 Score: 184
Period size: 39 Copynumber: 3.7 Consensus size: 38
43273831 TTCCAACCCA
* * * **
43273841 AATGCCTTCGGAACTTAGCCCAGATTTAACATCAATACG
1 AATGCCTTCGGGACTTAGCCC-GATATAATATCAGCACG
* *
43273880 AATGCCTTTGGGACTTAGCCCGAATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCG-ATATAATATCAGCACG
*
43273919 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCC-GATATAATATCAGCACG
43273958 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCC-GATATAA
43273987 ATCTCACACA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 92 0.98
40 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGATATAATATCAGCACG
Found at i:43273971 original size:78 final size:78
Alignment explanation
Indices: 43273841--43273986 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
43273831 TTCCAACCCA
* * * *
43273841 AATGCCTTCGGAACTTAGCCCAGATTTAACATCAATACGAATGCCTTTGGGACTTAGCCCGAATA
1 AATGCCTTCGGAACTTAACCCAGATATAACATCAACACGAATGCCTTCGGGACTTAGCCCGAATA
43273906 TAATACCAGCACG
66 TAATACCAGCACG
* * * * *
43273919 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACGAATGCCTTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGAACTTAACCCAGATATAACATCAACACGAATGCCTTCGGGACTTAGCCCGAATA
43273984 TAA
66 TAA
43273987 ATCTCACACA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (78 bp):
AATGCCTTCGGAACTTAACCCAGATATAACATCAACACGAATGCCTTCGGGACTTAGCCCGAATA
TAATACCAGCACG
Found at i:43280283 original size:27 final size:26
Alignment explanation
Indices: 43280252--43280429 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
43280242 TAAATTGTAC
43280252 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
43280279 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* * *
43280305 ATGCACTAAGCGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
43280333 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
43280361 AGCACTAAGTGTGCGATTTGATTCTGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
43280388 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
43280415 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43280430 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:43280420 original size:82 final size:81
Alignment explanation
Indices: 43280249--43280429 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
43280239 GATTAAATTG
* *
43280249 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
43280314 GCGTGCGAATTGACCA
66 GCGTGCGAATTGACCA
* * ** * *
43280330 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTCTG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* * **
43280394 AAGTGTGCGAGTTGATTA
64 AAGCGTGCGAATTGACCA
* *
43280412 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43280430 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GCGTGCGAATTGACCA
Found at i:43299094 original size:9 final size:9
Alignment explanation
Indices: 43299082--43299109 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
43299072 GGATATGTTG
43299082 AGATTATTC
1 AGATTATTC
43299091 AGATTATTC
1 AGATTATTC
43299100 AGATTATTC
1 AGATTATTC
43299109 A
1 A
43299110 CCTGCACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (9 bp):
AGATTATTC
Found at i:43301674 original size:40 final size:40
Alignment explanation
Indices: 43301591--43301813 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
43301581 TTGAATGCTG
* * * * * *
43301591 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
43301631 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
43301671 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
43301711 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
43301751 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
43301790 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43301814 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 119 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:43301833 original size:79 final size:80
Alignment explanation
Indices: 43301666--43301848 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
43301656 GTGCGAGATA
* * *
43301666 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
43301731 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
43301746 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
43301810 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
43301825 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43301849 TACGTGATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 15 0.17
79 46 0.52
80 28 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:43309582 original size:40 final size:40
Alignment explanation
Indices: 43309499--43309801 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
43309489 TTGAATGCTG
* * * * * *
43309499 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
43309539 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
43309579 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
43309619 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
43309659 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
43309699 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
43309739 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
43309778 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43309802 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:43312245 original size:44 final size:42
Alignment explanation
Indices: 43312195--43312351 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 42
43312185 TGTGTTATCA
43312195 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTTACG
*
43312239 TGTAAGACCACGTCTGGGACATTGGTATCGTATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTACG
* * *
43312281 TGTAAGACC-CTCTCTGGGACAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG--ATTTGATTTACG
**
43312324 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
43312352 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 36 0.36
44 32 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTTACG
Found at i:43315051 original size:43 final size:42
Alignment explanation
Indices: 43314969--43315086 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
43314959 GATTTGAGAT
*
43314969 TTACGTGTAAGACCATGTCTGGGAC-ATCGACATCATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAAT-GGCATCATATTTGA
**
43315011 TTTTGTGTAAGACCATGTCTGGGACAATGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAATGGCATC-ATATTTGA
* * *
43315054 TTACATGTAAGACCATGTCTGGGGCATTGGCAT
1 TTACGTGTAAGACCATGTCTGGGACAATGGCAT
43315087 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 28 0.42
43 38 0.58
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACAATGGCATCATATTTGA
Found at i:43319255 original size:23 final size:23
Alignment explanation
Indices: 43319212--43319255 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
43319202 CATCATAATA
*
43319212 TCATCTATTTCATATCACAAAAC
1 TCATCTATATCATATCACAAAAC
*
43319235 TCATC-ATATCATCATCTCAAA
1 TCATCTATATCAT-ATCACAAA
43319256 CCAAAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (23 bp):
TCATCTATATCATATCACAAAAC
Found at i:43323224 original size:17 final size:17
Alignment explanation
Indices: 43323192--43323242 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
43323182 ACCATATAAT
*
43323192 AACTCT-TATTTGGAAC
1 AACTCTATATTTAGAAC
*
43323208 ACCTCTATATTTAGAAC
1 AACTCTATATTTAGAAC
*
43323225 AACT-TACATTTAGAAC
1 AACTCTATATTTAGAAC
43323241 AA
1 AA
43323243 GTCAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (17 bp):
AACTCTATATTTAGAAC
Found at i:43326111 original size:16 final size:16
Alignment explanation
Indices: 43326070--43326111 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
43326060 AAAGTTGATA
43326070 ATAATTAATATATATT
1 ATAATTAATATATATT
*
43326086 ATAATGAATATA-ATT
1 ATAATTAATATATATT
43326101 ATATATTAATA
1 ATA-ATTAATA
43326112 ATTATCATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATTAATATATATT
Found at i:43326644 original size:13 final size:13
Alignment explanation
Indices: 43326626--43326654 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43326616 GGTTGTTTAT
43326626 TAAACTAATTAAC
1 TAAACTAATTAAC
43326639 TAAACTAATTAAC
1 TAAACTAATTAAC
43326652 TAA
1 TAA
43326655 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:43352230 original size:10 final size:9
Alignment explanation
Indices: 43352205--43352231 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43352195 TAAGCCATTT
43352205 ACCTTTTTA
1 ACCTTTTTA
43352214 ACCTTTTTA
1 ACCTTTTTA
43352223 ACCTTTTTA
1 ACCTTTTTA
43352232 TTTTCATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
ACCTTTTTA
Found at i:43358727 original size:40 final size:42
Alignment explanation
Indices: 43358662--43358758 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 42
43358652 TAAGTCAGTA
*
43358662 TCGCACACTTAGTGCC-TTATATAGCC-AAAGCTAT-GCCAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAA-CTATAGCAAAC
* **
43358702 TCGCACACTTAGTGCCATT-TGTAGCCGAAACTATATTAAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAACTATAGCAAAC
43358743 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
43358759 AGCATAGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 42 0.84
41 8 0.16
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (42 bp):
TCGCACACTTAGTGCCATTATATAGCCGAAACTATAGCAAAC
Found at i:43373473 original size:21 final size:21
Alignment explanation
Indices: 43373449--43373490 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43373439 TCATCAGATC
*
43373449 TACAGCTTGAGGCATCGGGGG
1 TACAGCTTGAGGAATCGGGGG
*
43373470 TACAGGTTGAGGAATCGGGGG
1 TACAGCTTGAGGAATCGGGGG
43373491 AGGTGGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.45, T:0.19
Consensus pattern (21 bp):
TACAGCTTGAGGAATCGGGGG
Found at i:43389041 original size:40 final size:40
Alignment explanation
Indices: 43388992--43389179 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
43388982 GCTACTTGCT
* *
43388992 CAAATGCCTTTGGGACTTAGCCCGGTTATACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43389032 CAAGTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
43389072 CAAATGCCTTCGGGACTCAGCTCGGATATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** *
43389112 CAAATACCTTCGGG-CTTAGCCCGG-AATCAGTCGCTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT-AGTAACTCGCA
*
43389151 CAAATGCTTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43389180 CATCCGAATA
Statistics
Matches: 126, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
38 2 0.02
39 27 0.21
40 95 0.75
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43389163 original size:79 final size:80
Alignment explanation
Indices: 43388992--43389175 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
43388982 GCTACTTGCT
* * * *
43388992 CAAATGCCTTT-GGGACTTAGCCCGGTTATACTAACTCGCACAAGTGCCTTCGGGACTTAGCCCG
1 CAAATG-CTTTCGGGACTCAGCCCGGATATACTAACTCGCACAAATACCTTCGGGACTTAGCCCG
* *
43389056 GTTATAGTAACTCGCA
65 GTAATAGTAACTAGCA
* * * *
43389072 CAAATGCCTTCGGGACTCAGCTCGGATATAGTAACTCGGACAAATACCTTCGGG-CTTAGCCCGG
1 CAAATGCTTTCGGGACTCAGCCCGGATATACTAACTCGCACAAATACCTTCGGGACTTAGCCCGG
**
43389136 -AATCAGTCGCTAGCA
66 TAAT-AGTAACTAGCA
*
43389151 CAAATGCTTTCGGGACTTAGCCCGG
1 CAAATGCTTTCGGGACTCAGCCCGG
43389176 TTATCATCCG
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.02
79 43 0.49
80 42 0.48
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCTTTCGGGACTCAGCCCGGATATACTAACTCGCACAAATACCTTCGGGACTTAGCCCGG
TAATAGTAACTAGCA
Found at i:43401234 original size:20 final size:20
Alignment explanation
Indices: 43401211--43401249 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
43401201 TAAACATGGT
43401211 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
43401231 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43401250 TCTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:43401284 original size:13 final size:13
Alignment explanation
Indices: 43401266--43401293 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43401256 CATAAACGCA
43401266 TTGGGTTGGGTTT
1 TTGGGTTGGGTTT
43401279 TTGGGTTGGGTTT
1 TTGGGTTGGGTTT
43401292 TT
1 TT
43401294 ATATGGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.43, T:0.57
Consensus pattern (13 bp):
TTGGGTTGGGTTT
Found at i:43401406 original size:47 final size:46
Alignment explanation
Indices: 43401314--43401415 Score: 159
Period size: 47 Copynumber: 2.2 Consensus size: 46
43401304 AGGAAGTGCA
*
43401314 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCACAGTTATTAAAGGGCTTATGCCCCAGTTATT
* *
43401360 AAAGGGCTTATGCCACAGTTGTTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCACAGTTATT-AAAGGGCTTATGCCCCAGTTATT
43401407 AAAGAGGCT
1 AAAG-GGCT
43401416 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 21 0.41
47 26 0.51
48 4 0.08
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCACAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:43401415 original size:24 final size:23
Alignment explanation
Indices: 43401314--43401429 Score: 162
Period size: 23 Copynumber: 5.0 Consensus size: 23
43401304 AGGAAGTGCA
43401314 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
43401337 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
43401360 AAAGGGCTTATGCCACAGTTGTT
1 AAAGGGCTTATGCCCCAGTTATT
*
43401383 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
43401407 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
43401430 ACGATAAAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
23 52 0.63
24 31 0.37
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:43425404 original size:89 final size:88
Alignment explanation
Indices: 43425226--43425478 Score: 373
Period size: 89 Copynumber: 2.9 Consensus size: 88
43425216 TCACCAGACC
* * * *
43425226 TTAACCACCTAAGCAGTAGGGTAACAAGTTGAA-TTCATAGATCTTAACCCCCTAAGCAGTAGGG
1 TTAACCCCCTAAGTAGTAGGGTAACAAGTTGAAGTTCATAGATCTTATCACCCTAAGCAGTAGGG
* *
43425290 AAATAGATCAAAGGTGACGAGCT
66 AAACAGATCAAAGGGGACGAGCT
* *
43425313 TTAACTCCCTAAGTAGTAGGGTAACAAGTTGAAGTTCATAAGATTTTATCACCCTAAGCAGTAGG
1 TTAACCCCCTAAGTAGTAGGGTAACAAGTTGAAGTTCAT-AGATCTTATCACCCTAAGCAGTAGG
* *
43425378 GAAACGGATCGAAGGGGACGAGCT
65 GAAACAGATCAAAGGGGACGAGCT
* *
43425402 TTAACCCCCTAAGTAGTAGGGTAACAAGCTAAAGTTCATAGATCTTATCACCCTAAGCAGTAGGG
1 TTAACCCCCTAAGTAGTAGGGTAACAAGTTGAAGTTCATAGATCTTATCACCCTAAGCAGTAGGG
*
43425467 AAGCAGATCAAA
66 AAACAGATCAAA
43425479 AGACGGGGAA
Statistics
Matches: 147, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
87 30 0.20
88 39 0.27
89 78 0.53
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (88 bp):
TTAACCCCCTAAGTAGTAGGGTAACAAGTTGAAGTTCATAGATCTTATCACCCTAAGCAGTAGGG
AAACAGATCAAAGGGGACGAGCT
Found at i:43425456 original size:44 final size:44
Alignment explanation
Indices: 43425225--43425466 Score: 156
Period size: 44 Copynumber: 5.5 Consensus size: 44
43425215 TTCACCAGAC
*
43425225 CTTAAC-CACCTAAGCAGTAGGGTAACAAGTTGAA-TTCATAGAT
1 CTTAACAC-CCTAAGCAGTAGGGTAACAAGATGAAGTTCATAGAT
* * * * * *
43425268 CTTAACCCCCTAAGCAGTAGGG-AA-ATAGATCAAAGGTGA-CGAG
1 CTTAACACCCTAAGCAGTAGGGTAACA-AGAT-GAAGTTCATAGAT
* * *
43425311 CTTTAACTCCCTAAGTAGTAGGGTAACAAGTTGAAGTTCATAAGAT
1 C-TTAACACCCTAAGCAGTAGGGTAACAAGATGAAGTTCAT-AGAT
* * * * *** * *
43425357 TTTATCACCCTAAGCAGTAGGGAAAC-GGATCGAAGGGGA-CGAG
1 CTTAACACCCTAAGCAGTAGGGTAACAAGAT-GAAGTTCATAGAT
* * * *
43425400 CTTTAACCCCCTAAGTAGTAGGGTAACAAGCTAAAGTTCATAGAT
1 C-TTAACACCCTAAGCAGTAGGGTAACAAGATGAAGTTCATAGAT
*
43425445 CTTATCACCCTAAGCAGTAGGG
1 CTTAACACCCTAAGCAGTAGGG
43425467 AAGCAGATCA
Statistics
Matches: 144, Mismatches: 42, Indels: 25
0.68 0.20 0.12
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 27 0.19
44 72 0.50
45 36 0.25
46 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (44 bp):
CTTAACACCCTAAGCAGTAGGGTAACAAGATGAAGTTCATAGAT
Found at i:43427330 original size:19 final size:20
Alignment explanation
Indices: 43427308--43427349 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
43427298 TATTCTTGTA
43427308 TTATTATT-TTTA-ACATATT
1 TTATTATTATTTAGACAT-TT
43427327 TTATTATTATTTAGACATTT
1 TTATTATTATTTAGACATTT
43427347 TTA
1 TTA
43427350 ATTAATACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTATTATTTAGACATTT
Found at i:43427399 original size:23 final size:23
Alignment explanation
Indices: 43427373--43427419 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
43427363 ATATATAAAC
*
43427373 TTTATATATATTCTTATAGTTGT
1 TTTATATATATTATTATAGTTGT
*
43427396 TTTATATATATTATTATTGTTGT
1 TTTATATATATTATTATAGTTGT
43427419 T
1 T
43427420 CCTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTATATATATTATTATAGTTGT
Found at i:43427427 original size:23 final size:23
Alignment explanation
Indices: 43427375--43427429 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
43427365 ATATAAACTT
* *
43427375 TATATATATTCTTATAGTTGTTT
1 TATATATATTATTATAGTTGTTC
*
43427398 TATATATATTATTATTGTTGTTCC
1 TATATATATTATTATAGTTGTT-C
43427422 TA-ATATAT
1 TATATATAT
43427430 GTTTTATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.58
Consensus pattern (23 bp):
TATATATATTATTATAGTTGTTC
Found at i:43427863 original size:24 final size:25
Alignment explanation
Indices: 43427808--43427863 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
43427798 TTATGTTATG
* *
43427808 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
43427833 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
43427856 TATATATT
1 TATATATT
43427864 TATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:43435670 original size:21 final size:21
Alignment explanation
Indices: 43435629--43435670 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43435619 AAGAAAGGAA
* **
43435629 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
43435650 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
43435671 GGTTATCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:43437031 original size:79 final size:80
Alignment explanation
Indices: 43436931--43437294 Score: 390
Period size: 79 Copynumber: 4.6 Consensus size: 80
43436921 GTCGAAATCG
* * * *
43436931 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
43436996 -ATTCCGGGCTAAG-C
66 TA-TCCGGGCTAAGTC
* * *
43437010 CCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
43437075 TATCTGGGCTAAGTC
66 TATCCGGGCTAAGTC
* * *
43437090 CCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
43437153 ATATCCGGGCTAACTC
65 ATATCCGGGCTAAGTC
* * * *
43437169 CCGAAGGGCATGGATATTCG-G--A-TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 CCGAA-GGCAT--TTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
*
43437230 ACTAAAAT-CGGGCTAAGTC
62 ACT-ATATCCGGGCTAAGTC
* * * *
43437249 CCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGATAAATCCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
43437295 TACCGGGTTG
Statistics
Matches: 241, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
77 3 0.01
78 2 0.01
79 144 0.60
80 84 0.35
81 5 0.02
82 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
TATCCGGGCTAAGTC
Found at i:43437142 original size:119 final size:119
Alignment explanation
Indices: 43436931--43437294 Score: 494
Period size: 119 Copynumber: 3.1 Consensus size: 119
43436921 GTCGAAATCG
43436931 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
43436996 ATTCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
66 ATTCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
43437050 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
43437115 ATTCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
66 ATTCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
* * *
43437169 CCGAAGGGCA--TG-G-ATA-TT-CGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 CCGAA-GGCATTTGTGCA-AGTTAC---T-ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAG
* * * * * * *
43437228 TTACTAAAAT-CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGATAAATC
60 TGACT-AATTCCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTA-CTATATCCGGGCTAACTC
43437288 CCGAAGG
1 CCGAAGG
43437295 TACCGGGTTG
Statistics
Matches: 226, Mismatches: 10, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
115 1 0.00
116 3 0.01
117 2 0.01
118 5 0.02
119 183 0.81
120 32 0.14
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
ATTCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
Found at i:43437267 original size:40 final size:40
Alignment explanation
Indices: 43436931--43437268 Score: 375
Period size: 40 Copynumber: 8.5 Consensus size: 40
43436921 GTCGAAATCG
* * *
43436931 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* * *
43436971 CCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* * *
43437010 CCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* * *
43437050 CCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* * *
43437090 CCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* * *
43437129 CCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAACTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* * * *
43437169 CCGAAGGGCATGGATATTCG-GATGA-T-AA-CCGGGCTAAGTC
1 CCGAA-GGCAT--TTGTGCGAG-TTACTAAATCCGGGCTAAGTC
43437209 CCGAAGGCATTTGTGCGAGTTACTAAAAT-CGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACT-AAATCCGGGCTAAGTC
*
43437249 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
43437269 AGTTATATCC
Statistics
Matches: 249, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
37 6 0.02
38 2 0.01
39 71 0.29
40 157 0.63
41 6 0.02
42 2 0.01
43 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
Found at i:43445512 original size:119 final size:119
Alignment explanation
Indices: 43445301--43446229 Score: 1631
Period size: 119 Copynumber: 7.8 Consensus size: 119
43445291 GATGATAACC
43445301 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
43445366 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
43445420 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
43445485 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
43445539 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
43445604 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
43445658 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
43445723 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
43445777 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
43445842 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
43445896 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
* *
43445961 GAGTTACTATATCCGGGCTAACTCCCGAAGGGCA--TG-G-ATA-TT-CGGATGATAACC
66 GAGTTACTATATCCGGGCTAACTCCCGAA-GGCATTTGTGCA-AGTTAC---T-ATATCT
43446015 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
43446080 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
* * ** * *
43446134 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTGGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCATTCGTG
* * *
43446199 CGAG-TAGTTATATCC-GGATAAATCCCGAAGG
65 CGAGTTA-CTATATCCGGGCTAACTCCCGAAGG
43446230 TACCGGGTTG
Statistics
Matches: 783, Mismatches: 13, Indels: 28
0.95 0.02 0.03
Matches are distributed among these distances:
115 1 0.00
116 3 0.00
117 2 0.00
118 7 0.01
119 732 0.93
120 32 0.04
121 2 0.00
122 3 0.00
123 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
GAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACTATATCT
Found at i:43450155 original size:40 final size:40
Alignment explanation
Indices: 43450057--43450225 Score: 200
Period size: 39 Copynumber: 4.3 Consensus size: 40
43450047 TCCTCGTTCA
* * * * *
43450057 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
* *
43450097 -ATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
*
43450136 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA-C
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
* * *
43450175 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGC-CC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
*
43450214 AAAGGCCTTCGG
1 -AATGCCTTCGG
43450226 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 68 0.61
40 43 0.39
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
Found at i:43450158 original size:79 final size:79
Alignment explanation
Indices: 43450057--43450202 Score: 220
Period size: 79 Copynumber: 1.8 Consensus size: 79
43450047 TCCTCGTTCA
* * * * *
43450057 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACAATGCCCTCGGGACGTAACCCGGATT
43450122 TAACAACTCGCACC
66 TAACAACTCGCACC
* * *
43450136 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAATGCCCTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACAATGCCCTCGGGACGTAACCCGGATT
43450201 TA
66 TA
43450203 GTATCTCGCC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 59 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACAATGCCCTCGGGACGTAACCCGGATT
TAACAACTCGCACC
Found at i:43450211 original size:79 final size:79
Alignment explanation
Indices: 43450055--43450225 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 79
43450045 GCTCCTCGTT
* * * * *
43450055 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACAATGCCCTCGGGACGTAACCCGGA
43450120 TTTAACAACTCGCAC
66 TTTAACAACTCGC-C
* * *
43450135 C-AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAATGCCCTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACAATGCCCTCGGGACGTAACCCGGA
** *
43450199 TTTAGTATCTCGCC
66 TTTAACAACTCGCC
*
43450213 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
43450226 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 2 0.03
79 75 0.96
80 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACAATGCCCTCGGGACGTAACCCGGA
TTTAACAACTCGCC
Found at i:43452255 original size:50 final size:50
Alignment explanation
Indices: 43452180--43452279 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
43452170 GAATCTTGGG
* * *
43452180 CTCAACTTGCCCTTACGGCCGAACCTGAGTATCTTTTTCCAAGGTGAAAC
1 CTCAACTTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGCGAAAC
43452230 CTCAACTTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGCGAAAC
1 CTCAACTTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGCGAAAC
43452280 TTTAAGGAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (50 bp):
CTCAACTTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGCGAAAC
Found at i:43452950 original size:139 final size:139
Alignment explanation
Indices: 43452700--43452978 Score: 522
Period size: 139 Copynumber: 2.0 Consensus size: 139
43452690 CTTCTTGCAA
43452700 TTTCCTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAATAGGTACCCCGT
1 TTTCCTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAATAGGTACCCCGT
* * * *
43452765 GTAATCTCACAATCTGAGAAACGTACAATTCAGCTAGTTTATCCAATGAAAAATCCGTACGCACG
66 GTAATCTCACAATCTGAGAAACGTACAATTCAACTAGTCTATCCAATGAAAAATCCATACACACG
43452830 GGGATAAAG
131 GGGATAAAG
43452839 TTTCCTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAATAGGTACCCCGT
1 TTTCCTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAATAGGTACCCCGT
43452904 GTAATCTCACAATCTGAGAAACGTACAATTCAACTAGTCTATCCAATGAAAAATCCATACACACG
66 GTAATCTCACAATCTGAGAAACGTACAATTCAACTAGTCTATCCAATGAAAAATCCATACACACG
43452969 GGGATAAAG
131 GGGATAAAG
43452978 T
1 T
43452979 GAGCCGACTT
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (139 bp):
TTTCCTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAATAGGTACCCCGT
GTAATCTCACAATCTGAGAAACGTACAATTCAACTAGTCTATCCAATGAAAAATCCATACACACG
GGGATAAAG
Found at i:43455464 original size:40 final size:39
Alignment explanation
Indices: 43455385--43455470 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
43455375 CAGTATAATA
* * * * *
43455385 CCAGCTCGTAGCCTGCGGGTCTCCAGCCCGGATAGCATT
1 CCAGCACGAAGCCTGCGGGTCTCAAGCCCAGATAACATT
* *
43455424 CTAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATAACATT
1 CCAGCACGAAGCCTGCGGGTC-TCAAGCCCAGATAACATT
43455464 CCAGCAC
1 CCAGCAC
43455471 TTTAAGCCCG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGTCTCAAGCCCAGATAACATT
Found at i:43455484 original size:26 final size:26
Alignment explanation
Indices: 43455444--43455495 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
43455434 GCCTGCGGGT
43455444 CTTTAAGCCCAGATAACATTCCAGCA
1 CTTTAAGCCCAGATAACATTCCAGCA
* *
43455470 CTTTAAGCCCGGATAACATTCTAGCA
1 CTTTAAGCCCAGATAACATTCCAGCA
43455496 TATAGCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (26 bp):
CTTTAAGCCCAGATAACATTCCAGCA
Found at i:43464123 original size:37 final size:37
Alignment explanation
Indices: 43464073--43464144 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
43464063 GGAAATATAT
* *
43464073 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
*
43464110 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTT
43464145 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
Found at i:43465676 original size:40 final size:40
Alignment explanation
Indices: 43465397--43465667 Score: 393
Period size: 40 Copynumber: 6.8 Consensus size: 40
43465387 GAGAATTGAG
43465397 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43465437 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43465477 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
43465517 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43465557 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
43465597 AGTGATATATCCGTGC-AAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43465636 -GATGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AG-TGATATATCCGGGCTAAGTCCCGAAGAGCA
43465668 ATCATGCTGG
Statistics
Matches: 207, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.00
39 32 0.15
40 174 0.84
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:43465948 original size:58 final size:57
Alignment explanation
Indices: 43465879--43465987 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
43465869 CGAATGATTA
* *
43465879 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
43465937 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
43465988 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:43466182 original size:61 final size:61
Alignment explanation
Indices: 43466105--43466226 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
43466095 CTCGATATGT
* **
43466105 GATAATATGTAAGACCATGGTTGGACTATGGCTTTAAGTAAGTGACATACTCAGACAAGTA
1 GATAATATGTAAGACCATGGTTGGACTATGGCTTAAAGTAAACGACATACTCAGACAAGTA
43466166 GATAATATGTAAGACCATGGTTGGACTATGGCTTAAAGTAAACGACATACTCAGACAAGTA
1 GATAATATGTAAGACCATGGTTGGACTATGGCTTAAAGTAAACGACATACTCAGACAAGTA
43466227 CGATGCTCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (61 bp):
GATAATATGTAAGACCATGGTTGGACTATGGCTTAAAGTAAACGACATACTCAGACAAGTA
Found at i:43466585 original size:73 final size:73
Alignment explanation
Indices: 43466502--43466647 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
43466492 TCGGTATATG
43466502 AAGTTATATGTGCTATTGCTGAATGGACACTATTTTGTTAATCTTGTTCAAGAAATTATTTTGAT
1 AAGTTATATGTGCTATTGCTGAATGGACACTATTTTGTTAATCTTGTTCAAGAAATTATTTTGAT
43466567 GAAGTTTC
66 GAAGTTTC
43466575 AAGTTATATGTGCTATTGCTGAATGGACACTATTTTGTTAATCTTGTTCAAGAAATTATTTTGAT
1 AAGTTATATGTGCTATTGCTGAATGGACACTATTTTGTTAATCTTGTTCAAGAAATTATTTTGAT
*
43466640 TAAGTTTC
66 GAAGTTTC
43466648 GACATTCGAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (73 bp):
AAGTTATATGTGCTATTGCTGAATGGACACTATTTTGTTAATCTTGTTCAAGAAATTATTTTGAT
GAAGTTTC
Found at i:43467779 original size:99 final size:98
Alignment explanation
Indices: 43467663--43467860 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 98
43467653 AAAGGGCATG
*
43467663 GGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAAAAAAAGAAAAGAGAGGATGTGTGTGATT
1 GGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAAAAAAAGAAAAGAAAGGATGTGTGTGATT
43467728 GTCCCCCCCCATTGCCGTGAGTGATGAAAACAAA
66 GT-CCCCCCCATTGCCGTGAGTGATGAAAACAAA
43467762 GGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAAAAAAAGAAAAGAAAGGATGTGTGTGATT
1 GGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAAAAAAAGAAAAGAAAGGATGTGTGTGATT
*
43467827 GTCCCCCCCATTGTCGTGAGTGATGAAAACAAA
66 GTCCCCCCCATTGCCGTGAGTGATGAAAACAAA
43467860 G
1 G
43467861 AAAAAAAAAG
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 31 0.32
99 66 0.68
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (98 bp):
GGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAAAAAAAGAAAAGAAAGGATGTGTGTGATT
GTCCCCCCCATTGCCGTGAGTGATGAAAACAAA
Found at i:43469438 original size:108 final size:108
Alignment explanation
Indices: 43469300--43469514 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
43469290 AAGAGACCTT
*
43469300 GTGAGCAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTGTGAGACGGTGTCAGAATGACTCC
1 GTGAGCAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACTCC
43469365 GAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTAA
66 GAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTAA
43469408 GTGAGCAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACTCC
1 GTGAGCAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACTCC
43469473 GAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTA
66 GAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTA
43469515 CAAAAATGGT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (108 bp):
GTGAGCAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACTCC
GAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTAA
Found at i:43470111 original size:47 final size:47
Alignment explanation
Indices: 43470060--43470395 Score: 492
Period size: 47 Copynumber: 7.1 Consensus size: 47
43470050 TTAGGATTTT
*
43470060 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
43470107 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
43470158 ATCTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
43470205 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
43470252 ATGTGATGAATGTGAACGTGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
43470299 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** * * *
43470346 ATGTGATGAACGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
43470393 ATG
1 ATG
43470396 CGAAACGTGT
Statistics
Matches: 264, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 220 0.83
49 2 0.01
51 42 0.16
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:43470458 original size:46 final size:46
Alignment explanation
Indices: 43470369--43470459 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
43470359 GAACATGAAT
* * * *
43470369 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
43470415 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
43470460 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:43470466 original size:141 final size:140
Alignment explanation
Indices: 43470060--43470444 Score: 369
Period size: 141 Copynumber: 2.7 Consensus size: 140
43470050 TTAGGATTTT
* * ** * * *
43470060 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAACGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAA--
*** * * * * * *
43470125 CGTA-TATATATGTGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAACATGCGTATGTGTGA
63 CG-AGCGGATA--TGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
43470189 TAAGGCCGAATGGCCA
125 TAAGGCCGAATGGCCA
* ** * * *
43470205 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACG
1 ATGTGATGAACGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACG
* * * * **
43470270 TGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65 AGCGGATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
43470335 CCGAATGGCCA
130 CCGAATGGCCA
* * * *
43470346 ATGTGATGAACGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGA
1 ATGTGATGAACGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACGA
* * *
43470410 GATGGATATGTGGTAAAGCCAAATGGCTAATGTGA
66 G-CGGATATGTGATAAAGCCAAATGGCCAATGTGA
43470445 GATATGTACG
Statistics
Matches: 209, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
139 8 0.04
140 25 0.12
141 109 0.52
143 5 0.02
145 62 0.30
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (140 bp):
ATGTGATGAACGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACGA
GCGGATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGC
CGAATGGCCA
Found at i:43470751 original size:37 final size:37
Alignment explanation
Indices: 43470609--43470750 Score: 230
Period size: 37 Copynumber: 3.8 Consensus size: 37
43470599 AATATATTCT
*
43470609 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
43470646 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
43470683 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * * *
43470720 GGGTAAGACCTGATAACTTCATGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
43470751 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:43474416 original size:4 final size:4
Alignment explanation
Indices: 43474407--43474432 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43474397 TAACATATTG
43474407 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
43474433 CGTCCCCAAG
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:43478410 original size:19 final size:20
Alignment explanation
Indices: 43478380--43478419 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
43478370 GGGGTAGGAT
43478380 TCTGTATATCTGAAATTGAA
1 TCTGTATATCTGAAATTGAA
*
43478400 TCTGT-TATCTGAATTTGAA
1 TCTGTATATCTGAAATTGAA
43478419 T
1 T
43478420 TTGTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TCTGTATATCTGAAATTGAA
Found at i:43488903 original size:30 final size:32
Alignment explanation
Indices: 43488841--43488906 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
43488831 AAAAAATAAC
* * *
43488841 AATTCAACTCTTTTTAAAAAGGTTGATAATCA
1 AATTCAACTCTTTTTAAAAAGATTAAGAATCA
*
43488873 AATTCAACT-TTTTTAAAAA-ATTAAGGATCA
1 AATTCAACTCTTTTTAAAAAGATTAAGAATCA
43488903 AATT
1 AATT
43488907 AATAAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 11 0.37
31 10 0.33
32 9 0.30
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (32 bp):
AATTCAACTCTTTTTAAAAAGATTAAGAATCA
Found at i:43490040 original size:15 final size:15
Alignment explanation
Indices: 43490022--43490054 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
43490012 TTTCCTAACA
43490022 TTTATTTTT-TTTATT
1 TTTATTTTTATTT-TT
43490037 TTTATTTTTATTTTT
1 TTTATTTTTATTTTT
43490052 TTT
1 TTT
43490055 CAAGTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTATTTTTATTTTT
Found at i:43494433 original size:17 final size:17
Alignment explanation
Indices: 43494413--43494455 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
43494403 ATCGATTAAT
* *
43494413 TTAATTCATTAATTGAA
1 TTAATTAATTAACTGAA
43494430 TTAATTAATTAACTGAAA
1 TTAATTAATTAACTG-AA
43494448 TT-ATTAAT
1 TTAATTAAT
43494456 AATATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (17 bp):
TTAATTAATTAACTGAA
Found at i:43494493 original size:26 final size:26
Alignment explanation
Indices: 43494457--43494507 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43494447 ATTATTAATA
* *
43494457 ATATATTTATAAGCTTAACATATATT
1 ATATATGTATAAGCTCAACATATATT
*
43494483 ATATATGTATAAGCTCAATATATAT
1 ATATATGTATAAGCTCAACATATAT
43494508 ATTAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (26 bp):
ATATATGTATAAGCTCAACATATATT
Found at i:43494794 original size:16 final size:17
Alignment explanation
Indices: 43494771--43494808 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
43494761 AAAAATGAAA
*
43494771 GAAAAA-ATAAAATATTT
1 GAAAAATATATAAT-TTT
43494788 GAAAAATATATAATTTT
1 GAAAAATATATAATTTT
43494805 GAAA
1 GAAA
43494809 TAACATTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
GAAAAATATATAATTTT
Found at i:43495156 original size:29 final size:30
Alignment explanation
Indices: 43495124--43495180 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
43495114 AGCACAAATA
43495124 AATATAAT-AATTATT-TAACATATATAATT
1 AATATAATGAATTATTATAACATA-ATAATT
*
43495153 AATATAATGAATTTTTATAACATAATAA
1 AATATAATGAATTATTATAACATAATAA
43495181 ATTCGGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (30 bp):
AATATAATGAATTATTATAACATAATAATT
Found at i:43495791 original size:13 final size:13
Alignment explanation
Indices: 43495764--43495793 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
43495754 ATTTAATTCG
43495764 TTTATAATTAATT
1 TTTATAATTAATT
43495777 TTTA-AATTAATT
1 TTTATAATTAATT
43495789 TTTAT
1 TTTAT
43495794 TTTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATAATTAATT
Found at i:43508872 original size:15 final size:15
Alignment explanation
Indices: 43508854--43508888 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
43508844 TTATTGGTTA
43508854 TATTTATTTTT-TATT
1 TATTTATTTTTAT-TT
43508869 TATTTATTTTTATTT
1 TATTTATTTTTATTT
43508884 TATTT
1 TATTT
43508889 CATTCTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTATTTTTATTT
Found at i:43518682 original size:19 final size:19
Alignment explanation
Indices: 43518658--43518699 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
43518648 TTTTAGGACA
43518658 ATTAAAGCTATTGTTGAAC
1 ATTAAAGCTATTGTTGAAC
43518677 ATTAAAGCTATTGTTGAAC
1 ATTAAAGCTATTGTTGAAC
43518696 -TTAA
1 ATTAA
43518700 GATTAGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATTAAAGCTATTGTTGAAC
Found at i:43534016 original size:23 final size:23
Alignment explanation
Indices: 43533987--43534032 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43533977 TTTCTTGGAA
43533987 ATATATACAGGTATGTATGTTTT
1 ATATATACAGGTATGTATGTTTT
43534010 ATATATACAGGTATGTATGTTTT
1 ATATATACAGGTATGTATGTTTT
43534033 CTTTTTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
ATATATACAGGTATGTATGTTTT
Found at i:43547635 original size:18 final size:18
Alignment explanation
Indices: 43547609--43547664 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
43547599 CAATCCCAAC
* *
43547609 TACTATATATGTGAATAG
1 TACTGTATACGTGAATAG
*
43547627 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
43547645 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
43547663 TA
1 TA
43547665 TCGTAAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:43548231 original size:11 final size:11
Alignment explanation
Indices: 43548203--43548256 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
43548193 TTGACCTTTC
43548203 CAAGGTATGGG
1 CAAGGTATGGG
*
43548214 -TAGGTATGGG
1 CAAGGTATGGG
*
43548224 AAAGGTATGGG
1 CAAGGTATGGG
43548235 CAAGGTATGGG
1 CAAGGTATGGG
*
43548246 CAAGGAATGGG
1 CAAGGTATGGG
43548257 TATATTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.19
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:43553101 original size:26 final size:27
Alignment explanation
Indices: 43553072--43553124 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
43553062 TAGGGTTAAG
43553072 ATTTTTAAGATTAGAGCTTTT-AGGTT
1 ATTTTTAAGATTAGAGCTTTTAAGGTT
* * *
43553098 ATTTTTAGGGTTAGAGTTTTTAAGGTT
1 ATTTTTAAGATTAGAGCTTTTAAGGTT
43553125 TTAGTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.51
Consensus pattern (27 bp):
ATTTTTAAGATTAGAGCTTTTAAGGTT
Found at i:43553119 original size:15 final size:14
Alignment explanation
Indices: 43553058--43553124 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 14
43553048 TTGATTGATT
*
43553058 TTTTTAGGGTTAAG
1 TTTTTAAGGTTAAG
*
43553072 ATTTTTAAGATTAGAG
1 -TTTTTAAGGTTA-AG
*
43553088 CTTTT-AGGTT-A-
1 TTTTTAAGGTTAAG
*
43553099 TTTTTAGGGTTAGAG
1 TTTTTAAGGTTA-AG
43553114 TTTTTAAGGTT
1 TTTTTAAGGTT
43553125 TTAGTGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
11 4 0.10
12 5 0.12
14 5 0.12
15 24 0.60
16 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.51
Consensus pattern (14 bp):
TTTTTAAGGTTAAG
Found at i:43559397 original size:47 final size:47
Alignment explanation
Indices: 43559343--43559514 Score: 161
Period size: 47 Copynumber: 3.7 Consensus size: 47
43559333 ACGAAACTTA
43559343 GCCGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCGAG
1 GCCGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCGAG
* * * * * *
43559390 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-ACTCATC-TCTAC
1 GCCGATGCATGTCCCAAACACGTCTTACACTGGCTA-TCATCATCGAG
* * * * * *
43559436 ACCGATGCCATGTCCTAAACATGGTCTTACACTGGTTATCATAAT-GTG
1 GCCGATG-CATGTCCCAAACA-CGTCTTACACTGGCTATCATCATCGAG
* * *
43559484 GCTGATGCATATCCCAGACACGTCTTACACT
1 GCCGATGCATGTCCCAAACACGTCTTACACT
43559515 AGCCCTCGTC
Statistics
Matches: 99, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
46 20 0.20
47 57 0.58
48 20 0.20
49 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCGAG
Found at i:43559492 original size:94 final size:95
Alignment explanation
Indices: 43559344--43559566 Score: 281
Period size: 94 Copynumber: 2.4 Consensus size: 95
43559334 CGAAACTTAG
* * * * *
43559344 CCGATG-CATGTCCCAAACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCTAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGTTATCATAATCGAGGCCGATGCATATCCCAG
* *
43559407 ACATGTCTTACACTAGCACTCATCTCTACA
66 ACACGTCTTACACTAGCACTCATCTCAACA
* * *
43559437 CCGATGCCATGTCCTAAACATGGTCTTACACTGGTTATCATAAT-GTGGCTGATGCATATCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGTTATCATAATCGAGGCCGATGCATATCCCAG
* * *
43559501 ACACGTCTTACACTAGCCCTCGTCTCAATA
66 ACACGTCTTACACTAGCACTCATCTCAACA
* * *
43559531 CCGATGCCATGTCCCAGACATGGTTTTATACTGGTT
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGTT
43559567 CTCACATAAC
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
93 6 0.05
94 85 0.77
95 20 0.18
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (95 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGTTATCATAATCGAGGCCGATGCATATCCCAG
ACACGTCTTACACTAGCACTCATCTCAACA
Found at i:43564789 original size:27 final size:27
Alignment explanation
Indices: 43564759--43564936 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
43564749 ATATTGAGCC
* *
43564759 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
43564786 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43564813 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
43564841 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43564868 CGCACACTTAGTGCGT-CATATTCATTT
1 CGCACACTTAGTGC-TACATAATCAACT
* *
43564895 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
43564922 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43564937 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43564898 original size:82 final size:81
Alignment explanation
Indices: 43564780--43564935 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 81
43564770 TGCTATATAA
* * *
43564780 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
43564845 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* ** * **
43564862 TCAATTCGCACACTTAGTGCGTCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
43564927 ACTTAGTGC
66 ACTTAGTGC
43564936 TGTACAATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43572122 original size:128 final size:128
Alignment explanation
Indices: 43571894--43572128 Score: 470
Period size: 128 Copynumber: 1.8 Consensus size: 128
43571884 TTCCAATCTA
43571894 TATACGATCCATACATGGTCATATTAGGGATTATGACCACATTAATCGGAATTATTACGACAGAG
1 TATACGATCCATACATGGTCATATTAGGGATTATGACCACATTAATCGGAATTATTACGACAGAG
43571959 TTGCACCTTTCCAAACATAAATACCTTCGGAATTTGGCTCGGATGTAACAACCAGCACAAATG
66 TTGCACCTTTCCAAACATAAATACCTTCGGAATTTGGCTCGGATGTAACAACCAGCACAAATG
43572022 TATACGATCCATACATGGTCATATTAGGGATTATGACCACATTAATCGGAATTATTACGACAGAG
1 TATACGATCCATACATGGTCATATTAGGGATTATGACCACATTAATCGGAATTATTACGACAGAG
43572087 TTGCACCTTTCCAAACATAAATACCTTCGGAATTTGGCTCGG
66 TTGCACCTTTCCAAACATAAATACCTTCGGAATTTGGCTCGG
43572129 TTATAATAAC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 107 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (128 bp):
TATACGATCCATACATGGTCATATTAGGGATTATGACCACATTAATCGGAATTATTACGACAGAG
TTGCACCTTTCCAAACATAAATACCTTCGGAATTTGGCTCGGATGTAACAACCAGCACAAATG
Found at i:43572170 original size:40 final size:40
Alignment explanation
Indices: 43572126--43572213 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
43572116 GAATTTGGCT
*
43572126 CGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACC
1 CGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACC
* *
43572166 CGGTTATAGTAACCCGCACGAATGCCTTCGAGACTTAACT
1 CGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACC
43572206 CGGTTATA
1 CGGTTATA
43572214 TTTTTTTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACC
Found at i:43589683 original size:146 final size:146
Alignment explanation
Indices: 43589419--43589709 Score: 521
Period size: 146 Copynumber: 2.0 Consensus size: 146
43589409 GACTACTCTG
* *
43589419 ACCTTCATGCATTACGACTTAGATATCTCCCTGTACAGGGATTCAATACTTATTCCATTTGTTTC
1 ACCTTCATGCATTACGACTTAGATATCTCCCTGTACAGGGATTCAATACTTATGCCATTTATTTC
* *
43589484 TAATGAAACTAGACTCAAAAAGGAATCTGTACATATAAAACATGACTCCTAATTATCTCTGGTTA
66 TAATGAAACTAGACTCAAAAAGAAATCTGTAAATATAAAACATGACTCCTAATTATCTCTGGTTA
43589549 ATTTATGGTGAATTTA
131 ATTTATGGTGAATTTA
*
43589565 ACCTTCATGTATTACGACTTAGATATCTCCCTGTACA-GGACTTCAATACTTATGCCATTTATTT
1 ACCTTCATGCATTACGACTTAGATATCTCCCTGTACAGGGA-TTCAATACTTATGCCATTTATTT
43589629 CTAATGAAACTAGACTCAAAAAGAAATCTGTAAATATAAAACATGACTCCTAATTATCTCTGGTT
65 CTAATGAAACTAGACTCAAAAAGAAATCTGTAAATATAAAACATGACTCCTAATTATCTCTGGTT
43589694 AATTTATGGTGAATTT
130 AATTTATGGTGAATTT
43589710 TCAAAGTCGT
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
145 3 0.02
146 136 0.98
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (146 bp):
ACCTTCATGCATTACGACTTAGATATCTCCCTGTACAGGGATTCAATACTTATGCCATTTATTTC
TAATGAAACTAGACTCAAAAAGAAATCTGTAAATATAAAACATGACTCCTAATTATCTCTGGTTA
ATTTATGGTGAATTTA
Found at i:43603507 original size:26 final size:26
Alignment explanation
Indices: 43603471--43603522 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43603461 TGAAAGAGAA
43603471 GAAAAACATTTTCCTACTTGTCTTTT
1 GAAAAACATTTTCCTACTTGTCTTTT
*
43603497 GAAAAAGATTTTCCTACTTGTCTTTT
1 GAAAAACATTTTCCTACTTGTCTTTT
43603523 ACTCGAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (26 bp):
GAAAAACATTTTCCTACTTGTCTTTT
Found at i:43606879 original size:40 final size:40
Alignment explanation
Indices: 43606688--43606872 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
43606678 TCGAATGATG
* * * *
43606688 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43606728 TCCGGACTAAGAT-CCGAAGGAATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43606768 TTCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43606807 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43606848 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43606873 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43606894 original size:79 final size:79
Alignment explanation
Indices: 43606741--43606895 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
43606731 GGACTAAGAT
** **
43606741 CCGAAGGAATTTGTGCGAGTTACTAATTTCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGAATTTGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAA
43606806 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
43606820 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGAATTTGTGCGAGTTACTAAT-ACCGGGCTAAGT-CCGAAGGCATTGGAACGAGTTA-C
*
43606883 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
43606896 ATTCCAAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGAATTTGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:43608599 original size:16 final size:17
Alignment explanation
Indices: 43608580--43608612 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43608570 TTTTCAAACA
43608580 TAACATT-CAATCTGAT
1 TAACATTACAATCTGAT
*
43608596 TAACATTACAATTTGAT
1 TAACATTACAATCTGAT
43608613 CCATAATACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
TAACATTACAATCTGAT
Found at i:43609478 original size:21 final size:21
Alignment explanation
Indices: 43609452--43609495 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43609442 ATTAACCTTG
43609452 CTTTTTAAATTAAATTTTGTA
1 CTTTTTAAATTAAATTTTGTA
43609473 CTTTTTAAATTAAATTTTGTA
1 CTTTTTAAATTAAATTTTGTA
43609494 CT
1 CT
43609496 AGTCTACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
CTTTTTAAATTAAATTTTGTA
Found at i:43612279 original size:41 final size:41
Alignment explanation
Indices: 43612213--43612335 Score: 173
Period size: 41 Copynumber: 3.0 Consensus size: 41
43612203 AAAATCGAAT
* *
43612213 AGAT-TGAGTATTAGTC-GCGTTTTTAAGAAAGCGCCGCTGA
1 AGATCTGAGCATTAG-CGGCGTTTTTAAGAAAGCGCCGCTAA
43612253 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
43612294 AGATCTGAGCATTAGCGGCGCTTTCTTAA-AAA-CGCCGCTAA
1 AGATCTGAGCATTAGCGGCG-TTT-TTAAGAAAGCGCCGCTAA
43612335 A
1 A
43612336 AGATTAAGCA
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
40 5 0.06
41 62 0.81
42 6 0.08
43 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
Found at i:43613109 original size:22 final size:22
Alignment explanation
Indices: 43613084--43613196 Score: 81
Period size: 22 Copynumber: 5.1 Consensus size: 22
43613074 AAACACCACA
*
43613084 CCTTAAATCTCAAATCATAACC
1 CCTTAAATCTCAAATCATAAAC
* *
43613106 CCTTAAGA-CTAAAAACGATAAA-
1 CCTTAA-ATCTCAAATC-ATAAAC
* * *
43613128 CCTT-AATCCCAACACCTTAAAC
1 CCTTAAATCTCAA-ATCATAAAC
43613150 CC-TAAATCTCAAATCATAAAC
1 CCTTAAATCTCAAATCATAAAC
* * *
43613171 CCTTAAAACTCCAACCTATAAAC
1 CCTTAAATCTCAAATC-ATAAAC
43613194 CCT
1 CCT
43613197 AACACCCAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
20 1 0.01
21 18 0.26
22 37 0.53
23 14 0.20
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (22 bp):
CCTTAAATCTCAAATCATAAAC
Found at i:43613192 original size:65 final size:65
Alignment explanation
Indices: 43613012--43613194 Score: 176
Period size: 65 Copynumber: 2.8 Consensus size: 65
43613002 CCCTTTAACT
* * * *
43613012 CCTAAACCCTAAATCTCTAATCATAAACCCTTAAAACTACAAACACTAATTAA--TTACTCTTTA
1 CCTAAACCCTAAATCTCAAATCATAAACCCTTAAAACT-CAAAC-CT-ATAAACCTTAATC-TCA
43613075 AACA
62 AACA
* * * * * * * *
43613079 CC-ACACCTTAAATCTCAAATCATAACCCCTTAAGACTAAAAACGATAAACCTTAATC-CCAACA
1 CCTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCTATAAACCTTAATCTCAAACA
*
43613142 CCTTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAACCTATAAACC
1 CC-TAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCTATAAACC
43613195 CTAACACCCA
Statistics
Matches: 92, Mismatches: 20, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
63 10 0.11
64 1 0.01
65 49 0.53
66 30 0.33
67 2 0.02
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (65 bp):
CCTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCTATAAACCTTAATCTCAAACA
Found at i:43613194 original size:23 final size:23
Alignment explanation
Indices: 43613084--43613209 Score: 68
Period size: 22 Copynumber: 5.7 Consensus size: 23
43613074 AAACACCACA
* * *
43613084 CCTTAAATCTCAAATC-ATAACC
1 CCTTAAAACTCAAACCTATAAAC
* * * *
43613106 CCTTAAGACTAAAAACGATAAA-
1 CCTTAAAACTCAAACCTATAAAC
* *
43613128 CCTT-AATCCCAACACCT-TAAAC
1 CCTTAAAACTCAA-ACCTATAAAC
* *
43613150 CC-TAAATCTCAAATC-ATAAAC
1 CCTTAAAACTCAAACCTATAAAC
*
43613171 CCTTAAAACTCCAACCTATAAAC
1 CCTTAAAACTCAAACCTATAAAC
* *
43613194 CC-TAACACCCAAACCT
1 CCTTAAAACTCAAACCT
43613210 CAATCCTTAA
Statistics
Matches: 78, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
21 18 0.23
22 48 0.62
23 12 0.15
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (23 bp):
CCTTAAAACTCAAACCTATAAAC
Found at i:43613475 original size:9 final size:9
Alignment explanation
Indices: 43613457--43613518 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
43613447 TTTATATGTT
43613457 AATT-TAAA
1 AATTATAAA
43613465 AATTATAAA
1 AATTATAAA
*
43613474 AATCTTTAAA
1 AAT-TATAAA
*
43613484 AA-AATTAAA
1 AATTA-TAAA
*
43613493 AATTAAAAA
1 AATTATAAA
43613502 AATTA-AAA
1 AATTATAAA
43613510 AATTA-AAA
1 AATTATAAA
43613518 A
1 A
43613519 TTTAATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 16 0.36
9 21 0.47
10 8 0.18
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AATTATAAA
Found at i:43613495 original size:7 final size:8
Alignment explanation
Indices: 43613482--43613523 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
43613472 AAAATCTTTA
43613482 AAAAAATT
1 AAAAAATT
43613490 -AAAAATT
1 AAAAAATT
43613497 AAAAAAATT
1 -AAAAAATT
43613506 AAAAAATT
1 AAAAAATT
*
43613514 AAAAATTT
1 AAAAAATT
43613522 AA
1 AA
43613524 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
9 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAAATT
Found at i:43613503 original size:17 final size:17
Alignment explanation
Indices: 43613479--43613518 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
43613469 ATAAAAATCT
43613479 TTAAAAAAATT-AAAAA
1 TTAAAAAAATTAAAAAA
43613495 TTAAAAAAATTAAAAAA
1 TTAAAAAAATTAAAAAA
43613512 TTAAAAA
1 TTAAAAA
43613519 TTTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TTAAAAAAATTAAAAAA
Found at i:43613523 original size:16 final size:16
Alignment explanation
Indices: 43613457--43613523 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
43613447 TTTATATGTT
*
43613457 AATTTAAAAATTATAAA
1 AATTTAAAAAAT-TAAA
43613474 AATCTTTAAAAAAATTAAA
1 AA--TTT-AAAAAATTAAA
*
43613493 AATTAAAAAAATTAAA
1 AATTTAAAAAATTAAA
* *
43613509 AAATTAAAAATTTAA
1 AATTTAAAAAATTAA
43613524 TATTTAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 23 0.55
17 4 0.10
19 9 0.21
20 6 0.14
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTTAAAAAATTAAA
Found at i:43613528 original size:7 final size:7
Alignment explanation
Indices: 43613518--43613542 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43613508 AAAATTAAAA
43613518 ATTTAAT
1 ATTTAAT
43613525 ATTTAAT
1 ATTTAAT
43613532 ATTTAAT
1 ATTTAAT
43613539 ATTT
1 ATTT
43613543 TAGTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:43613667 original size:17 final size:17
Alignment explanation
Indices: 43613632--43613679 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
43613622 TTTTGGAAGA
*
43613632 AAAAATAAAAAAATGTT
1 AAAAATAAAAAAATATT
43613649 AAAAATGAAAAAAA-ATT
1 AAAAAT-AAAAAAATATT
*
43613666 AAAATTAAATAAAA
1 AAAAATAAA-AAAA
43613680 AGTTTAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 17 0.63
18 7 0.26
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (17 bp):
AAAAATAAAAAAATATT
Found at i:43617675 original size:98 final size:98
Alignment explanation
Indices: 43617558--43617754 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
43617548 ATAAACATAA
43617558 TATAATATTTATCATAGAAAATAAATATTATTTAATTGAAATATATTTTTTAAAGTTTATATTTT
1 TATAATATTTATCATAGAAAATAAATATTATTTAATTGAAATATATTTTTTAAAGTTTATATTTT
43617623 TTAGCGGCGTTTTTAAAAAAGCGTCGCTAAAGG
66 TTAGCGGCGTTTTTAAAAAAGCGTCGCTAAAGG
*
43617656 TATAATATTTATCATAGAAAATAAATATTATTTAATTGAAATATATTTTTTAAAGTTTATGTTTT
1 TATAATATTTATCATAGAAAATAAATATTATTTAATTGAAATATATTTTTTAAAGTTTATATTTT
43617721 TTAGCGGCGTTTTTAAAAAAGCGTCGCTAAAGG
66 TTAGCGGCGTTTTTAAAAAAGCGTCGCTAAAGG
43617754 T
1 T
43617755 CTGTTATATA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (98 bp):
TATAATATTTATCATAGAAAATAAATATTATTTAATTGAAATATATTTTTTAAAGTTTATATTTT
TTAGCGGCGTTTTTAAAAAAGCGTCGCTAAAGG
Found at i:43618148 original size:262 final size:262
Alignment explanation
Indices: 43617683--43618207 Score: 1041
Period size: 262 Copynumber: 2.0 Consensus size: 262
43617673 AAAATAAATA
*
43617683 TTATTTAATTGAAATATATTTTTTAAAGTTTATGTTTTTTAGCGGCGTTTTTAAAAAAGCGTCGC
1 TTATTTAATTGAAATATATTTTTTAAAGTTTATATTTTTTAGCGGCGTTTTTAAAAAAGCGTCGC
43617748 TAAAGGTCTGTTATATACTGGCGTCTTGAAAACAAAGTGCCGTTAAATGTCATGGTCTTTAGCGG
66 TAAAGGTCTGTTATATACTGGCGTCTTGAAAACAAAGTGCCGTTAAATGTCATGGTCTTTAGCGG
43617813 CATTTTCGGTTAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGA
131 CATTTTCGGTTAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGA
43617878 AAAATCCTGGTCTTTAGTGGCGTTTTTAGGCGCCGCTAAAAGTCTGTTTTCCTGTAGTGATTACA
196 AAAATCCTGGTCTTTAGTGGCGTTTTTAGGCGCCGCTAAAAGTCTGTTTTCCTGTAGTGATTACA
43617943 TT
261 TT
43617945 TTATTTAATTGAAATATATTTTTTAAAGTTTATATTTTTTAGCGGCGTTTTTAAAAAAGCGTCGC
1 TTATTTAATTGAAATATATTTTTTAAAGTTTATATTTTTTAGCGGCGTTTTTAAAAAAGCGTCGC
43618010 TAAAGGTCTGTTATATACTGGCGTCTTGAAAACAAAGTGCCGTTAAATGTCATGGTCTTTAGCGG
66 TAAAGGTCTGTTATATACTGGCGTCTTGAAAACAAAGTGCCGTTAAATGTCATGGTCTTTAGCGG
43618075 CATTTTCGGTTAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGA
131 CATTTTCGGTTAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGA
43618140 AAAATCCTGGTCTTTAGTGGCGTTTTTAGGCGCCGCTAAAAGTCTGTTTTCCTGTAGTGATTACA
196 AAAATCCTGGTCTTTAGTGGCGTTTTTAGGCGCCGCTAAAAGTCTGTTTTCCTGTAGTGATTACA
43618205 TT
261 TT
43618207 T
1 T
43618208 CAATATTCAT
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 262 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (262 bp):
TTATTTAATTGAAATATATTTTTTAAAGTTTATATTTTTTAGCGGCGTTTTTAAAAAAGCGTCGC
TAAAGGTCTGTTATATACTGGCGTCTTGAAAACAAAGTGCCGTTAAATGTCATGGTCTTTAGCGG
CATTTTCGGTTAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGA
AAAATCCTGGTCTTTAGTGGCGTTTTTAGGCGCCGCTAAAAGTCTGTTTTCCTGTAGTGATTACA
TT
Found at i:43619278 original size:25 final size:26
Alignment explanation
Indices: 43619250--43619308 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
43619240 GAAGAGAATG
*
43619250 GAAAATAAAGAAAA-AGAAAAGAAAA
1 GAAAATAAAAAAAACAGAAAAGAAAA
* *
43619275 GAAAGTAAAAAAAACATAAAAGAAAA
1 GAAAATAAAAAAAACAGAAAAGAAAA
*
43619301 -AAATTAAA
1 GAAAATAAA
43619309 TTGCTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (26 bp):
GAAAATAAAAAAAACAGAAAAGAAAA
Done.