Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009021.1 Hibiscus syriacus cultivar Beakdansim tig00112411_pilon, whole genome shotgun sequence
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: 1242735
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:889583 original size:13 final size:13
Alignment explanation
Indices: 889565--889589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
889555 AATGCTGTGA
889565 AGCAGGAAAGCAC
1 AGCAGGAAAGCAC
889578 AGCAGGAAAGCA
1 AGCAGGAAAGCA
889590 AAGATGTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.32, T:0.00
Consensus pattern (13 bp):
AGCAGGAAAGCAC
Found at i:897405 original size:19 final size:20
Alignment explanation
Indices: 897381--897431 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
897371 AATGACCAAT
897381 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
897400 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
897420 AAAATCGCAACG
1 AAAATCGCAACG
897432 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:897425 original size:20 final size:20
Alignment explanation
Indices: 897381--897618 Score: 104
Period size: 20 Copynumber: 11.6 Consensus size: 20
897371 AATGACCAAT
* *
897381 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
897400 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
897420 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
897440 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
897460 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
897481 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
897504 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * * *
897524 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
897544 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
897564 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
897587 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
*
897607 AGAATCGCAACG
1 AAAATCGCAACG
897619 TTGAAAATCG
Statistics
Matches: 171, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
19 17 0.10
20 111 0.65
21 14 0.08
23 29 0.17
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:897557 original size:40 final size:42
Alignment explanation
Indices: 897485--897618 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 42
897475 GCTTCCAAGT
*
897485 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAGAAG-AAATCGCAATGCGATTGAGAGAA
* *
897528 TCGCAATGCGA-TT-GATAG-AATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGA-AGAAATCGCAATGCGATTGAGAGAA
*
897568 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAAG-AAATCGCAATGCGATTGAGAGAA
897611 TCGCAACG
1 TCGCAACG
897619 TTGAAAATCG
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
40 30 0.38
41 6 0.08
42 6 0.08
43 38 0.47
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (42 bp):
TCGCAACGCGATTTAGAAGAAATCGCAATGCGATTGAGAGAA
Found at i:897732 original size:6 final size:6
Alignment explanation
Indices: 897721--897927 Score: 414
Period size: 6 Copynumber: 34.5 Consensus size: 6
897711 GACACGTATT
897721 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
897769 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
897817 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
897865 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
897913 ACCACG ACCACG ACC
1 ACCACG ACCACG ACC
897928 CGAGACGAGA
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 201 1.00
ACGTcount: A:0.33, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:898635 original size:6 final size:6
Alignment explanation
Indices: 898618--898661 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
898608 TCTCGTCTCG
898618 GGTCGT -GTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
898662 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GGTCGT
Found at i:898764 original size:20 final size:20
Alignment explanation
Indices: 898739--898782 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
898729 TTTTTAACTA
*
898739 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
898759 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
898779 TTCT
1 TTCT
898783 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:898815 original size:40 final size:40
Alignment explanation
Indices: 898771--899001 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
898761 CTTTTTAACG
* *
898771 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
898811 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
898851 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * * *
898891 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCG
1 TTGCGATTCTCTAAATCGCATTGCGA--TTC-TCTCAATCGCA
* * * *
898934 TTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* **
898974 TTGCGATTCTATCGATCGCATTGCGATT
1 TTGCGATTCTCTAAATCGCATTGCGATT
899002 TTCTTCTAAA
Statistics
Matches: 171, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 133 0.78
41 3 0.02
42 3 0.02
43 32 0.19
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (40 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:898973 original size:83 final size:83
Alignment explanation
Indices: 898769--899022 Score: 336
Period size: 83 Copynumber: 3.1 Consensus size: 83
898759 TTCTTTTTAA
* * * * * *
898769 CGTTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTAAATCGCGTTG
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTG
*
898834 CGA--TTC-TCTCAATCG
66 CGATTTTCTTCTAAATCG
* * *
898849 CATTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTG
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTG
898914 CGATTTTCTTCTAAATCG
66 CGATTTTCTTCTAAATCG
* * * * *
898932 CGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATC-GATCGCATT
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTCAG-TCGCATT
898996 GCGATTTTCTTCTAAATCG
65 GCGATTTTCTTCTAAATCG
899015 CGTTGCGA
1 CGTTGCGA
899023 ACTTGGAAGC
Statistics
Matches: 152, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 59 0.39
82 4 0.03
83 89 0.59
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (83 bp):
CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTG
CGATTTTCTTCTAAATCG
Found at i:899116 original size:19 final size:20
Alignment explanation
Indices: 898769--899126 Score: 227
Period size: 20 Copynumber: 17.6 Consensus size: 20
898759 TTCTTTTTAA
898769 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
898789 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
*
898809 CATTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
898829 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
898849 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
898869 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
898889 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
898909 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
898932 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
898952 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * **
898972 CATTGCGATTCTATCGATCG
1 CGTTGCGATTTTCTAAATCG
*
898992 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** * *
899015 CGTTGCGAACTTGGAAGCTTG
1 CGTTGCGATTTTCTAA-ATCG
* *
899036 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
899054 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
899076 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
*
899096 CGTTGCGATTTT-TATATCG
1 CGTTGCGATTTTCTAAATCG
899115 CGTTGCGATTTT
1 CGTTGCGATTTT
899127 ATTGGTCATT
Statistics
Matches: 276, Mismatches: 51, Indels: 23
0.79 0.15 0.07
Matches are distributed among these distances:
18 3 0.01
19 18 0.07
20 209 0.76
21 13 0.05
22 6 0.02
23 27 0.10
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:900326 original size:15 final size:15
Alignment explanation
Indices: 900301--900372 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
900291 TGGTTTTCCA
900301 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
900316 GAATTTGAATTACTG
1 GAAAATGAATTACTG
900331 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
900346 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
900360 GAAAATGAATTAC
1 GAAAATGAATTAC
900373 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.25
15 36 0.75
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:900370 original size:29 final size:30
Alignment explanation
Indices: 900301--900372 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
900291 TGGTTTTCCA
900301 GAAAATGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
900331 GAAAATGAATTACTGGAATTTGAATT-CTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
900360 GAAAATGAATTAC
1 GAAAATGAATTAC
900373 ATTTCTGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (30 bp):
GAAAATGAATTACTGGAATTTGAATTACTG
Found at i:900378 original size:20 final size:20
Alignment explanation
Indices: 900355--900424 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
900345 GGAATTTGAA
900355 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
900375 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
900395 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
900415 TTCTGGAAAA
1 TTCTGGAAAA
900425 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:900645 original size:28 final size:26
Alignment explanation
Indices: 900591--900654 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
900581 TTTACTAAAA
* *
900591 TATTATTGAAATATATAATAATATTAT
1 TATTATT-AAATATATAAAAAAATTAT
900618 TCATTATTAAATATATAAAAAAATTTAT
1 T-ATTATTAAATATATAAAAAAA-TTAT
900646 TATATATTA
1 TAT-TATTA
900655 TTAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TATTATTAAATATATAAAAAAATTAT
Found at i:900727 original size:21 final size:22
Alignment explanation
Indices: 900701--900775 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
900691 TTGATTATTT
900701 TATATAATATTAAAAATA-TAA
1 TATATAATATTAAAAATATTAA
* *
900722 TATATATTATTATAAATATTAA
1 TATATAATATTAAAAATATTAA
* * * *
900744 TAAAT-ATTTTAAATATTTTAA
1 TATATAATATTAAAAATATTAA
900765 TA-ATTAATATT
1 TATA-TAATATT
900776 TTGATGAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 30 0.71
22 11 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATAATATTAAAAATATTAA
Found at i:900742 original size:12 final size:10
Alignment explanation
Indices: 900706--900760 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 10
900696 TATTTTATAT
900706 AATATTAA-A
1 AATATTAATA
900715 AATA-TAATA
1 AATATTAATA
*
900724 TATATTATTATA
1 AATATTA--ATA
900736 AATATTAATA
1 AATATTAATA
*
900746 AATATT-TTA
1 AATATTAATA
900755 AATATT
1 AATATT
900761 TTAATAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 3 0.08
9 16 0.41
10 11 0.28
12 9 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AATATTAATA
Found at i:900999 original size:42 final size:42
Alignment explanation
Indices: 900947--901066 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
900937 ATGAATTACA
*
900947 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
900989 TTCCGAAAAACGGATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
901031 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
901067 TTCGGGGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:904516 original size:14 final size:13
Alignment explanation
Indices: 904488--904540 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
904478 TAAACTTAAA
904488 TTTTTAAAAATAT
1 TTTTTAAAAATAT
*
904501 TTTTTCAAAATCAT
1 TTTTTAAAAAT-AT
** * *
904515 TTTTGGATAATAC
1 TTTTTAAAAATAT
904528 TTTTTAAAAATAT
1 TTTTTAAAAATAT
904541 CCTAAATTAC
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (13 bp):
TTTTTAAAAATAT
Found at i:904888 original size:28 final size:28
Alignment explanation
Indices: 904848--904909 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
904838 TAAGGGTCCG
* *
904848 AACAATTGATAAGTGAAAATAACGACCA
1 AACAATCGATAAGTGAAAACAACGACCA
904876 AACAATCGATAAGTGAAAACAACGACCA
1 AACAATCGATAAGTGAAAACAACGACCA
904904 AACAAT
1 AACAAT
904910 AGAAAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.55, C:0.18, G:0.13, T:0.15
Consensus pattern (28 bp):
AACAATCGATAAGTGAAAACAACGACCA
Found at i:904919 original size:24 final size:26
Alignment explanation
Indices: 904848--904920 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 26
904838 TAAGGGTCCG
* *
904848 AACAATTGATAAGTGAAAATAACGACCA
1 AACAATAGATAA--GAAAACAACGACCA
*
904876 AACAATCGATAAGTGAAAACAACGACCA
1 AACAATAGATAA--GAAAACAACGACCA
904904 AACAATAGA-AA-AAAACA
1 AACAATAGATAAGAAAACA
904921 TGCCAAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 6 0.14
27 2 0.05
28 34 0.81
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (26 bp):
AACAATAGATAAGAAAACAACGACCA
Found at i:904940 original size:22 final size:23
Alignment explanation
Indices: 904915--904972 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
904905 ACAATAGAAA
904915 AAAACATGCCA-AAAGACATAGG
1 AAAACATGCCATAAAGACATAGG
** * *
904937 AAAATGTGTCATAAAGACATATG
1 AAAACATGCCATAAAGACATAGG
* *
904960 AAAATATGGCATA
1 AAAACATGCCATA
904973 CAAGTAGACT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (23 bp):
AAAACATGCCATAAAGACATAGG
Found at i:904972 original size:23 final size:23
Alignment explanation
Indices: 904926--904972 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
904916 AAACATGCCA
* *
904926 AAAGACATAGGAAAATGTGTCAT
1 AAAGACATAGGAAAATATGGCAT
*
904949 AAAGACATATGAAAATATGGCAT
1 AAAGACATAGGAAAATATGGCAT
904972 A
1 A
904973 CAAGTAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (23 bp):
AAAGACATAGGAAAATATGGCAT
Found at i:905596 original size:63 final size:63
Alignment explanation
Indices: 905528--905647 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
905518 TAATAATATC
* *
905528 TTTTAATTTAAAATATTCTAAA-GATA-AAGTTACCTTTTACTATTCAAACTTAAATAGATATTA
1 TTTTAATTTAAAATATTCAAAAGGATATAA-TTACC-TTTAATATTCAAACTTAAATAGATATTA
* * *
905591 TTTTAATTTGAAATATTCAAAAGGATATAATTATCTTTAATATTCAAAGTTAAATAG
1 TTTTAATTTAAAATATTCAAAAGGATATAATTACCTTTAATATTCAAACTTAAATAG
905648 GTAGAAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 40 0.80
64 8 0.16
65 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTTAATTTAAAATATTCAAAAGGATATAATTACCTTTAATATTCAAACTTAAATAGATATTA
Found at i:906397 original size:21 final size:21
Alignment explanation
Indices: 906343--906402 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
906333 CTCTTTTTCC
*
906343 AATAAATAAAA-AACAAAAGAT
1 AATAAA-AAAATAACAAAAGAA
* * *
906364 AATAAAGATATAACATAAGAA
1 AATAAAAAAATAACAAAAGAA
*
906385 AATAAAAAAATAATAAAA
1 AATAAAAAAATAACAAAA
906403 AATACTAACA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (21 bp):
AATAAAAAAATAACAAAAGAA
Found at i:910072 original size:12 final size:13
Alignment explanation
Indices: 910042--910074 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
910032 CTCCGTCGCT
*
910042 GCAATGATCAGTT
1 GCAATGATCAGTG
910055 GCAATGATCA-TG
1 GCAATGATCAGTG
910067 GCAATGAT
1 GCAATGAT
910075 TCAAATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (13 bp):
GCAATGATCAGTG
Found at i:922702 original size:12 final size:12
Alignment explanation
Indices: 922676--922745 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
922666 TATATATGAC
* *
922676 CTGAATTCTATT
1 CTGATTTCTGTT
*
922688 CTGATTTCTGAT
1 CTGATTTCTGTT
922700 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
922712 CTGATATATGTT
1 CTGATTTCTGTT
922724 CTGAATTT-TGTT
1 CTG-ATTTCTGTT
*
922736 TTGATTTCTG
1 CTGATTTCTG
922746 ATATCTCCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
11 6 0.13
12 35 0.76
13 5 0.11
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:922726 original size:24 final size:24
Alignment explanation
Indices: 922654--922740 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 24
922644 ATTTCCGACT
* *
922654 TGAATTATGTTCT-ATATATGACC
1 TGAATTCTGTTCTGATATATGATC
* * *
922677 TGAATTCTATTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATATGATC
* *
922701 TGGATTCTGTTCTGATATATGTTC
1 TGAATTCTGTTCTGATATATGATC
* *
922725 TGAATTTTGTTTTGAT
1 TGAATTCTGTTCTGAT
922741 TTCTGATATC
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 11 0.22
24 39 0.78
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATATGATC
Found at i:924883 original size:15 final size:15
Alignment explanation
Indices: 924859--924893 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
924849 CGAGGGTACT
*
924859 GTAGTTCTTCGGGAA
1 GTAGTCCTTCGGGAA
*
924874 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAA
924889 GTAGT
1 GTAGT
924894 GGTCCTACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (15 bp):
GTAGTCCTTCGGGAA
Found at i:925505 original size:15 final size:15
Alignment explanation
Indices: 925485--925524 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
925475 GTTTTTCTTT
925485 AAAAGTCAAATTTTG
1 AAAAGTCAAATTTTG
925500 AAAAGTCAAATTTTG
1 AAAAGTCAAATTTTG
925515 AAAAGTCAAA
1 AAAAGTCAAA
925525 GTGACACCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAAGTCAAATTTTG
Found at i:926940 original size:25 final size:25
Alignment explanation
Indices: 926864--926940 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
926854 AAGCTAATAA
926864 ACTGCATCTTGTTTATGCCACAGCT
1 ACTGCATCTTGTTTATGCCACAGCT
* * * **
926889 ACTACAT-TT-TTACATAGCTA-ATAT
1 ACTGCATCTTGTT-TAT-GCCACAGCT
926913 ACTGCATCTTGTTTATGCCACAGCT
1 ACTGCATCTTGTTTATGCCACAGCT
926938 ACT
1 ACT
926941 ATTGTTTCTA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
23 2 0.05
24 15 0.41
25 18 0.49
26 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (25 bp):
ACTGCATCTTGTTTATGCCACAGCT
Found at i:936545 original size:20 final size:20
Alignment explanation
Indices: 936520--936559 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
936510 ATCTTATTTC
936520 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
936540 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
936560 AAATAATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:940306 original size:20 final size:20
Alignment explanation
Indices: 940281--940318 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
940271 CACATGTTAA
940281 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
940301 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
940319 TCAATGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:941135 original size:31 final size:31
Alignment explanation
Indices: 941097--941161 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
941087 AGAGTCGAGG
*
941097 GTTTACCTATG-TCTCTCGAGACATATGGACA
1 GTTTACCTAGGTTCT-TCGAGACATATGGACA
*
941128 GTTTACCTAGGTTCTTCGAGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
941159 GTT
1 GTT
941162 GTCGAGGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:941172 original size:30 final size:30
Alignment explanation
Indices: 941112--941191 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
941102 CCTATGTCTC
* *
941112 TCGAGACATATGGACAGTTTACCTAGGTTCT
1 TCGAGACCTATGGACAGTTTA-CGAGGTTCT
941143 TCGAGACCTATGGACAGTTGT-CGAGGTTCT
1 TCGAGACCTATGGACAGTT-TACGAGGTTCT
* * * *
941173 TTGTGACCTCTGGATAGTT
1 TCGAGACCTATGGACAGTT
941192 ATCGGGGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.55
31 18 0.43
32 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (30 bp):
TCGAGACCTATGGACAGTTTACGAGGTTCT
Found at i:941203 original size:29 final size:30
Alignment explanation
Indices: 941147--941218 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
941137 GGTTCTTCGA
* * * *
941147 GACCTATGGACAGTTGTCGAGGTTCTTTGT
1 GACCTCTGGATAGTTATCGAGGGTCTTTGT
941177 GACCTCTGGATAGTTATCG-GGGTCTTTGT
1 GACCTCTGGATAGTTATCGAGGGTCTTTGT
941206 GACCTCTGGATAG
1 GACCTCTGGATAG
941219 GTCATTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.35
Consensus pattern (30 bp):
GACCTCTGGATAGTTATCGAGGGTCTTTGT
Found at i:946807 original size:186 final size:186
Alignment explanation
Indices: 946605--946967 Score: 597
Period size: 187 Copynumber: 2.0 Consensus size: 186
946595 AAATTAAATG
* *
946605 TTTTTAATT-CAAAAAA-AGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
1 TTTTTAATTAAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
946668 AGATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAA
66 AGAT-AATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAA
* *
946733 TTTAGTTTTAAATTG-TTTGGGCTTAGCCCAAATGTTATATATAATATATATTTAATAT
130 TTGAGTTTTAAA-TGATTTGGGCTGAG-CCAAATGTTATATATAATATATATTTAATAT
*
946791 TTTTTAATTAAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTT
1 TTTTTAATTAAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
* *
946856 ATATAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
66 AGATAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAAT
* *
946921 TGGGTTTTAAATGATTTGGGCTGAGCCATATGTTATATATAATATAT
131 TGAGTTTTAAATGATTTGGGCTGAGCCAAATGTTATATATAATATAT
946968 TTAAAATTTA
Statistics
Matches: 165, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
186 32 0.19
187 85 0.52
188 48 0.29
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.46
Consensus pattern (186 bp):
TTTTTAATTAAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
AGATAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAAT
TGAGTTTTAAATGATTTGGGCTGAGCCAAATGTTATATATAATATATATTTAATAT
Found at i:954307 original size:18 final size:18
Alignment explanation
Indices: 954252--954311 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
954242 CGAAACCGGT
* *
954252 TTTTTCGGTTTGGTTCGG
1 TTTTTCGATTCGGTTCGG
** *
954270 TTTTTTTA-ACGGTTCAGG
1 TTTTTCGATTCGGTTC-GG
954288 TTTTTCGATTCGGTTCGG
1 TTTTTCGATTCGGTTCGG
954306 TTTTTC
1 TTTTTC
954312 CGTTTTTCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 5 0.16
18 21 0.66
19 6 0.19
ACGTcount: A:0.07, C:0.13, G:0.25, T:0.55
Consensus pattern (18 bp):
TTTTTCGATTCGGTTCGG
Found at i:973520 original size:24 final size:24
Alignment explanation
Indices: 973493--973546 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
973483 GTATTTGAAA
973493 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
973517 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
973541 TTTGAT
1 TTTGAT
973547 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:975993 original size:19 final size:20
Alignment explanation
Indices: 975921--976007 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
975911 CAACGCGTAA
975921 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
** *
975941 ATCGCAACATGAAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
975961 ATCGCAATGCGGAACTGACT
1 ATCGCAACGCGGAAATGACT
975981 ATCG-AACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
976000 ATCGCAAC
1 ATCGCAAC
976008 AAGAGAATCG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 17 0.31
20 36 0.65
21 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:976253 original size:14 final size:14
Alignment explanation
Indices: 976234--976288 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
976224 CATTTTCGCA
976234 TTGCGATTCACTCG
1 TTGCGATTCACTCG
*
976248 TTGCGATTTTCATTTCG
1 TTGCGA--TTCA-CTCG
976265 CATTGCGATTCACTCG
1 --TTGCGATTCACTCG
976281 TTGCGATT
1 TTGCGATT
976289 TCATTTCGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.42
Consensus pattern (14 bp):
TTGCGATTCACTCG
Found at i:976269 original size:33 final size:33
Alignment explanation
Indices: 976212--976326 Score: 173
Period size: 33 Copynumber: 3.5 Consensus size: 33
976202 ATTAGTTTCG
976212 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
976246 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
*
976279 CGTTGCGA-TTTCATTTCGCA-T-CGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
**
976309 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
976327 CGCGATAGTC
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
30 16 0.21
31 8 0.10
32 12 0.16
33 27 0.35
34 14 0.18
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:976453 original size:14 final size:14
Alignment explanation
Indices: 976434--976470 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
976424 CATCAATTAA
976434 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
976448 ACAAATCATCTTTT
1 ACAAATCAACATTT
976462 ACAAATCAA
1 ACAAATCAA
976471 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:977049 original size:20 final size:20
Alignment explanation
Indices: 977024--977065 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
977014 CTTTAATCAT
977024 ATCTCTCAAATCAGACAATG
1 ATCTCTCAAATCAGACAATG
977044 ATCTCTCAAATCAGACAATG
1 ATCTCTCAAATCAGACAATG
977064 AT
1 AT
977066 ATATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (20 bp):
ATCTCTCAAATCAGACAATG
Found at i:977938 original size:42 final size:42
Alignment explanation
Indices: 977859--977940 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
977849 CCTCTTCAAC
* * *
977859 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* *
977901 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGA
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGA
977941 ACGATAACAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:978450 original size:20 final size:20
Alignment explanation
Indices: 978427--978513 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
978417 GAAACTTAAA
978427 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
978447 ATCGCAATGTGAAAATGACT
1 ATCGCAATGCGAAAATGACT
978467 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
978487 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
978507 ATCGCAA
1 ATCGCAA
978514 CGAGAGAATC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:978579 original size:34 final size:36
Alignment explanation
Indices: 978540--978627 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
978530 CGATTTTCAT
* *
978540 TTCGCATTGGGAT-TC-TCTCATTGCGATAGTCAAA
1 TTCGCATTGCGATATCATCGCATTGCGATAGTCAAA
978574 TTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAA
1 TTCGCATTGCGATA-TC--A-TCGCATTGCGATAGTCAAA
978614 TTCGCATTGCGATA
1 TTCGCATTGCGATA
978628 GTCCTTTTCG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
34 12 0.26
36 2 0.04
40 32 0.70
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (36 bp):
TTCGCATTGCGATATCATCGCATTGCGATAGTCAAA
Found at i:978583 original size:20 final size:20
Alignment explanation
Indices: 978558--978646 Score: 151
Period size: 20 Copynumber: 4.5 Consensus size: 20
978548 GGGATTCTCT
978558 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
978578 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
978598 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
***
978618 CATTGCGATAGTCCTTTTCG
1 CATTGCGATAGTCAAATTCG
978638 CATTGCGAT
1 CATTGCGAT
978647 TCTCTCGTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (20 bp):
CATTGCGATAGTCAAATTCG
Found at i:980581 original size:20 final size:20
Alignment explanation
Indices: 980558--980612 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
980548 CTGAAACTTT
980558 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
980578 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
980598 CTATCGCAACGCGAA
1 AAATCGCAACACGAA
980613 TTTGACTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:980618 original size:20 final size:20
Alignment explanation
Indices: 980560--980629 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
980550 GAAACTTTAA
* **
980560 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
980580 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
980600 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
980620 ATCGTAACGC
1 ATCGCAACGC
980630 AAGAATCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:980716 original size:20 final size:20
Alignment explanation
Indices: 980671--980719 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
980661 GCGATTCTCT
980671 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
* *
980691 CATTGCGATAGTC-ATTTTCG
1 CGTTGCGATAGTCAAATTT-G
980711 CGTTGCGAT
1 CGTTGCGAT
980720 TCACTCGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:981112 original size:22 final size:22
Alignment explanation
Indices: 981051--981112 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
981041 TGACCGTGAA
* *
981051 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
981073 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
981091 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
981113 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:981332 original size:20 final size:20
Alignment explanation
Indices: 981309--981349 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
981299 CGATAGTCAG
981309 ATTCACATTGCGATTTACGT
1 ATTCACATTGCGATTTACGT
*
981329 ATTCGCATTGCGATTTACGT
1 ATTCACATTGCGATTTACGT
981349 A
1 A
981350 AAATCGCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
ATTCACATTGCGATTTACGT
Found at i:986056 original size:3 final size:3
Alignment explanation
Indices: 986048--986118 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
986038 TTTTTATCCA
*
986048 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
986096 TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
986119 ATTTATATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:998907 original size:5 final size:5
Alignment explanation
Indices: 998897--998980 Score: 66
Period size: 5 Copynumber: 16.6 Consensus size: 5
998887 GCTTGAAGAA
* *
998897 AAAAG AAAAG AAAAG AAAAG -AAAG AAAA- AAAAA AAAAG AAAAAG AAAAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG -AAAAG
* * *
998947 AAATAG AAAAT AGAA- AAAAG AGAAG AAAAAG AAA
1 AAA-AG AAAAG AAAAG AAAAG AAAAG -AAAAG AAA
998981 GGGGGTCAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
4 11 0.17
5 36 0.55
6 18 0.28
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:998956 original size:18 final size:17
Alignment explanation
Indices: 998895--998980 Score: 95
Period size: 18 Copynumber: 4.9 Consensus size: 17
998885 ATGCTTGAAG
998895 AAAAAAG-AAAAG-AAA
1 AAAAAAGAAAAAGAAAA
* *
998910 AGAAAAGAAAGAAAAAAA
1 AAAAAAGAAA-AAGAAAA
998928 AAAAAAGAAAAAGAAAA
1 AAAAAAGAAAAAGAAAA
998945 AAAAATAGAAAATAGAAAA
1 AAAAA-AGAAAA-AGAAAA
*
998964 AAGAGAAGAAAAAGAAA
1 AA-AAAAGAAAAAGAAA
998981 GGGGGTCAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
15 6 0.10
16 2 0.03
17 13 0.22
18 23 0.38
19 14 0.23
20 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAAA
Found at i:1000348 original size:50 final size:50
Alignment explanation
Indices: 1000197--1000337 Score: 282
Period size: 50 Copynumber: 2.8 Consensus size: 50
1000187 TGAATTTGCC
1000197 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000247 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000297 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1000338 GTTTGGCAGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:1000422 original size:183 final size:183
Alignment explanation
Indices: 1000114--1001201 Score: 2160
Period size: 183 Copynumber: 6.0 Consensus size: 183
1000104 TGAATTTGCC
1000114 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1000179 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1000244 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000297 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1000362 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1000427 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000480 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1000545 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1000610 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000663 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
*
1000728 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTAGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1000793 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000846 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1000911 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1000976 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1001029 AATAGCATC-TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1001093 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
66 TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1001158 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
131 CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1001202 GTTTGGCAGA
Statistics
Matches: 903, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
182 164 0.18
183 739 0.82
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (183 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
TTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:1000531 original size:50 final size:50
Alignment explanation
Indices: 1000380--1000520 Score: 282
Period size: 50 Copynumber: 2.8 Consensus size: 50
1000370 TGAATTTGCC
1000380 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000430 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000480 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1000521 GTTTGGCAGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:1000714 original size:50 final size:50
Alignment explanation
Indices: 1000563--1000703 Score: 282
Period size: 50 Copynumber: 2.8 Consensus size: 50
1000553 TGAATTTGCC
1000563 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000613 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000663 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1000704 GTTTGGCAGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:1000897 original size:50 final size:50
Alignment explanation
Indices: 1000746--1000886 Score: 273
Period size: 50 Copynumber: 2.8 Consensus size: 50
1000736 TGAATTTGCC
*
1000746 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000796 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000846 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1000887 GTTTGGCAGA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 90 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:1001079 original size:49 final size:50
Alignment explanation
Indices: 1000929--1001068 Score: 273
Period size: 50 Copynumber: 2.8 Consensus size: 50
1000919 TGAATTTGCC
1000929 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1000979 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1001029 AATAGCATC-TCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1001069 GTTTGGCAGA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
49 31 0.34
50 59 0.66
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:1001234 original size:133 final size:133
Alignment explanation
Indices: 1000979--1001417 Score: 835
Period size: 133 Copynumber: 3.3 Consensus size: 133
1000969 GATTAGACAG
1000979 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATC-TCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1001043 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
1001108 GCC
131 GCC
1001111 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
*
1001176 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAAAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
1001241 GCC
131 GCC
*
1001244 AATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1001309 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
**
1001374 GTT
131 GCC
1001377 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1001418 GTTTGGTAAG
Statistics
Matches: 300, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
132 59 0.20
133 241 0.80
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (133 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
GCC
Found at i:1002253 original size:113 final size:113
Alignment explanation
Indices: 1002054--1002827 Score: 1426
Period size: 113 Copynumber: 6.8 Consensus size: 113
1002044 TTAGCAAAGA
1002054 TGAATCCATCATTTGGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TGAATCCATCATTT-GGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1002119 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
1002168 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1002233 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
1002281 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1002346 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
1002394 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1002459 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
*
1002507 TGAATCCATCATTTGGTGGATCATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
*
1002572 GAAGGAAGAAGAAGTTCATAATGAGAAGATTTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
1002620 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
1002685 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
* * * * *
1002733 TGAATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGA
1002797 AGAAGGAAG-AGAAAGTTCATAATGAGAAGAA
65 AGAAGGAAGAAG-AAGTTCATAATGAGAAGAA
1002828 CTCATCAAGA
Statistics
Matches: 647, Mismatches: 11, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
112 3 0.00
113 630 0.97
114 14 0.02
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
Found at i:1003085 original size:3 final size:3
Alignment explanation
Indices: 1003077--1003156 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
1003067 TTTTTATCCA
*
1003077 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1003125 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1003157 ATTTATATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1008816 original size:63 final size:66
Alignment explanation
Indices: 1008717--1008845 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 66
1008707 TTAATGCAAT
*
1008717 TTTTTAAAAGAAAATATTTCGACATAAAACAAATTATGTCAAT-A-GCATTT-AAAAAAAATCAA
1 TTTTTAAAAGAAAATATTCCGACATAAAACAAATTATGTCAATAAGGCATTTAAAAAAAAATCAA
1008779 C
66 C
1008780 TTTTTAAAAGAAAATATTCCGACATAAAACAAATTATGTCAATAAGGCATTTAAAAAAAAATCAA
1 TTTTTAAAAGAAAATATTCCGACATAAAACAAATTATGTCAATAAGGCATTTAAAAAAAAATCAA
1008845 C
66 C
1008846 ATTATCATCA
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
63 42 0.68
64 1 0.02
65 6 0.10
66 13 0.21
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.29
Consensus pattern (66 bp):
TTTTTAAAAGAAAATATTCCGACATAAAACAAATTATGTCAATAAGGCATTTAAAAAAAAATCAA
C
Found at i:1008870 original size:17 final size:17
Alignment explanation
Indices: 1008848--1008880 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1008838 AAATCAACAT
1008848 TATCAT-CATAATATTAG
1 TATCATCCATAA-ATTAG
1008865 TATCATCCATAAATTA
1 TATCATCCATAAATTA
1008881 CTTAGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
TATCATCCATAAATTAG
Found at i:1013806 original size:3 final size:3
Alignment explanation
Indices: 1013798--1013822 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1013788 GATTGAATGA
1013798 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1013823 GACTTAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1014730 original size:30 final size:30
Alignment explanation
Indices: 1014694--1014754 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
1014684 GGGATTAAAT
1014694 TGAAATTTTAACTAAATTCATGGACCAAAG
1 TGAAATTTTAACTAAATTCATGGACCAAAG
*
1014724 TGAAATTTTAACTAAATTCATGGACTAAAG
1 TGAAATTTTAACTAAATTCATGGACCAAAG
1014754 T
1 T
1014755 AAAAATTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (30 bp):
TGAAATTTTAACTAAATTCATGGACCAAAG
Found at i:1014770 original size:30 final size:30
Alignment explanation
Indices: 1014700--1014771 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
1014690 AAATTGAAAT
* *
1014700 TTTAACTAAATTCATGGACCAAAGTGAAAT
1 TTTAACTAAATTCATGGACCAAAGTAAAAA
*
1014730 TTTAACTAAATTCATGGACTAAAGTAAAAA
1 TTTAACTAAATTCATGGACCAAAGTAAAAA
* *
1014760 TTTGATTAAATT
1 TTTAACTAAATT
1014772 TGGATCCAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (30 bp):
TTTAACTAAATTCATGGACCAAAGTAAAAA
Found at i:1019670 original size:15 final size:15
Alignment explanation
Indices: 1019637--1019670 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1019627 TATATTTATT
* *
1019637 TATTATTGTTATTAT
1 TATTATTGTTAATAA
1019652 TATTATTGTTAATAA
1 TATTATTGTTAATAA
1019667 TATT
1 TATT
1019671 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTGTTAATAA
Found at i:1021058 original size:17 final size:17
Alignment explanation
Indices: 1021036--1021083 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1021026 TTTTGGTCTT
1021036 TTTTATTTATTTATTTA
1 TTTTATTTATTTATTTA
1021053 TTTTA-TTACTTTATTTA
1 TTTTATTTA-TTTATTTA
*
1021070 TTATTATTTTTTTA
1 TT-TTATTTATTTA
1021084 CTAACTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 3 0.11
17 15 0.56
18 7 0.26
19 2 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTATTTATTTA
Found at i:1021169 original size:21 final size:20
Alignment explanation
Indices: 1021107--1021170 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
1021097 TTCTTTGTTA
1021107 TTTATT-ATATTTATTTTTC
1 TTTATTAATATTTATTTTTC
1021126 TTATATTAATATTT-TTTTTC
1 TT-TATTAATATTTATTTTTC
* *
1021146 TTTTTTCATATTTATTTTTAC
1 TTTATTAATATTTATTTTT-C
1021167 TTTA
1 TTTA
1021171 CAATCTAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.29
20 17 0.45
21 10 0.26
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTAATATTTATTTTTC
Found at i:1025048 original size:105 final size:105
Alignment explanation
Indices: 1024899--1025737 Score: 1435
Period size: 105 Copynumber: 8.0 Consensus size: 105
1024889 GGGTCGCTCA
1024899 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
*
1024964 AGAGCCAATTTCAACTTCATAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1025004 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
*
1025069 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1025109 AGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
*
1025174 AGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * *
1025214 AGACAACGTAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACATTTCTCAATTTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1025279 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1025319 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCCCAATTT
**
1025384 CAGAGCCAATTTCGTCTTCACAACGAAGGATATTGGACTCC
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1025425 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1025490 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
1025530 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1025595 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
1025635 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCCCAATTT
** *
1025700 CAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGAC
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
1025738 CTGGAACAAT
Statistics
Matches: 697, Mismatches: 35, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
105 553 0.79
106 144 0.21
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:1025523 original size:316 final size:316
Alignment explanation
Indices: 1024899--1025737 Score: 1491
Period size: 316 Copynumber: 2.7 Consensus size: 316
1024889 GGGTCGCTCA
* * *
1024899 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
*
1024964 AGAGCCAATTTCAACTTCATAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
1025029 CGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCCCAATTTCAGAGCCAATTTCGACTTCACAACG
131 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCGACTTCACAACG
*
1025093 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTGTCAATA
196 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTGTCAACA
*
1025158 AACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCC
261 AACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1025214 AGACAACGTAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACATTTCTCAATTTT
1 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1025279 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
1025344 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCCCAATTTCAGAGCCAATTTCGTCTTCACAACG
131 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCGACTTCACAACG
* *
1025409 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
196 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTGTCAACA
*
1025474 AACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
261 AACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1025530 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
*
1025595 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * **
1025660 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACGGCG
131 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCGACTTCACAACG
*
1025725 GAGGATATTGGAC
196 AAGGATATTGGAC
1025738 CTGGAACAAT
Statistics
Matches: 499, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
315 150 0.30
316 349 0.70
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (316 bp):
AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCGACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTGTCAACA
AACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:1025981 original size:83 final size:83
Alignment explanation
Indices: 1025842--1026046 Score: 275
Period size: 83 Copynumber: 2.4 Consensus size: 83
1025832 AACTTCACGA
*
1025842 AGAAGGGATATCTGCCAACAAAAACCTTCGAGTTCGACCACGCTCAGCTCAAAGGCACATCATTT
1 AGAAGGGATATCTGCCAACAAAGACCTTCGAGTTCGACCACGCTCAGCTCAAAGGCACATCATTT
* * * * *
1025907 GCAGCATAGCTTAAGTCG
66 ACAACATAACTCAAGGCG
* * *
1025925 AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGATATCTGCCAACAAAGACCTTCGAGTTCGACCACGCTCAGCTCAAAGGCACATCATTT
*
1025990 ACAACATAACTCAAGGCT
66 ACAACATAACTCAAGGCG
* * *
1026008 AGAAGGGTTATCTGTCAACTAAAGACCTGACGAGTTCGA
1 AGAAGGGATATCTGCCAAC-AAAGACCT-TCGAGTTCGA
1026047 TTTCATTCAG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
83 90 0.84
84 8 0.07
85 9 0.08
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (83 bp):
AGAAGGGATATCTGCCAACAAAGACCTTCGAGTTCGACCACGCTCAGCTCAAAGGCACATCATTT
ACAACATAACTCAAGGCG
Found at i:1026328 original size:15 final size:15
Alignment explanation
Indices: 1026295--1026328 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1026285 TATATTTATT
* *
1026295 TATTATTGTTATTAT
1 TATTATTGTTAATAA
1026310 TATTATTGTTAATAA
1 TATTATTGTTAATAA
1026325 TATT
1 TATT
1026329 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTGTTAATAA
Found at i:1027716 original size:17 final size:17
Alignment explanation
Indices: 1027694--1027731 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
1027684 TTTTGGTCTT
1027694 TTTTATTTA-TTTATTTA
1 TTTTA-TTACTTTATTTA
1027711 TTTTATTACTTTATTTA
1 TTTTATTACTTTATTTA
1027728 TTTT
1 TTTT
1027732 TTTTTACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTACTTTATTTA
Found at i:1027823 original size:21 final size:20
Alignment explanation
Indices: 1027761--1027824 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
1027751 TTCTTTGTTA
1027761 TTTATT-ATATTTATTTTTC
1 TTTATTAATATTTATTTTTC
1027780 TTATATTAATATTT-TTTTTC
1 TT-TATTAATATTTATTTTTC
* *
1027800 TTTTTTCATATTTATTTTTAC
1 TTTATTAATATTTATTTTT-C
1027821 TTTA
1 TTTA
1027825 CAATCTAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.29
20 17 0.45
21 10 0.26
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTAATATTTATTTTTC
Found at i:1048037 original size:2 final size:2
Alignment explanation
Indices: 1048030--1048058 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1048020 TGAAAGCATA
1048030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1048059 ACATTAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1060475 original size:31 final size:31
Alignment explanation
Indices: 1060408--1060467 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1060398 CAATTTAAGG
*
1060408 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
1060439 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
1060468 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:1060565 original size:19 final size:19
Alignment explanation
Indices: 1060543--1060581 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1060533 GAATAGTATT
1060543 TTACTATTTGAACAATAAA
1 TTACTATTTGAACAATAAA
*
1060562 TTACTATTTGAACAGTAAA
1 TTACTATTTGAACAATAAA
1060581 T
1 T
1060582 CACTGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (19 bp):
TTACTATTTGAACAATAAA
Found at i:1060594 original size:19 final size:19
Alignment explanation
Indices: 1060545--1060597 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
1060535 ATAGTATTTT
* * *
1060545 ACTATTTGAACAATAAATT
1 ACTATTTAAACAGTAAATC
*
1060564 ACTATTTGAACAGTAAATC
1 ACTATTTAAACAGTAAATC
*
1060583 ACTGTTTAAACAGTA
1 ACTATTTAAACAGTA
1060598 TCCCGACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (19 bp):
ACTATTTAAACAGTAAATC
Found at i:1064046 original size:23 final size:22
Alignment explanation
Indices: 1064014--1064093 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
1064004 GAAGAAGAAA
* *
1064014 AAGAAGAAGAAAGGGGTTTATGG
1 AAGAAAAAGAAA-GAGTTTATGG
*
1064037 AAGAAAAAGAAATGAGTTTATAG
1 AAGAAAAAGAAA-GAGTTTATGG
*
1064060 AAGAAGAAACAAAGAGTTTATGG
1 AAGAA-AAAGAAAGAGTTTATGG
*
1064083 AAGAAGAAGAA
1 AAGAAAAAGAA
1064094 TGGTAAATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 4 0.08
23 38 0.79
24 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.29, T:0.16
Consensus pattern (22 bp):
AAGAAAAAGAAAGAGTTTATGG
Found at i:1074909 original size:21 final size:21
Alignment explanation
Indices: 1074860--1074910 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1074850 ATAATTTGCA
*
1074860 ACGATTTCCCAAATTCGCATT
1 ACGATTTTCCAAATTCGCATT
*
1074881 ACGATTTTCCAAATTCGCGTT
1 ACGATTTTCCAAATTCGCATT
*
1074902 GCGATTTTC
1 ACGATTTTC
1074911 ATAGCGTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (21 bp):
ACGATTTTCCAAATTCGCATT
Found at i:1075546 original size:20 final size:20
Alignment explanation
Indices: 1075493--1075569 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
1075483 GCGATTCTCT
* *
1075493 CGTTGTGATTTTAATTT-CG
1 CGTTGCGATTTTCATTTCCG
**
1075512 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
*
1075532 CGTTGCGATTTTCA-TTCTCT
1 CGTTGCGATTTTCATTTC-CG
1075552 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1075570 AACCAAAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 16 0.33
20 29 0.60
21 3 0.06
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:1075567 original size:40 final size:39
Alignment explanation
Indices: 1075493--1075569 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
1075483 GCGATTCTCT
*
1075493 CGTTGTGATTTTAATTTCGCGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTAATTTCGCGTTGCGATAGTCATTTCCG
* * **
1075532 CGTTGCGATTTTCATTCTCTCGTTGCGATTTTCATTTC
1 CGTTGCGATTTTAATT-TCGCGTTGCGATAGTCATTTC
1075570 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 14 0.44
40 18 0.56
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (39 bp):
CGTTGCGATTTTAATTTCGCGTTGCGATAGTCATTTCCG
Found at i:1077473 original size:94 final size:93
Alignment explanation
Indices: 1077260--1077633 Score: 580
Period size: 94 Copynumber: 4.1 Consensus size: 93
1077250 TAGATTGCTT
* * *
1077260 AGTAAATTTATTCGGTTGCTGCCAATACTGTTAAACTGCT-TA----TTAACAATGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTG-TGTATTCTTTAACACTGTGAAGTTAG
*
1077320 TATTTGTCTTT-TGTTGTCTTTTGGTTGA
65 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
* *
1077348 AGTAAATTTATTCGATTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1077413 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
1077442 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1077507 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * *
1077536 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1077601 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
1077629 AGTAA
1 AGTAA
1077634 TACAATCCAT
Statistics
Matches: 267, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
87 1 0.00
88 37 0.14
92 27 0.10
93 21 0.08
94 181 0.68
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:1077773 original size:20 final size:20
Alignment explanation
Indices: 1077750--1077787 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1077740 CGAGAGAATG
1077750 AAAATCACAACGCGAAACCA
1 AAAATCACAACGCGAAACCA
*
1077770 AAAATCGCAACGCGAAAC
1 AAAATCACAACGCGAAAC
1077788 TATAATCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAATCACAACGCGAAACCA
Found at i:1077902 original size:39 final size:38
Alignment explanation
Indices: 1077796--1077902 Score: 134
Period size: 39 Copynumber: 2.9 Consensus size: 38
1077786 ACTATAATCG
*
1077796 CGTTGCGATTTTCATTTCGCATTGC---G--ATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATGTCATTCTCT
* *
1077829 CGTTGCGATTTTCGTTTCGCGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGA-TGTCATTCTCT
1077868 CGTTGCGATTTTCATTTCGCGTTGCGATAGTCATT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT-GTCATT
1077903 TTTCACGCTG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
33 23 0.37
38 1 0.02
39 38 0.61
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (38 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATGTCATTCTCT
Found at i:1077903 original size:19 final size:19
Alignment explanation
Indices: 1077793--1077895 Score: 126
Period size: 19 Copynumber: 5.6 Consensus size: 19
1077783 GAAACTATAA
1077793 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1077812 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1077826 TCTCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTCATT
1077845 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1077864 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1077884 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1077896 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
14 9 0.13
16 3 0.04
17 3 0.04
19 38 0.54
20 18 0.25
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1078396 original size:21 final size:21
Alignment explanation
Indices: 1078372--1078438 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1078362 TCATTCCTCG
1078372 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1078393 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1078414 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1078435 AGAG
1 AGAG
1078439 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1078396 original size:42 final size:42
Alignment explanation
Indices: 1078320--1078438 Score: 102
Period size: 42 Copynumber: 2.8 Consensus size: 42
1078310 GACTCGCCTG
* * * *
1078320 TCATCCCTC-AAGA-GTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCAT-CCTCGAAGAGGTCC-CTCCCACCATTCAAGAGGCCACTA
* *
1078362 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCA-TCCTCGAAGAGGT-CCCTCCCACCATTCAAGAGGCCACTA
* *
1078404 TCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAG
1078439 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.06
42 54 0.86
43 5 0.08
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAGGCCACTA
Found at i:1081463 original size:24 final size:24
Alignment explanation
Indices: 1081429--1081482 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1081419 CTGAAAAATC
1081429 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1081453 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1081477 ATCAAA
1 ATCAAA
1081483 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1081496 original size:24 final size:24
Alignment explanation
Indices: 1081429--1081496 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1081419 CTGAAAAATC
* * *
1081429 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1081453 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1081477 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1081497 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1082761 original size:16 final size:17
Alignment explanation
Indices: 1082726--1082761 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1082716 TAAATTACAA
1082726 TAAAACCTCAAAATTCC
1 TAAAACCTCAAAATTCC
*
1082743 TAAAATCTCAAAA-TCC
1 TAAAACCTCAAAATTCC
1082759 TAA
1 TAA
1082762 CACTAACCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAACCTCAAAATTCC
Found at i:1085394 original size:30 final size:30
Alignment explanation
Indices: 1085358--1085414 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
1085348 ATTCCACTAG
1085358 TATTGAATGTTGGTAATGACTCAATATTCC
1 TATTGAATGTTGGTAATGACTCAATATTCC
1085388 TATTGAATGTTGGTAATGACTCAATAT
1 TATTGAATGTTGGTAATGACTCAATAT
1085415 CCCAATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (30 bp):
TATTGAATGTTGGTAATGACTCAATATTCC
Found at i:1085947 original size:68 final size:71
Alignment explanation
Indices: 1085834--1085989 Score: 255
Period size: 68 Copynumber: 2.2 Consensus size: 71
1085824 TATAATAACG
*
1085834 CAACTTAATATTTTAACTAACTAATTAATTGGATTGATTAATAATATTATAAAAATTAAAATAAA
1 CAACTTAATATTTTAACTAACT-ATTAATTGGATTAATTAATAATATTATAAAAATTAAAATAAA
1085899 ATTATAT
65 ATTATAT
1085906 CAACTTAATATTTTAACT-A-T-TTAATTGGATTAATTAATAATATTATAAAAATTAAAATAAAA
1 CAACTTAATATTTTAACTAACTATTAATTGGATTAATTAATAATATTATAAAAATTAAAATAAAA
1085968 TTATAT
66 TTATAT
* *
1085974 CAAATTAAAATTTTAA
1 CAACTTAATATTTTAA
1085990 TATAATAGAA
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
68 61 0.75
70 1 0.01
71 1 0.01
72 18 0.22
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (71 bp):
CAACTTAATATTTTAACTAACTATTAATTGGATTAATTAATAATATTATAAAAATTAAAATAAAA
TTATAT
Found at i:1085970 original size:20 final size:21
Alignment explanation
Indices: 1085941--1085984 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1085931 TGGATTAATT
*
1085941 AATAATATTATA-AAAATTAA
1 AATAAAATTATATAAAATTAA
*
1085961 AATAAAATTATATCAAATTAA
1 AATAAAATTATATAAAATTAA
1085982 AAT
1 AAT
1085985 TTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAAAATTATATAAAATTAA
Found at i:1086598 original size:29 final size:29
Alignment explanation
Indices: 1086556--1086662 Score: 171
Period size: 29 Copynumber: 3.7 Consensus size: 29
1086546 TAGTGACAGC
**
1086556 ATAGGTCGCCATGCATTCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1086585 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
*
1086614 ATAGGTCGCCATGCACGCCCGACGTCC-T
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1086642 ATAAGGTCGCCATGCACGCCC
1 AT-AGGTCGCCATGCACGCCC
1086663 ATCGTCCTAT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
28 3 0.04
29 71 0.96
ACGTcount: A:0.17, C:0.37, G:0.25, T:0.21
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:1086681 original size:29 final size:28
Alignment explanation
Indices: 1086558--1086675 Score: 132
Period size: 29 Copynumber: 4.1 Consensus size: 28
1086548 GTGACAGCAT
** *
1086558 AGGTCGCCATGCATTCCCGGCGTCCT-TA
1 AGGTCGCCATGCACGCCC-ACGTCCTATA
*
1086586 TAGGTCGCCATGCACGCCCGGCGTCCT-TA
1 -AGGTCGCCATGCACGCCC-ACGTCCTATA
1086615 TAGGTCGCCATGCACGCCCGACGTCCTATA
1 -AGGTCGCCATGCACGCCC-ACGTCCTATA
1086645 AGGTCGCCATGCACGCCCATCGTCCTATA
1 AGGTCGCCATGCACGCCCA-CGTCCTATA
1086674 AG
1 AG
1086676 CACGCCCGGC
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
28 1 0.01
29 81 0.96
30 2 0.02
ACGTcount: A:0.18, C:0.36, G:0.25, T:0.21
Consensus pattern (28 bp):
AGGTCGCCATGCACGCCCACGTCCTATA
Found at i:1086734 original size:45 final size:45
Alignment explanation
Indices: 1086675--1086766 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
1086665 CGTCCTATAA
*
1086675 GCACGCCCGGCGTCCATCATTCTTTGCCCTCTGCTTTGGTTCTTT
1 GCACGCCCGACGTCCATCATTCTTTGCCCTCTGCTTTGGTTCTTT
1086720 GCACGCCCGACGTCCATCATTCTTTGCCCTCTGCTTTGGTTCTTT
1 GCACGCCCGACGTCCATCATTCTTTGCCCTCTGCTTTGGTTCTTT
1086765 GC
1 GC
1086767 CCGCTGTTGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.08, C:0.36, G:0.20, T:0.37
Consensus pattern (45 bp):
GCACGCCCGACGTCCATCATTCTTTGCCCTCTGCTTTGGTTCTTT
Found at i:1087031 original size:28 final size:29
Alignment explanation
Indices: 1086967--1087070 Score: 156
Period size: 29 Copynumber: 3.6 Consensus size: 29
1086957 GTTTCCATGG
1086967 CCGGCGACATGGTAGGTCGCCATGGAGTC
1 CCGGCGACATGGTAGGTCGCCATGGAGTC
* * *
1086996 CCGACGACATGGTAGGTCTCGA-GGAGTC
1 CCGGCGACATGGTAGGTCGCCATGGAGTC
1087024 CCGGCGACATGGTAGGTCGCCATGGAGTC
1 CCGGCGACATGGTAGGTCGCCATGGAGTC
* *
1087053 CTGTCGACATGGTAGGTC
1 CCGGCGACATGGTAGGTC
1087071 TACATCATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 25 0.38
29 41 0.62
ACGTcount: A:0.18, C:0.26, G:0.37, T:0.19
Consensus pattern (29 bp):
CCGGCGACATGGTAGGTCGCCATGGAGTC
Found at i:1087599 original size:21 final size:21
Alignment explanation
Indices: 1087574--1087617 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1087564 AATCTAGTTA
1087574 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1087595 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1087616 AT
1 AT
1087618 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1088035 original size:17 final size:17
Alignment explanation
Indices: 1088013--1088047 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1088003 ACGTGAGTAA
1088013 TTTATTATTTT-TTGTTG
1 TTTATT-TTTTGTTGTTG
1088030 TTTATTTTTTGTTGTTG
1 TTTATTTTTTGTTGTTG
1088047 T
1 T
1088048 GTATGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTGTTGTTG
Found at i:1088036 original size:14 final size:14
Alignment explanation
Indices: 1088017--1088045 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1088007 GAGTAATTTA
1088017 TTATTTTTTGTTGT
1 TTATTTTTTGTTGT
1088031 TTATTTTTTGTTGT
1 TTATTTTTTGTTGT
1088045 T
1 T
1088046 GTGTATGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (14 bp):
TTATTTTTTGTTGT
Found at i:1088443 original size:26 final size:25
Alignment explanation
Indices: 1088414--1088478 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
1088404 AAATCATATT
*
1088414 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* *
1088440 ATTAGATT-AATAATAATTATTAAATC
1 ATT--ATTAAATAATAAATATCAAATC
1088466 ATTATT-AATAATA
1 ATTATTAAATAATA
1088479 TTAGTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
26 18 0.53
27 3 0.09
28 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:1089205 original size:60 final size:60
Alignment explanation
Indices: 1089134--1089643 Score: 724
Period size: 60 Copynumber: 8.7 Consensus size: 60
1089124 GTATTTATAA
* *
1089134 GATTTAGTAATAATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * *
1089194 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
1089254 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * * *
1089314 GA-TTAGTAAT-AAT-GAAATTAT--TATTAATTTTTAATGA-TT--TG-----ATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGATAGTAAT
1089363 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * *
1089423 GATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1089483 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
1089543 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * *
1089603 GATTTAGTAATGATTTGATAGTAATG-ATTTATTATAAATAT
1 GATTTAGTAATGATTAG-TAATAATGAAATTATTATTAATAT
1089644 GTCGAATTTG
Statistics
Matches: 405, Mismatches: 29, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
49 10 0.02
50 8 0.02
51 2 0.00
52 7 0.02
53 10 0.02
54 5 0.01
55 5 0.01
56 10 0.02
57 6 0.01
58 2 0.00
59 8 0.02
60 325 0.80
61 7 0.02
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:1089380 original size:21 final size:20
Alignment explanation
Indices: 1089356--1089564 Score: 85
Period size: 21 Copynumber: 10.4 Consensus size: 20
1089346 AATGATTTGA
1089356 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
1089377 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
1089395 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
*
1089416 TAGTAATGATTTAATAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* *
1089437 TAGTAATA-AT-GAAATTG-T
1 TAGTAATATTTAGTAA-TGAT
* * * * *
1089455 TATTAATATTTAATGATTTAA
1 TAGTAATATTTAGT-AATGAT
1089476 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
1089497 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
1089515 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
1089536 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
1089557 TAGTAATA
1 TAGTAATA
1089565 ATGAAATTAT
Statistics
Matches: 132, Mismatches: 38, Indels: 37
0.64 0.18 0.18
Matches are distributed among these distances:
18 36 0.27
19 8 0.06
20 11 0.08
21 54 0.41
22 23 0.17
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:1089425 original size:169 final size:173
Alignment explanation
Indices: 1089137--1089643 Score: 790
Period size: 169 Copynumber: 2.9 Consensus size: 173
1089127 TTTATAAGAT
* *
1089137 TTAGTAATAATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
* *
1089202 AATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAATTAATGATTTAGTAATGA
66 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
*
1089267 TTAGTAATAATGAAATTATTATTAATTTTTAATG-AT-T-TGA
131 TTAGTAATAATGAAATTATTATTAATATTTAATGTATATATGA
*
1089307 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGT
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
* *
1089371 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAATAATGA
66 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
*
1089436 TTAGTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAATGA
131 TTAGTAATAATGAAATTATTATTAATATTTAATG---T-ATA-T-ATGA
1089485 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAG
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAG
1089550 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
65 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
* * * *
1089615 ATTTGATAGTAATG-ATTTATTATAAATAT
130 ATTAG-TAATAATGAAATTATTATTAATAT
1089644 GTCGAATTTG
Statistics
Matches: 308, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
169 154 0.50
174 2 0.01
176 1 0.00
178 3 0.01
180 141 0.46
181 7 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (173 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
TTAGTAATAATGAAATTATTATTAATATTTAATGTATATATGA
Found at i:1089484 original size:14 final size:14
Alignment explanation
Indices: 1089465--1089633 Score: 59
Period size: 14 Copynumber: 11.7 Consensus size: 14
1089455 TATTAATATT
1089465 TAATGATTTAATAG
1 TAATGATTTAATAG
1089479 TAATGA-TT--TAG
1 TAATGATTTAATAG
1089490 TAATGATTAGTAATAATG
1 TAATGATT--TAAT-A-G
* * *
1089508 AAATTATTATTAATATT
1 TAATGA-T-TTAATA-G
*
1089525 TAATGATTTGATAG
1 TAATGATTTAATAG
1089539 TAATGA-TT--TAG
1 TAATGATTTAATAG
1089550 TAATGATTAGTAATAATG
1 TAATGATT--TAAT-A-G
* * *
1089568 AAATTATTATTAATATT
1 TAATGA-T-TTAATA-G
* *
1089585 TAATGATTTGATAT
1 TAATGATTTAATAG
1089599 TAATGA-TT--TAG
1 TAATGATTTAATAG
*
1089610 TAATGATTTGATAG
1 TAATGATTTAATAG
1089624 TAATGATTTA
1 TAATGATTTA
1089634 TTATAAATAT
Statistics
Matches: 119, Mismatches: 15, Indels: 42
0.68 0.09 0.24
Matches are distributed among these distances:
11 26 0.22
12 4 0.03
13 6 0.05
14 33 0.28
15 10 0.08
16 4 0.03
17 14 0.12
18 18 0.15
19 2 0.02
20 2 0.02
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (14 bp):
TAATGATTTAATAG
Found at i:1089492 original size:11 final size:10
Alignment explanation
Indices: 1089476--1089563 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 10
1089466 AATGATTTAA
1089476 TAGTAATGATT
1 TAGTAATGA-T
1089487 TAGTAATGAT
1 TAGTAATGAT
*
1089497 TAGTAAT-AA
1 TAGTAATGAT
* *
1089506 T-GAAATTAT
1 TAGTAATGAT
*
1089515 TATTAAT-AT
1 TAGTAATGAT
1089524 T--TAATGATTT
1 TAGTAATGA--T
1089534 GATAGTAATGATT
1 --TAGTAATGA-T
1089547 TAGTAATGAT
1 TAGTAATGAT
1089557 TAGTAAT
1 TAGTAAT
1089564 AATGAAATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
7 4 0.06
8 5 0.08
9 7 0.11
10 20 0.32
11 18 0.29
12 1 0.02
13 2 0.03
14 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:1089494 original size:25 final size:24
Alignment explanation
Indices: 1089465--1089633 Score: 70
Period size: 25 Copynumber: 7.0 Consensus size: 24
1089455 TATTAATATT
1089465 TAATGATTTAATAGTAATGATTTAG
1 TAATGA-TTAATAGTAATGATTTAG
* * *
1089490 TAATGATTAGTAATAATGAAATTA-
1 TAATGATTAATAGTAATG-ATTTAG
*
1089514 T--T-ATTAATATTTAATGATTTGATAG
1 TAATGATTAATA-GTAATGA-TT--TAG
*
1089539 TAATGATT--TAGTAATGATTAGTAA
1 TAATGATTAATAGTAATGATT--TAG
* *
1089563 TAATGAAATTATTATTAAT-A-TT--
1 TAATG--ATTAATAGTAATGATTTAG
* *
1089585 TAATGATTTGATATTAATGATTTAG
1 TAATGA-TTAATAGTAATGATTTAG
*
1089610 TAATGATTTGATAGTAATGATTTA
1 TAATGA-TTAATAGTAATGATTTA
1089634 TTATAAATAT
Statistics
Matches: 112, Mismatches: 14, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
20 1 0.01
21 16 0.14
22 13 0.12
23 2 0.02
24 23 0.21
25 40 0.36
26 6 0.05
27 2 0.02
28 9 0.08
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
TAATGATTAATAGTAATGATTTAG
Found at i:1089529 original size:229 final size:235
Alignment explanation
Indices: 1089134--1089643 Score: 784
Period size: 229 Copynumber: 2.2 Consensus size: 235
1089124 GTATTTATAA
* *
1089134 GATTTAGTAATAATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
* *
1089199 AGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAATTAATGATTTAGTAA
66 AATAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAAGTAATGATTTAGTAA
*
1089264 TGATTAGTAATAATGAAATTATTATTAAT-TTTTA-A-TGAT-T-TGA-TAGTAATGATTAGTAA
131 TGATTAGTAATAATGAAATTATTATTAATATTTAAGATTGATATATGATTAGTAATGATTAGTAA
*
1089323 TAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
196 TAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1089363 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
* *
1089428 AATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTT-AATAGTAATGATTTAGTA
66 AATAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAA-AGTAATGATTTAGTA
1089492 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGAT
130 ATGATTAGTAATAATGAAATTATTATTAATATTTAA-GA-TTGATA-T-ATGA-TTAGTAATGAT
*
1089557 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
190 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * *
1089603 GATTTAGTAATGATTTGATAGTAATG-ATTTATTATAAATAT
1 GATTTAGTAATGATTAG-TAATAATGAAATTATTATTAATAT
1089644 GTCGAATTTG
Statistics
Matches: 255, Mismatches: 13, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
228 2 0.01
229 150 0.59
230 4 0.02
232 1 0.00
234 4 0.02
236 1 0.00
238 3 0.01
240 83 0.33
241 7 0.03
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.46
Consensus pattern (235 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
AATAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAAGTAATGATTTAGTAA
TGATTAGTAATAATGAAATTATTATTAATATTTAAGATTGATATATGATTAGTAATGATTAGTAA
TAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:1091787 original size:15 final size:16
Alignment explanation
Indices: 1091767--1091800 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1091757 CAAAAAAATT
1091767 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
1091782 TAATATAATAAACTTA
1 TAATATAATAAACTTA
1091798 TAA
1 TAA
1091801 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:1091887 original size:30 final size:30
Alignment explanation
Indices: 1091853--1091958 Score: 133
Period size: 30 Copynumber: 3.5 Consensus size: 30
1091843 TTTCTTTAAA
*
1091853 CAACTAATAAACTATTCTTTAATATATCTT
1 CAACTAATAAACTATTCTTTAATATAACTT
1091883 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* * *
1091913 AAACTAATAAAATATTTTTTAATTATAA-TT
1 CAACTAATAAACTATTCTTTAA-TATAACTT
*
1091943 CACTACTAAAAAACTA
1 CA--ACTAATAAACTA
1091959 ATTAACTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 51 0.77
31 5 0.08
32 10 0.15
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:1092358 original size:27 final size:27
Alignment explanation
Indices: 1092320--1092374 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
1092310 AGGGTCGGCT
1092320 GCCAGGCACCAATAATTGAAGAATCAC
1 GCCAGGCACCAATAATTGAAGAATCAC
*
1092347 GCCATGCACCAATAATTGAAGAATCAC
1 GCCAGGCACCAATAATTGAAGAATCAC
1092374 G
1 G
1092375 AGCCGTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.16
Consensus pattern (27 bp):
GCCAGGCACCAATAATTGAAGAATCAC
Found at i:1092568 original size:28 final size:28
Alignment explanation
Indices: 1092532--1092627 Score: 75
Period size: 29 Copynumber: 3.4 Consensus size: 28
1092522 GTCGCGAGCA
* * * *
1092532 GGCGAGCATGCAGCAGGGGATGTCGCCG
1 GGCGTGCATGCAACAGAGGAGGTCGCCG
**
1092560 GGCGTGCATGGCAACCTAGGAGGTCGCCG
1 GGCGTGCAT-GCAACAGAGGAGGTCGCCG
* ** *
1092589 GGCGTGCATGGCGACCTAGGAGGTCGCTG
1 GGCGTGCAT-GCAACAGAGGAGGTCGCCG
*
1092618 GGAGTGCATG
1 GGCGTGCATG
1092628 GCGACCTATG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 9 0.16
29 49 0.84
ACGTcount: A:0.17, C:0.24, G:0.45, T:0.15
Consensus pattern (28 bp):
GGCGTGCATGCAACAGAGGAGGTCGCCG
Found at i:1092590 original size:29 final size:29
Alignment explanation
Indices: 1092553--1092635 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
1092543 AGCAGGGGAT
*
1092553 GTCGCCGGGCGTGCATGGCAACCTAGGAG
1 GTCGCCGGGCGTGCATGGCGACCTAGGAG
1092582 GTCGCCGGGCGTGCATGGCGACCTAGGAG
1 GTCGCCGGGCGTGCATGGCGACCTAGGAG
* *
1092611 GTCGCTGGGAGTGCATGGCGACCTA
1 GTCGCCGGGCGTGCATGGCGACCTA
1092636 TGGTTGGGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.16, C:0.27, G:0.42, T:0.16
Consensus pattern (29 bp):
GTCGCCGGGCGTGCATGGCGACCTAGGAG
Found at i:1096795 original size:83 final size:83
Alignment explanation
Indices: 1096543--1096803 Score: 324
Period size: 85 Copynumber: 3.1 Consensus size: 83
1096533 TACCATGCGG
* * * * * *** *
1096543 TTGATATGTCATCGAGCTGAATGGAATCAAACTCGATAGTTTTGTTGACAGATAGATTTTCTCGA
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGA-AGGTTTGTTGACAGATAGCCCTTCTCGC
* *
1096608 CTTAAGTTATGCTGTAAAT
65 CTTAAGCTATGATGTAAAT
* * * *
1096627 TTGATATGCCCTTAAGATGAATGTAATCGAACTCGAAGGTTTTGGTTGACAAATAGCCCTTCTCG
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGG-TTT-GTTGACAGATAGCCCTTCTCG
* *
1096692 CCTTGAGCTATGTTGTAAAT
64 CCTTAAGCTATGATGTAAAT
*
1096712 TTGATATGTCCTTGAGCTGAATGTAATTGAACTCGAAGGTTTGTTGACAGATAGCCCTTCTCGCC
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATAGCCCTTCTCGCC
*
1096777 TTTAGCTATGATGTAAAT
66 TTAAGCTATGATGTAAAT
1096795 TTGATATGT
1 TTGATATGT
1096804 ATTTGAACTC
Statistics
Matches: 152, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
83 49 0.32
84 35 0.23
85 68 0.45
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (83 bp):
TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATAGCCCTTCTCGCC
TTAAGCTATGATGTAAAT
Found at i:1096841 original size:68 final size:68
Alignment explanation
Indices: 1096732--1096863 Score: 201
Period size: 68 Copynumber: 1.9 Consensus size: 68
1096722 CTTGAGCTGA
* * * * *
1096732 ATGTAATTGAACTCGAAGGTTTGTTGACAGATAGCCCTTCTCGCCTTTAGCTATGATGTAAATTT
1 ATGTAATTGAACTCGAAGGTTTATTGACAGACAGACATTCTCGCCTTGAGCTATGATGTAAATTT
1096797 GAT
66 GAT
* *
1096800 ATGTATTTGAACTCGAAGGTTTATTGACAGACAGACATTCTCGCCTTGAGCTATGCTGTAAATT
1 ATGTAATTGAACTCGAAGGTTTATTGACAGACAGACATTCTCGCCTTGAGCTATGATGTAAATT
1096864 CGGTTGCCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (68 bp):
ATGTAATTGAACTCGAAGGTTTATTGACAGACAGACATTCTCGCCTTGAGCTATGATGTAAATTT
GAT
Done.