Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 56 of 93
Found at i:7056621 original size:22 final size:21
Alignment explanation
Indices: 7056575--7056667 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 21
7056565 TACAATTAAG
* * *
7056575 TTATCAATGATTTACTGTGACA
1 TTATTAATGATTTACTAT-AAA
**
7056597 TTATTGGTGATTTACTACTAAA
1 TTATTAATGATTTACTA-TAAA
* * *
7056619 TTATCAATAATTTATTATTAAA
1 TTATTAATGATTTACTA-TAAA
*
7056641 TTATTAATGATTTACTATATA
1 TTATTAATGATTTACTATAAA
7056662 TTATTA
1 TTATTA
7056668 TGCATTTGCT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
21 9 0.16
22 45 0.82
23 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (21 bp):
TTATTAATGATTTACTATAAA
Found at i:7056657 original size:44 final size:44
Alignment explanation
Indices: 7056501--7056655 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
7056491 TACTATGAAG
* * *
7056501 TTATT-AATAATTAACTAATTTACAATTAAATTATCATTAATTTA
1 TTATTAAATTATTAA-TGATTTACAATTAAATTATCAATAATTTA
* * * * * * *
7056545 TAACTAAATTATCATTTATTTACAATTAAGTTATCAATGATTTA
1 TTATTAAATTATTAATGATTTACAATTAAATTATCAATAATTTA
* * * * ** * *
7056589 CTGTGACATTATTGGTGATTTACTACTAAATTATCAATAATTTA
1 TTATTAAATTATTAATGATTTACAATTAAATTATCAATAATTTA
7056633 TTATTAAATTATTAATGATTTAC
1 TTATTAAATTATTAATGATTTAC
7056656 TATATATTAT
Statistics
Matches: 81, Mismatches: 29, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
44 75 0.93
45 6 0.07
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (44 bp):
TTATTAAATTATTAATGATTTACAATTAAATTATCAATAATTTA
Found at i:7056696 original size:22 final size:20
Alignment explanation
Indices: 7056581--7056701 Score: 62
Period size: 22 Copynumber: 5.6 Consensus size: 20
7056571 TAAGTTATCA
* *
7056581 ATGATTTACTGTGACATTATT
1 ATGATTTACTAT-ATATTATT
* * *
7056602 GGTGATTTACTACTAAATTATCA
1 -ATGATTTACTA-TATATTAT-T
* * *
7056625 ATAATTTATTATTAAATTATT
1 ATGATTTACTA-TATATTATT
7056646 AATGATTTACTATATATTATT
1 -ATGATTTACTATATATTATT
* *
7056667 ATGCATTTGCTTCTATATTATT
1 ATG-ATTTAC-TATATATTATT
*
7056689 ATTGATTTCCTAT
1 A-TGATTTACTAT
7056702 TGAGTTTTAG
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.04
21 15 0.19
22 56 0.73
23 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.50
Consensus pattern (20 bp):
ATGATTTACTATATATTATT
Found at i:7056830 original size:22 final size:21
Alignment explanation
Indices: 7056805--7056887 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
7056795 TAAAACAGAT
* *
7056805 TTACTATTAAGTTATCAATAAA
1 TTACTACTAAATTATCAAT-AA
* * * *
7056827 TTACTACTAAATTTTTATTGAT
1 TTACTACTAAATTATCAAT-AA
7056849 TTACTACTAAATTATCAATAA
1 TTACTACTAAATTATCAATAA
* *
7056870 TTAACTATTAAGTTATCA
1 TT-ACTACTAAATTATCA
7056888 TTTTTTTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 3 0.06
22 44 0.94
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (21 bp):
TTACTACTAAATTATCAATAA
Found at i:7056914 original size:19 final size:19
Alignment explanation
Indices: 7056875--7056914 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7056865 AATAATTAAC
**
7056875 TATTAAGTTATCATTTTTT
1 TATTAAGTTATCATTGATT
7056894 TATTAAGTTATCATTGATT
1 TATTAAGTTATCATTGATT
7056913 TA
1 TA
7056915 CTGCTATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (19 bp):
TATTAAGTTATCATTGATT
Found at i:7056964 original size:22 final size:22
Alignment explanation
Indices: 7056894--7057031 Score: 91
Period size: 22 Copynumber: 6.3 Consensus size: 22
7056884 ATCATTTTTT
* *
7056894 TATTAAGTTATCATTGATTTAC
1 TATTATGTTATTATTGATTTAC
** * *
7056916 TGCTATGCTATTA-TGCATTTAA
1 TATTATGTTATTATTG-ATTTAC
* *
7056938 AATTATGTTATAATTGATTTAC
1 TATTATGTTATTATTGATTTAC
* * **
7056960 TATTAAGTTGTTATACATTTAC
1 TATTATGTTATTATTGATTTAC
* *
7056982 TATTATATTATTATTGATTTAT
1 TATTATGTTATTATTGATTTAC
* * *
7057004 TACTAAGTTATCAATT-ATTTAC
1 TATTATGTTAT-TATTGATTTAC
7057026 TATTAT
1 TATTAT
7057032 TGATATACTA
Statistics
Matches: 82, Mismatches: 31, Indels: 6
0.69 0.26 0.05
Matches are distributed among these distances:
21 2 0.02
22 75 0.91
23 5 0.06
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (22 bp):
TATTATGTTATTATTGATTTAC
Found at i:7056979 original size:44 final size:44
Alignment explanation
Indices: 7056901--7057012 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
7056891 TTTTATTAAG
* * * * * * *
7056901 TTATCATTGATTTACTGCTATGCTATTATGCATTTAAAATTATG
1 TTATAATTGATTTACTACTAAGTTGTTATACATTTAAAATTATA
* **
7056945 TTATAATTGATTTACTATTAAGTTGTTATACATTTACTATTATA
1 TTATAATTGATTTACTACTAAGTTGTTATACATTTAAAATTATA
* *
7056989 TTATTATTGATTTATTACTAAGTT
1 TTATAATTGATTTACTACTAAGTT
7057013 ATCAATTATT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (44 bp):
TTATAATTGATTTACTACTAAGTTGTTATACATTTAAAATTATA
Found at i:7057030 original size:36 final size:36
Alignment explanation
Indices: 7056990--7057064 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
7056980 ACTATTATAT
* * *
7056990 TATTATTGATTTATTACTAAGTTATCAATTATTTAC
1 TATTATTGATATACTACTAAGTTATCAATAATTTAC
* *
7057026 TATTATTGATATACTATTAAGTTATCACTAATTTAC
1 TATTATTGATATACTACTAAGTTATCAATAATTTAC
7057062 TAT
1 TAT
7057065 ACTAAATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (36 bp):
TATTATTGATATACTACTAAGTTATCAATAATTTAC
Found at i:7057062 original size:22 final size:22
Alignment explanation
Indices: 7057032--7057135 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 22
7057022 TTACTATTAT
*
7057032 TGATATACTATTAAGTTATCAC
1 TGATTTACTATTAAGTTATCAC
* *
7057054 TAATTTACTATACTAAATTGTATCAC
1 TGATTTACTAT--T-AAGT-TATCAC
* * *
7057080 TGATTAACTATTAATTTATCAA
1 TGATTTACTATTAAGTTATCAC
*
7057102 TGA-TTACTATTAAGTTAT-AT
1 TGATTTACTATTAAGTTATCAC
*
7057122 TGATTTACTTTTAA
1 TGATTTACTATTAA
7057136 ATTTCAATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
20 4 0.06
21 22 0.33
22 17 0.25
23 4 0.06
24 2 0.03
25 3 0.04
26 15 0.22
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (22 bp):
TGATTTACTATTAAGTTATCAC
Found at i:7057194 original size:25 final size:24
Alignment explanation
Indices: 7057124--7057199 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 24
7057114 AGTTATATTG
**
7057124 ATTTACTTTTAAATTTCAATT-ATT
1 ATTTACTACTAAATTTC-ATTAATT
* *
7057148 AATTACTACTAAA-TTC-TAAATT
1 ATTTACTACTAAATTTCATTAATT
7057170 ATTTACTACTAAATTATCATTAATTT
1 ATTTACTACTAAATT-TCATTAA-TT
7057196 ATTT
1 ATTT
7057200 TAAGTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
21 1 0.02
22 15 0.37
23 4 0.10
24 12 0.29
25 3 0.07
26 6 0.15
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTACTACTAAATTTCATTAATT
Found at i:7057530 original size:22 final size:22
Alignment explanation
Indices: 7057505--7057883 Score: 100
Period size: 22 Copynumber: 17.4 Consensus size: 22
7057495 ACTGAATCTT
*
7057505 ATTTACTATTAAATTATTATTA
1 ATTTACTATTAAATTATCATTA
* * *
7057527 ATTTATTACTAAATTATCATTG
1 ATTTACTATTAAATTATCATTA
* *
7057549 ATATACTATTAAGTTATCACTT-
1 ATTTACTATTAAATTATCA-TTA
* *
7057571 ATTT-TTATTAAATTATCCTTA
1 ATTTACTATTAAATTATCATTA
* * * **
7057592 ATTTACTACTATATTTTTGTGT-
1 ATTTACTATTAAATTATCAT-TA
* * * *
7057614 ATTTACAATT--ATGTATAAATG
1 ATTTACTATTAAAT-TATCATTA
* * *
7057635 ATTTACTATTAATTTAT-TTGTT
1 ATTTACTATTAAATTATCAT-TA
* * *
7057657 ATTTACTACTATATTATTATGT-
1 ATTTACTATTAAATTATCAT-TA
* * * * *
7057679 ATTTATTA-TAATGTTACCACTG
1 ATTTACTATTAA-ATTATCATTA
** * **
7057701 ACATACAATTATCTTATCAATT-
1 ATTTACTATTAAATTATC-ATTA
* * *
7057723 ATTTAGTATTAAATTATTATTT
1 ATTTACTATTAAATTATCATTA
* * *
7057745 ATTTACTATTATATTATTATTT
1 ATTTACTATTAAATTATCATTA
* * *
7057767 ATTTACTACTAAGTTATCCA-CA
1 ATTTACTATTAAATTAT-CATTA
*
7057789 ATTTAATA-TACAATTATCATTA
1 ATTTACTATTA-AATTATCATTA
* * * *
7057811 ATTTAATATAAAATTATTATTG
1 ATTTACTATTAAATTATCATTA
*
7057833 ATTT--TATCTAAATTATCACTA
1 ATTTACTAT-TAAATTATCATTA
* * ** *
7057854 ATTTTCAACAAAATTATCAATA
1 ATTTACTATTAAATTATCATTA
7057876 ATTTACTA
1 ATTTACTA
7057884 CTTTATTATT
Statistics
Matches: 257, Mismatches: 78, Indels: 44
0.68 0.21 0.12
Matches are distributed among these distances:
20 8 0.03
21 49 0.19
22 186 0.72
23 14 0.05
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTA
Found at i:7058034 original size:35 final size:35
Alignment explanation
Indices: 7057994--7058066 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
7057984 ATTTTTTTAA
7057994 AAATTAAAGTTTTATGATTTTTAACATTAAAAAAT
1 AAATTAAAGTTTTATGATTTTTAACATTAAAAAAT
* ** *
7058029 AAATTAAATTTTTATGATTTTTAATGTTAAAAAGT
1 AAATTAAAGTTTTATGATTTTTAACATTAAAAAAT
7058064 AAA
1 AAA
7058067 AAAAAAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (35 bp):
AAATTAAAGTTTTATGATTTTTAACATTAAAAAAT
Found at i:7061096 original size:150 final size:151
Alignment explanation
Indices: 7060805--7061084 Score: 354
Period size: 151 Copynumber: 1.9 Consensus size: 151
7060795 TTTTTAATTA
*
7060805 ATTTAAATTTAAATAACTAATAAATAAAAAGCTATATGCTTAATGACAAATAATTATTATTAAAT
1 ATTTAAATTTAAATAACTAATAAATAAAAAGCTATATACTTAATGACAAATAATTATTATTAAAT
* * * * * ** *
7060870 AAATAATGCTAGAAATTGAAATATAAATTTGTTATTTTTTAAAAATTTATAAGGATGTTTATATT
66 AAATAATACTAAAAATTGAAAGATAAATTTATTATTTCTTAAAAATTTATAAAAATATTTATATT
*
7060935 ATTAATTTTTAACAGTTTTAG
131 ATTAACTTTTAACAGTTTTAG
* * *
7060956 ATTTAAATTTAAATAACTAACT-AATAAAAA-TTATATATTTAATGACAAATAATT-TTTTTAAA
1 ATTTAAATTTAAATAACTAA-TAAATAAAAAGCTATATACTTAATGACAAATAATTATTATTAAA
* *
7061018 TAAATAAAAATATTAAAAATT-AAAGATAAATTTATTGTTTCTT-AAAATTTATAAAAATATTTA
65 TAAAT---AATACTAAAAATTGAAAGATAAATTTATTATTTCTTAAAAATTTATAAAAATATTTA
7061081 TATT
127 TATT
7061085 GTTCCCTTTT
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
149 12 0.11
150 42 0.38
151 46 0.41
152 11 0.10
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (151 bp):
ATTTAAATTTAAATAACTAATAAATAAAAAGCTATATACTTAATGACAAATAATTATTATTAAAT
AAATAATACTAAAAATTGAAAGATAAATTTATTATTTCTTAAAAATTTATAAAAATATTTATATT
ATTAACTTTTAACAGTTTTAG
Found at i:7061104 original size:150 final size:151
Alignment explanation
Indices: 7060805--7061104 Score: 349
Period size: 150 Copynumber: 2.0 Consensus size: 151
7060795 TTTTTAATTA
*
7060805 ATTTAAATTTAAATAACTAATAAATAAAAAGCTATATGCTTAATGACAAATAATTATTATTAAAT
1 ATTTAAATTTAAATAACTAATAAATAAAAAGCTATATACTTAATGACAAATAATTATTATTAAAT
* * * * * ** *
7060870 AAATAATGCTAGAAATTGAAATATAAATTTGTTATTTTTTAAAAATTTATAAGGATGTTTATATT
66 AAATAATACTAAAAATTGAAAGATAAATTTATTATTTCTTAAAAATTTATAAAAATATTTATATT
* *
7060935 ATTAATTTTTAACAGTTTTAG
131 ATTAACTTTTAACACTTTTAG
* * *
7060956 ATTTAAATTTAAATAACTAACT-AATAAAAA-TTATATATTTAATGACAAATAATT-TTTTTAAA
1 ATTTAAATTTAAATAACTAA-TAAATAAAAAGCTATATACTTAATGACAAATAATTATTATTAAA
* *
7061018 TAAATAAAAATATTAAAAATT-AAAGATAAATTTATTGTTTCTT-AAAATTTATAAAAATATTTA
65 TAAAT---AATACTAAAAATTGAAAGATAAATTTATTATTTCTTAAAAATTTATAAAAATATTTA
* ** *
7061081 TATTGTTCCCTTTTAATACTTTTA
127 TATTATTAACTTTTAACACTTTTA
7061105 AAGTTTATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
149 12 0.10
150 56 0.45
151 46 0.37
152 11 0.09
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (151 bp):
ATTTAAATTTAAATAACTAATAAATAAAAAGCTATATACTTAATGACAAATAATTATTATTAAAT
AAATAATACTAAAAATTGAAAGATAAATTTATTATTTCTTAAAAATTTATAAAAATATTTATATT
ATTAACTTTTAACACTTTTAG
Found at i:7061135 original size:23 final size:23
Alignment explanation
Indices: 7061109--7061167 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
7061099 CTTTTAAAGT
7061109 TTATATTTTTAAATATAAATAGA
1 TTATATTTTTAAATATAAATAGA
7061132 TTATATTTTTAAATATAAATAGA
1 TTATATTTTTAAATATAAATAGA
*
7061155 TGATATTTTTAAA
1 TTATATTTTTAAA
7061168 AATTTAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
TTATATTTTTAAATATAAATAGA
Found at i:7061936 original size:3 final size:3
Alignment explanation
Indices: 7061928--7061956 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7061918 ATAAAAACAA
7061928 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7061957 GGACTAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7068643 original size:24 final size:24
Alignment explanation
Indices: 7068600--7068658 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
7068590 ATATATTAAA
7068600 AATAAAAAAAATTAATTAAAAAAT
1 AATAAAAAAAATTAATTAAAAAAT
* *
7068624 AATAAATAAATATTAA-TAAAAATT
1 AATAAA-AAAAATTAATTAAAAAAT
*
7068648 AA-AATAAAAAT
1 AATAAAAAAAAT
7068659 CAAGAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.17
23 2 0.07
24 15 0.50
25 8 0.27
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAAAAAAAATTAATTAAAAAAT
Found at i:7068652 original size:22 final size:21
Alignment explanation
Indices: 7068596--7068670 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
7068586 TAAGATATAT
7068596 TAAAAA-TAAAA-AAAATTAA
1 TAAAAATTAAAATAAAATTAA
*
7068615 TTAAAAAATAATAAATAAATATTAA
1 -T-AAAAATTA-AAATAAA-ATTAA
*
7068640 TAAAAATTAAAATAAAAATCAA
1 TAAAAATTAAAAT-AAAATTAA
*
7068662 GAAAAATTA
1 TAAAAATTA
7068671 CTTTTAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.02
21 5 0.11
22 17 0.38
23 13 0.29
24 4 0.09
25 5 0.11
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (21 bp):
TAAAAATTAAAATAAAATTAA
Found at i:7078602 original size:19 final size:19
Alignment explanation
Indices: 7078551--7078602 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
7078541 TCAGAAGCTG
* *
7078551 GAAAACCTATCGATTTCTA
1 GAAAACATATCGAATTCTA
*
7078570 GAAAACATACCGAATTCTA
1 GAAAACATATCGAATTCTA
* *
7078589 GAAATCTTATCGAA
1 GAAAACATATCGAA
7078603 AACTTCAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (19 bp):
GAAAACATATCGAATTCTA
Found at i:7078681 original size:26 final size:26
Alignment explanation
Indices: 7078651--7078701 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
7078641 AAAGTCCTTA
7078651 AAAAAACATAAAAAAACCCAAAAAATT
1 AAAAAA-ATAAAAAAACCCAAAAAATT
* *
7078678 AAAAAAATTAAAAAATCCAAAAAA
1 AAAAAAATAAAAAAACCCAAAAAA
7078702 ATTCTCTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (26 bp):
AAAAAAATAAAAAAACCCAAAAAATT
Found at i:7079114 original size:15 final size:14
Alignment explanation
Indices: 7079102--7079139 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
7079092 GCAAAGAAGG
7079102 AAAAAAAAAAGAAC
1 AAAAAAAAAAGAAC
*
7079116 AAAAAAAAGAAAAAC
1 AAAAAAAA-AAGAAC
7079131 AAAAAAAAA
1 AAAAAAAAA
7079140 TAACAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAC
Found at i:7079121 original size:12 final size:11
Alignment explanation
Indices: 7079101--7079139 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
7079091 AGCAAAGAAG
7079101 GAAAAAAAAAA
1 GAAAAAAAAAA
7079112 GAACAAAAAAAA
1 GAA-AAAAAAAA
7079124 GAAAAACAAAAA
1 GAAAAA-AAAAA
7079136 -AAAA
1 GAAAA
7079140 TAACAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:7079121 original size:13 final size:13
Alignment explanation
Indices: 7079102--7079145 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
7079092 GCAAAGAAGG
7079102 AAAAAAAAAAGAAC
1 AAAAAAAAAA-AAC
7079116 AAAAAAAAGAAAAAC
1 -AAAAAAA-AAAAAC
*
7079131 AAAAAAAAATAAC
1 AAAAAAAAAAAAC
7079144 AA
1 AA
7079146 TAATAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 7 0.26
14 7 0.26
15 10 0.37
16 3 0.11
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:7079150 original size:3 final size:3
Alignment explanation
Indices: 7079138--7079239 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
7079128 AACAAAAAAA
* * *
7079138 AAT AAC AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
7079186 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -GT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7079232 AAT AAT AA
1 AAT AAT AA
7079240 CAATTAAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 3 0.03
3 86 0.97
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7079361 original size:26 final size:25
Alignment explanation
Indices: 7079331--7079397 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 25
7079321 GATTTCAATA
7079331 GGCCTAATCGGGCTCAGATGTTAAT
1 GGCCTAATCGGGCTCAGATGTTAAT
*
7079356 GAGCCTAATCAGGCTCAGATGTTAAT
1 G-GCCTAATCGGGCTCAGATGTTAAT
*
7079382 GGACCTAATTGGGCTC
1 GG-CCTAATCGGGCTC
7079398 GGACATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.05
26 35 0.95
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
GGCCTAATCGGGCTCAGATGTTAAT
Found at i:7079781 original size:89 final size:90
Alignment explanation
Indices: 7079573--7079783 Score: 239
Period size: 89 Copynumber: 2.4 Consensus size: 90
7079563 TGATCGAGAT
* ** * * * * *
7079573 AAAACCATGAGTTAAAATAAAACGACCAGG-GTCGAGTCGAGGTTAGAAATAAATGATCAAGACA
1 AAAACCATGAGTCAAAATAAAGTGACCAGGACTCGAGTCGAGATCAAAAATAAATAATCAAGACA
7079637 AAATCATGAATAATGTGACCAGGAC
66 AAATCATGAATAATGTGACCAGGAC
* * * **
7079662 AAAACTATGAGTCAAAATAAAGTGATCAGGACT-GAGTCGAGATCAAAAATAAATAATCGAGATG
1 AAAACCATGAGTCAAAATAAAGTGACCAGGACTCGAGTCGAGATCAAAAATAAATAATCAAGACA
* * *
7079726 AAA-CTATGAATCATGTGATCAGGAT
66 AAATC-ATGAATAATGTGACCAGGAC
*
7079751 GAAACCATGAGTCAAAATAAAGTGACCAGGACT
1 AAAACCATGAGTCAAAATAAAGTGACCAGGACT
7079784 AAGTTAAAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
88 1 0.01
89 99 0.98
90 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (90 bp):
AAAACCATGAGTCAAAATAAAGTGACCAGGACTCGAGTCGAGATCAAAAATAAATAATCAAGACA
AAATCATGAATAATGTGACCAGGAC
Found at i:7080134 original size:84 final size:87
Alignment explanation
Indices: 7080012--7080202 Score: 210
Period size: 84 Copynumber: 2.2 Consensus size: 87
7080002 AAATGATTGG
* * * *
7080012 GATGAAACCACGAATCATGTGATCGGGACGAAATCACGAGT-CA-AAAAGCGACTAGGACAGAAT
1 GATGAAACCACGAATCATGTGATCGAGACGAAACCACGAGTAAATAAAAGCGACCAGGACAGAAT
*
7080075 CTAGATAAAAAATAAATGATC-
66 CGAGATAAAAAATAAATGATCA
* * * *
7080096 GATGAAACCACGAATCATGTGA-CTGAGATGAAACCACGATTAAAATAAAAGTGACCAGGACTGA
1 GATGAAACCACGAATCATGTGATC-GAGACGAAACCACGAGT-AAATAAAAGCGACCAGGACAGA
* * *
7080160 GTCGAGGTGAAAAATAAATGATCAA
64 ATCGAGATAAAAAATAAATGATC-A
*
7080185 GACGAAACCACGAATCAT
1 GATGAAACCACGAATCAT
7080203 AAAAAATGAT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
83 1 0.01
84 35 0.40
86 1 0.01
87 34 0.39
89 17 0.19
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (87 bp):
GATGAAACCACGAATCATGTGATCGAGACGAAACCACGAGTAAATAAAAGCGACCAGGACAGAAT
CGAGATAAAAAATAAATGATCA
Found at i:7080383 original size:208 final size:208
Alignment explanation
Indices: 7080082--7080656 Score: 649
Period size: 208 Copynumber: 2.8 Consensus size: 208
7080072 AATCTAGATA
* * * * * *
7080082 AAAAATAAATGA-T-CGATGAAACCACGAATCATGTGACTGAGATGAAACCACGA-TTAAAATAA
1 AAAAATAAATGATTAAGATGAAACTACGAATCATATGACTGAGATAAAATCACGAGTCAAAAT-A
* * * * * *
7080144 AAGTGACCAGGACTGAGTCGAGGTGAAAAATAAATGATCAAGACGAAACCACGAATCATAAAAAA
65 AAGTGACCAGGATTGAGTCGAAGTAAAAAATAAATGATCGAGACAAAACCAAGAATCATAAAAAA
* * *
7080209 TGATCTGGACTGAGCCAAGACCAAGTGA-TCGAGACGAAACCACGAGTCAAACTAAAATGACCAG
130 TGATCTGGACTGAGCCAAGACCAAGTGACT-GAAACAAAACCACGAGTCAAACTAAAATGACCAA
7080273 GACCAAGTTGAGGTT
194 GACCAAGTTGAGGTT
* * * *
7080288 AAAAATAAATGATTAAGACGAAACTACGAATCATATGACTGGGATAAAATCACAAGTCAAGATAA
1 AAAAATAAATGATTAAGATGAAACTACGAATCATATGACTGAGATAAAATCACGAGTCAAAATAA
* *
7080353 AGTGACCAAGATTGAGTCGAAGTAAAAAATAAATGATCGAGACAAAACCATGAATCATAAAAAAT
66 AGTGACCAGGATTGAGTCGAAGTAAAAAATAAATGATCGAGACAAAACCAAGAATCATAAAAAAT
* * * * *
7080418 GATCTGGACTGACCCAAGACCAAGTGACTGAAATAAAACCATGAGTCAAACTAAAGTGATCAAGA
131 GATCTGGACTGAGCCAAGACCAAGTGACTGAAACAAAACCACGAGTCAAACTAAAATGACCAAGA
* *
7080483 TCGAGTTGAGGTT
196 CCAAGTTGAGGTT
* * ** * *
7080496 AAAAATAAATGATCAAGATGAAA-TCACGAATCATATAACCAAGATAAAATCATGAGTCAAAACA
1 AAAAATAAATGATTAAGATGAAACT-ACGAATCATATGACTGAGATAAAATCACGAGTCAAAATA
** * * ** * * * *
7080560 AAGTGATTAGGATCGAGTTGAAGTCGATAAT-AATGATCGGGACAAAACCAATAATCATAAGAAA
65 AAGTGACCAGGATTGAGTCGAAGTAAAAAATAAATGATCGAGACAAAACCAAGAATCATAAAAAA
* * * *
7080624 TGATCCGAACTGAGCCAAGATCAAGTGAGTGAA
130 TGATCTGGACTGAGCCAAGACCAAGTGACTGAA
7080657 TAATGTAAGT
Statistics
Matches: 310, Mismatches: 54, Indels: 9
0.83 0.14 0.02
Matches are distributed among these distances:
206 12 0.04
207 59 0.19
208 233 0.75
209 6 0.02
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (208 bp):
AAAAATAAATGATTAAGATGAAACTACGAATCATATGACTGAGATAAAATCACGAGTCAAAATAA
AGTGACCAGGATTGAGTCGAAGTAAAAAATAAATGATCGAGACAAAACCAAGAATCATAAAAAAT
GATCTGGACTGAGCCAAGACCAAGTGACTGAAACAAAACCACGAGTCAAACTAAAATGACCAAGA
CCAAGTTGAGGTT
Found at i:7080874 original size:41 final size:41
Alignment explanation
Indices: 7080813--7080899 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
7080803 GAAACCATCT
**
7080813 TGAATGCATGTTTTTCGCAAAGAAACCATCTTTCACCAACC
1 TGAATGCACATTTTTCGCAAAGAAACCATCTTTCACCAACC
* * *
7080854 TGAATGCACATTTTTGGCAAAGAAACCATCTTTCATCATCC
1 TGAATGCACATTTTTCGCAAAGAAACCATCTTTCACCAACC
7080895 TGAAT
1 TGAAT
7080900 AAGTATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (41 bp):
TGAATGCACATTTTTCGCAAAGAAACCATCTTTCACCAACC
Found at i:7081488 original size:54 final size:55
Alignment explanation
Indices: 7081424--7081532 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 55
7081414 AACCCGAACC
** *
7081424 TCTTTCTTTGGA-TCCAAGTGGCCCTTTTGAGTTTTCAACTTGAACTCTTTTTTTT
1 TCTTTCTTTGGACTCCAAGCCGCCCTTTCGAGTTTTCAACTTGAACT-TTTTTTTT
*
7081479 TCTTT-TTTGGACTTCAAGCCGCCCTTTCGAGTTTTCAACTTGAACTTTTTTTTT
1 TCTTTCTTTGGACTCCAAGCCGCCCTTTCGAGTTTTCAACTTGAACTTTTTTTTT
7081533 AAATCAAGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 14 0.29
55 35 0.71
ACGTcount: A:0.15, C:0.21, G:0.14, T:0.50
Consensus pattern (55 bp):
TCTTTCTTTGGACTCCAAGCCGCCCTTTCGAGTTTTCAACTTGAACTTTTTTTTT
Found at i:7084272 original size:120 final size:119
Alignment explanation
Indices: 7084083--7084360 Score: 404
Period size: 120 Copynumber: 2.3 Consensus size: 119
7084073 TTGTATAGGA
**
7084083 AAAATTGATACTTTCAACTTCTTCC-C-AAAAT-ATTTTTTACTAAAACTTTAATTTCAAGAAAA
1 AAAATTGATACTTTCAACTT-TTCCTCAAAAATAATTTTTTAAAAAAACTTTAATTTCAAGAAAA
7084145 ATTGATACTTTCAACTTTTCTCC-AAAAAAATGTTTTAGAAAGCTTATTTTCAAGG
65 ATTGATACTTTCAACTTTT-TCCTAAAAAAATGTTTTAGAAAGCTTATTTTCAAGG
* *
7084200 AAAATTGATACTTTAAACTTTTCCTCAAAAATAATTTTTTAGAAAAAAAC-TTATTTTCAAGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTT--AAAAAAACTTTAATTTCAAGAAA
* *
7084264 AATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
64 AATTGATACTTTCAACTTTTTCCTAAAAAAATGTTTTAGAAAGCTTATTTTCAAGG
* *
7084320 AAAATTGATACTTTCAACTTTTTCTCAATAATATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-ATTTTTT
7084361 TGAATTTTAC
Statistics
Matches: 145, Mismatches: 9, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
116 4 0.03
117 20 0.14
118 5 0.03
119 10 0.07
120 93 0.64
121 13 0.09
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAAAACTTTAATTTCAAGAAAAA
TTGATACTTTCAACTTTTTCCTAAAAAAATGTTTTAGAAAGCTTATTTTCAAGG
Found at i:7084342 original size:58 final size:58
Alignment explanation
Indices: 7084081--7084360 Score: 334
Period size: 58 Copynumber: 4.7 Consensus size: 58
7084071 TTTTGTATAG
* * * *
7084081 GAAAAATTGATACTTTCAACTTCTTCC-CAAAATATTTTTTACTAAAACTTTAATTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTA-GAAAAC-TTATTTTCAA
* * *
7084140 GAAAAATTGATACTTTCAACTTTTCTCC-AAAAAAATGTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTT-TCCTAAAAATATTTTTTAGAAAACTTATTTTCAA
* *
7084198 GGAAAATTGATACTTTAAAC-TTTTCCTCAAAAATAATTTTTTAGAAAAAAACTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAAT-ATTTTTTAG---AAAACTTATTTTCAA
*
7084260 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAAACTTATTTTCAA
*
7084318 GGAAAATTGATACTTTCAACTTTTT-CTCAATAATATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCT-AA-AA-ATATTTTTT
7084361 TGAATTTTAC
Statistics
Matches: 194, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
56 3 0.02
57 5 0.03
58 72 0.37
59 37 0.19
60 23 0.12
61 9 0.05
62 38 0.20
63 7 0.04
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.41
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:7084395 original size:13 final size:13
Alignment explanation
Indices: 7084377--7084533 Score: 62
Period size: 13 Copynumber: 11.7 Consensus size: 13
7084367 TTACTTAAAG
7084377 AAAATAAAATAAT
1 AAAATAAAATAAT
7084390 AAAAT--AA-AA-
1 AAAATAAAATAAT
7084399 AAAATGAAAATAA-
1 AAAAT-AAAATAAT
*
7084412 AAAATAAAAAAAT
1 AAAATAAAATAAT
7084425 AAAATAAAAATAA-
1 AAAAT-AAAATAAT
7084438 AAAGTACTAAACA-AAT
1 AAA--A-TAAA-ATAAT
** *
7084454 CTAATATAATCAAT
1 AAAATAAAAT-AAT
7084468 AATAATAATAATAAT
1 AA-AATAA-AATAAT
*
7084483 GATAAT-AAATAAT
1 -AAAATAAAATAAT
* *
7084496 TAAATAAATATATAAA
1 AAAAT-AA-A-ATAAT
7084512 AAAATAAAATAA-
1 AAAATAAAATAAT
7084524 AAAATGAAAA
1 AAAAT-AAAA
7084534 AAAAACACCT
Statistics
Matches: 110, Mismatches: 13, Indels: 42
0.67 0.08 0.25
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 17 0.15
13 37 0.34
14 13 0.12
15 19 0.17
16 15 0.14
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:7084408 original size:6 final size:5
Alignment explanation
Indices: 7084377--7084439 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
7084367 TTACTTAAAG
*
7084377 AAAAT AAAAT --AAT AAAAT AAAA- AAAAT GAAAAT AAAA- AATAAA AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AA-AAT AAAAT
7084425 AAAAT AAAAAT AAAA
1 AAAAT -AAAAT AAAA
7084440 AGTACTAAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
3 3 0.06
4 6 0.12
5 29 0.58
6 12 0.24
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:7084408 original size:7 final size:6
Alignment explanation
Indices: 7084377--7084440 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
7084367 TTACTTAAAG
* * *
7084377 AAAAT- AAAATA ATAAA-A TAAA-A AAAATG AAAATAA AAAATA AAAAAA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA
7084424 TAAAATA AAAATA AAAA
1 -AAAATA AAAATA AAAA
7084441 GTACTAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
5 12 0.25
6 23 0.48
7 13 0.27
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:7084410 original size:20 final size:19
Alignment explanation
Indices: 7084387--7084440 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
7084377 AAAATAAAAT
7084387 AATAAAATAAAAAAAATGAA
1 AATAAAATAAAAAAAAT-AA
*
7084407 AATAAAAAATAAAAAAATAA
1 AATAAAATA-AAAAAAATAA
7084427 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
7084441 GTACTAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (19 bp):
AATAAAATAAAAAAAATAA
Found at i:7084480 original size:12 final size:12
Alignment explanation
Indices: 7084455--7084524 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
7084445 TAAACAAATC
*
7084455 TAATATAATCAA
1 TAATATAATAAA
7084467 TAATAATAAT-AA
1 TAAT-ATAATAAA
7084479 TAATGATAATAAA
1 TAAT-ATAATAAA
7084492 TAAT-TAAATAAA
1 TAATAT-AATAAA
7084504 T-ATATAA-AAA
1 TAATATAATAAA
*
7084514 -AATAAAATAAA
1 TAATATAATAAA
7084525 AAATGAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
10 8 0.16
11 8 0.16
12 23 0.46
13 11 0.22
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (12 bp):
TAATATAATAAA
Found at i:7084521 original size:21 final size:22
Alignment explanation
Indices: 7084372--7084538 Score: 89
Period size: 21 Copynumber: 7.4 Consensus size: 22
7084362 GAATTTTACT
*
7084372 TAAAGAAAATAAAAT-AATAAAA
1 TAAA-AAAATAAAATAAATAATA
7084394 TAAAAAAAATGAAAATAAA-AA-A
1 T-AAAAAAAT-AAAATAAATAATA
7084416 TAAAAAAATAAAATAAA-AATA
1 TAAAAAAATAAAATAAATAATA
* * *
7084437 -AAAAGTACTAAACA-AATCTAATA
1 TAAAA-AAATAAA-ATAA-ATAATA
*
7084460 TAATCAATAATAATAAT-AATAATGA
1 TAA--AAAAATAA-AATAAATAAT-A
*
7084485 TAATAAATAATTAAATAAAT-ATA
1 TAA-AAA-AATAAAATAAATAATA
*
7084508 TAAAAAAATAAAATAAAAAATGA
1 TAAAAAAATAAAATAAATAAT-A
*
7084531 AAAAAAAA
1 TAAAAAAA
7084539 CACCTGGAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 35
0.72 0.07 0.22
Matches are distributed among these distances:
20 14 0.12
21 26 0.22
22 14 0.12
23 26 0.22
24 15 0.13
25 18 0.16
26 3 0.03
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (22 bp):
TAAAAAAATAAAATAAATAATA
Found at i:7085323 original size:21 final size:21
Alignment explanation
Indices: 7085296--7085360 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
7085286 ATAAAAAATC
7085296 AAATAAAAAATATTAATAGAT
1 AAATAAAAAATATTAATAGAT
*
7085317 AATTAAAGAAA-A-TAATAAGAT
1 AAATAAA-AAATATTAAT-AGAT
* *
7085338 AAAT-CAAAATATTAACAGAT
1 AAATAAAAAATATTAATAGAT
7085358 AAA
1 AAA
7085361 AATAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 3 0.08
20 13 0.36
21 17 0.47
22 3 0.08
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (21 bp):
AAATAAAAAATATTAATAGAT
Found at i:7085364 original size:16 final size:16
Alignment explanation
Indices: 7085343--7085376 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7085333 AAGATAAATC
*
7085343 AAAATATTAACAGATA
1 AAAATAATAACAGATA
*
7085359 AAAATAATAATAGATA
1 AAAATAATAACAGATA
7085375 AA
1 AA
7085377 TTATAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATAATAACAGATA
Found at i:7085395 original size:4 final size:4
Alignment explanation
Indices: 7085367--7085526 Score: 84
Period size: 4 Copynumber: 40.5 Consensus size: 4
7085357 TAAAAATAAT
* * * * *
7085367 AATA GATA AATTA TAATA TATA AATA AATA AAT- AATA AATA TATA TATT
1 AATA AATA AA-TA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
* *
7085416 AATA AATA GTAAT- AATA AATA AATA AAT- AATA AATA CATA AGATA TA-A
1 AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA
* * * * * *
7085464 AAGA AAAA AATA TA-A AATA TA-A AATA AA-A ATAAA AATA AAAA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AATA AATA
*
7085510 AA-A AATA AAAA AATA AA
1 AATA AATA AATA AATA AA
7085527 GTGGGCCTAC
Statistics
Matches: 119, Mismatches: 23, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
3 20 0.17
4 85 0.71
5 9 0.08
6 5 0.04
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:7085404 original size:15 final size:15
Alignment explanation
Indices: 7085360--7085526 Score: 106
Period size: 15 Copynumber: 11.5 Consensus size: 15
7085350 TAACAGATAA
*
7085360 AAAT-AATAATAGAT
1 AAATAAATAATAAAT
7085374 AAATTATAATATATAAAT
1 AAA-TA-AATA-ATAAAT
7085392 AAATAAATAATAAAT
1 AAATAAATAATAAAT
* *
7085407 ATATATATTAATAAAT
1 AAATA-AATAATAAAT
*
7085423 -AGT-AATAATAAAT
1 AAATAAATAATAAAT
7085436 AAATAAATAATAAAT
1 AAATAAATAATAAAT
*
7085451 ACATAAGAT-ATAAA-
1 AAATAA-ATAATAAAT
*
7085465 AGAA-AAA-AATATA-
1 A-AATAAATAATAAAT
7085478 AAATATAA-AAT-AA-
1 AAATA-AATAATAAAT
*
7085491 AAATAAA-AATAAAA
1 AAATAAATAATAAAT
* *
7085505 AAATAAAAAATAAAA
1 AAATAAATAATAAAT
7085520 AAATAAA
1 AAATAAA
7085527 GTGGGCCTAC
Statistics
Matches: 127, Mismatches: 11, Indels: 29
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.06
13 24 0.19
14 20 0.16
15 47 0.37
16 15 0.12
17 6 0.05
18 8 0.06
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:7085447 original size:7 final size:7
Alignment explanation
Indices: 7085356--7085518 Score: 87
Period size: 7 Copynumber: 23.1 Consensus size: 7
7085346 ATATTAACAG
7085356 ATAA-AA
1 ATAATAA
7085362 ATAAT-A
1 ATAATAA
7085368 ATAGATAA
1 ATA-ATAA
*
7085376 ATTAT-A
1 ATAATAA
7085382 ATATATAA
1 ATA-ATAA
7085390 ATAAATAA
1 AT-AATAA
7085398 ATAATAA
1 ATAATAA
7085405 ATATATATA
1 ATA-ATA-A
*
7085414 TTAATAA
1 ATAATAA
*
7085421 ATAGT-A
1 ATAATAA
7085427 ATAATAA
1 ATAATAA
7085434 ATAAATAA
1 AT-AATAA
7085442 ATAATAA
1 ATAATAA
7085449 ATACATAA
1 ATA-ATAA
7085457 GAT-ATAA
1 -ATAATAA
7085464 A-AGA-AA
1 ATA-ATAA
*
7085470 AAAATATA
1 ATAATA-A
7085478 A-AATATA
1 ATAATA-A
7085485 A-AATAA
1 ATAATAA
7085491 A-AATAA
1 ATAATAA
7085497 A-AATAAA
1 ATAAT-AA
*
7085504 AAAATAA
1 ATAATAA
*
7085511 AAAATAA
1 ATAATAA
7085518 A
1 A
7085519 AAAATAAAGT
Statistics
Matches: 132, Mismatches: 6, Indels: 37
0.75 0.03 0.21
Matches are distributed among these distances:
6 32 0.24
7 60 0.45
8 34 0.26
9 6 0.05
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (7 bp):
ATAATAA
Found at i:7085494 original size:20 final size:21
Alignment explanation
Indices: 7085467--7085526 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
7085457 GATATAAAAG
7085467 AAAAAAATATAAAATATAAAAT
1 AAAAAAATA-AAAATATAAAAT
*
7085489 --AAAAATAAAAATA-AAAAA
1 AAAAAAATAAAAATATAAAAT
*
7085507 ATAAAAAATAAAAAAATAAA
1 A-AAAAAATAAAAATATAAA
7085527 GTGGGCCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 4 0.12
19 6 0.19
20 7 0.22
21 12 0.38
22 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAAATAAAAATATAAAAT
Found at i:7085777 original size:45 final size:45
Alignment explanation
Indices: 7085713--7085921 Score: 168
Period size: 45 Copynumber: 4.8 Consensus size: 45
7085703 TTGATCAAAA
*
7085713 CTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAATATAAACAATG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATATAAACAATG
* * *
7085758 CTCCTCTAATCAAAGGCTCAACGA-TTTTAAAAATGA-ATA-AA-G
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAT-ATAAACAATG
* * * * *
7085800 CTCCTATAATTAGAGGCTTAACGACTTTGAAAAACATAAACAGTG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATATAAACAATG
* * ** *
7085845 CCCCTTTAATCAGAGGCTTGACAACTTTTG-AAAA-AT--A-AATGG
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATATAAACAAT-G
* * *
7085887 CTCATCTAATCAGAGGCT-TACAACTTTGAAAAATA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA
7085922 AATAGCTCCT
Statistics
Matches: 133, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
40 4 0.03
41 11 0.08
42 40 0.30
43 12 0.09
44 14 0.11
45 48 0.36
46 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (45 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATATAAACAATG
Found at i:7085902 original size:87 final size:87
Alignment explanation
Indices: 7085717--7085942 Score: 223
Period size: 87 Copynumber: 2.7 Consensus size: 87
7085707 TCAAAACTCC
* * * * *
7085717 TCTAAGCAGAGGCTCAACGACTTTGAAAAATATAAACAATGCTCCTCTAATCAAAGGCTCAACGA
1 TCTAATCAGAGGCTTAACGACTTTGAAAAACATAAACAATGCCCCTCTAATCAAAGGCTCAACAA
*
7085782 TTTTAAAAATGAATAAAGCTCC
66 TTTTAAAAATGAATAAAGCTCA
* * * * * **
7085804 TATAATTAGAGGCTTAACGACTTTGAAAAACATAAACAGTGCCCCTTTAATCAGAGGCTTGACAA
1 TCTAATCAGAGGCTTAACGACTTTGAAAAACATAAACAATGCCCCTCTAATCAAAGGCTCAACAA
**
7085869 CTTTTGAAAAAT-AA-ATGGCTCA
66 -TTTT-AAAAATGAATAAAGCTCA
* * *
7085891 TCTAATCAGAGGCTT-ACAACTTTG-AAAA-ATAAA-TA-GCTCCTCTAATCAAAGG
1 TCTAATCAGAGGCTTAACGACTTTGAAAAACATAAACAATGCCCCTCTAATCAAAGG
7085943 TATCACAATT
Statistics
Matches: 114, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
82 14 0.12
84 5 0.04
85 4 0.04
86 8 0.07
87 71 0.62
88 6 0.05
89 6 0.05
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (87 bp):
TCTAATCAGAGGCTTAACGACTTTGAAAAACATAAACAATGCCCCTCTAATCAAAGGCTCAACAA
TTTTAAAAATGAATAAAGCTCA
Found at i:7085905 original size:42 final size:41
Alignment explanation
Indices: 7085851--7085970 Score: 147
Period size: 40 Copynumber: 2.9 Consensus size: 41
7085841 AGTGCCCCTT
*
7085851 TAATCAGAGGCTTGACAACTTTTGAAAAATAAATGGCTCATC
1 TAATCAGAGGCTT-ACAACTTTTGAAAAATAAATAGCTCATC
*
7085893 TAATCAGAGGCTTACAAC-TTTGAAAAATAAATAGCTCCTC
1 TAATCAGAGGCTTACAACTTTTGAAAAATAAATAGCTCATC
* * *
7085933 TAATCAAAGG-TATCACAA-TTTTGGAAAATAAATTGCTC
1 TAATCAGAGGCT-T-ACAACTTTTGAAAAATAAATAGCTC
7085971 CTTGACAATC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
39 1 0.01
40 30 0.43
41 26 0.37
42 13 0.19
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (41 bp):
TAATCAGAGGCTTACAACTTTTGAAAAATAAATAGCTCATC
Found at i:7085964 original size:41 final size:40
Alignment explanation
Indices: 7085757--7085972 Score: 148
Period size: 42 Copynumber: 5.2 Consensus size: 40
7085747 TATAAACAAT
* * *
7085757 GCTCCTCTAATCAAAGGCTCAACGATTTT-AAAAATGAATAAA
1 GCTCCTCTAATCAAAGGCT-TACAATTTTGAAAAAT-AA-ATA
* * * * * *
7085799 GCTCCTATAATTAGAGGCTTAACGACTTTGAAAAACATAAACA
1 GCTCCTCTAATCAAAGGCTT-ACAATTTTG-AAAA-ATAAATA
* * * *
7085842 GTGCCCCTTTAATCAGAGGCTTGACAACTTTTGAAAAATAAATG
1 --GCTCCTCTAATCAAAGGCTT-ACAA-TTTTGAAAAATAAATA
* * *
7085886 GCTCATCTAATCAGAGGCTTACAACTTTGAAAAATAAATA
1 GCTCCTCTAATCAAAGGCTTACAATTTTGAAAAATAAATA
* *
7085926 GCTCCTCTAATCAAAGG-TATCACAATTTTGGAAAATAAATT
1 GCTCCTCTAATCAAAGGCT-T-ACAATTTTGAAAAATAAATA
7085967 GCTCCT
1 GCTCCT
7085973 TGACAATCAT
Statistics
Matches: 141, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
39 1 0.01
40 30 0.21
41 27 0.19
42 40 0.28
43 2 0.01
44 11 0.08
45 26 0.18
46 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (40 bp):
GCTCCTCTAATCAAAGGCTTACAATTTTGAAAAATAAATA
Found at i:7097513 original size:59 final size:58
Alignment explanation
Indices: 7097417--7097751 Score: 451
Period size: 59 Copynumber: 5.7 Consensus size: 58
7097407 TTGTATAGAA
* * * * *
7097417 AAAATTGATACTTTCAACTTCTCC-CCAAAATATTTTTTAGTAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAGC-TTATTTTCAAGG
*
7097476 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTAGAAAGCTTATTTTCAAGG
* * *
7097535 AAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTTTGGAAAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTT---AGAAAGCTTATTTTCAAGG
* * *
7097597 AAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTTAGAAAGCTAATTTTCAA-A
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
*
7097655 AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
7097713 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
7097752 TTTGAATTTT
Statistics
Matches: 246, Mismatches: 21, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
57 35 0.14
58 56 0.23
59 83 0.34
60 12 0.05
61 7 0.03
62 41 0.17
63 12 0.05
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:7097847 original size:3 final size:3
Alignment explanation
Indices: 7097834--7097872 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
7097824 AAATCTAATC
*
7097834 TAA TAAA TAA TAA TAA TAA TAA TAA TGA TAA TAAA TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T
7097873 TAAATAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7097853 original size:9 final size:10
Alignment explanation
Indices: 7097834--7097895 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 10
7097824 AAATCTAATC
7097834 TAATAAATAA
1 TAATAAATAA
7097844 TAAT-AATAA
1 TAATAAATAA
*
7097853 TAAT-AATGA
1 TAATAAATAA
7097862 TAATAAATAA
1 TAATAAATAA
7097872 TTAAATAAATATA
1 -T-AATAAATA-A
7097885 TAA-AAA-AA
1 TAATAAATAA
7097893 TAA
1 TAA
7097896 AATGAAAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
8 4 0.09
9 18 0.39
10 11 0.24
11 3 0.07
12 9 0.20
13 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:7097878 original size:8 final size:7
Alignment explanation
Indices: 7097834--7097896 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 7
7097824 AAATCTAATC
7097834 TAATAAA
1 TAATAAA
7097841 TAAT-AA
1 TAATAAA
7097847 TAAT-AA
1 TAATAAA
7097853 TAATAATGA
1 TAATAA--A
7097862 TAATAAA
1 TAATAAA
7097869 TAATTAAA
1 TAA-TAAA
*
7097877 TAAATATA
1 T-AATAAA
7097885 TAA-AAA
1 TAATAAA
7097891 -AATAAA
1 TAATAAA
7097897 ATGAAAAACG
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
5 2 0.04
6 17 0.35
7 11 0.23
8 9 0.19
9 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (7 bp):
TAATAAA
Found at i:7097878 original size:12 final size:13
Alignment explanation
Indices: 7097834--7097882 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
7097824 AAATCTAATC
*
7097834 TAATAAATAATAA
1 TAATAAATAATTA
*
7097847 TAATAATAATAATGA
1 TAAT-A-AATAATTA
7097862 TAATAAATAATTA
1 TAATAAATAATTA
7097875 -AATAAATA
1 TAATAAATA
7097883 TATAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.25
13 11 0.34
14 2 0.06
15 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TAATAAATAATTA
Found at i:7098809 original size:40 final size:37
Alignment explanation
Indices: 7098744--7098877 Score: 114
Period size: 40 Copynumber: 3.5 Consensus size: 37
7098734 TCCAGCCGAA
* *
7098744 AAAAAAAAATAA-A-AAAAATAAAAAATATTAATAGAT
1 AAAAAAAAATAATAGATAAAT-CAAAATATTAATAGAT
7098780 AATTAAAAAAATAATCAGATAAATCAAAATATTAATAGAT
1 AA--AAAAAAATAAT-AGATAAATCAAAATATTAATAGAT
* * *
7098820 -AAAAATAATAATAGATAAATTATAATATATAAATAGAT
1 AAAAAAAAATAATAGATAAATCA-AA-ATATTAATAGAT
*
7098858 AAATAATAAATATATA-ATAA
1 AAA-AAAAAATA-ATAGATAA
7098878 TATATAAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
36 11 0.14
37 12 0.15
38 21 0.26
39 3 0.04
40 26 0.32
41 8 0.10
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (37 bp):
AAAAAAAAATAATAGATAAATCAAAATATTAATAGAT
Found at i:7098859 original size:8 final size:8
Alignment explanation
Indices: 7098829--7098981 Score: 72
Period size: 8 Copynumber: 18.8 Consensus size: 8
7098819 TAAAAATAAT
*
7098829 AATAGATA
1 AATATATA
7098837 AAT-TAT-
1 AATATATA
7098843 AATATATA
1 AATATATA
*
7098851 AATAGATA
1 AATATATA
7098859 AATA-ATA
1 AATATATA
7098866 AATATATAA
1 AATATAT-A
7098875 TAATATATA
1 -AATATATA
7098884 AATAGT-TA
1 AATA-TATA
*
7098892 AGTAATAATA
1 AAT-AT-ATA
7098902 AATATATA
1 AATATATA
*
7098910 TTAACATA-A
1 --AATATATA
*
7098919 AA-AAATA
1 AATATATA
7098926 AATATATA
1 AATATATA
7098934 TTAATA-ATA
1 --AATATATA
7098943 GTAATA-ATA
1 --AATATATA
*
7098952 AATAAATA
1 AATATATA
7098960 AATA-ATA
1 AATATATA
*
7098967 AATACATA
1 AATATATA
7098975 AGATATA
1 A-ATATA
7098982 AAGGAAAAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 35
0.73 0.06 0.22
Matches are distributed among these distances:
6 5 0.04
7 28 0.24
8 43 0.36
9 22 0.19
10 20 0.17
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (8 bp):
AATATATA
Found at i:7098869 original size:4 final size:4
Alignment explanation
Indices: 7098829--7098975 Score: 51
Period size: 4 Copynumber: 37.2 Consensus size: 4
7098819 TAAAAATAAT
* * * *
7098829 AATA GATA AATTA TAATA TATA AATA GATA AAT- AATA AATA TAT- AAT-
1 AATA AATA AA-TA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
* ** * * * *
7098876 AATA TATA AATA GTTA AGT- AAT- AATA AATA TAT- ATTA ACATA AAAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA
*
7098922 AATA AATA TATATT AAT- AATA GTAAT- AATA AATA AATA AAT- AATA
1 AATA AATA -A-ATA AATA AATA --AATA AATA AATA AATA AATA AATA
*
7098967 AATA CATA A
1 AATA AATA A
7098976 GATATAAAGG
Statistics
Matches: 105, Mismatches: 24, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
3 23 0.22
4 66 0.63
5 9 0.09
6 7 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (4 bp):
AATA
Found at i:7098878 original size:33 final size:33
Alignment explanation
Indices: 7098822--7098975 Score: 131
Period size: 33 Copynumber: 4.6 Consensus size: 33
7098812 TAATAGATAA
* * *
7098822 AAAT-AATAATAGATAAATTATAATATATAAAT
1 AAATAAATAATAAATATATAATAATATATAAAT
*
7098854 AGATAAATAATAAATATATAATAATATATAAAT
1 AAATAAATAATAAATATATAATAATATATAAAT
* *
7098887 AGTTAAGT-AATAATAAATATATATTAACATA-AAA-
1 A---AA-TAAATAATAAATATATAATAATATATAAAT
*
7098921 AAATAAATATATATTAATA-ATAGTAATA-ATAAAT
1 AAATAAATA-ATA--AATATATAATAATATATAAAT
*
7098955 AAATAAATAATAAATACATAA
1 AAATAAATAATAAATATATAA
7098976 GATATAAAGG
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
30 1 0.01
31 10 0.10
32 10 0.10
33 39 0.39
34 14 0.14
35 3 0.03
36 22 0.22
37 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (33 bp):
AAATAAATAATAAATATATAATAATATATAAAT
Found at i:7098983 original size:15 final size:15
Alignment explanation
Indices: 7098812--7098975 Score: 76
Period size: 15 Copynumber: 10.9 Consensus size: 15
7098802 ATCAAAATAT
* *
7098812 TAATAGATAAAAATAA
1 TAATAAATAAATA-AA
*
7098828 TAATAGATAAATTATAA
1 TAATAAATAAA-TA-AA
*
7098845 TATATAAATAGATAAA
1 TA-ATAAATAAATAAA
*
7098861 TAATAAATATAT-AA
1 TAATAAATAAATAAA
* **
7098875 TAATATATAAATAGT
1 TAATAAATAAATAAA
7098890 TAAGT-AAT-AATAAA
1 TAA-TAAATAAATAAA
*
7098904 T-ATATATTAACAT-AA
1 TAATA-AATAA-ATAAA
*
7098919 -AA-AAATAAATATA
1 TAATAAATAAATAAA
*
7098932 T-ATTAAT-AATAGTAA
1 TAATAAATAAATA--AA
7098947 TAATAAATAAATAAA
1 TAATAAATAAATAAA
*
7098962 TAATAAATACATAA
1 TAATAAATAAATAA
7098976 GATATAAAGG
Statistics
Matches: 114, Mismatches: 18, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
12 3 0.03
13 11 0.10
14 23 0.20
15 35 0.31
16 23 0.20
17 12 0.11
18 7 0.06
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
TAATAAATAAATAAA
Found at i:7104055 original size:21 final size:20
Alignment explanation
Indices: 7104025--7104063 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7104015 AATTAAAGAT
*
7104025 TCAATAATGATGATAATGAA
1 TCAATAATGATGAAAATGAA
7104045 TCAATGAATGATGAAAATG
1 TCAAT-AATGATGAAAATG
7104064 CATAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (20 bp):
TCAATAATGATGAAAATGAA
Found at i:7108573 original size:26 final size:26
Alignment explanation
Indices: 7108538--7108588 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
7108528 TAATCAATCG
*
7108538 GATGTCAATGGGCCTAATCGAGCCTA
1 GATGTCAATGGACCTAATCGAGCCTA
*
7108564 GATGTCAATGGACCTAATCGGGCCT
1 GATGTCAATGGACCTAATCGAGCCT
7108589 GAATATCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
GATGTCAATGGACCTAATCGAGCCTA
Found at i:7111268 original size:14 final size:13
Alignment explanation
Indices: 7111244--7111273 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
7111234 CTCCCGTGTT
7111244 ATTTTTTTATACA
1 ATTTTTTTATACA
7111257 ATTTTCTTTATACA
1 ATTTT-TTTATACA
7111271 ATT
1 ATT
7111274 ACGGTCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTTATACA
Found at i:7111326 original size:162 final size:165
Alignment explanation
Indices: 7111124--7111421 Score: 431
Period size: 164 Copynumber: 1.8 Consensus size: 165
7111114 ATCATTATGA
* *
7111124 TTATCACAATTGTGAATTTTTTTTTAATTACACATAATTTACTATAAAATATAATAATTATAATT
1 TTATCACAATTGTGAATTTTTTTTTAATTACACATAATTTACCATAAAACATAATAATTATAATT
** * * * *
7111189 ATGGTTAT-AAAAC-CTTATTTTATGAATTTTAAAGTAATTTGTGAACTCCCGTGTTATTTTTTT
66 ATAATTATAAAAACTCTTATTTTATGAATTTTAAAGTAATTTATAAACTCCCATGTTATTTTTCT
7111252 ATACAATTTTCTTTATACAATTACGGTCATTACAG
131 ATACAATTTTCTTTATACAATTACGGTCATTACAG
* *** * * * *
7111287 TTATTACAATTGT-AATTTTTTTTTAATTTTGCATAATTTACCGTAAAGCATAGTAATTGTAATT
1 TTATCACAATTGTGAATTTTTTTTTAATTACACATAATTTACCATAAAACATAATAATTATAATT
7111351 ATAATTATAAAAACTCTTATTTTATGAATTTTAAAGTAATTTATAAACTCCCATGTTATTTTTCT
66 ATAATTATAAAAACTCTTATTTTATGAATTTTAAAGTAATTTATAAACTCCCATGTTATTTTTCT
7111416 ATACAA
131 ATACAA
7111422 AAGAGGTTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
162 48 0.41
163 17 0.15
164 52 0.44
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (165 bp):
TTATCACAATTGTGAATTTTTTTTTAATTACACATAATTTACCATAAAACATAATAATTATAATT
ATAATTATAAAAACTCTTATTTTATGAATTTTAAAGTAATTTATAAACTCCCATGTTATTTTTCT
ATACAATTTTCTTTATACAATTACGGTCATTACAG
Found at i:7112432 original size:22 final size:24
Alignment explanation
Indices: 7112407--7112452 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7112397 TTTAAAAATG
*
7112407 GAAAT-ACAAAA-ACATATATTAA
1 GAAATAACAAAATAAATATATTAA
7112429 GAAATAACAAAATAAATATATTAA
1 GAAATAACAAAATAAATATATTAA
7112453 TCATTTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 6 0.29
24 10 0.48
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (24 bp):
GAAATAACAAAATAAATATATTAA
Found at i:7115320 original size:34 final size:34
Alignment explanation
Indices: 7115276--7115375 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 34
7115266 CTTAATTAAG
*
7115276 CTTCTAAAAAATGGATATCCGAAAATTTTTTAGA
1 CTTCTAAAAAATGAATATCCGAAAATTTTTTAGA
* * * * *
7115310 CTTCTCAAAAATAAATATCCAAAAAGTTTTAAGA
1 CTTCTAAAAAATGAATATCCGAAAATTTTTTAGA
** * * * *
7115344 CTTCTTGAAAATGTATATTCGAGAATTCTTTA
1 CTTCTAAAAAATGAATATCCGAAAATTTTTTA
7115376 AGTTTTTTGA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (34 bp):
CTTCTAAAAAATGAATATCCGAAAATTTTTTAGA
Found at i:7116204 original size:20 final size:20
Alignment explanation
Indices: 7116167--7116204 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7116157 TAAAATAATT
* *
7116167 ATTTAATTATTAATATTTTA
1 ATTTAATTATAAAAATTTTA
7116187 ATTTAATTATAAAAATTT
1 ATTTAATTATAAAAATTT
7116205 AAGTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTAATTATAAAAATTTTA
Found at i:7116647 original size:26 final size:25
Alignment explanation
Indices: 7116618--7116667 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
7116608 AATTCCTTCT
7116618 AAACTCACAAAAAATTTATGGAAAAA
1 AAACTCACAAAAAATTTAT-GAAAAA
* *
7116644 AAACTTATAAAAAATTTATGAAAA
1 AAACTCACAAAAAATTTATGAAAA
7116668 TCGAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (25 bp):
AAACTCACAAAAAATTTATGAAAAA
Found at i:7121432 original size:20 final size:20
Alignment explanation
Indices: 7121386--7121434 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
7121376 CCTTTGGCTG
*
7121386 CCACACCCTAGCTTCTGCTA
1 CCACACGCTAGCTTCTGCTA
7121406 CCACACGCTAGCTTCTGCTA
1 CCACACGCTAGCTTCTGCTA
7121426 CCACACGCT
1 CCACACGCT
7121435 TATTCATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.45, G:0.12, T:0.22
Consensus pattern (20 bp):
CCACACGCTAGCTTCTGCTA
Found at i:7125354 original size:28 final size:28
Alignment explanation
Indices: 7125300--7125356 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
7125290 TCCGTTACTC
* *
7125300 TAATTTGTCACGTGGAATGTTTCTTTCA
1 TAATTTATCACGTGGAAGGTTTCTTTCA
7125328 TAATTTATCACGTGGAAGGCTTT-TTTCA
1 TAATTTATCACGTGGAAGG-TTTCTTTCA
7125356 T
1 T
7125357 TTATTGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (28 bp):
TAATTTATCACGTGGAAGGTTTCTTTCA
Found at i:7125451 original size:74 final size:75
Alignment explanation
Indices: 7125343--7125488 Score: 190
Period size: 74 Copynumber: 2.0 Consensus size: 75
7125333 TATCACGTGG
* * *
7125343 AAGGCTTTTTTCATTTATTGCTAATTAATTTTAAGTT-GA-ACGTTTAACATGGTATCAAAACCA
1 AAGGCTTTCTTCACTTATTACTAATTAATTTTAAGTTAGATA--TTTAACATGGTATCAAAACCA
*
7125406 TAATTTTCTAGA
64 AAATTTTCTAGA
* * *
7125418 AAGG-TTTCTTCACTTATTACTAATTAATTTTAAGTTAGATATTTAATATGGTATCAGAATCAAA
1 AAGGCTTTCTTCACTTATTACTAATTAATTTTAAGTTAGATATTTAACATGGTATCAAAACCAAA
7125482 ATTTTCT
66 ATTTTCT
7125489 TTCATTATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
74 55 0.89
75 6 0.10
76 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (75 bp):
AAGGCTTTCTTCACTTATTACTAATTAATTTTAAGTTAGATATTTAACATGGTATCAAAACCAAA
ATTTTCTAGA
Found at i:7126799 original size:2 final size:2
Alignment explanation
Indices: 7126786--7126820 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7126776 GTTTTCTATG
*
7126786 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7126821 TTCTGCTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:7128051 original size:10 final size:10
Alignment explanation
Indices: 7128036--7128061 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7128026 TACCTATTAT
7128036 ATTTAAAATA
1 ATTTAAAATA
7128046 ATTTAAAATA
1 ATTTAAAATA
7128056 ATTTAA
1 ATTTAA
7128062 TTCTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTAAAATA
Found at i:7130219 original size:30 final size:30
Alignment explanation
Indices: 7130153--7130230 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
7130143 CATATATAAG
* ** *
7130153 ATATGAAAATATATTTAAATAAAATGTGTC
1 ATATGAAAATATGTTTAAATAAAACATATC
* *
7130183 ACATGAAAATATGTTTAAATTAAACATATC
1 ATATGAAAATATGTTTAAATAAAACATATC
*
7130213 ATATGAAAATACGTTTAA
1 ATATGAAAATATGTTTAA
7130231 CACAAGACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (30 bp):
ATATGAAAATATGTTTAAATAAAACATATC
Found at i:7130608 original size:25 final size:25
Alignment explanation
Indices: 7130576--7130626 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
7130566 ATCCAACAAT
7130576 ATATGATCATTGATCAAGCAAATCA
1 ATATGATCATTGATCAAGCAAATCA
*
7130601 ATATGATCATTGATCAAGTAAATCA
1 ATATGATCATTGATCAAGCAAATCA
7130626 A
1 A
7130627 ATCCAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
ATATGATCATTGATCAAGCAAATCA
Found at i:7130683 original size:22 final size:23
Alignment explanation
Indices: 7130648--7130690 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
7130638 ATGAATATAC
*
7130648 AATAATATATTATAATGATAATA
1 AATAACATATTATAATGATAATA
7130671 AATAACAT-TTATAATGATAA
1 AATAACATATTATAATGATAA
7130691 AAAACTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
AATAACATATTATAATGATAATA
Found at i:7131331 original size:18 final size:19
Alignment explanation
Indices: 7131299--7131344 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7131289 ATTGAAAAAA
*
7131299 TAAAATAATATTTATA-TAT
1 TAAAA-AATAATTATAGTAT
7131318 TAAAAAATAATTATAGTAT
1 TAAAAAATAATTATAGTAT
*
7131337 TATAAAAT
1 TAAAAAAT
7131345 TCATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAAAATAATTATAGTAT
Found at i:7131342 original size:21 final size:20
Alignment explanation
Indices: 7131298--7131344 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
7131288 TATTGAAAAA
*
7131298 ATAAAATAATATTTATATAT
1 ATAAAATAATAATTATATAT
7131318 -TAAAA-AATAATTATAGTATT
1 ATAAAATAATAATTATA-TA-T
7131338 ATAAAAT
1 ATAAAAT
7131345 TCATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 1 0.05
21 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAAATAATAATTATATAT
Found at i:7136146 original size:54 final size:52
Alignment explanation
Indices: 7136083--7136189 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 52
7136073 AAAATAAGTA
* *
7136083 TGCCAAATAGATTCATAAGACAAACATGAATGAAAACATCTGTACAAGAATGAG
1 TGCCAAATAGATTCATAAGACAAACAAGAAAGAAAACATCTG--CAAGAATGAG
* *
7136137 TGCCAAATAGATTCATAAGATAAACAAGAAAGACAACATCTGCAAGAATGAG
1 TGCCAAATAGATTCATAAGACAAACAAGAAAGAAAACATCTGCAAGAATGAG
7136189 T
1 T
7136190 CAATGAGTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 11 0.22
54 38 0.78
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (52 bp):
TGCCAAATAGATTCATAAGACAAACAAGAAAGAAAACATCTGCAAGAATGAG
Found at i:7141275 original size:172 final size:172
Alignment explanation
Indices: 7140982--7141323 Score: 423
Period size: 172 Copynumber: 2.0 Consensus size: 172
7140972 CACAGTTTAC
* ** * *
7140982 AGTTTCATACACTTTAAATTATACACATATTCTTCTATGGGTTGTTAGGTTTATAAAAATGTGTT
1 AGTTTCATACACTTTAAATTATACACATATTATTCTACAGGTTGTTAGGCTTATAAAAATGTGCT
* * ** * ** *
7141047 TTAATTTTGATTTACTCAATACGTATTATGAACAATGAAAAGAAGTAGAGATAAAAGTAAAAAAT
66 TTAATTATGAGTTACTCAATACGTATTATGAACAACAAAAACAAACAAAGATAAAAGTAAAAAAT
* * *
7141112 TTAGAATTATTGTACATATAGTTCAATGTGCTCTGCTTTGCT
131 TTAGAATTATTGTACATACAATTCAATGTGCTCTACTTTGCT
* * * * * * *
7141154 AGTTTCGTACACTTTAAATTGTATAGATATTATTCTACAGGTTGTTATGCTTATAGAGATGTGCT
1 AGTTTCATACACTTTAAATTATACACATATTATTCTACAGGTTGTTAGGCTTATAAAAATGTGCT
* * * **
7141219 TTAATTATGAGTTGCTTAATATGTATTATGAACAACAAAAACAAACAAAGATAAAAGTAAAAGTT
66 TTAATTATGAGTTACTCAATACGTATTATGAACAACAAAAACAAACAAAGATAAAAGTAAAAAAT
*
7141284 TTAGAATTATTGTATATACAATTCAATGTGCTCTACTTTG
131 TTAGAATTATTGTACATACAATTCAATGTGCTCTACTTTG
7141324 TAAATGTCTT
Statistics
Matches: 141, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
172 141 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (172 bp):
AGTTTCATACACTTTAAATTATACACATATTATTCTACAGGTTGTTAGGCTTATAAAAATGTGCT
TTAATTATGAGTTACTCAATACGTATTATGAACAACAAAAACAAACAAAGATAAAAGTAAAAAAT
TTAGAATTATTGTACATACAATTCAATGTGCTCTACTTTGCT
Found at i:7141857 original size:13 final size:13
Alignment explanation
Indices: 7141839--7141863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7141829 TTGTTTATTT
7141839 TTTATTTTTTTTC
1 TTTATTTTTTTTC
7141852 TTTATTTTTTTT
1 TTTATTTTTTTT
7141864 TGGTTAGTTG
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:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTATTTTTTTTC
Found at i:7151243 original size:18 final size:17
Alignment explanation
Indices: 7151216--7151249 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7151206 AGATTTACAT
*
7151216 CAAATTTTTAATCAAAA
1 CAAATTTTTAAACAAAA
7151233 CAAATTTTTTAAACAAA
1 CAAA-TTTTTAAACAAA
7151250 TAACCATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
CAAATTTTTAAACAAAA
Found at i:7151632 original size:27 final size:28
Alignment explanation
Indices: 7151580--7151638 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
7151570 AAAATGCATC
7151580 AAATATTTTTTATAAAGAAACAAAAATA
1 AAATATTTTTTATAAAGAAACAAAAATA
*
7151608 AAATATTTTTTATAAAGAAACAAAAACA
1 AAATATTTTTTATAAAGAAACAAAAATA
7151636 AAA
1 AAA
7151639 CTCATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (28 bp):
AAATATTTTTTATAAAGAAACAAAAATA
Found at i:7151646 original size:27 final size:28
Alignment explanation
Indices: 7151588--7151646 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7151578 TCAAATATTT
* **
7151588 TTTATAAAGAAACAAAAATAAAATATTT
1 TTTATAAAGAAACAAAAACAAAATATCA
*
7151616 TTTATAAAGAAACAAAAACAAAA-CTCA
1 TTTATAAAGAAACAAAAACAAAATATCA
7151643 TTTA
1 TTTA
7151647 AAAATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (28 bp):
TTTATAAAGAAACAAAAACAAAATATCA
Found at i:7153392 original size:11 final size:12
Alignment explanation
Indices: 7153359--7153394 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
7153349 ATATTTGCAT
7153359 TTTAATTTTTTAG
1 TTTAA-TTTTTAG
*
7153372 TTTAATTTTTGG
1 TTTAATTTTTAG
7153384 TTTAATTTTTA
1 TTTAATTTTTA
7153395 TTTTGTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTAATTTTTAG
Found at i:7154099 original size:55 final size:55
Alignment explanation
Indices: 7154034--7154168 Score: 175
Period size: 55 Copynumber: 2.5 Consensus size: 55
7154024 TTGCATGCTA
* * * *
7154034 ATATTATATTTGTATGATTTATATGTTATTATTTGCATGATTATATATTTAATTGC
1 ATATT-TATTTGCATGATTTATATATTATTATTTGCATGACTATATATTAAATTGC
* * *
7154090 ATATTTATTTGCATGGTTTATATATTTTTATTTGTATGACTATATATTAAATTGC
1 ATATTTATTTGCATGATTTATATATTATTATTTGCATGACTATATATTAAATTGC
*
7154145 ATATTTA-TTACATG-TTTATATATT
1 ATATTTATTTGCATGATTTATATATT
7154169 TAATTGGATG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
53 10 0.14
54 6 0.08
55 50 0.70
56 5 0.07
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (55 bp):
ATATTTATTTGCATGATTTATATATTATTATTTGCATGACTATATATTAAATTGC
Found at i:7154209 original size:24 final size:24
Alignment explanation
Indices: 7154181--7154232 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7154171 ATTGGATGTC
7154181 TATTTGCATGATTATTAATATATT
1 TATTTGCATGATTATTAATATATT
* * *
7154205 TATTTGCATGGTTATTTATTTATT
1 TATTTGCATGATTATTAATATATT
7154229 TATT
1 TATT
7154233 ATTATTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.60
Consensus pattern (24 bp):
TATTTGCATGATTATTAATATATT
Found at i:7154247 original size:18 final size:18
Alignment explanation
Indices: 7154226--7154273 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7154216 TTATTTATTT
7154226 ATTTATTATTATTGCATG
1 ATTTATTATTATTGCATG
7154244 ATTT-TATATTTATTGCATG
1 ATTTAT-TA-TTATTGCATG
*
7154263 -TTTAATATTAT
1 ATTTATTATTAT
7154274 ATTTGAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.19
18 11 0.42
19 10 0.38
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTATTATTATTGCATG
Found at i:7154256 original size:19 final size:18
Alignment explanation
Indices: 7154234--7154276 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
7154224 TTATTTATTA
*
7154234 TTATTGCATGATTTTATAT
1 TTATTGCATG-TTTAATAT
7154253 TTATTGCATGTTTAATAT
1 TTATTGCATGTTTAATAT
7154271 TATATT
1 T-TATT
7154277 TGAATGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (18 bp):
TTATTGCATGTTTAATAT
Found at i:7154453 original size:20 final size:20
Alignment explanation
Indices: 7154416--7154468 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 20
7154406 ATTTGCATGA
* * *
7154416 TAATATATTTACATAATTAT
1 TAATATATTTGCATGATAAT
7154436 T-AT-TA-TTGCATGATAAT
1 TAATATATTTGCATGATAAT
7154453 TAATATATTTGCATGA
1 TAATATATTTGCATGA
7154469 CATTCTCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 10 0.37
18 4 0.15
19 4 0.15
20 9 0.33
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (20 bp):
TAATATATTTGCATGATAAT
Found at i:7155041 original size:31 final size:32
Alignment explanation
Indices: 7155000--7155084 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 32
7154990 ATTCTAAAAC
*
7155000 TTATAGAAAATGTAATACTATTAT-TTATTTAT
1 TTATATAAAATGTAATACT-TTATATTATTTAT
* * *
7155032 TTA-ATAAAAT-TATTTTCTTTGTATTATTTAT
1 TTATATAAAATGTA-ATACTTTATATTATTTAT
7155063 TTATATAAAATGTTAATA-TTTA
1 TTATATAAAATG-TAATACTTTA
7155085 CATGAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
30 5 0.12
31 20 0.49
32 13 0.32
33 1 0.02
34 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (32 bp):
TTATATAAAATGTAATACTTTATATTATTTAT
Found at i:7156964 original size:11 final size:11
Alignment explanation
Indices: 7156948--7156973 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7156938 TCAATGCAAA
7156948 AAAAAAATTAC
1 AAAAAAATTAC
7156959 AAAAAAATTAC
1 AAAAAAATTAC
7156970 AAAA
1 AAAA
7156974 TTGAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTAC
Found at i:7161564 original size:22 final size:21
Alignment explanation
Indices: 7161527--7161582 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
7161517 CTCCTTTGTA
** *
7161527 TTTTTTTTTTCAATTTTATTAG
1 TTTTTTTTTTTGATTTT-TTAC
7161549 TTTTTTTTTTTGATTTTTTAC
1 TTTTTTTTTTTGATTTTTTAC
*
7161570 TTCTTTTTATTTG
1 TT-TTTTTTTTTG
7161583 TTGATACTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTTGATTTTTTAC
Found at i:7161581 original size:17 final size:20
Alignment explanation
Indices: 7161555--7161596 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7161545 TTAGTTTTTT
7161555 TTTTTGATTT-TT-TACTTC
1 TTTTTGATTTGTTATACTTC
7161573 TTTTT-ATTTGTTGATACTTC
1 TTTTTGATTTGTT-ATACTTC
7161593 TTTT
1 TTTT
7161597 AGTGATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
20 10 0.48
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTTGATTTGTTATACTTC
Found at i:7161965 original size:19 final size:18
Alignment explanation
Indices: 7161924--7161959 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7161914 TAAAAATTGT
*
7161924 AAAATTTTAATTTTATAA
1 AAAATTTTAATTTAATAA
7161942 AAAATTTTAAATTTAATA
1 AAAATTTT-AATTTAATA
7161960 TTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTTTAATTTAATAA
Found at i:7162505 original size:17 final size:17
Alignment explanation
Indices: 7162465--7162509 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7162455 CCTGATTTAA
*
7162465 AAAAAATAAAATGTAAT
1 AAAAAATAAAATATAAT
** *
7162482 AGCAAATAAACTATAAT
1 AAAAAATAAAATATAAT
7162499 AAAAAATAAAA
1 AAAAAATAAAA
7162510 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAATATAAT
Found at i:7174802 original size:2 final size:2
Alignment explanation
Indices: 7174795--7174826 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7174785 CTCTTTTGCA
7174795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7174827 GGGTCTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7174940 original size:135 final size:136
Alignment explanation
Indices: 7174689--7174967 Score: 488
Period size: 135 Copynumber: 2.0 Consensus size: 136
7174679 CACTTTTTGA
7174689 ATGGGTCTAGTTTGGAATTATACATTAAAAAAAAAAACATATTTGAACTTCAAATTACAATACCT
1 ATGGGTCTAGTTTGGAATTATACATTAAAAAAAAAAACATATTTGAACTTCAAATTACAATACCT
7174754 ATAATCACTTCTCATATTCTCATGTTAGGGTCTCTTTTGCAATATATATATATATATATATATAT
66 ATAATCACTTCTCATATTCTCATGTTAGGGTCTCTTTTGCAATATATATATATATATATATATAT
7174819 ATATAT
131 ATATAT
*
7174825 ATGGGTCTAGTTTGGAATTATACATT-TAAAAAAAAACATATTTGAACTTCAAATTACAATACCT
1 ATGGGTCTAGTTTGGAATTATACATTAAAAAAAAAAACATATTTGAACTTCAAATTACAATACCT
7174889 ATAATCACTTCTCATATTCTCATGTTAGGGTCTCTTTCTCTTTTGCAATATATATATATATATAT
66 ATAATCACTTCTCATATTCTCATGTTAGGG------TCTCTTTTGCAATATATATATATATATAT
7174954 ATATATATATAT
125 ATATATATATAT
7174966 AT
1 AT
7174968 ATATATATAT
Statistics
Matches: 136, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
135 67 0.49
136 26 0.19
141 43 0.32
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (136 bp):
ATGGGTCTAGTTTGGAATTATACATTAAAAAAAAAAACATATTTGAACTTCAAATTACAATACCT
ATAATCACTTCTCATATTCTCATGTTAGGGTCTCTTTTGCAATATATATATATATATATATATAT
ATATAT
Found at i:7174943 original size:2 final size:2
Alignment explanation
Indices: 7174936--7174989 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
7174926 CTCTTTTGCA
7174936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7174978 AT AT AT AT AT AT
1 AT AT AT AT AT AT
7174990 TAGAAGGTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7175867 original size:61 final size:62
Alignment explanation
Indices: 7175784--7175920 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 62
7175774 CTAGAAAATG
* * *
7175784 CCTTAAATAATCCTTTATAAAAAATTAAATGAGGTTAT-GAAGGCGTTAT-TGGCCAAAAACA
1 CCTTAAATAATCCCTTACAAAAAATTAAATGAGGTTATCCAAGGCGTT-TCTGGCCAAAAACA
* * * * *
7175845 CCTTACATATTCCCTTACAAAAAATTGAATGGGGTTATCCAAGGTGTTTCTGGCCAAAAACA
1 CCTTAAATAATCCCTTACAAAAAATTAAATGAGGTTATCCAAGGCGTTTCTGGCCAAAAACA
*
7175907 CCTTGAATAATCCC
1 CCTTAAATAATCCC
7175921 ATCTCAATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 33 0.52
62 30 0.48
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (62 bp):
CCTTAAATAATCCCTTACAAAAAATTAAATGAGGTTATCCAAGGCGTTTCTGGCCAAAAACA
Found at i:7176090 original size:124 final size:124
Alignment explanation
Indices: 7175858--7176090 Score: 278
Period size: 124 Copynumber: 1.9 Consensus size: 124
7175848 TACATATTCC
** ** *
7175858 CTTACAAAAAATTGAATGGGGTTATCCAAGGTGTTTCTGGCCAAAAACACCTTGAATAATCCCAT
1 CTTACAAAAAATTGAATGGGGTTATCCAAGGCATTTCTGGAAAAAAACACCTTCAATAATCCCAT
*
7175923 CTCAATTATTTTATGGATTATTCGAGGTGATTTTGGCTAGAAAACAACTTGAATATTAG
66 CTCAATTATTTTATGGATTATTCAAGGTGATTTTGGCTAGAAAACAACTTGAATATTAG
* * * *
7175982 CTTACAAAAAATTGAATTGGGTTATTCAAGGCATTTCTGGTAAAAAAATATCTTCAATAAT-CC-
1 CTTACAAAAAATTGAATGGGGTTATCCAAGGCATTTCTGG-AAAAAAACACCTTCAATAATCCCA
* *
7176045 TTTCAATT-TTTTACTAGGGGATTATTCAAGGT-ATTTTTGCT-GAAAA
65 TCTCAATTATTTTA-T---GGATTATTCAAGGTGATTTTGGCTAGAAAA
7176091 ACGCCTTGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
122 5 0.05
123 8 0.09
124 43 0.47
125 23 0.25
126 13 0.14
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (124 bp):
CTTACAAAAAATTGAATGGGGTTATCCAAGGCATTTCTGGAAAAAAACACCTTCAATAATCCCAT
CTCAATTATTTTATGGATTATTCAAGGTGATTTTGGCTAGAAAACAACTTGAATATTAG
Found at i:7176163 original size:61 final size:59
Alignment explanation
Indices: 7176003--7176290 Score: 213
Period size: 63 Copynumber: 4.7 Consensus size: 59
7175993 TTGAATTGGG
* ** * * * *
7176003 TTATTCAAGGCATTTCTGGTAAAAAAATATCTTCAATAATCCTTTC-AATTTTTTACTAGGGGA
1 TTATTCAAGGCATTT-TTGCCAAAAAACACCTTGAATAATCCCTTCTAATTTTTT--TA--GGA
* ** *
7176066 TTATTCAAGGTATTTTTGCTGAAAAACGCCTTGAATAATCCCTTCTAATTTTTTTGAGGA
1 TTATTCAAGGCATTTTTGCCAAAAAACACCTTGAATAATCCCTTCTAATTTTTTT-AGGA
* * ** *
7176126 TTATTCAGGGCATTGTTGCCCAAAAAACACCTTGAATAAT--CTTCTTGTTTTTTTAAGA
1 TTATTCAAGGCATTTTTG-CCAAAAAACACCTTGAATAATCCCTTCTAATTTTTTTAGGA
* ** * ** * * *
7176184 TTATTCAAAGTGTTTTTGGCAAAAAATGCTTTCAATAATCCCTTCCAAATTTTTTTATGAGA
1 TTATTCAAGGCATTTTTGCCAAAAAACACCTTGAATAATCCCTT-CTAATTTTTTTA-G-GA
**
7176246 TTATTCAAGGCATTTTTGTCCAGCAAACACCTTGAATAATCCCTT
1 TTATTCAAGGCATTTTTG-CCAAAAAACACCTTGAATAATCCCTT
7176291 ACAAAAAATT
Statistics
Matches: 173, Mismatches: 43, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
57 16 0.09
58 16 0.09
59 15 0.09
60 27 0.16
61 19 0.11
62 39 0.23
63 41 0.24
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (59 bp):
TTATTCAAGGCATTTTTGCCAAAAAACACCTTGAATAATCCCTTCTAATTTTTTTAGGA
Found at i:7176228 original size:118 final size:120
Alignment explanation
Indices: 7176064--7176286 Score: 292
Period size: 120 Copynumber: 1.9 Consensus size: 120
7176054 TTTACTAGGG
* * * *
7176064 GATTATTCAAGGTATTTTTGCTGAAAAACGCCTTGAATAATCCCTT-CTAA-TTTTTT-TGAGGA
1 GATTATTCAAAGTATTTTTGCTAAAAAACGCCTTCAATAATCCCTTCCAAATTTTTTTATGA-GA
*
7176126 TTATTCAGGGCATTGTTGCCCAAAAAACACCTTGAATAATCTTCTTGTTTTTTTAA
65 TTATTCAAGGCATTGTTGCCCAAAAAACACCTTGAATAATCTTCTTGTTTTTTTAA
* * *
7176182 GATTATTCAAAGTGTTTTTGGC-AAAAAATGCTTTCAATAATCCCTTCCAAATTTTTTTATGAGA
1 GATTATTCAAAGTATTTTT-GCTAAAAAACGCCTTCAATAATCCCTTCCAAATTTTTTTATGAGA
* * **
7176246 TTATTCAAGGCATTTTTGTCCAGCAAACACCTTGAATAATC
65 TTATTCAAGGCATTGTTGCCCAAAAAACACCTTGAATAATC
7176287 CCTTACAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 37 0.42
119 5 0.06
120 44 0.49
121 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (120 bp):
GATTATTCAAAGTATTTTTGCTAAAAAACGCCTTCAATAATCCCTTCCAAATTTTTTTATGAGAT
TATTCAAGGCATTGTTGCCCAAAAAACACCTTGAATAATCTTCTTGTTTTTTTAA
Found at i:7176262 original size:62 final size:60
Alignment explanation
Indices: 7176003--7176263 Score: 176
Period size: 62 Copynumber: 4.3 Consensus size: 60
7175993 TTGAATTGGG
* * *** * *
7176003 TTATTCAAGGCATTTCTGGTAAAAAAATATCTTCAATAATCCTT-TCAATTTTTTACTAGGGGA
1 TTATTCAAGGCATTTTTGG-CAAAAAACGCCTTCAATAATCCTTCT-AATTTTTT--TATGAGA
* * *
7176066 TTATTCAAGGTATTTTT-GCTGAAAAACGCCTTGAATAATCCCTTCTAA-TTTTTT-TGAGGA
1 TTATTCAAGGCATTTTTGGC-AAAAAACGCCTTCAATAAT-CCTTCTAATTTTTTTATGA-GA
* * * * * **
7176126 TTATTCAGGGCATTGTTGCCCAAAAAACACCTTGAATAAT-CTTCTTGTTTTTTTA--AGA
1 TTATTCAAGGCATTTTTG-GCAAAAAACGCCTTCAATAATCCTTCTAATTTTTTTATGAGA
* ** * * *
7176184 TTATTCAAAGTGTTTTTGGCAAAAAATGCTTTCAATAATCCCTTCCAAATTTTTTTATGAGA
1 TTATTCAAGGCATTTTTGGCAAAAAACGCCTTCAATAAT-CCTT-CTAATTTTTTTATGAGA
7176246 TTATTCAAGGCATTTTTG
1 TTATTCAAGGCATTTTTG
7176264 TCCAGCAAAC
Statistics
Matches: 151, Mismatches: 34, Indels: 27
0.71 0.16 0.13
Matches are distributed among these distances:
57 16 0.11
58 15 0.10
59 10 0.07
60 32 0.21
61 17 0.11
62 39 0.26
63 21 0.14
64 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (60 bp):
TTATTCAAGGCATTTTTGGCAAAAAACGCCTTCAATAATCCTTCTAATTTTTTTATGAGA
Found at i:7183878 original size:18 final size:18
Alignment explanation
Indices: 7183850--7183898 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
7183840 TTCCAAAAAA
7183850 TTTTA-TATTTTT-ATGTT
1 TTTTATTATTTTTAAT-TT
7183867 TTTTATTATTTTTAATTT
1 TTTTATTATTTTTAATTT
*
7183885 TTTAATTAATTTTT
1 TTTTATT-ATTTTT
7183899 TTAGTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 15 0.54
19 8 0.29
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTTAATTT
Found at i:7183885 original size:17 final size:18
Alignment explanation
Indices: 7183850--7183898 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
7183840 TTCCAAAAAA
*
7183850 TTTTA-TATTTTTATGTT
1 TTTTATTATTTTTATATT
7183867 TTTTATTATTTTTA-ATT
1 TTTTATTATTTTTATATT
7183884 TTTTAATTAATTTTT
1 TTTT-ATT-ATTTTT
7183899 TTAGTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 11 0.39
18 11 0.39
19 6 0.21
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTTATATT
Found at i:7184745 original size:8 final size:8
Alignment explanation
Indices: 7184734--7184759 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7184724 TTTTTTTGTT
7184734 TTTTTTAA
1 TTTTTTAA
7184742 TTTTTTAA
1 TTTTTTAA
7184750 TTTTTTAA
1 TTTTTTAA
7184758 TT
1 TT
7184760 GTCAAAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:7184980 original size:42 final size:42
Alignment explanation
Indices: 7184896--7185140 Score: 348
Period size: 42 Copynumber: 5.8 Consensus size: 42
7184886 TTTAAAAGAA
* * * * *
7184896 AAAAT-AACAAAGCTTCTCTCAATAAAGGTTCAATGACTTTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGAC-TTTG
*
7184938 AAAATAAACAAAGCTCCTCTAAATAGAGGTTCAACGACTTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG
* * *
7184980 AAAATAAATAAAGTTCCTCTAAACAGAGGCTCAACGACTTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG
*
7185022 AAAATAAACAAAGCTCCTCTAAATAGAGGATCAACGACTTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG
* *
7185064 AAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACTACTTTG
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG
* *
7185106 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAAC
1 AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAAC
7185141 AATTTTGGAA
Statistics
Matches: 184, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 156 0.85
43 28 0.15
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (42 bp):
AAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG
Found at i:7185124 original size:126 final size:126
Alignment explanation
Indices: 7184896--7185175 Score: 377
Period size: 126 Copynumber: 2.2 Consensus size: 126
7184886 TTTAAAAGAA
* * * *
7184896 AAAATAACAAAGCTTCTCTCAATAAAGGTTCAATGACTTTTGAAAATAAACAAAGCTCCTCTAAA
1 AAAATAACAAAGCTCCTCTAAATAAAGGATCAACGACTTTTGAAAATAAACAAAGCTCCTCTAAA
* * * *
7184961 TAGAGGTTCAACGACTTTGAAAATAAATAAAGTTCCTCTAAACAGAGGCTCAACGACTTTG
66 TAGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG
* *
7185022 AAAATAAACAAAGCTCCTCTAAATAGAGGATCAACGAC-TTTGAAAATAAATAAAGCTCCTCTAA
1 AAAAT-AACAAAGCTCCTCTAAATAAAGGATCAACGACTTTTGAAAATAAACAAAGCTCCTCTAA
* * *
7185086 ATAGAGGCTCAACTACTTTGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACAATTTTG
65 ATAGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG
* *
7185148 -GAA-AGCAAATTGCTCCTCTAAATAAAGG
1 AAAATAACAAA--GCTCCTCTAAATAAAGG
7185176 CACCACAACT
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
123 5 0.04
125 18 0.13
126 85 0.63
127 27 0.20
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (126 bp):
AAAATAACAAAGCTCCTCTAAATAAAGGATCAACGACTTTTGAAAATAAACAAAGCTCCTCTAAA
TAGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG
Found at i:7185175 original size:41 final size:40
Alignment explanation
Indices: 7185118--7185381 Score: 341
Period size: 41 Copynumber: 6.5 Consensus size: 40
7185108 AATAAACAAA
* * * *
7185118 GCTCCTCTAAACAAAGGCTCAACAATTTTGGAAAGCAAATT
1 GCTCCTCTAAACAGAGGCACCACAATTTT-GAAAGTAAATT
* * *
7185159 GCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAATTTTGAAAGTAAATT
*
7185199 GCTCCTCCAAACAGAGGCACCACAACTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAA-TTTTGAAAGTAAATT
**
7185240 GCTCCTCTAAACAGAGGCACCGTAACTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAA-TTTTGAAAGTAAATT
* *
7185281 GCTCCTCTAAATAGAGGCACCACAACTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAATTTTGAAAGTAAATT
*
7185321 GCTCCTCTAAACAGAGGCACCTCAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAA-TTTTG-AAAGTAAATT
*
7185363 GC-CCTTCTAAATAGAGGCA
1 GCTCC-TCTAAACAGAGGCA
7185382 ACAATGACTT
Statistics
Matches: 199, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 69 0.35
41 105 0.53
42 25 0.13
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCACCACAATTTTGAAAGTAAATT
Found at i:7185239 original size:81 final size:82
Alignment explanation
Indices: 7185118--7185381 Score: 365
Period size: 81 Copynumber: 3.2 Consensus size: 82
7185108 AATAAACAAA
* * * * * *
7185118 GCTCCTCTAAACAAAGGCTCAACAA-TTTTGGAAAGCAAATTGCTCCTCTAAATAAAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACAACTTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
7185182 AAC-TTTGAAAGTAAATT
65 AACTTTTGAAAGTAAATT
* **
7185199 GCTCCTCCAAACAGAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCGTA
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACA
7185264 ACTTTTGAAAGTAAATT
66 ACTTTTGAAAGTAAATT
* *
7185281 GCTCCTCTAAATAGAGGCACCACAAC-TTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCTCA
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACA
7185345 ACTTTTGAAAAGTAAATT
66 ACTTTTG-AAAGTAAATT
*
7185363 GC-CCTTCTAAATAGAGGCA
1 GCTCC-TCTAAACAGAGGCA
7185382 ACAATGACTT
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
81 98 0.59
82 68 0.41
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACA
ACTTTTGAAAGTAAATT
Found at i:7185284 original size:122 final size:124
Alignment explanation
Indices: 7185143--7185381 Score: 403
Period size: 122 Copynumber: 1.9 Consensus size: 124
7185133 GGCTCAACAA
7185143 TTTTGGAAAGCAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTCCA
1 TTTTGGAAAGCAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTCCA
7185208 AACAGAGGCACCACAACTTTTG-AAAGTAAATTGCTCC-TCTAAACAGAGGCACCGTAAC
66 AACAGAGGCACCACAACTTTTGAAAAGTAAATTGC-CCTTCTAAACAGAGGCACCGTAAC
* * *
7185266 TTTT-GAAAGTAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAGTAAATTGCTCCTCTA
1 TTTTGGAAAGCAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTCCA
* *
7185330 AACAGAGGCACCTCAACTTTTGAAAAGTAAATTGCCCTTCTAAATAGAGGCA
66 AACAGAGGCACCACAACTTTTGAAAAGTAAATTGCCCTTCTAAACAGAGGCA
7185382 ACAATGACTT
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
122 80 0.73
123 29 0.27
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (124 bp):
TTTTGGAAAGCAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTCCA
AACAGAGGCACCACAACTTTTGAAAAGTAAATTGCCCTTCTAAACAGAGGCACCGTAAC
Found at i:7186023 original size:22 final size:21
Alignment explanation
Indices: 7185974--7186015 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
7185964 GGTTTCACTC
*
7185974 CTCAACGATTCTCATTTTGAGA
1 CTCAAAGATTCTCA-TTTGAGA
7185996 CTCAAAGATTCTCATTTGAG
1 CTCAAAGATTCTCATTTGAG
7186016 TTCTCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAGA
Found at i:7193279 original size:11 final size:11
Alignment explanation
Indices: 7193263--7193288 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7193253 GTTGGAAAAA
7193263 TATTTATTTAT
1 TATTTATTTAT
7193274 TATTTATTTAT
1 TATTTATTTAT
7193285 TATT
1 TATT
7193289 ACCATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTATTTAT
Found at i:7193779 original size:18 final size:18
Alignment explanation
Indices: 7193751--7193799 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
7193741 TTACAAAAAA
7193751 TTTTA-TATTTTT-ATGTT
1 TTTTATTATTTTTAAT-TT
7193768 TTTTATTATTTTTAATTT
1 TTTTATTATTTTTAATTT
*
7193786 TTTAATTAATTTTT
1 TTTTATT-ATTTTT
7193800 TTAGTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 15 0.54
19 8 0.29
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTTAATTT
Found at i:7193786 original size:17 final size:18
Alignment explanation
Indices: 7193751--7193799 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
7193741 TTACAAAAAA
*
7193751 TTTTA-TATTTTTATGTT
1 TTTTATTATTTTTATATT
7193768 TTTTATTATTTTTA-ATT
1 TTTTATTATTTTTATATT
7193785 TTTTAATTAATTTTT
1 TTTT-ATT-ATTTTT
7193800 TTAGTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 11 0.39
18 11 0.39
19 6 0.21
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTTATATT
Found at i:7195250 original size:21 final size:21
Alignment explanation
Indices: 7195224--7195267 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7195214 GTATTTTTGG
7195224 CCAAAAACACCTTGAATAATC
1 CCAAAAACACCTTGAATAATC
**
7195245 CCAAAAATGCCTTGAATAATC
1 CCAAAAACACCTTGAATAATC
7195266 CC
1 CC
7195268 CTAATAAAAA
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:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (21 bp):
CCAAAAACACCTTGAATAATC
Found at i:7195478 original size:62 final size:62
Alignment explanation
Indices: 7195245--7195640 Score: 197
Period size: 62 Copynumber: 6.3 Consensus size: 62
7195235 TTGAATAATC
* * * **
7195245 CCAAAAATGCCTTGAATAATCCCCTAATAAAAATT-AAAGAT-GATTATTGAAGGCGTTTTAAG
1 CCAAAAATGCCTTGAATAAT-CCCTCATAAAAATTGAAAG-TGGATTATTCAAGGCATTTTTGG
* * * * * *
7195307 TCATAAACGCCTTGAATAA-CCC-CACT-CAAATTTATGAGTGGATTATTCAAGGCATTTTCTAG
1 CCAAAAATGCCTTGAATAATCCCTCA-TAAAAATTGA-AAGTGGATTATTCAAGGCATTTT-T-G
7195369 G
62 G
* * * * *
7195370 -AAAAAAAGATCTTGAATAATCCC-CAATACAAATTG-AAG-GAGATTATTCAAGGCATTCTTGG
1 CCAAAAATG-CCTTGAATAATCCCTC-ATAAAAATTGAAAGTG-GATTATTCAAGGCATTTTTGG
* **
7195431 CCAAAAATGCCTTGAATAATCACCTCATAAAAATTGAAAG-GGATTATTTAAGGTGTTTTATAGG
1 CCAAAAATGCCTTGAATAATC-CCTCATAAAAATTGAAAGTGGATTATTCAAGGCATTTT-T-GG
* * * * * *** * *
7195495 -CAAAAGTGCATTGAATAATTCCTAAATTTCAAAATGTTTTTAG-AGATTTTTCAAGGCATTTTT
1 CCAAAAATGCCTTGAATAATCCCT-CA--T-AAAA-ATTGAAAGTGGATTATTCAAGGCATTTTT
*
7195558 GT
61 GG
* * * * *
7195560 CCTAAAATGTCTTAAATAATCACCTCATAAAAATTG-AAGTAGATTATTGAAGGCATTTTTGG
1 CCAAAAATGCCTTGAATAATC-CCTCATAAAAATTGAAAGTGGATTATTCAAGGCATTTTTGG
* * *
7195622 TCAGAAATACCTTGAATAA
1 CCAAAAATGCCTTGAATAA
7195641 CCTCCATTAA
Statistics
Matches: 251, Mismatches: 58, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
59 6 0.02
60 6 0.02
61 33 0.13
62 91 0.36
63 57 0.23
64 8 0.03
65 9 0.04
66 20 0.08
67 21 0.08
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (62 bp):
CCAAAAATGCCTTGAATAATCCCTCATAAAAATTGAAAGTGGATTATTCAAGGCATTTTTGG
Found at i:7196848 original size:33 final size:34
Alignment explanation
Indices: 7196762--7196830 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
7196752 TTTAGTATAA
7196762 AAACATTTCATAACTTAATTTTTATTTTCAATTG
1 AAACATTTCATAACTTAATTTTTATTTTCAATTG
7196796 AAACATTTCATAACTTAATTTTTATTTTCAATTG
1 AAACATTTCATAACTTAATTTTTATTTTCAATTG
7196830 A
1 A
7196831 TTCTTTCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.49
Consensus pattern (34 bp):
AAACATTTCATAACTTAATTTTTATTTTCAATTG
Found at i:7201010 original size:23 final size:23
Alignment explanation
Indices: 7200983--7201027 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7200973 TTATTAAATC
7200983 ATTTTTAAAAAAAAATTCCATAA
1 ATTTTTAAAAAAAAATTCCATAA
** *
7201006 ATTTTTCTAAAAAAATTTCATA
1 ATTTTTAAAAAAAAATTCCATA
7201028 TAAATTTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTTTAAAAAAAAATTCCATAA
Found at i:7204029 original size:62 final size:63
Alignment explanation
Indices: 7203878--7204021 Score: 177
Period size: 62 Copynumber: 2.3 Consensus size: 63
7203868 TGAAGGTATT
* * * *
7203878 TTTTTA-CTAAAAACGCCTTGAATAATCCTTTCTAATTTTATAAAGGGGGATTATTGAAGGCG
1 TTTTTAGCTAAAAACACCTTGAATAATCCTTTCTAATTTTATAAAGGGGGATTATTAAAAGCA
* * * *
7203940 TTTTTAGCCAAAAACATCTTGAATAATCCTCTTC-AATTTTTTAGA-GGGGATTATTAAAAGCA
1 TTTTTAGCTAAAAACACCTTGAATAATCCT-TTCTAATTTTATAAAGGGGGATTATTAAAAGCA
*
7204002 TTTTTGGCTAAAAACACCTT
1 TTTTTAGCTAAAAACACCTT
7204022 CATTAATCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 37 0.54
63 29 0.42
64 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (63 bp):
TTTTTAGCTAAAAACACCTTGAATAATCCTTTCTAATTTTATAAAGGGGGATTATTAAAAGCA
Found at i:7204448 original size:62 final size:62
Alignment explanation
Indices: 7204377--7204496 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 62
7204367 TGAATAATCT
* **
7204377 TTTACAAAAAATTGAATGAGG-TTATTAAAGGCGTTGT-TGGCCAAAAAGGCCTTAAATATTTC
1 TTTACAAAAAATTGAAT-AGGATTATTAAAGGCGTT-TCTAGCCAAAAACACCTTAAATATTTC
* *
7204439 TTTACAAAAAATTGAATAGGATTATTCAAGGTGTTTCTAGCCAAAAACACCTTAAATA
1 TTTACAAAAAATTGAATAGGATTATTAAAGGCGTTTCTAGCCAAAAACACCTTAAATA
7204497 ATCCCCTCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 4 0.08
62 47 0.92
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (62 bp):
TTTACAAAAAATTGAATAGGATTATTAAAGGCGTTTCTAGCCAAAAACACCTTAAATATTTC
Done.