Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold38
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: 2073527
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 12 of 15
Found at i:1607712 original size:19 final size:19
Alignment explanation
Indices: 1607690--1607732 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1607680 ATAGTTAAAT
*
1607690 TAAATAAATAT-AAATTATA
1 TAAA-AAATATAAAAATATA
*
1607709 TAAAAATTATAAAAATATA
1 TAAAAAATATAAAAATATA
1607728 TAAAA
1 TAAAA
1607733 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAAATATAAAAATATA
Found at i:1607715 original size:26 final size:28
Alignment explanation
Indices: 1607659--1607733 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
1607649 TATGATTTAT
*
1607659 TTAAATAAATGATAAAATATGATAGTTAAA
1 TTAAATAAAT-ATAAAATATGATAG-AAAA
*
1607689 TTAAATAAATATAAATTAT-ATA-AAAA
1 TTAAATAAATATAAAATATGATAGAAAA
*
1607715 TTATAAAAATATATAAAAT
1 TTA-AATAA-ATATAAAAT
1607734 TAATTTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.15
27 4 0.10
28 11 0.28
29 8 0.21
30 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
TTAAATAAATATAAAATATGATAGAAAA
Found at i:1607717 original size:11 final size:10
Alignment explanation
Indices: 1607691--1607732 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
1607681 TAGTTAAATT
*
1607691 AAATAAATATA
1 AAATATATA-A
*
1607702 AATTATATAA
1 AAATATATAA
1607712 AAAT-TATAA
1 AAATATATAA
1607721 AAATATATAA
1 AAATATATAA
1607731 AA
1 AA
1607733 TTAATTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 9 0.33
10 11 0.41
11 7 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATATATAA
Found at i:1607865 original size:19 final size:19
Alignment explanation
Indices: 1607810--1607875 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
1607800 ACTTGGATAA
* *
1607810 ATAATAAAATATAATAATTAA
1 ATAAAAAAATAT-A-AATTAT
*
1607831 ATTAAATAAATATAAATTAT
1 A-TAAAAAAATATAAATTAT
*
1607851 ATAAAAAAATATAAAATAT
1 ATAAAAAAATATAAATTAT
1607870 ATAAAA
1 ATAAAA
1607876 TTAATTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 22 0.56
20 6 0.15
21 2 0.05
22 9 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAAAAATATAAATTAT
Found at i:1608429 original size:4 final size:4
Alignment explanation
Indices: 1608420--1608445 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1608410 GTTGAGTCCT
1608420 TGCC TGCC TGCC TGCC TGCC TGCC TG
1 TGCC TGCC TGCC TGCC TGCC TGCC TG
1608446 TCAGCCAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.46, G:0.27, T:0.27
Consensus pattern (4 bp):
TGCC
Found at i:1608680 original size:14 final size:15
Alignment explanation
Indices: 1608663--1608692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1608653 TCTATAATAG
1608663 TTTAAA-TTTAATTT
1 TTTAAATTTTAATTT
1608677 TTTAAATTTTAATTT
1 TTTAAATTTTAATTT
1608692 T
1 T
1608693 ATATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAAATTTTAATTT
Found at i:1608989 original size:23 final size:23
Alignment explanation
Indices: 1608963--1609009 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1608953 TTTTTTAAAA
1608963 TAATATTAATAAATATAATTTTT
1 TAATATTAATAAATATAATTTTT
* **
1608986 TAATTTTAATATTTATAATTTTT
1 TAATATTAATAAATATAATTTTT
1609009 T
1 T
1609010 TTATTTTTAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATATTAATAAATATAATTTTT
Found at i:1609734 original size:2 final size:2
Alignment explanation
Indices: 1609727--1609758 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1609717 TTTACATGGA
1609727 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
1609759 GTGTGTGTGT
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:1610914 original size:22 final size:21
Alignment explanation
Indices: 1610879--1610950 Score: 56
Period size: 24 Copynumber: 3.1 Consensus size: 21
1610869 TAAGATATTA
1610879 AAATATTAATAATTTATTATTTTT
1 AAATATT-A-AATTT-TTATTTTT
*
1610903 AAGGT-TTAAATTTTTTTAATTTTT
1 AA-ATATTAAA--TTTTT-ATTTTT
*
1610927 AAATATTAAATTTTTAATTTT
1 AAATATTAAATTTTTATTTTT
1610948 AAA
1 AAA
1610951 ATTTCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 4 0.10
24 20 0.50
25 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
AAATATTAAATTTTTATTTTT
Found at i:1611044 original size:2 final size:2
Alignment explanation
Indices: 1611033--1611061 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1611023 GTCAAAAACA
1611033 AT AT -T 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
1611062 TAATTTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1615541 original size:16 final size:16
Alignment explanation
Indices: 1615520--1615553 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1615510 CAAAGTACTG
1615520 GACTAAATATGAAAAT
1 GACTAAATATGAAAAT
1615536 GACTAAATATGAAAAT
1 GACTAAATATGAAAAT
1615552 GA
1 GA
1615554 ACAAACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (16 bp):
GACTAAATATGAAAAT
Found at i:1619023 original size:27 final size:28
Alignment explanation
Indices: 1618991--1619050 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
1618981 TTTTGAATTA
1618991 TTTTATT-TTTTAAAAATAAGTTTATAT-
1 TTTTATTATTTT-AAAATAAGTTTATATC
*
1619018 TTTTATTATTTTAAAATAAGTTTTTATC
1 TTTTATTATTTTAAAATAAGTTTATATC
1619046 TTTTA
1 TTTTA
1619051 ATTTGTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTATTATTTTAAAATAAGTTTATATC
Found at i:1620715 original size:15 final size:15
Alignment explanation
Indices: 1620695--1620723 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1620685 TTTTTCGACT
1620695 AAGATGTATTTAATA
1 AAGATGTATTTAATA
1620710 AAGATGTATTTAAT
1 AAGATGTATTTAAT
1620724 TTTTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (15 bp):
AAGATGTATTTAATA
Found at i:1621057 original size:2 final size:2
Alignment explanation
Indices: 1621052--1621083 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1621042 AGATAGAGAG
*
1621052 AT AT AT AA 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
1621084 TTTACAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1630614 original size:3 final size:3
Alignment explanation
Indices: 1630606--1630640 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1630596 AAAGGTAATT
1630606 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1630641 TAAACATGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1632035 original size:16 final size:16
Alignment explanation
Indices: 1632014--1632047 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1632004 ATGCTGTTAT
1632014 TCGAATTCTAAATCTA
1 TCGAATTCTAAATCTA
1632030 TCGAATTCTAAATCTA
1 TCGAATTCTAAATCTA
1632046 TC
1 TC
1632048 AGATGACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (16 bp):
TCGAATTCTAAATCTA
Found at i:1636994 original size:14 final size:14
Alignment explanation
Indices: 1636975--1637005 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1636965 TATTTAAATA
1636975 TATTATATTATATT
1 TATTATATTATATT
*
1636989 TATTATATTATTTT
1 TATTATATTATATT
1637003 TAT
1 TAT
1637006 ATCATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATTATATT
Found at i:1637233 original size:14 final size:14
Alignment explanation
Indices: 1637199--1637251 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
1637189 ATCTAATATG
* *
1637199 ATTTTTATCATACT
1 ATTTTTATTATAAT
*
1637213 ATATTTATTATAAT
1 ATTTTTATTATAAT
*
1637227 ATTTTTA-TATCAT
1 ATTTTTATTATAAT
*
1637240 ATTTATATTATA
1 ATTTTTATTATA
1637252 TTTTTATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTTATTATAAT
Found at i:1637243 original size:13 final size:13
Alignment explanation
Indices: 1637199--1637260 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 13
1637189 ATCTAATATG
1637199 ATTTTTATCATACTAT
1 ATTTTTAT-AT-C-AT
1637215 ATTTATTATA--AT
1 ATTT-TTATATCAT
1637227 ATTTTTATATCAT
1 ATTTTTATATCAT
*
1637240 A--TTTATATTAT
1 ATTTTTATATCAT
1637251 ATTTTTATAT
1 ATTTTTATAT
1637261 TTCGTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
11 15 0.38
12 6 0.15
13 10 0.25
16 5 0.12
17 4 0.10
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTTATATCAT
Found at i:1637261 original size:13 final size:13
Alignment explanation
Indices: 1637212--1637261 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 13
1637202 TTTATCATAC
1637212 TATATTTATTATA-
1 TATATTT-TTATAT
1637225 -ATATTTTTATAT
1 TATATTTTTATAT
*
1637237 CATA--TTTATAT
1 TATATTTTTATAT
1637248 TATATTTTTATAT
1 TATATTTTTATAT
1637261 T
1 T
1637262 TCGTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 15 0.47
12 6 0.19
13 11 0.34
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATTTTTATAT
Found at i:1637796 original size:10 final size:9
Alignment explanation
Indices: 1637775--1637806 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1637765 ATAATACTTC
1637775 AAAAATATA
1 AAAAATATA
1637784 AAAAATATA
1 AAAAATATA
*
1637793 AAAAATTTA
1 AAAAATATA
1637802 AAAAA
1 AAAAA
1637807 ATTAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATATA
Found at i:1637945 original size:19 final size:19
Alignment explanation
Indices: 1637921--1637959 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1637911 CTGTCAAGTA
1637921 ATTTTAATATTTTTAAAAT
1 ATTTTAATATTTTTAAAAT
*
1637940 ATTTTAATATTTTTTAAAT
1 ATTTTAATATTTTTAAAAT
1637959 A
1 A
1637960 ATGATTAAAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTAATATTTTTAAAAT
Found at i:1644528 original size:17 final size:16
Alignment explanation
Indices: 1644481--1644557 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 16
1644471 AATACATACG
1644481 AATATTAATATTTTTCAA
1 AATATT-ATATTTTT-AA
*
1644499 CATA--ATA-TTTTAA
1 AATATTATATTTTTAA
1644512 AATATTGATATTTTTAA
1 AATATT-ATATTTTTAA
* *
1644529 AA-ATTATATATATAA
1 AATATTATATTTTTAA
*
1644544 AATACT-TATTTTTA
1 AATATTATATTTTTA
1644558 TATTTTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
13 5 0.11
14 4 0.09
15 19 0.40
16 8 0.17
17 8 0.17
18 3 0.06
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (16 bp):
AATATTATATTTTTAA
Found at i:1645869 original size:18 final size:17
Alignment explanation
Indices: 1645848--1645888 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
1645838 GTTTTAACGT
*
1645848 AAATTAATATTTTATTTA
1 AAATAAATA-TTTATTTA
1645866 AAATAAATATTTATTT-
1 AAATAAATATTTATTTA
1645882 AAATAAA
1 AAATAAA
1645889 AATCAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 7 0.32
18 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATAAATATTTATTTA
Found at i:1645878 original size:17 final size:17
Alignment explanation
Indices: 1645847--1645888 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1645837 AGTTTTAACG
*
1645847 TAAATTAATATTTTATT
1 TAAATAAATATTTTATT
1645864 TAAAATAAATA-TTTATT
1 T-AAATAAATATTTTATT
1645881 TAAATAAA
1 TAAATAAA
1645889 AATCAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATAAATATTTTATT
Found at i:1645930 original size:29 final size:30
Alignment explanation
Indices: 1645867--1645942 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
1645857 TTTTATTTAA
* *
1645867 AATAAATATTTATTTAAATAAAAATCAAAT
1 AATAAAAATTTATTTAAATAAAAATAAAAT
1645897 AATAAAAATTTATTTAAAT-AAAATAAAA-
1 AATAAAAATTTATTTAAATAAAAATAAAAT
*
1645925 ATATAAAAATTTACTTAA
1 A-ATAAAAATTTATTTAA
1645943 TAATTCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 23 0.55
30 18 0.43
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAAAAATTTATTTAAATAAAAATAAAAT
Found at i:1645952 original size:28 final size:30
Alignment explanation
Indices: 1645867--1645942 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
1645857 TTTTATTTAA
* * *
1645867 AATAAATATTTATTTAAATAAAA-ATCAAAT
1 AATAAAAATTTACTTAAATAAAATA-AAAAT
*
1645897 AATAAAAATTTATTTAAATAAAATAAAAAT
1 AATAAAAATTTACTTAAATAAAATAAAAAT
1645927 -ATAAAAATTTACTTAA
1 AATAAAAATTTACTTAA
1645943 TAATTCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.36
30 26 0.62
31 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAAAAATTTACTTAAATAAAATAAAAAT
Found at i:1646248 original size:18 final size:18
Alignment explanation
Indices: 1646205--1646251 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
1646195 TAAAATTATT
*
1646205 TTTTTAT-TTAAATAATA
1 TTTTTATATTAAAAAATA
***
1646222 TTAAAATATTAAAAAATA
1 TTTTTATATTAAAAAATA
1646240 TTTTTATATTAA
1 TTTTTATATTAA
1646252 TAATTAAATT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTATATTAAAAAATA
Found at i:1646286 original size:18 final size:17
Alignment explanation
Indices: 1646213--1646292 Score: 63
Period size: 18 Copynumber: 4.5 Consensus size: 17
1646203 TTTTTTTATT
**
1646213 TAAATAATATTAAAATA
1 TAAATAATATTTTAATA
* *
1646230 TTAAAAAATATTTTTATA
1 -TAAATAATATTTTAATA
* *
1646248 TTAATAATTAAATTTAA-A
1 TAAATAA-T-ATTTTAATA
1646266 TAAATAATATTTATAATA
1 TAAATAATATTT-TAATA
1646284 TAAATAATA
1 TAAATAATA
1646293 AATTAAGTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
16 3 0.06
17 9 0.19
18 31 0.65
19 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAATATTTTAATA
Found at i:1646293 original size:21 final size:21
Alignment explanation
Indices: 1646249--1646290 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1646239 ATTTTTATAT
*
1646249 TAATAATTAAATTTAAATAAA
1 TAATAATTAAATATAAATAAA
*
1646270 TAATATTTATAATATAAATAA
1 TAATAATTA-AATATAAATAA
1646291 TAAATTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAATTAAATATAAATAAA
Found at i:1646528 original size:2 final size:2
Alignment explanation
Indices: 1646521--1646578 Score: 52
Period size: 2 Copynumber: 30.5 Consensus size: 2
1646511 ATAATTTCTG
*
1646521 AT AT AT AT AT AT AT AT AT AT A- AT AT TT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1646560 GAT AA AA AT AT AT AT -T AT A
1 -AT AT AT AT AT AT AT AT AT A
1646579 AAAAATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
1 4 0.09
2 41 0.87
3 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1646550 original size:7 final size:7
Alignment explanation
Indices: 1646521--1646564 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
1646511 ATAATTTCTG
1646521 ATATAT-
1 ATATATA
1646527 ATATATA
1 ATATATA
1646534 TATATATA
1 -ATATATA
*
1646542 ATATTTA
1 ATATATA
1646549 ATATATA
1 ATATATA
1646556 ATATGATA
1 ATAT-ATA
1646564 A
1 A
1646565 AAATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.18
7 16 0.48
8 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
ATATATA
Found at i:1646627 original size:47 final size:46
Alignment explanation
Indices: 1646547--1646660 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 46
1646537 ATATAATATT
* *
1646547 TAATATATAATATGATAAAAATATATATTATAAAAAAT--TTTTAATA
1 TAAT-TATAATAT-ATAAAAATATATATAATAAAAAATAATTTAAATA
* *
1646593 TAAATTATTAATATATTAAAATTTATATAAATAAAAAATAATTTAAATA
1 T-AATTA-TAATATATAAAAATATATAT-AATAAAAAATAATTTAAATA
*
1646642 TAATTATAATATAAAAAAA
1 TAATTATAATATATAAAAA
1646661 AACATGATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
46 15 0.26
47 29 0.51
48 5 0.09
49 8 0.14
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (46 bp):
TAATTATAATATATAAAAATATATATAATAAAAAATAATTTAAATA
Found at i:1646632 original size:27 final size:29
Alignment explanation
Indices: 1646602--1646659 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1646592 ATAAATTATT
*
1646602 AATATATTAAAAT-TTA-TATAA-ATAAAA
1 AATA-ATTAAAATATAATTATAATATAAAA
*
1646629 AATAATTTAAATATAATTATAATATAAAA
1 AATAATTAAAATATAATTATAATATAAAA
1646658 AA
1 AA
1646660 AAACATGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.27
27 6 0.23
28 5 0.19
29 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAATTAAAATATAATTATAATATAAAA
Found at i:1648187 original size:10 final size:11
Alignment explanation
Indices: 1648157--1648201 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
1648147 TTTTTTTTTC
1648157 TATAA-ATAAA
1 TATAATATAAA
*
1648167 -ATAA-AAAAA
1 TATAATATAAA
1648176 TATAATAT-AA
1 TATAATATAAA
1648186 TATAATATAAA
1 TATAATATAAA
1648197 TATAA
1 TATAA
1648202 AAATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 8 0.27
10 14 0.47
11 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TATAATATAAA
Found at i:1648203 original size:29 final size:30
Alignment explanation
Indices: 1648161--1648245 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 30
1648151 TTTTTCTATA
*
1648161 AATA-AAATAAAAAAATATAATATAATA-T
1 AATATAAATATAAAAATATAATATAATATT
*
1648189 AATATAAATATAAAAATAT-ATTTAA-ATT
1 AATATAAATATAAAAATATAATATAATATT
* * *
1648217 TATATAAAAATAAAATATATAATAAAATA
1 AATATAAATATAAAA-ATATAATATAATA
1648246 CACTATCTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.02
28 23 0.50
29 17 0.37
30 4 0.09
31 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AATATAAATATAAAAATATAATATAATATT
Found at i:1648843 original size:2 final size:2
Alignment explanation
Indices: 1648836--1648860 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1648826 AACTGTTTTC
1648836 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1648861 GCATAGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1650908 original size:17 final size:17
Alignment explanation
Indices: 1650886--1650918 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1650876 ATAAATTATA
*
1650886 TATTATTTTTATTAAAT
1 TATTATTTTTAATAAAT
1650903 TATTATTTTTAATAAA
1 TATTATTTTTAATAAA
1650919 AATTATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATTTTTAATAAAT
Found at i:1652400 original size:15 final size:16
Alignment explanation
Indices: 1652374--1652404 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1652364 TTAATTTTAA
1652374 AAAAAATCTTAAAAAT
1 AAAAAATCTTAAAAAT
1652390 AAAAAAT-TTAAAAAT
1 AAAAAATCTTAAAAAT
1652405 CCAAAGGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATCTTAAAAAT
Found at i:1653117 original size:26 final size:25
Alignment explanation
Indices: 1653084--1653132 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
1653074 AATTAAATTT
1653084 AATATAATTTAAATC-TAAATAAAAA
1 AATATAATTT-AATCATAAATAAAAA
*
1653109 AATAGTAATTTGATCATAAATAAA
1 AATA-TAATTTAATCATAAATAAA
1653133 TCTAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
AATATAATTTAATCATAAATAAAAA
Found at i:1653935 original size:2 final size:2
Alignment explanation
Indices: 1653928--1653960 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1653918 CTTAATCAAC
1653928 AT AT 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 AT AT A
1653961 CACACACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1661374 original size:6 final size:6
Alignment explanation
Indices: 1661365--1661404 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
1661355 AATTTTTATT
*
1661365 TTTAAA TTTAAA TTTTAA TTT-AA TTT--A TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
1661405 AAAAATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.13
5 5 0.16
6 22 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:1661422 original size:27 final size:28
Alignment explanation
Indices: 1661360--1661422 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
1661350 AATAAAATTT
*** *
1661360 TTATTTTTAAATTTAAATTTTAATTTAA
1 TTATTTTTAAATTTAAATAAAAATATAA
*
1661388 TT-TATTTAAATTTAAATAAAAATAT-A
1 TTATTTTTAAATTTAAATAAAAATATAA
1661414 TTATTTTTA
1 TTATTTTTA
1661423 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.11
27 23 0.82
28 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATTTTTAAATTTAAATAAAAATATAA
Found at i:1661592 original size:14 final size:14
Alignment explanation
Indices: 1661575--1661614 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1661565 TAAAATTTAA
1661575 ATTTATTAAATATT
1 ATTTATTAAATATT
*
1661589 ATTTATTAAAAATT
1 ATTTATTAAATATT
1661603 A-TTATTTAAATA
1 ATTTA-TTAAATA
1661615 AATTGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTATTAAATATT
Found at i:1661750 original size:2 final size:2
Alignment explanation
Indices: 1661701--1661732 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1661691 AGAAATCCCT
1661701 TA TA -A 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 T
1661733 TCATGTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1663059 original size:2 final size:2
Alignment explanation
Indices: 1663052--1663084 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1663042 TAAAATTACT
1663052 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1663085 TTTCCTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1667288 original size:2 final size:2
Alignment explanation
Indices: 1667281--1667316 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1667271 ATTTACTTAC
1667281 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1667317 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1667321 original size:2 final size:2
Alignment explanation
Indices: 1667316--1667359 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
1667306 TCTCTCTCTC
*
1667316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA -A TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
1667358 TA
1 TA
1667360 CAAACAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.95
3 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1667799 original size:3 final size:3
Alignment explanation
Indices: 1667791--1667829 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1667781 TCTTTGTTTC
1667791 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1667830 TTCACAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1668028 original size:5 final size:5
Alignment explanation
Indices: 1668018--1668050 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1668008 TCAATGCACA
1668018 AAAAT AAAAT AAAA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1668051 AAATCCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:1668036 original size:14 final size:14
Alignment explanation
Indices: 1668017--1668054 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1668007 TTCAATGCAC
1668017 AAAAATAAAATAAA
1 AAAAATAAAATAAA
1668031 AAAAATAAAATAAA
1 AAAAATAAAATAAA
*
1668045 ATAAA-AAAAT
1 AAAAATAAAAT
1668055 CCTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:1671387 original size:15 final size:15
Alignment explanation
Indices: 1671367--1671399 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1671357 GCTTCAATTT
1671367 CATATAATGTCCTAA
1 CATATAATGTCCTAA
1671382 CATATAATGTCCTAA
1 CATATAATGTCCTAA
1671397 CAT
1 CAT
1671400 TTGGTCAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.33
Consensus pattern (15 bp):
CATATAATGTCCTAA
Found at i:1673624 original size:18 final size:18
Alignment explanation
Indices: 1673596--1673684 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 18
1673586 ATTTATGTAT
1673596 TTTTATTATATTTATATTA
1 TTTT-TTATATTTATATTA
*
1673615 TTTTTTATATTTA-A-AA
1 TTTTTTATATTTATATTA
*
1673631 TTTTATTAAATAATTTATTTTAATA
1 TTTT-TT--AT-ATTTA---TATTA
1673656 TTTTTATATATTTATATTA
1 TTTTT-TATATTTATATTA
1673675 TTTTTTATAT
1 TTTTTTATAT
1673685 CGTTTGGTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 21
0.70 0.04 0.26
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 14 0.25
19 15 0.26
20 5 0.09
22 5 0.09
23 2 0.04
24 2 0.04
25 6 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTATATTTATATTA
Found at i:1676648 original size:6 final size:7
Alignment explanation
Indices: 1676630--1676657 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1676620 TTCTCCTTTT
1676630 TAAAAAA
1 TAAAAAA
1676637 TAAAAAA
1 TAAAAAA
1676644 TAAAAAA
1 TAAAAAA
1676651 TAAAAAA
1 TAAAAAA
1676658 AATAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:1677740 original size:15 final size:15
Alignment explanation
Indices: 1677722--1677764 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1677712 ATTTAATAAA
1677722 TTTAAATTTTAAATT
1 TTTAAATTTTAAATT
*
1677737 TTTATA-TTTATAATT
1 TTTAAATTTTA-AATT
*
1677752 TTTTAATTTTAAA
1 TTTAAATTTTAAA
1677765 ATATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAAATTTTAAATT
Found at i:1678057 original size:27 final size:30
Alignment explanation
Indices: 1678010--1678065 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 30
1678000 ATTCTTTTTA
*
1678010 AAAAATATAATATAATAATATTAAAATATC
1 AAAAATATAATATAATAATATCAAAATATC
1678040 AAAAATAT-ATA-AAT-ATATCAAAATAT
1 AAAAATATAATATAATAATATCAAAATAT
1678066 ATTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
28 3 0.12
29 3 0.12
30 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATATAATATAATAATATCAAAATATC
Found at i:1678137 original size:16 final size:15
Alignment explanation
Indices: 1678071--1678171 Score: 50
Period size: 16 Copynumber: 6.7 Consensus size: 15
1678061 AATATATTTA
1678071 AAATAAATTAT-TGATT
1 AAATAAATTATAT-A-T
* *
1678087 AAACAAATTTTATAT
1 AAATAAATTATATAT
* * *
1678102 GAAATATATAATATCTT
1 -AAATAAATTATAT-AT
1678119 AAATAAATTATGATAT
1 AAATAAATTAT-ATAT
*
1678135 AAA-AAAATAT-TAT
1 AAATAAATTATATAT
*
1678148 AAAT-AA-TATAAAT
1 AAATAAATTATATAT
*
1678161 ACATAAATTAT
1 AAATAAATTAT
1678172 CAAATATATT
Statistics
Matches: 64, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
12 3 0.05
13 13 0.20
14 2 0.03
15 10 0.16
16 32 0.50
17 4 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATAAATTATATAT
Found at i:1678156 original size:48 final size:49
Alignment explanation
Indices: 1678040--1678161 Score: 121
Period size: 48 Copynumber: 2.5 Consensus size: 49
1678030 TTAAAATATC
*
1678040 AAAAATA-TATAAAT-ATATCAAAATATATTTAAAATAAATTATTGATTAA
1 AAAAATATTATAAATAATAT--AAATATACTTAAAATAAATTATTGATTAA
* * *
1678089 ACAAATTTTATATGA-AATATATAATAT-CTT-AAATAAATTA-TGATATAA
1 AAAAATATTATA-AATAATATA-AATATACTTAAAATAAATTATTGAT-TAA
1678137 AAAAATATTATAAATAATATAAATA
1 AAAAATATTATAAATAATATAAATA
1678162 CATAAATTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
47 9 0.15
48 29 0.48
49 8 0.13
50 9 0.15
51 5 0.08
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (49 bp):
AAAAATATTATAAATAATATAAATATACTTAAAATAAATTATTGATTAA
Found at i:1683524 original size:13 final size:12
Alignment explanation
Indices: 1683502--1683565 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 12
1683492 TATAAATTTT
1683502 ATATTTAAAATA
1 ATATTTAAAATA
*
1683514 ATATTTAAAAATT
1 ATATTT-AAAATA
* *
1683527 ATATTTTCAAGTA
1 ATA-TTTAAAATA
1683540 ATA-TTAAAATA
1 ATATTTAAAATA
1683551 AGGT-TTTAAAATA
1 A--TATTTAAAATA
1683564 AT
1 AT
1683566 TTATTACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
11 8 0.20
12 6 0.15
13 24 0.59
14 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (12 bp):
ATATTTAAAATA
Found at i:1683733 original size:10 final size:10
Alignment explanation
Indices: 1683718--1683748 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1683708 CTCACACGTG
1683718 TCCCTCTCTC
1 TCCCTCTCTC
1683728 TCCCTCTCTC
1 TCCCTCTCTC
*
1683738 TCTCTCTCTC
1 TCCCTCTCTC
1683748 T
1 T
1683749 AAATCCCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (10 bp):
TCCCTCTCTC
Found at i:1683791 original size:2 final size:2
Alignment explanation
Indices: 1683784--1683810 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1683774 GTTCTTCTTC
1683784 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1683811 ATTCAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1684303 original size:19 final size:17
Alignment explanation
Indices: 1684259--1684305 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
1684249 TGAAAATTTT
1684259 TAAATAT-TAAATATAA
1 TAAATATATAAATATAA
*
1684275 AAAATAATATAAATATTATA
1 TAAAT-ATATAAATA-TA-A
1684295 TAAATATATAA
1 TAAATATATAA
1684306 TTAATTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.16
17 2 0.08
18 6 0.24
19 8 0.32
20 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATATATAAATATAA
Found at i:1685469 original size:15 final size:17
Alignment explanation
Indices: 1685430--1685467 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1685420 TTTTTTTTAA
*
1685430 ATTTTATTTTACGTATT
1 ATTTTATTTTACATATT
1685447 ATTATTATTTTACATA-T
1 ATT-TTATTTTACATATT
1685464 ATTT
1 ATTT
1685468 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 1 0.05
17 7 0.37
18 11 0.58
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTATTTTACATATT
Found at i:1687250 original size:11 final size:11
Alignment explanation
Indices: 1687215--1687250 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1687205 ATATAAATAT
1687215 ATTTTTAAAAA
1 ATTTTTAAAAA
*
1687226 ATATTTAAAAA
1 ATTTTTAAAAA
*
1687237 ATTTTTATAAA
1 ATTTTTAAAAA
1687248 ATT
1 ATT
1687251 ATATTTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTTTAAAAA
Found at i:1688594 original size:14 final size:14
Alignment explanation
Indices: 1688575--1688601 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1688565 GTAATTATAA
1688575 TAATATAAAAATAT
1 TAATATAAAAATAT
1688589 TAATATAAAAATA
1 TAATATAAAAATA
1688602 ATATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATATAAAAATAT
Found at i:1691465 original size:20 final size:20
Alignment explanation
Indices: 1691442--1691479 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1691432 TCTCGTTCCG
1691442 TGTC-AGTTCATCTCCTTTTT
1 TGTCGAGTTC-TCTCCTTTTT
*
1691462 TGTCGATTTCTCTCCTTT
1 TGTCGAGTTCTCTCCTTT
1691480 CTCCCTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.08, C:0.26, G:0.11, T:0.55
Consensus pattern (20 bp):
TGTCGAGTTCTCTCCTTTTT
Found at i:1692408 original size:20 final size:20
Alignment explanation
Indices: 1692381--1692427 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
1692371 TATGCAGTCA
1692381 TATTTTTTTAAAAACATTA-
1 TATTTTTTTAAAAACATTAC
1692400 TATTTTTTTAAAAACATTAC
1 TATTTTTTTAAAAACATTAC
1692420 TATTTTTT
1 TATTTTTT
1692428 ATCAAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTTTTAAAAACATTAC
Found at i:1694581 original size:13 final size:13
Alignment explanation
Indices: 1694563--1694587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1694553 ATGTGCAAGT
1694563 TCTTTCTTTCTTC
1 TCTTTCTTTCTTC
1694576 TCTTTCTTTCTT
1 TCTTTCTTTCTT
1694588 TTGACAGGGC
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TCTTTCTTTCTTC
Found at i:1695933 original size:15 final size:14
Alignment explanation
Indices: 1695911--1695952 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
1695901 GTGCGTCGGA
1695911 CTCTCTCGTTCCTT
1 CTCTCTCGTTCCTT
*
1695925 CTCCTCTCGCT-CTT
1 CT-CTCTCGTTCCTT
1695939 CTCTCTC-TTCCTT
1 CTCTCTCGTTCCTT
1695952 C
1 C
1695953 CGATGTCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 9 0.38
14 7 0.29
15 7 0.29
ACGTcount: A:0.00, C:0.48, G:0.05, T:0.48
Consensus pattern (14 bp):
CTCTCTCGTTCCTT
Found at i:1697870 original size:18 final size:20
Alignment explanation
Indices: 1697820--1697873 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
1697810 ATTTTTTATT
1697820 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAATATA
*
1697841 TAAATATAATATAAAATA-A
1 TAAATTTAATATAAAATATA
*
1697860 T-ATTTTAATATAAA
1 TAAATTTAATATAAA
1697874 CTTAGCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 9 0.30
21 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATAAAATATA
Found at i:1700013 original size:2 final size:2
Alignment explanation
Indices: 1700006--1700036 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1699996 TGTGAACTTG
*
1700006 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1700037 TTAATCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:1703766 original size:26 final size:24
Alignment explanation
Indices: 1703737--1703787 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
1703727 GCTTAAATTA
1703737 TTTATTTATAATTTTTAGAATTTTTT
1 TTTATTT-TAATTTTT-GAATTTTTT
* *
1703763 TTTATTTTTATTTTTTAATTTTTT
1 TTTATTTTAATTTTTGAATTTTTT
1703787 T
1 T
1703788 AATTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 7 0.30
26 7 0.30
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTATTTTAATTTTTGAATTTTTT
Found at i:1706947 original size:16 final size:17
Alignment explanation
Indices: 1706905--1706949 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1706895 CAATTCAAAT
*
1706905 AATTAAATTTTATATCAA
1 AATTAAATTTAATAT-AA
*
1706923 AATTTAATTTAATAT-A
1 AATTAAATTTAATATAA
1706939 AATTAAATTTA
1 AATTAAATTTA
1706950 TCAATTGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
18 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTTAATATAA
Found at i:1715993 original size:2 final size:2
Alignment explanation
Indices: 1715980--1716051 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
1715970 TATCGTTGAA
* *
1715980 AT AT AA AT AT AT AT AT AT AT AT AT AA 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
1716022 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
1716052 GGTGGGACTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1716514 original size:31 final size:31
Alignment explanation
Indices: 1716476--1716536 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1716466 ATTTTTGACT
*
1716476 TTAAAAGTTGTGCCAAGAGTAATGCTAAATA
1 TTAAAAGTCGTGCCAAGAGTAATGCTAAATA
*
1716507 TTAAAAGTCGTGCCACGAGTAATGCTAAAT
1 TTAAAAGTCGTGCCAAGAGTAATGCTAAAT
1716537 GAGTCTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (31 bp):
TTAAAAGTCGTGCCAAGAGTAATGCTAAATA
Found at i:1717262 original size:2 final size:2
Alignment explanation
Indices: 1717255--1717299 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1717245 GGTTCATATT
1717255 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1717297 TC T
1 TC T
1717300 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1717304 original size:2 final size:2
Alignment explanation
Indices: 1717299--1717331 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1717289 TCTCTCTCTC
1717299 TA TA 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 T
1717332 GTTATAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1718884 original size:14 final size:13
Alignment explanation
Indices: 1718866--1718890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1718856 TGTATTTCTT
1718866 TTTTTTTAATTTA
1 TTTTTTTAATTTA
1718879 TTTTTTTAATTT
1 TTTTTTTAATTT
1718891 TTGATATATT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTAATTTA
Found at i:1719555 original size:18 final size:19
Alignment explanation
Indices: 1719528--1719574 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
1719518 TTCTAAAAAA
* *
1719528 ATAATTAATATATTAT-TT
1 ATAATAAATACATTATATT
1719546 ATAATAAATACATTATATT
1 ATAATAAATACATTATATT
1719565 A-AATATAATA
1 ATAATA-AATA
1719575 ATTGATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAAATACATTATATT
Found at i:1719937 original size:4 final size:4
Alignment explanation
Indices: 1719918--1719952 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
1719908 AATTAGGGTT
*
1719918 AATA AATT AA-A AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA
1719953 GAGAAGTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 26 0.93
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:1720380 original size:18 final size:18
Alignment explanation
Indices: 1720357--1720410 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
1720347 AATATGAGTA
1720357 ATTTTTTTAAAAAATTAT
1 ATTTTTTTAAAAAATTAT
*
1720375 ATTTTTTAAAAAAATTAT
1 ATTTTTTTAAAAAATTAT
1720393 ATTTTTTTAAAAAATTAT
1 ATTTTTTTAAAAAATTAT
1720411 CTAATGACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTTTAAAAAATTAT
Found at i:1720926 original size:16 final size:16
Alignment explanation
Indices: 1720892--1720926 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1720882 GTATAAAAAT
* *
1720892 AATTTTTTAATATTTA
1 AATTTTTTAATAATAA
1720908 AATTTTTTAATAATAA
1 AATTTTTTAATAATAA
1720924 AAT
1 AAT
1720927 GAACTTACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTTTAATAATAA
Found at i:1724738 original size:21 final size:19
Alignment explanation
Indices: 1724714--1724768 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
1724704 ATTTTTTATT
1724714 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAATA-A
1724735 TAAATATTAATATAAAATAA
1 TAAAT-TTAATATAAAATAA
*
1724755 T-ATTTTAATATAAA
1 TAAATTTAATATAAA
1724769 CTTAGCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.31
19 2 0.06
20 2 0.06
21 14 0.44
22 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTAATATAAAATAA
Found at i:1724762 original size:18 final size:20
Alignment explanation
Indices: 1724718--1724768 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
1724708 TTTATTTAAA
1724718 TTTAATTATAAAATATATAAAT
1 TTTAA-TATAAAATATAT-AAT
*
1724740 ATTAATATAAAATA-AT-AT
1 TTTAATATAAAATATATAAT
1724758 TTTAATATAAA
1 TTTAATATAAA
1724769 CTTAGCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.44
20 2 0.07
21 9 0.33
22 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAATATAAAATATATAAT
Found at i:1728332 original size:2 final size:2
Alignment explanation
Indices: 1728327--1728357 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1728317 TGTGAACTTG
*
1728327 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1728358 TTAATCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:1728619 original size:1 final size:1
Alignment explanation
Indices: 1728615--1728644 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
1728605 GGGGGGCCGC
*
1728615 GGGGGGGGGGGGGGGGGGGGGGGGGTGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1728645 TGAGGAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.97, T:0.03
Consensus pattern (1 bp):
G
Found at i:1732091 original size:26 final size:25
Alignment explanation
Indices: 1732062--1732113 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
1732052 GCTTAAATTA
1732062 TTTATTTATAATTTTTAGAATTTTTT
1 TTTATTTATAATTTTT-GAATTTTTT
* * *
1732088 TTTATTTTTTATTTTTTAATTTTTT
1 TTTATTTATAATTTTTGAATTTTTT
1732113 T
1 T
1732114 AATTATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTATTTATAATTTTTGAATTTTTT
Found at i:1735286 original size:16 final size:17
Alignment explanation
Indices: 1735244--1735288 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1735234 CAATTCAAAT
*
1735244 AATTAAATTTTATATCAA
1 AATTAAATTTAATAT-AA
*
1735262 AATTTAATTTAATAT-A
1 AATTAAATTTAATATAA
1735278 AATTAAATTTA
1 AATTAAATTTA
1735289 TCAATTGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
18 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTTAATATAA
Found at i:1744333 original size:2 final size:2
Alignment explanation
Indices: 1744320--1744391 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
1744310 TATCGTTGAA
* *
1744320 AT AT AA AT AT AT AT AT AT AT AT AT AA 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
1744362 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
1744392 GGTGGGACTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1744548 original size:14 final size:15
Alignment explanation
Indices: 1744515--1744565 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1744505 GTTACAATTA
* *
1744515 AAAAAAATTTGGATTG
1 AAAAAAATGTGG-TTT
1744531 AAAAAAA-GT-GTGTT
1 AAAAAAATGTGGT-TT
1744545 AAAAAAATGTGGTTT
1 AAAAAAATGTGGTTT
1744560 AAAAAA
1 AAAAAA
1744566 TTTTTACGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 1 0.03
14 9 0.30
15 11 0.37
16 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
AAAAAAATGTGGTTT
Found at i:1744566 original size:14 final size:14
Alignment explanation
Indices: 1744515--1744566 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
1744505 GTTACAATTA
*
1744515 AAAAAAATTTGGATT
1 AAAAAAATGTGG-TT
1744530 GAAAAAAA-GTGTGTT
1 -AAAAAAATGTG-GTT
1744545 AAAAAAATGTGGTT
1 AAAAAAATGTGGTT
*
1744559 TAAAAAAT
1 AAAAAAAT
1744567 TTTTACGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 17 0.53
15 7 0.22
16 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (14 bp):
AAAAAAATGTGGTT
Found at i:1744857 original size:31 final size:31
Alignment explanation
Indices: 1744819--1744879 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1744809 ATTTTTGACT
*
1744819 TTAAAAGTTGTGCCAAGAGTAATGCTAAATA
1 TTAAAAGTCGTGCCAAGAGTAATGCTAAATA
*
1744850 TTAAAAGTCGTGCCACGAGTAATGCTAAAT
1 TTAAAAGTCGTGCCAAGAGTAATGCTAAAT
1744880 GAGTCTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (31 bp):
TTAAAAGTCGTGCCAAGAGTAATGCTAAATA
Found at i:1745582 original size:2 final size:2
Alignment explanation
Indices: 1745575--1745620 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1745565 GGTTCATATT
1745575 TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1745616 TC TC T
1 TC TC T
1745621 ATATATATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1745625 original size:2 final size:2
Alignment explanation
Indices: 1745620--1745651 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1745610 TCTCTCTCTC
1745620 TA TA TA TA T- 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 T
1745652 GTTATAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1748489 original size:2 final size:2
Alignment explanation
Indices: 1748484--1748518 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1748474 CATATTTTTT
1748484 TA TA TA 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
1748519 GAAGTTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1748865 original size:30 final size:31
Alignment explanation
Indices: 1748831--1748892 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 31
1748821 TAAATTTTTT
1748831 ATTTT-TTTATATTA-ATAAAATTAAT-TTAAA
1 ATTTTATTT-TATTATATAAAA-TAATATTAAA
*
1748861 ATTTTATTTTATTATTTAAAATAATATTAAA
1 ATTTTATTTTATTATATAAAATAATATTAAA
1748892 A
1 A
1748893 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTTATTTTATTATATAAAATAATATTAAA
Found at i:1748914 original size:69 final size:71
Alignment explanation
Indices: 1748834--1748972 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 71
1748824 ATTTTTTATT
*
1748834 TTTTTATATTAATA-A-AATT-AATTTAAAATTTTATTTTATTATTTAAAATAATA-TTAAA-AA
1 TTTTTATATTAATATATAATTAAATTT-AAATATT-TTTTATTATTT-AAATAATACTTAAATAA
1748894 TAAAAAATA
63 TAAAAAATA
*
1748903 TTTTTATATTAATATCTATAATTAAATTTAAATATTTTTTATTATTTCAATAATACTTAAATAAT
1 TTTTTATATTAATA--TATAATTAAATTTAAATATTTTTTATTATTTAAATAATACTTAAATAAT
*
1748968 TAAAA
64 AAAAA
1748973 CTCCTTATCG
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
69 14 0.23
71 7 0.12
72 17 0.28
73 17 0.28
74 5 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (71 bp):
TTTTTATATTAATATATAATTAAATTTAAATATTTTTTATTATTTAAATAATACTTAAATAATAA
AAAATA
Found at i:1753039 original size:21 final size:22
Alignment explanation
Indices: 1752998--1753041 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
1752988 AATTTTAAGA
*
1752998 TAAATTATTTTATATATTTATT
1 TAAATTATTTTATATAATTATT
1753020 TAAA-TATTTTA-ATTAATTATT
1 TAAATTATTTTATA-TAATTATT
1753041 T
1 T
1753042 TTATAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 15 0.75
22 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TAAATTATTTTATATAATTATT
Found at i:1753307 original size:33 final size:34
Alignment explanation
Indices: 1753250--1753313 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
1753240 ATATAAATAC
* *
1753250 ATATTATAAGATTTATATAATATAAATTATTGAT
1 ATATTATAAGATTTATAAAATATAAAATATTGAT
1753284 ATATTA-AA-ATTTATACAAATATAAAATATT
1 ATATTATAAGATTTATA-AAATATAAAATATT
1753314 TTACAAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 7 0.26
33 14 0.52
34 6 0.22
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (34 bp):
ATATTATAAGATTTATAAAATATAAAATATTGAT
Found at i:1753466 original size:20 final size:19
Alignment explanation
Indices: 1753438--1753478 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1753428 ATAACATATT
*
1753438 TAATTAATATGAAAATAATA
1 TAATAAATATG-AAATAATA
*
1753458 TAATAAATATGATATAATA
1 TAATAAATATGAAATAATA
1753477 TA
1 TA
1753479 TTTAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
TAATAAATATGAAATAATA
Found at i:1753486 original size:24 final size:23
Alignment explanation
Indices: 1753426--1753514 Score: 71
Period size: 24 Copynumber: 4.0 Consensus size: 23
1753416 CATAATACGA
* *
1753426 ATATAACATATTTAATTAATATG
1 ATATAATATATTTAATAAATATG
*
1753449 A-A-AATA-ATATAATAAATATG
1 ATATAATATATTTAATAAATATG
1753469 ATATAATATATTTAAATATAAT-T-
1 ATATAATATATTT-AATA-AATATG
* *
1753492 ATCATAATATGTTTAATATATAT
1 AT-ATAATATATTTAATAAATAT
1753515 TTTAATTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
20 13 0.25
21 4 0.08
22 7 0.13
23 11 0.21
24 15 0.28
25 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATAATATATTTAATAAATATG
Found at i:1753747 original size:18 final size:17
Alignment explanation
Indices: 1753724--1753759 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1753714 TAATTATGAC
1753724 ATAATAAAATATATAAAT
1 ATAATAAAA-ATATAAAT
*
1753742 ATAATAAAAATATCAAT
1 ATAATAAAAATATAAAT
1753759 A
1 A
1753760 CGATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAAATATAAAT
Found at i:1754719 original size:22 final size:22
Alignment explanation
Indices: 1754691--1754733 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1754681 AAAAATAAAA
1754691 ATATTTTTATAAT-AATATTTAT
1 ATATTTTTATAATCAA-ATTTAT
1754713 ATATTTTTATAATCAAATTTA
1 ATATTTTTATAATCAAATTTA
1754734 AATAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTTTATAATCAAATTTAT
Found at i:1754850 original size:12 final size:12
Alignment explanation
Indices: 1754833--1754857 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1754823 AATTTAATAA
1754833 ATAAATAAATTT
1 ATAAATAAATTT
1754845 ATAAATAAATTT
1 ATAAATAAATTT
1754857 A
1 A
1754858 ATTTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAATAAATTT
Found at i:1754862 original size:17 final size:16
Alignment explanation
Indices: 1754821--1754854 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1754811 ATAAACTTAT
1754821 TAAATTTAATAAATAAA
1 TAAATTT-ATAAATAAA
1754838 TAAATTTATAAATAAA
1 TAAATTTATAAATAAA
1754854 T
1 T
1754855 TTAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTTATAAATAAA
Found at i:1755380 original size:28 final size:26
Alignment explanation
Indices: 1755335--1755386 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 26
1755325 AAACTTTTAA
1755335 AATAAAAAAAAATAATTT-TATTTTT
1 AATAAAAAAAAATAATTTATATTTTT
1755360 AATAAAATAAAATATTAATTTATATTT
1 AATAAAA-AAAA-A-TAATTTATATTT
1755387 ATTATTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 1 0.04
28 6 0.26
29 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATAAAAAAAAATAATTTATATTTTT
Found at i:1755387 original size:27 final size:25
Alignment explanation
Indices: 1755335--1755387 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
1755325 AAACTTTTAA
*
1755335 AATAAAAAAAAATAATTTTATTTTT
1 AATAAAAAAAAATAATTTTATATTT
1755360 AATAAAATAAAATATTAA-TTTATATTT
1 AATAAAA-AAAA-A-TAATTTTATATTT
1755387 A
1 A
1755388 TTATTACGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.29
26 4 0.17
27 10 0.42
28 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAAAAAAAAATAATTTTATATTT
Found at i:1755890 original size:19 final size:21
Alignment explanation
Indices: 1755842--1755909 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
1755832 ATTTAATATG
* *
1755842 TTTA-AAATT-TAAATTTTAG
1 TTTATAAATTATAATTTTTAT
* *
1755861 TATATATAATTA-ATTTTTTAT
1 TTTATA-AATTATAATTTTTAT
1755882 TTT-TAAATTATAATTTTTAT
1 TTTATAAATTATAATTTTTAT
1755902 TTTATAAA
1 TTTATAAA
1755910 ATAAAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 8 0.21
20 14 0.37
21 16 0.42
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
TTTATAAATTATAATTTTTAT
Found at i:1755913 original size:19 final size:19
Alignment explanation
Indices: 1755875--1755913 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
1755865 TATAATTAAT
1755875 TTTTTATTTTTAAATTATAA
1 TTTTTATTTTTAAA-TATAA
1755895 TTTTTATTTTATAAA-ATAA
1 TTTTTATTTT-TAAATATAA
1755914 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATTTTTAAATATAA
Found at i:1756051 original size:11 final size:11
Alignment explanation
Indices: 1756037--1756066 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1756027 ATATAACGTA
1756037 TATAAATTTTT
1 TATAAATTTTT
*
1756048 TATAATTTTTT
1 TATAAATTTTT
1756059 TATAAATT
1 TATAAATT
1756067 ACGAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATAAATTTTT
Found at i:1756090 original size:61 final size:60
Alignment explanation
Indices: 1756013--1756134 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 60
1756003 ATAATAATTT
1756013 AATTTAATTAATTTATATAACGTATATAAATTTTTTATAATTTTTTTATAAATTACGAAAA
1 AATTTAATTAATTTATATAACGTATATAAATTTTTTATAATTTTTTTATAAATTAC-AAAA
*
1756074 AATTTAATTAATTTATATAACGTTTATAAATTTTTTATAATTTTTTTATAAATTACAAAA
1 AATTTAATTAATTTATATAACGTATATAAATTTTTTATAATTTTTTTATAAATTACAAAA
1756134 A
1 A
1756135 TAAAATTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 5 0.08
61 55 0.92
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (60 bp):
AATTTAATTAATTTATATAACGTATATAAATTTTTTATAATTTTTTTATAAATTACAAAA
Found at i:1756110 original size:11 final size:11
Alignment explanation
Indices: 1756096--1756127 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1756086 TTATATAACG
1756096 TTTATAAATTT
1 TTTATAAATTT
*
1756107 TTTATAATTTT
1 TTTATAAATTT
1756118 TTTATAAATT
1 TTTATAAATT
1756128 ACAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTATAAATTT
Found at i:1757795 original size:25 final size:26
Alignment explanation
Indices: 1757747--1757796 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1757737 TATAGTGACG
*
1757747 GAAAACCTCACTCTTACATTAATGTT
1 GAAAACCTCACTCTTACATGAATGTT
1757773 GAAAACCTCCAC-C-TACATGAATGT
1 GAAAACCT-CACTCTTACATGAATGT
1757797 CTGTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 9 0.41
27 3 0.14
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (26 bp):
GAAAACCTCACTCTTACATGAATGTT
Found at i:1760864 original size:10 final size:9
Alignment explanation
Indices: 1760826--1760879 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
1760816 TAAATTTACC
1760826 TATAAATAT
1 TATAAATAT
1760835 TATAAATAT
1 TATAAATAT
1760844 TATAAATAT
1 TATAAATAT
*
1760853 TTTAATATAT
1 TATAA-ATAT
* *
1760863 TTTAAATAA
1 TATAAATAT
1760872 TA-AAATAT
1 TATAAATAT
1760880 ATATTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
8 5 0.12
9 26 0.65
10 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATAAATAT
Found at i:1760868 original size:19 final size:19
Alignment explanation
Indices: 1760828--1760889 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
1760818 AATTTACCTA
*
1760828 TAAATATTATAA-ATATTA
1 TAAATATTATAATATATTT
*
1760846 TAAATATTTTAATATATTT
1 TAAATATTATAATATATTT
* *
1760865 TAAATAATAAAATATATATT
1 TAAATATTATAATATAT-TT
1760885 TAAAT
1 TAAAT
1760890 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 11 0.30
19 19 0.51
20 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATATTATAATATATTT
Found at i:1768269 original size:23 final size:23
Alignment explanation
Indices: 1768241--1768286 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1768231 GTGTTGTATT
*
1768241 ATAATTCATGTTGTGTTATTATC
1 ATAATTCATGTTGTATTATTATC
1768264 ATAATTCATGTTGTATTATTATC
1 ATAATTCATGTTGTATTATTATC
1768287 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (23 bp):
ATAATTCATGTTGTATTATTATC
Found at i:1773567 original size:19 final size:20
Alignment explanation
Indices: 1773537--1773577 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
1773527 TTATTTATTA
1773537 TATTATTAAAATAATATTTT
1 TATTATTAAAATAATATTTT
1773557 TATTATT-AAATAATATTTT
1 TATTATTAAAATAATATTTT
1773576 TA
1 TA
1773578 ATCGAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTAAAATAATATTTT
Found at i:1773585 original size:18 final size:18
Alignment explanation
Indices: 1773545--1773588 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1773535 TATATTATTA
*
1773545 AAATAATATTTTTATTATT
1 AAATAATATTTTTA-TATG
1773564 AAATAATATTTTTA-ATCG
1 AAATAATATTTTTATAT-G
1773582 AAATAAT
1 AAATAAT
1773589 TTGAATTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 7 0.30
19 14 0.61
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATAATATTTTTATATG
Found at i:1775775 original size:24 final size:20
Alignment explanation
Indices: 1775725--1775776 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
1775715 AAAAAATTAG
1775725 TTTTAAAA-TAATTTAATAA
1 TTTTAAAATTAATTTAATAA
1775744 TTTT-AAATTAATATATAATAA
1 TTTTAAAATTAAT-T-TAATAA
1775765 TATCTTAAAATT
1 T-T-TTAAAATT
1775777 TAAAATTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.11
19 8 0.30
20 1 0.04
21 7 0.26
22 1 0.04
23 2 0.07
24 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTAAAATTAATTTAATAA
Found at i:1785402 original size:19 final size:17
Alignment explanation
Indices: 1785368--1785408 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
1785358 ACGGTAATTA
1785368 AATATGATATAAAAAAT
1 AATATGATATAAAAAAT
*
1785385 GATATGATATGAAAAAAAT
1 AATATGATAT--AAAAAAT
1785404 AATAT
1 AATAT
1785409 AAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (17 bp):
AATATGATATAAAAAAT
Done.