Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold253
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: 2064896
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:1673386 original size:2 final size:2
Alignment explanation
Indices: 1673379--1673406 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1673369 ATCCAAATAA
1673379 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
1673407 TCTCATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1683867 original size:16 final size:17
Alignment explanation
Indices: 1683836--1683869 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1683826 ATAACTTTTT
1683836 TTTAATTTAAAGTTAAA
1 TTTAATTTAAAGTTAAA
*
1683853 TTTAA-TTAAATTTAAA
1 TTTAATTTAAAGTTAAA
1683869 T
1 T
1683870 CATAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATTTAAAGTTAAA
Found at i:1690389 original size:2 final size:2
Alignment explanation
Indices: 1690382--1690409 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1690372 CAACCAAGTT
1690382 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1690410 CGAGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1699479 original size:23 final size:22
Alignment explanation
Indices: 1699453--1699506 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
1699443 ATATAAAATT
1699453 TTTAAAATATAACATTTAAATAA
1 TTTAAAATATAACATTTAAA-AA
* * *
1699476 TTTAAATTTTAATATTTAAAAA
1 TTTAAAATATAACATTTAAAAA
1699498 TATTAAAAT
1 T-TTAAAAT
1699507 TTTTTTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAAAATATAACATTTAAAAA
Found at i:1701012 original size:47 final size:46
Alignment explanation
Indices: 1700915--1701012 Score: 103
Period size: 47 Copynumber: 2.1 Consensus size: 46
1700905 ATTTTAATAA
* *
1700915 ATAATTTTATATTTAATATATTATTTTAATTAAAAAATATATTAATT
1 ATAATTTTATATTTAATATATTATTTTAA-TAAAAAATAAATCAATT
*
1700962 ATAATTTTATTTTTATATATATT-TTTTAA-AAATAATATAAACTCAA-T
1 ATAATTTTATATTTA-ATATATTATTTTAATAAA-AA-ATAAA-TCAATT
1701009 ATAA
1 ATAA
1701013 AATTTATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
45 3 0.07
46 2 0.05
47 29 0.66
48 10 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (46 bp):
ATAATTTTATATTTAATATATTATTTTAATAAAAAATAAATCAATT
Found at i:1706325 original size:31 final size:31
Alignment explanation
Indices: 1706287--1706382 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
1706277 ATGCGTATAA
*
1706287 TTTGATGCTATCTGTTATTTAGTTAAATACG
1 TTTGATGCTATCTGTTATTTAGTTAAATATG
*
1706318 TTTGATGCTATCTGTTCTTTAGTTAAATATG
1 TTTGATGCTATCTGTTATTTAGTTAAATATG
1706349 TTTGATGCTATCTGTTATTTAGTTAAATATG
1 TTTGATGCTATCTGTTATTTAGTTAAATATG
1706380 TTT
1 TTT
1706383 ACATGTGTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (31 bp):
TTTGATGCTATCTGTTATTTAGTTAAATATG
Found at i:1712227 original size:13 final size:13
Alignment explanation
Indices: 1712209--1712238 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1712199 AAATTTTTTA
1712209 AATATTTATATCC
1 AATATTTATATCC
*
1712222 AATATTTATATCT
1 AATATTTATATCC
1712235 AATA
1 AATA
1712239 CATATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTTATATCC
Found at i:1714983 original size:37 final size:36
Alignment explanation
Indices: 1714915--1714984 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
1714905 TTAAATAATT
* **
1714915 AATATATTTAATTTTATATAAATATGTAATATTTTA
1 AATATATTTAATTTTATAAAAATATAAAATATTTTA
1714951 AATATGATTATAA-TTTATAAAAATATAAAATATT
1 AATAT-ATT-TAATTTTATAAAAATATAAAATATT
1714985 ATATGAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 21 0.72
38 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (36 bp):
AATATATTTAATTTTATAAAAATATAAAATATTTTA
Found at i:1715192 original size:2 final size:2
Alignment explanation
Indices: 1715187--1715211 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1715177 AAACACACAC
1715187 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 A
1715212 AAATAAGGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1716950 original size:12 final size:13
Alignment explanation
Indices: 1716927--1716955 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1716917 TATAATCTCA
1716927 TTAATATATAATT
1 TTAATATATAATT
1716940 TTAAT-TATAATT
1 TTAATATATAATT
1716952 TTAA
1 TTAA
1716956 GTTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:1720704 original size:5 final size:5
Alignment explanation
Indices: 1720694--1720760 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
1720684 AATTAAAAAA
*
1720694 TTAAT TTAA- TTAAT TTAAT TTATATT TTAA- TTGAT TTAAAT AGTTAAT
1 TTAAT TTAAT TTAAT TTAAT TTA-A-T TTAAT TTAAT TT-AAT --TTAAT
1720742 TTAA- TTAA- TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT T
1720761 ATTTTATTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
4 15 0.29
5 24 0.46
6 4 0.08
7 7 0.13
8 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
TTAAT
Found at i:1720706 original size:9 final size:9
Alignment explanation
Indices: 1720692--1720766 Score: 64
Period size: 9 Copynumber: 8.1 Consensus size: 9
1720682 TTAATTAAAA
1720692 AATTAATTT
1 AATTAATTT
1720701 AATTAATTT
1 AATTAATTT
1720710 AATTTATATTTT
1 AA-TTA-A-TTT
*
1720722 AATTGATTT
1 AATTAATTT
* *
1720731 AAAT-AGTT
1 AATTAATTT
1720739 AATTTAA-TT
1 AA-TTAATTT
1720748 AATTAATTT
1 AATTAATTT
*
1720757 AATTATTTT
1 AATTAATTT
1720766 A
1 A
1720767 TTATTATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
8 9 0.16
9 33 0.60
10 5 0.09
11 3 0.05
12 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (9 bp):
AATTAATTT
Found at i:1720708 original size:13 final size:13
Alignment explanation
Indices: 1720692--1720761 Score: 77
Period size: 13 Copynumber: 5.1 Consensus size: 13
1720682 TTAATTAAAA
1720692 AATTAATTTAATT
1 AATTAATTTAATT
1720705 AATTTAATTTATATTTT
1 AA-TTAATTTA-A--TT
* *
1720722 AATTGATTTAAAT
1 AATTAATTTAATT
*
1720735 AGTTAATTTAATT
1 AATTAATTTAATT
1720748 AATTAATTTAATT
1 AATTAATTTAATT
1720761 A
1 A
1720762 TTTTATTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 26 0.55
14 8 0.17
15 2 0.04
16 7 0.15
17 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:1720708 original size:21 final size:21
Alignment explanation
Indices: 1720682--1720753 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
1720672 AATTTACTAT
1720682 TTAATTAAAAAATTAATTTAA
1 TTAATTAAAAAATTAATTTAA
* *
1720703 TTAATT--TAATTTATATTTTAA
1 TTAATTAAAAAATTA-A-TTTAA
* * *
1720724 TTGATTTAAATAGTTAATTTAA
1 TT-AATTAAAAAATTAATTTAA
1720746 TTAATTAA
1 TTAATTAA
1720754 TTTAATTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 5 0.13
20 1 0.03
21 18 0.46
22 10 0.26
23 1 0.03
24 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TTAATTAAAAAATTAATTTAA
Found at i:1720714 original size:38 final size:40
Alignment explanation
Indices: 1720672--1720766 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 40
1720662 AGTCGGTTAG
1720672 AATTTACTA-TTTAATT-A-AAA-AATTAATTTAATTAATTT
1 AATTTA-TATTTTAATTGATAAATAATTAATTTAATTAA-TT
*
1720710 AATTTATATTTTAATTGATTTAAATAGTTAATTTAATTAATT
1 AATTTATATTTTAATTGA--TAAATAATTAATTTAATTAATT
1720752 AATTTAATTATTTTA
1 AATTT-A-TATTTTA
1720767 TTATTATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
37 2 0.04
38 13 0.27
39 1 0.02
42 10 0.21
43 15 0.31
44 7 0.15
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
AATTTATATTTTAATTGATAAATAATTAATTTAATTAATT
Found at i:1720905 original size:19 final size:18
Alignment explanation
Indices: 1720881--1720928 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1720871 TTAAAAATTT
*
1720881 ATCTAAATTTAAACTAAAA
1 ATCT-AATTAAAACTAAAA
*
1720900 ATCTAATTAAAATTAAAA
1 ATCTAATTAAAACTAAAA
**
1720918 AAATAATTAAA
1 ATCTAATTAAA
1720929 CTCAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
ATCTAATTAAAACTAAAA
Found at i:1720910 original size:23 final size:23
Alignment explanation
Indices: 1720842--1720916 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
1720832 TAAAATATAT
* * *
1720842 ATTTAAACT-TAAACCTATTTAA
1 ATTTAAACTAAAAATCTAATTAA
* * *
1720864 ATCTAAATTAAAAAT-TTATCTAA
1 ATTTAAACTAAAAATCTAAT-TAA
1720887 ATTTAAACTAAAAATCTAATTAA
1 ATTTAAACTAAAAATCTAATTAA
*
1720910 AATTAAA
1 ATTTAAA
1720917 AAAATAATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
22 9 0.22
23 28 0.70
24 3 0.08
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTTAAACTAAAAATCTAATTAA
Found at i:1721836 original size:14 final size:15
Alignment explanation
Indices: 1721807--1721880 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
1721797 TTACGTAAAT
1721807 TTAAATTAAATATTA
1 TTAAATTAAATATTA
*
1721822 TTAAA-TAATTATTA
1 TTAAATTAAATATTA
* * *
1721836 TTTATTTAAATATATT
1 TTAAATTAAATAT-TA
*
1721852 TTATAATTTAAATTTTTA
1 TTA-AA-TTAAA-TATTA
*
1721870 TTTAATTAAAT
1 TTAAATTAAAT
1721881 TTAAAGTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
14 11 0.25
15 12 0.27
16 8 0.18
17 3 0.07
18 8 0.18
19 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAATTAAATATTA
Found at i:1721851 original size:17 final size:16
Alignment explanation
Indices: 1721828--1721881 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
1721818 ATTATTAAAT
1721828 AATTATTATTTATTTA
1 AATTATTATTTATTTA
1721844 AATATATT-TTATAATTTA
1 AAT-TATTATT-T-ATTTA
* *
1721862 AATTTTTATTTAATTA
1 AATTATTATTTATTTA
1721878 AATT
1 AATT
1721882 TAAAGTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 13 0.41
17 9 0.28
18 10 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTATTATTTATTTA
Found at i:1722783 original size:22 final size:23
Alignment explanation
Indices: 1722731--1722788 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1722721 TACTTTAAAT
* **
1722731 ATATGAAAAATAATACAAACATG
1 ATATAAAAAATAATACAAACACA
1722754 ATATAAAAAATAATTA-AAACACA
1 ATATAAAAAATAA-TACAAACACA
1722777 ATA-AAAAAATAA
1 ATATAAAAAATAA
1722789 ATATGACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.29
23 20 0.65
24 2 0.06
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (23 bp):
ATATAAAAAATAATACAAACACA
Found at i:1723018 original size:11 final size:11
Alignment explanation
Indices: 1723004--1723102 Score: 53
Period size: 11 Copynumber: 8.9 Consensus size: 11
1722994 TATCAATTTT
1723004 ATATAAAAATA
1 ATATAAAAATA
*
1723015 ATATAAATATA
1 ATATAAAAATA
*
1723026 ACATAAAAATTA
1 ATATAAAAA-TA
1723038 ATCATAATAAATAA
1 AT-ATAA-AAAT-A
* ***
1723052 ATATGATGTTA
1 ATATAAAAATA
1723063 ATAT--AAA-A
1 ATATAAAAATA
1723071 ATATAAAAATA
1 ATATAAAAATA
1723082 AT-TAATAAATA
1 ATATAA-AAATA
* *
1723093 TTATATAAAT
1 ATATAAAAAT
1723103 TTATAATATT
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
8 5 0.08
10 6 0.09
11 35 0.53
12 6 0.09
13 8 0.12
14 6 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:1724445 original size:29 final size:31
Alignment explanation
Indices: 1724383--1724485 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 31
1724373 AATTTTACTG
* * *
1724383 TAAATATGA-TTTTAATAATTT-T-TTAGTA
1 TAAATATAATTTTTAATTATTTATATTAATA
* *
1724411 TAAAATATAATTTTTACTTA-TTA-ATTATTA
1 T-AAATATAATTTTTAATTATTTATATTAATA
* * *
1724441 TAAATTTAATTCTTAATTATTTATTTTTAATA
1 TAAATATAATTTTTAATTATTTA-TATTAATA
1724473 TAAATATAATTTT
1 TAAATATAATTTT
1724486 ATTTTATGTT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
28 1 0.02
29 24 0.42
30 16 0.28
32 16 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (31 bp):
TAAATATAATTTTTAATTATTTATATTAATA
Found at i:1724573 original size:27 final size:27
Alignment explanation
Indices: 1724527--1724605 Score: 70
Period size: 32 Copynumber: 2.8 Consensus size: 27
1724517 CCTCTTCCAT
** *
1724527 TTTATTTTTT-ATATTTATATTATTAA
1 TTTATTTTTTAATATAAATATTAATAA
1724553 TTTATTTTTTAATATAAATATGATTTTAATAA
1 TTTATTTTTTAATAT-AA-AT-A--TTAATAA
*
1724585 TTTATTTTTTAGTATAAATAT
1 TTTATTTTTTAATATAAATAT
1724606 AATTTTTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
26 10 0.23
27 5 0.12
29 3 0.07
30 3 0.07
31 2 0.05
32 20 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTATTTTTTAATATAAATATTAATAA
Found at i:1724590 original size:32 final size:32
Alignment explanation
Indices: 1724550--1724718 Score: 121
Period size: 32 Copynumber: 5.2 Consensus size: 32
1724540 TTTATATTAT
*
1724550 TAATTTATTTTTTAATATAAATATGATTTTAA
1 TAATTTATTTTTTAATATAAATATAATTTTAA
*
1724582 TAATTTATTTTTTAGTATAAATATAATTTT--
1 TAATTTATTTTTTAATATAAATATAATTTTAA
* ** * *
1724612 T-AGTTATTAATTAAAAT-AATCTAATTTTTAA
1 TAATTTATTTTTTAATATAAATATAA-TTTTAA
* * *
1724643 TTACTTATTTTTTAATATAACTATAATTTTATTTTA
1 TAATTTATTTTTTAATATAAATATAATTTTA----A
* * * *
1724679 TATTTTTATTATTTAACATAAATATAATTTAAA
1 TA-ATTTATTTTTTAATATAAATATAATTTTAA
*
1724712 TTATTTA
1 TAATTTA
1724719 CTATTAATGT
Statistics
Matches: 104, Mismatches: 23, Indels: 20
0.71 0.16 0.14
Matches are distributed among these distances:
28 6 0.06
29 15 0.14
30 1 0.01
31 1 0.01
32 49 0.47
33 7 0.07
36 2 0.02
37 23 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
TAATTTATTTTTTAATATAAATATAATTTTAA
Found at i:1724657 original size:187 final size:185
Alignment explanation
Indices: 1724342--1724693 Score: 505
Period size: 187 Copynumber: 1.9 Consensus size: 185
1724332 ATTTTTTATT
* * *
1724342 TTTTACTTTTTTTTATTTATATTATTAATTTAATTTTACTGTAAATATGATTTTAATAATTTTTT
1 TTTTACTTTTTTATATTTATATTATTAATTTAATTTTAATATAAATATGATTTTAATAATTTTTT
** * *
1724407 AGTATAAAATATAATTTTTACTTATTAATTATTATAAATTTAATTCTTAATTATTTATTTTTAAT
66 AGTATAAAATATAATTTTTACTTATTAATTAAAATAAATCTAATTCTTAATTACTTATTTTTAAT
1724472 ATAAATATAATTTTATTTTAT-GTTTTAGTATTTATTTTTATTTTGCCTCTTCCA
131 ATAAATATAATTTTATTTTATAGTTTTAGTATTTATTTTTATTTTGCCTCTTCCA
*
1724526 TTTTA-TTTTTTATATTTATATTATTAATTTATTTTTTAATATAAATATGATTTTAATAATTTAT
1 TTTTACTTTTTTATATTTATATTATTAATTTA-ATTTTAATATAAATATGATTTTAAT-A---AT
* *
1724590 TTTTTAGTAT-AAATATAATTTTTAGTTATTAATTAAAAT-AATCTAATTTTTAATTACTTATTT
61 TTTTTAGTATAAAATATAATTTTTACTTATTAATTAAAATAAATCTAATTCTTAATTACTTA-TT
* * *
1724653 TTTAATATAACTATAATTTTATTTTATATTTTTATTATTTA
125 TTTAATATAAATATAATTTTATTTTATAGTTTTAGTATTTA
1724694 ACATAAATAT
Statistics
Matches: 148, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
183 25 0.17
184 27 0.18
185 1 0.01
186 18 0.12
187 54 0.36
188 23 0.16
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (185 bp):
TTTTACTTTTTTATATTTATATTATTAATTTAATTTTAATATAAATATGATTTTAATAATTTTTT
AGTATAAAATATAATTTTTACTTATTAATTAAAATAAATCTAATTCTTAATTACTTATTTTTAAT
ATAAATATAATTTTATTTTATAGTTTTAGTATTTATTTTTATTTTGCCTCTTCCA
Found at i:1728396 original size:30 final size:30
Alignment explanation
Indices: 1728362--1728441 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
1728352 GAGGAGTGGA
*
1728362 TTCCACCGCCACCTCCTGATACTGAACAAG
1 TTCCACCGCCACCTCCTGATAATGAACAAG
* *
1728392 TTCCACCACCTCCTCCTGATAATGAACAAG
1 TTCCACCGCCACCTCCTGATAATGAACAAG
* *
1728422 TTCCTCCGCCACCACCTGAT
1 TTCCACCGCCACCTCCTGAT
1728442 GAGCCTCCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.25, C:0.41, G:0.11, T:0.23
Consensus pattern (30 bp):
TTCCACCGCCACCTCCTGATAATGAACAAG
Found at i:1736486 original size:22 final size:24
Alignment explanation
Indices: 1736448--1736518 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 24
1736438 TAATTTTAAA
*
1736448 ATAATAAATATTAATTATAAATATT
1 ATAA-AAATAATAATTATAAATATT
*
1736473 ATTAAAA-AA-AATTA-AAA-ATT
1 ATAAAAATAATAATTATAAATATT
1736493 ATAAAAATAATAATTAT-AATATT
1 ATAAAAATAATAATTATAAATATT
1736516 ATA
1 ATA
1736519 CTGTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 9 0.23
21 5 0.13
22 12 0.31
23 7 0.18
24 3 0.08
25 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAAAATAATAATTATAAATATT
Found at i:1742733 original size:2 final size:2
Alignment explanation
Indices: 1742726--1742761 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1742716 TCATTCTGCA
1742726 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
1742762 CCAAAGCATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1757605 original size:19 final size:17
Alignment explanation
Indices: 1757575--1757634 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 17
1757565 TAATTTTTAA
1757575 TTTATTAA-ATAATATAT
1 TTTATTAATATAATA-AT
1757592 TTTACTTAATATAATAAAT
1 TTTA-TTAATATAAT-AAT
*
1757611 TTAAATTAATTGATAATAAT
1 TT-TATTAA-T-ATAATAAT
1757631 TTTA
1 TTTA
1757635 AAAACTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 4 0.11
18 4 0.11
19 14 0.40
20 8 0.23
21 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTATTAATATAATAAT
Found at i:1757964 original size:26 final size:27
Alignment explanation
Indices: 1757934--1758015 Score: 78
Period size: 32 Copynumber: 2.9 Consensus size: 27
1757924 TATAAATACG
1757934 ATATAAATATAAAAAAATTTTAAAATT
1 ATATAAATATAAAAAAATTTTAAAATT
*
1757961 -TATATAATATAAATTATTAATTTATTAAAATT
1 ATATA-AATATAAA--A--AAATT-TTAAAATT
*
1757993 ATATAAATAT-AAAATATTTTAAA
1 ATATAAATATAAAAAAATTTTAAA
1758016 TATAATTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
26 9 0.20
27 11 0.24
29 2 0.04
31 6 0.13
32 13 0.29
33 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATAAATATAAAAAAATTTTAAAATT
Found at i:1758005 original size:16 final size:16
Alignment explanation
Indices: 1757954--1758020 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
1757944 AAAAAAATTT
1757954 TAAAATT-TATATAATA
1 TAAAATTATATA-AATA
*
1757970 T-AAATTAT-TAATTTA
1 TAAAATTATATAA-ATA
1757985 TTAAAATTATATAAATA
1 -TAAAATTATATAAATA
*
1758002 TAAAA-TATTTTAAATA
1 TAAAATTA-TATAAATA
1758018 TAA
1 TAA
1758021 TTATAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 1 0.02
15 11 0.26
16 18 0.43
17 9 0.21
18 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATTATATAAATA
Found at i:1758246 original size:42 final size:40
Alignment explanation
Indices: 1758166--1758267 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 40
1758156 AGCAACCTAG
*
1758166 TAATGTTTTAATTAAAAATGATATGAAATTAAATAATATAA
1 TAAT-TTTTAATTAAAAATGATATAAAATTAAATAATATAA
1758207 TAATATTTTAATTAAAAAT-ATCATCAAAATTAAATAATATAA
1 TAAT-TTTTAATTAAAAATGAT-AT-AAAATTAAATAATATAA
1758249 TAACGTTTTTAATTAAAAA
1 TAA--TTTTTAATTAAAAA
1758268 CGTTACTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
40 2 0.04
41 20 0.36
42 19 0.35
43 13 0.24
44 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (40 bp):
TAATTTTTAATTAAAAATGATATAAAATTAAATAATATAA
Found at i:1759957 original size:3 final size:3
Alignment explanation
Indices: 1759949--1759976 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1759939 TTTCACCATC
1759949 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1759977 ATCTATGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1760160 original size:28 final size:27
Alignment explanation
Indices: 1760071--1760162 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 27
1760061 GATAAATATA
1760071 TTATTTTTTAATTAAAAATTAAGATTTAAATTT
1 TTATTTTTTAA--AAAAATT-A-ATTT-AA-TT
**
1760104 TTATTTTTTATAAATAAAAAAATTT-ATT
1 TTATTTTTTA-AAA-AAATTAATTTAATT
1760132 TTATTTTTTAAAAAAATTAATTATAATT
1 TTATTTTTTAAAAAAATTAATT-TAATT
1760160 TTA
1 TTA
1760163 ATAAAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
26 7 0.14
27 4 0.08
28 18 0.35
29 1 0.02
31 4 0.08
32 3 0.06
33 13 0.25
34 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
TTATTTTTTAAAAAAATTAATTTAATT
Found at i:1760161 original size:21 final size:22
Alignment explanation
Indices: 1760118--1760180 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1760108 TTTTTATAAA
* * *
1760118 TAAAAAAATTTATTTTATTTTT
1 TAAAAAAATTAATTATATATTT
1760140 TAAAAAAATTAATTATA-ATTT
1 TAAAAAAATTAATTATATATTT
1760161 TAATAAAAA-TAA-TATATATT
1 TAA-AAAAATTAATTATATATT
1760181 GATATGATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.11
21 12 0.33
22 20 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAAAAATTAATTATATATTT
Found at i:1760884 original size:14 final size:14
Alignment explanation
Indices: 1760875--1760907 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1760865 TTATATAATT
1760875 TATAAAATATAAAA
1 TATAAAATATAAAA
*
1760889 TATAAAAAAT-AAA
1 TATAAAATATAAAA
1760902 TATAAA
1 TATAAA
1760908 TACTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TATAAAATATAAAA
Found at i:1760885 original size:7 final size:7
Alignment explanation
Indices: 1760875--1760907 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1760865 TTATATAATT
1760875 TATAAAA
1 TATAAAA
1760882 TATAAAA
1 TATAAAA
1760889 TATAAAA
1 TATAAAA
*
1760896 AAT-AAA
1 TATAAAA
1760902 TATAAA
1 TATAAA
1760908 TACTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TATAAAA
Found at i:1760986 original size:22 final size:21
Alignment explanation
Indices: 1760951--1761024 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
1760941 AATTATTTAT
*
1760951 ATTTTAAAATTTAATAAA-AA
1 ATTTTAAAAATTAATAAATAA
1760971 ATTATTAAAAAATTAA-AAATTAA
1 ATT-TT-AAAAATTAATAAA-TAA
*
1760994 ATTTTAAAAATAAATAAATAA
1 ATTTTAAAAATTAATAAATAA
*
1761015 A-CTTAAAAAT
1 ATTTTAAAAAT
1761025 AATTTAAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 11 0.24
21 17 0.37
22 13 0.28
23 5 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTTTAAAAATTAATAAATAA
Found at i:1761060 original size:16 final size:16
Alignment explanation
Indices: 1761039--1761071 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1761029 TAAAACATAT
1761039 TTTAAATTAAAT-TAAA
1 TTTAAA-TAAATATAAA
1761055 TTTAAATAAATATAAA
1 TTTAAATAAATATAAA
1761071 T
1 T
1761072 AATATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATAAATATAAA
Found at i:1761358 original size:2 final size:2
Alignment explanation
Indices: 1761351--1761380 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1761341 CTTTATTTTC
1761351 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
1761381 TTTATGGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1761627 original size:13 final size:15
Alignment explanation
Indices: 1761597--1761629 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1761587 ATCGATATTG
1761597 AATAATATTAATTAA
1 AATAATATTAATTAA
1761612 AATAATATT-A-TAA
1 AATAATATTAATTAA
1761625 AATAA
1 AATAA
1761630 AAATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATATTAATTAA
Found at i:1761743 original size:20 final size:21
Alignment explanation
Indices: 1761710--1761762 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
1761700 ATAAATTAAT
* *
1761710 ATATTATCTATAATAAT-ATA
1 ATATTATATATAATAATAAAA
* *
1761730 ATATTATATTTAATTATAAAA
1 ATATTATATATAATAATAAAA
1761751 ATATTATTATAT
1 ATATTA-TATAT
1761763 TTAATGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 14 0.54
21 8 0.31
22 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATATATAATAATAAAA
Found at i:1767779 original size:17 final size:17
Alignment explanation
Indices: 1767759--1767792 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1767749 TATTAATTTA
1767759 TATAATT-ATATTTAAAT
1 TATAATTAAT-TTTAAAT
1767776 TATAATTAATTTTAAAT
1 TATAATTAATTTTAAAT
1767793 AATGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAATTAATTTTAAAT
Found at i:1778730 original size:3 final size:3
Alignment explanation
Indices: 1778722--1778762 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1778712 AAAACTCACC
1778722 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1778763 GCTCTCATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1781120 original size:25 final size:25
Alignment explanation
Indices: 1781086--1781136 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1781076 CACTACATAG
1781086 AAAGATGGCAAGTCTTAGCAATTTA
1 AAAGATGGCAAGTCTTAGCAATTTA
1781111 AAAGATGGCAAGTCTTAGCAATTTA
1 AAAGATGGCAAGTCTTAGCAATTTA
1781136 A
1 A
1781137 TACTACTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAGATGGCAAGTCTTAGCAATTTA
Found at i:1791275 original size:3 final size:3
Alignment explanation
Indices: 1791267--1791305 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
1791257 TATTAAACCA
* *
1791267 AAT AAT AAT AAT ACT AATT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AA
1791306 CAACAACAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:1796621 original size:41 final size:36
Alignment explanation
Indices: 1796564--1796642 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 36
1796554 AATTAATAAA
*
1796564 TTTTAAATTAAATTTAATTAATTTATATAATTTACTTAT
1 TTTTAAATTAAATTTAATAAATTTA-AT-ATTTA-TTAT
1796603 TTTTAAAATTAAAATTTAATAAATTTAATATTTATTAT
1 TTTT-AAATT-AAATTTAATAAATTTAATATTTATTAT
1796641 TT
1 TT
1796643 ATTATTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 6 0.16
39 9 0.24
40 7 0.19
41 15 0.41
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTAAATTAAATTTAATAAATTTAATATTTATTAT
Found at i:1808314 original size:4 final size:4
Alignment explanation
Indices: 1808307--1808331 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1808297 AATTGAAAAA
1808307 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
1808332 TTGTCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1813042 original size:11 final size:11
Alignment explanation
Indices: 1813023--1813067 Score: 56
Period size: 10 Copynumber: 4.1 Consensus size: 11
1813013 GCCAATTGGG
*
1813023 CTTTGCTTTTT
1 CTTTTCTTTTT
1813034 CTTTTC-TTTT
1 CTTTTCTTTTT
*
1813044 CTTTTCGTTTT
1 CTTTTCTTTTT
1813055 CTTTTTCTTTTT
1 C-TTTTCTTTTT
1813067 C
1 C
1813068 ACTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 10 0.33
11 10 0.33
12 10 0.33
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:1813067 original size:6 final size:5
Alignment explanation
Indices: 1813030--1813065 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
1813020 GGGCTTTGCT
1813030 TTTTC TTTTC TTTTC TTTTC GTTTTC TTTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC -TTTTC -TTTTC TTTT
1813066 TCACTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:1813819 original size:40 final size:40
Alignment explanation
Indices: 1813764--1813839 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
1813754 ACATTACATA
1813764 TACCATATTTTCCTAGTATTAAAAGTTTCTGCCAGCCATG
1 TACCATATTTTCCTAGTATTAAAAGTTTCTGCCAGCCATG
1813804 TACCATATTTTCCTAGTATTAAAAGTTTCTGCCAGC
1 TACCATATTTTCCTAGTATTAAAAGTTTCTGCCAGC
1813840 TAGAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (40 bp):
TACCATATTTTCCTAGTATTAAAAGTTTCTGCCAGCCATG
Found at i:1822703 original size:27 final size:27
Alignment explanation
Indices: 1822621--1822727 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 27
1822611 TTTGGAATTT
* * *
1822621 TTAAAATTTTTTTAGTTGA-ATTAATA
1 TTAAAATATTTTTATTTTATATTAATA
* *
1822647 TGAAAATTTATTTTATTATT-TAGTATAATA
1 TTAAAATAT-TTTTATT-TTATA-T-TAATA
1822677 TTAAAATATTTTTATTTTATATTAATA
1 TTAAAATATTTTTATTTTATATTAATA
* * *
1822704 TTTATATATTTTTATAATTATATT
1 TTAAAATATTTTTAT-TTTATATT
1822728 TAAATAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 8 0.12
27 24 0.36
28 12 0.18
29 10 0.15
30 12 0.18
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TTAAAATATTTTTATTTTATATTAATA
Found at i:1823000 original size:24 final size:24
Alignment explanation
Indices: 1822954--1823000 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1822944 AAATTTAAAA
*
1822954 TTTAATTATAATAATTTAAATTTT
1 TTTAATTATAATAATATAAATTTT
*
1822978 TTTAATTTTAA-AATATAATATTT
1 TTTAATTATAATAATATAA-ATTT
1823001 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTAATTATAATAATATAAATTTT
Found at i:1823015 original size:30 final size:30
Alignment explanation
Indices: 1822944--1823015 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
1822934 TAAAATACGT
* *
1822944 AAATTTAAAATTTAATTATAATAATTTAAA
1 AAATTTAAATTTTAAATATAATAATTTAAA
*** *
1822974 TTTTTTTAATTTTAAAATATAAT-ATTTAAA
1 AAATTTAAATTTT-AAATATAATAATTTAAA
1823004 AAATTTAAATTT
1 AAATTTAAATTT
1823016 AATATTTATT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
AAATTTAAATTTTAAATATAATAATTTAAA
Found at i:1823380 original size:2 final size:2
Alignment explanation
Indices: 1823373--1823402 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1823363 ATAATACATA
1823373 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
1823403 GTCTATCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1823585 original size:2 final size:2
Alignment explanation
Indices: 1823578--1823613 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1823568 CGCTACTATT
1823578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1823614 ATGTTGCTAC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1824843 original size:105 final size:105
Alignment explanation
Indices: 1824724--1825043 Score: 570
Period size: 105 Copynumber: 3.0 Consensus size: 105
1824714 AATAACAAAG
1824724 AAAAAAAAAGCATTGGTTCTTTAGGGTTTGCTAGTAGTAAATGGGTAGGAAATATCTATGGTCAA
1 AAAAAAAAAGCATTGGTTCTTTAGGGTTTGCTAGTAGTAAATGGGTAGGAAATATCTATGGTCAA
1824789 GTTAAAGGGGTAAACCAGGATTCATCAATACAGCATGGCT
66 GTTAAAGGGGTAAACCAGGATTCATCAATACAGCATGGCT
*
1824829 AAAAAAAAAGCATTGGTTCTTTAGGGTTTGCTAGTAGTAAATGGGTAGGAAATATCTATGATCAA
1 AAAAAAAAAGCATTGGTTCTTTAGGGTTTGCTAGTAGTAAATGGGTAGGAAATATCTATGGTCAA
1824894 GTTAAAGGGGTAAACCAGGATTCATCAATACAGCATGGCT
66 GTTAAAGGGGTAAACCAGGATTCATCAATACAGCATGGCT
* * *
1824934 AAAAAAAAAGCATTGGCTCTCTCTAGGGTTTGCTAGTAGTAAATGGGCAGGAAATATATATGGTC
1 AAAAAAAAAGCATTGG-T-TCTTTAGGGTTTGCTAGTAGTAAATGGGTAGGAAATATCTATGGTC
*
1824999 AAGTTAAA-GGGTAAACCAGGATTCATCAATGCAGCATGGCT
64 AAGTTAAAGGGGTAAACCAGGATTCATCAATACAGCATGGCT
1825040 AAAA
1 AAAA
1825044 TAGTACTGTT
Statistics
Matches: 207, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
105 120 0.58
106 37 0.18
107 50 0.24
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (105 bp):
AAAAAAAAAGCATTGGTTCTTTAGGGTTTGCTAGTAGTAAATGGGTAGGAAATATCTATGGTCAA
GTTAAAGGGGTAAACCAGGATTCATCAATACAGCATGGCT
Found at i:1825278 original size:23 final size:20
Alignment explanation
Indices: 1825248--1825290 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1825238 TTACCATATA
*
1825248 TAAAT-ATATGTTTAATTATT
1 TAAATAATATATTTAATT-TT
1825268 TAAATAATATATTTAATTTT
1 TAAATAATATATTTAATTTT
1825288 TAA
1 TAA
1825291 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TAAATAATATATTTAATTTT
Found at i:1825329 original size:39 final size:40
Alignment explanation
Indices: 1825258--1825333 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
1825248 TAAATATATG
* *
1825258 TTTAATTATTTAAATAATATATTTAATTTTTAATTTTTTT
1 TTTAAATATTTAAATAATATATTTAATATTTAATTTTTTT
*
1825298 TTTAAATATTTAAA-GATATACTTT-ATATTTAATTTT
1 TTTAAATATTTAAATAATATA-TTTAATATTTAATTTT
1825334 GAAAATGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 16 0.50
40 16 0.50
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (40 bp):
TTTAAATATTTAAATAATATATTTAATATTTAATTTTTTT
Found at i:1830451 original size:2 final size:2
Alignment explanation
Indices: 1830444--1830472 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1830434 AGAATGAGAT
1830444 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 T
1830473 TTCAACCTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1844517 original size:16 final size:16
Alignment explanation
Indices: 1844496--1844539 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
1844486 ATTGGGTTGT
1844496 CGTATATATATATATA
1 CGTATATATATATATA
*
1844512 CGTATAAATATATATA
1 CGTATATATATATATA
* *
1844528 TGTATATGTATA
1 CGTATATATATA
1844540 AACGTCTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (16 bp):
CGTATATATATATATA
Found at i:1844526 original size:22 final size:22
Alignment explanation
Indices: 1844498--1844541 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1844488 TGGGTTGTCG
1844498 TATATATATATATACGTATAAA
1 TATATATATATATACGTATAAA
* *
1844520 TATATATATGTATATGTATAAA
1 TATATATATATATACGTATAAA
1844542 CGTCTAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (22 bp):
TATATATATATATACGTATAAA
Found at i:1844584 original size:6 final size:6
Alignment explanation
Indices: 1844576--1844613 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
1844566 AAGGAATTAT
* *
1844576 GGGATT GGGATT GGGATC GGGATC GGGATC GGGATC GG
1 GGGATC GGGATC GGGATC GGGATC GGGATC GGGATC GG
1844614 ATTGAGTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.11, G:0.53, T:0.21
Consensus pattern (6 bp):
GGGATC
Found at i:1844746 original size:2 final size:2
Alignment explanation
Indices: 1844739--1844766 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1844729 TTGGAATACA
1844739 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
1844767 GATGTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1848544 original size:16 final size:16
Alignment explanation
Indices: 1848497--1848546 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
1848487 ATTTATTTAT
*
1848497 ATATATATATATATGT
1 ATATATATATATATGC
* *
1848513 ATATATAAATAAATGC
1 ATATATATATATATGC
*
1848529 ATATATTTATATATGC
1 ATATATATATATATGC
1848545 AT
1 AT
1848547 GTACCAAGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (16 bp):
ATATATATATATATGC
Found at i:1849605 original size:22 final size:20
Alignment explanation
Indices: 1849580--1849624 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
1849570 ATAATTTTTG
*
1849580 ATAAATTAATAATTTATTTTAT
1 ATAAATT-ATAATATA-TTTAT
*
1849602 ATAAATTTTAATATATTTAT
1 ATAAATTATAATATATTTAT
1849622 ATA
1 ATA
1849625 CTCAAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAATTATAATATATTTAT
Found at i:1850227 original size:7 final size:7
Alignment explanation
Indices: 1850215--1850242 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1850205 AATTATATTT
1850215 AAAATAA
1 AAAATAA
1850222 AAAATAA
1 AAAATAA
1850229 AAAATAA
1 AAAATAA
1850236 AAAATAA
1 AAAATAA
1850243 TTTTTAATTA
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):
AAAATAA
Found at i:1850535 original size:17 final size:19
Alignment explanation
Indices: 1850509--1850548 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
1850499 TATATTATTA
1850509 ATTT-TTATTT-TG-ATAT
1 ATTTATTATTTATGTATAT
1850525 ATTTATTATTTATGTATAT
1 ATTTATTATTTATGTATAT
1850544 ATTTA
1 ATTTA
1850549 AAATTATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 2 0.10
19 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
ATTTATTATTTATGTATAT
Found at i:1851668 original size:2 final size:2
Alignment explanation
Indices: 1851661--1851700 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1851651 TTATTATCTC
1851661 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
1851701 TTTCTTACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1860841 original size:26 final size:26
Alignment explanation
Indices: 1860793--1860846 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
1860783 GAACATAATT
1860793 AATATTATTATAATTAATTATAATAA
1 AATATTATTATAATTAATTATAATAA
1860819 AATATTAATTATAA-T-ATTAATAATAA
1 AATATT-ATTATAATTAATT-ATAATAA
1860845 AA
1 AA
1860847 AATGTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 3 0.12
26 16 0.62
27 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATTATTATAATTAATTATAATAA
Found at i:1863699 original size:2 final size:2
Alignment explanation
Indices: 1863694--1863720 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1863684 CTATATACAT
1863694 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1863721 AGTAAGCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1864815 original size:2 final size:2
Alignment explanation
Indices: 1864808--1864841 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1864798 ACTGTTGCAT
* *
1864808 AC AC AC AC AC AA AC AC AC AC AC GC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1864842 TTGTTTGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1867067 original size:2 final size:2
Alignment explanation
Indices: 1867060--1867088 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1867050 CTTATGATTC
1867060 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1867089 CATTTACCCT
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:1869830 original size:14 final size:14
Alignment explanation
Indices: 1869789--1869832 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
1869779 AAATTTATCA
1869789 ATAATTAAAAAAAT
1 ATAATTAAAAAAAT
**
1869803 ATAA-T-ATTAAAT
1 ATAATTAAAAAAAT
1869815 ATAATTAAAAAAAT
1 ATAATTAAAAAAAT
1869829 ATAA
1 ATAA
1869833 CAACAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATTAAAAAAAT
Found at i:1869840 original size:26 final size:26
Alignment explanation
Indices: 1869789--1869840 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1869779 AAATTTATCA
* **
1869789 ATAATTAAAAAAATATAATATTAAAT
1 ATAATTAAAAAAATATAACAACAAAT
1869815 ATAATTAAAAAAATATAACAACAAAT
1 ATAATTAAAAAAATATAACAACAAAT
1869841 TTCAATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (26 bp):
ATAATTAAAAAAATATAACAACAAAT
Found at i:1879627 original size:7 final size:8
Alignment explanation
Indices: 1879610--1879638 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1879600 CAAAACAATG
1879610 TTTTTATT
1 TTTTTATT
1879618 TTTTTATT
1 TTTTTATT
1879626 TTTTTATT
1 TTTTTATT
1879634 TTTTT
1 TTTTT
1879639 CAAGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTATT
Found at i:1891370 original size:4 final size:4
Alignment explanation
Indices: 1891354--1891393 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
1891344 AAGGGACTCG
* *
1891354 TCTT TCCT TCTT TCTT TCTT TCTC TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1891394 CTTCTTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TCTT
Found at i:1891397 original size:3 final size:3
Alignment explanation
Indices: 1891389--1891427 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1891379 CTTTCTTTCT
1891389 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1891428 AGCTCTCTCA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1892483 original size:10 final size:10
Alignment explanation
Indices: 1892468--1892492 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1892458 TGCTACTTAA
1892468 TTTTTTTGCC
1 TTTTTTTGCC
1892478 TTTTTTTGCC
1 TTTTTTTGCC
1892488 TTTTT
1 TTTTT
1892493 CCTTTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTGCC
Found at i:1903307 original size:14 final size:15
Alignment explanation
Indices: 1903272--1903309 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1903262 AAATTTATTT
*
1903272 TAATTTATTTTTAAA
1 TAATTTAATTTTAAA
*
1903287 AAATTTAATTTT-AA
1 TAATTTAATTTTAAA
1903301 TAATTTAAT
1 TAATTTAAT
1903310 AATTTTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTAATTTTAAA
Found at i:1903394 original size:23 final size:24
Alignment explanation
Indices: 1903342--1903390 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1903332 TTAAATAATT
* *
1903342 TAATATTTTTTACTGTTTATATGA
1 TAATATTTTATACTATTTATATGA
1903366 TAATATTTTATA-TATTTATAT-A
1 TAATATTTTATACTATTTATATGA
1903388 TAA
1 TAA
1903391 ATATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 8 0.35
24 11 0.48
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TAATATTTTATACTATTTATATGA
Found at i:1903745 original size:23 final size:23
Alignment explanation
Indices: 1903712--1903771 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
1903702 TTAATTTATA
1903712 TAATTATTTTTAAAATATAATATT
1 TAATTATTTTTAAAATATAA-ATT
*
1903736 TAATTATTTTTAAAATTTAAATT
1 TAATTATTTTTAAAATATAAATT
*
1903759 TAAATTTTTTTTA
1 T-AATTATTTTTA
1903772 TATATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TAATTATTTTTAAAATATAAATT
Found at i:1904914 original size:22 final size:23
Alignment explanation
Indices: 1904886--1904939 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
1904876 TAATCTATTA
1904886 ATTAAATATTACAT-TTTTAATT
1 ATTAAATATTACATATTTTAATT
**
1904908 ATTAAAT-TTTTATATTTTAATT
1 ATTAAATATTACATATTTTAATT
*
1904930 A-AAAATATTA
1 ATTAAATATTA
1904940 TTATTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTAAATATTACATATTTTAATT
Found at i:1912750 original size:2 final size:2
Alignment explanation
Indices: 1912738--1912767 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1912728 TACCATAAAC
*
1912738 AT AT GT 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
1912768 GTAATAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1912831 original size:3 final size:3
Alignment explanation
Indices: 1912823--1912850 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1912813 TTCATAATGC
1912823 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1912851 GCCAGCCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1913208 original size:17 final size:18
Alignment explanation
Indices: 1913182--1913218 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1913172 TCTTTATTTA
*
1913182 TTTATTTATT-CATTAAT
1 TTTATATATTCCATTAAT
1913199 TTTATATATTCCATTAAT
1 TTTATATATTCCATTAAT
1913217 TT
1 TT
1913219 ATTTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATATATTCCATTAAT
Found at i:1917869 original size:6 final size:6
Alignment explanation
Indices: 1917860--1917907 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
1917850 CAATATGCAT
1917860 ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG
1 ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG ATGCTG
1917908 GTGTAAATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
ATGCTG
Found at i:1930495 original size:2 final size:2
Alignment explanation
Indices: 1930488--1930517 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1930478 CTGTTGTATT
1930488 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1930518 TTTCGGCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1931525 original size:2 final size:2
Alignment explanation
Indices: 1931518--1931544 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1931508 TGCTCGATCT
1931518 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1931545 GAAGGAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1935331 original size:24 final size:25
Alignment explanation
Indices: 1935304--1935362 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
1935294 ACATGCCAAT
1935304 CAAGATTATG-TTAAAATCATAAAC
1 CAAGATTATGATTAAAATCATAAAC
*
1935328 CAAGGTATT-GGCATTAAAATCATAAAC
1 CAA-G-ATTATG-ATTAAAATCATAAAC
1935355 CAAG-TTAT
1 CAAGATTAT
1935363 TAGCATCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
24 5 0.18
25 2 0.07
26 4 0.14
27 17 0.61
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
CAAGATTATGATTAAAATCATAAAC
Found at i:1935346 original size:27 final size:27
Alignment explanation
Indices: 1935314--1935368 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1935304 CAAGATTATG
*
1935314 TTAAAATCATAAACCAAGGTATTGGCA
1 TTAAAATCATAAACCAAGGTATTAGCA
*
1935341 TTAAAATCATAAACCAAGTTATTAGCA
1 TTAAAATCATAAACCAAGGTATTAGCA
1935368 T
1 T
1935369 CCAAACTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (27 bp):
TTAAAATCATAAACCAAGGTATTAGCA
Found at i:1936520 original size:2 final size:2
Alignment explanation
Indices: 1936505--1936541 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1936495 CCCATTTACA
1936505 AT AT -T AT AT A- 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 AT AT AT A
1936542 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1946495 original size:3 final size:3
Alignment explanation
Indices: 1946487--1946531 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
1946477 CAATCAAGAA
*
1946487 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1946532 TTTTTTGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1946879 original size:13 final size:14
Alignment explanation
Indices: 1946861--1946899 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
1946851 TGGGTGCTCC
*
1946861 TTTTTTGTTTTT-T
1 TTTTTTATTTTTAT
1946874 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
1946888 TTTTTCTATTTT
1 TTTTT-TATTTT
1946900 GACTATTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 6 0.26
15 6 0.26
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:1948087 original size:5 final size:5
Alignment explanation
Indices: 1948072--1948100 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1948062 AACAAAAGCC
1948072 AATCT -ATCT AATCT AATCT AATCT AATCT
1 AATCT AATCT AATCT AATCT AATCT AATCT
1948101 GCAAAAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
AATCT
Found at i:1952825 original size:13 final size:14
Alignment explanation
Indices: 1952810--1952845 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 14
1952800 TATATATTTA
1952810 TTTTAAAAAATAAT
1 TTTTAAAAAATAAT
1952824 TTTTAAAAAATTTAAT
1 TTTTAAAAAA--TAAT
1952840 TTTTAA
1 TTTTAA
1952846 TAATTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
16 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAAAATAAT
Found at i:1952839 original size:16 final size:16
Alignment explanation
Indices: 1952810--1952859 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1952800 TATATATTTA
1952810 TTTTAAAAAA--TAAT
1 TTTTAAAAAATTTAAT
1952824 TTTTAAAAAATTTAAT
1 TTTTAAAAAATTTAAT
*
1952840 TTTT-AATAATTTAAT
1 TTTTAAAAAATTTAAT
1952855 ATTTT
1 -TTTT
1952860 TATTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.31
15 10 0.31
16 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAAAAAATTTAAT
Found at i:1952842 original size:15 final size:15
Alignment explanation
Indices: 1952805--1952854 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1952795 TATTTTATAT
1952805 ATTT-ATTTTAAAAA
1 ATTTAATTTTAAAAA
1952819 A--TAATTTTTAAAAA
1 ATTTAA-TTTTAAAAA
* *
1952833 ATTTAATTTTTAATA
1 ATTTAATTTTAAAAA
1952848 ATTTAAT
1 ATTTAAT
1952855 ATTTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 1 0.03
13 1 0.03
14 11 0.37
15 14 0.47
16 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAATTTTAAAAA
Found at i:1953091 original size:31 final size:31
Alignment explanation
Indices: 1953056--1953131 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
1953046 GCTAAGATTC
*
1953056 AATTTTTTTTATTAGACTTATTA-TTTTA-TTA
1 AATTTTTTTTA--AAACTTATTATTTTTATTTA
*
1953087 AATTTATTTTTAAAATTTATTATTTTTATTTA
1 AATTT-TTTTTAAAACTTATTATTTTTATTTA
*
1953119 AATATTTTTTAAA
1 AATTTTTTTTAAA
1953132 TATTGAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 8 0.21
31 18 0.46
32 13 0.33
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
AATTTTTTTTAAAACTTATTATTTTTATTTA
Found at i:1953093 original size:17 final size:17
Alignment explanation
Indices: 1953062--1953112 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
1953052 ATTCAATTTT
* *
1953062 TTTTATTAGACTTATTA
1 TTTTATTAAATTTATTA
1953079 TTTTATTAAATTTA-T-
1 TTTTATTAAATTTATTA
1953094 TTTTA--AAATTTATTA
1 TTTTATTAAATTTATTA
1953109 TTTT
1 TTTT
1953113 TATTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.23
14 1 0.03
15 9 0.30
16 1 0.03
17 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATTAAATTTATTA
Found at i:1953107 original size:22 final size:23
Alignment explanation
Indices: 1953080--1953132 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 23
1953070 GACTTATTAT
1953080 TTTATTAAATTTATT-TTTAAA-A
1 TTTATTAAATTT-TTATTTAAATA
1953102 TTTATT--ATTTTTATTTAAATA
1 TTTATTAAATTTTTATTTAAATA
*
1953123 TTTTTTAAAT
1 TTTATTAAAT
1953133 ATTGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 6 0.23
22 6 0.23
23 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATTAAATTTTTATTTAAATA
Found at i:1953108 original size:30 final size:31
Alignment explanation
Indices: 1953073--1953131 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1953063 TTTATTAGAC
*
1953073 TTATTA-TTTTA-TTAAATTTATTTTTAAAAT
1 TTATTATTTTTATTTAAATAT-TTTTTAAAAT
1953103 TTATTATTTTTATTTAAATATTTTTTAAA
1 TTATTATTTTTATTTAAATATTTTTTAAA
1953132 TATTGAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 13 0.50
32 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (31 bp):
TTATTATTTTTATTTAAATATTTTTTAAAAT
Found at i:1953786 original size:34 final size:34
Alignment explanation
Indices: 1953742--1953806 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
1953732 ATAAAAGACG
*
1953742 AACTTTATTTATTAAACTTAAAAAACTCATTAGA
1 AACTTAATTTATTAAACTTAAAAAACTCATTAGA
****
1953776 AACTTAATTTATTTTGTTTAAAAAACTCATT
1 AACTTAATTTATTAAACTTAAAAAACTCATT
1953807 TTACTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (34 bp):
AACTTAATTTATTAAACTTAAAAAACTCATTAGA
Found at i:1954239 original size:2 final size:2
Alignment explanation
Indices: 1954234--1954259 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1954224 TGCAACTACC
1954234 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
1954260 TCTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1954803 original size:46 final size:46
Alignment explanation
Indices: 1954760--1954891 Score: 246
Period size: 46 Copynumber: 2.9 Consensus size: 46
1954750 ATGCTTTTGG
*
1954760 TTCTGAGTTTCTGCTGATGTTATGGTTTTACTAACAGATCTTTTCA
1 TTCTGAGTTTCTGCTGATGTTATGGTTGTACTAACAGATCTTTTCA
1954806 TTCTGAGTTTCTGCTGATGTTATGGTTGTACTAACAGATCTTTTCA
1 TTCTGAGTTTCTGCTGATGTTATGGTTGTACTAACAGATCTTTTCA
*
1954852 TTCTGAGTTTCTGCTGATGTTACGGTTGTACTAACAGATC
1 TTCTGAGTTTCTGCTGATGTTATGGTTGTACTAACAGATC
1954892 AGTTCAGATT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (46 bp):
TTCTGAGTTTCTGCTGATGTTATGGTTGTACTAACAGATCTTTTCA
Found at i:1957385 original size:2 final size:2
Alignment explanation
Indices: 1957368--1957409 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1957358 AGTTATCTTT
* * *
1957368 TA TA TA AA TA TG TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1957410 CATCTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1959190 original size:3 final size:3
Alignment explanation
Indices: 1959182--1959207 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1959172 GAAAAGGCAT
1959182 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1959208 GAAGAAGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1962076 original size:6 final size:6
Alignment explanation
Indices: 1962054--1962087 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1962044 TAACGTCCCA
*
1962054 AAAAAG AGAAAAC AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAA
1962088 GCAGGATCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1962333 original size:2 final size:2
Alignment explanation
Indices: 1962326--1962364 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1962316 CTGTTGAAGT
1962326 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A G- GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1962365 GGGTTGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1962890 original size:3 final size:3
Alignment explanation
Indices: 1962882--1962913 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1962872 AAACGAGATC
1962882 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1962914 CGTCCTCGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1964337 original size:3 final size:3
Alignment explanation
Indices: 1964329--1964361 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1964319 CCACCCAAGG
1964329 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1964362 CTGAACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1965684 original size:10 final size:10
Alignment explanation
Indices: 1965668--1965701 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1965658 TTGAAGTCGA
1965668 AGGAGGGGAG
1 AGGAGGGGAG
*
1965678 GGGAGGGGAG
1 AGGAGGGGAG
*
1965688 AGGAGAGGAG
1 AGGAGGGGAG
1965698 AGGA
1 AGGA
1965702 AAGGCGAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (10 bp):
AGGAGGGGAG
Found at i:1965927 original size:4 final size:4
Alignment explanation
Indices: 1965918--1965943 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1965908 AGGAAACGCT
1965918 AGGA AGGA AGGA AGGA AGGA AGGA AG
1 AGGA AGGA AGGA AGGA AGGA AGGA AG
1965944 AAGTAGATCC
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (4 bp):
AGGA
Found at i:1967741 original size:2 final size:2
Alignment explanation
Indices: 1967729--1967771 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1967719 AAATCTAACA
1967729 AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1967770 AG
1 AG
1967772 GCAGGCAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1968655 original size:2 final size:2
Alignment explanation
Indices: 1968648--1968678 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1968638 TACCATTGAA
1968648 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 T
1968679 ACGCATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1969381 original size:14 final size:14
Alignment explanation
Indices: 1969358--1969396 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1969348 ATCCAGTAAG
*
1969358 ATGCTGTTATTATT
1 ATGCTATTATTATT
1969372 ATGCTATTATTATT
1 ATGCTATTATTATT
1969386 AT--TATTATTAT
1 ATGCTATTATTAT
1969397 AATTAGTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 9 0.38
14 15 0.62
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (14 bp):
ATGCTATTATTATT
Found at i:1977847 original size:20 final size:21
Alignment explanation
Indices: 1977814--1977860 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
1977804 TAATAAATTG
1977814 ATTATAAGATTGAATAATATA
1 ATTATAAGATTGAATAATATA
*
1977835 ATTATAA-ATTGAATAATTTA
1 ATTATAAGATTGAATAATATA
1977855 ATTATA
1 ATTATA
1977861 TTTATTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTATAAGATTGAATAATATA
Found at i:1978872 original size:3 final size:3
Alignment explanation
Indices: 1978866--1978891 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1978856 TAAAAGTAAA
1978866 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1978892 CAAAAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1980362 original size:2 final size:2
Alignment explanation
Indices: 1980355--1980379 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1980345 CAAGGTCAAT
1980355 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 T
1980380 TTTTCCTTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1981070 original size:6 final size:6
Alignment explanation
Indices: 1981059--1981093 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1981049 TAGATATTTG
*
1981059 TTTCCT TTTCCT TTTCCC TTTCC- TTTCCT TTTCCT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT
1981094 GGGGGTTCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTCCT
Done.