Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 56 of 160
Found at i:11815507 original size:8 final size:9
Alignment explanation
Indices: 11815464--11815507 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
11815454 AATATATATT
11815464 AATACATAA
1 AATACATAA
11815473 TAATA-AT-A
1 -AATACATAA
11815481 AATA-ATAA
1 AATACATAA
11815489 AATACATAA
1 AATACATAA
11815498 AATACA-AA
1 AATACATAA
11815506 AA
1 AA
11815508 AATAGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.19
8 10 0.31
9 12 0.38
10 4 0.12
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (9 bp):
AATACATAA
Found at i:11815779 original size:41 final size:41
Alignment explanation
Indices: 11815722--11816132 Score: 579
Period size: 41 Copynumber: 10.0 Consensus size: 41
11815712 TTTGACCAAA
* * * *
11815722 GCTCCTCTAAACAGAGGCTCAACTACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11815763 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
11815805 GCTCCTCTAAACAGAGGCA--ACGAAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
* * *
11815845 GCTCTTCTAAATAGAGGCACCACGACTTTGGAAAAGTAAACT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11815887 GCTCCTCTAAACAGA-GCA--ACGAAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
11815926 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
11815968 GCTCCTCTCAACAAAGGCACCACGACTTT-AGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
11816009 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
11816049 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
11816090 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11816131 GC
1 GC
11816133 GACTTTGAAA
Statistics
Matches: 337, Mismatches: 16, Indels: 34
0.87 0.04 0.09
Matches are distributed among these distances:
39 27 0.08
40 82 0.24
41 131 0.39
42 97 0.29
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11815947 original size:81 final size:80
Alignment explanation
Indices: 11815722--11816132 Score: 578
Period size: 81 Copynumber: 5.0 Consensus size: 80
11815712 TTTGACCAAA
* * *
11815722 GCTCCTCTAAACAGAGGCTCAACTACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
11815787 ACTTTTGAAAAGTAAATT
64 AC-TTTGAAAAGTAAATT
* *
11815805 GCTCCTCTAAACAGAGGCA-ACGAAACTTTGAAAGTAAATTGCTCTTCTAAATAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACACG--ACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
11815869 ACTTTGGAAAAGTAAACT
64 ACTTT-GAAAAGTAAATT
11815887 GCTCCTCTAAACAGA-GCA-ACGAAACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACACG--ACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
11815950 ACTTTTGAAAAGTAAATT
64 AC-TTTGAAAAGTAAATT
* *
11815968 GCTCCTCTCAACAAAGGCACCACGACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCA-CACGACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
11816033 ACTTTG-AAAGTAAATT
64 ACTTTGAAAAGTAAATT
* *
11816049 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
1 GCTCCTCTAAACAGAGGCA-CACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
11816114 ACTTTGAAAAATAAATT
64 ACTTTGAAAAGTAAATT
11816131 GC
1 GC
11816133 GACTTTGAAA
Statistics
Matches: 302, Mismatches: 16, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
80 1 0.00
81 152 0.50
82 85 0.28
83 61 0.20
84 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGAAAAGTAAATT
Found at i:11816139 original size:20 final size:20
Alignment explanation
Indices: 11816114--11816152 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11816104 AGGCACCACA
11816114 ACTTTGAAAAATAAATTGCG
1 ACTTTGAAAAATAAATTGCG
11816134 ACTTTGAAAAATAAATTGC
1 ACTTTGAAAAATAAATTGC
11816153 TCCTCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (20 bp):
ACTTTGAAAAATAAATTGCG
Found at i:11816166 original size:61 final size:61
Alignment explanation
Indices: 11816071--11816193 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
11816061 AGAGGCACCA
11816071 CGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAATAAATTG
1 CGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTTG-AAAATAAATTG
*
11816132 CGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATTG
1 CGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTTGAAAATAAATTG
11816193 C
1 C
11816194 TCCTTGACAA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 56 0.93
62 4 0.07
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (61 bp):
CGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTTGAAAATAAATTG
Found at i:11821390 original size:55 final size:56
Alignment explanation
Indices: 11821296--11821448 Score: 245
Period size: 57 Copynumber: 2.7 Consensus size: 56
11821286 TCTTGTGTAG
* * *
11821296 GGAAAATTGATACTTTCAACTTTTTCCTAAAATATTTTTTG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTATAA
11821351 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTATAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTGAAAATTTATTTATAA
*
11821408 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT
11821449 TTTGGAAATT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
55 24 0.26
56 15 0.16
57 48 0.53
58 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (56 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTATAA
Found at i:11821610 original size:25 final size:24
Alignment explanation
Indices: 11821582--11821628 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
11821572 AACCTAATCT
*
11821582 AATAAATAAATAAAATAAAAAAACA
1 AATAAACAAATAAA-TAAAAAAACA
*
11821607 AATAAACAAATAAATGAAAAAA
1 AATAAACAAATAAATAAAAAAA
11821629 GAAAAAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (24 bp):
AATAAACAAATAAATAAAAAAACA
Found at i:11822001 original size:19 final size:20
Alignment explanation
Indices: 11821965--11822003 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11821955 GGTGCCAGAT
*
11821965 TCTGGAAAATATCGCCGGAA
1 TCTGGAAAATATCACCGGAA
*
11821985 TCTGG-AAATTTCACCGGAA
1 TCTGGAAAATATCACCGGAA
11822004 GTTGGTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (20 bp):
TCTGGAAAATATCACCGGAA
Found at i:11822723 original size:38 final size:39
Alignment explanation
Indices: 11822638--11822728 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
11822628 AAATAATAAT
11822638 ATAATAATAAT-AAATATATAACTATATACATATAAATC
1 ATAATAATAATAAAATATATAACTATATACATATAAATC
* *
11822676 -TAATCTAATAATAAAATATAT-A-TATATATATATTAATAC
1 ATAA--TAATAATAAAATATATAACTATATACATATAAAT-C
11822715 ATAATAATAATAAA
1 ATAATAATAATAAA
11822729 TAATAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
37 3 0.07
38 23 0.50
39 9 0.20
40 11 0.24
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (39 bp):
ATAATAATAATAAAATATATAACTATATACATATAAATC
Found at i:11822731 original size:42 final size:43
Alignment explanation
Indices: 11822631--11822727 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 43
11822621 CAAAAAAAAA
11822631 TAATA-AT-ATAATAATAAT-AAATATATAACTATATACATAT
1 TAATACATAATAATAATAATAAAATATATAACTATATACATAT
* * *
11822671 AAAT-C-TAAT-CTAATAATAAAATATAT-A-TATATATATAT
1 TAATACATAATAATAATAATAAAATATATAACTATATACATAT
11822709 TAATACATAATAATAATAA
1 TAATACATAATAATAATAA
11822728 ATAATAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
38 13 0.28
39 10 0.22
40 17 0.37
41 6 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (43 bp):
TAATACATAATAATAATAATAAAATATATAACTATATACATAT
Found at i:11822753 original size:8 final size:9
Alignment explanation
Indices: 11822710--11822753 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
11822700 TATATATATT
11822710 AATACATAA
1 AATACATAA
11822719 TAATA-AT-A
1 -AATACATAA
11822727 AATA-ATAA
1 AATACATAA
11822735 AATACATAA
1 AATACATAA
11822744 AATACA-AA
1 AATACATAA
11822752 AA
1 AA
11822754 AAATAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.19
8 10 0.31
9 12 0.38
10 4 0.12
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (9 bp):
AATACATAA
Found at i:11822758 original size:25 final size:25
Alignment explanation
Indices: 11822710--11822758 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11822700 TATATATATT
* *
11822710 AATACATAATAATAATAAATAATAA
1 AATACATAATAATAAAAAAAAATAA
11822735 AATACATAA-AATACAAAAAAAATA
1 AATACATAATAATA-AAAAAAAATA
11822759 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (25 bp):
AATACATAATAATAAAAAAAAATAA
Found at i:11824909 original size:15 final size:15
Alignment explanation
Indices: 11824889--11824922 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11824879 GCCCTAACTA
*
11824889 TCATATGGTTGTTTT
1 TCATATGGTTGTTTC
11824904 TCATATGGTTGTTTC
1 TCATATGGTTGTTTC
11824919 TCAT
1 TCAT
11824923 GTGTGACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.56
Consensus pattern (15 bp):
TCATATGGTTGTTTC
Found at i:11827788 original size:12 final size:12
Alignment explanation
Indices: 11827755--11827844 Score: 72
Period size: 12 Copynumber: 7.3 Consensus size: 12
11827745 TGATATAATC
11827755 ATTATTGTTGTT
1 ATTATTGTTGTT
11827767 ATTATCTTGTTGTT
1 ATTA--TTGTTGTT
*
11827781 GTTATTGTTGTT
1 ATTATTGTTGTT
* * *
11827793 CTTATTATTATT
1 ATTATTGTTGTT
* *
11827805 ATTATTATTATT
1 ATTATTGTTGTT
* *
11827817 ATTATTATTATT
1 ATTATTGTTGTT
* *
11827829 ATTATTATTATT
1 ATTATTGTTGTT
11827841 ATTA
1 ATTA
11827845 ATTTACATGC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
12 60 0.85
14 11 0.15
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (12 bp):
ATTATTGTTGTT
Found at i:11827800 original size:3 final size:3
Alignment explanation
Indices: 11827794--11827844 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
11827784 ATTGTTGTTC
11827794 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11827842 TTA
1 TTA
11827845 ATTTACATGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11830188 original size:19 final size:21
Alignment explanation
Indices: 11830166--11830215 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
11830156 CAATAATTCA
11830166 AACAAAATAAATA-ATAA-AT
1 AACAAAATAAATATATAATAT
* *
11830185 AACAAAACAACTATATAATAT
1 AACAAAATAAATATATAATAT
*
11830206 AGCAAAATAA
1 AACAAAATAA
11830216 CAAAATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 11 0.44
20 4 0.16
21 10 0.40
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (21 bp):
AACAAAATAAATATATAATAT
Found at i:11831614 original size:3 final size:3
Alignment explanation
Indices: 11831606--11831646 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
11831596 ACATCTCATT
*
11831606 TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TAA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11831647 TTAAGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 5 0.15
3 28 0.85
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11832280 original size:3 final size:3
Alignment explanation
Indices: 11832272--11832319 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
11832262 AAATAATCAC
11832272 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11832320 GTGATGATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11832330 original size:6 final size:6
Alignment explanation
Indices: 11832272--11832375 Score: 102
Period size: 6 Copynumber: 17.3 Consensus size: 6
11832262 AAATAATCAC
* * * * * * *
11832272 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAAT-
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG
* * *
11832319 AGTGATG ATGATG ATGATG ATAATG ATAATG ATAATG ATAATG ATAATG
1 A-TAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG
11832368 ATAATG AT
1 ATAATG AT
11832376 GTAAAAACTA
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
5 1 0.01
6 92 0.98
7 1 0.01
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (6 bp):
ATAATG
Found at i:11834126 original size:20 final size:20
Alignment explanation
Indices: 11834098--11834135 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11834088 CCCACGTTCT
*
11834098 CCTCTTTCAAACCGTGCATC
1 CCTCCTTCAAACCGTGCATC
*
11834118 CCTCCTTCAAATCGTGCA
1 CCTCCTTCAAACCGTGCA
11834136 ACAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.39, G:0.11, T:0.29
Consensus pattern (20 bp):
CCTCCTTCAAACCGTGCATC
Found at i:11836834 original size:25 final size:25
Alignment explanation
Indices: 11836761--11836827 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
11836751 ACTTGAGGCT
11836761 AATAGTATTTTTCTTTTTTCATAAA
1 AATAGTATTTTTCTTTTTTCATAAA
11836786 AATAGTATTTTTCTTTTTTCATAAA
1 AATAGTATTTTTCTTTTTTCATAAA
11836811 AATAGTATTTTT-TTTTT
1 AATAGTATTTTTCTTTTT
11836828 AGTATAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 5 0.12
25 37 0.88
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
AATAGTATTTTTCTTTTTTCATAAA
Found at i:11837324 original size:29 final size:29
Alignment explanation
Indices: 11837266--11837335 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
11837256 TTGAGTGTAT
* * *
11837266 TTATATTATTTTTTTATATTTTAATGAAA
1 TTATATTATTTTTTGATAATTTAATAAAA
*
11837295 TTATATTTATTTTTTGGTAATTT-ATAAAA
1 TTATA-TTATTTTTTGATAATTTAATAAAA
* *
11837324 TAAAATTATTTT
1 TTATATTATTTT
11837336 AAATAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 7 0.21
29 13 0.38
30 14 0.41
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (29 bp):
TTATATTATTTTTTGATAATTTAATAAAA
Found at i:11846629 original size:47 final size:47
Alignment explanation
Indices: 11846556--11846650 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
11846546 CATAAAATTG
* *
11846556 ATGCTATTGTGATTAGTTAAAGCTCTTTATTTTTTGACTTCTTCTTT
1 ATGCTATTGTGATTAATTAAAGCTCTTTATTTTTAGACTTCTTCTTT
*
11846603 ATGCTATTGTGTTTAATTGAAA-CTCTTTATTTTTAGACTTCTTCTTT
1 ATGCTATTGTGATTAATT-AAAGCTCTTTATTTTTAGACTTCTTCTTT
11846650 A
1 A
11846651 ATAGCAAAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 41 0.93
48 3 0.07
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.55
Consensus pattern (47 bp):
ATGCTATTGTGATTAATTAAAGCTCTTTATTTTTAGACTTCTTCTTT
Found at i:11848041 original size:35 final size:35
Alignment explanation
Indices: 11848002--11848082 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
11847992 TTTAACCCTT
*
11848002 CTTTTATGGCATCTAACTATTTGGTAAAATTAACA
1 CTTTTATGGCATCTAACTATTTGATAAAATTAACA
*
11848037 CTTTTATGGCATCTAACTATTTGATAGAATTAACA
1 CTTTTATGGCATCTAACTATTTGATAAAATTAACA
11848072 CTTTTTATGGC
1 C-TTTTATGGC
11848083 TTGTGAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 34 0.79
36 9 0.21
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (35 bp):
CTTTTATGGCATCTAACTATTTGATAAAATTAACA
Found at i:11851705 original size:12 final size:12
Alignment explanation
Indices: 11851689--11851728 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
11851679 TCTAAATTTT
11851689 CAACAAAATATAA
1 CAACAAAAT-TAA
11851702 -AACAAAATTAA
1 CAACAAAATTAA
11851713 CAAC-AAA-TAA
1 CAACAAAATTAA
11851723 CAACAA
1 CAACAA
11851729 GAAAATAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.28
11 7 0.28
12 11 0.44
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (12 bp):
CAACAAAATTAA
Found at i:11863343 original size:157 final size:150
Alignment explanation
Indices: 11863132--11863439 Score: 501
Period size: 150 Copynumber: 2.0 Consensus size: 150
11863122 TTTTTTATTG
*
11863132 AAAAACTAGGTTCTATAATAAAGAACCACTACAACTACAAGAAAGGAAAAGG-AAATAAAAGTTG
1 AAAAACTAGGTTCTATAATAAAGAACCACTACAACTACAAGAAAGGAAAAGGAAAAAAAAAGTTG
*
11863196 CAACTCTATTTGGCCTAACTCTAAACCTCTTATAAATATATATATATATATATATGGAGACCACC
66 CAACTATATTTGGCCTAACTCTAAACCTC---T---TATA-A-ATATATATATATGGAGACCACC
11863261 ATCCATAGCCATACCAAATAGCTTAGGC
123 ATCCATAGCCATACCAAATAGCTTAGGC
*
11863289 AAAAACTAGGTTCTATAATAAAGAACCACTGCAACTACAAGAAAGGAAAAGGAAAAAAAAAGTTG
1 AAAAACTAGGTTCTATAATAAAGAACCACTACAACTACAAGAAAGGAAAAGGAAAAAAAAAGTTG
*
11863354 CAACTATTTTTGGCCTAACTCTAAACCTCTTATAAATATATATATATGGAGACCACCATCCATAG
66 CAACTATATTTGGCCTAACTCTAAACCTCTTATAAATATATATATATGGAGACCACCATCCATAG
11863419 CCATACCAAATAGCTTAGGC
131 CCATACCAAATAGCTTAGGC
11863439 A
1 A
11863440 CTATCAAACT
Statistics
Matches: 146, Mismatches: 4, Indels: 9
0.92 0.03 0.06
Matches are distributed among these distances:
150 51 0.35
151 1 0.01
152 4 0.03
155 1 0.01
157 51 0.35
158 38 0.26
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (150 bp):
AAAAACTAGGTTCTATAATAAAGAACCACTACAACTACAAGAAAGGAAAAGGAAAAAAAAAGTTG
CAACTATATTTGGCCTAACTCTAAACCTCTTATAAATATATATATATGGAGACCACCATCCATAG
CCATACCAAATAGCTTAGGC
Found at i:11868978 original size:11 final size:11
Alignment explanation
Indices: 11868953--11868989 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
11868943 TTAGAAACTC
11868953 TTTTCAATATAA
1 TTTTCAAT-TAA
11868965 TTTTCAATTAA
1 TTTTCAATTAA
11868976 TTTT-AATT-A
1 TTTTCAATTAA
11868985 TTTTC
1 TTTTC
11868990 TTAAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.21
10 4 0.17
11 7 0.29
12 8 0.33
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTCAATTAA
Found at i:11869878 original size:10 final size:10
Alignment explanation
Indices: 11869863--11869900 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
11869853 AAAAATTATC
11869863 ATTTTAATTA
1 ATTTTAATTA
11869873 ATTTTAATTA
1 ATTTTAATTA
11869883 ATTTTAA--A
1 ATTTTAATTA
11869891 ATTTT-ATTA
1 ATTTTAATTA
11869900 A
1 A
11869901 AAAGATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 1 0.04
8 6 0.23
9 2 0.08
10 17 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTAATTA
Found at i:11870215 original size:3 final size:3
Alignment explanation
Indices: 11870161--11870196 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11870151 GTAGTAGTAG
11870161 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11870197 CAACAACAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11876130 original size:14 final size:15
Alignment explanation
Indices: 11876110--11876161 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
11876100 TTGATGGCTG
11876110 AAAAAAATGAAAA-A
1 AAAAAAATGAAAATA
11876124 CAAAAAAAT-AAAAT-
1 -AAAAAAATGAAAATA
11876138 AAAAAAATGAAAATGA
1 AAAAAAATGAAAAT-A
11876154 AAACAAAA
1 AAA-AAAA
11876162 ATAAAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 8 0.25
16 3 0.09
17 4 0.12
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.10
Consensus pattern (15 bp):
AAAAAAATGAAAATA
Found at i:11876156 original size:13 final size:13
Alignment explanation
Indices: 11876110--11876179 Score: 61
Period size: 13 Copynumber: 5.1 Consensus size: 13
11876100 TTGATGGCTG
*
11876110 AAAAAAATGAAAAAC
1 AAAAAAAT--AAAAT
11876125 AAAAAAATAAAAT
1 AAAAAAATAAAAT
11876138 AAAAAAATGAAAAT
1 AAAAAAAT-AAAAT
* *
11876152 GAAAACA-AAAAT
1 AAAAAAATAAAAT
11876164 AAAAACAAATAAAAT
1 -AAAA-AAATAAAAT
11876179 A
1 A
11876180 TTTTTATCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.11
13 15 0.33
14 13 0.28
15 13 0.28
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:11876156 original size:28 final size:26
Alignment explanation
Indices: 11876110--11876168 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
11876100 TTGATGGCTG
11876110 AAAAAAATGAAAAACAAAAAAATAAAAT
1 AAAAAAATGAAAAAC-AAAAAA-AAAAT
** *
11876138 AAAAAAATGAAAATGAAAACAAAAAT
1 AAAAAAATGAAAAACAAAAAAAAAAT
11876164 AAAAA
1 AAAAA
11876169 CAAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.36
27 5 0.18
28 13 0.46
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.10
Consensus pattern (26 bp):
AAAAAAATGAAAAACAAAAAAAAAAT
Found at i:11877970 original size:44 final size:42
Alignment explanation
Indices: 11877859--11877970 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 42
11877849 AAGACATTCG
* ** *
11877859 CATTTGCATCACTTACATTGCATTTCAAAAAAAGGAAATTTA
1 CATTTGCATCACTTGCATTGCATCACAAAAAAAAGAAATTTA
* * * *
11877901 CATTTGCATCACTAGCACCTACATCACAAGAAAAAAGATATTTA
1 CATTTGCATCACTTGCA-TTGCATCACAA-AAAAAAGAAATTTA
11877945 CATTTGCATCACTTGCATTTGCATCA
1 CATTTGCATCACTTGCA-TTGCATCA
11877971 TTAGCACCTG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 15 0.27
43 7 0.12
44 34 0.61
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (42 bp):
CATTTGCATCACTTGCATTGCATCACAAAAAAAAGAAATTTA
Found at i:11877976 original size:59 final size:59
Alignment explanation
Indices: 11877901--11878012 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 59
11877891 AGGAAATTTA
*
11877901 CATTTGCATCACTAGCACCTACATCACAAGAAAAAAGATATTTACATTTGCATCACTTG
1 CATTTGCATCACTAGCACCTACATCACAAGAAAAAAGACATTTACATTTGCATCACTTG
* ** * *
11877960 CATTTGCATCATTAGCACCTGTATCATAAGAAAAAAGACATTTGCATTTGCAT
1 CATTTGCATCACTAGCACCTACATCACAAGAAAAAAGACATTTACATTTGCAT
11878013 TGCTTGTAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (59 bp):
CATTTGCATCACTAGCACCTACATCACAAGAAAAAAGACATTTACATTTGCATCACTTG
Found at i:11878007 original size:44 final size:42
Alignment explanation
Indices: 11877957--11878146 Score: 179
Period size: 44 Copynumber: 4.4 Consensus size: 42
11877947 TTTGCATCAC
* *
11877957 TTGCATTTGCATCATTAGCACCTGTATCATAAGAAAAAAGACAT
1 TTGCATTTGCATC-TT-GCACCTGCATCACAAGAAAAAAGACAT
* ** * *
11878001 TTGCATTTGCATTGCTTGTAGTTACAT--CATG-AAAAAGACAT
1 TTGCATTTGCA-T-CTTGCACCTGCATCACAAGAAAAAAGACAT
* * *
11878042 TTGCATTTGCATTGCTTGCACTTGCATCACATGAAAAAAGATAT
1 TTGCATTTGCA-T-CTTGCACCTGCATCACAAGAAAAAAGACAT
*
11878086 TTGCATTTGCATCGCTTGCATCTGCATCACAAGAAAAAAAGACAT
1 TTGCATTTGCAT--CTTGCACCTGCATCACAAG-AAAAAAGACAT
11878131 TTGCATTTGCATCTTG
1 TTGCATTTGCATCTTG
11878147 AAAAAGGTAA
Statistics
Matches: 124, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
41 34 0.27
42 2 0.02
43 9 0.07
44 53 0.43
45 25 0.20
46 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (42 bp):
TTGCATTTGCATCTTGCACCTGCATCACAAGAAAAAAGACAT
Found at i:11878029 original size:59 final size:59
Alignment explanation
Indices: 11877907--11878030 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 59
11877897 TTTACATTTG
* * * *
11877907 CATCACTAGCACCTACATCACAAGAAAAAAGATATTTACATTTGCATCACTTGCATTTG
1 CATCATTAGCACCTACATCACAAGAAAAAAGACATTTACATTTGCATCACTTGCAGTTA
** * * ** *
11877966 CATCATTAGCACCTGTATCATAAGAAAAAAGACATTTGCATTTGCATTGCTTGTAGTTA
1 CATCATTAGCACCTACATCACAAGAAAAAAGACATTTACATTTGCATCACTTGCAGTTA
11878025 CATCAT
1 CATCAT
11878031 GAAAAAGACA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (59 bp):
CATCATTAGCACCTACATCACAAGAAAAAAGACATTTACATTTGCATCACTTGCAGTTA
Found at i:11878048 original size:41 final size:43
Alignment explanation
Indices: 11877989--11878142 Score: 188
Period size: 44 Copynumber: 3.6 Consensus size: 43
11877979 TGTATCATAA
* *
11877989 GAAAAAAGACATTTGCATTTGCATTGCTTGTAGTTACAT-CAT
1 GAAAAAAGACATTTGCATTTGCATTGCTTGCACTTACATACAT
*
11878031 G-AAAAAGACATTTGCATTTGCATTGCTTGCACTTGCATCACAT
1 GAAAAAAGACATTTGCATTTGCATTGCTTGCACTTACAT-ACAT
* * * *
11878074 GAAAAAAGATATTTGCATTTGCATCGCTTGCA-TCTGCATCACAA
1 GAAAAAAGACATTTGCATTTGCATTGCTTGCACT-TACAT-ACAT
11878118 GAAAAAAAGACATTTGCATTTGCAT
1 G-AAAAAAGACATTTGCATTTGCAT
11878143 CTTGAAAAAG
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
41 34 0.34
42 1 0.01
43 5 0.05
44 38 0.38
45 22 0.22
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (43 bp):
GAAAAAAGACATTTGCATTTGCATTGCTTGCACTTACATACAT
Found at i:11879141 original size:22 final size:22
Alignment explanation
Indices: 11879116--11879165 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11879106 GATTTATAAA
11879116 ACCTCTAGGCATAATCTTT-AAG
1 ACCTCTAGGCATAAT-TTTCAAG
* *
11879138 ACCTCAATGCATAATTTTCAAG
1 ACCTCTAGGCATAATTTTCAAG
*
11879160 ATCTCT
1 ACCTCT
11879166 GAGCAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (22 bp):
ACCTCTAGGCATAATTTTCAAG
Found at i:11879247 original size:118 final size:118
Alignment explanation
Indices: 11879028--11879262 Score: 269
Period size: 118 Copynumber: 2.0 Consensus size: 118
11879018 CACCCACCAG
* **
11879028 GCATAATTTTTAAGACCTCCGGACAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGGTATA
1 GCATAATTTTCAAGACCTCCGGACAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTAATATA
* * *
11879093 AGAAGCATTCAAAGATTTATAAAACCTCTAGGCATAATCTTTAAGACCTCAAT
66 AGAAGAATTCAAAGATTTATAAAACCTCGAGGCATAATCTGTAAGACCTCAAT
* * * * * *
11879146 GCATAATTTTCAAGATCT-CTGAGCAAAACATTTTAAATTTTTAAAGTTTTAATGCCTTTAATTT
1 GCATAATTTTCAAGACCTCCGGA-CAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTAATAT
* * * * *
11879210 AGGGAA-AATTCAAAGATTTTTAAGACCATCGA-TCATAATCTGTAAGTCCTCAA
65 A-AGAAGAATTCAAAGATTTATAAAACC-TCGAGGCATAATCTGTAAGACCTCAA
11879263 GACAATATTC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
117 3 0.03
118 88 0.91
119 6 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (118 bp):
GCATAATTTTCAAGACCTCCGGACAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTAATATA
AGAAGAATTCAAAGATTTATAAAACCTCGAGGCATAATCTGTAAGACCTCAAT
Found at i:11880267 original size:144 final size:143
Alignment explanation
Indices: 11879972--11880287 Score: 375
Period size: 144 Copynumber: 2.2 Consensus size: 143
11879962 CCTTTCAGAC
* * * * *
11879972 CTTAATTTTATAATATTTCATGACTTTTAGTGTATTTGAAATCACAATAGTGCCCCAAAAATATA
1 CTTAA-TTTATAATATTTCATGATTTTTAGTGCATTTGAAATCACAACAATACCCCAAAAATATA
** *
11880037 AAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGACCTTTCCAAGCTTGAATTTTCAT
65 AAATTACCAAAATACCCCCATAAAGGTATTTTCATAATTTGACCTTTCCAAGCTTGAATTTTCAT
* ** *
11880102 GAAATTTTTTATAT
130 GAAACTTTCCAAAT
*
11880116 CTTAATTTCATAATATTTCATGATTTTTAGTGCATTTGAAATCACAACAATACCCCAAAAATATG
1 CTTAATTT-ATAATATTTCATGATTTTTAGTGCATTTGAAATCACAACAATACCCCAAAAATATA
* * *** * * *
11880181 AAATTACTAAAATACCCCCATAAAGGTATTTTCATAATTT-AGCTTTTTTGATCTTGGATTTTTA
65 AAATTACCAAAATACCCCCATAAAGGTATTTTCATAATTTGA-CCTTTCCAAGCTTGAATTTTCA
11880245 TGAAACTTTCCAAAT
129 TGAAACTTTCCAAAT
*
11880260 -TTCAATTTATTAATATTTTATGATTTTT
1 CTT-AATTTA-TAATATTTCATGATTTTT
11880288 GGTGTTTTAA
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
143 7 0.05
144 139 0.95
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.42
Consensus pattern (143 bp):
CTTAATTTATAATATTTCATGATTTTTAGTGCATTTGAAATCACAACAATACCCCAAAAATATAA
AATTACCAAAATACCCCCATAAAGGTATTTTCATAATTTGACCTTTCCAAGCTTGAATTTTCATG
AAACTTTCCAAAT
Found at i:11881171 original size:18 final size:17
Alignment explanation
Indices: 11881145--11881184 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11881135 TGCATGTTCA
*
11881145 CTTTGCATATGGGTCAT
1 CTTTGCATATGGATCAT
*
11881162 GCTTTTCATATGGATCAT
1 -CTTTGCATATGGATCAT
11881180 CTTTG
1 CTTTG
11881185 ATACTTTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (17 bp):
CTTTGCATATGGATCAT
Found at i:11885212 original size:19 final size:19
Alignment explanation
Indices: 11885188--11885231 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11885178 TGAATCCAAC
11885188 TTTTAATAATTAGTATCAT
1 TTTTAATAATTAGTATCAT
* *
11885207 TTTTAATAATTGGTATCGT
1 TTTTAATAATTAGTATCAT
11885226 TTTTAA
1 TTTTAA
11885232 AATAGACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTAATAATTAGTATCAT
Found at i:11892657 original size:36 final size:35
Alignment explanation
Indices: 11892588--11892666 Score: 83
Period size: 34 Copynumber: 2.3 Consensus size: 35
11892578 TAGGTTTTTT
11892588 TTTTATTTATATATATTTTAAAATTTATTATTT-A
1 TTTTATTTATATATATTTTAAAATTTATTATTTAA
* * *
11892622 TTTTATTTTTATAT-TATTTATACATTTTTTAATTTAA
1 TTTTATTTATATATAT-TTTA-AAATTTATT-ATTTAA
11892659 TTTT-TTTA
1 TTTTATTTA
11892667 ATTTTCTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
33 1 0.03
34 17 0.46
35 7 0.19
36 7 0.19
37 5 0.14
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (35 bp):
TTTTATTTATATATATTTTAAAATTTATTATTTAA
Found at i:11892688 original size:18 final size:18
Alignment explanation
Indices: 11892658--11892702 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
11892648 TTTTAATTTA
*
11892658 ATTTTTT-TAATTTTCTT
1 ATTTTTTCTTATTTTCTT
*
11892675 ATTTTTTCTTATTTTTTT
1 ATTTTTTCTTATTTTCTT
*
11892693 ACTTTTTCTT
1 ATTTTTTCTT
11892703 TAATGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTTTCTTATTTTCTT
Found at i:11895236 original size:15 final size:17
Alignment explanation
Indices: 11895211--11895242 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11895201 GCTTTCATAA
11895211 GAAAAATG-AAATTTTG
1 GAAAAATGAAAATTTTG
11895227 GAAAAA-GAAAATTTTG
1 GAAAAATGAAAATTTTG
11895243 ATTTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.07
16 14 0.93
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
GAAAAATGAAAATTTTG
Found at i:11917745 original size:29 final size:29
Alignment explanation
Indices: 11917699--11917755 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
11917689 TATAATTCAA
* *
11917699 TAATCATTTAAGCCCTTAA-CATTTTATTG
1 TAATCAATCAAGCCCTTAATC-TTTTATTG
*
11917728 TAATCAATCAAGCTCTTAATCTTTTATT
1 TAATCAATCAAGCCCTTAATCTTTTATT
11917756 TTGACTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.46
Consensus pattern (29 bp):
TAATCAATCAAGCCCTTAATCTTTTATTG
Found at i:11918297 original size:26 final size:26
Alignment explanation
Indices: 11918268--11918321 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11918258 CCTTATGGAG
*
11918268 TCATGATATCATATTGATTGATAGTA
1 TCATGATATCATATTGATTGATACTA
11918294 TCATGATATCATATTGATTGATACTA
1 TCATGATATCATATTGATTGATACTA
11918320 TC
1 TC
11918322 TTTTAAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (26 bp):
TCATGATATCATATTGATTGATACTA
Found at i:11919697 original size:21 final size:20
Alignment explanation
Indices: 11919660--11919699 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11919650 TAAAATATAA
11919660 TATTTTGATTTTATTAAAAC
1 TATTTTGATTTTATTAAAAC
* *
11919680 TATTTATGGTTTTTTTAAAA
1 TATTT-TGATTTTATTAAAA
11919700 TAAGCCTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (20 bp):
TATTTTGATTTTATTAAAAC
Found at i:11920578 original size:20 final size:20
Alignment explanation
Indices: 11920553--11920606 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
11920543 TATTTTTGTG
11920553 TATAGAGCATGTTCTTCTTA
1 TATAGAGCATGTTCTTCTTA
11920573 TATAGAGCATGTTCTTCTTA
1 TATAGAGCATGTTCTTCTTA
11920593 TATAGAGCATGTTC
1 TATAGAGCATGTTC
11920607 CTCATATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (20 bp):
TATAGAGCATGTTCTTCTTA
Found at i:11927314 original size:254 final size:254
Alignment explanation
Indices: 11926864--11927371 Score: 980
Period size: 254 Copynumber: 2.0 Consensus size: 254
11926854 TTAAAAGACA
11926864 AGCAAACCTCTTATGATGATATGTTGATAACTGTGAATCAACTTTGGAATCAGGTATTTTTGCAT
1 AGCAAACCTCTTATGATGATATGTTGATAACTGTGAATCAACTTTGGAATCAGGTATTTTTGCAT
*
11926929 GGTGCTCTTTTATTGCTGTATCTTTTGTGATCATCATGATTTGTAATTTTTATGTTGTGTTGTTG
66 GGTGCTCTTTTACTGCTGTATCTTTTGTGATCATCATGATTTGTAATTTTTATGTTGTGTTGTTG
*
11926994 TTCTATTGTATGGTTGGTTGATGATTTGATCCTGGTCAGAATACGAGATGGACTGGACCAAAATG
131 TTCTATTGTATAGTTGGTTGATGATTTGATCCTGGTCAGAATACGAGATGGACTGGACCAAAATG
11927059 CTTTAGAAATCTTGGACCATGCAAATGATTCTTGAGGTTTGATCAGAAGTTTAATTGTT
196 CTTTAGAAATCTTGGACCATGCAAATGATTCTTGAGGTTTGATCAGAAGTTTAATTGTT
11927118 AGCAAACCTCTTATGATGATATGTTGATAACTGTGAATCAACTTTGGAATCAGGTATTTTTGCAT
1 AGCAAACCTCTTATGATGATATGTTGATAACTGTGAATCAACTTTGGAATCAGGTATTTTTGCAT
11927183 GGTGCTCTTTTACTGCTGTATCTTTTGTGATCATCATGATTTGTAATTTTTATGTTGTGTTGTTG
66 GGTGCTCTTTTACTGCTGTATCTTTTGTGATCATCATGATTTGTAATTTTTATGTTGTGTTGTTG
*
11927248 TTCTATTGTATAGTTGGTTGATGATTTGATCCTGGTCAGAATACGAGATGGACTGGACCGAAATG
131 TTCTATTGTATAGTTGGTTGATGATTTGATCCTGGTCAGAATACGAGATGGACTGGACCAAAATG
*
11927313 CTTTAGAAATCTTGGACCATGCAAATTATTCTTGAGGTTTGATCAGAAGTTTAATTGTT
196 CTTTAGAAATCTTGGACCATGCAAATGATTCTTGAGGTTTGATCAGAAGTTTAATTGTT
11927372 TGTTAAAAAT
Statistics
Matches: 250, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 250 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (254 bp):
AGCAAACCTCTTATGATGATATGTTGATAACTGTGAATCAACTTTGGAATCAGGTATTTTTGCAT
GGTGCTCTTTTACTGCTGTATCTTTTGTGATCATCATGATTTGTAATTTTTATGTTGTGTTGTTG
TTCTATTGTATAGTTGGTTGATGATTTGATCCTGGTCAGAATACGAGATGGACTGGACCAAAATG
CTTTAGAAATCTTGGACCATGCAAATGATTCTTGAGGTTTGATCAGAAGTTTAATTGTT
Found at i:11931484 original size:19 final size:20
Alignment explanation
Indices: 11931455--11931497 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
11931445 GAGTAACTTA
11931455 TATAGATATTTAGGATATTT
1 TATAGATATTTAGGATATTT
* *
11931475 TATA-ATATTTTGGTTATTT
1 TATAGATATTTAGGATATTT
11931494 TATA
1 TATA
11931498 TTAATTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
TATAGATATTTAGGATATTT
Found at i:11931653 original size:15 final size:16
Alignment explanation
Indices: 11931627--11931656 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11931617 TGATGAATAT
11931627 TTGAGTTATTGTGATA
1 TTGAGTTATTGTGATA
11931643 TTGAG-TATTGTGAT
1 TTGAGTTATTGTGAT
11931657 TTTCTTTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
TTGAGTTATTGTGATA
Found at i:11931970 original size:2 final size:2
Alignment explanation
Indices: 11931963--11931995 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11931953 TTGGTTTAAA
*
11931963 AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11931996 AGAATCCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11932746 original size:32 final size:32
Alignment explanation
Indices: 11932709--11932786 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
11932699 GGCTCCTACT
11932709 ATGTAGCACTTAGTGATTCTCATGGGCCCATC
1 ATGTAGCACTTAGTGATTCTCATGGGCCCATC
11932741 ATGTAGCACTTAGTGATTCTCATGGGCCCATC
1 ATGTAGCACTTAGTGATTCTCATGGGCCCATC
11932773 ATGTAGCACTTAGT
1 ATGTAGCACTTAGT
11932787 AACTCCCACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (32 bp):
ATGTAGCACTTAGTGATTCTCATGGGCCCATC
Found at i:11935477 original size:21 final size:21
Alignment explanation
Indices: 11935451--11935493 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11935441 CATAATGTAA
11935451 ACTTAACCTTCCTTACCTTAT
1 ACTTAACCTTCCTTACCTTAT
11935472 ACTTAACCTTCCTTACCTTAT
1 ACTTAACCTTCCTTACCTTAT
11935493 A
1 A
11935494 ATTCTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.42
Consensus pattern (21 bp):
ACTTAACCTTCCTTACCTTAT
Found at i:11947861 original size:27 final size:27
Alignment explanation
Indices: 11947808--11947875 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
11947798 CTAATAGAAT
* *
11947808 AAATATAACATATAATAGAATAAATAG
1 AAATAAAATATATAATAGAATAAATAG
* *
11947835 AAATAGAATATATAATA-TATAATATAG
1 AAATAAAATATATAATAGAATAA-ATAG
*
11947862 AGATAAAATA-ATAA
1 AAATAAAATATATAA
11947876 ATAATTATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.23
27 27 0.77
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATAAAATATATAATAGAATAAATAG
Found at i:11947885 original size:36 final size:35
Alignment explanation
Indices: 11947771--11947889 Score: 90
Period size: 34 Copynumber: 3.5 Consensus size: 35
11947761 ATATTATGCT
* * *
11947771 AATATTTATAATA-CTAAATAG-GATAAACTAATA
1 AATAATTATAATATATAAATAGAGATAAAATAATA
* *
11947804 GAATAAATATAACATAT-AATAGA-AT-AAATAGA-A
1 -AATAATTATAATATATAAATAGAGATAAAATA-ATA
*
11947837 ATAGAATATATAATATATAATATAGAGATAAAATAATA
1 A-ATAAT-TATAATATATAA-ATAGAGATAAAATAATA
11947875 AATAATTATAA-ATAT
1 AATAATTATAATATAT
11947890 TTTTATAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
32 1 0.02
33 8 0.12
34 27 0.41
35 6 0.09
36 10 0.15
37 7 0.11
38 7 0.11
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.31
Consensus pattern (35 bp):
AATAATTATAATATATAAATAGAGATAAAATAATA
Found at i:11947916 original size:18 final size:18
Alignment explanation
Indices: 11947867--11947912 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
11947857 TATAGAGATA
*
11947867 AAATAATA-AATAATTAT
1 AAATAATATTATAATTAT
* *
11947884 AAATATTTTTATAATTAT
1 AAATAATATTATAATTAT
11947902 -AATAATATTAT
1 AAATAATATTAT
11947913 TAATAATATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAATATTATAATTAT
Found at i:11950243 original size:2 final size:2
Alignment explanation
Indices: 11950236--11950277 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11950226 TAATTTTATG
11950236 TA TA TA 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 TA TA TA
11950278 AGATCTTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11951639 original size:22 final size:23
Alignment explanation
Indices: 11951597--11951641 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11951587 TTTGGTTGCT
* *
11951597 CTTGTTGCAGTCTTGATGAAACA
1 CTTGATGCAGTCTTGAGGAAACA
11951620 CTTGATGCAGT-TTGAGGAAACA
1 CTTGATGCAGTCTTGAGGAAACA
11951642 AAGGCATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (23 bp):
CTTGATGCAGTCTTGAGGAAACA
Found at i:11954055 original size:2 final size:2
Alignment explanation
Indices: 11954050--11954076 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11954040 TGTAAGTACG
11954050 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 T
11954077 GGAGAGGGGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11959250 original size:5 final size:6
Alignment explanation
Indices: 11959227--11959258 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
11959217 TGTCTTCAAA
11959227 ATTTATT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT A
11959259 AATTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:11959973 original size:14 final size:14
Alignment explanation
Indices: 11959919--11959971 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
11959909 AAATACTTTT
11959919 AAAAAATAATAAAT-
1 AAAAAATAA-AAATA
* *
11959933 AAAGAAT-AACATA
1 AAAAAATAAAAATA
11959946 AAAAAATAAAAATA
1 AAAAAATAAAAATA
11959960 AAAAAACTAAAA
1 AAAAAA-TAAAA
11959972 TAGGAACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 3 0.09
13 7 0.22
14 17 0.53
15 5 0.16
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:11960807 original size:30 final size:30
Alignment explanation
Indices: 11960765--11960844 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
11960755 TTTTTAACAG
* *
11960765 ATAATAAAAAAATAATAATAAGATAATAAA
1 ATAATAATAAAATAATAATAAAATAATAAA
* *
11960795 TTAATAGTAAAATAATAATAAAATAATAAA
1 ATAATAATAAAATAATAATAAAATAATAAA
* *
11960825 ATAATAATAAGATAAAAATA
1 ATAATAATAAAATAATAATA
11960845 CAAAGATAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (30 bp):
ATAATAATAAAATAATAATAAAATAATAAA
Found at i:11960834 original size:19 final size:19
Alignment explanation
Indices: 11960767--11960831 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
11960757 TTTAACAGAT
*
11960767 AATAAAAAAATAATAATAA
1 AATAATAAAATAATAATAA
* * *
11960786 GATAATAAATTAATAGTAA
1 AATAATAAAATAATAATAA
11960805 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
11960824 AATAATAA
1 AATAATAA
11960832 TAAGATAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 37 0.97
20 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:11960839 original size:8 final size:8
Alignment explanation
Indices: 11960765--11960831 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
11960755 TTTTTAACAG
11960765 ATAATAAA
1 ATAATAAA
*
11960773 A-AA-ATA
1 ATAATAAA
*
11960779 ATAATAAG
1 ATAATAAA
11960787 ATAATAAA
1 ATAATAAA
*
11960795 TTAAT--A
1 ATAATAAA
*
11960801 GTAA-AATA
1 ATAATAA-A
11960809 ATAATAAA
1 ATAATAAA
11960817 ATAATAAA
1 ATAATAAA
11960825 ATAATAA
1 ATAATAA
11960832 TAAGATAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
6 7 0.15
7 4 0.09
8 33 0.72
9 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (8 bp):
ATAATAAA
Found at i:11960839 original size:11 final size:11
Alignment explanation
Indices: 11960765--11960834 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
11960755 TTTTTAACAG
*
11960765 ATAATAAAAAA
1 ATAATAAAATA
*
11960776 ATAATAATAA-G
1 ATAATAA-AATA
*
11960787 ATAATAAATTA
1 ATAATAAAATA
*
11960798 ATAGTAAAATA
1 ATAATAAAATA
11960809 ATAATAAAATA
1 ATAATAAAATA
11960820 ATAA-AATAATA
1 ATAATAA-AATA
11960831 ATAA
1 ATAA
11960835 GATAAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
10 3 0.06
11 45 0.90
12 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:11960839 original size:19 final size:18
Alignment explanation
Indices: 11960778--11960839 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
11960768 ATAAAAAAAT
* *
11960778 AATAATAAGATAATAAATT
1 AATAATAAAATAAT-AATA
*
11960797 AATAGTAAAATAATAATAA
1 AATAATAAAATAATAAT-A
11960816 AATAATAAAATAATAATA
1 AATAATAAAATAATAATA
11960834 AGATAA
1 A-ATAA
11960840 AAATACAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.14
19 32 0.86
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAAAATAATAATA
Found at i:11961332 original size:86 final size:84
Alignment explanation
Indices: 11961225--11961500 Score: 308
Period size: 86 Copynumber: 3.2 Consensus size: 84
11961215 TTAACAGAGA
* * * *
11961225 CTCAACGACTTTTAAAAAATAAATAAGGCTCATCTAAGCTGAGACTCATGACTTTTAAAAAATAA
1 CTCAACAACTTTTAAAAAATAAATAAGGCTCCTCTAA-CTGAGGCTCATGACTTTTGAAAAATAA
*
11961290 CTAAAGTTCCTCT-AATGAAGG
65 C-AAAGCTCCTCTAAAT-AAGG
* * **
11961311 CTTAACAACTTTTAAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACACTTTTGAAAAATAA
1 CTCAACAACTTTTAAAAAATAAATAAGGCTCCTCT-AACTGAGGCTCATGACTTTTGAAAAATAA
* *
11961376 AAAAGGCTCTTCTAAATAGAGG
65 CAAA-GCTCCTCTAAATA-AGG
* *
11961398 CTCAAC-ACATTCAAAAAATAAATAAGGCTCCTCT-ACATAGAGGCTCAATGACTTTTGAAAAAT
1 CTCAACAACTTTTAAAAAATAAATAAGGCTCCTCTAAC-T-GAGGCTC-ATGACTTTTGAAAAAT
11961461 AAACAAAGCTCCTCTAAATAAAGG
63 -AACAAAGCTCCTCTAAAT-AAGG
11961485 CTCAACAAC-TTTAAAA
1 CTCAACAACTTTTAAAA
11961501 TTTTGAAAAA
Statistics
Matches: 160, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
84 2 0.01
85 3 0.02
86 94 0.59
87 53 0.33
88 8 0.05
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (84 bp):
CTCAACAACTTTTAAAAAATAAATAAGGCTCCTCTAACTGAGGCTCATGACTTTTGAAAAATAAC
AAAGCTCCTCTAAATAAGG
Found at i:11961496 original size:44 final size:43
Alignment explanation
Indices: 11961169--11961500 Score: 252
Period size: 43 Copynumber: 7.7 Consensus size: 43
11961159 GCATAACAGT
* * *
11961169 TCCTCTAAATAGAGGTTTAACACTTTGAAAAACAT-AA-AAA-C
1 TCCTCTAAATAGAGGCTCAACACTTTTAAAAA-ATAAACAAAGC
* * * * *
11961210 TCC-CTTTAACAGAGACTCAACGACTTTTAAAAAATAAATAAGGC
1 TCCTC-TAAATAGAGGCTCAAC-ACTTTTAAAAAATAAACAAAGC
* * * ** *
11961254 TCATCTAAGCT-GAGACTCATGACTTTTAAAAAAT-AACTAAAGT
1 TCCTCTAA-ATAGAGGCTCAACACTTTTAAAAAATAAAC-AAAGC
* * *
11961297 TCCTCT-AAT-GAAGGCTTAACAACTTTTAAAAAATAAATAAGGC
1 TCCTCTAAATAG-AGGCTCAAC-ACTTTTAAAAAATAAACAAAGC
* *
11961340 TCCTCTAAACAGAGGCTCAACACTTTTGAAAAATAAA-AAAGGC
1 TCCTCTAAATAGAGGCTCAACACTTTTAAAAAATAAACAAA-GC
* * * * *
11961383 TCTTCTAAATAGAGGCTCAACACATTCAAAAAATAAATAAGGC
1 TCCTCTAAATAGAGGCTCAACACTTTTAAAAAATAAACAAAGC
* * *
11961426 TCCTCTACATAGAGGCTCAATGACTTTTGAAAAATAAACAAAGC
1 TCCTCTAAATAGAGGCTCAA-CACTTTTAAAAAATAAACAAAGC
*
11961470 TCCTCTAAATAAAGGCTCAACAAC-TTTAAAA
1 TCCTCTAAATAGAGGCTCAAC-ACTTTTAAAA
11961501 TTTTGAAAAA
Statistics
Matches: 227, Mismatches: 47, Indels: 32
0.74 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 18 0.08
42 22 0.10
43 120 0.53
44 64 0.28
45 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (43 bp):
TCCTCTAAATAGAGGCTCAACACTTTTAAAAAATAAACAAAGC
Found at i:11970285 original size:28 final size:28
Alignment explanation
Indices: 11970245--11970325 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
11970235 TTTGGTTAAG
*
11970245 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATTTTACAAGTGCA
*
11970273 AATGATTGTTTG-AATTTTACAAGGGCA
1 AATGATTGTTTGAAATTTTACAAGTGCA
* *
11970300 AAAGATTGGTTGAAATTTTACAAGTG
1 AATGATTGTTTGAAATTTTACAAGTG
11970326 ATGATTTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 23 0.49
28 24 0.51
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (28 bp):
AATGATTGTTTGAAATTTTACAAGTGCA
Found at i:11970300 original size:27 final size:28
Alignment explanation
Indices: 11970245--11970323 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
11970235 TTTGGTTAAG
* *
11970245 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATTTTACAAGGGCA
11970273 AATGATTGTTTG-AATTTTACAAGGGCA
1 AATGATTGTTTGAAATTTTACAAGGGCA
* *
11970300 AAAGATTGGTTGAAATTTTACAAG
1 AATGATTGTTTGAAATTTTACAAG
11970324 TGATGATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (28 bp):
AATGATTGTTTGAAATTTTACAAGGGCA
Found at i:11972514 original size:6 final size:6
Alignment explanation
Indices: 11972503--11972546 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
11972493 CAATAAGAAA
* *
11972503 AATATT AATATT AATATT AATATT AATTTT AATTTT AAT-TT AAT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AAT
11972547 TTATTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
AATATT
Found at i:11973563 original size:4 final size:4
Alignment explanation
Indices: 11973547--11973592 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
11973537 TCTGTTTCAT
* * *
11973547 TTTA TTTA GTTA TTTA TTTA TTT- TTTG TTTA -TTA TGTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
11973593 AATTGTAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
3 6 0.17
4 29 0.83
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:11973581 original size:22 final size:23
Alignment explanation
Indices: 11973546--11973591 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
11973536 TTCTGTTTCA
*
11973546 TTTTATTTAGTTATTTATTTATT
1 TTTTATTTAGTTATGTATTTATT
*
11973569 TTTTGTTTA-TTATGTATTTATT
1 TTTTATTTAGTTATGTATTTATT
11973591 T
1 T
11973592 AAATTGTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (23 bp):
TTTTATTTAGTTATGTATTTATT
Found at i:11973588 original size:11 final size:11
Alignment explanation
Indices: 11973547--11973590 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
11973537 TCTGTTTCAT
11973547 TTTATTTAGTTA
1 TTTATTTA-TTA
*
11973559 TTTATTTATTT
1 TTTATTTATTA
*
11973570 TTTGTTTATTA
1 TTTATTTATTA
*
11973581 TGTATTTATT
1 TTTATTTATT
11973591 TAAATTGTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:11984696 original size:15 final size:15
Alignment explanation
Indices: 11984678--11984723 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11984668 TTGAAAAATG
*
11984678 ATGAAAAATAAAAAA
1 ATGAAAAAGAAAAAA
11984693 ATGAAAAAGAAAAGAA
1 ATGAAAAAGAAAA-AA
*
11984709 A-AAAAAAGAAAAAA
1 ATGAAAAAGAAAAAA
11984723 A
1 A
11984724 AGAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 22 0.79
16 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (15 bp):
ATGAAAAAGAAAAAA
Found at i:11984711 original size:12 final size:11
Alignment explanation
Indices: 11984687--11984733 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
11984677 GATGAAAAAT
*
11984687 AAAAAAATGAA
1 AAAAAAAAGAA
*
11984698 AAAGAAAAG-A
1 AAAAAAAAGAA
11984708 AAAAAAAAGAA
1 AAAAAAAAGAA
11984719 AAAAAAGAAGAA
1 AAAAAA-AAGAA
11984731 AAA
1 AAA
11984734 GAATAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.29
11 14 0.45
12 8 0.26
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:11984715 original size:22 final size:22
Alignment explanation
Indices: 11984687--11984733 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
11984677 GATGAAAAAT
* *
11984687 AAAAAAATGAAAAAGAA-AAGA
1 AAAAAAAAGAAAAAAAAGAAGA
11984708 AAAAAAAAGAAAAAAAAGAAGA
1 AAAAAAAAGAAAAAAAAGAAGA
11984730 AAAA
1 AAAA
11984734 GAATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAGAAGA
Found at i:11984723 original size:9 final size:9
Alignment explanation
Indices: 11984681--11984736 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
11984671 AAAAATGATG
*
11984681 AAAAATAAA
1 AAAAAGAAA
*
11984690 AAAATGAAAA
1 AAAAAG-AAA
11984700 AGAAAAGAAAA
1 A-AAAAG-AAA
11984711 AAAAAGAAA
1 AAAAAGAAA
*
11984720 AAAAAGAAG
1 AAAAAGAAA
11984729 AAAAAGAA
1 AAAAAGAA
11984737 TAATAAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 23 0.56
10 9 0.22
11 9 0.22
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:11986562 original size:17 final size:17
Alignment explanation
Indices: 11986535--11986665 Score: 58
Period size: 17 Copynumber: 7.5 Consensus size: 17
11986525 GCAAAACTTA
11986535 AAATC-TTATGAATTTG
1 AAATCTTTATGAATTTG
11986551 AAATCTTTATG-ATTATG
1 AAATCTTTATGAATT-TG
* *
11986568 AAACCTCTGA-GAATCTT-
1 AAATCT-TTATGAAT-TTG
*
11986585 AAGTCATTTATGAACTCTTG
1 AAATC-TTTATGAA-T-TTG
* * *
11986605 GAATCTTTACGAAACTTG
1 AAATCTTTATG-AATTTG
*
11986623 AAAT-TCTTGTGAATTTG
1 AAATCT-TTATGAATTTG
*
11986640 AAAACCTTTATGAATCTTG
1 -AAATCTTTATGAAT-TTG
11986659 -AATCTTT
1 AAATCTTT
11986666 GCAAACATTG
Statistics
Matches: 85, Mismatches: 16, Indels: 27
0.66 0.12 0.21
Matches are distributed among these distances:
16 8 0.09
17 30 0.35
18 28 0.33
19 14 0.16
20 5 0.06
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (17 bp):
AAATCTTTATGAATTTG
Found at i:11987188 original size:65 final size:64
Alignment explanation
Indices: 11987072--11987435 Score: 149
Period size: 65 Copynumber: 5.7 Consensus size: 64
11987062 CTGATCATTT
* * ** *
11987072 ATCTTCGATCTTAGTTTAGCTC-AGATCATTTATATTTCCAACCTATG--GTTCATTCTTAGTCA
1 ATCTTCAATCTTAGTTTAGC-CAAG-TCATTTATTTTTTTAA-CT-TGCAGTTCAATCTTAGTCA
11987134 CTC
62 CTC
* ** *
11987137 ATCTTCAATCTTAGTTTAGCCGAAGTCATTTATTTTTTTGACTTGCAGTTCAATCCCAATCACTC
1 ATCTTCAATCTTAGTTTAGCC-AAGTCATTTATTTTTTTAACTTGCAGTTCAATCTTAGTCACTC
* * ** * * * * * *
11987202 ATTTTTAATCTCGGTTTAGCTCAAATCATTTATATTTTTAACTATG--GTTTATTCTTGGCCACT
1 ATCTTCAATCTTAGTTTAGC-CAAGTCATTTATTTTTTTAACT-TGCAGTTCAATCTTAGTCACT
*
11987265 T
64 C
** * * * * * *
11987266 ATCTTTTATC-TAGGTTTAGCCCAG--A-TCATTTTTTTGACTTACAATTCAATC-TCGATCACA
1 ATCTTCAATCTTA-GTTTAGCCAAGTCATTTATTTTTTTAACTTGCAGTTCAATCTTAG-TCAC-
11987326 T-
63 TC
* * * * * *
11987327 ATTTTCTATCTTAGTTTAGCCTAGGTCATTTATTTTTTTAACTTGC-GATTCAGTCTCAATCACT
1 ATCTTCAATCTTAGTTTAGCC-AAGTCATTTATTTTTTTAACTTGCAG-TTCAATCTTAGTCACT
*
11987391 T
64 C
* * * * ** *
11987392 ATTTTCGACCTCAGCTCAATCCAAGTCATTTATTTTTTTAACTT
1 ATCTTCAATCTTAG-TTTAGCCAAGTCATTTATTTTTTTAACTT
11987436 TGTGGTTTAG
Statistics
Matches: 221, Mismatches: 58, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
59 1 0.00
60 13 0.06
61 25 0.11
62 4 0.02
63 4 0.02
64 30 0.14
65 135 0.61
66 9 0.04
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (64 bp):
ATCTTCAATCTTAGTTTAGCCAAGTCATTTATTTTTTTAACTTGCAGTTCAATCTTAGTCACTC
Found at i:11987344 original size:125 final size:128
Alignment explanation
Indices: 11987079--11987369 Score: 308
Period size: 125 Copynumber: 2.3 Consensus size: 128
11987069 TTTATCTTCG
** *
11987079 ATCTTAGTTTAGCTCAGATCATTTATATTTCCAACCTATGGTTCATTCTTAGTCACTCATCTTCA
1 ATCTTAGTTTAGCTCAGATCATTTATATTTTTAA-CTATGGTTCATTCTTAGCCACTCATCTTCA
* * *
11987144 ATCTTAGTTTAGCCGAAGTCATTTATTTTTTTGACTTGCAGTTCAATCCCAATCACTCATTTTTA
65 ATCTTAGTTTAGCCGAAG-CATTCATTTTTTTGACTTACAATTCAATCCCAATCACTCATTTTTA
** * * * * **
11987209 ATCTCGGTTTAGCTCAAATCATTTATATTTTTAACTATGGTTTATTCTTGGCCACTTATCTTTTA
1 ATCTTAGTTTAGCTCAGATCATTTATATTTTTAACTATGGTTCATTCTTAGCCACTCATCTTCAA
* * *
11987274 TC-TAGGTTTAGCC-CAG-A-TCATTTTTTTGACTTACAATTCAATCTCGATCACAT-ATTTTCT
66 TCTTA-GTTTAGCCGAAGCATTCATTTTTTTGACTTACAATTCAATCCCAATCAC-TCATTTT-T
11987334 -
128 A
* *
11987334 ATCTTAGTTTAGC-CTAGGTCATTTATTTTTTTAACT
1 ATCTTAGTTTAGCTC-AGATCATTTATATTTTTAACT
11987370 TGCGATTCAG
Statistics
Matches: 135, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
124 1 0.01
125 63 0.47
126 3 0.02
128 4 0.03
129 35 0.26
130 29 0.21
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (128 bp):
ATCTTAGTTTAGCTCAGATCATTTATATTTTTAACTATGGTTCATTCTTAGCCACTCATCTTCAA
TCTTAGTTTAGCCGAAGCATTCATTTTTTTGACTTACAATTCAATCCCAATCACTCATTTTTA
Found at i:11987486 original size:66 final size:66
Alignment explanation
Indices: 11987342--11987510 Score: 187
Period size: 66 Copynumber: 2.6 Consensus size: 66
11987332 CTATCTTAGT
* * * * *
11987342 TTAGCCTAGGTCATTTATTTTTTTAAC-TTGCGATTCAGTCTCAATCACTTATTTTCGACCTCAG
1 TTAGTCTAGGTCATTTATTTTTTTAACTTTGTGGTTCAGTCTCAATCACTTATTTTCAACCTCAA
*
11987406 C
66 A
* * * * * ** * *
11987407 TCAATCCAAGTCATTTATTTTTTTAACTTTGTGGTTTAGTCTCGGTCACTTATTTTTAATCTCAA
1 TTAGTCTAGGTCATTTATTTTTTTAACTTTGTGGTTCAGTCTCAATCACTTATTTTCAACCTCAA
11987472 A
66 A
*
11987473 TTAGTCTAGGTCATTTATTTTTTTGACTTTGTGGTTCA
1 TTAGTCTAGGTCATTTATTTTTTTAACTTTGTGGTTCA
11987511 ATCCCATTTC
Statistics
Matches: 82, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
65 22 0.27
66 60 0.73
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (66 bp):
TTAGTCTAGGTCATTTATTTTTTTAACTTTGTGGTTCAGTCTCAATCACTTATTTTCAACCTCAA
A
Found at i:11988067 original size:43 final size:44
Alignment explanation
Indices: 11987513--11988089 Score: 369
Period size: 43 Copynumber: 13.4 Consensus size: 44
11987503 GTGGTTCAAT
* * * * *
11987513 CCCATTTCTTACTTTAAAGTTGATTAG-CTTCTGTTTAGAGGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * * * * **
11987556 CACATTTCATATTTTAAAGTTGTTTA-ACCTTTGAATAAAATAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * ** * *
11987599 CCTATTTCATATTTTAAAGTTAATTAG-CCTCTGTTTAGAA-AAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATA-AAGGAG
* * * * * ** *
11987642 TCTATTTCATATTTTAAAATTGTTTA-ACCTCTAAATAGAGGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * * * * *
11987685 CTCATTTCATATTTTAAAGTTGATTAG-CCTCTATTTAAAGAAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * * * *
11987728 CCCATTTCATATTTTTAAGTTGTTTAG-CCTTTGAATAGAGGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * * *
11987771 CCCATTTCATATTTTAAAGTTGTTTAG-CCTTTGAATAAAAGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * * *
11987814 TCTATTTCTCATTTTAAAATTGTTTAG-CCTCTGTATAGAA-GAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATA-AAGGAG
* * * * *
11987857 CCTATTTCCTATTTTAAAGTTATTTTG-CCTTTGTATAAAGGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* ** * ** *
11987900 CACATTTCTTATTTTAAACCTGTTTTGCCC-CTAAATAGAGGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
* * * * *
11987943 CTCATTT-TCTATTTTAATGTTGTTTA-ACCTCTGTATAGAA-AAA
1 CCCATTTCT-TATTTTAAAGTTGTTTAGCCCTCTGTATA-AAGGAG
* ** * *
11987986 CCCATTTTTTATTTTAAAGTCATTTTG-CCTCTGAATAAAGGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
*
11988029 CCCATTTCTTATTTTAAAGTTGTTTAGCCCT-TGTATAAATGAG
1 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
**
11988072 TTCATTTCTTATTTTAAA
1 CCCATTTCTTATTTTAAA
11988090 ATCATTTTGC
Statistics
Matches: 418, Mismatches: 100, Indels: 32
0.76 0.18 0.06
Matches are distributed among these distances:
42 8 0.02
43 399 0.95
44 11 0.03
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (44 bp):
CCCATTTCTTATTTTAAAGTTGTTTAGCCCTCTGTATAAAGGAG
Found at i:11988095 original size:86 final size:85
Alignment explanation
Indices: 11987513--11988122 Score: 415
Period size: 86 Copynumber: 7.1 Consensus size: 85
11987503 GTGGTTCAAT
* * * * * * * * * *
11987513 CCCATTTCTTACTTTAAAGTTGATTAG-CTTCTGTTTAGAGGAGCACATTTCATATTTTAAAGTT
1 CCCATTTCATATTTTAAAGTTGTTTAGCCCT-TGTATA-AAGAGCCCATTTCTTATTTTAAAATC
* * * **
11987577 GTTTAACCTTTGAATAAAATAG
64 GTTTAGCCTCTGAATAGAGGAG
* ** * * * * * *
11987599 CCTATTTCATATTTTAAAGTTAATTAG-CCTCTGTTTAGAAAAGTCTATTTCATATTTTAAAATT
1 CCCATTTCATATTTTAAAGTTGTTTAGCCCT-TGTATA-AAGAGCCCATTTCTTATTTTAAAATC
* *
11987663 GTTTAACCTCTAAATAGAGGAG
64 GTTTAGCCTCTGAATAGAGGAG
* * * * *
11987685 CTCATTTCATATTTTAAAGTTGATTAGCCTCTAT-T-TAAAGAAGCCCATTTCATATTTTTAAGT
1 CCCATTTCATATTTTAAAGTTGTTTAGCC-CT-TGTATAAAG-AGCCCATTTCTTATTTTAAAAT
* *
11987748 TGTTTAGCCTTTGAATAGAGGAG
63 CGTTTAGCCTCTGAATAGAGGAG
* * * * * *
11987771 CCCATTTCATATTTTAAAGTTGTTTAGCCTTTGAATAAAAGAGTCTATTTCTCATTTTAAAATTG
1 CCCATTTCATATTTTAAAGTTGTTTAGCCCTTGTAT-AAAGAGCCCATTTCTTATTTTAAAATCG
* *
11987836 TTTAGCCTCTGTATAGAAGAG
65 TTTAGCCTCTGAATAGAGGAG
* * * * * * *
11987857 CCTATTTCCTATTTTAAAGTTATTTTGCCTTTGTATAAAGGAGCACATTTCTTATTTT-AAACCT
1 CCCATTTCATATTTTAAAGTTGTTTAGCCCTTGTATAAA-GAGCCCATTTCTTATTTTAAAATC-
* * *
11987921 GTTTTGCCCCTAAATAGAGGAG
64 GTTTAGCCTCTGAATAGAGGAG
* * * * * * *
11987943 CTCATTTTC-TATTTTAATGTTGTTTA-ACCTCTGTATAGAAAAACCCATTTTTTATTTTAAAGT
1 CCCA-TTTCATATTTTAAAGTTGTTTAGCCCT-TGTATA-AAGAGCCCATTTCTTATTTTAAAAT
* * *
11988006 CATTTTGCCTCTGAATAAAGGAG
63 CGTTTAGCCTCTGAATAGAGGAG
* ** *
11988029 CCCATTTCTTATTTTAAAGTTGTTTAGCCCTTGTATAAATGAGTTCATTTCTTATTTTAAAATCA
1 CCCATTTCATATTTTAAAGTTGTTTAGCCCTTGTATAAA-GAGCCCATTTCTTATTTTAAAATCG
* ** *
11988094 TTTTGCCTCTGTTTAGAGAAG
65 TTTAGCCTCTGAATAGAGGAG
*
11988115 CTCATTTC
1 CCCATTTC
11988123 TTGATTTATT
Statistics
Matches: 421, Mismatches: 88, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
84 1 0.00
85 17 0.04
86 382 0.91
87 18 0.04
88 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (85 bp):
CCCATTTCATATTTTAAAGTTGTTTAGCCCTTGTATAAAGAGCCCATTTCTTATTTTAAAATCGT
TTAGCCTCTGAATAGAGGAG
Found at i:11988121 original size:129 final size:128
Alignment explanation
Indices: 11987558--11988122 Score: 465
Period size: 129 Copynumber: 4.4 Consensus size: 128
11987548 TAGAGGAGCA
* * * * * * * *
11987558 CATTTCATATTTTAAAGTTGTTTAACCTTTGAATA-AAATAGCCTATTTCATATTTTAAAGTTAA
1 CATTTCTTATTTTAAAATTGTTTAGCCTCTGTATAGAGA-AGCCCATTTCATATTTTAAAGTTAT
* * ** * * * * * * * * *
11987622 TTAGCCTCTGTTTAGAA-AAGTCTATTTCATATTTTAAAATTGTTTA-ACCTCTAAATAGAGGAG
65 TTTGCCTTTGAATA-AAGGAGCCCATTTCTTATTTTAAAGTTGTTTAGCCCT-TGAATAAAAGAG
11987685 CT
128 -T
* * * * * * * *
11987687 CATTTCATATTTTAAAGTTGATTAGCCTCTATTTAAAGAAGCCCATTTCATATTTTTAAGTTGTT
1 CATTTCTTATTTTAAAATTGTTTAGCCTCTGTATAGAGAAGCCCATTTCATATTTTAAAGTTATT
* * * *
11987752 TAGCCTTTGAATAGAGGAGCCCATTTCATATTTTAAAGTTGTTTAGCCTTTGAATAAAAGAGT
66 TTGCCTTTGAATAAAGGAGCCCATTTCTTATTTTAAAGTTGTTTAGCCCTTGAATAAAAGAGT
* * *
11987815 CTATTTCTCATTTTAAAATTGTTTAGCCTCTGTATAGA-AGAGCCTATTTCCTATTTTAAAGTTA
1 C-ATTTCTTATTTTAAAATTGTTTAGCCTCTGTATAGAGA-AGCCCATTTCATATTTTAAAGTTA
* * ** * * * * *
11987879 TTTTGCCTTTGTATAAAGGAGCACATTTCTTATTTTAAACCTGTTTTGCCCCTAAATAGAGGAGC
64 TTTTGCCTTTGAATAAAGGAGCCCATTTCTTATTTTAAAGTTGTTTAGCCCTTGAATAAAAGAG-
11987944 T
128 T
** * * * ** *
11987945 CATTT-TCTATTTTAATGTTGTTTAACCTCTGTATAGAAAAACCCATTTTTTATTTTAAAGTCAT
1 CATTTCT-TATTTTAAAATTGTTTAGCCTCTGTATAGAGAAGCCCATTTCATATTTTAAAGTTAT
* * *
11988009 TTTGCCTCTGAATAAAGGAGCCCATTTCTTATTTTAAAGTTGTTTAGCCCTTGTATAAATGAGTT
65 TTTGCCTTTGAATAAAGGAGCCCATTTCTTATTTTAAAGTTGTTTAGCCCTTGAATAAAAGAG-T
** * * *
11988074 CATTTCTTATTTTAAAATCATTTTGCCTCTGTTTAGAGAAGCTCATTTC
1 CATTTCTTATTTTAAAATTGTTTAGCCTCTGTATAGAGAAGCCCATTTC
11988123 TTGATTTATT
Statistics
Matches: 347, Mismatches: 80, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
128 5 0.01
129 334 0.96
130 8 0.02
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (128 bp):
CATTTCTTATTTTAAAATTGTTTAGCCTCTGTATAGAGAAGCCCATTTCATATTTTAAAGTTATT
TTGCCTTTGAATAAAGGAGCCCATTTCTTATTTTAAAGTTGTTTAGCCCTTGAATAAAAGAGT
Found at i:11988366 original size:6 final size:6
Alignment explanation
Indices: 11988355--11988385 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11988345 TAAAAAAATA
*
11988355 TTAATT TTAATT TTAATT TTAACT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT T
11988386 GATTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
TTAATT
Found at i:11994074 original size:57 final size:56
Alignment explanation
Indices: 11993986--11994098 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 56
11993976 AATGTTGTCA
11993986 AACTTTCAAATAATGCATAAACATCTACTTATTACCTAAAATATACACTAAGAACAT
1 AACTTTCAAATAATGCATAAACATCTACTTATTACCTAAAATAT-CACTAAGAACAT
* *
11994043 AACTTTCAAATAATGCATAAACATCTACTTATTGCCTAAGATATCACTAAGAACAT
1 AACTTTCAAATAATGCATAAACATCTACTTATTACCTAAAATATCACTAAGAACAT
11994099 GATCCATGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 12 0.22
57 42 0.78
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.30
Consensus pattern (56 bp):
AACTTTCAAATAATGCATAAACATCTACTTATTACCTAAAATATCACTAAGAACAT
Found at i:11999023 original size:31 final size:31
Alignment explanation
Indices: 11998987--11999057 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
11998977 TACGAAATTA
* ***
11998987 AAATTTAGTTCATGTACTCGCTTGAAATTTG
1 AAATTTAATTCATGTACTCGCACAAAATTTG
* *
11999018 AAATTTAATTTATGTATTCGCACAAAATTTG
1 AAATTTAATTCATGTACTCGCACAAAATTTG
11999049 AAATTTAAT
1 AAATTTAAT
11999058 CCTTTTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (31 bp):
AAATTTAATTCATGTACTCGCACAAAATTTG
Found at i:11999178 original size:33 final size:32
Alignment explanation
Indices: 11999116--11999202 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
11999106 AAAATTGCCA
* * *
11999116 CATAATATTCTGTCATAATATTGAAAAATTTAT
1 CATAATATTCTATCATAATTTTTAAAAA-TTAT
* * *
11999149 CATAATATTCTATCACAATTTTTATAAATTGT
1 CATAATATTCTATCATAATTTTTAAAAATTAT
11999181 CACTAA-A-TCTATCATAATTTTT
1 CA-TAATATTCTATCATAATTTTT
11999203 GTCGCCTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 14 0.30
32 6 0.13
33 26 0.57
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (32 bp):
CATAATATTCTATCATAATTTTTAAAAATTAT
Found at i:12001252 original size:18 final size:19
Alignment explanation
Indices: 12001229--12001268 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
12001219 ACTTTAACAC
*
12001229 ATAATATTGTT-TATTATA
1 ATAATATTATTATATTATA
*
12001247 ATAATATTATTATTTTATA
1 ATAATATTATTATATTATA
12001266 ATA
1 ATA
12001269 TGAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAATATTATTATATTATA
Found at i:12001435 original size:23 final size:24
Alignment explanation
Indices: 12001409--12001455 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12001399 TTTCAATATA
12001409 AAATATAACTA-TTTTAATATTAT
1 AAATATAACTATTTTTAATATTAT
* *
12001432 AAATATTACTATTTTTCATATTAT
1 AAATATAACTATTTTTAATATTAT
12001456 TATAGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATATAACTATTTTTAATATTAT
Found at i:12002924 original size:26 final size:26
Alignment explanation
Indices: 12002879--12002929 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12002869 TATTTGCGGT
* *
12002879 GGGAAGAAGGGAAAGTAAAAGTAAAGG
1 GGGAAGAAAGGAAAGAAAAAG-AAAGG
12002906 GGGAA-AAAGGAAAGAAAAAGAAAG
1 GGGAAGAAAGGAAAGAAAAAGAAAG
12002930 ATGGAAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.37, T:0.04
Consensus pattern (26 bp):
GGGAAGAAAGGAAAGAAAAAGAAAGG
Found at i:12004099 original size:71 final size:72
Alignment explanation
Indices: 12003931--12004108 Score: 207
Period size: 71 Copynumber: 2.4 Consensus size: 72
12003921 CTCTGAAATT
*
12003931 AAAAATATAATCTTTGTTGAAAATATGAAAAAAATATTTTTCAGAATTCAACAAAACATAATGTT
1 AAAAATA-AATCTTTGTTGAAAATATG-AAAAAATATTTTTCAGAAATCAACAAAACATAATGTT
12003996 TTTAAGATA
64 TTTAAGATA
** * * *** * *
12004005 AAAACGAGATCCTTGAAAAAAAATATGAAAAAATATTTTT-AGAAATCAATAAAA-ATGATGTTT
1 AAAAATAAATCTTTG-TTGAAAATATGAAAAAATATTTTTCAGAAATCAACAAAACATAATGTTT
12004068 TTAAGATA
65 TTAAGATA
*
12004076 AAAAATACAATTTTTGTTGAAAATATGAAAAAA
1 AAAAATA-AATCTTTGTTGAAAATATGAAAAAA
12004109 AAAAAAAAGA
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
71 35 0.42
72 17 0.20
73 19 0.23
74 13 0.15
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.32
Consensus pattern (72 bp):
AAAAATAAATCTTTGTTGAAAATATGAAAAAATATTTTTCAGAAATCAACAAAACATAATGTTTT
TAAGATA
Found at i:12004819 original size:30 final size:30
Alignment explanation
Indices: 12004783--12004846 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
12004773 TGTTTGCATG
12004783 GACCTTTATATTTATAGATAAATAATGAGA
1 GACCTTTATATTTATAGATAAATAATGAGA
*
12004813 GACCTTTATATTTATAGATAAATAATGAGG
1 GACCTTTATATTTATAGATAAATAATGAGA
12004843 GACC
1 GACC
12004847 ATTAGGGGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (30 bp):
GACCTTTATATTTATAGATAAATAATGAGA
Found at i:12012254 original size:541 final size:542
Alignment explanation
Indices: 12009739--12012997 Score: 6493
Period size: 542 Copynumber: 6.0 Consensus size: 542
12009729 GATGGTAGGC
*
12009739 TAGTAATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
1 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
12009804 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
66 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
12009869 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
131 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
12009934 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
196 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
12009999 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
261 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
12010064 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
326 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
12010129 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
391 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
12010194 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
456 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
12010259 ACTAGTTGAAAGTTACTATTCA
521 ACTAGTTGAAAGTTACTATTCA
12010281 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
1 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
12010346 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
66 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
12010411 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
131 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
12010476 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
196 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
12010541 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
261 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
12010606 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
326 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
12010671 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
391 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
12010736 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
456 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
12010801 ACTAGTTGAAAGTTACTATTCA
521 ACTAGTTGAAAGTTACTATTCA
12010823 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
1 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
12010888 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
66 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
12010953 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
131 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
12011018 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
196 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
12011083 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
261 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
12011148 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
326 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
12011213 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
391 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
12011278 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
456 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
12011343 ACTAGTTGAAAGTTACTATTCA
521 ACTAGTTGAAAGTTACTATTCA
12011365 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
1 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
12011430 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
66 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
12011495 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
131 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
12011560 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
196 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
12011625 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
261 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
12011690 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
326 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
12011755 AATTTTTTGACTTTGATA-TTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
391 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
12011819 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
456 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
12011884 ACTAGTTGAAAGTTACTATTCA
521 ACTAGTTGAAAGTTACTATTCA
12011906 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
1 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
12011971 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
66 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
12012036 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
131 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
12012101 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
196 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
12012166 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
261 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
12012231 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
326 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
12012296 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
391 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
*
12012361 CTTTATCTGGATATTTTCAAATTTCATCCTCTCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
456 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
12012426 ACTAGTTGAAAGTTACTATTCA
521 ACTAGTTGAAAGTTACTATTCA
12012448 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
1 TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
12012513 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
66 TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
12012578 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
131 GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
12012643 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
196 TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
12012708 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
261 AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
12012773 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
326 CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
12012838 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
391 AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
12012903 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
456 CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
12012968 ACTAGTTGAAAGTTACTATTCA
521 ACTAGTTGAAAGTTACTATTCA
12012990 TAGTTATA
1 TAGTTATA
12012998 TGTTGAACAT
Statistics
Matches: 2713, Mismatches: 3, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
541 541 0.20
542 2172 0.80
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (542 bp):
TAGTTATAGTCTTACCTAAGCACTTTGTAGGCTAATGGTCAAAGTTTGAGATAGTTTTCACATAT
TATTTCATGGATTTTTCACAAGACATAGTCTACCTTTTCCTCATTAATGCATCTTAGATAAGGTA
GACTAAAAGACCTTACGTATAGTTTCTCTTTAATTATTGTGTACCGAGAAGCTTTCCTTTAATGC
TTTAGCTCAGATCCTATCTTCGAATAGTGTTTTTATGGTCAGAAATATCTTGATCGATGTTATCT
AGATTTTTTTCTGTGATTTATCCTATAAACATGTTCTCGATGCTTATGTATCTTAGCTTTTCTAC
CAAGACTTAGTCTAAACTTTTTGTTGTTGTTCTTGAAACTAACTTAGATAAGGGGTTTGTCACTG
AATTTTTTGACTTTGATATTTTTTTTTTACCTCAGCCTTCTTGAAATTAGCCACCAAAGCTAATG
CTTTATCTGGATATTTTCAAATTTCATCCTCCCAAGCTCCGAACTCTTTATTTATTTAGTCAAAC
ACTAGTTGAAAGTTACTATTCA
Found at i:12016988 original size:573 final size:568
Alignment explanation
Indices: 12015897--12017048 Score: 1718
Period size: 573 Copynumber: 2.0 Consensus size: 568
12015887 GGGGTTTGTT
* *
12015897 TATTTGGATTTTTGAGTTGTCATATGTGTCGAGTTATGGTTAGGGTAATGGTGAACTAGGATGTT
1 TATTTGGATTTTTGAGTTGTCATATGTATCGAGTTATGGTTAGGGTAATGGTGAACTAGGATGCT
*
12015962 ATGCTCTTCTCTAGAGGTTGAAAAGGCTCTTTATAGCTTGGTTATCTTATCATAATTCCTCGGCC
66 ATGCTCTTCTCTAGAGGTTGAAAAGGCTCTTTATAGCTTGGTTATCTTATCATAACTCCTCGGCC
* *
12016027 ATGGGTGATTAAGTAGGGCACTTTCGAAGCTTGTTGTAGGGTTATGATCTATAATATCTGTTTAA
131 ATGAGTGATTAAGTAGGGCACTTTCGAAG--TGTTGT---GTTATGATCTACAATATCTGTTTAA
* *
12016092 GGGTCTAAATTTGCTTGGTCAAGGCCTGAAATTATTTCATGGTCGAGCTTGTCTGTGGTAGGAGA
191 GGGTCTAAATTTGCTCGGTCAAGGCCTGAAATTATTTCATGGTCGAGCTTGTCTGTGGTAGGAAA
*
12016157 GGTCATTATAAGTGTTGACTATTATGTATTTTTATTTCAGTTGGGATGGCCAGTCTCTCCTTCTT
256 GGTCATTATAAGTGTTGACTATTATGTATTTTTATTTCAGTTAGGATGGCCAGTCTCTCCTTCTT
* *
12016222 CTAAGGTTATCTTCTTTGGTGGCATTGTTTCGTGCTCGGCTAGTGGATAAAAAGGTTTCTTACCT
321 CTAAGGTTATCTTCTTTGGTGGCATTGTTTCGTGCTAGGCTAGTGGATAAAAAGGTTCCTTACCT
*
12016287 GGCAAACTAAATGTTTGTGTCGAGCTCCAATCTCAAAGTGTTCCTAGAAAGATAAAAGATAAAGA
386 GGCAAACTAAATGTTTGTGTCAAGCTCCAATCTCAAAGTGTTCCTAGAAAGATAAAAGATAAAGA
* * * * * * * *
12016352 CGGTTAAAGGTAAAGATAGGAAATGTTTCCTAAATTTGCCTTTGATGGGTAAGTCAGAATAAATA
451 CGGTTAAAGATAAAGACAGGAAATGTTTCCTAAACTTGCCTTCGACGGGTAAATAAAAATAAATA
* ** ** * *
12016417 AGGTCGAAAGGAGAGTAATAAGGATAAATATGGATAGATTGGACTTGCCTTAA
516 AGATAAAAAAAAAAGTAATAAGGATAAATAGGGATAGATTGGACTTGCCTTAA
*
12016470 TATTTGGATTTTTGGGTTGTCATATGTATCGAGTTATGGTTAGGGTAATGGTGAACTAGGATGCT
1 TATTTGGATTTTTGAGTTGTCATATGTATCGAGTTATGGTTAGGGTAATGGTGAACTAGGATGCT
*
12016535 ATGCTCTTCTCTAGAGGTTGAAGAGGCTTCCAACTCTTTATAGCTTGGTTATCTTATCATAACTC
66 ATGCTCTTCTCTAGAGGTTGAAAAGG-------CTCTTTATAGCTTGGTTATCTTATCATAACTC
* *
12016600 CTTGGCCATGAGTGATTAAGTAGGGCACTTTCGAAG-GTTGT-TTATGATCTACAATATTTGTTT
124 CTCGGCCATGAGTGATTAAGTAGGGCACTTTCGAAGTGTTGTGTTATGATCTACAATATCTGTTT
*
12016663 AAGGGTCTAAATTTGCTCGGTCAAGGCCTGAAATTATTTCATGGTCG-GACTTGTCTGTGGTTGG
189 AAGGGTCTAAATTTGCTCGGTCAAGGCCTGAAATTATTTCATGGTCGAG-CTTGTCTGTGGTAGG
* *
12016727 AAAGGTCATTATAAGTGTTGACTATTATGTATTTTTATTTTAGTTAGGATGGCCGGTCTCTCCTT
253 AAAGGTCATTATAAGTGTTGACTATTATGTATTTTTATTTCAGTTAGGATGGCCAGTCTCTCCTT
* * *
12016792 CTTCTAAGGTTATCTT-TCTTGGTGGCATTGTTTTGTGCTAGGCTAGTGGATAGAAATGTTCCTT
318 CTTCTAAGGTTATCTTCT-TTGGTGGCATTGTTTCGTGCTAGGCTAGTGGATAAAAAGGTTCCTT
* * *
12016856 ACCTGGCAAATTAGATGTTTGTGTCAAGCTCCAATCTCAAAGTGTTCCTAGAAAGATAGAAGATA
382 ACCTGGCAAACTAAATGTTTGTGTCAAGCTCCAATCTCAAAGTGTTCCTAGAAAGATAAAAGATA
* * * * *
12016921 AATACGGTTAAAGATAAAGACATGAAGTGTTTCCTGAGCTTGCCTTCGACGGGTAAATAAAAATA
447 AAGACGGTTAAAGATAAAGACAGGAAATGTTTCCTAAACTTGCCTTCGACGGGTAAATAAAAATA
* * **
12016986 AATGAGATAAAAAAAAAAGTAATAAGGATAAATAGGGATATATTGGACTTGTTTTAA
512 AATAAGATAAAAAAAAAAGTAATAAGGATAAATAGGGATAGATTGGACTTGCCTTAA
12017043 TATTTG
1 TATTTG
12017049 CTTAAATTTT
Statistics
Matches: 522, Mismatches: 48, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
572 2 0.00
573 450 0.86
577 5 0.01
580 65 0.12
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (568 bp):
TATTTGGATTTTTGAGTTGTCATATGTATCGAGTTATGGTTAGGGTAATGGTGAACTAGGATGCT
ATGCTCTTCTCTAGAGGTTGAAAAGGCTCTTTATAGCTTGGTTATCTTATCATAACTCCTCGGCC
ATGAGTGATTAAGTAGGGCACTTTCGAAGTGTTGTGTTATGATCTACAATATCTGTTTAAGGGTC
TAAATTTGCTCGGTCAAGGCCTGAAATTATTTCATGGTCGAGCTTGTCTGTGGTAGGAAAGGTCA
TTATAAGTGTTGACTATTATGTATTTTTATTTCAGTTAGGATGGCCAGTCTCTCCTTCTTCTAAG
GTTATCTTCTTTGGTGGCATTGTTTCGTGCTAGGCTAGTGGATAAAAAGGTTCCTTACCTGGCAA
ACTAAATGTTTGTGTCAAGCTCCAATCTCAAAGTGTTCCTAGAAAGATAAAAGATAAAGACGGTT
AAAGATAAAGACAGGAAATGTTTCCTAAACTTGCCTTCGACGGGTAAATAAAAATAAATAAGATA
AAAAAAAAAGTAATAAGGATAAATAGGGATAGATTGGACTTGCCTTAA
Found at i:12024398 original size:20 final size:20
Alignment explanation
Indices: 12024375--12024412 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12024365 GTCAGAACCC
12024375 AAAAATCCCAAAAAATTTCT
1 AAAAATCCCAAAAAATTTCT
* *
12024395 AAAATTCCTAAAAAATTT
1 AAAAATCCCAAAAAATTT
12024413 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATCCCAAAAAATTTCT
Found at i:12028503 original size:124 final size:124
Alignment explanation
Indices: 12028270--12028512 Score: 303
Period size: 124 Copynumber: 2.0 Consensus size: 124
12028260 AAAAAAAAAA
* * *
12028270 AGAACTAGGAACCAAAACGTCAAAGAAACACAAAAATTCCACCAAGTTCCCACAAATAGACATGA
1 AGAACTAGGAACCAAAACGTCAAAGAAACAAAAAAACTCCACCAAGTTCCCACAAATAAACATGA
* * **
12028335 AATAATATCATAAAAAAATTGAGTTTTCGCTTATATATATATATATATA-TATTATAAAG
66 AATAATAACACAAAAAAATTGAGTTTTAACTTATATATATATATAT-TACTATTATAAAG
* ** *
12028394 AGAACTAGGAACTAAATTGTCAAAGAAATAAAAAAACTCCACCAAGTTCCCACAAAATAAACATG
1 AGAACTAGGAACCAAAACGTCAAAGAAACAAAAAAACTCCACCAAGTTCCCAC-AAATAAACATG
* * * *
12028459 AAATAATAACACACAAAAATTGATTTTTAACTT-TCT-TTTGATATATTACTATTA
65 AAATAATAACACAAAAAAATTGAGTTTTAACTTATATATAT-ATATATTACTATTA
12028513 AAAATTTCAA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
123 4 0.04
124 60 0.59
125 37 0.37
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.27
Consensus pattern (124 bp):
AGAACTAGGAACCAAAACGTCAAAGAAACAAAAAAACTCCACCAAGTTCCCACAAATAAACATGA
AATAATAACACAAAAAAATTGAGTTTTAACTTATATATATATATATTACTATTATAAAG
Found at i:12036091 original size:15 final size:14
Alignment explanation
Indices: 12036062--12036115 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
12036052 CTAAATTAAG
*
12036062 ATATTAAAGAATAT
1 ATATTAAATAATAT
12036076 ATATTAATATAATAT
1 ATATTAA-ATAATAT
12036091 ATA--AATATAA-AT
1 ATATTAA-ATAATAT
*
12036103 ATAATAAATAATA
1 ATATTAAATAATA
12036116 AATAATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 5 0.14
13 11 0.31
14 10 0.29
15 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATTAAATAATAT
Found at i:12036094 original size:7 final size:7
Alignment explanation
Indices: 12036071--12036125 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
12036061 GATATTAAAG
12036071 AATATAT
1 AATATAT
*
12036078 ATTAATAT
1 AAT-ATAT
12036086 AATATAT
1 AATATAT
12036093 AA-ATAT
1 AATATAT
12036099 AA-ATAT
1 AATATAT
*
12036105 AATAAAT
1 AATATAT
*
12036112 AATAAAT
1 AATATAT
12036119 AATATAT
1 AATATAT
12036126 TTTTATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 12 0.29
7 24 0.57
8 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATATAT
Found at i:12036103 original size:19 final size:19
Alignment explanation
Indices: 12036071--12036113 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
12036061 GATATTAAAG
* *
12036071 AATATATATTAATATAATA
1 AATAAATATAAATATAATA
*
12036090 TATAAATATAAATATAATA
1 AATAAATATAAATATAATA
12036109 AATAA
1 AATAA
12036114 TAAATAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAAATATAAATATAATA
Found at i:12036122 original size:19 final size:18
Alignment explanation
Indices: 12036080--12036124 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
12036070 GAATATATAT
* *
12036080 TAATATAATATATAAATA
1 TAATATAATAAATAAAAA
12036098 TAAATATAATAAATAATAAA
1 T-AATATAATAAATAA-AAA
12036118 TAATATA
1 TAATATA
12036125 TTTTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATATAATAAATAAAAA
Found at i:12036536 original size:59 final size:60
Alignment explanation
Indices: 12036471--12036593 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 60
12036461 TATAATACCA
* *
12036471 AAACTTCATATTTAATTT-AAAAAAAAAAA-TTCAACTCAATTATCTCAAATTAAAAGTGT
1 AAACTTCAAACTTAATTTAAAAAAAAAAAACTT-AACTCAATTATCTCAAATTAAAAGTGT
12036530 AAACTTCAAACTTAATTTAAAAAAAAAAAAAAACTTAACTCAATTATCTCAAATTAAAAGTGT
1 AAACTTCAAACTTAATTT---AAAAAAAAAAAACTTAACTCAATTATCTCAAATTAAAAGTGT
12036593 A
1 A
12036594 GATACTTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
59 16 0.28
63 39 0.68
64 2 0.04
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (60 bp):
AAACTTCAAACTTAATTTAAAAAAAAAAAACTTAACTCAATTATCTCAAATTAAAAGTGT
Found at i:12036780 original size:19 final size:18
Alignment explanation
Indices: 12036756--12036791 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12036746 TATTATTATT
12036756 ATTTCAAATTTTAATTTTA
1 ATTTC-AATTTTAATTTTA
*
12036775 ATTTCAATTTTAGTTTT
1 ATTTCAATTTTAATTTT
12036792 GGTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTCAATTTTAATTTTA
Found at i:12038025 original size:20 final size:21
Alignment explanation
Indices: 12038000--12038076 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 21
12037990 TGGTTCAGAC
12038000 TTGATTTTTA-TTTCTATTTT
1 TTGATTTTTATTTTCTATTTT
12038020 TTGA-TTTTATTTTCTATTTT
1 TTGATTTTTATTTTCTATTTT
*
12038040 TT-ATTTTGT-TGTT-TA--TT
1 TTGATTTT-TATTTTCTATTTT
12038057 TT-A-TTTTATTTTCTATTTT
1 TTGATTTTTATTTTCTATTTT
12038076 T
1 T
12038077 ATTAATTGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 7 0.15
19 11 0.23
20 22 0.46
21 1 0.02
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.77
Consensus pattern (21 bp):
TTGATTTTTATTTTCTATTTT
Found at i:12038075 original size:7 final size:6
Alignment explanation
Indices: 12038003--12038079 Score: 54
Period size: 6 Copynumber: 12.5 Consensus size: 6
12037993 TTCAGACTTG
* *
12038003 ATTTTT ATTTCT ATTTTT -TGATTTT ATTTTCT ATTTTTT ATTTTGT -TGTTT
1 ATTTTT ATTTTT ATTTTT AT--TTTT ATTTT-T A-TTTTT ATTTT-T ATTTTT
12038054 A-TTTT A-TTTT ATTTTCT ATTTTT ATT
1 ATTTTT ATTTTT ATTTT-T ATTTTT ATT
12038080 AATTGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
5 11 0.19
6 27 0.47
7 15 0.26
8 5 0.09
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:12038314 original size:51 final size:51
Alignment explanation
Indices: 12038199--12038338 Score: 192
Period size: 51 Copynumber: 2.8 Consensus size: 51
12038189 TTGTGATACT
* * * *
12038199 TTTGCATGATTTATTATTACATTTTCGTATGAT-GTTTTTTATAATATTTA
1 TTTGCATGATTTATTACTATATTTTAGCATGATAGTTTTTTATAATATTTA
* * *
12038249 TTTGCATCATTTATTACTATATTTTAGCATGATATTTTTTTATGATATTTA
1 TTTGCATGATTTATTACTATATTTTAGCATGATAGTTTTTTATAATATTTA
* *
12038300 TTTGCATGAGTTATTACTATATTTTTGCATGATAGTTTT
1 TTTGCATGATTTATTACTATATTTTAGCATGATAGTTTT
12038339 GCATGAATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 28 0.36
51 50 0.64
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (51 bp):
TTTGCATGATTTATTACTATATTTTAGCATGATAGTTTTTTATAATATTTA
Found at i:12039041 original size:44 final size:45
Alignment explanation
Indices: 12038975--12039074 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
12038965 ATGTAATTAT
* *
12038975 TTATGATTTTTTATGTGCACTAATCTATTT-ATTTATTTTGTAGC
1 TTATGATTTTTTATATGCACTAATCTATTTGATTTATTTTGTAGA
* * * *
12039019 TTATGATTTTTTATATGTACTAATTTGTTTGTTTTATTTTGTAGA
1 TTATGATTTTTTATATGCACTAATCTATTTGATTTATTTTGTAGA
*
12039064 TTTTGATTTTT
1 TTATGATTTTT
12039075 GATGAGTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 26 0.54
45 22 0.46
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.62
Consensus pattern (45 bp):
TTATGATTTTTTATATGCACTAATCTATTTGATTTATTTTGTAGA
Found at i:12048828 original size:22 final size:22
Alignment explanation
Indices: 12048803--12048861 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
12048793 GAATATTTTG
*
12048803 ATGAGAATTTTTGAGAACTC-AA
1 ATGAGAATCTTTGAG-ACTCAAA
**
12048825 ATGAGAATCTTTGAGTTTCAAA
1 ATGAGAATCTTTGAGACTCAAA
12048847 ATGAGAATCTTTGAG
1 ATGAGAATCTTTGAG
12048862 TAGTGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (22 bp):
ATGAGAATCTTTGAGACTCAAA
Found at i:12049512 original size:42 final size:41
Alignment explanation
Indices: 12049431--12049760 Score: 290
Period size: 42 Copynumber: 8.0 Consensus size: 41
12049421 GTTAAAGAGT
* * *
12049431 AATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
*
12049472 AATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGG-TGCCTCTATTTAGAGGAGC
* * *
12049514 AATTTACTTTTCAAAAG-CTGAGGTGCCTCTGTTTAGAGGAGC
1 AATTTAC-TTTCCAAAGTC-GTGGTGCCTCTATTTAGAGGAGC
* *
12049556 AATTTACTTT-CAAAATTGTGGTGCCTCTATTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
* **** *
12049596 AATTTGCTTTCCAAAAGTTACAGTGCCTCTATTTAGAGGAGA
1 AATTTACTTTCC-AAAGTCGTGGTGCCTCTATTTAGAGGAGC
* * * * *
12049638 AATTTACTTTCAAAAGTTGCGGTGCCTCTATTTGGAAGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
* * * * * *
12049679 AATTGACTTT-CAAAGTTGTAGTGCCTTTGTTTAGAGGCGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
** * * * *
12049719 TTTGTTTA-TTTTCAAAATCGTTGAGCCTCTATTTAGAGGAGC
1 --AATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
12049761 TTTGTTTATT
Statistics
Matches: 237, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
40 55 0.23
41 61 0.26
42 110 0.46
43 11 0.05
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
AATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
Found at i:12049611 original size:82 final size:80
Alignment explanation
Indices: 12049451--12049760 Score: 320
Period size: 82 Copynumber: 3.8 Consensus size: 80
12049441 TCAAAGTCGT
* *
12049451 GGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAA
1 GGTGCCTCTGTTTAGAGGAGCAATTTACTTT-CAAAATCGTGG-TGCCTCTATTTAGAGGAGCAA
*
12049516 TTTACTTTTCAAAAGCTGA
64 TTTGC-TTTCAAAAG-TGA
*
12049535 GGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAATTGTGGTGCCTCTATTTAGAGGAGCAATT
1 GGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAATCGTGGTGCCTCTATTTAGAGGAGCAATT
*
12049600 TGCTTTCCAAAAGTTA
66 TGCTTT-CAAAAGTGA
* * * * * * *
12049616 CAGTGCCTCTATTTAGAGGAGAAATTTACTTTCAAAAGTTGCGGTGCCTCTATTTGGAAGAGCAA
1 -GGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAA-TCGTGGTGCCTCTATTTAGAGGAGCAA
12049681 -TTGACTTTC-AAAGTTGTA
64 TTTG-CTTTCAAAAG-TG-A
* * ** * * *
12049699 -GTGCCTTTGTTTAGAGGCGCTTTGTTTATTTTCAAAATCGTTGAGCCTCTATTTAGAGGAGC
1 GGTGCCTCTGTTTAGAGGAGC--AATTTACTTTCAAAATCGTGGTGCCTCTATTTAGAGGAGC
12049761 TTTGTTTATT
Statistics
Matches: 193, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
81 25 0.13
82 88 0.46
83 50 0.26
84 30 0.16
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (80 bp):
GGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAATCGTGGTGCCTCTATTTAGAGGAGCAATT
TGCTTTCAAAAGTGA
Found at i:12049795 original size:43 final size:42
Alignment explanation
Indices: 12049701--12049814 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
12049691 AAGTTGTAGT
* * *
12049701 GCCTTTGTTTAGAGGCGCTTTGTTTATTTTCAAAATCGTTGA
1 GCCTTTATTTAGAGGAGCTTTGTTTATTTTCAAAATCATTGA
*
12049743 GCCTCTATTTAGAGGAGCTTTGTTTATTTTCAAAAATCATTGA
1 GCCTTTATTTAGAGGAGCTTTGTTTATTTTC-AAAATCATTGA
*
12049786 GCCTTTATTTAGAGAAGCTTTG-TTATTTT
1 GCCTTTATTTAGAGGAGCTTTGTTTATTTT
12049815 TTTTTTCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 35 0.54
43 30 0.46
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (42 bp):
GCCTTTATTTAGAGGAGCTTTGTTTATTTTCAAAATCATTGA
Found at i:12049967 original size:9 final size:8
Alignment explanation
Indices: 12049952--12049992 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
12049942 CTTTGACAAT
*
12049952 TAAAAAAT
1 TAAAAAAA
12049960 TAAAAAAA
1 TAAAAAAA
12049968 TAATAAAAA
1 TAA-AAAAA
12049977 TAAAAAAA
1 TAAAAAAA
*
12049985 CAAAAAAA
1 TAAAAAAA
12049993 GGTGTTTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:12050744 original size:17 final size:17
Alignment explanation
Indices: 12050718--12050762 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
12050708 TTCAAACCAA
*
12050718 AAAAAT-TAAAAAA-TT
1 AAAAATATAAAAAACAT
12050733 AAAAATAATAAAAAACAT
1 AAAAAT-ATAAAAAACAT
12050751 AAAAATATAAAA
1 AAAAATATAAAA
12050763 TTTTTGGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 13 0.50
18 7 0.27
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATATAAAAAACAT
Found at i:12054237 original size:27 final size:28
Alignment explanation
Indices: 12054190--12054246 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
12054180 ATCGAAAGTG
* * *
12054190 AAAGAGGAAATATGAAGAAAAGATAGAA
1 AAAGAGGAAATAAGAAGAAAAAAAAGAA
12054218 AAAGA-GAAATGAAGAA-AAAAAAAAGAA
1 AAAGAGGAAAT-AAGAAGAAAAAAAAGAA
12054245 AA
1 AA
12054247 CTAATGAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (28 bp):
AAAGAGGAAATAAGAAGAAAAAAAAGAA
Found at i:12056207 original size:42 final size:42
Alignment explanation
Indices: 12055962--12056241 Score: 217
Period size: 42 Copynumber: 6.6 Consensus size: 42
12055952 ATCAAAAAAA
* * ** **
12055962 CATTTAAAATTTTTAAAGTTTTAAAACCACTGACGA-GATAAG
1 CATTTTAAATTTTTAAAGTTTCAAAACCTTTGGTGATGA-AAG
* * * * * *
12056004 CATTTTAAATTTATAAAGTTTCAAAACCTCTGATAACGGAAG
1 CATTTTAAATTTTTAAAGTTTCAAAACCTTTGGTGATGAAAG
* * * * *
12056046 CATTTTAAATTTTTAAAGTTTTAAAATCTTTAGTAACTG-GAG
1 CATTTTAAATTTTTAAAGTTTCAAAACCTTTGGTGA-TGAAAG
* **
12056088 CATTTTAAATTTTTAAAATTTCAAAACCTTCAGTGAAT-AAAG
1 CATTTTAAATTTTTAAAGTTTCAAAACCTTTGGTG-ATGAAAG
* ** *
12056130 CATTTTAAAACTTTTAAAGTTTCAAAACCAGTGGTGATGAAAA
1 CATTTT-AAATTTTTAAAGTTTCAAAACCTTTGGTGATGAAAG
* * *
12056173 CATTTTAAACTTTCAAAGTTTCAAAACCTTTGGTGA-GAGGGAG
1 CATTTTAAATTTTTAAAGTTTCAAAACCTTTGGTGATGA--AAG
*
12056216 CATTTTAAAATTTTCAAAGTTTCAAA
1 CATTTT-AAATTTTTAAAGTTTCAAA
12056242 GCGAGACGCT
Statistics
Matches: 195, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
41 2 0.01
42 133 0.68
43 42 0.22
44 18 0.09
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (42 bp):
CATTTTAAATTTTTAAAGTTTCAAAACCTTTGGTGATGAAAG
Found at i:12056556 original size:19 final size:19
Alignment explanation
Indices: 12056515--12056555 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
12056505 CTATTTTCCA
12056515 TTTTATTTCAATTTTTAGT
1 TTTTATTTCAATTTTTAGT
*
12056534 TTTTATTTTAA-TTTTAGT
1 TTTTATTTCAATTTTTAGT
12056552 TTTT
1 TTTT
12056556 TTATGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTATTTCAATTTTTAGT
Found at i:12056558 original size:20 final size:20
Alignment explanation
Indices: 12056515--12056574 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
12056505 CTATTTTCCA
*
12056515 TTTTATTTCAATTTTTAG--T
1 TTTTATTTTAA-TTTTAGTTT
12056534 TTTTATTTTAATTTTAGTTT
1 TTTTATTTTAATTTTAGTTT
* * *
12056554 TTTTATGTTATTTTTGGTTT
1 TTTTATTTTAATTTTAGTTT
12056574 T
1 T
12056575 GTTAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.17
19 10 0.29
20 19 0.54
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTTATTTTAATTTTAGTTT
Done.