Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 16 of 45
Found at i:2987012 original size:17 final size:19
Alignment explanation
Indices: 2986984--2987022 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
2986974 TTTAATATTG
2986984 TAAAAATAAAATTTT-AAT
1 TAAAAATAAAATTTTAAAT
2987002 TAAAAAT-AAATTTTAAAT
1 TAAAAATAAAATTTTAAAT
2987020 TAA
1 TAA
2987023 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATAAAATTTTAAAT
Found at i:2987060 original size:21 final size:22
Alignment explanation
Indices: 2987019--2987061 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2987009 AAATTTTAAA
*
2987019 TTAATTTAAATAATTATAATTT
1 TTAATTTAAATAATTAAAATTT
*
2987041 TTAATTTATA-AATTAAAATTT
1 TTAATTTAAATAATTAAAATTT
2987062 AAATAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTTAAATAATTAAAATTT
Found at i:2987098 original size:28 final size:27
Alignment explanation
Indices: 2987047--2987111 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
2987037 ATTTTTAATT
* *
2987047 TATAAATTAAAATTTAAATAAATAGAA
1 TATAAATTAAAATTGAAATAAATAAAA
* *
2987074 TATAACATTAAAATTGAATTCAATAAAA
1 TATAA-ATTAAAATTGAAATAAATAAAA
2987102 T-TAAATTAAA
1 TATAAATTAAA
2987112 TATTACTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.18
27 8 0.24
28 19 0.58
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
TATAAATTAAAATTGAAATAAATAAAA
Found at i:2992113 original size:23 final size:23
Alignment explanation
Indices: 2992087--2992130 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2992077 ATTAATCAAT
*
2992087 ATAA-TTAATTGAATGAAAAATTA
1 ATAACTTAATTG-ATAAAAAATTA
*
2992110 ATAACTTATTTGATAAAAAAT
1 ATAACTTAATTGATAAAAAAT
2992131 ATATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAACTTAATTGATAAAAAATTA
Found at i:2994708 original size:2 final size:2
Alignment explanation
Indices: 2994701--2994751 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2994691 TTTCAAAAAG
2994701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2994743 AT AT AT AT A
1 AT AT AT AT A
2994752 CAAGCAGCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2995251 original size:15 final size:16
Alignment explanation
Indices: 2995233--2995270 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2995223 TTTTAATAAA
2995233 AATAAATTTATA-ATT
1 AATAAATTTATATATT
*
2995248 AATATATTTATATTATT
1 AATAAATTTATA-TATT
2995265 AATAAA
1 AATAAA
2995271 ATAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAATTTATATATT
Found at i:2998754 original size:24 final size:25
Alignment explanation
Indices: 2998727--2998781 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
2998717 TATATATTTT
2998727 TTTATTAAT-ATATATTTTTATAAG
1 TTTATTAATGATATATTTTTATAAG
* *
2998751 TTTATT-TTGATATATTTTTTTAAG
1 TTTATTAATGATATATTTTTATAAG
2998775 TTTATTA
1 TTTATTA
2998782 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTATTAATGATATATTTTTATAAG
Found at i:2998795 original size:16 final size:17
Alignment explanation
Indices: 2998761--2998800 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
2998751 TTTATTTTGA
2998761 TATATTTTTTTAAGTTTAT
1 TATA-TTTTTTAAG-TTAT
2998780 TATATTTTTTAA-TTAT
1 TATATTTTTTAAGTTAT
2998796 TATAT
1 TATAT
2998801 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTTTTTAAGTTAT
Found at i:2998801 original size:18 final size:18
Alignment explanation
Indices: 2998717--2998802 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 18
2998707 TACCAATGAA
* *
2998717 TATATATTTTTTTATTAA
1 TATATATTTTTTAATTAT
2998735 TATATATTTTTATAAGTTTATTT
1 TATATATTTTT-TAA--TTA--T
*
2998758 TGATATATTTTTTTAAGT-T
1 T-ATATA-TTTTTTAATTAT
2998777 TATTATATTTTTTAATTAT
1 TA-TATATTTTTTAATTAT
2998796 TATATAT
1 TATATAT
2998803 ATATATATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
18 26 0.47
19 11 0.20
21 3 0.05
22 1 0.02
23 1 0.02
24 8 0.15
25 5 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TATATATTTTTTAATTAT
Found at i:3001741 original size:142 final size:141
Alignment explanation
Indices: 3001465--3001745 Score: 366
Period size: 142 Copynumber: 2.0 Consensus size: 141
3001455 TGAACAATTT
* ** *
3001465 GAGGTCATTACAATCTACATAACAGATTCTACTGTATTTGCTTTATAGAGCTAGGTATTTGTATC
1 GAGGTCATTACAATCTACATAACAGATTCTACTGGAACTGCTTTATAGAGCTAGGAATTTGTATC
* * * * *
3001530 GCTAGGCCAACAAACTTCACTTGTGGTCTTCTTTGGTGAGAGTGCCTTGCATAGTTAAATGTTAA
66 GCTAGACCAACAAAATTCACTTATGGTCTTCTTTGGTGAGAATGCCTTACATAGTTAAATGTT-A
3001595 ATATATAGATTA
130 ATATATAGATTA
* * * *
3001607 GAGGTTATTACAATCTACATAACAGATTTTACTGGAACTGCTTTGTGGAGCTAGGAATTTGTATC
1 GAGGTCATTACAATCTACATAACAGATTCTACTGGAACTGCTTTATAGAGCTAGGAATTTGTATC
* * *
3001672 AG-TAGACCAACAAAATTGACTTATGGTTTTCTTTTGGTGAGAATGCCTTACATAGTTTACATGT
66 -GCTAGACCAACAAAATTCACTTATGGTCTTC-TTTGGTGAGAATGCCTTACATAG-TTAAATGT
3001736 TATATATATA
128 TA-ATATATA
3001746 TATATATATA
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
142 81 0.68
143 23 0.19
144 15 0.13
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (141 bp):
GAGGTCATTACAATCTACATAACAGATTCTACTGGAACTGCTTTATAGAGCTAGGAATTTGTATC
GCTAGACCAACAAAATTCACTTATGGTCTTCTTTGGTGAGAATGCCTTACATAGTTAAATGTTAA
TATATAGATTA
Found at i:3001743 original size:2 final size:2
Alignment explanation
Indices: 3001736--3001786 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3001726 GTTTACATGT
3001736 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
3001778 TA TA TA TA T
1 TA TA TA TA T
3001787 TAGACGGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3007126 original size:46 final size:46
Alignment explanation
Indices: 3007059--3007151 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
3007049 AAGAAATAAC
*
3007059 GTGGCAGGGATGTATTATACCTTTCATGTTAATGGGATGAAAGTTT
1 GTGGCAGGGATGTATTATACCTTTCATGTTAATGGGAAGAAAGTTT
*
3007105 GTGGCAGGGATGTATTATACCTTTCATGTTAATGTGAAGAAAGTTT
1 GTGGCAGGGATGTATTATACCTTTCATGTTAATGGGAAGAAAGTTT
3007151 G
1 G
3007152 CTTTATAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.37
Consensus pattern (46 bp):
GTGGCAGGGATGTATTATACCTTTCATGTTAATGGGAAGAAAGTTT
Found at i:3008211 original size:6 final size:6
Alignment explanation
Indices: 3008200--3008224 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3008190 AGATTACACC
3008200 ATATTT ATATTT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT A
3008225 CGCTATGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:3016143 original size:25 final size:25
Alignment explanation
Indices: 3016079--3016143 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
3016069 CTTATTAAAA
* *
3016079 ATTAAAAATATAAATAATTTTATTT
1 ATTAAAAATATATATAATTTAATTT
*
3016104 -TTAATAAAGT-GATATAATTTAATTT
1 ATTAA-AAA-TATATATAATTTAATTT
3016129 ATTAAAAATATATAT
1 ATTAAAAATATATAT
3016144 TTATCAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 5 0.16
25 22 0.69
26 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (25 bp):
ATTAAAAATATATATAATTTAATTT
Found at i:3016236 original size:18 final size:17
Alignment explanation
Indices: 3016213--3016254 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
3016203 TATAAACTTT
3016213 TATATTTATATGAATTTA
1 TATATTTATATGAA-TTA
* *
3016231 TATATTAATATTAATTA
1 TATATTTATATGAATTA
3016248 TATATTT
1 TATATTT
3016255 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATTTATATGAATTA
Found at i:3017040 original size:19 final size:19
Alignment explanation
Indices: 3016972--3017040 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 19
3016962 TAATATGCAG
* *
3016972 TAATTTATATTATGAATTAT
1 TAATTT-TATTATAAATTTT
* * *
3016992 TAAATTTAATATTAATTTT
1 TAATTTTATTATAAATTTT
**
3017011 T-ATATAAATTATAAATTTT
1 TAAT-TTTATTATAAATTTT
3017030 TAATTTTATTA
1 TAATTTTATTA
3017041 AATTATATTA
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
18 1 0.03
19 28 0.78
20 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
TAATTTTATTATAAATTTT
Found at i:3017046 original size:24 final size:24
Alignment explanation
Indices: 3016988--3017073 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 24
3016978 ATATTATGAA
3016988 TTATTAAATT-T-AATATTAATTT
1 TTATTAAATTATAAATATTAATTT
*
3017010 TTATATAAATTATAAATTTTTAA-TT
1 TTAT-TAAATTATAAA-TATTAATTT
* *
3017035 TTATTAAATTAT-ATTATTAAAATT
1 TTATTAAATTATAAATATT-AATTT
*
3017059 TTATT-AATAATAAAT
1 TTATTAAATTATAAAT
3017074 TAAATTATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
22 7 0.13
23 14 0.27
24 18 0.35
25 8 0.15
26 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTAAATTATAAATATTAATTT
Found at i:3017081 original size:19 final size:19
Alignment explanation
Indices: 3017059--3017110 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
3017049 TATTAAAATT
3017059 TTATTAATAATAAATTAAA
1 TTATTAATAATAAATTAAA
*
3017078 TTATTTAA-AATTAA-T-AA
1 TTA-TTAATAATAAATTAAA
3017095 TT-TTAATAA-AAATTAA
1 TTATTAATAATAAATTAA
3017111 TTTAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
15 6 0.22
16 3 0.11
17 5 0.19
18 1 0.04
19 8 0.30
20 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATTAATAATAAATTAAA
Found at i:3017672 original size:17 final size:17
Alignment explanation
Indices: 3017650--3017701 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
3017640 AAATTTAAGA
3017650 ATTTATAT-TTGTATTAT
1 ATTTATATATT-TATTAT
3017667 ATTTATATATTTATTAT
1 ATTTATATATTTATTAT
3017684 ATTATAATTATATTTATT
1 ATT-T-A-TATATTTATT
3017702 TTTTTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.55
18 3 0.10
19 1 0.03
20 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTATATATTTATTAT
Found at i:3017697 original size:20 final size:20
Alignment explanation
Indices: 3017661--3017816 Score: 62
Period size: 20 Copynumber: 7.8 Consensus size: 20
3017651 TTTATATTTG
3017661 TATTATATT-T-A-TATATT
1 TATTATATTATAATTATATT
3017678 TATTATATTATAATTATATT
1 TATTATATTATAATTATATT
* *
3017698 TATT-TTTTTTAAGTTAATAGTT
1 TATTATATTATAA-TT-ATA-TT
* **
3017720 T-TTAT-TTA-AATTTTAAAG
1 TATTATATTATAATTAT-ATT
*
3017738 TATT-TATATATATTTATATT
1 TATTATAT-TATAATTATATT
* *
3017758 ATATTAATATTAT-TTTTTATAT
1 -TATT-ATATTATAATTATAT-T
* *
3017780 TATTAAATTATAATAATA-T
1 TATTATATTATAATTATATT
*
3017799 TATTATTATTATTATTAT
1 TATTA-TATTATAATTAT
3017817 TTTGTCTAGT
Statistics
Matches: 103, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
17 9 0.09
18 4 0.04
19 19 0.18
20 32 0.31
21 28 0.27
22 8 0.08
23 3 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATATTATAATTATATT
Found at i:3017783 original size:3 final size:3
Alignment explanation
Indices: 3017754--3017817 Score: 50
Period size: 3 Copynumber: 23.3 Consensus size: 3
3017744 TATATATTTA
* * * *
3017754 TAT TA- TAT TAA TAT TAT T-T T-T TA- TAT TAT TA- AAT TA- TAA TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3017796 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
3017818 TTGTCTAGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
2 11 0.22
3 40 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3017790 original size:31 final size:32
Alignment explanation
Indices: 3017740--3017817 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 32
3017730 TTTTAAAGTA
* *
3017740 TTTATATATATTTATATTATATTAATATTATT-T
1 TTTATAT-TA-TTAAATTATAATAATATTATTAT
3017773 TTTATATTATTAAATTATAATAATATTATTAT
1 TTTATATTATTAAATTATAATAATATTATTAT
3017805 TATTATTATTATT
1 T-TTA-TATTATT
3017818 TTGTCTAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 19 0.47
32 4 0.10
33 10 0.25
34 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTATATTATTAAATTATAATAATATTATTAT
Found at i:3019411 original size:2 final size:2
Alignment explanation
Indices: 3019406--3019444 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3019396 AAAAAAAGGA
3019406 AG AG AG AG AG AG AG AG 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 AG AG AG A
3019445 ATTATGGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3024106 original size:76 final size:76
Alignment explanation
Indices: 3024010--3024157 Score: 260
Period size: 76 Copynumber: 1.9 Consensus size: 76
3024000 AACCAGTATT
* * * *
3024010 AATAAATATAATTTAAAATTGTTAATATGTTTAATCTAATGGTTACTTAAGTTATCTTATATAAG
1 AATAAATACAATTCAAAATTGTTAACATGTTTAATCTAATGGTTACCTAAGTTATCTTATATAAG
3024075 ATGACATGTTA
66 ATGACATGTTA
3024086 AATAAATACAATTCAAAATTGTTAACATGTTTAATCTAATGGTTACCTAAGTTATCTTATATAAG
1 AATAAATACAATTCAAAATTGTTAACATGTTTAATCTAATGGTTACCTAAGTTATCTTATATAAG
3024151 ATGACAT
66 ATGACAT
3024158 TGAGAAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (76 bp):
AATAAATACAATTCAAAATTGTTAACATGTTTAATCTAATGGTTACCTAAGTTATCTTATATAAG
ATGACATGTTA
Found at i:3024684 original size:13 final size:14
Alignment explanation
Indices: 3024666--3024698 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3024656 TTTTATTAAT
3024666 TATAAATAATA-AA
1 TATAAATAATATAA
3024679 TATAAATAATATAA
1 TATAAATAATATAA
3024693 -ATAAAT
1 TATAAAT
3024699 TATACGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TATAAATAATATAA
Found at i:3025240 original size:34 final size:35
Alignment explanation
Indices: 3025178--3025249 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
3025168 ATTGCATTTT
* *
3025178 TTTTCTCTTTATTTCATTTAAGTTAATTATAAATA
1 TTTTCTCTTTATTTCATTTAAATAAATTATAAATA
* * *
3025213 TTTTCTTTTTA-TTCTTTTAAATAAATTATTAATA
1 TTTTCTCTTTATTTCATTTAAATAAATTATAAATA
3025247 TTT
1 TTT
3025250 AATCTATACA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 22 0.69
35 10 0.31
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (35 bp):
TTTTCTCTTTATTTCATTTAAATAAATTATAAATA
Found at i:3025343 original size:16 final size:17
Alignment explanation
Indices: 3025322--3025355 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3025312 TATTAATTTT
3025322 ATTTTT-TTTAAAAATA
1 ATTTTTATTTAAAAATA
*
3025338 ATTTTTATTTAAATATA
1 ATTTTTATTTAAAAATA
3025355 A
1 A
3025356 ATTAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTATTTAAAAATA
Found at i:3025856 original size:2 final size:2
Alignment explanation
Indices: 3025849--3025881 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3025839 CTTTCTTGAT
3025849 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3025882 TCACCATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3032866 original size:15 final size:15
Alignment explanation
Indices: 3032843--3032873 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3032833 TCTAGGGTTT
3032843 GTTTGTTTCCTGGAA
1 GTTTGTTTCCTGGAA
*
3032858 GTTTTTTTCCTGGAA
1 GTTTGTTTCCTGGAA
3032873 G
1 G
3032874 ATCTGGAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (15 bp):
GTTTGTTTCCTGGAA
Found at i:3034690 original size:2 final size:2
Alignment explanation
Indices: 3034683--3034722 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
3034673 ATTAAGATTC
*
3034683 TA TA TA TA TA CA 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
3034723 AATACTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3038566 original size:2 final size:2
Alignment explanation
Indices: 3038559--3038600 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3038549 TTATCATGTG
*
3038559 TA TA TA TA CA 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
3038601 ATTTAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3043244 original size:13 final size:13
Alignment explanation
Indices: 3043226--3043252 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3043216 TTTTTTTTTT
3043226 GCTTGTTATATAA
1 GCTTGTTATATAA
3043239 GCTTGTTATATAA
1 GCTTGTTATATAA
3043252 G
1 G
3043253 TTATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (13 bp):
GCTTGTTATATAA
Found at i:3044288 original size:2 final size:2
Alignment explanation
Indices: 3044281--3044313 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3044271 CCTAATTCTT
3044281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3044314 TCTGTTGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3049625 original size:33 final size:33
Alignment explanation
Indices: 3049564--3049629 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3049554 TGGCAGAAGA
*
3049564 ACAGGAACCACTTTCAGTAATAATGAAAAACTG
1 ACAGGAACCACTTTCAGTAATAAGGAAAAACTG
* * *
3049597 ACAGGAACCACTTTCATTAGTAGGGAAAAACTG
1 ACAGGAACCACTTTCAGTAATAAGGAAAAACTG
3049630 GTTTCAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (33 bp):
ACAGGAACCACTTTCAGTAATAAGGAAAAACTG
Found at i:3051176 original size:18 final size:19
Alignment explanation
Indices: 3051149--3051191 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
3051139 TTAGAAGCTC
*
3051149 AAAATATAAATTTGAGTAA
1 AAAATATAAACTTGAGTAA
**
3051168 AAAAT-TAAACTTGTTTAA
1 AAAATATAAACTTGAGTAA
3051186 AAAATA
1 AAAATA
3051192 GGTTAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAATATAAACTTGAGTAA
Found at i:3051384 original size:23 final size:24
Alignment explanation
Indices: 3051339--3051402 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
3051329 AAGTTATTTA
*
3051339 AAATTTAAAAT-TTAATAAAAAAT
1 AAATTTAAAATATTTATAAAAAAT
* *
3051362 -TATTTAAAATATTTTTAAAAAAT
1 AAATTTAAAATATTTATAAAAAAT
*
3051385 AAATTAAAAATATTTATA
1 AAATTTAAAATATTTATA
3051403 TTTAATGCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 9 0.27
23 10 0.30
24 14 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATTTAAAATATTTATAAAAAAT
Found at i:3052187 original size:23 final size:23
Alignment explanation
Indices: 3052159--3052203 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3052149 AAATTGATAA
3052159 TTATTAAA-ATTTATATTTTAAAT
1 TTATTAAATA-TTATATTTTAAAT
*
3052182 TTATTAAATATTATTTTTTAAA
1 TTATTAAATATTATATTTTAAA
3052204 AATAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATTAAATATTATATTTTAAAT
Found at i:3052947 original size:15 final size:15
Alignment explanation
Indices: 3052927--3052961 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3052917 TCCTAGGCAA
*
3052927 AAATAAATAAATAAT
1 AAATAAAAAAATAAT
*
3052942 AAATAAAAAAATTAT
1 AAATAAAAAAATAAT
3052957 AAATA
1 AAATA
3052962 CAGTACATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAAAAATAAT
Found at i:3053226 original size:16 final size:17
Alignment explanation
Indices: 3053205--3053237 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3053195 ATTTATATTC
3053205 AAACA-TAAAAAAAATT
1 AAACATTAAAAAAAATT
*
3053221 AAACATTAAATAAAATT
1 AAACATTAAAAAAAATT
3053238 TAATGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAACATTAAAAAAAATT
Found at i:3054762 original size:19 final size:20
Alignment explanation
Indices: 3054722--3054763 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3054712 ATAAAATTTT
3054722 AAAATTACCTATTTCTTAAA
1 AAAATTACCTATTTCTTAAA
3054742 AAAATTA-CTAATTTCTTAAA
1 AAAATTACCT-ATTTCTTAAA
3054762 AA
1 AA
3054764 CTATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTACCTATTTCTTAAA
Found at i:3055568 original size:150 final size:148
Alignment explanation
Indices: 3055352--3055649 Score: 456
Period size: 150 Copynumber: 2.0 Consensus size: 148
3055342 GATGATATGG
* * *
3055352 ATGGTGGTGACTTTGACACATCCATGAACATACATAACGTGATAAATAGATGGGCATTCATTGAA
1 ATGGTGGTGACATTGACACATCCATGAACATACATAACCTGATAAATAGATGGGCATTCATAGAA
*
3055417 AT-AAGGAGCAAGC-GAGGACTTCAGAATTTTTGGAAGATACGTACACATTAAATAAATTTTGTC
66 ATGAA-GAGCAA-CTGAAGACTTCAGAATTTTTGGAAGATACGTACACATTAAATAAATTTTGTC
3055480 CGCTTTGAATATTATATTAT
129 CGCTTTGAATATTATATTAT
* * * *
3055500 ATGGTGGTGGCATTGACACATATGCATGAACATACATAACCTGGTATATAGATGGGCATTCATAG
1 ATGGTGGTGACATTGACAC--ATCCATGAACATACATAACCTGATAAATAGATGGGCATTCATAG
* *
3055565 AAATGCAGAGCAACTGAAGACTTTAGAATTTTTGGAAGATACGTACACATTAAATAAATTTTGTC
64 AAATGAAGAGCAACTGAAGACTTCAGAATTTTTGGAAGATACGTACACATTAAATAAATTTTGTC
3055630 CGCTTTGAATATTATATTAT
129 CGCTTTGAATATTATATTAT
3055650 TAACATCAGA
Statistics
Matches: 136, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
148 17 0.12
149 1 0.01
150 117 0.86
151 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (148 bp):
ATGGTGGTGACATTGACACATCCATGAACATACATAACCTGATAAATAGATGGGCATTCATAGAA
ATGAAGAGCAACTGAAGACTTCAGAATTTTTGGAAGATACGTACACATTAAATAAATTTTGTCCG
CTTTGAATATTATATTAT
Found at i:3055814 original size:22 final size:22
Alignment explanation
Indices: 3055755--3055814 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
3055745 TTTAAAATAT
*
3055755 AATTATATAATATGATATTATAAA
1 AATTAT-TAATAT-ATATAATAAA
* *
3055779 TATT-TTAAAAATATATAATAAA
1 AATTATT-AATATATATAATAAA
3055801 AATTATTAATATAT
1 AATTATTAATATAT
3055815 TTTATGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 19 0.66
23 7 0.24
24 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTATTAATATATATAATAAA
Found at i:3055892 original size:3 final size:3
Alignment explanation
Indices: 3055884--3055909 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3055874 AAAATATTTA
3055884 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
3055910 AGTTGAGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3066170 original size:21 final size:23
Alignment explanation
Indices: 3066149--3066211 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
3066139 AAGTTACTAA
3066149 TATTTT-TAT-ATGATATTTTAAT
1 TATTTTATATAAT-ATATTTTAAT
*
3066171 TATTTTATATAATATATTTTTAT
1 TATTTTATATAATATATTTTAAT
3066194 TATATAATTATATAATAT
1 TAT-T--TTATATAATAT
3066212 TTAAAATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 6 0.17
23 15 0.43
24 3 0.09
26 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTATATAATATATTTTAAT
Found at i:3066198 original size:13 final size:12
Alignment explanation
Indices: 3066148--3066213 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 12
3066138 TAAGTTACTA
3066148 ATATTTTTATAT
1 ATATTTTTATAT
3066160 GATA-TTTTA-AT
1 -ATATTTTTATAT
3066171 -TATTTTATATAAT
1 ATATTTT-TAT-AT
3066184 ATATTTTTAT-T
1 ATATTTTTATAT
**
3066195 ATATAATTATAT
1 ATATTTTTATAT
3066207 AATATTT
1 -ATATTT
3066214 AAAATTATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.05
10 3 0.07
11 13 0.31
12 6 0.14
13 12 0.29
14 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
ATATTTTTATAT
Found at i:3070178 original size:12 final size:12
Alignment explanation
Indices: 3070138--3070223 Score: 51
Period size: 12 Copynumber: 7.5 Consensus size: 12
3070128 TTCATTTATA
3070138 TTAAATTA-AAT
1 TTAAATTATAAT
* *
3070149 TTAGATAATAAT
1 TTAAATTATAAT
3070161 TT---TTATAAT
1 TTAAATTATAAT
*
3070170 TTAAATTATTAT
1 TTAAATTATAAT
*
3070182 TTAAATAATAAAAT
1 TTAAAT--TATAAT
*
3070196 TT-AATT-TTAT
1 TTAAATTATAAT
3070206 TTAAATT-TAAT
1 TTAAATTATAAT
3070217 TATAAAT
1 T-TAAAT
3070224 AAAAATATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
9 8 0.14
10 4 0.07
11 15 0.26
12 22 0.38
13 3 0.05
14 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
TTAAATTATAAT
Found at i:3070242 original size:18 final size:19
Alignment explanation
Indices: 3070221--3070259 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3070211 TTTAATTATA
*
3070221 AATAAAAATA-TTATTTTT
1 AATAAAAATACATATTTTT
*
3070239 AATAATAATACATATTTTT
1 AATAAAAATACATATTTTT
3070258 AA
1 AA
3070260 ATTAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAAAAATACATATTTTT
Found at i:3070680 original size:2 final size:2
Alignment explanation
Indices: 3070673--3070706 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3070663 TCTACTATCA
3070673 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3070707 ATATGTCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3074277 original size:32 final size:30
Alignment explanation
Indices: 3074239--3074345 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 30
3074229 TTTTTAATAC
3074239 TTATCAAATTTA-AAGATAATTATATTTAAT
1 TTATCAAATTTATAA-ATAATTATATTTAAT
* * *
3074269 GTTCATCAAAGTTATCAATAATTTTATTTAATAT
1 -TT-ATCAAATTTATAAATAATTATATTT-A-AT
*
3074303 TTATCAAATTTATAAATAATTATGTTTAAT
1 TTATCAAATTTATAAATAATTATATTTAAT
*
3074333 TTATTAAATTTAT
1 TTATCAAATTTAT
3074346 GATCAATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
30 14 0.22
31 3 0.05
32 41 0.64
33 4 0.06
34 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.50
Consensus pattern (30 bp):
TTATCAAATTTATAAATAATTATATTTAAT
Found at i:3077409 original size:2 final size:2
Alignment explanation
Indices: 3077402--3077444 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
3077392 ACAGACAAAA
*
3077402 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3077444 T
1 T
3077445 GAGTGAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:3078786 original size:16 final size:17
Alignment explanation
Indices: 3078765--3078817 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
3078755 AATAAATATA
3078765 AATAAAATAAT-TATTT
1 AATAAAATAATATATTT
*
3078781 AATAAAAAAATATATATTT
1 AAT-AAAATA-ATATATTT
*
3078800 AATTAAATAATATGATTT
1 AATAAAATAATAT-ATTT
3078818 TATTATATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.10
17 9 0.30
18 10 0.33
19 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AATAAAATAATATATTT
Found at i:3078792 original size:19 final size:20
Alignment explanation
Indices: 3078762--3078809 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
3078752 TTAAATAAAT
3078762 ATAAATAAAATA-ATTATTTA
1 ATAAATAAAATATA-TATTTA
3078782 ATAAA-AAAATATATATTTA
1 ATAAATAAAATATATATTTA
3078801 ATTAAATAA
1 A-TAAATAA
3078810 TATGATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 13 0.52
20 10 0.40
21 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATAAAATATATATTTA
Found at i:3078794 original size:30 final size:30
Alignment explanation
Indices: 3078726--3078794 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
3078716 TTAAAAAATG
*
3078726 TAAATATAAATTAAAGAATTTTAATATTAAA
1 TAAATATAAATAAAAGAATTTTAATA-TAAA
*
3078757 TAAATATAAATAAAATAATTATTTAATA-AAA
1 TAAATATAAATAAAAGAA-T-TTTAATATAAA
3078788 -AAATATA
1 TAAATATA
3078795 TATTTAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 7 0.21
31 19 0.56
32 1 0.03
33 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
TAAATATAAATAAAAGAATTTTAATATAAA
Found at i:3079243 original size:14 final size:14
Alignment explanation
Indices: 3079193--3079243 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3079183 ACAAATATTA
3079193 ATAATATAATAAAT
1 ATAATATAATAAAT
*
3079207 A-AGATATGATAAAT
1 ATA-ATATAATAAAT
* *
3079221 TTAAATATAATTAAT
1 AT-AATATAATAAAT
3079236 ATAATATA
1 ATAATATA
3079244 TTTAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.03
14 17 0.59
15 10 0.34
16 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATAATATAATAAAT
Found at i:3079248 original size:14 final size:14
Alignment explanation
Indices: 3079224--3079260 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3079214 GATAAATTTA
*
3079224 AATATAATTAATAT
1 AATATATTTAATAT
3079238 AATATATTTAATAT
1 AATATATTTAATAT
3079252 -ATAT-TTTAA
1 AATATATTTAA
3079261 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.23
13 4 0.18
14 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATATTTAATAT
Found at i:3080348 original size:2 final size:2
Alignment explanation
Indices: 3080341--3080381 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3080331 CAACAACAAC
3080341 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3080382 GGGTTGCATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3080737 original size:30 final size:30
Alignment explanation
Indices: 3080644--3080758 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 30
3080634 TATAATAAAA
* *
3080644 AATTTATAAATCTTATAATTT-TATTTAG-GT
1 AATTT-TAAATTTTA-AATTTATATTTAGATT
* * * * *
3080674 AATTTTTAATTTTTAA-TTATAATTAAATA
1 AATTTTAAATTTTAAATTTATATTTAGATT
3080703 AATTTTAAATTTTAAATTTATATTTAGATT
1 AATTTTAAATTTTAAATTTATATTTAGATT
*
3080733 AATTTTTAATATTT-AATTTATATTTA
1 AATTTTAAAT-TTTAAATTTATATTTA
3080759 AATAAAAATT
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
27 2 0.03
28 7 0.10
29 20 0.29
30 36 0.53
31 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.57
Consensus pattern (30 bp):
AATTTTAAATTTTAAATTTATATTTAGATT
Found at i:3080737 original size:59 final size:60
Alignment explanation
Indices: 3080634--3080764 Score: 173
Period size: 59 Copynumber: 2.2 Consensus size: 60
3080624 TTATATAAAA
*
3080634 TATAA-TAAA-AAATTTATAAATCTTATAATTTTATTTAGGTAATTTTTAATTTTTAA-T
1 TATAATTAAATAAATTTATAAATCTTATAATTTTATTTAGGTAATTTTTAATATTTAATT
* *
3080691 TATAATTAAATAAATTT-TAAATTTTA-AATTTATATTTAGATTAATTTTTAATATTTAATT
1 TATAATTAAATAAATTTATAAATCTTATAATTT-TATTTAG-GTAATTTTTAATATTTAATT
*
3080751 TATATTTAAATAAA
1 TATAATTAAATAAA
3080765 AATTAAAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
57 10 0.15
58 19 0.29
59 22 0.34
60 14 0.22
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (60 bp):
TATAATTAAATAAATTTATAAATCTTATAATTTTATTTAGGTAATTTTTAATATTTAATT
Found at i:3080815 original size:19 final size:19
Alignment explanation
Indices: 3080778--3080815 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3080768 TAAAAATTTT
*
3080778 AATTTTGATTTGAATTAAA
1 AATTTTGATTTAAATTAAA
3080797 AATTTT-ATTTAAATATAAA
1 AATTTTGATTTAAAT-TAAA
3080816 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTTGATTTAAATTAAA
Found at i:3080824 original size:25 final size:24
Alignment explanation
Indices: 3080747--3080822 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 24
3080737 TTTAATATTT
*
3080747 AATTTATATTTAAATAAAAATTAAA
1 AATTT-TATTTAAATATAAATTAAA
** * *
3080772 AATTTTAATTTTGATTTGAATTAAA
1 AATTTT-ATTTAAATATAAATTAAA
3080797 AATTTTATTTAAATATAAATTAAA
1 AATTTTATTTAAATATAAATTAAA
3080821 AA
1 AA
3080823 ATATAATAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 17 0.41
25 24 0.59
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
AATTTTATTTAAATATAAATTAAA
Found at i:3081114 original size:2 final size:2
Alignment explanation
Indices: 3081107--3081140 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3081097 CCAAAGCAAA
3081107 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3081141 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3081145 original size:2 final size:2
Alignment explanation
Indices: 3081140--3081169 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3081130 TCTCTCTCTC
*
3081140 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3081170 CACCCTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3090260 original size:39 final size:39
Alignment explanation
Indices: 3090206--3090287 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
3090196 AAGCCAACAA
3090206 TGATCTTTCATCAAGCAGAGCAGCCTCTGAAGTCTTAGC
1 TGATCTTTCATCAAGCAGAGCAGCCTCTGAAGTCTTAGC
* *
3090245 TGATCTTTCATCAAGCAGAGCAGTCTCTGAAGTCTTAGT
1 TGATCTTTCATCAAGCAGAGCAGCCTCTGAAGTCTTAGC
3090284 TGAT
1 TGAT
3090288 ACCAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (39 bp):
TGATCTTTCATCAAGCAGAGCAGCCTCTGAAGTCTTAGC
Found at i:3093542 original size:112 final size:112
Alignment explanation
Indices: 3093396--3093616 Score: 397
Period size: 112 Copynumber: 2.0 Consensus size: 112
3093386 AATCAACGAA
*
3093396 CATATTATAATTTATAGAAGCAGTTAAAAGTTGACTCGTTTCTTTTCTCTGAAAATTGAATCTTC
1 CATATTATAATTTATAGAAGCAGTTAAAAGTTGACTCGTTTCTTTTCACTGAAAATTGAATCTTC
3093461 AGAACAGTCATATTCTAAATTCAAACCTCAAGCTTGACAGCAGCGAT
66 AGAACAGTCATATTCTAAATTCAAACCTCAAGCTTGACAGCAGCGAT
* *
3093508 CATATTATAATTTATAGAAGCAGTTAAAATTTGACTTGTTTCTTTTCACTGAAAATTGAATCTTC
1 CATATTATAATTTATAGAAGCAGTTAAAAGTTGACTCGTTTCTTTTCACTGAAAATTGAATCTTC
* *
3093573 GGAACAGTCATATTCTAAATTCAAACCTCAAGCTTGGCAGCAGC
66 AGAACAGTCATATTCTAAATTCAAACCTCAAGCTTGACAGCAGC
3093617 ATTGGCATGG
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (112 bp):
CATATTATAATTTATAGAAGCAGTTAAAAGTTGACTCGTTTCTTTTCACTGAAAATTGAATCTTC
AGAACAGTCATATTCTAAATTCAAACCTCAAGCTTGACAGCAGCGAT
Found at i:3099459 original size:14 final size:15
Alignment explanation
Indices: 3099427--3099465 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
3099417 ATCATATTTT
3099427 TATTAT-TTTATACA
1 TATTATATTTATACA
*
3099441 TATTATATTTATATA
1 TATTATATTTATACA
3099456 -ATTATATTTA
1 TATTATATTTA
3099466 AAATTATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTATATTTATACA
Found at i:3101859 original size:11 final size:12
Alignment explanation
Indices: 3101840--3101882 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
3101830 TAATATTTTT
3101840 AAATATAATATA
1 AAATATAATATA
3101852 AAAT-TAAT-TA
1 AAATATAATATA
*
3101862 TAATATAATATA
1 AAATATAATATA
3101874 AAA-ATAATA
1 AAATATAATA
3101883 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 14 0.52
12 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATATAATATA
Found at i:3102723 original size:22 final size:22
Alignment explanation
Indices: 3102698--3102750 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
3102688 GAGACACGGT
3102698 ATAAATATAACATCAATA-AAAA
1 ATAAATATAACAT-AATACAAAA
* * *
3102720 ATAATTAAAATATAATACAAAA
1 ATAAATATAACATAATACAAAA
3102742 AT-AATATAA
1 ATAAATATAA
3102751 ACACGATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAATATAACATAATACAAAA
Found at i:3102881 original size:7 final size:7
Alignment explanation
Indices: 3102871--3102913 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
3102861 ATTAATTAAA
3102871 ATAAAAT
1 ATAAAAT
3102878 ATAAAA-
1 ATAAAAT
3102884 ATAAATAT
1 ATAAA-AT
3102892 GATATAAAT
1 -ATA-AAAT
3102901 ATAAAAT
1 ATAAAAT
3102908 ATAAAA
1 ATAAAA
3102914 AAATATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 5 0.16
7 17 0.53
8 3 0.09
9 5 0.16
10 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (7 bp):
ATAAAAT
Found at i:3102896 original size:17 final size:15
Alignment explanation
Indices: 3102868--3102918 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 15
3102858 AAAATTAATT
3102868 AAAAT-AAA-ATATA
1 AAAATAAAATATATA
3102881 AAAATAAATATGATATA
1 AAAATAAA-AT-ATATA
* *
3102898 AATATAAAATATAAA
1 AAAATAAAATATATA
3102913 AAAATA
1 AAAATA
3102919 TTTATAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.16
14 2 0.06
15 10 0.32
16 2 0.06
17 12 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAATAAAATATATA
Found at i:3102917 original size:28 final size:29
Alignment explanation
Indices: 3102867--3102927 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
3102857 AAAAATTAAT
3102867 TAAA-ATAAAATATAAAAATAAATATGATA
1 TAAATATAAAATATAAAAATAAATAT-ATA
*
3102896 TAAATATAAAATAT-AAAA-AAATATTTA
1 TAAATATAAAATATAAAAATAAATATATA
3102923 TAAAT
1 TAAAT
3102928 TTATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 6 0.20
29 8 0.27
30 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
TAAATATAAAATATAAAAATAAATATATA
Found at i:3105295 original size:18 final size:19
Alignment explanation
Indices: 3105260--3105297 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3105250 TATCATATAT
3105260 ATATATAAATATAAAAATA
1 ATATATAAATATAAAAATA
*
3105279 ATATATAATTA-AAAAATA
1 ATATATAAATATAAAAATA
3105297 A
1 A
3105298 ATTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATATATAAATATAAAAATA
Found at i:3105401 original size:18 final size:20
Alignment explanation
Indices: 3105366--3105402 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
3105356 TTTTATTTAA
3105366 ATTTTATAAATATTAAATAT
1 ATTTTATAAATATTAAATAT
3105386 ATTTT-TAAAT-TTAAATA
1 ATTTTATAAATATTAAATA
3105403 AATAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTATAAATATTAAATAT
Found at i:3105744 original size:23 final size:21
Alignment explanation
Indices: 3105713--3105765 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
3105703 AAAAAATTAT
*
3105713 AAATATTAAAATTTAAATTTAA
1 AAATTTTAAAA-TTAAATTTAA
* * *
3105735 AATATTTTAATATTAATTTTTA
1 AA-ATTTTAAAATTAAATTTAA
3105757 AAATTTTAA
1 AAATTTTAA
3105766 TTATATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 7 0.27
22 12 0.46
23 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTTTAAAATTAAATTTAA
Found at i:3106371 original size:2 final size:2
Alignment explanation
Indices: 3106364--3106411 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
3106354 TCGAAGTGTT
3106364 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
*
3106406 TG TA TA
1 TA TA TA
3106412 ACACAAATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3113909 original size:20 final size:19
Alignment explanation
Indices: 3113874--3113913 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3113864 AAATTTAATG
*
3113874 TTAAATAAATATTAAATAAA
1 TTAAATAAATAATAAA-AAA
*
3113894 TTAAATAATTAATAAAAAA
1 TTAAATAAATAATAAAAAA
3113913 T
1 T
3113914 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAATAAATAATAAAAAA
Found at i:3117583 original size:2 final size:2
Alignment explanation
Indices: 3117576--3117601 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3117566 TACTCTAGTA
3117576 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3117602 TCACACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3117829 original size:14 final size:14
Alignment explanation
Indices: 3117797--3117828 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
3117787 TAAGATTTAA
3117797 TTATATTTAATAAT
1 TTATATTTAATAAT
3117811 TTATATTT-AT-AT
1 TTATATTTAATAAT
3117823 TTATAT
1 TTATAT
3117829 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATATTTAATAAT
Found at i:3122549 original size:7 final size:7
Alignment explanation
Indices: 3122534--3122583 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
3122524 TGACATCTAA
*
3122534 AAAACTT
1 AAAATTT
3122541 AAAATTT
1 AAAATTT
3122548 AAAATTT
1 AAAATTT
3122555 AAAATTT
1 AAAATTT
*
3122562 AAATTTT
1 AAAATTT
*
3122569 AACATTT
1 AAAATTT
*
3122576 ATAATTT
1 AAAATTT
3122583 A
1 A
3122584 TTTTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (7 bp):
AAAATTT
Found at i:3124039 original size:61 final size:61
Alignment explanation
Indices: 3123971--3124092 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
3123961 TTAAATTAGT
*
3123971 GTATATGTCTAACAGGTAAACTCAATTTTTAAAGTTTTTTATATATTTAAAAAATTATATC
1 GTATATGTCTAACAGGTAAACTCAATTTTTAAAATTTTTTATATATTTAAAAAATTATATC
3124032 GTATATGTCTAACAGGTAAACTCAATTTTTAAAATTTTTTATATATTTAAAAAATTATATC
1 GTATATGTCTAACAGGTAAACTCAATTTTTAAAATTTTTTATATATTTAAAAAATTATATC
3124093 TTCTACTTAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (61 bp):
GTATATGTCTAACAGGTAAACTCAATTTTTAAAATTTTTTATATATTTAAAAAATTATATC
Found at i:3124360 original size:45 final size:47
Alignment explanation
Indices: 3124310--3124399 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 47
3124300 TTTAAGTCAG
**
3124310 TTTAATTTAATTCA-AAATAT-TATTTATTAATAAAAAAT-ATTTTCA
1 TTTAATTTAATT-ATAAATATATAAATATTAATAAAAAATAATTTTCA
*
3124355 TTTAATTTAATTATAAATATATAAATATTAATATAAAATAATTTT
1 TTTAATTTAATTATAAATATATAAATATTAATAAAAAATAATTTT
3124400 TATTATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 1 0.03
45 18 0.46
46 15 0.38
47 5 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (47 bp):
TTTAATTTAATTATAAATATATAAATATTAATAAAAAATAATTTTCA
Found at i:3125078 original size:2 final size:2
Alignment explanation
Indices: 3125073--3125098 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3125063 ATATATATAG
3125073 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
3125099 GCTTGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3125691 original size:17 final size:17
Alignment explanation
Indices: 3125654--3125733 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 17
3125644 ATAATTTATA
**
3125654 TTATATATATTTTAAAAT
1 TTAT-TATATTTTAATTT
*
3125672 TTATTATATTTTTATTT
1 TTATTATATTTTAATTT
*
3125689 TTA-TATCA--TCACATTT
1 TTATTAT-ATTTTA-ATTT
3125705 TATATTATATTTTAATTT
1 T-TATTATATTTTAATTT
*
3125723 TTATAATATTT
1 TTATTATATTT
3125734 ATATCATGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.02
16 8 0.16
17 26 0.53
18 12 0.24
19 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATATTTTAATTT
Found at i:3126160 original size:21 final size:21
Alignment explanation
Indices: 3126063--3126160 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 21
3126053 TTAAAAATTT
3126063 TTATAATAAGAATATTAAT-TTA
1 TTAT-ATAA-AATATTAATATTA
* * *
3126085 TTAGTGTATTAAT-TTAATAATA
1 TTA-TATA-AAATATTAATATTA
*
3126107 TTAT-TAAAATTTTTAATA-TA
1 TTATATAAAA-TATTAATATTA
*
3126127 TTAAATAAAAATATTAATATTA
1 TTATAT-AAAATATTAATATTA
*
3126149 TTATATATAATA
1 TTATATAAAATA
3126161 ATTTAAAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
19 2 0.03
20 8 0.13
21 25 0.42
22 24 0.40
23 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TTATATAAAATATTAATATTA
Found at i:3128198 original size:26 final size:24
Alignment explanation
Indices: 3128151--3128200 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
3128141 CCGTTATATG
* *
3128151 TTATTTTATTTAATTTTTTATTAA
1 TTATTTTATTTAATATTATATTAA
3128175 TTATTTGTAATTTAATATTATATTAA
1 TTATTT-T-ATTTAATATTATATTAA
3128201 AATATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
26 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTTTATTTAATATTATATTAA
Found at i:3129622 original size:19 final size:19
Alignment explanation
Indices: 3129594--3129656 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
3129584 TATTAAGATT
3129594 TATATAAATATATA-ATAA
1 TATATAAATATATAGATAA
* *
3129612 TATCTTAAATACATAGA-AA
1 TAT-ATAAATATATAGATAA
*
3129631 TATATAAATATA-ATATAA
1 TATATAAATATATAGATAA
3129649 TATATAAA
1 TATATAAA
3129657 CATCATTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 20 0.54
19 14 0.38
20 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (19 bp):
TATATAAATATATAGATAA
Found at i:3129773 original size:46 final size:46
Alignment explanation
Indices: 3129706--3129798 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
3129696 AATAAATATC
*
3129706 TGATCTAAGTCTTAAATTGATAATTTGGACATTCAGTTTAATTCTA
1 TGATCTAAGTCTTAAATTGATAATTTAGACATTCAGTTTAATTCTA
*
3129752 TGATCTAAGTCTTAAATTGATAATTTAGACATTCAGTTTCATTCTA
1 TGATCTAAGTCTTAAATTGATAATTTAGACATTCAGTTTAATTCTA
3129798 T
1 T
3129799 TAACGTCGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (46 bp):
TGATCTAAGTCTTAAATTGATAATTTAGACATTCAGTTTAATTCTA
Found at i:3133213 original size:22 final size:24
Alignment explanation
Indices: 3133179--3133222 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
3133169 ATTATTCAAC
*
3133179 AAAATTTACCAAA-AAG-GAAGAG
1 AAAATTGACCAAATAAGAGAAGAG
*
3133201 AAAATTGATCAAATAAGAGAAG
1 AAAATTGACCAAATAAGAGAAG
3133223 GCAAACCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 3 0.17
24 4 0.22
ACGTcount: A:0.59, C:0.07, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAATTGACCAAATAAGAGAAGAG
Found at i:3134818 original size:17 final size:17
Alignment explanation
Indices: 3134779--3134831 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
3134769 CAACAGCAAT
3134779 AAATATATTTTAAAT-T-
1 AAATA-ATTTTAAATATA
*
3134795 TAATAATTTTAAATATA
1 AAATAATTTTAAATATA
*
3134812 AAATAATTATATAATATA
1 AAATAATTTTA-AATATA
3134830 AA
1 AA
3134832 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 9 0.29
16 5 0.16
17 9 0.29
18 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAATTTTAAATATA
Found at i:3134831 original size:24 final size:23
Alignment explanation
Indices: 3134804--3134856 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
3134794 TTAATAATTT
3134804 TAAATAT-AAAATAATTATATAATA
1 TAAATATAAAAATAA-TATA-AATA
*
3134828 TAAATTTTAAAAATAATATAAATA
1 TAAA-TATAAAAATAATATAAATA
3134852 TAAAT
1 TAAAT
3134857 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
25 6 0.23
26 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATAAAAATAATATAAATA
Found at i:3134832 original size:17 final size:17
Alignment explanation
Indices: 3134796--3134831 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3134786 TTTTAAATTT
*
3134796 AATAATTTTAAATATAA
1 AATAATTATAAATATAA
3134813 AATAATTATATAATATAA
1 AATAATTATA-AATATAA
3134831 A
1 A
3134832 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATTATAAATATAA
Found at i:3134857 original size:24 final size:26
Alignment explanation
Indices: 3134811--3134875 Score: 91
Period size: 24 Copynumber: 2.6 Consensus size: 26
3134801 TTTTAAATAT
3134811 AAAATAATTATATAATATAAATTT-TA
1 AAAATAA-TATATAATATAAATTTATA
*
3134837 AAAATAATATA-AATATAAATTTATT
1 AAAATAATATATAATATAAATTTATA
3134862 AAAA-AATATATAAT
1 AAAATAATATATAAT
3134876 GTATTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 17 0.47
25 12 0.33
26 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATAATATATAATATAAATTTATA
Found at i:3134870 original size:42 final size:45
Alignment explanation
Indices: 3134804--3134886 Score: 109
Period size: 42 Copynumber: 1.9 Consensus size: 45
3134794 TTAATAATTT
* *
3134804 TAAATATAAAATAATTATATAATATA-AAT-T-TTAAAAATAATA
1 TAAATATAAAATAATTAAAAAATATATAATGTATTAAAAATAATA
* *
3134846 TAAATATAAATTTATTAAAAAATATATAATGTATTAAAAAT
1 TAAATATAAAATAATTAAAAAATATATAATGTATTAAAAAT
3134887 TTATTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 22 0.65
43 3 0.09
44 1 0.03
45 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (45 bp):
TAAATATAAAATAATTAAAAAATATATAATGTATTAAAAATAATA
Found at i:3134874 original size:20 final size:19
Alignment explanation
Indices: 3134847--3134885 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3134837 AAAATAATAT
*
3134847 AAATATA-AATTTATTAAA
1 AAATATATAATGTATTAAA
3134865 AAATATATAATGTATTAAA
1 AAATATATAATGTATTAAA
3134884 AA
1 AA
3134886 TTTATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAATATATAATGTATTAAA
Found at i:3135192 original size:19 final size:18
Alignment explanation
Indices: 3135170--3135215 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
3135160 CATCAAATTA
3135170 ATTATTATTTAATAAAAAT
1 ATTATTATTTAAT-AAAAT
3135189 ATTATT-TATTAATAAAAT
1 ATTATTAT-TTAATAAAAT
3135207 ATT-TTATTT
1 ATTATTATTT
3135216 TTATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.16
18 10 0.40
19 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATTATTTAATAAAAT
Found at i:3135250 original size:16 final size:16
Alignment explanation
Indices: 3135228--3135270 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
3135218 ATTTTTAATG
3135228 ATAACAAAATTAAATT
1 ATAACAAAATTAAATT
* *
3135244 TTAAC-AAATTTAATT
1 ATAACAAAATTAAATT
3135259 ATAA-AAAATTAA
1 ATAACAAAATTAA
3135271 TAAATATCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAACAAAATTAAATT
Found at i:3135391 original size:19 final size:18
Alignment explanation
Indices: 3135364--3135400 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
3135354 TTTAATGCTT
3135364 AAAAATATTTAATATTAA
1 AAAAATATTTAATATTAA
*
3135382 AAAAATTATTTTATATTAA
1 AAAAA-TATTTAATATTAA
3135401 TATTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATATTTAATATTAA
Found at i:3137244 original size:32 final size:30
Alignment explanation
Indices: 3137195--3137276 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 30
3137185 ATCCTTCATT
*
3137195 TAAAAATA-AA-AACTTATTTAAAGTGTATAAA
1 TAAAAATATAAGAAGTTATTTAAA--GTA-AAA
*
3137226 TTAAAATATAAG-AGTTATTT-AAGTAAAA
1 TAAAAATATAAGAAGTTATTTAAAGTAAAA
*
3137254 TAAAAATATAAGAATTTATTTAA
1 TAAAAATATAAGAAGTTATTTAA
3137277 GAAAAATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 14 0.33
29 10 0.23
30 1 0.02
31 9 0.21
32 9 0.21
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAAAATATAAGAAGTTATTTAAAGTAAAA
Found at i:3137260 original size:28 final size:29
Alignment explanation
Indices: 3137223--3137283 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
3137213 TAAAGTGTAT
* *
3137223 AAATTAAAATATAAG-AGTTATTTAAGTA
1 AAATAAAAATATAAGAAGTTATTTAAGAA
*
3137251 AAATAAAAATATAAGAATTTATTTAAGAA
1 AAATAAAAATATAAGAAGTTATTTAAGAA
3137280 AAAT
1 AAAT
3137284 GAAAGGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (29 bp):
AAATAAAAATATAAGAAGTTATTTAAGAA
Found at i:3137557 original size:5 final size:5
Alignment explanation
Indices: 3137549--3137577 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3137539 AGCGAAACCT
3137549 TCTTC TCTTC TCTTC TCTTC TCTTC TCTT
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTT
3137578 AATATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTTC
Found at i:3140862 original size:1 final size:1
Alignment explanation
Indices: 3140856--3140880 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3140846 GGTTGGGATT
3140856 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
3140881 TGTCGCAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:3141206 original size:19 final size:18
Alignment explanation
Indices: 3141175--3141233 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 18
3141165 TTTTATATCA
*
3141175 TATAAATTTTAAAATATT
1 TATATATTTTAAAATATT
3141193 TATATATTTATAAAATATT
1 TATATATTT-TAAAATATT
3141212 TATATTATTTT-AAATA-T
1 TATA-TATTTTAAAATATT
3141229 TATAT
1 TATAT
3141234 TTATATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
16 1 0.03
17 5 0.13
18 13 0.34
19 14 0.37
20 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATTTTAAAATATT
Found at i:3141215 original size:17 final size:17
Alignment explanation
Indices: 3141180--3141238 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
3141170 TATCATATAA
3141180 ATTT-TAAAATATTTATAT
1 ATTTATAAAATA-TT-TAT
3141198 ATTTATAAAATATTTAT
1 ATTTATAAAATATTTAT
* *
3141215 ATTATTTTAAATA-TTAT
1 ATT-TATAAAATATTTAT
3141232 ATTTATA
1 ATTTATA
3141239 TTATTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.06
17 13 0.37
18 13 0.37
19 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATAAAATATTTAT
Found at i:3141234 original size:23 final size:22
Alignment explanation
Indices: 3141188--3141254 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
3141178 AAATTTTAAA
3141188 ATATTTATA-TATTTATAA-A--
1 ATATTTATATTATTT-TAATATT
3141207 ATATTTATATTATTTTAAATATT
1 ATATTTATATTATTTT-AATATT
*
3141230 ATATTTATATTATTTTTATATT
1 ATATTTATATTATTTTAATATT
3141252 ATA
1 ATA
3141255 ACGACTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 10 0.24
20 7 0.17
21 1 0.02
22 8 0.19
23 16 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATATTATTTTAATATT
Found at i:3141241 original size:11 final size:11
Alignment explanation
Indices: 3141195--3141254 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
3141185 AAAATATTTA
*
3141195 TATATTTATAA
1 TATATTTATAT
*
3141206 AATATTTATAT
1 TATATTTATAT
3141217 TAT-TTTAAATAT
1 TATATTT--ATAT
3141229 TATATTTATAT
1 TATATTTATAT
*
3141240 TATTTTTATAT
1 TATATTTATAT
3141251 TATA
1 TATA
3141255 ACGACTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
10 3 0.07
11 28 0.68
12 7 0.17
13 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTTATAT
Found at i:3141653 original size:13 final size:13
Alignment explanation
Indices: 3141635--3141659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3141625 TTTTAAAGTC
3141635 ATAAATGTTAAAT
1 ATAAATGTTAAAT
3141648 ATAAATGTTAAA
1 ATAAATGTTAAA
3141660 GGTTTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATAAATGTTAAAT
Found at i:3145206 original size:25 final size:26
Alignment explanation
Indices: 3145178--3145240 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
3145168 TGATTCAGAT
3145178 ATATTAAAAAATATATA-A-ATTATTA
1 ATATTAAAAAATATA-ACACATTATTA
3145203 ATATATAAAAAA-ATAACACATTATTA
1 ATAT-TAAAAAATATAACACATTATTA
* *
3145229 TTTTTAAAAAAT
1 ATATTAAAAAAT
3145241 TTATCTCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 1 0.03
25 15 0.47
26 16 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATTAAAAAATATAACACATTATTA
Found at i:3145225 original size:26 final size:27
Alignment explanation
Indices: 3145149--3145228 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 27
3145139 CTTTTAAAAT
*
3145149 TAAAAAATTATCACATAATTGATTCAGATATA
1 TAAAAAAATAT-ACA-AATT-ATT-A-ATATA
* *
3145181 TTAAAAAATATATAAATTATTAATATA
1 TAAAAAAATATACAAATTATTAATATA
*
3145208 TAAAAAAATA-ACACATTATTA
1 TAAAAAAATATACAAATTATTA
3145229 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.21
27 14 0.33
28 1 0.02
29 3 0.07
30 4 0.10
31 2 0.05
32 9 0.21
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAAAAATATACAAATTATTAATATA
Found at i:3151228 original size:26 final size:26
Alignment explanation
Indices: 3151194--3151243 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3151184 TTGGCAATTT
3151194 AGAGTTTAGAACCTTGGTAATTTTAC
1 AGAGTTTAGAACCTTGGTAATTTTAC
*
3151220 AGAGTTTAGACCCTTGGTAATTTT
1 AGAGTTTAGAACCTTGGTAATTTT
3151244 GCTGATGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (26 bp):
AGAGTTTAGAACCTTGGTAATTTTAC
Found at i:3151337 original size:17 final size:17
Alignment explanation
Indices: 3151311--3151350 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3151301 TTGAATGTAA
3151311 ATATTAAATATAAATAT
1 ATATTAAATATAAATAT
*
3151328 ATATTTAATATAAATAT
1 ATATTAAATATAAATAT
3151345 AT-TTAA
1 ATATTAA
3151351 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTAAATATAAATAT
Found at i:3153102 original size:29 final size:28
Alignment explanation
Indices: 3153045--3153123 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 28
3153035 ATTATATTTT
* **
3153045 TATAT-TTATATTTAAATATTTATTCAA
1 TATATATTATATATAAATATTTATAAAA
*
3153072 TATATATTATATATGAATATTTTATAAAA
1 TATATATTATATATAAATA-TTTATAAAA
* *
3153101 TACATATT-TA-ATAAACATTTATA
1 TATATATTATATATAAATATTTATA
3153124 TAAGATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
26 6 0.14
27 10 0.23
28 13 0.30
29 14 0.33
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (28 bp):
TATATATTATATATAAATATTTATAAAA
Found at i:3154390 original size:24 final size:24
Alignment explanation
Indices: 3154363--3154408 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
3154353 AATAAAAATT
3154363 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* * *
3154387 AGCCACCATTTTTTATAAACAA
1 AGCCACCAATTTTGACAAACAA
3154409 AAATATCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:3158863 original size:24 final size:24
Alignment explanation
Indices: 3158835--3158880 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
3158825 AATAAAAATT
*
3158835 AGCCACTAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* *
3158859 AGCCACCATTTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
3158881 AAATATCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:3161119 original size:13 final size:13
Alignment explanation
Indices: 3161101--3161125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3161091 TGAGTGGAAC
3161101 ACGAATATTAAAT
1 ACGAATATTAAAT
3161114 ACGAATATTAAA
1 ACGAATATTAAA
3161126 AAAAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
ACGAATATTAAAT
Found at i:3162331 original size:24 final size:24
Alignment explanation
Indices: 3162302--3162349 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
3162292 ATACTGAATT
*
3162302 AATTAAATA-TAAATAAATAAATA
1 AATTTAATATTAAATAAATAAATA
*
3162325 AATTTAATATTAAATAAATATATA
1 AATTTAATATTAAATAAATAAATA
3162349 A
1 A
3162350 TAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTTAATATTAAATAAATAAATA
Found at i:3162331 original size:28 final size:28
Alignment explanation
Indices: 3162299--3162359 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
3162289 GATATACTGA
3162299 ATTAAT-TAAATATAAATAAATAAATAAAT
1 ATTAATATAAA-ATAAATAAAT-AATAAAT
* *
3162328 -TTAATATTAAATAAATATATAATAAAT
1 ATTAATATAAAATAAATAAATAATAAAT
3162355 ATTAA
1 ATTAA
3162360 AATTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 7 0.25
28 18 0.64
29 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTAATATAAAATAAATAAATAATAAAT
Found at i:3162363 original size:35 final size:35
Alignment explanation
Indices: 3162299--3162387 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 35
3162289 GATATACTGA
3162299 ATTAATTAAATATA-AATAAATAAATAAATT-TAAT
1 ATTAATTAAATATATAATAAATAAATAAATTAT-AT
* *
3162333 ATTAAATAAATATATAATAAAT-ATTAAAATTATAT
1 ATTAATTAAATATATAATAAATAAAT-AAATTATAT
3162368 ATTTAATTAAATAATATAAT
1 A-TTAATTAAAT-ATATAAT
3162388 TTTTTAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
34 15 0.32
35 15 0.32
36 10 0.21
37 7 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
ATTAATTAAATATATAATAAATAAATAAATTATAT
Found at i:3162364 original size:28 final size:28
Alignment explanation
Indices: 3162310--3162364 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3162300 TTAATTAAAT
*
3162310 ATAAATAAATAAATAAATTTAATATTAA
1 ATAAATAAATAAATAAATTTAAAATTAA
*
3162338 ATAAATATAT-AATAAATATTAAAATTA
1 ATAAATAAATAAATAAAT-TTAAAATTA
3162365 TATATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAAATAAATAAATAAATTTAAAATTAA
Found at i:3162388 original size:25 final size:24
Alignment explanation
Indices: 3162342--3162388 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
3162332 TATTAAATAA
*
3162342 ATATATAATAAATATTAAAATTAT
1 ATATATAATAAATAATAAAATTAT
* *
3162366 ATATTTAATTAAATAATATAATT
1 ATATATAA-TAAATAATAAAATT
3162389 TTTTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATATAATAAATAATAAAATTAT
Found at i:3162669 original size:18 final size:17
Alignment explanation
Indices: 3162648--3162682 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3162638 GAATATGATT
3162648 TTAATATAAATATATTTA
1 TTAATATAAA-ATATTTA
*
3162666 TTAATTTAAAATATTTA
1 TTAATATAAAATATTTA
3162683 AAAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATATAAAATATTTA
Found at i:3165133 original size:23 final size:23
Alignment explanation
Indices: 3165088--3165133 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3165078 TTTTTAATTT
* *
3165088 TTTTATATTTTTAAATAATTATA
1 TTTTATATTTATAAATAAATATA
**
3165111 TTTTATATTTATATTTAAATATA
1 TTTTATATTTATAAATAAATATA
3165134 AATATTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTATATTTATAAATAAATATA
Done.