Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 18 of 27
Found at i:2953980 original size:32 final size:32
Alignment explanation
Indices: 2953906--2953980 Score: 100
Period size: 32 Copynumber: 2.3 Consensus size: 32
2953896 TGCATCAACA
*
2953906 AAAATTTACATTATTCTGATTTTAAATATATT
1 AAAATTTATATTATTCTGATTTTAAATATATT
*
2953938 AAAATATATATTATAT-TGATTATT-AATATATT
1 AAAATTTATATTAT-TCTGATT-TTAAATATATT
2953970 AAAATTTATAT
1 AAAATTTATAT
2953981 AAATATAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 35 0.92
33 3 0.08
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (32 bp):
AAAATTTATATTATTCTGATTTTAAATATATT
Found at i:2953992 original size:32 final size:32
Alignment explanation
Indices: 2953930--2954023 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 32
2953920 TCTGATTTTA
* *
2953930 AATATATTAAAATATATAT-TATATTGATTATT
1 AATATATTAAAATATATATAAATATTAATTA-T
*
2953962 AATATATTAAAATTTATATAAATA-TAATTAT
1 AATATATTAAAATATATATAAATATTAATTAT
*
2953993 ATTATA-TAAAA-ATATATAAATTATTTAATTA
1 AATATATTAAAATATATATAAA-TA-TTAATTA
2954024 AATTCGCATC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
29 8 0.15
30 7 0.13
31 6 0.11
32 29 0.55
33 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
AATATATTAAAATATATATAAATATTAATTAT
Found at i:2954015 original size:19 final size:19
Alignment explanation
Indices: 2953975--2954016 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2953965 ATATTAAAAT
* *
2953975 TTATATAAATATAATTATA
1 TTATATAAAAATAATTAAA
2953994 TTATATAAAAAT-ATATAAA
1 TTATATAAAAATAAT-TAAA
2954013 TTAT
1 TTAT
2954017 TTAATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATATAAAAATAATTAAA
Found at i:2956970 original size:20 final size:20
Alignment explanation
Indices: 2956947--2957014 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
2956937 TACAAACATT
2956947 TTAAAATATATATTTTTATA
1 TTAAAATATATATTTTTATA
* * *
2956967 TTAATATTTATATTTTTTAAA
1 TTAAAATATATA-TTTTTATA
*
2956988 ATAAAA-ATAT-TTTTTATTA
1 TTAAAATATATATTTTTA-TA
*
2957007 TCAAAATA
1 TTAAAATA
2957015 ATAATTAAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
18 6 0.17
19 5 0.14
20 14 0.39
21 11 0.31
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATATATATTTTTATA
Found at i:2960563 original size:22 final size:22
Alignment explanation
Indices: 2960523--2960565 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2960513 TTTTTATATT
***
2960523 AATATTTTTATTTTTAAATAAA
1 AATATTTTTATTAAAAAATAAA
2960545 AATATTTTTATTAAAAAATAA
1 AATATTTTTATTAAAAAATAA
2960566 TAATTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTTTTATTAAAAAATAAA
Found at i:2960702 original size:22 final size:24
Alignment explanation
Indices: 2960676--2960732 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
2960666 ATATTTATTT
*
2960676 AAAATAAAAACTTT-TTT-AATAA
1 AAAATAAAAAATTTATTTAAATAA
*
2960698 TAAATATAAAAATTTATTTAAATAA
1 AAAATA-AAAAATTTATTTAAATAA
2960723 AATAATAAAA
1 AA-AATAAAA
2960733 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 3 0.11
25 9 0.32
26 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAAAAAATTTATTTAAATAA
Found at i:2960730 original size:24 final size:23
Alignment explanation
Indices: 2960675--2960736 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
2960665 TATATTTATT
2960675 TAAAATAAAAACTTT-TTTAATAA
1 TAAAATAAAAA-TTTATTTAATAA
2960698 TAAATATAAAAATTTATTT-A-AA
1 TAAA-ATAAAAATTTATTTAATAA
2960720 TAAAATAATAAAATTTA
1 TAAAAT-A-AAAATTTA
2960737 AAAAATCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.06
22 7 0.20
23 16 0.46
24 10 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATAAAAATTTATTTAATAA
Found at i:2964260 original size:14 final size:14
Alignment explanation
Indices: 2964243--2964328 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
2964233 ATGAATTTAA
2964243 ATTTTTTAATATTT
1 ATTTTTTAATATTT
**
2964257 A-TTTAAATATATTT
1 ATTTTTTA-ATATTT
*
2964271 A-TTTTTAAAATTT
1 ATTTTTTAATATTT
* *
2964284 ATTTTTTAAAAATAT
1 ATTTTTT-AATATTT
2964299 ATATTTTT-ATATTT
1 AT-TTTTTAATATTT
*
2964313 AATTTTTAATGATTT
1 ATTTTTTAAT-ATTT
2964328 A
1 A
2964329 ATAATTTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
13 15 0.26
14 24 0.42
15 13 0.23
16 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (14 bp):
ATTTTTTAATATTT
Found at i:2964292 original size:30 final size:29
Alignment explanation
Indices: 2964252--2964321 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
2964242 AATTTTTTAA
* *
2964252 TATTTATTTAAATATATTTATTTTTAAAATT
1 TATTT-TTTAAAAATATATATTTTT-AAATT
*
2964283 TATTTTTTAAAAATATATATTTTTATATT
1 TATTTTTTAAAAATATATATTTTTAAATT
*
2964312 TAATTTTTAA
1 TATTTTTTAA
2964322 TGATTTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 13 0.37
30 17 0.49
31 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TATTTTTTAAAAATATATATTTTTAAATT
Found at i:2964303 original size:17 final size:17
Alignment explanation
Indices: 2964251--2964306 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
2964241 AAATTTTTTA
*
2964251 ATATTTATTTAAATATAT
1 ATATTT-TTTAAAAATAT
*
2964269 TTA-TTTTT-AAAAT-T
1 ATATTTTTTAAAAATAT
2964283 -TATTTTTTAAAAATAT
1 ATATTTTTTAAAAATAT
2964299 ATATTTTT
1 ATATTTTT
2964307 ATATTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.06
14 6 0.19
15 9 0.28
16 4 0.12
17 9 0.28
18 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTTTTTAAAAATAT
Found at i:2965021 original size:21 final size:21
Alignment explanation
Indices: 2964997--2965066 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
2964987 AATAATACTA
2964997 AAATTAATTATTTAATAAATT
1 AAATTAATTATTTAATAAATT
*
2965018 AAATAAATATATTATTATAATATATT
1 AAAT---TA-ATTATT-TAATAAATT
* *
2965044 AAAATAATT-TATAAATAAATT
1 AAATTAATTAT-TTAATAAATT
2965065 AA
1 AA
2965067 TAACGATCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
21 14 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 6 0.15
26 11 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTAATTATTTAATAAATT
Found at i:2965266 original size:29 final size:28
Alignment explanation
Indices: 2965218--2965305 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
2965208 TAAACACGGA
*
2965218 AATTATAATATAATA-AATATGATATATTT
1 AATTATAAT-TAATATTATAT-ATATATTT
2965247 AATTATAATTAATATTATAT-TAATATTT
1 AATTATAATTAATATTATATAT-ATATTT
* *
2965275 AAATATATTTAATAATT-TATATTATATTT
1 AATTATAATTAAT-ATTATATA-TATATTT
2965304 AA
1 AA
2965306 ATTTATAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
27 1 0.02
28 25 0.49
29 24 0.47
30 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
AATTATAATTAATATTATATATATATTT
Found at i:2965268 original size:17 final size:17
Alignment explanation
Indices: 2965248--2965322 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 17
2965238 GATATATTTA
2965248 ATTATAATTAATATTAT
1 ATTATAATTAATATTAT
*
2965265 ATTAATATTTAA-A-TAT
1 ATT-ATAATTAATATTAT
2965281 ATT-TAA-TAAT-TTAT
1 ATTATAATTAATATTAT
*
2965295 ATTATATTTAA-ATT-T
1 ATTATAATTAATATTAT
*
2965310 A-TAAAATTAATAT
1 ATTATAATTAATAT
2965323 AAAAATATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
13 3 0.07
14 15 0.33
15 6 0.13
16 11 0.24
17 4 0.09
18 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATAATTAATATTAT
Found at i:2965269 original size:21 final size:23
Alignment explanation
Indices: 2965226--2965282 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
2965216 GAAATTATAA
2965226 TATAATAAATATGATATATTTAAT
1 TATAATAAATAT-ATATATTTAAT
*
2965250 TATAATTAATAT-TATA-TTAA-
1 TATAATAAATATATATATTTAAT
*
2965270 TAT-TTAAATATAT
1 TATAATAAATATAT
2965283 TTAATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 4 0.14
22 4 0.14
24 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAATAAATATATATATTTAAT
Found at i:2965270 original size:11 final size:12
Alignment explanation
Indices: 2965226--2965305 Score: 51
Period size: 12 Copynumber: 6.8 Consensus size: 12
2965216 GAAATTATAA
*
2965226 TATAATAAATAT
1 TATAATTAATAT
* *
2965238 GATATATTTA-AT
1 TATA-ATTAATAT
2965250 TATAATTAATAT
1 TATAATTAATAT
2965262 TAT-ATTAATAT
1 TATAATTAATAT
*
2965273 T-TAAAT-ATATT
1 TATAATTAATA-T
*
2965284 TAATAATTTATAT
1 T-ATAATTAATAT
*
2965297 TATATTTAA
1 TATAATTAA
2965306 ATTTATAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
10 4 0.08
11 17 0.33
12 19 0.37
13 9 0.17
14 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
TATAATTAATAT
Found at i:2965302 original size:19 final size:19
Alignment explanation
Indices: 2965251--2965305 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
2965241 ATATTTAATT
*
2965251 ATAATTAATATTATA-TTA
1 ATAATTTATATTATATTTA
*
2965269 AT-ATTTA-AATATATTTA
1 ATAATTTATATTATATTTA
2965286 ATAATTTATATTATATTTA
1 ATAATTTATATTATATTTA
2965305 A
1 A
2965306 ATTTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.16
17 9 0.29
18 7 0.23
19 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTTATATTATATTTA
Found at i:2965828 original size:16 final size:16
Alignment explanation
Indices: 2965807--2965856 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
2965797 AATTTAAAAT
2965807 ATTTAATTAAAATTTA
1 ATTTAATTAAAATTTA
2965823 ATTTAA-TAATAATTTAA
1 ATTTAATTAA-AATTT-A
*
2965840 AGTTAATTTAAAATTTA
1 ATTTAA-TTAAAATTTA
2965857 TTAAATTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 7 0.24
18 5 0.17
19 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTTAATTAAAATTTA
Found at i:2971720 original size:18 final size:18
Alignment explanation
Indices: 2971699--2971756 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
2971689 TAATTTTTAA
2971699 TTTATATTTAAATAAAAT
1 TTTATATTTAAATAAAAT
** *
2971717 TTTA-AAATAAATTAATAT
1 TTTATATTTAAA-TAAAAT
*
2971735 TTTAT-TTAAAATAAAAT
1 TTTATATTTAAATAAAAT
2971752 TTTAT
1 TTTAT
2971757 TTAATACAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTTAAATAAAAT
Found at i:2971744 original size:17 final size:17
Alignment explanation
Indices: 2971697--2971760 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
2971687 TTTAATTTTT
2971697 AATTTATATTT-AAATAA
1 AATTT-TATTTAAAATAA
** *
2971714 AATTTTAAAATAAATTAA
1 AATTTT-ATTTAAAATAA
*
2971732 TATTTTATTTAAAATAA
1 AATTTTATTTAAAATAA
2971749 AATTTTATTTAA
1 AATTTTATTTAA
2971761 TACAAATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 1 0.03
17 26 0.70
18 10 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTTATTTAAAATAA
Found at i:2972263 original size:15 final size:15
Alignment explanation
Indices: 2972239--2972268 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2972229 TCTGACTAGC
2972239 TTTTTCTTTTTCCTT
1 TTTTTCTTTTTCCTT
*
2972254 TTTTTTTTTTTCCTT
1 TTTTTCTTTTTCCTT
2972269 AATATCAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTCCTT
Found at i:2981127 original size:30 final size:29
Alignment explanation
Indices: 2981091--2981230 Score: 110
Period size: 30 Copynumber: 4.7 Consensus size: 29
2981081 TAAAACTCTA
*
2981091 AAATTTTATAATTTTATATTTTATTTAGAT
1 AAATTTT-TAATTTTATATTTTATTTAAAT
*
2981121 AAATTTTTAAATTTTAT-TATT-TTTAAAT
1 AAATTTTT-AATTTTATATTTTATTTAAAT
* **
2981149 AAATATTTTTAGGTTAT-TTTTA-TTATAAT
1 AAAT-TTTTAATTTTATATTTTATTTA-AAT
*
2981178 AAATTTTTAATTTT-TAATTTATACTTAAAT
1 AAATTTTTAATTTTAT-ATTT-TATTTAAAT
*
2981208 AAATTATTAATTTTTTATATTTT
1 AAATTTTTAA--TTTTATATTTT
2981231 TATTACATCT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
27 1 0.01
28 28 0.31
29 18 0.20
30 29 0.33
31 4 0.04
32 8 0.09
33 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (29 bp):
AAATTTTTAATTTTATATTTTATTTAAAT
Found at i:2982261 original size:2 final size:2
Alignment explanation
Indices: 2982256--2982281 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2982246 TAAAAAACAA
2982256 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
2982282 TAATGAGAAC
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:2982703 original size:3 final size:3
Alignment explanation
Indices: 2982688--2982721 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
2982678 TTTCAGAAGC
*
2982688 TTA TTA ATA TTA TTA TTA TTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2982722 TTAAAAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2982713 original size:14 final size:15
Alignment explanation
Indices: 2982688--2982721 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
2982678 TTTCAGAAGC
2982688 TTATTAATATTATTA
1 TTATTAATATTATTA
2982703 TTATT-ATATTATTA
1 TTATTAATATTATTA
2982717 TTATT
1 TTATT
2982722 TTAAAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTAATATTATTA
Found at i:2983155 original size:15 final size:14
Alignment explanation
Indices: 2983106--2983158 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2983096 TGTTTCTAAA
*
2983106 TTTATTAAAATATT
1 TTTAATAAAATATT
2983120 TTTAA-AAAA-ATT
1 TTTAATAAAATATT
* *
2983132 TATATTAAAATATT
1 TTTAATAAAATATT
2983146 TTTAAATAAAATA
1 TTT-AATAAAATA
2983159 CAATATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 6 0.19
13 8 0.26
14 9 0.29
15 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAATAAAATATT
Found at i:2984211 original size:22 final size:23
Alignment explanation
Indices: 2984186--2984232 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2984176 ATTTTATGTT
2984186 TAAATTATTTA-AATTTAATTTA
1 TAAATTATTTAGAATTTAATTTA
* *
2984208 TAAATTATTTAGATTTTGATTTA
1 TAAATTATTTAGAATTTAATTTA
2984231 TA
1 TA
2984233 TCATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TAAATTATTTAGAATTTAATTTA
Found at i:2984628 original size:23 final size:22
Alignment explanation
Indices: 2984588--2984664 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 22
2984578 TTATTTTGAG
2984588 TTATTAAATT-TAATATTAATTT
1 TTATTAAATTATAA-ATTAATTT
*
2984610 TTATTTAAATTATAAATTATAAATT
1 TTA-TTAAATTATAAA-T-TAATTT
* *
2984635 TTATTAAATAATATTATTAATTTT
1 TTATTAAATTATA-AATTAA-TTT
2984659 TTATTA
1 TTATTA
2984665 TTAAATAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
22 3 0.07
23 11 0.24
24 22 0.49
25 9 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTAAATTATAAATTAATTT
Found at i:2984685 original size:24 final size:26
Alignment explanation
Indices: 2984635--2984685 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
2984625 ATTATAAATT
*
2984635 TTATTAAATAATATTATTAATTTTTTA
1 TTATTAAATAATATTA-TAATTATTTA
*
2984662 TTATTAAATAA-ATTA-AGTTATTTA
1 TTATTAAATAATATTATAATTATTTA
2984686 AATTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
26 4 0.18
27 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TTATTAAATAATATTATAATTATTTA
Found at i:2985125 original size:25 final size:25
Alignment explanation
Indices: 2985092--2985171 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
2985082 ATATATTAAA
*
2985092 AAATAATTAAAATATTATATAATAT
1 AAATTATTAAAATATTATATAATAT
* * *
2985117 AAATTATTAACATATTAAAATTTATAT
1 AAATTATTAAAATATT-ATA-TAATAT
*
2985144 AAA-TA-TAAAATATTTTA-AATAT
1 AAATTATTAAAATATTATATAATAT
2985166 -AATTAT
1 AAATTAT
2985172 AATATGATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
21 2 0.05
22 6 0.14
24 1 0.02
25 22 0.51
26 4 0.09
27 8 0.19
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATTATTAAAATATTATATAATAT
Found at i:2985646 original size:11 final size:11
Alignment explanation
Indices: 2985630--2985754 Score: 54
Period size: 11 Copynumber: 11.8 Consensus size: 11
2985620 ACATAATTAC
2985630 ATAATATAAAT
1 ATAATATAAAT
2985641 ATAATATTAAAAAT
1 ATAATA-T--AAAT
2985655 ATAAT-TAAAAT
1 ATAATAT-AAAT
*
2985666 ATATTA-AAAT
1 ATAATATAAAT
*
2985676 -TTATATAAA-
1 ATAATATAAAT
* *
2985685 ATAA-ATTATT
1 ATAATATAAAT
* *
2985695 TTAATATAAAA
1 ATAATATAAAT
* *
2985706 ATTTATTTAAAT
1 A-TAATATAAAT
*
2985718 AT-TTAT-AAT
1 ATAATATAAAT
2985727 AT-A-ATAAA-
1 ATAATATAAAT
2985735 ATAATATAAAT
1 ATAATATAAAT
2985746 ATAATATAA
1 ATAATATAA
2985755 TCACGTAATT
Statistics
Matches: 84, Mismatches: 17, Indels: 26
0.66 0.13 0.20
Matches are distributed among these distances:
8 4 0.05
9 14 0.17
10 19 0.23
11 28 0.33
12 10 0.12
14 9 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:2985680 original size:12 final size:10
Alignment explanation
Indices: 2985644--2985737 Score: 55
Period size: 10 Copynumber: 9.1 Consensus size: 10
2985634 TATAAATATA
2985644 ATATTAAAAAT
1 ATATT-AAAAT
2985655 ATAATTAAAAT
1 AT-ATTAAAAT
2985666 ATATTAAAAT
1 ATATTAAAAT
*
2985676 TTATATAAAAT
1 ATAT-TAAAAT
* ***
2985687 AAATTATTTT
1 ATATTAAAAT
*
2985697 AATATAAAAAT
1 -ATATTAAAAT
* *
2985708 TTATTTAAAT
1 ATATTAAAAT
*
2985718 AT-TTATAAT
1 ATATTAAAAT
*
2985727 ATAATAAAAT
1 ATATTAAAAT
2985737 A
1 A
2985738 ATATAAATAT
Statistics
Matches: 60, Mismatches: 19, Indels: 9
0.68 0.22 0.10
Matches are distributed among these distances:
9 7 0.12
10 28 0.47
11 22 0.37
12 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATTAAAAT
Found at i:2986327 original size:35 final size:34
Alignment explanation
Indices: 2986283--2986348 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
2986273 ATGATATTAA
*
2986283 TATTTAATTTAAAAT-TAATTAATAATAAATAAAAT
1 TATTCAATTTAAAATATAA--AATAATAAATAAAAT
*
2986318 TATTCAATTTAAAATATAAAATTATAAATAA
1 TATTCAATTTAAAATATAAAATAATAAATAA
2986349 CTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 11 0.39
35 14 0.50
36 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (34 bp):
TATTCAATTTAAAATATAAAATAATAAATAAAAT
Found at i:2986634 original size:15 final size:15
Alignment explanation
Indices: 2986614--2986643 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2986604 TTAGAATATT
2986614 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
2986629 AAAAAAGAAAAAGAA
1 AAAAAAAAAAAAGAA
2986644 CATGTGCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:2986901 original size:26 final size:28
Alignment explanation
Indices: 2986858--2986918 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 28
2986848 TTATGATTAT
* * *
2986858 TATAATTTAAATTTTAAATTTATTAAA-
1 TATAATTTAAAGTATAAATTAATTAAAG
2986885 TATAATTT-AAGTATAAATTAATTAAAG
1 TATAATTTAAAGTATAAATTAATTAAAG
2986912 TA-AATTT
1 TATAATTT
2986919 TAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
TATAATTTAAAGTATAAATTAATTAAAG
Found at i:2986912 original size:16 final size:17
Alignment explanation
Indices: 2986881--2986913 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2986871 TTAAATTTAT
*
2986881 TAAATATAATTTAAGTA
1 TAAATATAATTAAAGTA
2986898 TAAAT-TAATTAAAGTA
1 TAAATATAATTAAAGTA
2986914 AATTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TAAATATAATTAAAGTA
Found at i:2986935 original size:18 final size:20
Alignment explanation
Indices: 2986906--2986942 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2986896 TATAAATTAA
2986906 TTAAAGTAAATTT-TAAATT
1 TTAAAGTAAATTTGTAAATT
2986925 TTAAA-TAAATTTGTAAAT
1 TTAAAGTAAATTTGTAAAT
2986943 AATTATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TTAAAGTAAATTTGTAAATT
Found at i:2988256 original size:48 final size:48
Alignment explanation
Indices: 2988198--2988293 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
2988188 ATCAGTTTAT
*
2988198 TGAGTCAATTCTCTTATTATGTTTGTTTCTACTATTTGAAGGTTTGTA
1 TGAGTCAATTCTCTTATTATGTTTGTTTCGACTATTTGAAGGTTTGTA
* *
2988246 TGAGTCAATTCTCTTATTATGTTTGTTTCGATTATTTGAAGTTTTGTA
1 TGAGTCAATTCTCTTATTATGTTTGTTTCGACTATTTGAAGGTTTGTA
2988294 CGAACTTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (48 bp):
TGAGTCAATTCTCTTATTATGTTTGTTTCGACTATTTGAAGGTTTGTA
Found at i:3001204 original size:21 final size:21
Alignment explanation
Indices: 3001159--3001219 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 21
3001149 AATATTAATT
3001159 TAAA-AATAAAATATAACATA
1 TAAATAATAAAATATAACATA
* *
3001179 CAAATAATAAAA-ATAAATATA
1 TAAATAATAAAATAT-AACATA
3001200 TAAATATATTAAAATCATAA
1 TAAATA-A-TAAAAT-ATAA
3001220 AATTTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.16
21 17 0.53
22 1 0.03
23 5 0.16
24 2 0.06
25 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATAATAAAATATAACATA
Found at i:3001236 original size:17 final size:17
Alignment explanation
Indices: 3001193--3001236 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
3001183 TAATAAAAAT
*
3001193 AAATATATAAATATATTA
1 AAATATA-AAATATATAA
*
3001211 AAATCATAAAATTTATAA
1 AAAT-ATAAAATATATAA
3001229 AAATATAA
1 AAATATAA
3001237 TTATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAAAATATATAA
Found at i:3010685 original size:13 final size:13
Alignment explanation
Indices: 3010667--3010692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3010657 CTTTCTTGGA
3010667 CCATTTTTTATGT
1 CCATTTTTTATGT
3010680 CCATTTTTTATGT
1 CCATTTTTTATGT
3010693 TGCAAGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
CCATTTTTTATGT
Found at i:3016844 original size:2 final size:2
Alignment explanation
Indices: 3016839--3016866 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3016829 TTAACGTGTG
3016839 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
3016867 AGGATTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3017530 original size:2 final size:2
Alignment explanation
Indices: 3017523--3017548 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3017513 AGTTCGATTG
3017523 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
3017549 GAAGTTTATT
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:3020792 original size:24 final size:22
Alignment explanation
Indices: 3020759--3020808 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
3020749 TATTATAAAT
*
3020759 ATATTGTTTTCAAAAAAATTTATC
1 ATATTATTTT-AAAAAAA-TTATC
*
3020783 ATATTATTTTAAAAATATTATC
1 ATATTATTTTAAAAAAATTATC
3020805 ATAT
1 ATAT
3020809 ATTATACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 6 0.25
24 9 0.38
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTATTTTAAAAAAATTATC
Found at i:3020810 original size:24 final size:23
Alignment explanation
Indices: 3020757--3020813 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
3020747 TTTATTATAA
*
3020757 ATATATTGTTTTCAAAAAAATTT
1 ATATATTATTTTCAAAAAAATTT
*
3020780 ATCATATTATTTT-AAAAATATTAT
1 AT-ATATTATTTTCAAAAAAATT-T
3020804 CATATATTAT
1 -ATATATTAT
3020814 ACTAATCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 10 0.34
24 17 0.59
25 2 0.07
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATATTATTTTCAAAAAAATTT
Found at i:3027595 original size:17 final size:17
Alignment explanation
Indices: 3027573--3027607 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3027563 ATTATGTATT
**
3027573 TAATTTTTTTAAATTTA
1 TAATTTTTAAAAATTTA
3027590 TAATTTTTAAAAATTTA
1 TAATTTTTAAAAATTTA
3027607 T
1 T
3027608 TAATGATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTTTTAAAAATTTA
Found at i:3028570 original size:22 final size:19
Alignment explanation
Indices: 3028525--3028594 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 19
3028515 ATTCAATTTC
3028525 TTTATATAATTATTATTTTAT
1 TTTATA-AATTA-TATTTTAT
3028546 TTTATAAATTATATTTATAAT
1 TTTATAAATTATATTT-T-AT
*
3028567 TTTTTAAAATTATATTTTTTAT
1 TTTAT-AAATTATA--TTTTAT
3028589 TTTATA
1 TTTATA
3028595 TCAAAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
19 5 0.12
20 6 0.14
21 13 0.31
22 14 0.33
23 1 0.02
24 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATAAATTATATTTTAT
Found at i:3030384 original size:2 final size:2
Alignment explanation
Indices: 3030377--3030419 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3030367 ATAAAACACA
3030377 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
3030419 A
1 A
3030420 AACAAGGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3032271 original size:25 final size:25
Alignment explanation
Indices: 3032227--3032285 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 25
3032217 AAATAAGATA
3032227 AATATATAATTATATTAAAA-TTATAT
1 AATAT-TAA-TATATTAAAATTTATAT
3032253 AATTATTAATATATTAAAATTTATAT
1 AA-TATTAATATATTAAAATTTATAT
3032279 AATATTA
1 AATATTA
3032286 TAAATATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 15 0.48
26 13 0.42
27 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATTAATATATTAAAATTTATAT
Found at i:3032284 original size:17 final size:19
Alignment explanation
Indices: 3032249--3032314 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
3032239 TATTAAAATT
3032249 ATATAATTATTAATATATTAAA
1 ATATAATTA-T-A-ATATTAAA
*
3032271 AT-TTA-TATAATATTATAA
1 ATATAATTATAATATTA-AA
3032289 ATATAATTATAATATATAAAA
1 ATATAATTATAATAT-T-AAA
3032310 ATATA
1 ATATA
3032315 TGAATATAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
17 6 0.16
18 5 0.14
19 3 0.08
20 10 0.27
21 10 0.27
22 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATAATTATAATATTAAA
Found at i:3032301 original size:20 final size:21
Alignment explanation
Indices: 3032224--3032314 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 21
3032214 ATAAAATAAG
*
3032224 ATAAATATATAATTAT-AT-T
1 ATAAAAATATAATTATAATAT
*
3032243 A-AAATTATATAATTATTAATAT
1 ATAAA-AATATAATTA-TAATAT
* *
3032265 ATTAAAAT-TTA-TATAATAT
1 ATAAAAATATAATTATAATAT
*
3032284 -TATAAATATAATTATAATAT
1 ATAAAAATATAATTATAATAT
3032304 ATAAAAATATA
1 ATAAAAATATA
3032315 TGAATATAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
18 8 0.14
19 19 0.33
20 11 0.19
21 13 0.23
22 4 0.07
23 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAAAATATAATTATAATAT
Found at i:3034369 original size:10 final size:10
Alignment explanation
Indices: 3034354--3034382 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
3034344 TTCATGGCTT
3034354 TTTTTTTTTC
1 TTTTTTTTTC
3034364 TTTTTTTTTC
1 TTTTTTTTTC
3034374 TTTTTTTTT
1 TTTTTTTTT
3034383 AAAGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:3034665 original size:5 final size:5
Alignment explanation
Indices: 3034655--3034688 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
3034645 AATTTTAACA
*
3034655 AATAT AATAT AATAT AATAC AATAT AATA- AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT
3034689 GAAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:3035139 original size:26 final size:26
Alignment explanation
Indices: 3035109--3035192 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
3035099 AAACAAAACT
* * *
3035109 TTAATATAAATTAATAAAAATAAAAA
1 TTAATTTAAATAAATTAAAATAAAAA
*
3035135 TTAATTTAATATAAATTAAAA-AATAA
1 TTAATTTAA-ATAAATTAAAATAAAAA
*
3035161 TTTATTTAAATACAATTAAAATATAAAA
1 TTAATTTAAATA-AATTAAAATA-AAAA
3035189 TTAA
1 TTAA
3035193 CTTGAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.06
26 28 0.60
27 10 0.21
28 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
TTAATTTAAATAAATTAAAATAAAAA
Found at i:3035143 original size:21 final size:22
Alignment explanation
Indices: 3035114--3035164 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3035104 AAACTTTAAT
*
3035114 ATAAATTAATA-AAAATAAAAA
1 ATAATTTAATATAAAATAAAAA
* *
3035135 TTAATTTAATATAAATTAAAAA
1 ATAATTTAATATAAAATAAAAA
3035157 ATAATTTA
1 ATAATTTA
3035165 TTTAAATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAATTTAATATAAAATAAAAA
Found at i:3036286 original size:17 final size:15
Alignment explanation
Indices: 3036257--3036303 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
3036247 TAATCAAAAT
3036257 TTATAATAATATTTA
1 TTATAATAATATTTA
*
3036272 TATATTATAAATATTT-
1 T-TATAAT-AATATTTA
3036288 TTATAATAATATTTA
1 TTATAATAATATTTA
3036303 T
1 T
3036304 GATGTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 7 0.26
15 7 0.26
16 6 0.22
17 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAATAATATTTA
Found at i:3036489 original size:2 final size:2
Alignment explanation
Indices: 3036482--3036514 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3036472 ATTATTTTGA
3036482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3036515 ATAACATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3047106 original size:1 final size:1
Alignment explanation
Indices: 3047065--3047089 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3047055 TCTCCATTAG
3047065 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
3047090 CTCTCTAAGA
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:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3053065 original size:20 final size:21
Alignment explanation
Indices: 3053037--3053075 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
3053027 TCAATAATTA
*
3053037 AAATCAAAT-TTAAATTTTAC
1 AAATAAAATATTAAATTTTAC
*
3053057 AAATAAAATATTCAATTTT
1 AAATAAAATATTAAATTTT
3053076 TACGCATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATAAAATATTAAATTTTAC
Found at i:3054445 original size:20 final size:22
Alignment explanation
Indices: 3054405--3054449 Score: 76
Period size: 20 Copynumber: 2.1 Consensus size: 22
3054395 ATTAAAAATT
3054405 TATTTTTATATTAATATTTAAA
1 TATTTTTATATTAATATTTAAA
3054427 TATTTTTA-ATTAA-ATTTAAA
1 TATTTTTATATTAATATTTAAA
3054447 TAT
1 TAT
3054450 AATATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTATATTAATATTTAAA
Found at i:3054458 original size:25 final size:23
Alignment explanation
Indices: 3054405--3054474 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 23
3054395 ATTAAAAATT
3054405 TATTTTTA-TA-TTAATATT-TAAA
1 TATTTTTATTATTTAA-ATTAT-AA
3054427 TATTTTTAATTAAATTTAAA-TATAA
1 TATTTTT-ATT--ATTTAAATTATAA
3054452 TATTTTTATTATTTAAATTATAA
1 TATTTTTATTATTTAAATTATAA
3054475 ATTAAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
22 14 0.34
23 6 0.15
24 4 0.10
25 10 0.24
26 3 0.07
27 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTTTATTATTTAAATTATAA
Found at i:3054467 original size:28 final size:26
Alignment explanation
Indices: 3054425--3054476 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 26
3054415 TTAATATTTA
3054425 AATATTTTTAATTAAATT-TAAATAT
1 AATATTTTTAATTAAATTATAAATAT
3054450 AATATTTTTATTATTTAAATTATAAAT
1 AATATTTTTA--A-TTAAATTATAAAT
3054477 TAAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 10 0.43
27 1 0.04
28 7 0.30
29 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AATATTTTTAATTAAATTATAAATAT
Found at i:3054482 original size:5 final size:5
Alignment explanation
Indices: 3054472--3054508 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
3054462 ATTTAAATTA
*
3054472 TAAAT TAAAT TAAAT TAAAT TAATT TAAAT TAAAT TA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
3054509 TAAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAAAT
Found at i:3054530 original size:11 final size:11
Alignment explanation
Indices: 3054462--3054536 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 11
3054452 TATTTTTATT
3054462 ATTTAAATTATA
1 ATTTAAATT-TA
*
3054474 AATTAAA-TTA
1 ATTTAAATTTA
*
3054484 AATTAAA-TTA
1 ATTTAAATTTA
*
3054494 ATTTAAATTAA
1 ATTTAAATTTA
3054505 ATTATAAAAATTTTA
1 ATT-T--AAA-TTTA
*
3054520 TTTTAAATTTA
1 ATTTAAATTTA
3054531 ATTTAA
1 ATTTAA
3054537 TTCAAATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
10 18 0.35
11 15 0.29
12 10 0.19
14 4 0.08
15 5 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:3055022 original size:5 final size:5
Alignment explanation
Indices: 3055012--3055041 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
3055002 ACGGATAGAA
3055012 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
3055042 TGTGGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3057146 original size:21 final size:22
Alignment explanation
Indices: 3057122--3057168 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
3057112 ATATATAGAT
*
3057122 AATAAAATATAA-AAAATTA-TA
1 AATAAAAT-TAATAAAATCATTA
3057143 AATAAAATTAATAAAATCATTA
1 AATAAAATTAATAAAATCATTA
3057165 AATA
1 AATA
3057169 TTTCTCACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 6 0.26
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAAATTAATAAAATCATTA
Found at i:3058589 original size:23 final size:24
Alignment explanation
Indices: 3058553--3058599 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
3058543 TCAATTGATA
* **
3058553 TAAAAATTTATTTTATTAATATTT
1 TAAAAATATATTTTAAAAATATTT
3058577 TAAAAATAT-TTTTAAAAATATTT
1 TAAAAATATATTTTAAAAATATTT
3058600 ATAATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAAATATATTTTAAAAATATTT
Found at i:3058591 original size:12 final size:12
Alignment explanation
Indices: 3058570--3058599 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3058560 TTATTTTATT
3058570 AATA-TTTTAAA
1 AATATTTTTAAA
3058581 AATATTTTTAAA
1 AATATTTTTAAA
3058593 AATATTT
1 AATATTT
3058600 ATAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTTTAAA
Found at i:3060211 original size:72 final size:72
Alignment explanation
Indices: 3060094--3060238 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
3060084 GGTTAGCAGG
* *
3060094 AACTAACCATAACCAGTCAGCCTTGTGGAGATTGTTCCATTTCAGCAATTATCCCACCAAGAAAG
1 AACTAACCATAACCAGTCAGCCTTCTGGAGATTGTTCCATTTCAGCAATGATCCCACCAAGAAAG
3060159 AAGTGCA
66 AAGTGCA
* *
3060166 AACTAACCATAACCAGTCAGCCTTCTGGGGATTGTTTCATTTCAGCAATGATCCCACCAAGAAAG
1 AACTAACCATAACCAGTCAGCCTTCTGGAGATTGTTCCATTTCAGCAATGATCCCACCAAGAAAG
3060231 AAGTGCA
66 AAGTGCA
3060238 A
1 A
3060239 TCTTCCGCTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (72 bp):
AACTAACCATAACCAGTCAGCCTTCTGGAGATTGTTCCATTTCAGCAATGATCCCACCAAGAAAG
AAGTGCA
Found at i:3061314 original size:2 final size:2
Alignment explanation
Indices: 3061307--3061332 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3061297 TGAGGTTTGA
3061307 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
3061333 TACACATTTA
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:3062253 original size:12 final size:11
Alignment explanation
Indices: 3062230--3062263 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
3062220 AATAAAATAT
3062230 AAAAAATTTAA
1 AAAAAATTTAA
3062241 AAAAAATTATAA
1 AAAAAATT-TAA
3062253 AAAAAATTTAA
1 AAAAAATTTAA
3062264 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:3068273 original size:2 final size:2
Alignment explanation
Indices: 3068266--3068315 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
3068256 CAAAACCTTT
3068266 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
*
3068308 TA TG TA TA
1 TA TA TA TA
3068316 CATACACACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3068437 original size:209 final size:204
Alignment explanation
Indices: 3068086--3068469 Score: 696
Period size: 209 Copynumber: 1.9 Consensus size: 204
3068076 TTATCTACCT
*
3068086 TATATATATATATATATATATGTATACATGCACACTAATACTAAAATAAAAATTCTCCTTGGGGA
1 TATATATATATATATATATATGTATACATACACACTAATACTAAAATAAAAATTCTCCTTGGGGA
*
3068151 TTATATGATTCATTTTATCAGCTTTACATGGTTAATTAAAGTTGGTGACTGAAGCATGAACTAAA
66 TTATATGATTCATTTTATCAGCTTTACATGGTTAATTAAAGTTGGTGACTGAAGAATGAACTAAA
*
3068216 GATTTTATTCATAAAACTGGGATCTTTTGTTCAGGTAAAGCAAAACCTTTTATATATATATATAT
131 GATTTTATTCATAAAACTGGGATCTTTTGTTCAGGTAAAACAAAACCTTTTATATATATATATAT
3068281 ATATATATA
196 ATATATATA
3068290 TATATATATATATATATATATGTATACATACACACTAATACTAAAATAAAAATAAAATTCTCCTT
1 TATATATATATATATATATATGTATACATACACACTAATACTAAAAT----A-AAAATTCTCCTT
3068355 GGGGATTATATGATTCATTTTATCAGCTTTACATGGTTAATTAAAGTTGGTGACTGAAGAATGAA
61 GGGGATTATATGATTCATTTTATCAGCTTTACATGGTTAATTAAAGTTGGTGACTGAAGAATGAA
3068420 CTAAAGATTTTATTCATAAAACTGGGATCTTTTGTTCAGGTAAAACAAAA
126 CTAAAGATTTTATTCATAAAACTGGGATCTTTTGTTCAGGTAAAACAAAA
3068470 AGAAATGCTC
Statistics
Matches: 172, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
204 46 0.27
208 1 0.01
209 125 0.73
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (204 bp):
TATATATATATATATATATATGTATACATACACACTAATACTAAAATAAAAATTCTCCTTGGGGA
TTATATGATTCATTTTATCAGCTTTACATGGTTAATTAAAGTTGGTGACTGAAGAATGAACTAAA
GATTTTATTCATAAAACTGGGATCTTTTGTTCAGGTAAAACAAAACCTTTTATATATATATATAT
ATATATATA
Found at i:3068761 original size:2 final size:2
Alignment explanation
Indices: 3068754--3068781 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3068744 TCAAAAGGTG
3068754 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
3068782 CATTTACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3071160 original size:33 final size:33
Alignment explanation
Indices: 3071091--3071161 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
3071081 TACTCAATAA
* * * **
3071091 ATTTAATAATTTATATATTTTTATTTATATTAT
1 ATTTAAAAAATTATATATTTATATAAATATTAT
* *
3071124 ATTTAAAAAATTATATATTTATATAAATTTTTT
1 ATTTAAAAAATTATATATTTATATAAATATTAT
3071157 ATTTA
1 ATTTA
3071162 TTAATTTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATTTAAAAAATTATATATTTATATAAATATTAT
Found at i:3071510 original size:18 final size:18
Alignment explanation
Indices: 3071475--3071513 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3071465 AATTTAAGTT
***
3071475 TTTTTAATAAATTTTAAA
1 TTTTTAATAAAAAATAAA
3071493 TTTTTAATAAAAAATAAA
1 TTTTTAATAAAAAATAAA
3071511 TTT
1 TTT
3071514 ATATATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTAATAAAAAATAAA
Found at i:3071542 original size:12 final size:13
Alignment explanation
Indices: 3071510--3071542 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
3071500 TAAAAAATAA
3071510 ATTTATATATTAT
1 ATTTATATATTAT
3071523 -TTTATATATTAT
1 ATTTATATATTAT
3071535 ATTT-TATA
1 ATTTATATA
3071543 CAATCACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTATATATTAT
Found at i:3072265 original size:14 final size:14
Alignment explanation
Indices: 3072242--3072271 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3072232 AAAGTTGAAA
3072242 TTTTTAATAAATTT
1 TTTTTAATAAATTT
*
3072256 TTTTTTATAAATTT
1 TTTTTAATAAATTT
3072270 TT
1 TT
3072272 GTTGTAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTAATAAATTT
Found at i:3074160 original size:29 final size:29
Alignment explanation
Indices: 3074118--3074175 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3074108 CCCTTATTTA
* *
3074118 ACTTTTATTTTCTTTTATTTTTGTTTTTT
1 ACTTCTATTCTCTTTTATTTTTGTTTTTT
* *
3074147 ACTTCTATTCTCTTTTTTTTTTTTTTTTT
1 ACTTCTATTCTCTTTTATTTTTGTTTTTT
3074176 CGAGTGCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.09, C:0.10, G:0.02, T:0.79
Consensus pattern (29 bp):
ACTTCTATTCTCTTTTATTTTTGTTTTTT
Found at i:3074301 original size:2 final size:2
Alignment explanation
Indices: 3074294--3074328 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3074284 GACATGAACT
3074294 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3074329 CCAAAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3075355 original size:2 final size:2
Alignment explanation
Indices: 3075348--3075372 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3075338 AGGAGACCCT
3075348 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3075373 TTGGGGGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3076376 original size:25 final size:24
Alignment explanation
Indices: 3076322--3076385 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
3076312 AATAAAATAA
* * *
3076322 TTTTATTATCTTTATATATTTATAT
1 TTTTATTAT-TTTAAACATATATAT
*
3076347 ATTTATTATTTTAAACATATATATT
1 TTTTATTATTTTAAACATATATA-T
*
3076372 TTTTAATATTTTAA
1 TTTTATTATTTTAA
3076386 CTTTTCATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATTATTTTAAACATATATAT
Found at i:3077576 original size:2 final size:2
Alignment explanation
Indices: 3077569--3077602 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3077559 CTTGATCAAT
3077569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3077603 TAATATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3084649 original size:3 final size:3
Alignment explanation
Indices: 3084641--3084674 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3084631 AAAATAGTAA
3084641 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3084675 CACAAACTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3085236 original size:2 final size:2
Alignment explanation
Indices: 3085229--3085258 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3085219 AAACTAGTTT
3085229 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
3085259 ATGGGTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3086378 original size:23 final size:25
Alignment explanation
Indices: 3086341--3086405 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
3086331 AATAAAATAA
*
3086341 ATATAATATGATATATTTAA-ATAT
1 ATATTATATGATATATTTAATATAT
* *
3086365 A-ATTATATGGTATATTTAATATTT
1 ATATTATATGATATATTTAATATAT
*
3086389 ATATTATAT-TTATATTT
1 ATATTATATGATATATTT
3086406 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 16 0.46
24 12 0.34
25 7 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (25 bp):
ATATTATATGATATATTTAATATAT
Found at i:3086993 original size:22 final size:23
Alignment explanation
Indices: 3086965--3087014 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
3086955 GTTTGATAAC
*
3086965 ATTTTTATTTATAGAAA-AGTAA
1 ATTTTTATTTATACAAAGAGTAA
*
3086987 ATTTTTATTTATCCAAAGAGTAA
1 ATTTTTATTTATACAAAGAGTAA
3087010 ATTTT
1 ATTTT
3087015 ACTACAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (23 bp):
ATTTTTATTTATACAAAGAGTAA
Found at i:3088618 original size:3 final size:3
Alignment explanation
Indices: 3088610--3088637 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3088600 CCTAATCCCC
3088610 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3088638 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3088642 original size:4 final size:4
Alignment explanation
Indices: 3088633--3088662 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
3088623 TAATAATAAT
3088633 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
3088663 AAGAGTCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:3091599 original size:2 final size:2
Alignment explanation
Indices: 3091592--3091625 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3091582 GTTTTTACTG
3091592 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
3091626 GACTATGAGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3092125 original size:18 final size:17
Alignment explanation
Indices: 3092084--3092131 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
3092074 AAATTAATTG
*
3092084 ATTTAATTAAAAAATAA
1 ATTTAATTAATAAATAA
3092101 ATATTAATTAATAAATAA
1 AT-TTAATTAATAAATAA
3092119 TATTTAATATAAT
1 -ATTTAAT-TAAT
3092132 TTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 19 0.70
19 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATTAATAAATAA
Found at i:3092136 original size:17 final size:16
Alignment explanation
Indices: 3092116--3092154 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
3092106 AATTAATAAA
3092116 TAATATTTAAT-ATAATT
1 TAATATTT-ATGAT-ATT
3092133 TAATATTTATGATATT
1 TAATATTTATGATATT
3092149 TAATAT
1 TAATAT
3092155 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TAATATTTATGATATT
Found at i:3100755 original size:24 final size:24
Alignment explanation
Indices: 3100725--3100781 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
3100715 ATCCTTTCTT
3100725 TGGTTTTGGTGGTGACCCCTTTGG
1 TGGTTTTGGTGGTGACCCCTTTGG
*
3100749 TGGTTTTGGTGGTGACCTCTTTGG
1 TGGTTTTGGTGGTGACCCCTTTGG
3100773 TGGTTTTGG
1 TGGTTTTGG
3100782 GGGCCTTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.04, C:0.12, G:0.39, T:0.46
Consensus pattern (24 bp):
TGGTTTTGGTGGTGACCCCTTTGG
Found at i:3109312 original size:5 final size:5
Alignment explanation
Indices: 3109304--3109342 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
3109294 AAGAAAGAAA
*
3109304 ATAAT ATAAAA ATAAT ATTAAT ATAAT ATAAT ATAAT AT
1 ATAAT AT-AAT ATAAT A-TAAT ATAAT ATAAT ATAAT AT
3109343 TTCTTACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:3109315 original size:11 final size:11
Alignment explanation
Indices: 3109301--3109334 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3109291 AAAAAGAAAG
3109301 AAAATAATATA
1 AAAATAATATA
*
3109312 AAAATAATATT
1 AAAATAATATA
*
3109323 AATATAATATA
1 AAAATAATATA
3109334 A
1 A
3109335 TATAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATATA
Found at i:3109433 original size:25 final size:23
Alignment explanation
Indices: 3109380--3109451 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 23
3109370 AATAATTTAA
*
3109380 TATATTTAATACATCTA-TAATATT
1 TATATTTAATA-ATTTATTAAT-TT
3109404 TATATTTAATAATTTATGTAATTT
1 TATATTTAATAATTTAT-TAATTT
*
3109428 TCATATTTAATAAATTATATAATT
1 T-ATATTTAATAATTTAT-TAATT
3109452 AACATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.10
24 14 0.33
25 24 0.57
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (23 bp):
TATATTTAATAATTTATTAATTT
Found at i:3109457 original size:25 final size:25
Alignment explanation
Indices: 3109405--3109457 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
3109395 TATAATATTT
* * **
3109405 ATATTTAATAATTTATGTAATTTTC
1 ATATTTAATAAATTATATAATTAAC
3109430 ATATTTAATAAATTATATAATTAAC
1 ATATTTAATAAATTATATAATTAAC
3109455 ATA
1 ATA
3109458 AAAAAATACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATTTAATAAATTATATAATTAAC
Found at i:3109912 original size:11 final size:11
Alignment explanation
Indices: 3109894--3109949 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
3109884 ATTGATCATT
3109894 TATT-TATTTA
1 TATTATATTTA
3109904 TATTATATTTA
1 TATTATATTTA
* *
3109915 TATTTTTTATTA
1 TATTATAT-TTA
3109927 TAATTATATTTA
1 T-ATTATATTTA
3109939 T-TATATATTTA
1 TAT-TATATTTA
3109950 AATAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.13
11 20 0.53
12 8 0.21
13 5 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATATTTA
Found at i:3109912 original size:15 final size:15
Alignment explanation
Indices: 3109891--3109947 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
3109881 ATTATTGATC
3109891 ATTTATTTAT-TTAT
1 ATTTATTTATATTAT
3109905 ATTATATTTATATT-T
1 ATT-TATTTATATTAT
3109920 -TTTA-TTATAATTAT
1 ATTTATTTAT-ATTAT
3109934 ATTTATTATATATT
1 ATTTATT-TATATT
3109948 TAAATAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.11
13 5 0.14
14 6 0.17
15 12 0.33
16 6 0.17
17 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATTTATATTAT
Found at i:3109923 original size:24 final size:25
Alignment explanation
Indices: 3109891--3109949 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
3109881 ATTATTGATC
3109891 ATTTATTTATT-TATATTATATTTAT
1 ATTTATTTATTATA-ATTATATTTAT
3109916 ATTT-TTTATTATAATTATATTTATT
1 ATTTATTTATTATAATTATATTTA-T
*
3109941 ATATATTTA
1 ATTTATTTA
3109950 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 16 0.53
25 10 0.33
26 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTTATTTATTATAATTATATTTAT
Found at i:3109927 original size:18 final size:18
Alignment explanation
Indices: 3109891--3109949 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
3109881 ATTATTGATC
3109891 ATTTAT-TTATTTATATTAT
1 ATTTATATT-TTT-TATTAT
3109910 ATTTATATTTTTTATTAT
1 ATTTATATTTTTTATTAT
* *
3109928 AATTATATTTATTA-TAT
1 ATTTATATTTTTTATTAT
3109945 ATTTA
1 ATTTA
3109950 AATAAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 7 0.19
18 18 0.50
19 9 0.25
20 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTATATTTTTTATTAT
Found at i:3109935 original size:29 final size:28
Alignment explanation
Indices: 3109892--3109948 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
3109882 TTATTGATCA
*
3109892 TTTATTTATTTATATTATATT-TATATTT
1 TTTATTTAATTATATT-TATTATATATTT
3109920 TTTATTATAATTATATTTATTATATATTT
1 TTTATT-TAATTATATTTATTATATATTT
3109949 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTATTTAATTATATTTATTATATATTT
Found at i:3109984 original size:18 final size:18
Alignment explanation
Indices: 3109899--3109984 Score: 54
Period size: 18 Copynumber: 4.7 Consensus size: 18
3109889 TCATTTATTT
*
3109899 ATTTATATTATATTTATA
1 ATTTATATTATATTAATA
* *
3109917 TTTTTTATTATAATT-AT-
1 ATTTATATTAT-ATTAATA
3109934 ATTTAT-TATATATTTAAATAA
1 ATTTATAT-TATA-TT-AAT-A
**
3109955 ATTT-TAACATATTAATA
1 ATTTATATTATATTAATA
3109972 ATTTATATTATAT
1 ATTTATATTATAT
3109985 AAATTTTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 18
0.66 0.10 0.23
Matches are distributed among these distances:
16 2 0.04
17 14 0.27
18 20 0.39
19 7 0.14
20 4 0.08
21 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATATTATATTAATA
Found at i:3110196 original size:2 final size:2
Alignment explanation
Indices: 3110189--3110233 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
3110179 GCAGCCATTG
* *
3110189 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3110231 TA T
1 TA T
3110234 GAAAAGTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3116200 original size:22 final size:22
Alignment explanation
Indices: 3116175--3116222 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
3116165 ATTAAAATAT
*
3116175 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAAT-TTTAAA
3116197 TATTTTTATAATTAATTTTAAA
1 TATTTTTATAATTAATTTTAAA
3116219 TATT
1 TATT
3116223 ATTAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAATTTTAAA
Found at i:3122240 original size:27 final size:27
Alignment explanation
Indices: 3122167--3122241 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
3122157 AAAGCCACCC
* * *
3122167 TTTTTGTTTGTCAAAAATGATGATTTT
1 TTTTTGTTTGTAAAAAATGGTGATTTA
*
3122194 TTTTTGTTTGTAAAAAATGGTGGTTTA
1 TTTTTGTTTGTAAAAAATGGTGATTTA
3122221 TTTTTGTTTGTAAAAAATGGT
1 TTTTTGTTTGTAAAAAATGGT
3122242 AGCTTGTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.01, G:0.19, T:0.53
Consensus pattern (27 bp):
TTTTTGTTTGTAAAAAATGGTGATTTA
Found at i:3122251 original size:24 final size:24
Alignment explanation
Indices: 3122197--3122269 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
3122187 TGATTTTTTT
* * *
3122197 TTGTTTGTAAAAAATGGTGGTTTATTT
1 TTGTTTGTAAAAAATGGTAG---CTTG
3122224 TTGTTTGTAAAAAATGGTAGCTTG
1 TTGTTTGTAAAAAATGGTAGCTTG
* *
3122248 TTGTTTGTAAAAATTGTTAGCT
1 TTGTTTGTAAAAAATGGTAGCT
3122270 CATTTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 22 0.54
27 19 0.46
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (24 bp):
TTGTTTGTAAAAAATGGTAGCTTG
Found at i:3131523 original size:25 final size:25
Alignment explanation
Indices: 3131485--3131532 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3131475 TTTATAATAA
* *
3131485 TTTTTATCTTAAAT-TATTATTTATT
1 TTTTTATATAAAATATATT-TTTATT
3131510 TTTTTATATAAAATATATTTTTA
1 TTTTTATATAAAATATATTTTTA
3131533 CTTTCATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTTATATAAAATATATTTTTATT
Found at i:3139104 original size:17 final size:17
Alignment explanation
Indices: 3139084--3139168 Score: 52
Period size: 17 Copynumber: 5.0 Consensus size: 17
3139074 TTTAAATTTC
3139084 ATAATATTTTATTTTAT
1 ATAATATTTTATTTTAT
**
3139101 ATAATTAAGTTATTATTAT
1 ATAA-TATTTTATT-TTAT
*
3139120 A-ATTATTTTATTTT-T
1 ATAATATTTTATTTTAT
* **
3139135 ATAAAATAAATATTTTATT
1 ATAATAT-TTTATTTTA-T
3139154 ATAA-A-TTTATTTTAT
1 ATAATATTTTATTTTAT
3139169 TTCAAACTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 14
0.67 0.14 0.18
Matches are distributed among these distances:
15 3 0.06
16 12 0.24
17 17 0.33
18 9 0.18
19 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (17 bp):
ATAATATTTTATTTTAT
Found at i:3139122 original size:34 final size:36
Alignment explanation
Indices: 3139084--3139168 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 36
3139074 TTTAAATTTC
* *
3139084 ATAATATTTTATTTTATAT-AATTAAGT-TATTATT
1 ATAATATTTTATTTTATATAAAATAAATATATTATT
*
3139118 ATAATTATTTTATTTT-TATAAAATAAATATTTTATT
1 ATAA-TATTTTATTTTATATAAAATAAATATATTATT
3139154 ATAA-A-TTTATTTTAT
1 ATAATATTTTATTTTAT
3139169 TTCAAACTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
33 8 0.18
34 9 0.20
35 17 0.39
36 10 0.23
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (36 bp):
ATAATATTTTATTTTATATAAAATAAATATATTATT
Found at i:3139153 original size:36 final size:36
Alignment explanation
Indices: 3139084--3139170 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
3139074 TTTAAATTTC
* *
3139084 ATAA-TATTTTA-TTTTATATAATTAAGTTATTATT
1 ATAATTATTTTATTTTTATATAAATAAATTATTATT
*
3139118 ATAATTATTTTATTTTTATA-AAATAAATATTTTATT
1 ATAATTATTTTATTTTTATATAAATAAAT-TATTATT
3139154 ATAAATTTATTTTATTT
1 AT-AA-TTATTTTATTT
3139171 CAAACTATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.09
35 13 0.29
36 15 0.33
37 2 0.04
38 11 0.24
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (36 bp):
ATAATTATTTTATTTTTATATAAATAAATTATTATT
Found at i:3144166 original size:18 final size:18
Alignment explanation
Indices: 3144123--3144167 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
3144113 ATTTTTAAGG
3144123 TATAATAAAAAATAAAAAA
1 TATAAT-AAAAATAAAAAA
*
3144142 T-TAAATAAAAATAAAATA
1 TAT-AATAAAAATAAAAAA
3144160 TATAATAA
1 TATAATAA
3144168 TTTTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TATAATAAAAATAAAAAA
Found at i:3147904 original size:31 final size:31
Alignment explanation
Indices: 3147849--3147987 Score: 105
Period size: 34 Copynumber: 4.6 Consensus size: 31
3147839 TATTTATATT
* *
3147849 TATTTTTTAAAATAAATATATTTTTAATTAA
1 TATTATTTAATATAAATATATTTTTAATTAA
**
3147880 TATTATTTAATAT-AATATAGTTTTTATATATTTT
1 TATTATTTAATATAAATATA--TTTT-TA-ATTAA
* * *
3147914 TATTATTTAATATAAATATAATGTTAATTAC
1 TATTATTTAATATAAATATATTTTTAATTAA
*
3147945 T-TT-TTTAATATAAAAATAATTTTT-A-T--
1 TATTATTTAATATAAATAT-ATTTTTAATTAA
3147971 TATTATTTAA-ATAAATA
1 TATTATTTAATATAAATA
3147988 AAATTTTATT
Statistics
Matches: 88, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
26 1 0.01
27 8 0.09
28 6 0.07
29 14 0.16
30 12 0.14
31 15 0.17
32 6 0.07
33 4 0.05
34 16 0.18
35 6 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTATTTAATATAAATATATTTTTAATTAA
Found at i:3147923 original size:65 final size:64
Alignment explanation
Indices: 3147845--3147979 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 64
3147835 TTAATATTTA
* * * * *
3147845 TATTTATTTTTTAAAATAAATATATTTTTAATTAATATTATTTAATAT-AATATAGTTTTTATAT
1 TATTTATTATTTAAAATAAATATAATGTTAATTAAT-TT-TTTAATATAAAAATAATTTTTAT-T
3147909 AT
63 AT
* *
3147911 T-TTTATTATTTAATATAAATATAATGTTAATTACTTTTTTAATATAAAAATAATTTTTATTAT
1 TATTTATTATTTAAAATAAATATAATGTTAATTAATTTTTTAATATAAAAATAATTTTTATTAT
3147974 TATTTA
1 TATTTA
3147980 AATAAATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
63 12 0.20
64 18 0.30
65 29 0.48
66 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (64 bp):
TATTTATTATTTAAAATAAATATAATGTTAATTAATTTTTTAATATAAAAATAATTTTTATTAT
Found at i:3147926 original size:18 final size:17
Alignment explanation
Indices: 3147849--3147932 Score: 56
Period size: 17 Copynumber: 5.2 Consensus size: 17
3147839 TATTTATATT
* *
3147849 TATTTTTTAAAATAAATA
1 TATTATTTAATAT-AATA
3147867 TATT-TTTAAT-T-A-A
1 TATTATTTAATATAATA
3147880 TATTATTTAATATAATA
1 TATTATTTAATATAATA
* *
3147897 TAGTT-TTT-ATATATTTT
1 TA-TTATTTAATATA-ATA
3147914 TATTATTTAATATAA-A
1 TATTATTTAATATAATA
3147930 TAT
1 TAT
3147933 AATGTTAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
13 5 0.09
14 7 0.13
15 1 0.02
16 12 0.23
17 17 0.32
18 11 0.21
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
TATTATTTAATATAATA
Found at i:3147949 original size:35 final size:34
Alignment explanation
Indices: 3147880--3147949 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
3147870 TTTTAATTAA
* * *
3147880 TATTATTTAATATAATATAGTTTTTATATATTTT
1 TATTATTTAATATAATATAATGTTAATATATTTT
3147914 TATTATTTAATATAAATATAATGTTAAT-TACTTTT
1 TATTATTTAATAT-AATATAATGTTAATATA-TTTT
3147949 T
1 T
3147950 TAATATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (34 bp):
TATTATTTAATATAATATAATGTTAATATATTTT
Found at i:3147951 original size:29 final size:28
Alignment explanation
Indices: 3147913--3148007 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 28
3147903 TTATATATTT
3147913 TTATTATTTAATATAAATATAATGTTAA
1 TTATTATTTAATATAAATATAATGTTAA
* * * *
3147941 TTACTTTTTTAATATAAAAATAATTTTTA
1 TTA-TTATTTAATATAAATATAATGTTAA
*
3147970 TTATTATTTAA-ATAAATA-AA-ATT--
1 TTATTATTTAATATAAATATAATGTTAA
3147993 TTATTATTTAATATA
1 TTATTATTTAATATA
3148008 TAATTTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 11 0.19
24 3 0.05
25 2 0.03
26 2 0.03
27 6 0.10
28 10 0.17
29 24 0.41
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (28 bp):
TTATTATTTAATATAAATATAATGTTAA
Found at i:3148010 original size:26 final size:26
Alignment explanation
Indices: 3147911--3148010 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 26
3147901 TTTTATATAT
**
3147911 TTTTATTATTTAATATA-AATATAATG
1 TTTTATTATTTAATATATAA-ATAAAA
* * *
3147937 TTAATTACTTTTTTAATATAAAAAT-AAT
1 TT--TTA-TTATTTAATATATAAATAAAA
* *
3147965 TTTTATTA-TTATTTAAATAAATAAAA
1 TTTTATTATTTA-ATATATAAATAAAA
3147991 TTTTATTATTTAATATATAA
1 TTTTATTATTTAATATATAA
3148011 TTTTAATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
24 3 0.05
25 9 0.16
26 21 0.37
27 3 0.05
28 6 0.11
29 13 0.23
30 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
TTTTATTATTTAATATATAAATAAAA
Found at i:3148012 original size:20 final size:22
Alignment explanation
Indices: 3147970--3148015 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
3147960 ATAATTTTTA
3147970 TTATTATTTAAATAAATAAAATT
1 TTATTATTTAAAT-AATAAAATT
*
3147993 TTATTATTT-AAT-ATATAATT
1 TTATTATTTAAATAATAAAATT
3148013 TTA
1 TTA
3148016 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
22 3 0.14
23 9 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATTATTTAAATAATAAAATT
Found at i:3148035 original size:35 final size:35
Alignment explanation
Indices: 3147961--3148064 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 35
3147951 AATATAAAAA
* *
3147961 TAATT-TTTATTAT-TAT-TTAAATAAATAAAATTT
1 TAATTATTTATTATATATATTATATACAT-AAATTT
*
3147994 T-ATTATTTAATATATA-ATT-T-TA-ATAAATTT
1 TAATTATTTATTATATATATTATATACATAAATTT
*
3148024 TAATTATTTATTATATATATTATATACATATATTT
1 TAATTATTTATTATATATATTATATACATAAATTT
3148059 TAATTA
1 TAATTA
3148065 AATATTCTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
30 7 0.12
31 16 0.27
32 8 0.14
33 9 0.15
34 6 0.10
35 13 0.22
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (35 bp):
TAATTATTTATTATATATATTATATACATAAATTT
Found at i:3150072 original size:19 final size:18
Alignment explanation
Indices: 3150032--3150098 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
3150022 TTTTAATATA
*
3150032 TTATAATTATATTTTAAATT
1 TTATAATT-TATATT-AATT
*
3150052 TTTTAAATTTATATTAATT
1 TTAT-AATTTATATTAATT
*
3150071 TTATATTTTATATTATATT
1 TTATAATTTATATTA-ATT
3150090 TTAT-ATTTA
1 TTATAATTTA
3150099 AAATATTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 14 0.35
19 14 0.35
20 8 0.20
21 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATAATTTATATTAATT
Done.