Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold73
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: 1308442
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.31
Warning! 157727 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:830981 original size:2 final size:2
Alignment explanation
Indices: 830974--830998 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
830964 TTGATGCATA
830974 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
830999 ATTTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:831517 original size:2 final size:2
Alignment explanation
Indices: 831510--831535 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
831500 ATACTAATAC
831510 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
831536 TCATTCTATT
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:831876 original size:15 final size:16
Alignment explanation
Indices: 831856--831886 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
831846 TAATTAAATT
831856 TAAAAAAAT-ATTTTA
1 TAAAAAAATAATTTTA
831871 TAAAAAAATAATTTTA
1 TAAAAAAATAATTTTA
831887 ATTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAAAATAATTTTA
Found at i:832497 original size:22 final size:23
Alignment explanation
Indices: 832472--832519 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
832462 TAAAATTTTT
832472 ATAA-ATTTTAATTAATATAA-AA
1 ATAATATTTTAA-TAATATAATAA
*
832494 ATAATATTTTGATAATATAATAA
1 ATAATATTTTAATAATATAATAA
832517 ATA
1 ATA
832520 GTGAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAATATTTTAATAATATAATAA
Found at i:832696 original size:2 final size:2
Alignment explanation
Indices: 832683--832721 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
832673 ACAAATAATC
*
832683 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
832722 TTAGATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:834663 original size:15 final size:14
Alignment explanation
Indices: 834643--834689 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
834633 ATTAATTTAA
834643 TTATTTAAATTAAAT
1 TTATTTAAA-TAAAT
834658 TTATTTATAATAAAT
1 TTATTTA-AATAAAT
*
834673 TAAATTTAAATAAAT
1 T-TATTTAAATAAAT
834688 TT
1 TT
834690 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 21 0.75
16 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATTTAAATAAAT
Found at i:834673 original size:20 final size:19
Alignment explanation
Indices: 834631--834681 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
834621 GATATTTTTA
*
834631 AAATT-AATTTAATTATTT
1 AAATTAAATTTAATTATAT
*
834649 AAATTAAATTTATTTATAAT
1 AAATTAAATTTAATTAT-AT
834669 AAATTAAATTTAA
1 AAATTAAATTTAA
834682 ATAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 5 0.18
19 10 0.36
20 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTAAATTTAATTATAT
Found at i:835125 original size:13 final size:14
Alignment explanation
Indices: 835107--835139 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
835097 TTTATGATTC
835107 AAATTTTA-AATAT
1 AAATTTTAGAATAT
835120 AAATTTTATGAATAT
1 AAATTTTA-GAATAT
835135 AAATT
1 AAATT
835140 AATTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
15 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATTTTAGAATAT
Found at i:835154 original size:26 final size:26
Alignment explanation
Indices: 835125--835177 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
835115 AATATAAATT
835125 TTATGAATAT-AAATTAATTT-AATATA
1 TTAT-AATATAAAATT-ATTTAAATATA
835151 TTATAATATAAAATTATTTAAATATA
1 TTATAATATAAAATTATTTAAATATA
835177 T
1 T
835178 AATTTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTATAATATAAAATTATTTAAATATA
Found at i:835182 original size:13 final size:13
Alignment explanation
Indices: 835139--835187 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
835129 GAATATAAAT
835139 TAATTTAATATATTA
1 TAATTTAA-ATA-TA
*
835154 TAATATAAA-AT-
1 TAATTTAAATATA
835165 T-ATTTAAATATA
1 TAATTTAAATATA
835177 TAATTTAAATA
1 TAATTTAAATA
835188 AAAAGCTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 2 0.07
13 10 0.34
14 1 0.03
15 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATTTAAATATA
Found at i:835812 original size:23 final size:22
Alignment explanation
Indices: 835767--835810 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
835757 AAATTTTATT
835767 TAAATTTAATCATAAAAATAAA
1 TAAATTTAATCATAAAAATAAA
835789 TAAATATTAAT-ATAAAAATAAA
1 TAAAT-TTAATCATAAAAATAAA
835811 ATTTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAATTTAATCATAAAAATAAA
Found at i:836353 original size:28 final size:26
Alignment explanation
Indices: 836321--836411 Score: 92
Period size: 28 Copynumber: 3.3 Consensus size: 26
836311 ATAATATAAA
836321 AAAATATTATTAATATAATTTAAATAT
1 AAAATATT-TTAATATAATTTAAATAT
* * *
836348 ATAAATATTTTAAAATTTATATAAATAT
1 A-AAATATTTTAATA-TAATTTAAATAT
*
836376 AAAATATTTTAAATATAATTATAATAAAT
1 AAAATATTTT-AATATAATT-TAA-ATAT
836405 AAAATAT
1 AAAATAT
836412 ATATATATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 18 0.35
28 24 0.46
29 10 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATATTTTAATATAATTTAAATAT
Found at i:836364 original size:24 final size:23
Alignment explanation
Indices: 836337--836405 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
836327 TTATTAATAT
836337 AATTTAAATATATAAATATTTTAA
1 AATTTAAATATATAAATATTTT-A
*
836361 AATTTATATAAATATAAAATATTTTA
1 AATTTA-A-ATATAT-AAATATTTTA
* *
836387 AATATAATTATAATAAATA
1 AATTTAAATAT-ATAAATA
836406 AAATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 13 0.35
25 4 0.11
26 11 0.30
27 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTAAATATATAAATATTTTA
Found at i:838102 original size:15 final size:15
Alignment explanation
Indices: 838084--838130 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
838074 AATAAAGTTG
838084 ATTATATTAAATATA
1 ATTATATTAAATATA
838099 ATTATA-TAAATAATA
1 ATTATATTAAAT-ATA
*
838114 AGTTAT-TAAAATATA
1 A-TTATATTAAATATA
838129 AT
1 AT
838131 ATAAATAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 6 0.21
15 14 0.50
16 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATATTAAATATA
Found at i:838154 original size:27 final size:25
Alignment explanation
Indices: 838101--838178 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
838091 TAAATATAAT
838101 TATATAA-AT-AATAAGTTATTAAA
1 TATATAATATAAATAAGTTATTAAA
*
838124 -ATATAATATAAATAAGTGTTTTAAA
1 TATATAATATAAATAAGT-TATTAAA
* *
838149 -ATATATATATAATATAAATAATT-AA
1 TATATA-ATATAA-ATAAGTTATTAAA
838174 TATAT
1 TATAT
838179 CAAATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
22 6 0.13
23 2 0.04
24 7 0.16
25 13 0.29
26 12 0.27
27 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
TATATAATATAAATAAGTTATTAAA
Found at i:839028 original size:2 final size:2
Alignment explanation
Indices: 839021--839048 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
839011 TATCTATTTA
839021 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
839049 TAGCTCTTTG
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:839413 original size:18 final size:20
Alignment explanation
Indices: 839378--839418 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
839368 ATTAATAATT
*
839378 TATATTATTTAATTTTAAAA
1 TATATTATTTAATATTAAAA
839398 TATA-TATTT-ATATTAAAA
1 TATATTATTTAATATTAAAA
839416 TAT
1 TAT
839419 TAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 5 0.25
20 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATTATTTAATATTAAAA
Found at i:839426 original size:20 final size:20
Alignment explanation
Indices: 839365--839426 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 20
839355 TAAATTTTAA
839365 TATATTAATAAT-TTATATTATT
1 TATATTAA-AATATTA-A-TATT
*
839387 TAATTTTAAAATA-T-ATATT
1 T-ATATTAAAATATTAATATT
839406 TATATTAAAATATTAATATT
1 TATATTAAAATATTAATATT
839426 T
1 T
839427 TAATTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
18 10 0.29
19 6 0.18
20 7 0.21
22 5 0.15
23 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTAAAATATTAATATT
Found at i:839889 original size:26 final size:26
Alignment explanation
Indices: 839847--839900 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
839837 AAATTATTAT
*
839847 TTAATAATAATAAATTTATATAAATA
1 TTAATAATAAAAAATTTATATAAATA
* *
839873 TTAAT-ATAAAAATATTTATTTTAATA
1 TTAATAATAAAAA-ATTTATATAAATA
839899 TT
1 TT
839901 TAAATATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAATAATAAAAAATTTATATAAATA
Found at i:839896 original size:20 final size:19
Alignment explanation
Indices: 839873--839912 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
839863 TATATAAATA
839873 TTAATATAAAAATATTTATT
1 TTAATATAAAAATA-TTATT
**
839893 TTAATATTTAAATATTATT
1 TTAATATAAAAATATTATT
839912 T
1 T
839913 AAACTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATATAAAAATATTATT
Found at i:840597 original size:23 final size:25
Alignment explanation
Indices: 840566--840640 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 25
840556 TTATTAAAAT
*
840566 TTTTTAATAATTATAAATTAT-TTA
1 TTTTTAATAATTATAAATTATATAA
*
840590 -TTTTAATAA-AATAATATTATATAA
1 TTTTTAATAATTATAA-ATTATATAA
840614 TTTATTAATAATATATAAATTTATATA
1 TTT-TTAATAAT-TATAAA-TTATATA
840641 TTATTATTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
22 4 0.10
23 14 0.34
24 2 0.05
25 2 0.05
26 7 0.17
27 1 0.02
28 11 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTTTAATAATTATAAATTATATAA
Found at i:840622 original size:18 final size:20
Alignment explanation
Indices: 840600--840647 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
840590 TTTTAATAAA
840600 ATAATATTATAT-AATTTAT
1 ATAATATTATATAAATTTAT
*
840619 -TAATAATATATAAATTTAT
1 ATAATATTATATAAATTTAT
*
840638 ATATTATTAT
1 ATAATATTAT
840648 TGTATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
20 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATATTATATAAATTTAT
Found at i:840642 original size:23 final size:23
Alignment explanation
Indices: 840616--840670 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
840606 TTATATAATT
* *
840616 TATTAATAATATATAAATTTATA
1 TATTAATAATATATAAATATAAA
* * *
840639 TATTATTATTGTATAAATATAAA
1 TATTAATAATATATAAATATAAA
840662 TA-TAATAAT
1 TATTAATAAT
840671 TTAATCACAC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAATAATATATAAATATAAA
Found at i:841292 original size:18 final size:18
Alignment explanation
Indices: 841271--841399 Score: 93
Period size: 17 Copynumber: 7.6 Consensus size: 18
841261 CAATATAAAA
841271 AATAATTAAAATATATAT
1 AATAATTAAAATATATAT
*
841289 AAT-ATAAAAATA-ATAT
1 AATAATTAAAATATATAT
841305 ATATAA-TACAAATATATA-
1 A-ATAATTA-AAATATATAT
*
841323 AATATATTAAAATTTATAT
1 AATA-ATTAAAATATATAT
841342 AAT-A-T-AAAT-TAT-T
1 AATAATTAAAATATATAT
841355 AATATATTAAAAT-T-TAT
1 AATA-ATTAAAATATATAT
*
841372 AATAATTTAAATATA-AT
1 AATAATTAAAATATATAT
*
841389 TATAACTTAAA
1 AATAA-TTAAA
841400 TAAAATAATA
Statistics
Matches: 90, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.04
14 3 0.03
15 5 0.06
16 15 0.17
17 32 0.36
18 23 0.26
19 8 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAAAATATATAT
Found at i:841295 original size:20 final size:19
Alignment explanation
Indices: 841272--841348 Score: 83
Period size: 19 Copynumber: 4.2 Consensus size: 19
841262 AATATAAAAA
841272 ATAATTAAAATATATATAAT
1 ATAA-TAAAATATATATAAT
841292 AT-A-AAAATA-ATAT-AT
1 ATAATAAAATATATATAAT
841307 ATAATACAAATATATA-AAT
1 ATAATA-AAATATATATAAT
* *
841326 ATATTAAAATTTATATAAT
1 ATAATAAAATATATATAAT
841345 ATAA
1 ATAA
841349 ATTATTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
15 4 0.08
16 5 0.10
17 7 0.15
18 13 0.27
19 17 0.35
20 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATAAAATATATATAAT
Found at i:841341 original size:14 final size:14
Alignment explanation
Indices: 841324--841372 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
841314 AAATATATAA
841324 ATATATTAAAATTT
1 ATATATTAAAATTT
*
841338 ATATAATATAAATTATTA
1 ATAT-AT-TAAA--ATTT
841356 ATATATTAAAATTT
1 ATATATTAAAATTT
841370 ATA
1 ATA
841373 ATAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 8 0.28
17 2 0.07
18 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:841363 original size:32 final size:33
Alignment explanation
Indices: 841279--841386 Score: 128
Period size: 33 Copynumber: 3.2 Consensus size: 33
841269 AAAATAATTA
** * *
841279 AAATATATATAATATAAAAATAATATATATAATAC
1 AAATATATA-AATATATTAA-AATTTATATAATAT
841314 AAATATATAAATATATTAAAATTTATATAATAT
1 AAATATATAAATATATTAAAATTTATATAATAT
* *
841347 AAAT-TATTAATATATTAAAATTTATAATAATTT
1 AAATATATAAATATATTAAAATTTAT-ATAATAT
841380 AAATATA
1 AAATATA
841387 ATTATAACTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
32 20 0.31
33 26 0.40
34 10 0.15
35 9 0.14
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
AAATATATAAATATATTAAAATTTATATAATAT
Found at i:843311 original size:19 final size:21
Alignment explanation
Indices: 843274--843312 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
843264 TTAAATTTAT
843274 ATAATTAAAATTATTTATTTG
1 ATAATTAAAATTATTTATTTG
843295 ATAA-TAAAATT-TTTATTT
1 ATAATTAAAATTATTTATTT
843313 AAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
ATAATTAAAATTATTTATTTG
Found at i:843362 original size:17 final size:17
Alignment explanation
Indices: 843327--843365 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
843317 TTTATTATAA
*
843327 AAATATATAAAAAATTT
1 AAATATATAAAAAAATT
843344 AAATA-ATAAAATAAATT
1 AAATATATAAAA-AAATT
843361 AAATA
1 AAATA
843366 GATCCGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATATATAAAAAAATT
Found at i:843489 original size:21 final size:18
Alignment explanation
Indices: 843465--843503 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
843455 ATTTAAATAA
843465 TTTATGTATTTATATTATATT
1 TTTAT-TATTT-T-TTATATT
843486 TTTATTATTTTTTATATT
1 TTTATTATTTTTTATATT
843504 ATAGTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 5 0.28
21 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTATTTTTTATATT
Found at i:843505 original size:12 final size:12
Alignment explanation
Indices: 843473--843633 Score: 55
Period size: 12 Copynumber: 12.8 Consensus size: 12
843463 AATTTATGTA
843473 TTTATATTATAT
1 TTTATATTATAT
*
843485 TTT-TATTATTT
1 TTTATATTATAT
843496 TTTATATTATAGT
1 TTTATATTATA-T
* *
843509 ATTAT-TTAAAGT
1 TTTATATTATA-T
**
843521 AATATAATT-T-T
1 TTTAT-ATTATAT
843532 TTATATATTAATAT
1 TT-TATATT-ATAT
*
843546 TTATATTATGTAAATT
1 TT-TA-TAT-TATA-T
*
843562 TTTACATATAATAT
1 TTT--ATATTATAT
843576 ATTTATATTATAT
1 -TTTATATTATAT
*
843589 TTATATATAATAT
1 TT-TATATTATAT
*
843602 TTTATTATTTTA-
1 TTTA-TATTATAT
*
843614 TCT-TATTATAT
1 TTTATATTATAT
*
843625 TTTTTATTA
1 TTTATATTA
843634 ACAAAATTAA
Statistics
Matches: 113, Mismatches: 18, Indels: 36
0.68 0.11 0.22
Matches are distributed among these distances:
10 6 0.05
11 16 0.14
12 33 0.29
13 30 0.27
14 9 0.08
15 11 0.10
16 7 0.06
17 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:843610 original size:26 final size:26
Alignment explanation
Indices: 843531--843633 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 26
843521 AATATAATTT
*
843531 TTTATATATTAATATTTATATTATGTAAATT
1 TTTATATA-TAATATTT-TATTAT-T--ATA
*
843562 TTTACATATAATATATTTA-TATTATA
1 TTTATATATAATAT-TTTATTATTATA
*
843588 TTTATATATAATATTTTATTATTTTA
1 TTTATATATAATATTTTATTATTATA
*
843614 TCTTAT-TAT-ATTTTTTATTA
1 T-TTATATATAATATTTTATTA
843634 ACAAAATTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
25 14 0.22
26 25 0.39
27 4 0.06
28 1 0.02
29 3 0.05
30 8 0.12
31 9 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTATATATAATATTTTATTATTATA
Found at i:843624 original size:23 final size:22
Alignment explanation
Indices: 843567--843632 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
843557 AAATTTTTAC
*
843567 ATATAATATATTTATATTATATTT
1 ATATATTATATTT-TATTAT-TTT
*
843591 ATATATAATATTTTATTATTTT
1 ATATATTATATTTTATTATTTT
*
843613 ATCTTATTATATTTT-TTATT
1 AT-ATATTATATTTTATTATT
843633 AACAAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.27
23 16 0.43
24 11 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATATTATATTTTATTATTTT
Found at i:843795 original size:13 final size:13
Alignment explanation
Indices: 843777--843802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
843767 TATATTTATT
843777 TATATATTTTTAA
1 TATATATTTTTAA
843790 TATATATTTTTAA
1 TATATATTTTTAA
843803 AAATTTAATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATATTTTTAA
Found at i:843798 original size:31 final size:30
Alignment explanation
Indices: 843759--843849 Score: 92
Period size: 32 Copynumber: 2.9 Consensus size: 30
843749 TAAATAATTT
*
843759 AATATATTTATATTTATTTATATATTTTTAA
1 AATATATTTATA-ATATTTATATATTTTTAA
* * *
843790 TATATATTTTTAAAAATTTAATATATTTTTAA
1 AATATATTTAT-AATATTT-ATATATTTTTAA
*
843822 AATTTATATTATAATATTATATATATTT
1 AATATAT-TTATAATATT-TATATATTT
843850 ATTTTTTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
31 13 0.27
32 31 0.65
33 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
AATATATTTATAATATTTATATATTTTTAA
Found at i:843823 original size:18 final size:19
Alignment explanation
Indices: 843791--843827 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
843781 TATTTTTAAT
843791 ATATATTTTTAAAAATTTA
1 ATATATTTTTAAAAATTTA
843810 ATATATTTTT-AAAATTTA
1 ATATATTTTTAAAAATTTA
843828 TATTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATTTTTAAAAATTTA
Found at i:843890 original size:24 final size:26
Alignment explanation
Indices: 843862--843909 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
843852 TTTTTATATG
843862 ATAAAATT-ATATA-AATATATAAAA
1 ATAAAATTAATATATAATATATAAAA
*
843886 ATAAAATTAATATATATTATATAA
1 ATAAAATTAATATATAATATATAA
843910 TTATAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 5 0.24
26 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATAAAATTAATATATAATATATAAAA
Found at i:844101 original size:35 final size:36
Alignment explanation
Indices: 844040--844144 Score: 89
Period size: 33 Copynumber: 3.0 Consensus size: 36
844030 AGACTCGAAT
* *
844040 ATTTATATATTT-TATTATGTTATAATAATATTTTA-A
1 ATTTTTATATTTATATAAT-TT-TAATAATATTTTATA
*
844076 ATTTTTATATTTATATAATTTTAAT-ACA-TTTATA
1 ATTTTTATATTTATATAATTTTAATAATATTTTATA
*
844110 A--TTTATATTATATAAAATTTTAA-AATATATTTATA
1 ATTTTTATATT-TATATAATTTTAATAATAT-TTTATA
844145 TCATATTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
32 8 0.14
33 18 0.31
34 4 0.07
35 10 0.17
36 13 0.22
37 5 0.09
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (36 bp):
ATTTTTATATTTATATAATTTTAATAATATTTTATA
Found at i:844585 original size:18 final size:18
Alignment explanation
Indices: 844553--844587 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
844543 TTATATATTT
* *
844553 AAAAATTATATTAAATAA
1 AAAAATTAAAATAAATAA
844571 AAAAATTAAAATAAATA
1 AAAAATTAAAATAAATA
844588 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAATAAATAA
Found at i:845160 original size:31 final size:29
Alignment explanation
Indices: 845100--845177 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
845090 AATAAAGTAA
* *
845100 TTATATCATATAAATA-TATATTTTAAAAT
1 TTATAT-ATATAAATATTAAATATTAAAAT
845129 TTATATAATATAAATTATTAAATATTAAAAT
1 TTATAT-ATATAAA-TATTAAATATTAAAAT
845160 TTATATATATAAAATATT
1 TTATATATAT-AAATATT
845178 TTATTATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.30
30 10 0.23
31 20 0.47
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATATATATAAATATTAAATATTAAAAT
Found at i:845169 original size:16 final size:15
Alignment explanation
Indices: 845100--845174 Score: 66
Period size: 14 Copynumber: 5.0 Consensus size: 15
845090 AATAAAGTAA
845100 TTATATCATAT-AAAT
1 TTATAT-ATATAAAAT
* *
845115 ATATAT-TTTAAAAT
1 TTATATATATAAAAT
*
845129 TTATATAATATAAATT
1 TTATAT-ATATAAAAT
*
845145 ATTAAATAT-TAAAAT
1 -TTATATATATAAAAT
845160 TTATATATATAAAAT
1 TTATATATATAAAAT
845175 ATTTTATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
13 2 0.04
14 16 0.34
15 16 0.34
16 8 0.17
17 5 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATATATATAAAAT
Found at i:846855 original size:2 final size:2
Alignment explanation
Indices: 846848--846888 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
846838 AGATTTTTCG
* *
846848 AT AT AT AT -T AT TT AT TT 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
846889 TTGTCATGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:847507 original size:14 final size:14
Alignment explanation
Indices: 847454--847500 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
847444 TATTTTTATT
847454 TATATAAATTTTAA
1 TATATAAATTTTAA
* **
847468 TA-AAATAATAATAA
1 TATATA-AATTTTAA
847482 TATATAAATTTTAA
1 TATATAAATTTTAA
847496 TATAT
1 TATAT
847501 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:847900 original size:21 final size:21
Alignment explanation
Indices: 847850--847894 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
847840 ACCATAAATA
847850 AATTTAGATATTATTAAATTAT
1 AATTTA-ATATTATTAAATTAT
847872 AATTTAATATTA-TAAATT-T
1 AATTTAATATTATTAAATTAT
847891 AATT
1 AATT
847895 ATTAATCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 6 0.26
21 6 0.26
22 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTAATATTATTAAATTAT
Found at i:851393 original size:60 final size:62
Alignment explanation
Indices: 851261--851402 Score: 136
Period size: 60 Copynumber: 2.4 Consensus size: 62
851251 TTATTAATAA
* * * *
851261 AAAATAATATAAAATTTAATTTTATTAAGTGATAATTATATATTTAAATTTTTTATTTTAAAT
1 AAAATAA-ATAAAATTTAATTTTAATAAGTGATAATTATATATTTAAATATATTATTTAAAAT
* * *
851324 AAGAT--ATAAAATTTAATTTTAAT-ATTGATTAATT-T-T-TTTGAATATATTATTTAAAAAT
1 AAAATAAATAAAATTTAATTTTAATAAGTGA-TAATTATATATTTAAATATATTATTT-AAAAT
*
851382 AAAATAAAT-AAATTTATTTTT
1 AAAATAAATAAAATTTAATTTT
851403 TAAAAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
57 13 0.20
58 9 0.14
59 16 0.24
60 24 0.36
63 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (62 bp):
AAAATAAATAAAATTTAATTTTAATAAGTGATAATTATATATTTAAATATATTATTTAAAAT
Found at i:851887 original size:18 final size:18
Alignment explanation
Indices: 851847--851889 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
851837 TTATTTTAAA
851847 ATAAAA-ATAAAAAATTT
1 ATAAAATATAAAAAATTT
*
851864 ATTAAAATATAAAAATTTT
1 A-TAAAATATAAAAAATTT
851883 ATAAAAT
1 ATAAAAT
851890 TTATTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAATATAAAAAATTT
Found at i:851965 original size:11 final size:11
Alignment explanation
Indices: 851902--851967 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
851892 ATTTTACTTT
851902 AATAATA-AAA
1 AATAATATAAA
*
851912 AATAACATAAA
1 AATAATATAAA
*
851923 CATATATTTATAAA
1 -A-ATA-ATATAAA
*
851937 AAT-ATTTAAA
1 AATAATATAAA
851947 ATATAATATAAA
1 A-ATAATATAAA
851959 AATAATATA
1 AATAATATA
851968 CACATGCTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
10 12 0.27
11 13 0.30
12 10 0.23
13 4 0.09
14 5 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAATATAAA
Found at i:852054 original size:19 final size:20
Alignment explanation
Indices: 852006--852043 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
851996 AAATATTTAT
852006 AAATAAAATA-TTTATATAA
1 AAATAAAATATTTTATATAA
852025 AAATAAAATATTTTATATA
1 AAATAAAATATTTTATATA
852044 TCAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATAAAATATTTTATATAA
Found at i:852083 original size:4 final size:4
Alignment explanation
Indices: 852076--852100 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
852066 CATAATTTTT
852076 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
852101 CTCCCATACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:852947 original size:10 final size:10
Alignment explanation
Indices: 852932--852963 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
852922 ACATAACATA
852932 AATAAAAAAT
1 AATAAAAAAT
852942 AATAAAAACAT
1 AATAAAAA-AT
852953 AATAAAAAAT
1 AATAAAAAAT
852963 A
1 A
852964 TGAACATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:853010 original size:24 final size:24
Alignment explanation
Indices: 852983--853028 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
852973 TACGAATATT
* *
852983 TTAATGTGTCAAAATATATATAAA
1 TTAATGTATAAAAATATATATAAA
*
853007 TTAATGTATAAAAATTTATATA
1 TTAATGTATAAAAATATATATA
853029 CATTTTTAAT
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:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
TTAATGTATAAAAATATATATAAA
Found at i:853160 original size:19 final size:19
Alignment explanation
Indices: 853104--853168 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
853094 AATACAAAAA
* * *
853104 ATAAATATGACATGAATAT
1 ATAAATATTACATAAATTT
* *
853123 ATAAATA-TAAAAAATATTT
1 ATAAATATTACATAA-ATTT
853142 ATAAATATTACATAAATTT
1 ATAAATATTACATAAATTT
853161 AT-AATATT
1 ATAAATATT
853169 TTAAATAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 9 0.24
19 23 0.62
20 5 0.14
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAATATTACATAAATTT
Found at i:853180 original size:23 final size:23
Alignment explanation
Indices: 853153--853211 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
853143 TAAATATTAC
*
853153 ATAAATTTATAATATTTTAAATA
1 ATAAATATATAATATTTTAAATA
*
853176 ATAAAAATATAATATTTTAAATA
1 ATAAATATATAATATTTTAAATA
*
853199 AAAAATATA-AATA
1 ATAAATATATAATA
853212 CAAAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAAATATATAATATTTTAAATA
Found at i:853211 original size:13 final size:14
Alignment explanation
Indices: 853193--853221 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
853183 TATAATATTT
853193 TAAATA-AAAAATA
1 TAAATACAAAAATA
853206 TAAATACAAAAATA
1 TAAATACAAAAATA
853220 TA
1 TA
853222 CAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAATACAAAAATA
Found at i:853667 original size:16 final size:16
Alignment explanation
Indices: 853635--853668 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
853625 ATATCTTATC
* *
853635 AATTTTTATATATATT
1 AATTTTTATAAAAATT
853651 AATTTTTATAAAAATT
1 AATTTTTATAAAAATT
853667 AA
1 AA
853669 AAAGTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTTATAAAAATT
Found at i:854716 original size:16 final size:17
Alignment explanation
Indices: 854674--854720 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
854664 AAAAAATATT
*
854674 TAAAATATATACATGATA
1 TAAAA-ATATACATCATA
* *
854692 TGAATATATACA-CATA
1 TAAAAATATACATCATA
854708 TAAAAATATACAT
1 TAAAAATATACAT
854721 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 13 0.57
17 7 0.30
18 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (17 bp):
TAAAAATATACATCATA
Found at i:854775 original size:21 final size:21
Alignment explanation
Indices: 854733--854792 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
854723 AATAAAATAA
* * * *
854733 ATTATTAATATATAAAAATTT
1 ATTATAAAAATATAATATTTT
854754 ATTATAAAAATATAATATTTT
1 ATTATAAAAATATAATATTTT
854775 ATATATAAAAA-ATAATAT
1 AT-TATAAAAATATAATAT
854793 AAATACGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTATAAAAATATAATATTTT
Found at i:857827 original size:21 final size:20
Alignment explanation
Indices: 857776--857849 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
857766 AAGATTAAAA
857776 AATAA-AAAATTAATTATATT
1 AATAATAAAATTAATTATA-T
* * *
857796 AGTAGTTAAATTAATTACTAT
1 AATAATAAAATTAATTA-TAT
*
857817 AATAATAAAATTAAATTAAAAT
1 AATAATAAAATT-AATT-ATAT
*
857839 AAAAATAAAAT
1 AATAATAAAAT
857850 ATACGTTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.07
21 20 0.48
22 18 0.43
23 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (20 bp):
AATAATAAAATTAATTATAT
Found at i:858354 original size:18 final size:18
Alignment explanation
Indices: 858298--858359 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
858288 AAAAAAAGTC
858298 TAAATATTAAATATGATTT
1 TAAATATTAAATAT-ATTT
*
858317 T-AATATTAAATA-ATTA
1 TAAATATTAAATATATTT
* *
858333 TAAATATTTAATATTTTT
1 TAAATATTAAATATATTT
*
858351 TAAAAATTA
1 TAAATATTA
858360 TGTTTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.11
17 10 0.29
18 20 0.57
19 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TAAATATTAAATATATTT
Found at i:858615 original size:15 final size:14
Alignment explanation
Indices: 858560--858616 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 14
858550 ATTATTTTAA
858560 ATTTTAATTTCAAGTT
1 ATTTTAATTT-AA-TT
*
858576 ATTTTGAGTTTAATT
1 ATTTT-AATTTAATT
*
858591 ATTTAAAATTTAATTT
1 ATTT-TAATTTAA-TT
858607 ATTTTAATTT
1 ATTTTAATTT
858617 TGAATCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
15 17 0.50
16 13 0.38
17 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (14 bp):
ATTTTAATTTAATT
Found at i:858687 original size:37 final size:37
Alignment explanation
Indices: 858612--858696 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
858602 AATTTATTTT
*
858612 AATTTTGAATCAATTAAATTTAATATTTGAATTAATC
1 AATTTTGAATCAATTAAATTTAATATTCGAATTAATC
* * *
858649 AATTTTGAATCAATTAGATTTAATATTCGAGTTTATC
1 AATTTTGAATCAATTAAATTTAATATTCGAATTAATC
*
858686 AAATTT-AATCA
1 AATTTTGAATCA
858697 TTTTAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 5 0.12
37 38 0.88
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (37 bp):
AATTTTGAATCAATTAAATTTAATATTCGAATTAATC
Found at i:858736 original size:13 final size:14
Alignment explanation
Indices: 858690--858738 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
858680 TTTATCAAAT
*
858690 TTAATCATTTTAAG
1 TTAATTATTTTAAG
858704 TGTAGATTATTTTAAG
1 T-TA-ATTATTTTAAG
*
858720 TTAATTA-TTTAAT
1 TTAATTATTTTAAG
858733 TTAATT
1 TTAATT
858739 TGAGTTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 11 0.35
14 5 0.16
15 4 0.13
16 11 0.35
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (14 bp):
TTAATTATTTTAAG
Found at i:858861 original size:17 final size:15
Alignment explanation
Indices: 858831--858872 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
858821 AATTCAAATC
858831 AATATTAATAAATAT
1 AATATTAATAAATAT
858846 AATATTAAATTAAATAT
1 AATATT-AA-TAAATAT
858863 -ATCATTAATA
1 AAT-ATTAATA
858873 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATTAATAAATAT
Found at i:859533 original size:21 final size:23
Alignment explanation
Indices: 859509--859556 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
859499 ATTAAATTTT
859509 AATAAAA-ATAATTT-TTTATTA
1 AATAAAACATAATTTATTTATTA
*
859530 AATAAAACTTAATTTGATTTATTA
1 AATAAAACATAATTT-ATTTATTA
859554 AAT
1 AAT
859557 CTCATAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 6 0.26
24 10 0.43
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AATAAAACATAATTTATTTATTA
Found at i:859999 original size:34 final size:33
Alignment explanation
Indices: 859927--859999 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
859917 ATTATAAATG
* * *
859927 TAATATGAATTAATTAAAAATGAATAGATTTTAT
1 TAATATGAATTAATTAAAAAAGAATAGA-TTGAA
*
859961 TAATATGAATTAATTAAAAACAGAGTTAGA-TGAA
1 TAATATGAATTAATTAAAAA-AGA-ATAGATTGAA
859995 TAATA
1 TAATA
860000 AAAAGCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 27 0.82
35 2 0.06
36 4 0.12
ACGTcount: A:0.52, C:0.01, G:0.11, T:0.36
Consensus pattern (33 bp):
TAATATGAATTAATTAAAAAAGAATAGATTGAA
Found at i:860660 original size:21 final size:21
Alignment explanation
Indices: 860636--860709 Score: 55
Period size: 24 Copynumber: 3.4 Consensus size: 21
860626 TTATAGTATA
860636 TTTATTTATAAATATTAAAAT
1 TTTATTTATAAATATTAAAAT
* *
860657 TTTATTCATGTTAAATAATAAAAT
1 TTTATT--T-ATAAATATTAAAAT
860681 ATTTA-TTA-AAA-ATTAAAAAT
1 -TTTATTTATAAATATT-AAAAT
*
860701 TATATTTAT
1 TTTATTTAT
860710 GTTAAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
19 5 0.12
20 11 0.27
21 6 0.15
22 1 0.02
23 1 0.02
24 13 0.32
25 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
TTTATTTATAAATATTAAAAT
Found at i:860712 original size:44 final size:42
Alignment explanation
Indices: 860638--860719 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 42
860628 ATAGTATATT
* *
860638 TATTTATAAATATTAAAATTTTATTCATGTTAAATAATAAAA
1 TATTTATAAAAATTAAAATTATATTCATGTTAAATAATAAAA
*
860680 TATTTATTAAAAATTAAAAATTATATTTATGTTAAATAAT
1 TATTTA-TAAAAATT-AAAATTATATTCATGTTAAATAAT
860720 TATTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 6 0.17
43 7 0.20
44 22 0.63
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (42 bp):
TATTTATAAAAATTAAAATTATATTCATGTTAAATAATAAAA
Found at i:860953 original size:25 final size:24
Alignment explanation
Indices: 860919--860967 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
860909 AAAGCTAGAC
*
860919 TAATGATAAAT-ATATTATTATATTA
1 TAATAATAAATAATA-TATTA-ATTA
860944 TAATAATAAATAATATATTAATTA
1 TAATAATAAATAATATATTAATTA
860968 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 15 0.68
26 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATAATAAATAATATATTAATTA
Found at i:861089 original size:63 final size:63
Alignment explanation
Indices: 861022--861173 Score: 148
Period size: 63 Copynumber: 2.4 Consensus size: 63
861012 TAATATTAGC
* *
861022 ATAAA-ATAAATAAATTAAAAAGATTTAATACA-ATATATTTTATTATATT-ATAATTATATTTA
1 ATAAATATAAATAAATT-AAAA-ATTTAATACATATAAATTTTAATATATTAATAATT-TATTTA
861084 T
63 T
* * * * **
861085 ATAAATTTAAATATATTAATAATTTATTTTATATAAATTTTAATATATTAATAATTTATTTAT
1 ATAAATATAAATAAATTAAAAATTTAATACATATAAATTTTAATATATTAATAATTTATTTAT
* * * *
861148 ATAAATTTTAATATATTAATAATTTA
1 ATAAATATAAATAAATTAAAAATTTA
861174 TATTATTTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
62 7 0.09
63 55 0.71
64 15 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (63 bp):
ATAAATATAAATAAATTAAAAATTTAATACATATAAATTTTAATATATTAATAATTTATTTAT
Found at i:861113 original size:31 final size:31
Alignment explanation
Indices: 861058--861179 Score: 192
Period size: 31 Copynumber: 3.9 Consensus size: 31
861048 AATACAATAT
*
861058 ATTTTATTATATT-ATAATTATATTTATATAA
1 ATTTTAATATATTAATAATT-TATTTATATAA
*
861089 ATTTAAATATATTAATAATTTATTTTATATAA
1 ATTTTAATATATTAATAATTTA-TTTATATAA
861121 ATTTTAATATATTAATAATTTATTTATATAA
1 ATTTTAATATATTAATAATTTATTTATATAA
861152 ATTTTAATATATTAATAATTTATATTAT
1 ATTTTAATATATTAATAATTTAT-TTAT
861180 TTTATGCTCA
Statistics
Matches: 85, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
31 45 0.53
32 40 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTTAATATATTAATAATTTATTTATATAA
Found at i:861174 original size:63 final size:63
Alignment explanation
Indices: 861058--861179 Score: 201
Period size: 63 Copynumber: 1.9 Consensus size: 63
861048 AATACAATAT
* *
861058 ATTTTATTATATTATAATTATATTTATATAAATTTAAATATATTAATAATTTATTTTATATAA
1 ATTTTAATATATTATAATTATATTTATATAAATTTAAATATATTAATAATTTATATTATATAA
*
861121 ATTTTAATATATTAATAATT-TATTTATATAAATTTTAATATATTAATAATTTATATTAT
1 ATTTTAATATATT-ATAATTATATTTATATAAATTTAAATATATTAATAATTTATATTAT
861180 TTTATGCTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 49 0.89
64 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (63 bp):
ATTTTAATATATTATAATTATATTTATATAAATTTAAATATATTAATAATTTATATTATATAA
Found at i:862558 original size:26 final size:26
Alignment explanation
Indices: 862535--862584 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
862525 ACAATTTATA
*
862535 ATTCAGATTCTTCATTACTCTTTAAT
1 ATTCAGATTCCTCATTACTCTTTAAT
* * *
862561 TTTCAGATTCCTCCTTATTCTTTA
1 ATTCAGATTCCTCATTACTCTTTA
862585 CTTTCCAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.52
Consensus pattern (26 bp):
ATTCAGATTCCTCATTACTCTTTAAT
Found at i:873478 original size:16 final size:19
Alignment explanation
Indices: 873459--873496 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
873449 TATATTTAAA
873459 AAATT-ATAT-AATA-TTT
1 AAATTAATATGAATACTTT
873475 AAATTAATATGAATACTTT
1 AAATTAATATGAATACTTT
873494 AAA
1 AAA
873497 AAAATAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 4 0.21
18 4 0.21
19 6 0.32
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATTAATATGAATACTTT
Found at i:873502 original size:19 final size:17
Alignment explanation
Indices: 873450--873502 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
873440 ATTTTTTTAT
873450 ATATTTAAAAAATTATATA
1 ATATTTAAAAAA--ATATA
**
873469 ATATTTAAATTAATATGA
1 ATATTTAAAAAAATAT-A
873487 ATACTTTAAAAAAATA
1 ATA-TTTAAAAAAATA
873503 AAGATGGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 20 0.71
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATTTAAAAAAATATA
Found at i:875241 original size:21 final size:21
Alignment explanation
Indices: 875216--875255 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
875206 TAAGTTGATC
875216 TAAT-AAAAATTATTATTTAAA
1 TAATAAAAAATTATT-TTTAAA
875237 TAATAAAAAATTATTTTTA
1 TAATAAAAAATTATTTTTA
875256 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATAAAAAATTATTTTTAAA
Found at i:878019 original size:22 final size:21
Alignment explanation
Indices: 877985--878032 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
877975 TTTTTACTAT
*
877985 AAAAATAAATTTTAAAAAGGGG
1 AAAAATAAATTTT-AAAAGGGA
* *
878007 AAAATTAAGTTTTAAAAGGGA
1 AAAAATAAATTTTAAAAGGGA
878028 AAAAA
1 AAAAA
878033 ACATAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (21 bp):
AAAAATAAATTTTAAAAGGGA
Found at i:878366 original size:22 final size:21
Alignment explanation
Indices: 878332--878372 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
878322 TCAATTATGT
* *
878332 TTTTAATTTTTGATTTAATCG
1 TTTTAATTATTGAATTAATCG
878353 TTTTAATTAATTGAATTAAT
1 TTTTAATT-ATTGAATTAAT
878373 TAATTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTAATTATTGAATTAATCG
Found at i:878371 original size:13 final size:13
Alignment explanation
Indices: 878355--878384 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
878345 TTTAATCGTT
878355 TTAATTAATTGAA
1 TTAATTAATTGAA
*
878368 TTAATTAATTTAA
1 TTAATTAATTGAA
878381 TTAA
1 TTAA
878385 AATATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTAATTAATTGAA
Found at i:878408 original size:20 final size:19
Alignment explanation
Indices: 878383--878430 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
878373 TAATTTAATT
*
878383 AAAATATTTTATAATATTTA
1 AAAATATTTT-TAATATTAA
*
878403 AAAATAATTTTAATATTAA
1 AAAATATTTTTAATATTAA
878422 ATAAATATT
1 A-AAATATT
878431 AAATATGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATATTTTTAATATTAA
Found at i:879307 original size:16 final size:19
Alignment explanation
Indices: 879270--879304 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
879260 TTATGAATAA
879270 ATATTAACATATAATTTTT
1 ATATTAACATATAATTTTT
879289 ATATTAA-ATAT-ATTTT
1 ATATTAACATATAATTTT
879305 ATAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTAACATATAATTTTT
Found at i:879664 original size:2 final size:2
Alignment explanation
Indices: 879657--879684 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
879647 TTTACTAGCA
879657 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
879685 GTAATGTGGA
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:879803 original size:2 final size:2
Alignment explanation
Indices: 879796--879844 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
879786 GCTCATTACA
*
879796 AT AT AT AT AC AT AT -T 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
879837 AT AT AT AT
1 AT AT AT AT
879845 GCTCCTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:881866 original size:40 final size:40
Alignment explanation
Indices: 881822--881898 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
881812 TAAAACTTAC
881822 TTATTATAAGAGTTTTAAAAATTAAACTAAAATTATTAAG
1 TTATTATAAGAGTTTTAAAAATTAAACTAAAATTATTAAG
*
881862 TTATTATAAGAGTTTTAAAAATTAAATTAAAATTATT
1 TTATTATAAGAGTTTTAAAAATTAAACTAAAATTATT
881899 TGATAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (40 bp):
TTATTATAAGAGTTTTAAAAATTAAACTAAAATTATTAAG
Found at i:886329 original size:2 final size:2
Alignment explanation
Indices: 886322--886367 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
886312 TTTAATAGGA
886322 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
886364 AT AT
1 AT AT
886368 CTTTCAGTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:888113 original size:20 final size:21
Alignment explanation
Indices: 888076--888116 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
888066 TCTTTTGCTC
888076 TTTAAAAAATTATAAAAATAA
1 TTTAAAAAATTATAAAAATAA
*
888097 TTTAAAAAATT-TGAAAATAA
1 TTTAAAAAATTATAAAAATAA
888117 AAAACTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTTAAAAAATTATAAAAATAA
Found at i:888572 original size:20 final size:20
Alignment explanation
Indices: 888547--888639 Score: 72
Period size: 19 Copynumber: 4.8 Consensus size: 20
888537 AAAGATTATT
888547 AATATATTAAAATTAATATA
1 AATATATTAAAATTAATATA
*
888567 AATATA-AAAAATT--T-TA
1 AATATATTAAAATTAATATA
* *
888583 AATATAATTATAATATCATA-A
1 AATAT-ATTAAAAT-TAATATA
*
888604 AATATA-TAAAAATAATATA
1 AATATATTAAAATTAATATA
*
888623 AATATATAAATAATTAA
1 AATATATTAA-AATTAA
888640 ATCTAATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
16 7 0.12
17 2 0.04
18 8 0.14
19 18 0.32
20 9 0.16
21 12 0.21
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (20 bp):
AATATATTAAAATTAATATA
Found at i:888620 original size:56 final size:56
Alignment explanation
Indices: 888547--888657 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
888537 AAAGATTATT
* *
888547 AATATATTAAAATTAATATAAATATA-AAA-AATTTTAAATATAATTATAATATCATAA
1 AATATATTAAAAATAATATAAATATATAAATAA--TTAAATATAATT-TAAAATCATAA
*
888604 AATATA-TAAAAATAATATAAATATATAAATAATTAAATCTAATTTAAAATCATA
1 AATATATTAAAAATAATATAAATATATAAATAATTAAATATAATTTAAAATCATA
888658 TTTCTTTCGC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
55 9 0.18
56 29 0.59
57 9 0.18
58 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (56 bp):
AATATATTAAAAATAATATAAATATATAAATAATTAAATATAATTTAAAATCATAA
Found at i:888646 original size:27 final size:27
Alignment explanation
Indices: 888550--888651 Score: 93
Period size: 27 Copynumber: 3.7 Consensus size: 27
888540 GATTATTAAT
*
888550 ATATTAAA-ATTAATATAAATATAAAAA
1 ATATTAAATA-TAATATAAATATATAAA
*
888577 ATTTTAAATATAAT-TATAATATCATAAA
1 ATATTAAATATAATATA-AATAT-ATAAA
*
888605 ATATATAAAAATAATATAAATATAT-AA
1 ATAT-TAAATATAATATAAATATATAAA
* *
888632 ATAATTAAATCTAATTTAAA
1 AT-ATTAAATATAATATAAA
888652 ATCATATTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
26 2 0.03
27 32 0.52
28 12 0.19
29 14 0.23
30 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATTAAATATAATATAAATATATAAA
Found at i:889795 original size:19 final size:20
Alignment explanation
Indices: 889758--889800 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
889748 ATATTAAATA
889758 TAAATATTTATTTATATATT
1 TAAATATTTATTTATATATT
889778 TAAAT-TTT-TTTAATATATT
1 TAAATATTTATTT-ATATATT
889797 TAAA
1 TAAA
889801 AAATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAATATTTATTTATATATT
Found at i:892680 original size:28 final size:28
Alignment explanation
Indices: 892640--892695 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
892630 TATATGTCTA
892640 TATCTTTGAACTATTGTTGAATTTTGTT
1 TATCTTTGAACTATTGTTGAATTTTGTT
892668 TATCTTTGAACTATTGTTGAATTTTGTT
1 TATCTTTGAACTATTGTTGAATTTTGTT
892696 AAGACTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (28 bp):
TATCTTTGAACTATTGTTGAATTTTGTT
Found at i:896061 original size:2 final size:2
Alignment explanation
Indices: 896048--896086 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
896038 GCCCCATAGA
* *
896048 TC TC TC TG TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
896087 ATATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.54
Consensus pattern (2 bp):
TC
Found at i:896141 original size:14 final size:14
Alignment explanation
Indices: 896122--896150 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
896112 GAAGGATAAG
896122 AACCAAATGTGCTT
1 AACCAAATGTGCTT
896136 AACCAAATGTGCTT
1 AACCAAATGTGCTT
896150 A
1 A
896151 CTTTAAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (14 bp):
AACCAAATGTGCTT
Found at i:896785 original size:40 final size:40
Alignment explanation
Indices: 896709--896791 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
896699 GTTTAACTTG
* * *
896709 AAATAATGAATAAAAATTTATTTTTATTTAAATTTAATAT
1 AAATAATGAATAAAAATTTATATATATTTAAATTTAAAAT
*
896749 AAATAAT-AATAAAAATTTA-ATATATTTTAATTTTTAAAAT
1 AAATAATGAATAAAAATTTATATATA-TTTAA-ATTTAAAAT
896789 AAA
1 AAA
896792 AATTTAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.08
39 17 0.46
40 17 0.46
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (40 bp):
AAATAATGAATAAAAATTTATATATATTTAAATTTAAAAT
Found at i:898936 original size:16 final size:16
Alignment explanation
Indices: 898915--898981 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
898905 AATAAAAAAC
898915 TTAATAAAATATATAA
1 TTAATAAAATATATAA
898931 TTAATAAAA-AT-TAGA
1 TTAATAAAATATATA-A
898946 TT-A-AAAATATAT--
1 TTAATAAAATATATAA
* *
898958 TT--TAAAATAAAAAA
1 TTAATAAAATATATAA
898972 TTAATAAAAT
1 TTAATAAAAT
898982 TAAATAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
12 9 0.22
13 4 0.10
14 7 0.17
15 6 0.15
16 15 0.37
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (16 bp):
TTAATAAAATATATAA
Found at i:898999 original size:40 final size:41
Alignment explanation
Indices: 898919--898999 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
898909 AAAAACTTAA
* * *
898919 TAAAATATATAATTAATAAAAATTAGATTAAAAATATATTT
1 TAAAATAAAAAATTAATAAAAATTAGAATAAAAATATATTT
*
898960 TAAAATAAAAAATTAAT-AAAATTA-AATAAAATATTTATTT
1 TAAAATAAAAAATTAATAAAAATTAGAATAAAA-ATATATTT
899000 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 6 0.17
40 14 0.40
41 15 0.43
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (41 bp):
TAAAATAAAAAATTAATAAAAATTAGAATAAAAATATATTT
Found at i:899355 original size:3 final size:3
Alignment explanation
Indices: 899336--899378 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
899326 GCGCTATCTC
* *
899336 TCT TC- TCT TCT TTT TCT TCT TTT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
899379 AATCTCTCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:902969 original size:17 final size:18
Alignment explanation
Indices: 902947--902982 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
902937 TTTAATAAAA
*
902947 ATATATTTA-ATTTTTTT
1 ATATATTTATAATTTTTT
902964 ATATATTTATAATTTTTT
1 ATATATTTATAATTTTTT
902982 A
1 A
902983 AAAAAATAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATATTTATAATTTTTT
Found at i:906241 original size:11 final size:12
Alignment explanation
Indices: 906225--906260 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
906215 ATTTTATAAT
906225 AAAATATTTA-A
1 AAAATATTTATA
906236 AAAATATTTTATA
1 AAAATA-TTTATA
906249 AAAATATTTATA
1 AAAATATTTATA
906261 TATTTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:906253 original size:13 final size:13
Alignment explanation
Indices: 906214--906262 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
906204 ATTTACTGTT
906214 TATTTTATAATAAA
1 TATTTTATAA-AAA
906228 -ATATTTA-AAAAA
1 TAT-TTTATAAAAA
906240 TATTTTATAAAAA
1 TATTTTATAAAAA
906253 TATTTATATA
1 TATTT-TATA
906263 TTTTATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.23
13 16 0.52
14 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTTTATAAAAA
Found at i:906519 original size:38 final size:38
Alignment explanation
Indices: 906468--906540 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
906458 ATTAAAAAAA
* *
906468 ATCAAATAATCAATGATGAAAAACGGGATCGGACTGAC
1 ATCAAATAATCAATAATGAAAAACGAGATCGGACTGAC
*
906506 ATCAAATAATCAATAATGAAAAATGAGATCGGACT
1 ATCAAATAATCAATAATGAAAAACGAGATCGGACT
906541 TATCAGTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (38 bp):
ATCAAATAATCAATAATGAAAAACGAGATCGGACTGAC
Found at i:906875 original size:17 final size:16
Alignment explanation
Indices: 906849--906913 Score: 85
Period size: 16 Copynumber: 3.8 Consensus size: 16
906839 TATATATTTT
906849 TTTTTATTTTTTAAAA
1 TTTTTATTTTTTAAAA
906865 TTTTTATTTTTTAAAA
1 TTTTTATTTTTTAAAA
906881 TTTTATAATTTTTTTAAAA
1 TTTT-T-A-TTTTTTAAAA
*
906900 ATTTTATTATTTTA
1 TTTTTATT-TTTTA
906914 TTTTTTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
16 22 0.50
17 7 0.16
18 2 0.05
19 13 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATTTTTTAAAA
Found at i:907789 original size:2 final size:2
Alignment explanation
Indices: 907782--907820 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
907772 TTTATTTTCT
907782 TA TA 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 TA TA T
907821 TCTTTTCCAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:912251 original size:28 final size:27
Alignment explanation
Indices: 912220--912308 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 27
912210 ATAAATATTT
912220 TAAAATTTATATAATATTAATATAAATA
1 TAAAATTTATA-AATATTAATATAAATA
*
912248 TAAAATATTTTAAATA-TAATATAATATAA
1 TAAAAT-TTATAAATATTAATATAA-AT-A
* * *
912277 TAAAATATATAAATATTATATGTATATA
1 TAAAATTTATAAATATTA-ATATAAATA
912305 TAAA
1 TAAA
912309 TTATCAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.16
28 24 0.47
29 15 0.29
30 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
TAAAATTTATAAATATTAATATAAATA
Found at i:912278 original size:37 final size:38
Alignment explanation
Indices: 912194--912293 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
912184 ATTTAACATA
* *
912194 AATATAATATAAAAATATAAATATTTTAAAATTTATAT
1 AATATAATATAAATATATAAATATTTTAAAATTAATAT
912232 AATATTAATATAAATATA-AAATATTTT-AAATATAATAT
1 AATA-TAATATAAATATATAAATATTTTAAAAT-TAATAT
912270 AATATAATA-AAATATATAAATATT
1 AATATAATATAAATATATAAATATT
912294 ATATGTATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
36 7 0.12
37 16 0.28
38 22 0.39
39 12 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (38 bp):
AATATAATATAAATATATAAATATTTTAAAATTAATAT
Found at i:912318 original size:36 final size:36
Alignment explanation
Indices: 912182--912296 Score: 116
Period size: 38 Copynumber: 3.2 Consensus size: 36
912172 ACCTGTTTTG
912182 ATATT-TAACATA-AATATAATAT-A-AAAATAT-AA
1 ATATTATAA-ATATAATATAATATAATAAAATATAAA
* *
912214 ATATTTTAAA-ATTTATATAATATTAATATAAATATAAA
1 ATATTATAAATA-TAATATAATA-TAATA-AAATATAAA
*
912252 ATATTTTAAATATAATATAATATAATAAAATATATAA
1 ATATTATAAATATAATATAATATAATAAAATATA-AA
912289 ATATTATA
1 ATATTATA
912297 TGTATATATA
Statistics
Matches: 70, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
31 1 0.01
32 6 0.09
33 11 0.16
34 1 0.01
35 1 0.01
36 8 0.11
37 20 0.29
38 21 0.30
39 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (36 bp):
ATATTATAAATATAATATAATATAATAAAATATAAA
Found at i:913691 original size:12 final size:12
Alignment explanation
Indices: 913674--913740 Score: 66
Period size: 12 Copynumber: 5.3 Consensus size: 12
913664 AAATATTATA
913674 TTTTAATTTAAT
1 TTTTAATTTAAT
913686 TTTTAATTTAATAT
1 TTTTAATTT-A-AT
*
913700 TTTTAA--AAAT
1 TTTTAATTTAAT
913710 ATTATTAATTTAAT
1 -TT-TTAATTTAAT
913724 TTTTAATTTAAT
1 TTTTAATTTAAT
913736 ATTTT
1 -TTTT
913741 TAAAAAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
10 2 0.04
11 3 0.07
12 23 0.50
13 7 0.15
14 11 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAATTTAAT
Found at i:913718 original size:38 final size:38
Alignment explanation
Indices: 913671--913769 Score: 150
Period size: 38 Copynumber: 2.7 Consensus size: 38
913661 TTTAAATATT
913671 ATATT-TTAATTTAATTTTTAATTTAATATTTTTAAAA
1 ATATTATTAATTTAATTTTTAATTTAATATTTTTAAAA
913708 ATATTATTAATTTAATTTTTAATTTAATATTTTTAAAA
1 ATATTATTAATTTAATTTTTAATTTAATATTTTTAAAA
* * *
913746 A-A-TATTAATTAAAATTTTACTTTA
1 ATATTATTAATTTAATTTTTAATTTA
913770 TCAATTATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
36 19 0.33
37 6 0.10
38 33 0.57
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (38 bp):
ATATTATTAATTTAATTTTTAATTTAATATTTTTAAAA
Found at i:913743 original size:26 final size:28
Alignment explanation
Indices: 913674--913743 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 28
913664 AAATATTATA
913674 TTTTAATTT-A-ATTTTTAATTTAATAT
1 TTTTAATTTAATATTTTTAATTTAATAT
* *
913700 TTTTAA--AAATATTATTAATTT-A-AT
1 TTTTAATTTAATATTTTTAATTTAATAT
913724 TTTTAATTTAATATTTTTAA
1 TTTTAATTTAATATTTTTAA
913744 AAAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
24 8 0.22
25 2 0.06
26 26 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAATTTAATATTTTTAATTTAATAT
Found at i:913874 original size:17 final size:18
Alignment explanation
Indices: 913854--913892 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
913844 ACATATTATA
*
913854 AAAAATATTATATCAT-C
1 AAAAATATGATATCATAC
*
913871 AAAATTATGATATCATAC
1 AAAAATATGATATCATAC
913889 AAAA
1 AAAA
913893 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATATGATATCATAC
Found at i:915285 original size:6 final size:6
Alignment explanation
Indices: 915274--915301 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
915264 TTTGCCTATA
915274 AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATT
915302 GCCCTGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:916841 original size:18 final size:19
Alignment explanation
Indices: 916802--916841 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
916792 ATATATTTGA
916802 TTTAAATATATTTAATTTT
1 TTTAAATATATTTAATTTT
*
916821 TTTAAGTATATTTAATTTT
1 TTTAAATATATTTAATTTT
916840 TT
1 TT
916842 GCATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTAAATATATTTAATTTT
Found at i:917371 original size:17 final size:17
Alignment explanation
Indices: 917349--917382 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
917339 CGAAGAGTTT
917349 GTCCAACATGCATACGA
1 GTCCAACATGCATACGA
917366 GTCCAACATGCATACGA
1 GTCCAACATGCATACGA
917383 TATAAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (17 bp):
GTCCAACATGCATACGA
Found at i:921158 original size:16 final size:16
Alignment explanation
Indices: 921137--921202 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 16
921127 ATATATATTA
921137 TTATATTTATTTAAAT
1 TTATATTTATTTAAAT
*
921153 TTATATTTA-ATAAAT
1 TTATATTTATTTAAAT
*
921168 TT-TAATTAATTTAAAATT
1 TTAT-ATTTATTT-AAA-T
921186 TTATATTATTATTTAAA
1 TTATA-T-TTATTTAAA
921203 AATATATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
14 1 0.03
15 11 0.28
16 10 0.26
17 3 0.08
18 4 0.10
19 5 0.13
20 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTTATTTAAAT
Found at i:921169 original size:15 final size:16
Alignment explanation
Indices: 921137--921169 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
921127 ATATATATTA
*
921137 TTATATTTATTTAAAT
1 TTATATTTATATAAAT
921153 TTATATTTA-ATAAAT
1 TTATATTTATATAAAT
921168 TT
1 TT
921170 TAATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATTTATATAAAT
Found at i:921169 original size:21 final size:19
Alignment explanation
Indices: 921145--921205 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
921135 TATTATATTT
921145 ATTTAAATTTATATTTAATAA
1 ATTTAAA-TTATATTTAA-AA
*
921166 ATTTTAATTA-ATTTAAAA
1 ATTTAAATTATATTTAAAA
* *
921184 TTTTATATTATTATTTAAAA
1 ATTTAAATTA-TATTTAAAA
921204 AT
1 AT
921206 ATATTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 9 0.27
19 6 0.18
20 12 0.36
21 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAATTATATTTAAAA
Found at i:921186 original size:17 final size:19
Alignment explanation
Indices: 921153--921264 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 19
921143 TTATTTAAAT
921153 TTATATTTAATAAATTTTA-A
1 TTATATTT-A-AAATTTTATA
921173 TTA-ATTTAAAATTTTATA
1 TTATATTTAAAATTTTATA
*
921191 TTATTATTTAAAA--ATATA
1 TTA-TATTTAAAATTTTATA
*
921209 TTAAAATATTATAAATTTTATA
1 TT-ATAT-TTA-AAATTTTATA
*
921231 TTAACATTTATAAATTTTATAA
1 TT-ATATTTA-AAATTTTAT-A
*
921253 TTA-ATTTTAAAT
1 TTATATTTAAAAT
921265 AAAAATTATT
Statistics
Matches: 78, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
17 8 0.10
18 13 0.17
19 12 0.15
20 18 0.23
21 14 0.18
22 13 0.17
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATTTAAAATTTTATA
Found at i:921232 original size:22 final size:21
Alignment explanation
Indices: 921157--921256 Score: 88
Period size: 22 Copynumber: 5.0 Consensus size: 21
921147 TTAAATTTAT
921157 ATTTAATAAATTTTA-ATT--A
1 ATTT-ATAAATTTTATATTAAA
**
921176 ATTTA-AAATTTTATATTATT
1 ATTTATAAATTTTATATTAAA
*
921196 ATTTA-AAA--ATATATTAAA
1 ATTTATAAATTTTATATTAAA
*
921214 ATATTATAAATTTTATATTAAC
1 AT-TTATAAATTTTATATTAAA
921236 ATTTATAAATTTTATAATTAA
1 ATTTATAAATTTTAT-ATTAA
921257 TTTTAAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.12
18 13 0.19
19 7 0.10
20 11 0.16
21 13 0.19
22 15 0.22
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTATAAATTTTATATTAAA
Found at i:921241 original size:21 final size:20
Alignment explanation
Indices: 921157--921264 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 20
921147 TTAAATTTAT
921157 ATTTAATAAATTTTA-ATT-A
1 ATTT-ATAAATTTTATATTAA
*
921176 ATTTA-AAATTTTATATTATT
1 ATTTATAAATTTTATATTA-A
*
921196 ATTTA-AAA--ATATATTAAA
1 ATTTATAAATTTTATATT-AA
921214 ATATTATAAATTTTATATTAA
1 AT-TTATAAATTTTATATTAA
921235 CATTTATAAATTTTATAATT-A
1 -ATTTATAAATTTTAT-ATTAA
921256 ATTT-TAAAT
1 ATTTATAAAT
921265 AAAAATTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
17 8 0.11
18 12 0.16
19 13 0.17
20 15 0.20
21 16 0.21
22 11 0.15
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTATAAATTTTATATTAA
Found at i:921264 original size:40 final size:40
Alignment explanation
Indices: 921157--921264 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 40
921147 TTAAATTTAT
* **
921157 ATTTAATAAA-TTT-TAATTAATTTAAAATTTTATATTATT
1 ATTT-ATAAATTTTATAATTAATTTTAAATTTTATATTAAC
* * *
921196 ATTTAAAAATATATTA-AAAT-ATTATAAATTTTATATTAAC
1 ATTTATAAAT-T-TTATAATTAATTTTAAATTTTATATTAAC
921236 ATTTATAAATTTTATAATTAATTTTAAAT
1 ATTTATAAATTTTATAATTAATTTTAAAT
921265 AAAAATTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
38 7 0.13
39 8 0.15
40 34 0.63
41 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (40 bp):
ATTTATAAATTTTATAATTAATTTTAAATTTTATATTAAC
Found at i:934963 original size:47 final size:48
Alignment explanation
Indices: 934877--934973 Score: 187
Period size: 47 Copynumber: 2.0 Consensus size: 48
934867 ATGCAACAAA
934877 ACATTATCCAACAAAAGAAAAAAAAAGAAGAAGAAAACTCTTCAAATC
1 ACATTATCCAACAAAAGAAAAAAAAAGAAGAAGAAAACTCTTCAAATC
934925 ACATTATCCAACAAAA-AAAAAAAAAGAAGAAGAAAACTCTTCAAATC
1 ACATTATCCAACAAAAGAAAAAAAAAGAAGAAGAAAACTCTTCAAATC
934972 AC
1 AC
934974 CAAGACAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 33 0.67
48 16 0.33
ACGTcount: A:0.61, C:0.18, G:0.07, T:0.14
Consensus pattern (48 bp):
ACATTATCCAACAAAAGAAAAAAAAAGAAGAAGAAAACTCTTCAAATC
Done.