Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold136
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: 1039917
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.32
Warning! 114553 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:819713 original size:2 final size:2
Alignment explanation
Indices: 819706--819737 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
819696 ACTATTACTG
819706 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
819738 TTGTATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:820242 original size:20 final size:20
Alignment explanation
Indices: 820219--820299 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
820209 TATTTTTATG
820219 TATTATAATAATATTTAATA
1 TATTATAATAATATTTAATA
* *
820239 TATTAT-ATATTTATATAA-A
1 TATTATAATA-ATATTTAATA
*
820258 TTTTTATATATTAATATTT--TA
1 -TATTATA-A-TAATATTTAATA
*
820279 TATTATATTAATATTTAATA
1 TATTATAATAATATTTAATA
820299 T
1 T
820300 TTTTATATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
18 8 0.17
19 4 0.09
20 26 0.57
21 1 0.02
22 5 0.11
23 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATAATAATATTTAATA
Found at i:820280 original size:25 final size:26
Alignment explanation
Indices: 820221--820307 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
820211 TTTTTATGTA
820221 TTATAATAATATTTAATATATT-ATATAT
1 TTAT-ATAATA-TTAATATATTAATAT-T
* *
820249 TTATATAAATTTTTATATATTAATATT
1 TTATAT-AATATTAATATATTAATATT
*
820276 TTATATTATATTAATAT-TTAATATTT
1 TTATATAATATTAATATATTAATA-TT
820302 TTATAT
1 TTATAT
820308 TAATTTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 6 0.12
26 16 0.31
27 18 0.35
28 11 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATATAATATTAATATATTAATATT
Found at i:820285 original size:18 final size:18
Alignment explanation
Indices: 820233--820300 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
820223 ATAATAATAT
820233 TTAATATATTATATATT-TA
1 TTAATAT-TT-TATATTATA
820252 TATAA-ATTTT-TA-TATA
1 T-TAATATTTTATATTATA
820268 TTAATATTTTATATTATA
1 TTAATATTTTATATTATA
*
820286 TTAATATTTAATATT
1 TTAATATTTTATATT
820301 TTTATATTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
15 4 0.09
16 10 0.23
17 3 0.07
18 20 0.47
19 3 0.07
20 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATATTTTATATTATA
Found at i:820319 original size:15 final size:14
Alignment explanation
Indices: 820248--820323 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 14
820238 ATATTATATA
*
820248 TTTATATAAATTTT
1 TTTATATTAATTTT
* *
820262 TATATATTAA-TAT
1 TTTATATTAATTTT
*
820275 TTTATATT-ATATT
1 TTTATATTAATTTT
** *
820288 AATAT-TTAATATT
1 TTTATATTAATTTT
820301 TTTATATTAATTTT
1 TTTATATTAATTTT
820315 ATTTATATT
1 -TTTATATT
820324 TTAATATTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.06
13 21 0.45
14 15 0.32
15 8 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATATTAATTTT
Found at i:820327 original size:31 final size:27
Alignment explanation
Indices: 820196--820332 Score: 79
Period size: 26 Copynumber: 5.0 Consensus size: 27
820186 TAATAATTCG
*
820196 TATATTTATATTT-TATTTT--TATGTAT
1 TATA-TTATATTTATATTTTAATAT-TTT
* * *
820222 TATAATAATATTTAATATATT-ATATATT
1 TAT-ATTATATTT-ATATTTTAATATTTT
* * *
820250 TATATAAATTTTTATATATTAATA-TTT
1 TATAT-TATATTTATATTTTAATATTTT
*
820277 TATATTATATTAATA-TTTAATATTTT
1 TATATTATATTTATATTTTAATATTTT
820303 TATATTAATTTTATTTATATTTTAATATTT
1 TATATT-A---TATTTATATTTTAATATTT
820333 AAAATTATCA
Statistics
Matches: 88, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
25 6 0.07
26 26 0.30
27 18 0.20
28 18 0.20
29 3 0.03
30 7 0.08
31 10 0.11
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
TATATTATATTTATATTTTAATATTTT
Found at i:820334 original size:7 final size:7
Alignment explanation
Indices: 820227--820301 Score: 54
Period size: 7 Copynumber: 11.1 Consensus size: 7
820217 TGTATTATAA
820227 TAATATT
1 TAATATT
820234 TAATATAT
1 TAATAT-T
820242 TATATATT
1 TA-ATATT
820250 T-ATA-T
1 TAATATT
*
820255 AAAT-TT
1 TAATATT
*
820261 TTATATAT
1 TAATAT-T
820269 TAATATT
1 TAATATT
*
820276 TTATA-T
1 TAATATT
820282 T-ATA-T
1 TAATATT
820287 TAATATT
1 TAATATT
820294 TAATATT
1 TAATATT
820301 T
1 T
820302 TTATATTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
5 6 0.11
6 13 0.24
7 21 0.38
8 11 0.20
9 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAATATT
Found at i:820340 original size:24 final size:24
Alignment explanation
Indices: 820268--820340 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
820258 TTTTTATATA
820268 TTAATATTTT-ATATTATATTAA-TAT
1 TTAATATTTTAATATTA-A--AATTAT
* **
820293 TTAATATTTTTATATTAATTTTAT
1 TTAATATTTTAATATTAAAATTAT
820317 TT-ATATTTTAATATTTAAAATTAT
1 TTAATATTTTAATA-TTAAAATTAT
820341 CAATAAGACG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 10 0.25
24 13 0.32
25 11 0.28
26 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTAATATTTTAATATTAAAATTAT
Found at i:823871 original size:23 final size:22
Alignment explanation
Indices: 823836--823879 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
823826 AATTTTAAAA
823836 ATATTTTTAAATTAATATTTAT
1 ATATTTTTAAATTAATATTTAT
823858 ATATTTTTATAATTAATATTTA
1 ATATTTTTA-AATTAATATTTA
823880 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTTTTAAATTAATATTTAT
Found at i:825919 original size:17 final size:19
Alignment explanation
Indices: 825899--825942 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
825889 ATGTAAAATA
*
825899 ATTTTTTTATTTT-TA-AT
1 ATTTTATTATTTTATACAT
825916 ATTTTATTATTTTATACAT
1 ATTTTATTATTTTATACAT
825935 ATTTTATT
1 ATTTTATT
825943 TCAATTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
18 2 0.08
19 10 0.42
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTATTATTTTATACAT
Found at i:826342 original size:2 final size:2
Alignment explanation
Indices: 826337--826374 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
826327 ATATGTAGAT
*
826337 AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
826375 CAAAAGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:827459 original size:22 final size:22
Alignment explanation
Indices: 827434--827491 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
827424 TATTTTAATA
827434 AATTTTATATAATTTAAATTAT
1 AATTTTATATAATTTAAATTAT
*
827456 AATTATTA-ATTAA-TTACATTAT
1 AATT-TTATA-TAATTTAAATTAT
*
827478 AATACTTATATAAT
1 AAT-TTTATATAAT
827492 AAGTGATCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTTATATAATTTAAATTAT
Found at i:828031 original size:11 final size:12
Alignment explanation
Indices: 827997--828079 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 12
827987 AAACATTAAA
827997 ATAA-TAAAAAT
1 ATAATTAAAAAT
**
828008 ATATATTTTAAAT
1 ATA-ATTAAAAAT
828021 ATAA-TAAAAAT
1 ATAATTAAAAAT
828032 -TAATTAAAAAT
1 ATAATTAAAAAT
828043 A-AATTTAAAATAT
1 ATAA-TTAAAA-AT
*
828056 ATAATAAATAAAAT
1 ATAAT-TA-AAAAT
828070 ATATATTAAA
1 ATA-ATTAAA
828080 TTTTTTACTC
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
10 3 0.05
11 17 0.30
12 8 0.14
13 14 0.25
14 9 0.16
15 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATTAAAAAT
Found at i:828031 original size:33 final size:31
Alignment explanation
Indices: 827994--828066 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 31
827984 TTAAAACATT
*
827994 AAAATAA-TAAAAATATATATTTTAAATATAATA
1 AAAATAATTAAAAATA-A-ATTTAAAATAT-ATA
828027 AAAATTAATTAAAAATAAATTTAAAATATATA
1 AAAA-TAATTAAAAATAAATTTAAAATATATA
828059 ATAAATAA
1 A-AAATAA
828067 AATATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
32 7 0.19
33 17 0.47
34 4 0.11
35 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATAATTAAAAATAAATTTAAAATATATA
Found at i:828042 original size:22 final size:24
Alignment explanation
Indices: 827997--828063 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
827987 AAACATTAAA
**
827997 ATAATAAAAATATATATTTTAAAT
1 ATAATAAAAATATATATTAAAAAT
828021 ATAATAAAAAT-TA-ATTAAAAAT
1 ATAATAAAAATATATATTAAAAAT
* *
828043 A-AATTTAAAATATATAATAAA
1 ATAA-TAAAAATATATATTAAA
828064 TAAAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.06
22 14 0.39
23 4 0.11
24 16 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATAAAAATATATATTAAAAAT
Found at i:828063 original size:18 final size:18
Alignment explanation
Indices: 828040--828082 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
828030 ATTAATTAAA
828040 AATAAATTTAAAATATAT
1 AATAAATTTAAAATATAT
828058 AATAAA--TAAAATATAT
1 AATAAATTTAAAATATAT
*
828074 ATTAAATTT
1 AATAAATTT
828083 TTTACTCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 15 0.68
18 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATTTAAAATATAT
Found at i:828142 original size:43 final size:45
Alignment explanation
Indices: 828061--828152 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 45
828051 AATATATAAT
* *
828061 AAATAAAATATATATTAAATTTTTTACTCGTTTAAAAAAATTTAA
1 AAATAAAATATATAATAAATTTTTTACTCGTTTAAAAAAATTAAA
* ** *
828106 AAATAAGATATATAATAAA-TTTTTA-TTTTTTCAAAAAATTAAA
1 AAATAAAATATATAATAAATTTTTTACTCGTTTAAAAAAATTAAA
828149 AAAT
1 AAAT
828153 TTATTATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 18 0.44
44 6 0.15
45 17 0.41
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (45 bp):
AAATAAAATATATAATAAATTTTTTACTCGTTTAAAAAAATTAAA
Found at i:831374 original size:13 final size:15
Alignment explanation
Indices: 831349--831380 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
831339 TATAAATTTA
831349 AAATTTAATGTAA-T
1 AAATTTAATGTAATT
831363 AAATTT-ATGTAATT
1 AAATTTAATGTAATT
831377 AAAT
1 AAAT
831381 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATTTAATGTAATT
Found at i:833663 original size:2 final size:2
Alignment explanation
Indices: 833656--833681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
833646 GCACCACATC
833656 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
833682 GTATGTATGT
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:833686 original size:4 final size:4
Alignment explanation
Indices: 833679--833729 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
833669 TATATATATA
833679 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
833727 TAT
1 TAT
833730 AAACTCTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:834657 original size:10 final size:9
Alignment explanation
Indices: 834643--834669 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
834633 GCAAAAAGTC
834643 GAAAAATTA
1 GAAAAATTA
834652 GAAAAATTA
1 GAAAAATTA
834661 GAAAAATTA
1 GAAAAATTA
834670 AAATATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (9 bp):
GAAAAATTA
Found at i:834710 original size:11 final size:11
Alignment explanation
Indices: 834694--834718 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
834684 CACATTTGAG
834694 AATTAATAAAT
1 AATTAATAAAT
834705 AATTAATAAAT
1 AATTAATAAAT
834716 AAT
1 AAT
834719 GTTTACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAATAAAT
Found at i:836540 original size:29 final size:29
Alignment explanation
Indices: 836510--836573 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
836500 ATATATTATA
*
836510 AAAT-TTAAATAT-TTATTTAATATAAAAT
1 AAATATTAAATATATT-TTTAAAATAAAAT
836538 AAATATTAAATATATTTTTAAAATAAAATT
1 AAATATTAAATATATTTTTAAAATAAAA-T
836568 AAATAT
1 AAATAT
836574 AATTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 4 0.12
29 19 0.59
30 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATATTAAATATATTTTTAAAATAAAAT
Found at i:836583 original size:24 final size:24
Alignment explanation
Indices: 836531--836584 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
836521 TTTATTTAAT
*
836531 ATAAAATAAATATTAAATATATTT
1 ATAAAATAAATATTAAATATATTA
*
836555 TTAAAATAAA-ATTAAATATAATTA
1 ATAAAATAAATATTAAATAT-ATTA
836579 ATAAAA
1 ATAAAA
836585 AATATGTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAAATAAATATTAAATATATTA
Found at i:836926 original size:20 final size:18
Alignment explanation
Indices: 836880--836931 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
836870 AAGTTTTTAC
*
836880 AAATATAAATGAAAATTT
1 AAATATAAATAAAAATTT
836898 AAATATAAATAAATAATTT
1 AAATATAAATAAA-AATTT
*
836917 AATTTATAAATAAAA
1 AA-ATATAAATAAAA
836932 TTAATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 8 0.27
20 10 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAATATAAATAAAAATTT
Found at i:837613 original size:27 final size:27
Alignment explanation
Indices: 837556--837657 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
837546 CGACACCTAA
* *
837556 AAAAATATTATATAAAATATAAAT-ATAAT
1 AAAAATATT-T-TAAAATTTATATAAT-AT
837585 AAAAATATTTTAAAATTTATATAATAT
1 AAAAATATTTTAAAATTTATATAATAT
*
837612 AAATTATTAATATATTAAAATTTATATAA-AT
1 -AA--A--AATATTTTAAAATTTATATAATAT
837643 ATAAAATATTTTAAA
1 A-AAAATATTTTAAA
837658 CATAATTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
27 22 0.35
28 5 0.08
29 10 0.16
30 2 0.03
31 3 0.05
32 20 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAAATATTTTAAAATTTATATAATAT
Found at i:837630 original size:32 final size:33
Alignment explanation
Indices: 837572--837652 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 33
837562 ATTATATAAA
*
837572 ATATAAATATAATAA-A--AATATTTTAAAATTT
1 ATATAAATATAA-AATATTAATATATTAAAATTT
*
837603 ATAT-AATATAAATTATTAATATATTAAAATTT
1 ATATAAATATAAAATATTAATATATTAAAATTT
837635 ATATAAATATAAAATATT
1 ATATAAATATAAAATATT
837653 TTAAACATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 1 0.02
30 8 0.19
31 4 0.09
32 18 0.42
33 12 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATAAATATAAAATATTAATATATTAAAATTT
Found at i:837647 original size:17 final size:17
Alignment explanation
Indices: 837595--837649 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
837585 AAAAATATTT
837595 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
837611 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
837626 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
837644 TAAAAT
1 TAAAAT
837650 ATTTTAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 6 0.18
16 2 0.06
17 9 0.27
18 7 0.21
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:839150 original size:16 final size:16
Alignment explanation
Indices: 839129--839165 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
839119 TTCGATGTAT
*
839129 AATTTTGAATTTATTA
1 AATTTTGAATATATTA
*
839145 AATTTTGAATATATTT
1 AATTTTGAATATATTA
839161 AATTT
1 AATTT
839166 GTATATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (16 bp):
AATTTTGAATATATTA
Found at i:839349 original size:31 final size:32
Alignment explanation
Indices: 839313--839389 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
839303 GTTAAAATTT
* *
839313 TTTAATAATTATAAAA-TTATGAA-TAATTATA
1 TTTAATATTTATAAAATTTA-AAAGTAATTATA
* *
839344 TTTAATATTTATCAAATTTAAAAGTAATTATG
1 TTTAATATTTATAAAATTTAAAAGTAATTATA
839376 TTTAATATTTATAA
1 TTTAATATTTATAA
839390 CCTTTACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 16 0.41
32 23 0.59
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (32 bp):
TTTAATATTTATAAAATTTAAAAGTAATTATA
Found at i:840613 original size:2 final size:2
Alignment explanation
Indices: 840606--840637 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
840596 TTTGTATCAA
840606 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
840638 GCATAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:840840 original size:14 final size:15
Alignment explanation
Indices: 840807--840848 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
840797 TACAAATATC
* *
840807 ATTTACTAAATTTGAT
1 ATTTA-TAATTTTAAT
840823 ATTTA-AATTTTAAT
1 ATTTATAATTTTAAT
840837 ATTTATAATTTT
1 ATTTATAATTTT
840849 TTTTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 6 0.26
16 5 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
ATTTATAATTTTAAT
Found at i:844612 original size:20 final size:20
Alignment explanation
Indices: 844575--844612 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
844565 TCGAATTATA
*
844575 TTTTTTTCTTTTTTCTTTTT
1 TTTTTTTCTTTTTGCTTTTT
844595 TTTTTTTGC-TTTTGCTTT
1 TTTTTTT-CTTTTTGCTTT
844613 ATTTCCGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTTTTCTTTTTGCTTTTT
Found at i:846090 original size:29 final size:30
Alignment explanation
Indices: 846028--846093 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
846018 ATCAATTACA
* *
846028 TTTAAAAATTATATTTATTTATTTATACTT
1 TTTAAAAATTATATTTATTCATTCATACTT
846058 TTTAAAAATTATATTTA-TCATTCATAAC-T
1 TTTAAAAATTATATTTATTCATTCAT-ACTT
846087 TTTAAAA
1 TTTAAAA
846094 GATTTCATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAAAATTATATTTATTCATTCATACTT
Found at i:846926 original size:2 final size:2
Alignment explanation
Indices: 846919--846954 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
846909 AAATTAATAC
846919 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
846955 GATGAAGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:847210 original size:27 final size:28
Alignment explanation
Indices: 847173--847244 Score: 74
Period size: 31 Copynumber: 2.5 Consensus size: 28
847163 TTTAATTATA
* *
847173 TTTAATTTATTATA-TATTTATGTAAAT
1 TTTAATATATTATATTATTTATATAAAT
*
847200 TTTAATATATTAATAATTTTTTTATATAAAT
1 TTTAATATATT-AT-A-TTATTTATATAAAT
*
847231 TTTAATAAATTATA
1 TTTAATATATTATA
847245 ACCTTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
27 10 0.27
28 2 0.05
29 2 0.05
30 2 0.05
31 21 0.57
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTAATATATTATATTATTTATATAAAT
Found at i:847255 original size:31 final size:31
Alignment explanation
Indices: 847187--847255 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
847177 ATTTATTATA
* * *
847187 TATTTATGTAAATTTTAATATATTAATAATT
1 TATTTATATAAATTTTAATAAATTAATAACT
*
847218 TTTTTATATAAATTTTAATAAATT-ATAACCT
1 TATTTATATAAATTTTAATAAATTAATAA-CT
847249 TATTTAT
1 TATTTAT
847256 TATTATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTTATATAAATTTTAATAAATTAATAACT
Found at i:847280 original size:14 final size:14
Alignment explanation
Indices: 847252--847297 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
847242 ATAACCTTAT
*
847252 TTATTATTATTTTA
1 TTATTATTTTTTTA
847266 -TATTAATTTTTTTA
1 TTATT-ATTTTTTTA
*
847280 TTATTATTTTTATA
1 TTATTATTTTTTTA
847294 TTAT
1 TTAT
847298 ATAGTGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTATTTTTTTA
Found at i:847295 original size:11 final size:12
Alignment explanation
Indices: 847251--847297 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
847241 TATAACCTTA
847251 TTTATTATTATT
1 TTTATTATTATT
847263 TTATATTAATT-TT
1 TT-TATT-ATTATT
847276 TTTATTATTATT
1 TTTATTATTATT
847288 TTTA-TATTAT
1 TTTATTATTAT
847298 ATAGTGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 9 0.28
12 12 0.38
13 8 0.25
14 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:849963 original size:2 final size:2
Alignment explanation
Indices: 849956--849985 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
849946 GAACTAAACA
849956 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
849986 TTTAATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:852747 original size:19 final size:20
Alignment explanation
Indices: 852705--852756 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
852695 TAAAACACTT
852705 TTTAAAGATAATTAATATTTTA
1 TTTAAAG-TAA-TAATATTTTA
852727 TTTAAAGTAATAATA-TTTA
1 TTTAAAGTAATAATATTTTA
*
852746 TTTAATGTAAT
1 TTTAAAGTAAT
852757 CATTGATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.48
20 5 0.17
21 3 0.10
22 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (20 bp):
TTTAAAGTAATAATATTTTA
Found at i:854369 original size:2 final size:2
Alignment explanation
Indices: 854364--854393 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
854354 TGAAATAATA
854364 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
854394 GATCCTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:857115 original size:21 final size:22
Alignment explanation
Indices: 857089--857131 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
857079 TTTTGCTTTG
857089 TGCCTTTTTCTA-GGAAAAAAA
1 TGCCTTTTTCTAGGGAAAAAAA
857110 TGCCTTTTTCTAGGGAAAAAAA
1 TGCCTTTTTCTAGGGAAAAAAA
857132 AAATTATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
TGCCTTTTTCTAGGGAAAAAAA
Found at i:857676 original size:10 final size:9
Alignment explanation
Indices: 857653--857682 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
857643 GAAAATATCT
857653 TATTTTAAA
1 TATTTTAAA
857662 TATTTTAATA
1 TATTTTAA-A
857672 TATTTTAAA
1 TATTTTAAA
857681 TA
1 TA
857683 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTTTAAA
Found at i:858062 original size:3 final size:3
Alignment explanation
Indices: 858056--858082 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
858046 TACTACCACC
858056 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
858083 TTGTCGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:861822 original size:24 final size:24
Alignment explanation
Indices: 861789--861870 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
861779 GTAATTTATG
*
861789 TATATATATTAATTATATTATTTT
1 TATATTTATTAATTATATTATTTT
* * *
861813 TATATTTATTAAATATATCA-TAT
1 TATATTTATTAATTATATTATTTT
*
861836 TATA-TT-TTATATTATATTATCTT
1 TATATTTATTA-ATTATATTATTTT
* *
861859 TAAAATTATTAA
1 TATATTTATTAA
861871 ATTTAAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 3 0.07
22 9 0.20
23 10 0.22
24 20 0.44
25 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATTTATTAATTATATTATTTT
Found at i:861840 original size:5 final size:5
Alignment explanation
Indices: 861789--861855 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
861779 GTAATTTATG
* * *
861789 TATA- TATAT TA-AT TATAT TATTTT TATAT T-TAT TA-AA TATAT CATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
861836 TATATTT TATAT TATAT TAT
1 TATA--T TATAT TATAT TAT
861856 CTTTAAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
4 15 0.30
5 26 0.52
6 4 0.08
7 5 0.10
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:863199 original size:2 final size:2
Alignment explanation
Indices: 863192--863289 Score: 124
Period size: 2 Copynumber: 49.0 Consensus size: 2
863182 ATTTACATAC
* * * * *
863192 AT AT AT AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
863234 AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT GT 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
863276 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
863290 TCTTCTATCA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:870113 original size:16 final size:16
Alignment explanation
Indices: 870094--870166 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
870084 ATAAATTTAA
870094 TTATATTAAAATTTTT
1 TTATATTAAAATTTTT
870110 TTATATTTATATAATTTTT
1 TTATA-TTA-A-AATTTTT
* *
870129 ATACATTAAAATTTTAT
1 TTATATTAAAATTTT-T
*
870146 TT-TATTTAAATTTTT
1 TTATATTAAAATTTTT
*
870161 ATATAT
1 TTATAT
870167 AAATAGATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
15 2 0.04
16 24 0.52
17 6 0.13
18 4 0.09
19 10 0.22
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATTAAAATTTTT
Found at i:870129 original size:17 final size:17
Alignment explanation
Indices: 870107--870164 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
870097 TATTAAAATT
870107 TTTTTATATTTATATAA
1 TTTTTATATTTATATAA
*
870124 TTTTTATACATTA-A-AA
1 TTTTTATA-TTTATATAA
*
870140 -TTTTAT-TTTATTTAAA
1 TTTTTATATTTATAT-AA
870156 TTTTTATAT
1 TTTTTATAT
870165 ATAAATAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
13 3 0.09
15 6 0.19
16 4 0.12
17 15 0.47
18 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTATATTTATATAA
Found at i:872625 original size:31 final size:31
Alignment explanation
Indices: 872583--872660 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
872573 TATTACACTC
*
872583 AAATAAACCCTTAACCTTTAATTTCCACCCA
1 AAATAAGCCCTTAACCTTTAATTTCCACCCA
* **
872614 AAATAAGCCCTTAACCATTAATTTGTACCCA
1 AAATAAGCCCTTAACCTTTAATTTCCACCCA
872645 AAA-AAGCCCTTAACCT
1 AAATAAGCCCTTAACCT
872661 CTACCCAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.27
Consensus pattern (31 bp):
AAATAAGCCCTTAACCTTTAATTTCCACCCA
Found at i:873164 original size:2 final size:2
Alignment explanation
Indices: 873157--873196 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
873147 TGCTGTGTAT
*
873157 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
873197 AGGGCGGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:880293 original size:11 final size:10
Alignment explanation
Indices: 880277--880301 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
880267 CCATTTAGGG
880277 AAAAAAAAAT
1 AAAAAAAAAT
880287 AAAAAAAAAT
1 AAAAAAAAAT
880297 AAAAA
1 AAAAA
880302 CCTTTCTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:883668 original size:2 final size:2
Alignment explanation
Indices: 883661--883706 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
883651 ATTGAGAAAA
883661 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
883703 AG AG
1 AG AG
883707 GGAAAAAAAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:884191 original size:14 final size:13
Alignment explanation
Indices: 884164--884222 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 13
884154 CAGTGAAAGA
*
884164 ATATTTTAATTTT
1 ATATTTTAAATTT
884177 ATATTATTAAATTT
1 ATATT-TTAAATTT
884191 AATATTTTAATATTT
1 -ATATTTTAA-ATTT
*
884206 ATATTTTTAAAATT
1 ATA-TTTTAAATTT
884220 ATA
1 ATA
884223 ATAAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.12
14 20 0.50
15 15 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTTAAATTT
Found at i:884195 original size:15 final size:14
Alignment explanation
Indices: 884163--884212 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
884153 ACAGTGAAAG
884163 AATATTTT-AATTT
1 AATATTTTAAATTT
*
884176 TATATTATTAAATTT
1 AATATT-TTAAATTT
884191 AATATTTTAATATTT
1 AATATTTTAA-ATTT
884206 -ATATTTT
1 AATATTTT
884213 TAAAATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 5 0.16
14 13 0.41
15 14 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATATTTTAAATTT
Found at i:885464 original size:17 final size:16
Alignment explanation
Indices: 885444--885504 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
885434 TTATTTTTGT
885444 ATTTTAAGTATATTTAA
1 ATTTTAA-TATATTTAA
*
885461 ATTTTTATATATTATAA
1 ATTTTAATATATT-TAA
885478 ATTATTAATA-ATTTAA
1 ATT-TTAATATATTTAA
885494 ATTTT-ATATAT
1 ATTTTAATATAT
885505 AATAATATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 3 0.08
15 4 0.10
16 12 0.31
17 15 0.38
18 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTTTAATATATTTAA
Found at i:885473 original size:16 final size:16
Alignment explanation
Indices: 885452--885504 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
885442 GTATTTTAAG
885452 TATATTTAAATTTTTA
1 TATATTTAAATTTTTA
*
885468 TATATTATAAATTATTA
1 TATATT-TAAATTTTTA
885485 -ATAATTTAAA-TTTTA
1 TAT-ATTTAAATTTTTA
885500 TATAT
1 TATAT
885505 AATAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 6 0.19
16 14 0.44
17 12 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTTAAATTTTTA
Found at i:885528 original size:21 final size:20
Alignment explanation
Indices: 885481--885528 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
885471 ATTATAAATT
* *
885481 ATTAATAATTTAAATTTTAT
1 ATTAATAATTTAAATTTAAA
*
885501 ATATAATAATATTATATTTAAA
1 AT-TAATAAT-TTAAATTTAAA
885523 ATTAAT
1 ATTAAT
885529 TTTATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 11 0.48
22 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATAATTTAAATTTAAA
Found at i:885941 original size:19 final size:19
Alignment explanation
Indices: 885904--885941 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
885894 TTCCTCTATC
*
885904 TGGGTTCTTCTTTGTTTTG
1 TGGGTTCTTCTTTGGTTTG
885923 TGGGTTCTT-TTTGAGTTTG
1 TGGGTTCTTCTTTG-GTTTG
885942 AACTGAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.03, C:0.08, G:0.29, T:0.61
Consensus pattern (19 bp):
TGGGTTCTTCTTTGGTTTG
Found at i:890064 original size:19 final size:20
Alignment explanation
Indices: 890034--890071 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
890024 TCTTCTTATA
*
890034 ATTATTTCAATTTTTTATTT
1 ATTATTTCAATTATTTATTT
890054 ATTATTT-AATTATTTATT
1 ATTATTTCAATTATTTATT
890072 AATTTCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTATTTCAATTATTTATTT
Found at i:891650 original size:35 final size:31
Alignment explanation
Indices: 891596--891678 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 31
891586 AAAAAATATT
* *
891596 AAATTAAGATTTTTTATTAAATATAATAATATTAA
1 AAATTAA-ATTATTAATTAAATAT--TAATA-TAA
891631 AAATTAATATTATTAATTAAATATTAATATAA
1 AAATTAA-ATTATTAATTAAATATTAATATAA
*
891663 AAATTAAATAATTAAT
1 AAATTAAATTATTAAT
891679 ACAAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
31 8 0.18
32 10 0.23
33 5 0.11
35 21 0.48
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (31 bp):
AAATTAAATTATTAATTAAATATTAATATAA
Found at i:891689 original size:19 final size:19
Alignment explanation
Indices: 891610--891679 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
891600 TAAGATTTTT
891610 TATTAAATATAATAATATTAAA
1 TATT-AATATAA-AA-ATTAAA
* **
891632 AATTAATATTATTAATTAAA
1 TATTAATA-TAAAAATTAAA
891652 TATTAATATAAAAATTAAA
1 TATTAATATAAAAATTAAA
891671 TAATTAATA
1 T-ATTAATA
891680 CAAATTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 10 0.25
20 20 0.50
21 5 0.12
22 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATTAATATAAAAATTAAA
Found at i:891941 original size:3 final size:3
Alignment explanation
Indices: 891935--891966 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
891925 AAAATTTTTT
*
891935 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
891967 GTAATAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:892026 original size:21 final size:21
Alignment explanation
Indices: 891996--892042 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
891986 TTTTTTGGCC
891996 AAAATAATAATGGCCATTTAG
1 AAAATAATAATGGCCATTTAG
* * *
892017 AAAATCATAATTGCCGTTTAG
1 AAAATAATAATGGCCATTTAG
892038 AAAAT
1 AAAAT
892043 TATTTTGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (21 bp):
AAAATAATAATGGCCATTTAG
Found at i:893068 original size:16 final size:18
Alignment explanation
Indices: 893047--893081 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
893037 TATTAAAATA
893047 ATTTTTAT-ATTA-ATTT
1 ATTTTTATAATTACATTT
893063 ATTTTTATAATTACATTT
1 ATTTTTATAATTACATTT
893081 A
1 A
893082 AATAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTATAATTACATTT
Found at i:893099 original size:24 final size:22
Alignment explanation
Indices: 893063--893111 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
893053 ATATTAATTT
*
893063 ATTTTTATAATTACATTTAAATAA
1 ATTTTTATAATTA-AATT-AATAA
* *
893087 ATTTTTTTTATTAAATTAATAA
1 ATTTTTATAATTAAATTAATAA
893109 ATT
1 ATT
893112 AATAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTATAATTAAATTAATAA
Found at i:896361 original size:22 final size:22
Alignment explanation
Indices: 896336--896379 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
896326 GTTAGCTGCA
896336 TGCATAACTTGTTAAGATTTTG
1 TGCATAACTTGTTAAGATTTTG
896358 TGCATAACTTGTTAAGATTTTG
1 TGCATAACTTGTTAAGATTTTG
896380 CTATTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (22 bp):
TGCATAACTTGTTAAGATTTTG
Found at i:896789 original size:2 final size:2
Alignment explanation
Indices: 896782--896810 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
896772 CTTATAACAT
896782 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 T
896811 TCATTGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:898054 original size:32 final size:34
Alignment explanation
Indices: 898018--898091 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
898008 TAAAGTATAA
* *
898018 ATTTTT-TTGAATTATTAATTAT-TA-ATAAAAAT
1 ATTTTTATTGAAAT-TTAATTATAAATATAAAAAT
*
898050 ATTTTTATTTAAATTTAATTATAAAATATAAAAAT
1 ATTTTTATTGAAATTTAATTAT-AAATATAAAAAT
898085 ATTTTTA
1 ATTTTTA
898092 AATAGTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 14 0.40
33 5 0.14
34 1 0.03
35 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
ATTTTTATTGAAATTTAATTATAAATATAAAAAT
Found at i:900353 original size:22 final size:22
Alignment explanation
Indices: 900328--900370 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
900318 ATTTATCGAA
900328 TTTTAAAAACATCAATCAATTT
1 TTTTAAAAACATCAATCAATTT
* * *
900350 TTTTAAAGACGTCAATTAATT
1 TTTTAAAAACATCAATCAATT
900371 ACCTTTTATT
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:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (22 bp):
TTTTAAAAACATCAATCAATTT
Found at i:901081 original size:21 final size:23
Alignment explanation
Indices: 901042--901084 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
901032 TCTTAAATTT
901042 AATAAAATAATATATTAAATAAA
1 AATAAAATAATATATTAAATAAA
901065 AATAAAA-AATA-ATTAAATAA
1 AATAAAATAATATATTAAATAA
901085 TATCCACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AATAAAATAATATATTAAATAAA
Found at i:906774 original size:18 final size:16
Alignment explanation
Indices: 906744--906784 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
906734 TTTGGAATAA
*
906744 AAATAAAATATAATTT
1 AAATTAAATATAATTT
906760 AATATTAAATAATAATTT
1 AA-ATTAAAT-ATAATTT
906778 AAATTAA
1 AAATTAA
906785 GTCAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTAAATATAATTT
Found at i:907576 original size:23 final size:22
Alignment explanation
Indices: 907546--907588 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
907536 TGATGAAAAA
*
907546 TTAATTTAATTTTTTATATTTAT
1 TTAATTTAA-TTATTATATTTAT
907569 TTAATTTAATTATTATATTT
1 TTAATTTAATTATTATATTT
907589 TATATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTAATTTAATTATTATATTTAT
Found at i:907590 original size:23 final size:23
Alignment explanation
Indices: 907546--907601 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
907536 TGATGAAAAA
*
907546 TTAATTTAATTTTTTATATTTAT
1 TTAATTTAATTTTATATATTTAT
*
907569 TTAATTTAATTATTATATTTTATAT
1 TTAATTTAATT-TTATATATT-TAT
*
907594 TTTATTTA
1 TTAATTTA
907602 TATAAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 11 0.39
24 7 0.25
25 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTAATTTAATTTTATATATTTAT
Found at i:907826 original size:21 final size:21
Alignment explanation
Indices: 907803--907841 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
907793 AATATATGAA
907803 AAAAAT-AAAATATAAAATAT
1 AAAAATAAAAATATAAAATAT
*
907823 AAAAATAAAAATATTAAAT
1 AAAAATAAAAATATAAAAT
907842 TTTATTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATAAAAATATAAAATAT
Found at i:907834 original size:14 final size:15
Alignment explanation
Indices: 907796--907841 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
907786 AAAAAAAAAT
*
907796 ATATGAAAAAAATAAA
1 ATAT-AAAAATATAAA
907812 ATAT-AAAATATAAA
1 ATATAAAAATATAAA
*
907826 A-ATAAAAATATTAA
1 ATATAAAAATATAAA
907840 AT
1 AT
907842 TTTATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.08
14 20 0.77
16 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
ATATAAAAATATAAA
Found at i:908401 original size:2 final size:2
Alignment explanation
Indices: 908394--908430 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
908384 TCGCTTGCCA
908394 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
908431 AAAGAAAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:913136 original size:14 final size:14
Alignment explanation
Indices: 913113--913143 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
913103 GTAAATTCTG
*
913113 TTTCTTTTTCTTTC
1 TTTCTCTTTCTTTC
913127 TTTCTCTTTCTTTC
1 TTTCTCTTTCTTTC
913141 TTT
1 TTT
913144 TTCTCCCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTCTTTCTTTC
Found at i:914847 original size:2 final size:2
Alignment explanation
Indices: 914840--914873 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
914830 GATTAATCAG
*
914840 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
914874 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:915421 original size:18 final size:17
Alignment explanation
Indices: 915380--915425 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
915370 TATTTTAATA
*
915380 ATTTATAATAAAAAATT
1 ATTTATATTAAAAAATT
*
915397 ATATTATATTAAAATATAT
1 AT-TTATATTAAAAAAT-T
915416 ATTTATATTA
1 ATTTATATTA
915426 TATTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.80
19 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTATATTAAAAAATT
Found at i:918136 original size:18 final size:17
Alignment explanation
Indices: 918113--918146 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
918103 ATATTATTAT
918113 AATATAATAAAATATATA
1 AATATAATAAAA-ATATA
918131 AATATAATAAAAATAT
1 AATATAATAAAAATAT
918147 CAAGTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATAATAAAAATATA
Found at i:918513 original size:21 final size:22
Alignment explanation
Indices: 918465--918522 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
918455 AAATTAATTT
* *
918465 TTTAATTATATATATAATTAATA
1 TTTAATAATATA-ATTATTAATA
*
918488 TTTAATAATTTAATTATTAA-A
1 TTTAATAATATAATTATTAATA
918509 TTTAATAATATAAT
1 TTTAATAATATAAT
918523 CGTATTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.45
22 7 0.23
23 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATAATATAATTATTAATA
Found at i:920739 original size:31 final size:30
Alignment explanation
Indices: 920672--920739 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
920662 ATAAATTTTA
* *
920672 AAATATAAAATATATTATATTTTAATTATT
1 AAATATTAAATATATTATATTATAATTATT
** * *
920702 TCATATTAATTATATTTATATTATATTTATT
1 AAATATTAAATATA-TTATATTATAATTATT
920733 AAATATT
1 AAATATT
920740 TTCGTATTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (30 bp):
AAATATTAAATATATTATATTATAATTATT
Found at i:920878 original size:30 final size:30
Alignment explanation
Indices: 920818--920878 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
920808 TACACAGGGT
* * *
920818 AAGAATAAGATGGTACAGCTGGGGATAAAA
1 AAGAATAAGATGGTACAGATAGGGAGAAAA
920848 AAGAATAAGATGGTACCA-ATAGGGAGAAAA
1 AAGAATAAGATGGTA-CAGATAGGGAGAAAA
920878 A
1 A
920879 TAAAACTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.28, T:0.15
Consensus pattern (30 bp):
AAGAATAAGATGGTACAGATAGGGAGAAAA
Found at i:921092 original size:27 final size:28
Alignment explanation
Indices: 921059--921153 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 28
921049 ACATTAATTC
921059 ATATTTTTATATTTTATTATATTTAA-A
1 ATATTTTTATATTTTATTATATTTAATA
*
921086 ATATTTTTATAAATTTTAATATA-TTAATA
1 ATATTTTTAT--ATTTTATTATATTTAATA
* *
921115 A-ATTATATAATATTTATATTATATTATAATT
1 ATATT-T-TTATATTT-TATTATATT-TAATA
921146 ATATTTTT
1 ATATTTTT
921154 CGTATTATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
27 10 0.19
28 11 0.20
29 19 0.35
30 5 0.09
31 6 0.11
32 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATTTTTATATTTTATTATATTTAATA
Found at i:921137 original size:16 final size:16
Alignment explanation
Indices: 921116--921150 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
921106 ATATTAATAA
*
921116 ATTATATAATATTTAT
1 ATTATATAATAATTAT
*
921132 ATTATATTATAATTAT
1 ATTATATAATAATTAT
921148 ATT
1 ATT
921151 TTTCGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATATAATAATTAT
Found at i:928996 original size:47 final size:49
Alignment explanation
Indices: 928890--928984 Score: 124
Period size: 47 Copynumber: 2.0 Consensus size: 49
928880 TTCCAATAAT
* * * *
928890 AAATATTATTAT-TTTAATAATTATAATAATATTATTTTAAATATTTAA
1 AAATATTAATATAATTAATAATTATAATAATATTATTTGAAACATTTAA
*
928938 AAATATTAATATAATTAATAA-T-TAATAATATTATTTGAAGCATTTAA
1 AAATATTAATATAATTAATAATTATAATAATATTATTTGAAACATTTAA
928985 TCAATATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 22 0.54
48 12 0.29
49 7 0.17
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (49 bp):
AAATATTAATATAATTAATAATTATAATAATATTATTTGAAACATTTAA
Found at i:931780 original size:19 final size:18
Alignment explanation
Indices: 931756--931822 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
931746 GATACGAGTG
*
931756 TAAAATATAAATATGACAT
1 TAAAATATAAATATGA-AA
*
931775 TAAAATAT-AATATTAAA
1 TAAAATATAAATATGAAA
931792 TAAAATAT-AAT-T-AAA
1 TAAAATATAAATATGAAA
931807 -AATAATATAAATATGA
1 TAA-AATATAAATATGA
931823 TACGAATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
15 8 0.19
16 4 0.10
17 13 0.31
18 7 0.17
19 8 0.19
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAAATATAAATATGAAA
Found at i:931806 original size:15 final size:15
Alignment explanation
Indices: 931775--931816 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
931765 AATATGACAT
931775 TAAAATATAATATTAAA
1 TAAAATAT-A-ATTAAA
931792 TAAAATATAATTAAA
1 TAAAATATAATTAAA
931807 -AATAATATAA
1 TAA-AATATAA
931817 ATATGATACG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 13 0.54
16 1 0.04
17 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATATAATTAAA
Found at i:932778 original size:30 final size:29
Alignment explanation
Indices: 932744--932832 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
932734 AGTTTTAATA
932744 TTTAATTTATATTAAAATAAATCTTTAACT
1 TTTAATTTATATT-AAATAAATCTTTAACT
* *
932774 TTTAATTTGTATTCAAATAAA-CTCTTAAAT
1 TTTAATTTATATT-AAATAAATCT-TTAACT
* *
932804 TTTAATTTATACTTTAATAAATTTTTAAC
1 TTTAATTTATA-TTAAATAAATCTTTAAC
932833 ATAATTCAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 44 0.90
31 3 0.06
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTAATTTATATTAAATAAATCTTTAACT
Found at i:932916 original size:29 final size:30
Alignment explanation
Indices: 932860--932929 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
932850 TTGAAATCAG
* *
932860 AATTTATTTGAATAGAAATAAAAGTATAAA
1 AATTTATTTAAATAGAAATAAAAATATAAA
* *
932890 GATTTATTTAAATA-TAATAAAAATATAAA
1 AATTTATTTAAATAGAAATAAAAATATAAA
*
932919 AAATTATTTAA
1 AATTTATTTAA
932930 GTAAAGTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (30 bp):
AATTTATTTAAATAGAAATAAAAATATAAA
Found at i:934158 original size:6 final size:6
Alignment explanation
Indices: 934149--934186 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
934139 TAAAACTTGA
*
934149 TTAAAT TTAAAT TAAAATT TTAAA- TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAA-T TTAAAT TTAAAT TTAAAT TT
934187 TTTAACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:934172 original size:13 final size:11
Alignment explanation
Indices: 934148--934185 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
934138 GTAAAACTTG
934148 ATTAAATTTAA
1 ATTAAATTTAA
934159 ATTAAAATTTTAA
1 ATT-AAA-TTTAA
934172 ATTAAATTTAA
1 ATTAAATTTAA
934183 ATT
1 ATT
934186 TTTTAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.44
12 6 0.24
13 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:934188 original size:19 final size:19
Alignment explanation
Indices: 934149--934187 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
934139 TAAAACTTGA
934149 TTAAATTTAAATTAAAATT
1 TTAAATTTAAATTAAAATT
*
934168 TTAAA-TTAAATTTAAATT
1 TTAAATTTAAATTAAAATT
934186 TT
1 TT
934188 TTAACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTTAAATTAAAATT
Found at i:935026 original size:21 final size:21
Alignment explanation
Indices: 935002--935042 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
934992 ATAACCAGAT
935002 TGAAAATAAAACAAAGGAATA
1 TGAAAATAAAACAAAGGAATA
**
935023 TGAAAATAGGACAAAGGAAT
1 TGAAAATAAAACAAAGGAAT
935043 CTACAAGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.20, T:0.15
Consensus pattern (21 bp):
TGAAAATAAAACAAAGGAATA
Found at i:940639 original size:6 final size:6
Alignment explanation
Indices: 940628--940653 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
940618 AAGGTGGAAA
940628 GTATCT GTATCT GTATCT GTATCT GT
1 GTATCT GTATCT GTATCT GTATCT GT
940654 TCGATTGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (6 bp):
GTATCT
Found at i:943608 original size:69 final size:69
Alignment explanation
Indices: 943522--943654 Score: 266
Period size: 69 Copynumber: 1.9 Consensus size: 69
943512 TATCTATTTC
943522 ATAAGTAGATTAACTCATTTACAGCATAATTAACCAAATTTGGTGAGTCATTTATACCAAAACTC
1 ATAAGTAGATTAACTCATTTACAGCATAATTAACCAAATTTGGTGAGTCATTTATACCAAAACTC
943587 AAAA
66 AAAA
943591 ATAAGTAGATTAACTCATTTACAGCATAATTAACCAAATTTGGTGAGTCATTTATACCAAAACT
1 ATAAGTAGATTAACTCATTTACAGCATAATTAACCAAATTTGGTGAGTCATTTATACCAAAACT
943655 ATTTGAGTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (69 bp):
ATAAGTAGATTAACTCATTTACAGCATAATTAACCAAATTTGGTGAGTCATTTATACCAAAACTC
AAAA
Found at i:943644 original size:33 final size:33
Alignment explanation
Indices: 943536--943644 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 33
943526 GTAGATTAAC
943536 TCATTTACAGCATAATTAACCAAATTTGGTGAG
1 TCATTTACAGCATAATTAACCAAATTTGGTGAG
* * * * ** * * * * *
943569 TCATTTATACCAAAACTCAAAAATAAGTAGATTAAC
1 TCATTTACAGCATAA-TTAACCA-AATTTG-GTGAG
943605 TCATTTACAGCATAATTAACCAAATTTGGTGAG
1 TCATTTACAGCATAATTAACCAAATTTGGTGAG
943638 TCATTTA
1 TCATTTA
943645 TACCAAAACT
Statistics
Matches: 51, Mismatches: 22, Indels: 6
0.65 0.28 0.08
Matches are distributed among these distances:
33 21 0.41
34 8 0.16
35 8 0.16
36 14 0.27
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (33 bp):
TCATTTACAGCATAATTAACCAAATTTGGTGAG
Found at i:944443 original size:21 final size:19
Alignment explanation
Indices: 944400--944445 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
944390 TAATTTAAAA
944400 CAAATTATTATATTAATTT
1 CAAATTATTATATTAATTT
*
944419 -AAATTATTATAAATTTATTT
1 CAAATTATTAT--ATTAATTT
944439 CAAATTA
1 CAAATTA
944446 AATTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
20 7 0.30
21 6 0.26
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
CAAATTATTATATTAATTT
Found at i:944763 original size:18 final size:17
Alignment explanation
Indices: 944742--944788 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
944732 CACAAAAGAA
944742 AAAAAGAGAATAAAAAGC
1 AAAAAGAGAATAAAAA-C
* *
944760 AAAAAGAAAAATAAAAAT
1 AAAAAG-AGAATAAAAAC
944778 AAAAAGAGAAT
1 AAAAAGAGAAT
944789 TATTGACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 12 0.48
19 9 0.36
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAAGAGAATAAAAAC
Found at i:945112 original size:4 final size:4
Alignment explanation
Indices: 945103--945149 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
945093 TATATTATTC
945103 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
945150 AATTCCTTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:945865 original size:13 final size:13
Alignment explanation
Indices: 945849--945876 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
945839 ATATCATAAT
945849 TATAAATTATAGA
1 TATAAATTATAGA
945862 TATAAATTATAGA
1 TATAAATTATAGA
945875 TA
1 TA
945877 AATTGACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TATAAATTATAGA
Found at i:946102 original size:2 final size:2
Alignment explanation
Indices: 946095--946120 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
946085 GCTGATAATC
946095 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
946121 TAAAAACTTC
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:951773 original size:29 final size:32
Alignment explanation
Indices: 951709--951773 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
951699 ATTTGGTTCT
*
951709 AATACTATTAAATTAGAGATGATATTCATCAT
1 AATACTATTAAATTAGAGATGATATTCATCAA
951741 AATACTATTAAATTCA-AGAT-ATATT-AT-AA
1 AATACTATTAAATT-AGAGATGATATTCATCAA
951770 AATA
1 AATA
951774 AAATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 5 0.16
30 2 0.06
31 5 0.16
32 18 0.58
33 1 0.03
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (32 bp):
AATACTATTAAATTAGAGATGATATTCATCAA
Found at i:953239 original size:23 final size:24
Alignment explanation
Indices: 953213--953257 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
953203 TAAATATTTT
*
953213 TTATTTTTAAAAT-TAAAAAAAAA
1 TTATTATTAAAATATAAAAAAAAA
*
953236 TTATTATTAATATATAAAAAAA
1 TTATTATTAAAATATAAAAAAA
953258 TAACTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TTATTATTAAAATATAAAAAAAAA
Found at i:953731 original size:2 final size:2
Alignment explanation
Indices: 953724--953755 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
953714 TATCTCAATG
953724 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
953756 TATGATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:953959 original size:17 final size:15
Alignment explanation
Indices: 953931--953965 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 15
953921 ATATAAGAAT
953931 AAATATATATAATATA
1 AAATATATATAAT-TA
953947 AAATATGATATAATTA
1 AAATAT-ATATAATTA
953963 AAA
1 AAA
953966 AGAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAATATATATAATTA
Found at i:953966 original size:17 final size:16
Alignment explanation
Indices: 953931--954039 Score: 62
Period size: 17 Copynumber: 6.4 Consensus size: 16
953921 ATATAAGAAT
953931 AAATATATATAATATA
1 AAATATATATAATATA
953947 AAATATGATATAAT-TAA
1 AAATAT-ATATAATAT-A
* *
953964 AAAGAATATATAAATGTTTTA
1 AAA-TATATAT-AA---TATA
*
953985 AAATTTATATAATATA
1 AAATATATATAATATA
*
954001 AATTAT-TA-ATATATTA
1 AAATATATATA-ATA-TA
*
954017 AAATTTATATGAATATA
1 AAATATATAT-AATATA
954034 AAATAT
1 AAATAT
954040 TTTAAATACG
Statistics
Matches: 71, Mismatches: 9, Indels: 25
0.68 0.09 0.24
Matches are distributed among these distances:
14 1 0.01
15 5 0.07
16 20 0.28
17 24 0.34
18 7 0.10
19 3 0.04
20 5 0.07
21 5 0.07
22 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
AAATATATATAATATA
Found at i:954032 original size:18 final size:16
Alignment explanation
Indices: 953983--954037 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
953973 ATAAATGTTT
953983 TAAAATTTATATAATA
1 TAAAATTTATATAATA
*
953999 TAAATTATTA-AT-ATA
1 TAAAAT-TTATATAATA
954014 TTAAAATTTATATGAATA
1 -TAAAATTTATAT-AATA
954032 TAAAAT
1 TAAAAT
954038 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 6 0.19
16 14 0.44
17 9 0.28
18 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:954908 original size:22 final size:21
Alignment explanation
Indices: 954874--954915 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
954864 ATATTAAAAA
954874 TTATTGTTATATTAATATTTAT
1 TTATTGTTATATTAA-ATTTAT
954896 TTATT-TTATTATTAAATTTA
1 TTATTGTTA-TATTAAATTTA
954916 AATAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTGTTATATTAAATTTAT
Found at i:955574 original size:16 final size:17
Alignment explanation
Indices: 955544--955583 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
955534 TTAAATTATA
*
955544 AAATTTTATTACAAATT
1 AAATTTAATTACAAATT
*
955561 TAATTTAATT-CAAATT
1 AAATTTAATTACAAATT
955577 AAATTTA
1 AAATTTA
955584 TGCATGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTAATTACAAATT
Found at i:956108 original size:2 final size:2
Alignment explanation
Indices: 956103--956128 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
956093 GGTTTTTTTA
956103 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
956129 TCTAATTTGC
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:958261 original size:22 final size:22
Alignment explanation
Indices: 958236--958277 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
958226 TTTTTATATT
*
958236 TAAAAAAATCATAATTTAAAAA
1 TAAAAAAATCAAAATTTAAAAA
* *
958258 TAAAAATATTAAAATTTAAA
1 TAAAAAAATCAAAATTTAAA
958278 TATATGTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAAAATCAAAATTTAAAAA
Found at i:958407 original size:90 final size:90
Alignment explanation
Indices: 958308--958485 Score: 227
Period size: 90 Copynumber: 2.0 Consensus size: 90
958298 AGAATCGTTA
* * **
958308 GACTAATTAAAATAAGTTTTTGAAAAAAAATGAAAA-TACATTG-AAAATTAGGGGCTGAAACTT
1 GACTAATTAAAACAAG-TCTTG-AAAAAAATGAAAAGTACATTGCAAAATTAAAGGCTGAAA-TT
*
958371 T-ATGGCATATAAACTCAAATAATTGGG
63 TCAAGGCATATAAACTCAAATAATTGGG
* * * *
958398 GACTAATTAAAACAAGTCTTGCAAAATATGAAAAGTGCATTGCAAAATTAAAGGCTGGAATTTCA
1 GACTAATTAAAACAAGTCTTGAAAAAAATGAAAAGTACATTGCAAAATTAAAGGCTGAAATTTCA
958463 AGGCATATAAACTCAAATAATTG
66 AGGCATATAAACTCAAATAATTG
958486 TTTTTTTGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
88 11 0.14
89 13 0.17
90 52 0.68
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (90 bp):
GACTAATTAAAACAAGTCTTGAAAAAAATGAAAAGTACATTGCAAAATTAAAGGCTGAAATTTCA
AGGCATATAAACTCAAATAATTGGG
Found at i:959553 original size:15 final size:14
Alignment explanation
Indices: 959516--959557 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
959506 ATTGATGATG
959516 TATAAATTTATAAA
1 TATAAATTTATAAA
959530 TCA-ATAATTTAGTAAA
1 T-ATA-AATTTA-TAAA
959546 TATAAATTTATA
1 TATAAATTTATA
959558 TAAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
TATAAATTTATAAA
Found at i:963176 original size:19 final size:20
Alignment explanation
Indices: 963141--963178 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
963131 TATATATATT
963141 ATTAAAGATAATAAAAATAA
1 ATTAAAGATAATAAAAATAA
*
963161 ATTAAA-ATAATTAAAATA
1 ATTAAAGATAATAAAAATA
963179 TATAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
ATTAAAGATAATAAAAATAA
Found at i:964912 original size:2 final size:2
Alignment explanation
Indices: 964863--964894 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
964853 ATAAGAAACA
964863 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
964895 TTATGGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:968262 original size:5 final size:5
Alignment explanation
Indices: 968252--968286 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
968242 GCTTTATATT
968252 TTAAA TTAAA TTAAA TTAAA TTAAA TT-AA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
968287 CTTTGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:970314 original size:21 final size:22
Alignment explanation
Indices: 970286--970345 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
970276 ATTTGAATCG
970286 ATTTAATTTAATTTAAATTATT
1 ATTTAATTTAATTTAAATTATT
*
970308 A-TTAATTTAA--TAAATTTTT
1 ATTTAATTTAATTTAAATTATT
970327 ATTTAAATTTAATTATAAA
1 ATTT-AATTTAATT-TAAA
970346 ATATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 9 0.28
20 2 0.06
21 16 0.50
22 1 0.03
24 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAATTTAATTTAAATTATT
Done.