Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold440
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: 783396
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:336576 original size:22 final size:23
Alignment explanation
Indices: 336551--336604 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
336541 ATTATATTTA
*
336551 ATTTTTAAAA-ATATTTTTATAT
1 ATTTTAAAAATATATTTTTATAT
*
336573 ATTTTAAAAATTATATTTTTATTT
1 ATTTTAAAAA-TATATTTTTATAT
*
336597 ATATTAAA
1 ATTTTAAA
336605 TATAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 9 0.33
24 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTAAAAATATATTTTTATAT
Found at i:336819 original size:2 final size:2
Alignment explanation
Indices: 336812--336836 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
336802 AAAATATCAC
336812 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
336837 CACATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:337016 original size:27 final size:27
Alignment explanation
Indices: 336986--337071 Score: 73
Period size: 34 Copynumber: 2.9 Consensus size: 27
336976 TATATTAAAA
336986 ATATTAAATATTTATATAAATTTTAAT
1 ATATTAAATATTTATATAAATTTTAAT
337013 ATATTAATAATTTATGTATAATATAAATTTTAAT
1 ATATT-A-AA--TAT-T-T-ATATAAATTTTAAT
* * *
337047 ATATTTATATATTTATTTTAATTTT
1 ATA-TTAAATATTTATATAAATTTT
337072 TTAATATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
27 5 0.10
28 10 0.21
29 3 0.06
30 1 0.02
31 6 0.12
32 1 0.02
33 2 0.04
34 18 0.38
35 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
ATATTAAATATTTATATAAATTTTAAT
Found at i:337018 original size:36 final size:34
Alignment explanation
Indices: 336976--337051 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
336966 ATATTATAAT
*
336976 TATATTAAAAATATTAAATATTTATATAAATTTTAA
1 TATATTAAAAAT-TTAAATA-TAATATAAATTTTAA
* **
337012 TATATTAATAATTTATGTATAATATAAATTTTAA
1 TATATTAAAAATTTAAATATAATATAAATTTTAA
337046 TATATT
1 TATATT
337052 TATATATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 20 0.56
35 5 0.14
36 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (34 bp):
TATATTAAAAATTTAAATATAATATAAATTTTAA
Found at i:337049 original size:17 final size:17
Alignment explanation
Indices: 336999--337049 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
336989 TTAAATATTT
336999 ATATAAATTTTAATAT-
1 ATATAAATTTTAATATA
* *
337015 AT-TAATAATTTATGTATA
1 ATATAA-ATTTTA-ATATA
337033 ATATAAATTTTAATATA
1 ATATAAATTTTAATATA
337050 TTTATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
15 3 0.11
16 7 0.26
17 7 0.26
18 7 0.26
19 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATATAAATTTTAATATA
Found at i:337055 original size:23 final size:22
Alignment explanation
Indices: 337020--337068 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
337010 AATATATTAA
*
337020 TAATTTATGTATAATATAAATTT
1 TAATATATGTAT-ATATAAATTT
* **
337043 TAATATATTTATATATTTATTT
1 TAATATATGTATATATAAATTT
337065 TAAT
1 TAAT
337069 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATATGTATATATAAATTT
Found at i:337090 original size:20 final size:21
Alignment explanation
Indices: 337031--337105 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 21
337021 AATTTATGTA
* *
337031 TAATA-TAAATTTTAATATATT
1 TAATATTATATTTTAAT-TTTT
337052 TATATATT-TATTTTAATTTTT
1 TA-ATATTATATTTTAATTTTT
337073 TAATATTATATTTT-ATTTTT
1 TAATATTATATTTTAATTTTT
* *
337093 TTATGTTATATTT
1 TAATATTATATTT
337106 ATATAATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 22 0.47
21 13 0.28
22 11 0.23
23 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (21 bp):
TAATATTATATTTTAATTTTT
Found at i:338991 original size:28 final size:27
Alignment explanation
Indices: 338933--338992 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
338923 AGTCACCCTT
* *
338933 TTTATTTATAAAAAATGATGGTTCTTT
1 TTTATTTATAAAAAATGATGGTTATTG
* * *
338960 TTTATTTGTCAAAAATGGTGGCTTATTG
1 TTTATTTATAAAAAATGATGG-TTATTG
338988 TTTAT
1 TTTAT
338993 CAAAGTTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.52
Consensus pattern (27 bp):
TTTATTTATAAAAAATGATGGTTATTG
Found at i:341548 original size:21 final size:22
Alignment explanation
Indices: 341519--341564 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
341509 TGTTCAGACA
* *
341519 AGTAGTACTCCACAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
*
341541 AGTA-TACTCTAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
341562 AGT
1 AGT
341565 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:343478 original size:27 final size:27
Alignment explanation
Indices: 343448--343499 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
343438 AAAGCCATTC
343448 TTTTTGTTTATAAAAAATGGTGGTTCT
1 TTTTTGTTTATAAAAAATGGTGGTTCT
*
343475 TTTTTGTTTGTAAAAAATGGTGGTT
1 TTTTTGTTTATAAAAAATGGTGGTT
343500 TGTTATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTTTGTTTATAAAAAATGGTGGTTCT
Found at i:343508 original size:24 final size:25
Alignment explanation
Indices: 343458--343514 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
343448 TTTTTGTTTA
* *
343458 TAAAAAATGGTGGTTCTTTTTTGTTTG
1 TAAAAAATGGTGG-T-TTTGTTATTTG
343485 TAAAAAATGGTGG-TTTGTTATTTG
1 TAAAAAATGGTGGTTTTGTTATTTG
*
343509 TCAAAA
1 TAAAAA
343515 TTTGTGGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.52
27 13 0.48
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (25 bp):
TAAAAAATGGTGGTTTTGTTATTTG
Found at i:344257 original size:22 final size:21
Alignment explanation
Indices: 344217--344258 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
344207 TATTTGATTT
* *
344217 TTTAAAAATTCTTTTAATATA
1 TTTAAAAAATCTTTGAATATA
344238 TTTAAAAAATCTTTAGAATAT
1 TTTAAAAAATCTTT-GAATAT
344259 CATATTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTAAAAAATCTTTGAATATA
Found at i:347535 original size:15 final size:14
Alignment explanation
Indices: 347501--347577 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
347491 TAATTCACAC
* *
347501 TAAATTAAATTGAT
1 TAAATTAAATTAAA
*
347515 TAAAATTTAATTTAAA
1 T-AAA-TTAAATTAAA
347531 TAAATTAAATTAAA
1 TAAATTAAATTAAA
**
347545 TTTA-TAAATT-AA
1 TAAATTAAATTAAA
* *
347557 TAATTTAACAGTAAA
1 TAAATTAA-ATTAAA
347572 TAAATT
1 TAAATT
347578 TATATTTTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
12 3 0.06
13 9 0.19
14 14 0.30
15 13 0.28
16 8 0.17
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.42
Consensus pattern (14 bp):
TAAATTAAATTAAA
Found at i:347561 original size:35 final size:36
Alignment explanation
Indices: 347501--347577 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
347491 TAATTCACAC
347501 TAAATTAAATTGATTAAAATTTAATTTAA-A-TAAA
1 TAAATTAAATTGATTAAAATTTAATTTAACAGTAAA
*
347535 TTAAATTAAATTTA-T-AAATTAATAATTTAACAGTAAA
1 -TAAATTAAATTGATTAAAATT--TAATTTAACAGTAAA
347572 TAAATT
1 TAAATT
347578 TATATTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 5 0.14
34 1 0.03
35 20 0.54
36 7 0.19
37 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.42
Consensus pattern (36 bp):
TAAATTAAATTGATTAAAATTTAATTTAACAGTAAA
Found at i:347980 original size:9 final size:9
Alignment explanation
Indices: 347966--348012 Score: 60
Period size: 10 Copynumber: 5.1 Consensus size: 9
347956 AATTTTTTAA
347966 TTAAAAATT
1 TTAAAAATT
347975 TT-AAAATT
1 TTAAAAATT
347983 TTAAAAAATT
1 TT-AAAAATT
347993 TTAAAAAATT
1 TT-AAAAATT
*
348003 TCAAAAATT
1 TTAAAAATT
348012 T
1 T
348013 CATAATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
8 8 0.23
9 10 0.29
10 17 0.49
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAAAATT
Found at i:347992 original size:10 final size:10
Alignment explanation
Indices: 347968--348009 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
347958 TTTTTTAATT
347968 AAAAATTTT-
1 AAAAATTTTA
347977 -AAAATTTTA
1 AAAAATTTTA
347986 AAAAATTTTA
1 AAAAATTTTA
*
347996 AAAAATTTCA
1 AAAAATTTTA
348006 AAAA
1 AAAA
348010 TTTCATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.27
10 22 0.73
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:348014 original size:9 final size:9
Alignment explanation
Indices: 347968--348012 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
347958 TTTTTTAATT
*
347968 AAAAATTTT
1 AAAAATTTA
*
347977 AAAATTTTA
1 AAAAATTTA
347986 AAAAATTTTA
1 AAAAA-TTTA
*
347996 AAAAATTTC
1 AAAAATTTA
348005 AAAAATTT
1 AAAAATTT
348013 CATAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTA
Found at i:348022 original size:3 final size:3
Alignment explanation
Indices: 348014--348073 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
348004 CAAAAATTTC
*
348014 ATA ATA ATA A-A ATA TTA TATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
348059 AT- ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA A
348074 AATTATGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:348156 original size:3 final size:3
Alignment explanation
Indices: 348148--348176 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
348138 CAAAAATTTC
348148 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
348177 GAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:348455 original size:15 final size:16
Alignment explanation
Indices: 348424--348461 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
348414 TCACAATCAT
*
348424 AAATTATATTATTTAA
1 AAATTTTATTATTTAA
*
348440 ATATTTTATT-TTTAA
1 AAATTTTATTATTTAA
348455 AAATTTT
1 AAATTTT
348462 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTTATTATTTAA
Found at i:348494 original size:30 final size:30
Alignment explanation
Indices: 348438--348497 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
348428 TATATTATTT
* *
348438 AAATATTTTATTTTTAAAAATTTTTAAATA
1 AAATATTTTATATTTAAAAATATTTAAATA
*
348468 AAATA-TTTATATTTAATATATATTTAAATA
1 AAATATTTTATATTTAA-AAATATTTAAATA
348498 TTAATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AAATATTTTATATTTAAAAATATTTAAATA
Found at i:348501 original size:18 final size:17
Alignment explanation
Indices: 348470--348507 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
348460 TTTAAATAAA
*
348470 ATATTTATATTTAATAT
1 ATATTTAAATTTAATAT
348487 ATATTTAAATATTAATAT
1 ATATTTAAAT-TTAATAT
348505 ATA
1 ATA
348508 AATATAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTTAAATTTAATAT
Found at i:348790 original size:6 final size:6
Alignment explanation
Indices: 348779--348825 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
348769 TCATAAATAC
* * *
348779 TAAAAA TAAAAA TAAAAA TGAATA TAAAAA TAAAAA TAAATA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
348826 TTTTTACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:348807 original size:18 final size:18
Alignment explanation
Indices: 348779--348825 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
348769 TCATAAATAC
*
348779 TAAAAATAAAAATAAAAA
1 TAAATATAAAAATAAAAA
*
348797 TGAATATAAAAATAAAAA
1 TAAATATAAAAATAAAAA
348815 TAAATATAAAA
1 TAAATATAAAA
348826 TTTTTACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
TAAATATAAAAATAAAAA
Found at i:349817 original size:2 final size:2
Alignment explanation
Indices: 349810--349842 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
349800 CGTTTGAGTT
*
349810 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
349843 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:355202 original size:2 final size:2
Alignment explanation
Indices: 355195--355222 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
355185 AAAACTTAAA
355195 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
355223 GATGAGAGAT
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:355793 original size:20 final size:20
Alignment explanation
Indices: 355756--355795 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
355746 TAATATGAAT
*
355756 TATAAATATATTAAAATTTA
1 TATAAATATATAAAAATTTA
355776 TATAAATATA-AAATAATTTA
1 TATAAATATATAAA-AATTTA
355796 ACCAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAAATATATAAAAATTTA
Found at i:355826 original size:23 final size:21
Alignment explanation
Indices: 355800--355850 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
355790 AATTTAACCA
355800 ATAATTATAATATAATAAAATAT
1 ATAATTATAATA-AA-AAAATAT
* *
355823 ATAAATATAATAAAAATATAT
1 ATAATTATAATAAAAAAATAT
355844 A-AATTAT
1 ATAATTAT
355851 TAAATTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 2 0.08
23 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAATTATAATAAAAAAATAT
Found at i:355829 original size:18 final size:19
Alignment explanation
Indices: 355808--355847 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
355798 CAATAATTAT
355808 AATATAAT-AAAATATATA
1 AATATAATAAAAATATATA
355826 AATATAATAAAAATATATA
1 AATATAATAAAAATATATA
355845 AAT
1 AAT
355848 TATTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAAAAATATATA
Found at i:355964 original size:2 final size:2
Alignment explanation
Indices: 355959--355987 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
355949 TTTTAAATAA
355959 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
355988 AATGAGAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:356102 original size:2 final size:2
Alignment explanation
Indices: 356097--356126 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
356087 GACTAGTGTG
*
356097 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
356127 AAAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:356411 original size:2 final size:2
Alignment explanation
Indices: 356404--356436 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
356394 ATCAATCTTT
356404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
356437 TTTAATGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:363348 original size:17 final size:18
Alignment explanation
Indices: 363323--363359 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
363313 GATATAAATT
363323 TACAAAAAAAAT-TTAAA
1 TACAAAAAAAATATTAAA
*
363340 TACATAAAAAATATTAAA
1 TACAAAAAAAATATTAAA
363358 TA
1 TA
363360 TATTAGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
TACAAAAAAAATATTAAA
Found at i:363801 original size:14 final size:15
Alignment explanation
Indices: 363779--363811 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
363769 TATATGTGAT
*
363779 ATATTTTTAGATAA-
1 ATATATTTAGATAAC
363793 ATATATTTAGATAAC
1 ATATATTTAGATAAC
363808 ATAT
1 ATAT
363812 TTCAAGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
ATATATTTAGATAAC
Found at i:364366 original size:25 final size:25
Alignment explanation
Indices: 364335--364383 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
364325 ATATGTTTAA
*
364335 AATTTTA-ATGTTAATATTTATAATT
1 AATTTTATATGTTAA-AGTTATAATT
*
364360 AATTTTATATTTTAAAGTTATAAT
1 AATTTTATATGTTAAAGTTATAAT
364384 CTCTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
AATTTTATATGTTAAAGTTATAATT
Found at i:364901 original size:92 final size:93
Alignment explanation
Indices: 364803--364972 Score: 247
Period size: 92 Copynumber: 1.8 Consensus size: 93
364793 TATACTTTAA
*
364803 AATTAATAAAAAATTT-TTATTTAAATATGAAA-TTTTATTAATTTATTTAAATTTAAATTAA-T
1 AATTAAT-AAAAATTTCTTATTTAAAT-TGAAATTTTTATTAATTTATTTAAATTTAAATCAACT
*
364865 AAATATTTAAAAATAAAGTTAACATGATAT
64 AAATATTAAAAAATAAAGTTAACATGATAT
** * *
364895 AATTAATAAATTTTTCTTATTTAAATTTAAATTTTTATTAATTTATTTAAATTTTAATCAACTAA
1 AATTAATAAAAATTTCTTATTTAAATTGAAATTTTTATTAATTTATTTAAATTTAAATCAACTAA
364960 ATATTAAAAAATA
66 ATATTAAAAAATA
364973 GTCTACGTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
91 10 0.14
92 44 0.64
93 15 0.22
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (93 bp):
AATTAATAAAAATTTCTTATTTAAATTGAAATTTTTATTAATTTATTTAAATTTAAATCAACTAA
ATATTAAAAAATAAAGTTAACATGATAT
Found at i:364942 original size:20 final size:20
Alignment explanation
Indices: 364901--364949 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
364891 ATATAATTAA
*
364901 TAAATTTTTCTTATTTAAATT
1 TAAATTTTTATTATTT-AATT
364922 TAAATTTTTATTAATTT-ATT
1 TAAATTTTTATT-ATTTAATT
364942 TAAATTTT
1 TAAATTTT
364950 AATCAACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 11 0.42
22 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TAAATTTTTATTATTTAATT
Found at i:369012 original size:28 final size:26
Alignment explanation
Indices: 368975--369042 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 26
368965 CTACACAAAT
*
368975 AAAATATAAAATATAAAGATTAATTAAA
1 AAAATATAAAATATAAA-AAT-ATTAAA
369003 AAAATATAAATCATATAAAAATATTAAA
1 AAAATATAAA--ATATAAAAATATTAAA
*
369031 AATATATAAAAT
1 AAAATATAAAAT
369043 TAATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
28 25 0.69
29 2 0.06
30 7 0.19
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (26 bp):
AAAATATAAAATATAAAAATATTAAA
Found at i:369021 original size:19 final size:19
Alignment explanation
Indices: 368999--369046 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
368989 AAAGATTAAT
*
368999 TAAAAA-AATATAAATCATA
1 TAAAAATAATAAAAAT-ATA
*
369018 TAAAAATATTAAAAATATA
1 TAAAAATAATAAAAATATA
*
369037 TAAAATTAAT
1 TAAAAATAAT
369047 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATAATAAAAATATA
Found at i:369520 original size:2 final size:2
Alignment explanation
Indices: 369515--369543 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
369505 TTATATTTTT
369515 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
369544 TCCTCCATCT
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:370768 original size:35 final size:34
Alignment explanation
Indices: 370698--370769 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
370688 GTACCGGTCC
* *
370698 TTATTTAAATTATTTTTAAATAATAAAATATATT
1 TTATTTAAATTATTATAAAATAATAAAATATATT
370732 TTATTTAAATTTAATTATAAAAT-ATAAAAT-TAATT
1 TTATTTAAA-TT-ATTATAAAATAATAAAATAT-ATT
370767 TTA
1 TTA
370770 ATATTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 10 0.30
35 15 0.45
36 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
TTATTTAAATTATTATAAAATAATAAAATATATT
Found at i:371510 original size:22 final size:22
Alignment explanation
Indices: 371485--371526 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
371475 TTTTTTTATT
371485 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
371507 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
371527 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:372642 original size:21 final size:21
Alignment explanation
Indices: 372613--372668 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
372603 TTGAATTATT
*
372613 ATATTTAAATTTAATTATAAA
1 ATATATAAATTTAATTATAAA
372634 ATATATAAATATTAA-TATAAA
1 ATATATAAAT-TTAATTATAAA
372655 A-ATA-ATAATTTAAT
1 ATATATA-AATTTAAT
372669 ATTATTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 16 0.52
22 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATATAAATTTAATTATAAA
Found at i:372661 original size:25 final size:25
Alignment explanation
Indices: 372633--372720 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
372623 TTAATTATAA
372633 AATATATAAATATTAATATAAAAAT
1 AATATATAAATATTAATATAAAAAT
* * *
372658 AATA-ATTTAATATTATTTTAAATAAT
1 AATATA-TAAATATTAATATAAA-AAT
* *
372684 AATATA-AAATTTTAA-ATTAAATAT
1 AATATATAAATATTAATA-TAAAAAT
372708 ATATATATAAATA
1 A-ATATATAAATA
372721 AATTTTATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
24 4 0.08
25 32 0.67
26 11 0.23
27 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATATAAATATTAATATAAAAAT
Found at i:372707 original size:37 final size:39
Alignment explanation
Indices: 372634--372721 Score: 101
Period size: 37 Copynumber: 2.3 Consensus size: 39
372624 TAATTATAAA
* *
372634 ATATATAAATATTAATATAAAAATAATAATTTAATAT-T
1 ATATATAAATAATAATATAAAAATAATAATTAAATATAT
* **
372672 AT-TTTAAATAATAATAT-AAAATTTTAAATTAAATATAT
1 ATATATAAATAATAATATAAAAATAAT-AATTAAATATAT
372710 ATATATAAATAA
1 ATATATAAATAA
372722 ATTTTATCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
36 6 0.15
37 22 0.54
38 5 0.12
39 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (39 bp):
ATATATAAATAATAATATAAAAATAATAATTAAATATAT
Found at i:372799 original size:2 final size:2
Alignment explanation
Indices: 372792--372826 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
372782 TCAAAGGAAG
372792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
372827 TTTAAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:373111 original size:18 final size:18
Alignment explanation
Indices: 373080--373114 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
373070 AAATTTTATT
**
373080 TTTAAAATTTAAATTAAA
1 TTTAAAATAAAAATTAAA
373098 TTTAAAATAAAAATTAA
1 TTTAAAATAAAAATTAA
373115 GTTATTTAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAAATAAAAATTAAA
Found at i:373346 original size:20 final size:20
Alignment explanation
Indices: 373318--373357 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
373308 ATAATAACTA
* *
373318 AATTTAATTTAATTTATTTT
1 AATTAAATTTAATTAATTTT
*
373338 AATTAAATTTTATTAATTTT
1 AATTAAATTTAATTAATTTT
373358 TTAACACAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTAAATTTAATTAATTTT
Found at i:373610 original size:14 final size:15
Alignment explanation
Indices: 373592--373652 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 15
373582 ATGAATATAA
373592 AATATAAAATAATAT
1 AATATAAAATAATAT
*
373607 -ATATTATAAATTATAT
1 AATA-TA-AAATAATAT
373623 AATATAAATATTTTAATAT
1 AATATAAA-A---TAATAT
373642 AATATAAAATA
1 AATATAAAATA
373653 TTTTTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 3 0.08
15 6 0.16
16 11 0.30
17 3 0.08
18 1 0.03
19 13 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAAAATAATAT
Found at i:373642 original size:21 final size:20
Alignment explanation
Indices: 373619--373678 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 20
373609 ATTATAAATT
373619 ATATAATAT-AAATATTTTA
1 ATATAATATAAAATATTTTA
373638 ATATAATATAAAATATTTTTAA
1 ATATAATATAAAATA-TTTT-A
373660 ATATAATTATAAAATATTT
1 ATATAA-TATAAAATATTT
373679 AAATTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.24
20 5 0.14
21 4 0.11
22 10 0.27
23 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATAATATAAAATATTTTA
Found at i:373693 original size:23 final size:21
Alignment explanation
Indices: 373591--373694 Score: 88
Period size: 23 Copynumber: 4.7 Consensus size: 21
373581 TATGAATATA
373591 AAATATAAA-ATAATATATATTAT
1 AAATATAAATATAA-A-ATATT-T
373614 AAATTATATAATAT-AAATATTT
1 AAA-TATA-AATATAAAATATTT
*
373636 TAATAT-AATATAAAATATTTTT
1 AAATATAAATATAAAATA--TTT
*
373658 AAATATAATTATAAAATATTT
1 AAATATAAATATAAAATATTT
373679 AAATTATTAAATATAA
1 AAA-TA-TAAATATAA
373695 TTAAAAAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.07
20 5 0.07
21 9 0.13
22 13 0.19
23 26 0.38
24 5 0.07
25 3 0.04
26 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATATAAATATAAAATATTT
Found at i:375262 original size:22 final size:22
Alignment explanation
Indices: 375225--375289 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
375215 TTGAATCATT
375225 ATTTAATTAATAAAAATATTTTA
1 ATTTAATT-ATAAAAATATTTTA
** *
375248 ATTTAATTATAAAAATAAATCA
1 ATTTAATTATAAAAATATTTTA
375270 ATATTAA-TAT-AAAATATTTT
1 AT-TTAATTATAAAAATATTTT
375290 TTAAATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 7 0.20
22 16 0.46
23 12 0.34
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAATTATAAAAATATTTTA
Found at i:375276 original size:23 final size:23
Alignment explanation
Indices: 375218--375283 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
375208 GTTTAGTTTG
*
375218 AATCATTATTTAATTAATAAAAATA
1 AATCAATA-TTAATT-ATAAAAATA
** *
375243 TTTTAAT-TTAATTATAAAAATA
1 AATCAATATTAATTATAAAAATA
375265 AATCAATATTAA-TATAAAA
1 AATCAATATTAATTATAAAA
375284 TATTTTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 20 0.61
23 10 0.30
25 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
AATCAATATTAATTATAAAAATA
Found at i:377202 original size:195 final size:192
Alignment explanation
Indices: 376694--377205 Score: 494
Period size: 195 Copynumber: 2.6 Consensus size: 192
376684 ATATTGTCTG
* *
376694 TAATATATGACTAATAGGTTAAAGGTTTAAATATCATCATTTACAAAAATAGATTTAATAAAATA
1 TAATATATAACTAATAGGTTAAAGGTTTAAATATCATCATTTACAAAAATAAATTTAATAAAATA
* * * * *
376759 ACAAAAAATGGCTTTTTACCAGTTCATTGAG-TTCCTAGTTCTTTGATATGTGCTAGACCAAAGG
66 AAAAAAAATGGCTTTTTA-CAGTTCATTGAGTTTTCGA-TTCTTTGATATGTGCCAAACCAAAGG
* *** ** * *
376823 GCTACTGATTCTCGATTGAATTAGTTTGATTGAGCAATCTAAACTTATTTTTTTAAAACTTTGAT
129 GCTACTGATTCTCAATTGAATTAGTCCAATCAACCAATC-AAACTTATTTTTTTAAAACATTGAT
* * * ** * * * *
376888 TAATATA-AGATTACTAGGTAAAATATTTAAATCTCATCATTTATAAAATTAAATTTACTAAAAT
1 TAATATATA-ACTAATAGGTTAAAGGTTTAAATATCATCATTTACAAAAATAAATTTAATAAAAT
* ** * * *
376952 AGCAAAAAAATGGCTTTTTACTAGTTCATCAAGTTCTT-GGTTTTTTGAAATGTGCCAAACCGAA
65 A-AAAAAAAATGGCTTTTTAC-AGTTCATTGAGTT-TTCGATTCTTTGATATGTGCCAAACC-AA
* * * * **
377016 CA-GGCTACTGATTCTTAATTGAATTAGTCCAATCAACCGATC-GATTTGATTTTTTTGCAACAT
126 -AGGGCTACTGATTCTCAATTGAATTAGTCCAATCAACCAATCAAACTT-ATTTTTTTAAAACAT
377079 TGAT
189 TGAT
* * * *
377083 TAATATATAACTAATAGATTGAAGGTTTAAATATCATTATTTACAAAAATAAATTTAATAAATTA
1 TAATATATAACTAATAGGTTAAAGGTTTAAATATCATCATTTACAAAAATAAATTTAATAAAATA
* * *
377148 ATTAAAAAATGGCTTTTGATCGGTTCATTGAGTTTTCGATTCTTTGATATGTGCCAAA
66 A-AAAAAAATGGCTTTTTA-CAGTTCATTGAGTTTTCGATTCTTTGATATGTGCCAAA
377206 TTGAATAGGC
Statistics
Matches: 248, Mismatches: 58, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
194 59 0.24
195 151 0.61
196 36 0.15
197 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (192 bp):
TAATATATAACTAATAGGTTAAAGGTTTAAATATCATCATTTACAAAAATAAATTTAATAAAATA
AAAAAAAATGGCTTTTTACAGTTCATTGAGTTTTCGATTCTTTGATATGTGCCAAACCAAAGGGC
TACTGATTCTCAATTGAATTAGTCCAATCAACCAATCAAACTTATTTTTTTAAAACATTGAT
Found at i:380525 original size:21 final size:21
Alignment explanation
Indices: 380476--380525 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
380466 TTAATCATAT
380476 AAATATTAATATATGTAAATAA
1 AAAT-TTAATATATGTAAATAA
* * * *
380498 TATTTTAATATTTTTAAATAA
1 AAATTTAATATATGTAAATAA
380519 AAATTTA
1 AAATTTA
380526 CTTATAAATC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AAATTTAATATATGTAAATAA
Found at i:380668 original size:20 final size:20
Alignment explanation
Indices: 380632--380670 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
380622 TAACCAAAAA
*
380632 AAAAAAGAAAATGAAAATCT
1 AAAAAAGAAAATAAAAATCT
380652 AAAAAAGAATAA-AAAAATC
1 AAAAAAGAA-AATAAAAATC
380671 CATTTACGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAAAGAAAATAAAAATCT
Found at i:380790 original size:3 final size:3
Alignment explanation
Indices: 380782--380808 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
380772 TCATTTTGTA
380782 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
380809 TTAATTTAAT
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:384897 original size:20 final size:21
Alignment explanation
Indices: 384870--384916 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
384860 CTTTTAATAA
*
384870 TAATTTAAATAAT-TTTTTAT
1 TAATTTAAAAAATATTTTTAT
*
384890 TTATTTAAAAAATATTTTTAT
1 TAATTTAAAAAATATTTTTAT
384911 TAATTT
1 TAATTT
384917 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATTTAAAAAATATTTTTAT
Found at i:387666 original size:75 final size:75
Alignment explanation
Indices: 387542--387695 Score: 184
Period size: 75 Copynumber: 2.1 Consensus size: 75
387532 CACTAGAGCC
* * * *
387542 AAAATGCCTATGGTTGGATCGTCATCAGTGCCCGTGAAAGTTCGTGATTTCAAAGAAAAAATGGA
1 AAAATGCCTATGGTTAGATCGTCATCAGTGCCCGTGAAAGTTCGAGATTTAAAAGAAAAAACGGA
*
387607 GGCTGCACAA
66 AGCTGCACAA
* * * * * *
387617 AAAATGCCTCA-GGTTAGATCTTCTTCTGTGCCCTTGAAAGTTCGAGATTTAAAAGAGAAAGCGG
1 AAAATGCCT-ATGGTTAGATCGTCATCAGTGCCCGTGAAAGTTCGAGATTTAAAAGAAAAAACGG
*
387681 AAGCTGCACAT
65 AAGCTGCACAA
387692 AAAA
1 AAAA
387696 CATCCAGGCT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 65 0.98
76 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (75 bp):
AAAATGCCTATGGTTAGATCGTCATCAGTGCCCGTGAAAGTTCGAGATTTAAAAGAAAAAACGGA
AGCTGCACAA
Found at i:393022 original size:15 final size:15
Alignment explanation
Indices: 393002--393033 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
392992 AGAAGAAAGG
393002 AATTATATATACAAT
1 AATTATATATACAAT
393017 AATTATATATACAAT
1 AATTATATATACAAT
393032 AA
1 AA
393034 GACTGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATATATACAAT
Found at i:397732 original size:17 final size:17
Alignment explanation
Indices: 397691--397754 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
397681 CTTACATTTA
397691 TATTTAAATAAACTTTT
1 TATTTAAATAAACTTTT
* * * *
397708 AATATAAATTAATTTTT
1 TATTTAAATAAACTTTT
**
397725 TATTTAAAATAAAAATTT
1 TATTT-AAATAAACTTTT
*
397743 TATTTAAGTAAA
1 TATTTAAATAAA
397755 GATTTAAATA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 22 0.61
18 14 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTTAAATAAACTTTT
Found at i:397747 original size:52 final size:51
Alignment explanation
Indices: 397686--397801 Score: 119
Period size: 52 Copynumber: 2.2 Consensus size: 51
397676 TTATTCTTAC
* * **
397686 ATTTATATTTAAATAAA-CTTTTAATATAAATTAATTT-TTTATTTAAAATAAAA
1 ATTT-TATTTAAATAAAGATTTAAATATAAA--AATTTATTTAAATAAAAT-AAA
* *
397739 ATTTTATTTAAGTAAAGATTTAAATATAAAAATTTATTTAAATATAATAAA
1 ATTTTATTTAAATAAAGATTTAAATATAAAAATTTATTTAAATAAAATAAA
*
397790 ATTTTATATAAA
1 ATTTTATTTAAA
397802 GATATTAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
51 18 0.34
52 20 0.38
53 15 0.28
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.47
Consensus pattern (51 bp):
ATTTTATTTAAATAAAGATTTAAATATAAAAATTTATTTAAATAAAATAAA
Found at i:398189 original size:23 final size:25
Alignment explanation
Indices: 398134--398189 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
398124 CAATCATAAA
398134 TTTATATCAT-TTTTAAGCTATCTT
1 TTTATATCATATTTTAAGCTATCTT
*
398158 TTTA-A-CATATTTTAA-TTAT-TT
1 TTTATATCATATTTTAAGCTATCTT
398179 TTTATATCATA
1 TTTATATCATA
398190 ATTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.21
22 7 0.25
23 11 0.39
24 4 0.14
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATATCATATTTTAAGCTATCTT
Found at i:404916 original size:14 final size:14
Alignment explanation
Indices: 404897--404924 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
404887 AATAATAAAA
404897 AATATTTTTATATT
1 AATATTTTTATATT
404911 AATATTTTTATATT
1 AATATTTTTATATT
404925 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:404924 original size:22 final size:22
Alignment explanation
Indices: 404898--404939 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
404888 ATAATAAAAA
404898 ATATTTTTAT-ATTAATATTTTT
1 ATATTTTTATAATTAA-ATTTTT
404920 ATATTTTTATAATTAAATTT
1 ATATTTTTATAATTAAATTT
404940 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTTT
Found at i:407263 original size:29 final size:30
Alignment explanation
Indices: 407221--407282 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
407211 GATGAGATTC
*
407221 TTTCTATTTTTATATTATAATTAATTTA-T
1 TTTCTATTATTATATTATAATTAATTTAGT
*
407250 TTTCTATTATTATATTATAATTTATTTAGT
1 TTTCTATTATTATATTATAATTAATTTAGT
407280 TTT
1 TTT
407283 ATATGTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (30 bp):
TTTCTATTATTATATTATAATTAATTTAGT
Found at i:410773 original size:20 final size:17
Alignment explanation
Indices: 410737--410776 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
410727 ATTATTATTT
410737 ATTTGAAATAATAAATA
1 ATTTGAAATAATAAATA
410754 ATTTGGAAATTAATTAAATA
1 ATTT-GAAA-TAA-TAAATA
410774 ATT
1 ATT
410777 AAAAGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 3 0.15
20 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
ATTTGAAATAATAAATA
Found at i:411781 original size:34 final size:35
Alignment explanation
Indices: 411711--411781 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
411701 TTTTTTTCAG
*
411711 ATTTTAAAAATTAATATATAATATTTTATTAAAAA
1 ATTTTAAAAATTAATATAAAATATTTTATTAAAAA
411746 ATTTTAAAAA-TAA-ATAAAATTATTTT-TTAATAAA
1 ATTTTAAAAATTAATATAAAA-TATTTTATTAA-AAA
411780 AT
1 AT
411782 AATATTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
33 9 0.27
34 14 0.42
35 10 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTTTAAAAATTAATATAAAATATTTTATTAAAAA
Found at i:412420 original size:19 final size:19
Alignment explanation
Indices: 412396--412435 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
412386 TTAAATTTTT
412396 TTAAAA-TTAAATAAATTAA
1 TTAAAATTTAAA-AAATTAA
*
412415 TTAAAATTTTAAAAATTAA
1 TTAAAATTTAAAAAATTAA
412434 TT
1 TT
412436 GAGTTGATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAATTTAAAAAATTAA
Found at i:413030 original size:3 final size:3
Alignment explanation
Indices: 413022--413058 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
413012 TGTTTGATAA
413022 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
413059 AGATGTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:414401 original size:21 final size:22
Alignment explanation
Indices: 414376--414423 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
414366 TTTGATAAAA
414376 TTATTTAT-TCTTATCATATTT
1 TTATTTATGTCTTATCATATTT
* *
414397 TTA-TTATGTTTTATTATATTT
1 TTATTTATGTCTTATCATATTT
*
414418 TAATTT
1 TTATTT
414424 TTTTCCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 16 0.73
22 2 0.09
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTTATGTCTTATCATATTT
Found at i:418024 original size:23 final size:23
Alignment explanation
Indices: 417982--418025 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
417972 ATTACTTTTC
* **
417982 ATCAATATTAAATTTTTAATTGA
1 ATCAATATTAAAATAATAATTGA
418005 ATCAATATTAAAATAATAATT
1 ATCAATATTAAAATAATAATT
418026 TTAATGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
ATCAATATTAAAATAATAATTGA
Found at i:418060 original size:22 final size:22
Alignment explanation
Indices: 418008--418082 Score: 84
Period size: 24 Copynumber: 3.4 Consensus size: 22
417998 TAATTGAATC
*
418008 AATATTAAAAT-A-ATAATTTT
1 AATATTAAAATAATATAATTAT
418028 AATGATATAAAATAATATAATTAT
1 AAT-AT-TAAAATAATATAATTAT
418052 AATATTAAAAAATAATATAATTAT
1 AATATT--AAAATAATATAATTAT
418076 -ATATTAA
1 AATATTAA
418083 TATGTAATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
20 3 0.06
21 4 0.08
22 7 0.15
23 8 0.17
24 26 0.54
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
AATATTAAAATAATATAATTAT
Found at i:418083 original size:16 final size:16
Alignment explanation
Indices: 418064--418107 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
418054 TATTAAAAAA
418064 TAATATAATTATATAT
1 TAATATAATTATATAT
*
418080 TAATATGTAATTATTTAT
1 TAATA--TAATTATATAT
*
418098 TATTATAATT
1 TAATATAATT
418108 TATTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TAATATAATTATATAT
Found at i:418296 original size:23 final size:23
Alignment explanation
Indices: 418266--418317 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
418256 AAATAATTTT
418266 TATT-TAAAT-TTAATTATAAAAA
1 TATTATAAATATTAA-TATAAAAA
418288 TATTATAAATATTAATATAAAAA
1 TATTATAAATATTAATATAAAAA
*
418311 TAATATA
1 TATTATA
418318 TTAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 19 0.70
24 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATTATAAATATTAATATAAAAA
Found at i:418962 original size:4 final size:4
Alignment explanation
Indices: 418955--418988 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
418945 TTTCACGAGC
418955 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
418989 AGAAGGATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:419367 original size:20 final size:19
Alignment explanation
Indices: 419310--419367 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
419300 GAATAAAAAA
*
419310 TTAAATTAAATATAATTAAT
1 TTAAATTAAATATAATT-TT
* *
419330 ATAAA-TAAAAATATATTTT
1 TTAAATTAAATATA-ATTTT
419349 TTAAATTAAATATTAATTT
1 TTAAATTAAATA-TAATTT
419368 ATTCAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 12 0.40
20 16 0.53
21 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATTAAATATAATTTT
Found at i:421898 original size:19 final size:19
Alignment explanation
Indices: 421874--421918 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
421864 TTTTTAAAAA
421874 ATTAAATA-AATAAATTTTT
1 ATTAAATATAA-AAATTTTT
*
421893 ATTAAATATAAATATTTTT
1 ATTAAATATAAAAATTTTT
*
421912 ATAAAAT
1 ATTAAAT
421919 TTTTTAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAATATAAAAATTTTT
Found at i:422914 original size:6 final size:6
Alignment explanation
Indices: 422903--422927 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
422893 CAAATAAGAA
422903 CTAATG CTAATG CTAATG CTAATG C
1 CTAATG CTAATG CTAATG CTAATG C
422928 ACAGAGCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (6 bp):
CTAATG
Found at i:424136 original size:16 final size:17
Alignment explanation
Indices: 424115--424156 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
424105 AATCGAGTTA
424115 TTTTTAA-AAGTTAAAT
1 TTTTTAATAAGTTAAAT
*
424131 TTTTTAATAATTTAAAT
1 TTTTTAATAAGTTAAAT
*
424148 TTATTAATA
1 TTTTTAATA
424157 TATAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTTAATAAGTTAAAT
Found at i:425965 original size:7 final size:7
Alignment explanation
Indices: 425953--425986 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
425943 TGATTAATAT
425953 AAATTTA
1 AAATTTA
425960 AAATTTA
1 AAATTTA
425967 AAATTTA
1 AAATTTA
*
425974 ATATTTA
1 AAATTTA
*
425981 TAATTT
1 AAATTT
425987 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
AAATTTA
Found at i:427816 original size:22 final size:23
Alignment explanation
Indices: 427773--427816 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
427763 TTTTTTTAAT
* *
427773 TATATTTTTTTATTATATATATA
1 TATATTTGTTTATTATACATATA
427796 TATATTTGTTT-TTATACATAT
1 TATATTTGTTTATTATACATAT
427817 TTTTCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTTGTTTATTATACATATA
Found at i:428828 original size:20 final size:21
Alignment explanation
Indices: 428805--428855 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
428795 TAAATAAGAC
*
428805 TTTTTATTACAAAATT-TATA
1 TTTTTATAACAAAATTATATA
* *
428825 TTTTTATAATATAATTATATA
1 TTTTTATAACAAAATTATATA
428846 TTTTTTATAA
1 -TTTTTATAA
428856 TTATATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.50
21 4 0.15
22 9 0.35
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTATAACAAAATTATATA
Found at i:428853 original size:22 final size:20
Alignment explanation
Indices: 428817--428856 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
428807 TTTATTACAA
428817 AATTTATATTTTTATAATAT
1 AATTTATATTTTTATAATAT
428837 AATTATATATTTTTTATAAT
1 AATT-TATA-TTTTTATAAT
428857 TATATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTATATTTTTATAATAT
Found at i:428987 original size:13 final size:13
Alignment explanation
Indices: 428971--429045 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
428961 TTAAAATTAA
428971 TTAAAATATATAT
1 TTAAAATATATAT
*
428984 TTAATATATATAT
1 TTAAAATATATAT
* * * *
428997 ATAATATAAACAAT
1 TTAAAATATA-TAT
*
429011 TTTAAATA-A-AT
1 TTAAAATATATAT
*
429022 TTAAAATATCTAT
1 TTAAAATATATAT
429035 TTATAAATATA
1 TTA-AAATATA
429046 AATAAATTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
11 9 0.19
13 26 0.54
14 13 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAAATATATAT
Found at i:429252 original size:17 final size:20
Alignment explanation
Indices: 429232--429270 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
429222 TAATTAAAAA
429232 TATTAA-AA-TAT-TATTTT
1 TATTAATAATTATATATTTT
429249 TATTAATAATTATATATTTT
1 TATTAATAATTATATATTTT
429269 TA
1 TA
429271 AAATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 3 0.16
20 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAATAATTATATATTTT
Found at i:431290 original size:25 final size:23
Alignment explanation
Indices: 431240--431295 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
431230 AAATTCAATT
*
431240 TATTGTTTTTAAAAATATTATAA
1 TATTATTTTTAAAAATATTATAA
431263 TATTATTTTTAAATTAATATT-T-A
1 TATTATTTTTAAA--AATATTATAA
431286 TA-TATTTTTA
1 TATTATTTTTA
431296 TAATCAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.27
23 15 0.50
24 1 0.03
25 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTTTTAAAAATATTATAA
Found at i:431291 original size:22 final size:22
Alignment explanation
Indices: 431229--431295 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
431219 GATTGATTCA
* *
431229 TAAATTCA-ATTTAT-TGTTTT
1 TAAATTAATATTTATATATTTT
431249 TAAA--AATATTATAATATTATTTT
1 TAAATTAATATT-T-ATA-TATTTT
431272 TAAATTAATATTTATATATTTT
1 TAAATTAATATTTATATATTTT
431294 TA
1 TA
431296 TAATCAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
18 1 0.03
19 3 0.08
20 5 0.13
21 2 0.05
22 8 0.21
23 12 0.32
24 1 0.03
25 6 0.16
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (22 bp):
TAAATTAATATTTATATATTTT
Found at i:431306 original size:22 final size:22
Alignment explanation
Indices: 431237--431307 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
431227 CATAAATTCA
*
431237 ATTTAT-TGTTTTTAAA--AAT
1 ATTTATATATTTTTAAATCAAT
*
431256 ATTATAATATTATTTTTAAATTAAT
1 ATT-T-ATA-TATTTTTAAATCAAT
431281 ATTTATATATTTTTATAATCAA-
1 ATTTATATATTTTTA-AATCAAT
431303 ATTTA
1 ATTTA
431308 AATAAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 2 0.05
22 13 0.30
23 17 0.40
24 1 0.02
25 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
ATTTATATATTTTTAAATCAAT
Found at i:431872 original size:19 final size:19
Alignment explanation
Indices: 431850--431893 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
431840 TTTAAAAATG
* *
431850 AATTTCATTTTTTAATTTA
1 AATTTAATTTTTAAATTTA
*
431869 AATTAAATTTTTAAATTTA
1 AATTTAATTTTTAAATTTA
431888 ATATTT
1 A-ATTT
431894 TTAATCAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTAATTTTTAAATTTA
Found at i:431881 original size:13 final size:15
Alignment explanation
Indices: 431865--431897 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
431855 CATTTTTTAA
431865 TTTAAA-TTAA-ATT
1 TTTAAATTTAATATT
431878 TTTAAATTTAATATT
1 TTTAAATTTAATATT
431893 TTTAA
1 TTTAA
431898 TCAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 4 0.22
15 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATTTAATATT
Found at i:440092 original size:18 final size:18
Alignment explanation
Indices: 440066--440102 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
440056 GGATGATCAC
*
440066 ATCGCAGCAGAAGAATAA
1 ATCGAAGCAGAAGAATAA
440084 ATCGAAGCAGAAGAATAA
1 ATCGAAGCAGAAGAATAA
440102 A
1 A
440103 CCCTAGCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.22, T:0.11
Consensus pattern (18 bp):
ATCGAAGCAGAAGAATAA
Found at i:441243 original size:7 final size:7
Alignment explanation
Indices: 441233--441270 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
441223 AAAAAATTTA
441233 TTAAATT
1 TTAAATT
441240 TTAAATT
1 TTAAATT
441247 TT-AATT
1 TTAAATT
441253 TTAATATT
1 TTAA-ATT
441261 TATAAATT
1 T-TAAATT
441269 TT
1 TT
441271 TTTAACTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.21
7 11 0.39
8 8 0.29
9 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTAAATT
Found at i:441373 original size:18 final size:18
Alignment explanation
Indices: 441344--441379 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
441334 CAATCTAAAG
441344 AATTTAAAATTTAAGTTTA
1 AATTTAAAATTT-AGTTTA
441363 AATTT-AAATTTAGTTTA
1 AATTTAAAATTTAGTTTA
441380 TTTTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
AATTTAAAATTTAGTTTA
Found at i:442884 original size:24 final size:24
Alignment explanation
Indices: 442852--442919 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
442842 ATAAGTTTAA
*
442852 AAAATATTGAACAACAATAAGTCC
1 AAAATATTGAAAAACAATAAGTCC
442876 AAAATATTGAAAAACAATAAGTCC
1 AAAATATTGAAAAACAATAAGTCC
*
442900 AAAAAATATTGGAAAACAAT
1 --AAAATATTGAAAAACAAT
442920 TGAATAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 23 0.57
26 17 0.43
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.21
Consensus pattern (24 bp):
AAAATATTGAAAAACAATAAGTCC
Found at i:443547 original size:21 final size:21
Alignment explanation
Indices: 443523--443597 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
443513 ATTTTATTAA
443523 TTTTTTATAAATAATTTATAT
1 TTTTTTATAAATAATTTATAT
*
443544 TTTTTTATAAATGATTT-TAT
1 TTTTTTATAAATAATTTATAT
* *
443564 TATTTTT-TATA-AATTAAT-T
1 T-TTTTTATAAATAATTTATAT
443583 TTTTTTATAAATAAT
1 TTTTTTATAAATAAT
443598 AGTAATAGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
18 5 0.11
19 8 0.18
20 11 0.24
21 21 0.47
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTTTTATAAATAATTTATAT
Found at i:443547 original size:44 final size:43
Alignment explanation
Indices: 443484--443583 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 43
443474 TGGGCCGAAG
443484 AAATTAATTTTTAAA-TTTTTAAAAATAAAATTTTATTAATTTTTTAT
1 AAATTAA--TTTAAATTTTTTAAAAAT--AATTTTATT-ATTTTTTAT
* * *
443531 AAA-TAATTTATATTTTTTTATAAATGATTTTATTATTTTTTAT
1 AAATTAATTTA-AATTTTTTAAAAATAATTTTATTATTTTTTAT
443574 AAATTAATTT
1 AAATTAATTT
443584 TTTTTATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
43 12 0.26
44 18 0.38
45 1 0.02
46 13 0.28
47 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (43 bp):
AAATTAATTTAAATTTTTTAAAAATAATTTTATTATTTTTTAT
Found at i:443594 original size:39 final size:43
Alignment explanation
Indices: 443513--443594 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 43
443503 TAAAAATAAA
*
443513 ATTTTATTAATTTTTTATAAATAATTTATATTTTTTTATAAATG
1 ATTTTATTAATTTTTTAT-AATAATTAATATTTTTTTATAAATG
443557 ATTTTATT-ATTTTTTAT-A-AATTAAT-TTTTTTTATAAAT
1 ATTTTATTAATTTTTTATAATAATTAATATTTTTTTATAAAT
443595 AATAGTAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
39 13 0.35
40 6 0.16
41 1 0.03
43 9 0.24
44 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (43 bp):
ATTTTATTAATTTTTTATAATAATTAATATTTTTTTATAAATG
Found at i:443735 original size:19 final size:20
Alignment explanation
Indices: 443708--443775 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 20
443698 ATTAAGATGA
*
443708 ATTTAATTATTATAT-ATTT
1 ATTTTATTATTATATAATTT
*
443727 ATTTTATTATTTTATAATTT
1 ATTTTATTATTATATAATTT
*
443747 ATATTTATATTTTATAATAATATT
1 AT-TTTAT-TATTAT-ATAAT-TT
443771 ATTTT
1 ATTTT
443776 GATATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 13 0.32
20 6 0.15
21 5 0.12
22 4 0.10
23 8 0.20
24 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATTATTATATAATTT
Found at i:443748 original size:28 final size:29
Alignment explanation
Indices: 443717--443805 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 29
443707 AATTTAATTA
443717 TTATATATT-TATTTTATTATTTTATAAT
1 TTATATATTATATTTTATTATTTTATAAT
* ** *
443745 TTATAT-TTATATTTTATAATAATATTAT
1 TTATATATTATATTTTATTATTTTATAAT
443773 TT-TGATATTTATATTTTTATTATTTT-TAAT
1 TTAT-ATA-TTATA-TTTTATTATTTTATAAT
443803 TTA
1 TTA
443806 AATAATTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
27 3 0.06
28 25 0.53
30 10 0.21
31 9 0.19
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (29 bp):
TTATATATTATATTTTATTATTTTATAAT
Found at i:443754 original size:6 final size:6
Alignment explanation
Indices: 443715--443805 Score: 57
Period size: 6 Copynumber: 15.0 Consensus size: 6
443705 TGAATTTAAT
* *
443715 TATTATA TATTTA T-TTTA TTATTTTA TAATTTA TATTTA TATTTTA TAATAA
1 TATT-TA TATTTA TATTTA -TA-TTTA T-ATTTA TATTTA TA-TTTA TATTTA
* *
443767 TA-TTA T-TTTGA TATTTA TATTTT TA-TTA TTTTTA -ATTTA
1 TATTTA TATTT-A TATTTA TATTTA TATTTA TATTTA TATTTA
443806 AATAATTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
5 16 0.24
6 28 0.41
7 19 0.28
8 5 0.07
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:443798 original size:8 final size:7
Alignment explanation
Indices: 443717--443793 Score: 54
Period size: 7 Copynumber: 11.0 Consensus size: 7
443707 AATTTAATTA
*
443717 TTATATA
1 TTATATT
443724 TT-TATT
1 TTATATT
443730 TTATTATT
1 TTA-TATT
*
443738 TTATAAT
1 TTATATT
443745 TTATA-T
1 TTATATT
443751 TTATATT
1 TTATATT
*
443758 TTATAATA
1 TTAT-ATT
*
443766 ATATTATT
1 TTA-TATT
443774 TTGATA-T
1 TT-ATATT
443781 TTATATT
1 TTATATT
443788 TT-TATT
1 TTATATT
443794 ATTTTTAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
6 18 0.32
7 21 0.37
8 16 0.28
9 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATATT
Found at i:444101 original size:3 final size:3
Alignment explanation
Indices: 444093--444126 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
444083 ATATTAGATT
444093 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
444127 ACATAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:447725 original size:18 final size:18
Alignment explanation
Indices: 447701--447779 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
447691 TTATCAACCC
*
447701 CAAATGTATCTTCTACCAT
1 CAAATGTATCTCCTACC-T
447720 -AAATGTATCTCCTACCT
1 CAAATGTATCTCCTACCT
*
447737 CAAATGTA--TCAT-CCT
1 CAAATGTATCTCCTACCT
* *
447752 CAAATTTATCCTCC-ACCA
1 CAAATGTAT-CTCCTACCT
447770 CAAATGTATC
1 CAAATGTATC
447780 AACGAGAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
15 10 0.20
16 3 0.06
17 2 0.04
18 34 0.69
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (18 bp):
CAAATGTATCTCCTACCT
Found at i:472257 original size:13 final size:13
Alignment explanation
Indices: 472241--472266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
472231 CTTCACAAAG
472241 AATGAAGGAGCTT
1 AATGAAGGAGCTT
472254 AATGAAGGAGCTT
1 AATGAAGGAGCTT
472267 GAAACTCACA
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:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
AATGAAGGAGCTT
Found at i:478968 original size:9 final size:9
Alignment explanation
Indices: 478942--478977 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
478932 GCTGTTTTAT
*
478942 TTTATTTTA
1 TTTATTTTC
478951 TTT-TTTTC
1 TTTATTTTC
478959 TTTATTTTC
1 TTTATTTTC
478968 TTTATTTTC
1 TTTATTTTC
478977 T
1 T
478978 AATCTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTC
Found at i:479971 original size:16 final size:17
Alignment explanation
Indices: 479926--479972 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
479916 GAGCTTTTAG
* *
479926 TTTAAGTTTAGATTGAT
1 TTTAAGTTTAAATAGAT
*
479943 TTTCAATTTTAAATAG-T
1 TTT-AAGTTTAAATAGAT
479960 TTTAAGTTTAAAT
1 TTTAAGTTTAAAT
479973 TTATATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (17 bp):
TTTAAGTTTAAATAGAT
Found at i:480302 original size:2 final size:2
Alignment explanation
Indices: 480295--480327 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
480285 GCTGCAAAGA
480295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
480328 AAACTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:480752 original size:20 final size:20
Alignment explanation
Indices: 480709--480757 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
480699 TTATCAGTAG
480709 AATTAAATTATAATTTAAAAA
1 AATT-AATTATAATTTAAAAA
*
480730 AATTAATTA-AATTTAAATTA
1 AATTAATTATAATTTAAA-AA
480750 AATTAATT
1 AATTAATT
480758 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 8 0.31
20 14 0.54
21 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTAATTATAATTTAAAAA
Found at i:480763 original size:16 final size:16
Alignment explanation
Indices: 480728--480764 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
480718 ATAATTTAAA
480728 AAAATTAATTAAATTT
1 AAAATTAATTAAATTT
480744 -AAATTAAATT-AATTT
1 AAAATT-AATTAAATTT
480759 AAAATT
1 AAAATT
480765 TTATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTAATTAAATTT
Found at i:480796 original size:63 final size:63
Alignment explanation
Indices: 480718--480850 Score: 148
Period size: 63 Copynumber: 2.1 Consensus size: 63
480708 GAATTAAATT
* *
480718 ATAAT-TTAAAAAAATTAATTAAATTTAAATTAA-ATTAATTTAAAATTT-TATTTTATTATTTA
1 ATAATATTAAAAAAATTAA-AAAAATTAAATTAATATTAATTT--AATTTATATTTTATTATTTA
480780 A
63 A
* * *
480781 ATAATATT-AAAAAATTAAAAAAATTATATTAATATTTATTTAATTTAAATTTTTTATTATTTAA
1 ATAATATTAAAAAAATTAAAAAAATTAAATTAATATTAATTTAATTT--ATATTTTATTATTTAA
480845 ATAATA
1 ATAATA
480851 ATTCATATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
61 5 0.08
62 11 0.18
63 22 0.37
64 22 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (63 bp):
ATAATATTAAAAAAATTAAAAAAATTAAATTAATATTAATTTAATTTATATTTTATTATTTAA
Found at i:481543 original size:38 final size:37
Alignment explanation
Indices: 481467--481565 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 37
481457 GGTTGACGGT
* *
481467 TAGAGAATTCAATTTGAAATTCGCTTACAGCTTACGAC
1 TAGAGAATTCAATTTGAAATT-GATAACAGCTTACGAC
**
481505 TAGAGAATTCAATTTGAAATTGATAAGTGGC-TAGCGAC
1 TAGAGAATTCAATTTGAAATTGATAA-CAGCTTA-CGAC
*
481543 TAGAGAATTCAATTTGGAATTGA
1 TAGAGAATTCAATTTGAAATTGA
481566 CTGGCAGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 5 0.09
38 49 0.91
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (37 bp):
TAGAGAATTCAATTTGAAATTGATAACAGCTTACGAC
Found at i:482792 original size:69 final size:69
Alignment explanation
Indices: 482614--482762 Score: 298
Period size: 69 Copynumber: 2.2 Consensus size: 69
482604 TCGTGTCTCA
482614 TTCCATGCCTCATTTCGTATTCATAAATAATGAGAAGCCAATTTAGTTACTTGTCTTAGGAATCT
1 TTCCATGCCTCATTTCGTATTCATAAATAATGAGAAGCCAATTTAGTTACTTGTCTTAGGAATCT
482679 TAAT
66 TAAT
482683 TTCCATGCCTCATTTCGTATTCATAAATAATGAGAAGCCAATTTAGTTACTTGTCTTAGGAATCT
1 TTCCATGCCTCATTTCGTATTCATAAATAATGAGAAGCCAATTTAGTTACTTGTCTTAGGAATCT
482748 TAAT
66 TAAT
482752 TTCCATGCCTC
1 TTCCATGCCTC
482763 GTTCTACTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (69 bp):
TTCCATGCCTCATTTCGTATTCATAAATAATGAGAAGCCAATTTAGTTACTTGTCTTAGGAATCT
TAAT
Found at i:483704 original size:21 final size:22
Alignment explanation
Indices: 483671--483713 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
483661 AATTTTAAAA
483671 TTAAATATAAATAA-ATTTATTT
1 TTAAATATAAATAATA-TTATTT
483693 TTAAAT-TAAATAATATTATTT
1 TTAAATATAAATAATATTATTT
483714 ATATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAATATAAATAATATTATTT
Found at i:484654 original size:21 final size:21
Alignment explanation
Indices: 484620--484659 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
484610 AAAATTTATT
484620 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
484641 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
484660 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:485911 original size:13 final size:13
Alignment explanation
Indices: 485889--485923 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
485879 ATTTTTATAT
*
485889 ATATATATATTAA
1 ATATAAATATTAA
485902 ATATAAATATTAA
1 ATATAAATATTAA
485915 ATATAAATA
1 ATATAAATA
485924 CTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAAATATTAA
Found at i:486128 original size:23 final size:23
Alignment explanation
Indices: 486098--486141 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
486088 GTGTACGTGT
486098 TAAATATTTATATATATTTAATA
1 TAAATATTTATATATATTTAATA
*
486121 TAAATATTTTTATATATTTAA
1 TAAATATTTATATATATTTAA
486142 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAAATATTTATATATATTTAATA
Found at i:487607 original size:23 final size:21
Alignment explanation
Indices: 487580--487647 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 21
487570 TTTTAATGAC
487580 ATTAAAAATAATAATAACTTAAA
1 ATTAAAAATAATAAT-A-TTAAA
* *
487603 ATTAATAATCATAATATTAAA
1 ATTAAAAATAATAATATTAAA
* *
487624 ATATAAAATTAATTAAAATTAAA
1 AT-TAAAAATAA-TAATATTAAA
487647 A
1 A
487648 CTAATGATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 7 0.19
22 7 0.19
23 23 0.62
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTAAAAATAATAATATTAAA
Found at i:487652 original size:16 final size:17
Alignment explanation
Indices: 487618--487663 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
487608 TAATCATAAT
*
487618 ATTAAAATATAAAATTA
1 ATTAAAATATAAAACTA
487635 ATTAAAAT-TAAAACTA
1 ATTAAAATATAAAACTA
487651 ATGATAAAATATA
1 AT--TAAAATATA
487664 TAATATCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 8 0.32
18 6 0.24
19 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTAAAATATAAAACTA
Found at i:490678 original size:21 final size:21
Alignment explanation
Indices: 490640--490679 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
490630 ATTGAATAAA
* *
490640 TTTAATTTAATTTATTTAATT
1 TTTAAATTAATTGATTTAATT
*
490661 TTTAAATTAATTGGTTTAA
1 TTTAAATTAATTGATTTAA
490680 AAAATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTAAATTAATTGATTTAATT
Done.