Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold285
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: 926752
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 5 of 6
Found at i:725538 original size:25 final size:25
Alignment explanation
Indices: 725460--725540 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
725450 TATAGTATTA
725460 TTAATATT-ATAAAAATAATTTTTAT
1 TTAATATTAATAAAAAT-ATTTTTAT
* * * *
725485 ATTAATATTTATAAATA-ATTATAAT
1 -TTAATATTAATAAAAATATTTTTAT
725510 TTAAT-TTAAATAAAAATATTTTTAT
1 TTAATATT-AATAAAAATATTTTTAT
725535 TTAATA
1 TTAATA
725541 AATAATTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
23 2 0.05
24 11 0.25
25 17 0.39
26 8 0.18
27 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAATATTAATAAAAATATTTTTAT
Found at i:726072 original size:11 final size:10
Alignment explanation
Indices: 726045--726077 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
726035 ATAATTAAAT
726045 TAATATTTAA
1 TAATATTTAA
726055 -AATATTTAA
1 TAATATTTAA
726064 TATATATTTAA
1 TA-ATATTTAA
726075 TAA
1 TAA
726078 AATATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
10 2 0.10
11 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATATTTAA
Found at i:731384 original size:22 final size:25
Alignment explanation
Indices: 731351--731406 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 25
731341 TAATTTTTAA
* *
731351 TAATTTTA-TTATTAAT-AAAATT-
1 TAATTATATTTATAAATAAAAATTC
731373 T-ATTATATTTATAAATAAAAATTC
1 TAATTATATTTATAAATAAAAATTC
731397 TAATTATATT
1 TAATTATATT
731407 GAAAGATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 5 0.18
22 8 0.29
23 6 0.21
24 1 0.04
25 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATTATATTTATAAATAAAAATTC
Found at i:731441 original size:74 final size:75
Alignment explanation
Indices: 731363--731518 Score: 188
Period size: 74 Copynumber: 2.1 Consensus size: 75
731353 ATTTTATTAT
* * * *
731363 TAATAAAATTTATTATATTTATAAATAAAAATTCTAATTATATTGAAAGA-TTTAGTTAAAAGAA
1 TAATAAAATTTATCACATTTATAAATAAAAATTCAAATTATATTGAAAGACTTTAGATAAAAGAA
731427 ATTTATGAGA
66 ATTTATGAGA
* * * * * * *
731437 TAATAGAATTTATCACATTTGTAAATAAGAATTCAAATTCTATTGAAATACTTTGGATAAATGAA
1 TAATAAAATTTATCACATTTATAAATAAAAATTCAAATTATATTGAAAGACTTTAGATAAAAGAA
**
731502 ATTTATTTGA
66 ATTTATGAGA
731512 TAATAAA
1 TAATAAA
731519 TAAATGTTAA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
74 42 0.63
75 25 0.37
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (75 bp):
TAATAAAATTTATCACATTTATAAATAAAAATTCAAATTATATTGAAAGACTTTAGATAAAAGAA
ATTTATGAGA
Found at i:732007 original size:15 final size:16
Alignment explanation
Indices: 731987--732030 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
731977 AATTTTTTTA
731987 TTTTTATATAATA-AT
1 TTTTTATATAATATAT
*
732002 TTTTTATTTAATATA-
1 TTTTTATATAATATAT
*
732017 TTTTTATACAATAT
1 TTTTTATATAATAT
732031 CATATTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTATATAATATAT
Found at i:732553 original size:2 final size:2
Alignment explanation
Indices: 732546--732574 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
732536 CTTAAGGTTT
732546 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
732575 CAGTTTTTAA
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:734891 original size:26 final size:25
Alignment explanation
Indices: 734849--734897 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
734839 ATATTTTAAC
*
734849 TAATTATTATATAATTATATAAATT
1 TAATTATTATATAATTAAATAAATT
* *
734874 TAATTATTTATTTTATTAAATAAA
1 TAATTA-TTATATAATTAAATAAA
734898 ACAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTATTATATAATTAAATAAATT
Found at i:734936 original size:18 final size:17
Alignment explanation
Indices: 734913--734956 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
734903 TATATATTTT
734913 TAAATAAAAGAAATTATA
1 TAAATAAAAGAAATTA-A
* *
734931 TAAATAAAATATATTAA
1 TAAATAAAAGAAATTAA
734948 TAAATAAAA
1 TAAATAAAA
734957 ACAAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAATAAAAGAAATTAA
Found at i:734938 original size:22 final size:23
Alignment explanation
Indices: 734890--734938 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
734880 TTTATTTTAT
***
734890 TAAATAAAACAAATATATATTTT
1 TAAATAAAACAAATATATATAAA
*
734913 TAAATAAAAGAAAT-TATATAAA
1 TAAATAAAACAAATATATATAAA
734935 TAAA
1 TAAA
734939 ATATATTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAATAAAACAAATATATATAAA
Found at i:736417 original size:25 final size:26
Alignment explanation
Indices: 736379--736427 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
736369 ATAATAAAAT
736379 TATAACTATTATTACTAA-AATATATA
1 TATAACTATTATTA-TAAGAATATATA
*
736405 TATAATTA-TATTATAAGAATATA
1 TATAACTATTATTATAAGAATATA
736428 AATTTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 11 0.52
26 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
TATAACTATTATTATAAGAATATATA
Found at i:738436 original size:13 final size:13
Alignment explanation
Indices: 738418--738443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
738408 CAATTTTTTG
738418 TGTATCGATACAT
1 TGTATCGATACAT
738431 TGTATCGATACAT
1 TGTATCGATACAT
738444 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:738528 original size:20 final size:20
Alignment explanation
Indices: 738503--738575 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
738493 CAACTTTTTT
738503 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
738523 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
738544 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
738564 ATGTATCGATAC
1 ATGTATCGATAC
738576 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:738541 original size:41 final size:41
Alignment explanation
Indices: 738482--738575 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
738472 CTGCCAAAAA
*
738482 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
738523 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
738564 ATGTATCGATAC
1 ATGTATCGATAC
738576 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:738557 original size:21 final size:21
Alignment explanation
Indices: 738482--738557 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
738472 CTGCCAAAAA
* *
738482 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
738503 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
738523 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
738544 ATGTATCGATACAT
1 ATGTATCGATACAT
738558 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:739239 original size:27 final size:27
Alignment explanation
Indices: 739208--739261 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
739198 AAAATCTCCC
739208 CCTTAATCAAGTAATTCATATCAAAAT
1 CCTTAATCAAGTAATTCATATCAAAAT
739235 CCTTAATCAAGTAATTCATATCAAAAT
1 CCTTAATCAAGTAATTCATATCAAAAT
739262 TTATTTGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (27 bp):
CCTTAATCAAGTAATTCATATCAAAAT
Found at i:741051 original size:13 final size:13
Alignment explanation
Indices: 741033--741070 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
741023 ATAATCACCC
741033 TGTATCGATACAG
1 TGTATCGATACAG
*
741046 TGTATCGATACAT
1 TGTATCGATACAG
741059 TGTATCGATACA
1 TGTATCGATACA
741071 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:741084 original size:20 final size:20
Alignment explanation
Indices: 741059--741135 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
741049 ATCGATACAT
741059 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
741079 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
741104 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
741124 TGTATCGATACA
1 TGTATCGATACA
741136 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:743165 original size:15 final size:15
Alignment explanation
Indices: 743145--743175 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
743135 ATTTCGTTTG
*
743145 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
743160 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
743175 G
1 G
743176 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:747256 original size:13 final size:13
Alignment explanation
Indices: 747238--747263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
747228 CAATTTTTTG
747238 TGTATCGATACAT
1 TGTATCGATACAT
747251 TGTATCGATACAT
1 TGTATCGATACAT
747264 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:747348 original size:20 final size:20
Alignment explanation
Indices: 747323--747395 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
747313 CAACTTTTTT
747323 ATGTATCGATACATTACAAC
1 ATGTATCGATACATTACAAC
****
747343 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TACAAC
*
747364 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTACAAC
747384 ATGTATCGATAC
1 ATGTATCGATAC
747396 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTACAAC
Found at i:747361 original size:41 final size:41
Alignment explanation
Indices: 747302--747395 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
747292 CTGCCAAAAA
*
747302 ATGTATCGATACAACTTTTTTATGTATCGATACATTACAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTACAAC
* *
747343 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTACAAC
747384 ATGTATCGATAC
1 ATGTATCGATAC
747396 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTACAAC
Found at i:747377 original size:21 final size:21
Alignment explanation
Indices: 747302--747377 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
747292 CTGCCAAAAA
* *
747302 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
747323 ATGTATCGATACAT-TACAAC
1 ATGTATCGATACATCTTTTTC
747343 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
747364 ATGTATCGATACAT
1 ATGTATCGATACAT
747378 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:750343 original size:18 final size:18
Alignment explanation
Indices: 750320--750355 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
750310 AACAACACCA
*
750320 AACCATGTGTCCAAACCT
1 AACCATGTATCCAAACCT
*
750338 AACCATGTATCCGAACCT
1 AACCATGTATCCAAACCT
750356 GAATCTCCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.11, T:0.22
Consensus pattern (18 bp):
AACCATGTATCCAAACCT
Found at i:752602 original size:42 final size:42
Alignment explanation
Indices: 752555--752641 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
752545 AGCTCTATGC
752555 CATAAATTAATACTTTCTAAAGGTCTAATTAAAATCAACCAA
1 CATAAATTAATACTTTCTAAAGGTCTAATTAAAATCAACCAA
*
752597 CATAAATTAATACTTTCTAAAGGTCTAATTAAAATTAACCAA
1 CATAAATTAATACTTTCTAAAGGTCTAATTAAAATCAACCAA
752639 CAT
1 CAT
752642 GTTCTTAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (42 bp):
CATAAATTAATACTTTCTAAAGGTCTAATTAAAATCAACCAA
Found at i:753298 original size:38 final size:39
Alignment explanation
Indices: 753256--753343 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
753246 TAAAATTACA
*
753256 TATTTAATAATTAA-GATAAAAATAATAAA-ATTATTTTT
1 TATTTAATAATTAATGATAAAAA-AATAAATATTATTTAT
* * *
753294 TATTTTAAT-TTTAATTATATAAAAATAAATATTATTTAT
1 TA-TTTAATAATTAATGATAAAAAAATAAATATTATTTAT
*
753333 AATTTAATAAT
1 TATTTAATAAT
753344 ATTAAAGATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
38 18 0.45
39 22 0.55
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (39 bp):
TATTTAATAATTAATGATAAAAAAATAAATATTATTTAT
Found at i:753336 original size:33 final size:32
Alignment explanation
Indices: 753293--753367 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
753283 AAATTATTTT
*
753293 TTATTTTAATTTTAATTATA-TAAAAATAAATA
1 TTATTTTAA-TTTAATAATATTAAAAATAAATA
*
753325 TTATTTATAATTTAATAATATTAAAGATAAATA
1 TTATTT-TAATTTAATAATATTAAAAATAAATA
753358 TTATCTTTAA
1 TTAT-TTTAA
753368 AATATTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
32 15 0.39
33 21 0.55
34 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
TTATTTTAATTTAATAATATTAAAAATAAATA
Found at i:753581 original size:22 final size:21
Alignment explanation
Indices: 753556--753597 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
753546 TTTCTATAAA
*
753556 TTTATATCATAATTTTATTTTT
1 TTTATATCAT-ATTATATTTTT
*
753578 TTTATATTATATTATATTTT
1 TTTATATCATATTATATTTT
753598 ATATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATATCATATTATATTTTT
Found at i:753587 original size:27 final size:27
Alignment explanation
Indices: 753537--753614 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 27
753527 TTATATAAAA
**
753537 ATTTTAATATTTCTATAAATTTATATCAT
1 ATTTT-ATATTT-TATTTATTTATATCAT
*
753566 AATTTTAT-TTTT-TTTATATTATATTAT
1 -ATTTTATATTTTATTTAT-TTATATCAT
753593 ATTTTATATTTTATTTATTTAT
1 ATTTTATATTTTATTTATTTAT
753615 TTATTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
26 10 0.24
27 17 0.40
28 8 0.19
29 2 0.05
30 5 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTATATTTTATTTATTTATATCAT
Found at i:753599 original size:17 final size:16
Alignment explanation
Indices: 753571--753612 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
753561 ATCATAATTT
*
753571 TATTTTTTTTATATTA
1 TATTTATTTTATATTA
*
753587 TATTATATTTTATATTT
1 TATT-TATTTTATATTA
753604 TATTTATTT
1 TATTTATTT
753613 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATTTTATATTA
Found at i:753601 original size:12 final size:11
Alignment explanation
Indices: 753567--753626 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
753557 TTATATCATA
753567 ATTTTATTT-T
1 ATTTTATTTAT
753577 -TTTTATATTAT
1 ATTTTAT-TTAT
*
753588 ATTATATTTTAT
1 ATTTTA-TTTAT
753600 ATTTTATTTAT
1 ATTTTATTTAT
*
753611 TTATTTATTTAT
1 AT-TTTATTTAT
753623 -TTTT
1 ATTTT
753627 GTTTGTGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
9 6 0.14
10 5 0.12
11 8 0.19
12 22 0.52
13 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTTATTTAT
Found at i:753668 original size:2 final size:2
Alignment explanation
Indices: 753661--753685 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
753651 ATCTTCCTTT
753661 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
753686 TTGGGCGCAC
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:755690 original size:3 final size:3
Alignment explanation
Indices: 755678--755707 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
755668 GTATTCACCA
755678 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
755708 TTGGTCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:762950 original size:24 final size:24
Alignment explanation
Indices: 762923--762976 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
762913 ATGATGACAT
* *
762923 AGGGCTTGGGTTGTAAGAAGCACA
1 AGGGCTTGGGTGGTAAGAAGAACA
*
762947 AGGGCTTGGGTGGTAAGATGAACA
1 AGGGCTTGGGTGGTAAGAAGAACA
762971 AGGGCT
1 AGGGCT
762977 CACTGTTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.41, T:0.20
Consensus pattern (24 bp):
AGGGCTTGGGTGGTAAGAAGAACA
Found at i:766368 original size:18 final size:18
Alignment explanation
Indices: 766345--766379 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
766335 TGTATTCATA
766345 TTATTAT-TTTCATATTTT
1 TTATTATATTT-ATATTTT
766363 TTATTATATTTATATTT
1 TTATTATATTTATATTT
766380 AATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTATATTTATATTTT
Found at i:766485 original size:18 final size:17
Alignment explanation
Indices: 766446--766484 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
766436 TTAAATGTTT
766446 AAAATTTAAAAAAATAA
1 AAAATTTAAAAAAATAA
766463 AAAATATTATAAAAAATAA
1 AAAAT-TTA-AAAAAATAA
766482 AAA
1 AAA
766485 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 3 0.15
19 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATTTAAAAAAATAA
Found at i:766489 original size:16 final size:16
Alignment explanation
Indices: 766445--766491 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
766435 TTTAAATGTT
*
766445 TAAAATTTA-AAAAAA
1 TAAAAATTATAAAAAA
766460 TAAAAAATATTATAAAAAA
1 T--AAAA-ATTATAAAAAA
766479 TAAAAATTATAAA
1 TAAAAATTATAAA
766492 TTAACGATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.04
16 8 0.30
17 8 0.30
18 3 0.11
19 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATTATAAAAAA
Found at i:767909 original size:25 final size:23
Alignment explanation
Indices: 767871--767920 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
767861 AGTTAAAATC
**
767871 AAATTTAATTTAATTGAAATTTTAA
1 AAATTTAAAATAATT-AAA-TTTAA
767896 AAATTTAAAATAATTAAATTTAA
1 AAATTTAAAATAATTAAATTTAA
767919 AA
1 AA
767921 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 3 0.13
25 13 0.57
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTTAAAATAATTAAATTTAA
Found at i:767914 original size:15 final size:15
Alignment explanation
Indices: 767896--767924 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
767886 GAAATTTTAA
767896 AAATTTAAAATAATT
1 AAATTTAAAATAATT
767911 AAATTTAAAATAAT
1 AAATTTAAAATAAT
767925 AAAAAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTAAAATAATT
Found at i:769440 original size:13 final size:12
Alignment explanation
Indices: 769420--769449 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
769410 GTTAAAAGTT
769420 AAAAATAAAATA
1 AAAAATAAAATA
769432 AAAATATAAAATA
1 AAAA-ATAAAATA
769445 AAAAA
1 AAAAA
769450 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:769658 original size:22 final size:22
Alignment explanation
Indices: 769595--769663 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
769585 TTAATGTAAA
*
769595 TATATATTT-ATATCTAAA-ATT
1 TATATATTTAATAT-AAAATATT
* **
769616 AATATATTTAATA-ATTTATATT
1 TATATATTTAATATA-AAATATT
*
769638 TATATATTTAATATAAAATATA
1 TATATATTTAATATAAAATATT
769660 TATA
1 TATA
769664 AAATAATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
21 9 0.25
22 26 0.72
23 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATATTTAATATAAAATATT
Found at i:769660 original size:2 final size:2
Alignment explanation
Indices: 769632--769697 Score: 68
Period size: 2 Copynumber: 35.0 Consensus size: 2
769622 TTTAATAATT
* * * *
769632 TA TA TT TA TA TA TT TA -A TA TA -A AA TA TA TA TA -A AA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
769670 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
769698 CACACAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
1 4 0.07
2 50 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:774799 original size:22 final size:22
Alignment explanation
Indices: 774774--774833 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
774764 CGATATATTT
* *
774774 AAATTATATAAATTTAATATAA
1 AAATAATATAAATATAATATAA
*
774796 AAATAAT-TAAAAAATAATATAA
1 AAATAATAT-AAATATAATATAA
* *
774818 ATATGATATAAATATA
1 AAATAATATAAATATA
774834 TGAATATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATAATATAAATATAATATAA
Found at i:774808 original size:10 final size:11
Alignment explanation
Indices: 774774--774829 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
774764 CGATATATTT
*
774774 AAATTATATAA
1 AAATAATATAA
**
774785 ATTTAATATAA
1 AAATAATATAA
774796 AAATAAT-TAAA
1 AAATAATAT-AA
774807 AAATAATATAA
1 AAATAATATAA
* *
774818 ATATGATATAA
1 AAATAATATAA
774829 A
1 A
774830 TATATGAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
10 1 0.03
11 34 0.94
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
AAATAATATAA
Found at i:774869 original size:24 final size:24
Alignment explanation
Indices: 774823--774874 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
774813 TATAAATATG
*
774823 ATATAAATATATGAATATTTTAAA
1 ATATAAATATATGAATATATTAAA
*
774847 ATATAAATTATATGAAT-TATTAAT
1 ATATAAA-TATATGAATATATTAAA
774871 ATAT
1 ATAT
774875 TAAAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATAAATATATGAATATATTAAA
Found at i:774878 original size:25 final size:25
Alignment explanation
Indices: 774812--774878 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
774802 TTAAAAAATA
*
774812 ATATAAATATGATATAAATATATGAAT
1 ATATTAATAT-AT-TAAATATATGAAT
* *
774839 ATTTTAAAATA-TAAATTATATGAAT
1 ATATTAATATATTAAA-TATATGAAT
774864 -TATTAATATATTAAA
1 ATATTAATATATTAAA
774879 ATTTATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
24 12 0.36
25 13 0.39
26 1 0.03
27 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
ATATTAATATATTAAATATATGAAT
Found at i:775154 original size:29 final size:28
Alignment explanation
Indices: 775112--775169 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
775102 CAACGTTATT
775112 ACTTTAAAATAATTATATAAATCAATTA
1 ACTTTAAAATAATTATATAAATCAATTA
*
775140 ACTTTAAAAATAATTATATAGATCAATTA
1 ACTTT-AAAATAATTATATAAATCAATTA
775169 A
1 A
775170 ATTAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (28 bp):
ACTTTAAAATAATTATATAAATCAATTA
Found at i:775857 original size:13 final size:13
Alignment explanation
Indices: 775838--775876 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
775828 TTAATTTTTA
*
775838 AATTAATTGA-TT
1 AATTAATTAATTT
775850 ATATTAATTAATTT
1 A-ATTAATTAATTT
775864 AATTAATTAATTT
1 AATTAATTAATTT
775877 TAAATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 20 0.83
14 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:775918 original size:18 final size:18
Alignment explanation
Indices: 775876--775932 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
775866 TTAATTAATT
775876 TTAAATATTAAAAAATAA
1 TTAAATATTAAAAAATAA
* *
775894 TTTAATATTAACTAAAT-A
1 TTAAATATTAA-AAAATAA
* *
775912 TTAAATA-TAATAATTAA
1 TTAAATATTAAAAAATAA
775929 TTAA
1 TTAA
775933 TTATATACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 17 0.52
19 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATATTAAAAAATAA
Found at i:775931 original size:17 final size:17
Alignment explanation
Indices: 775838--775937 Score: 55
Period size: 17 Copynumber: 5.9 Consensus size: 17
775828 TTAATTTTTA
* * *
775838 AATTAATTGATTATATT
1 AATTAATTAAATATAAT
*
775855 AATTAATTTAAT-TAATT
1 AATTAATTAAATATAA-T
*
775872 AATT--TTAAATATTAAA
1 AATTAATTAAATA-TAAT
* *
775888 AAATAATTTAATATTAACT
1 AATTAATTAAATA-TAA-T
*
775907 AAAT-ATTAAATATAAT
1 AATTAATTAAATATAAT
*
775923 AATTAATTAATTATA
1 AATTAATTAAATATA
775938 TACATTTTAC
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
15 5 0.08
16 9 0.14
17 30 0.46
18 17 0.26
19 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
AATTAATTAAATATAAT
Found at i:775931 original size:28 final size:27
Alignment explanation
Indices: 775863--775933 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 27
775853 TTAATTAATT
*
775863 TAATTAATTAATTTTAAATATTAAAAAA
1 TAATTAATTAA-TCTAAATATTAAAAAA
775891 TAATTTAATATTAA-CTAAATATTAAATATAA
1 TAA-TT-A-ATTAATCTAAATATTAAA-A-AA
775922 TAATTAATTAAT
1 TAATTAATTAAT
775934 TATATACATT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 8 0.22
29 14 0.39
30 4 0.11
31 10 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATTAATTAATCTAAATATTAAAAAA
Found at i:776084 original size:90 final size:91
Alignment explanation
Indices: 775958--776149 Score: 316
Period size: 90 Copynumber: 2.1 Consensus size: 91
775948 TTAAATGATA
* *
775958 TGATTTATAATATAAAATTTTTTTAAAAATTAAATATTAAACTCTCATCACTTAAAATATATGAA
1 TGATTTAT--TATAAAATTTTTTTAAAAAATAAATATTAAACTCTCATCACTTAAAATATATAAA
776023 AATAAATAAAAATATATAATATTTTTTC
64 AATAAATAAAAATATATAATATTTTTTC
776051 TGATTTATTAT-AAA-TTTTTTAAAAACATAAATATTAAACTCTCATCACTTAAAATATATAAAA
1 TGATTTATTATAAAATTTTTTTAAAAA-ATAAATATTAAACTCTCATCACTTAAAATATATAAAA
776114 ATAAATAAAAATATATAATATTTTTTC
65 ATAAATAAAAATATATAATATTTTTTC
*
776141 TAATTTATT
1 TGATTTATT
776150 GTATTTTTAT
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
89 11 0.12
90 73 0.77
91 3 0.03
93 8 0.08
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (91 bp):
TGATTTATTATAAAATTTTTTTAAAAAATAAATATTAAACTCTCATCACTTAAAATATATAAAAA
TAAATAAAAATATATAATATTTTTTC
Found at i:776116 original size:10 final size:10
Alignment explanation
Indices: 776101--776131 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
776091 CTCATCACTT
776101 AAAATATATA
1 AAAATATATA
*
776111 AAAATAAATA
1 AAAATATATA
776121 AAAATATATA
1 AAAATATATA
776131 A
1 A
776132 TATTTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATATATA
Found at i:776444 original size:16 final size:15
Alignment explanation
Indices: 776410--776446 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
776400 AACACATTTT
776410 ATAAAA-AATATTAA
1 ATAAAATAATATTAA
776424 A-AAAATAATATATAA
1 ATAAAATAATAT-TAA
776439 ATAAAATA
1 ATAAAATA
776447 CATGTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 6 0.30
15 4 0.20
16 6 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAAAATAATATTAA
Found at i:789094 original size:2 final size:2
Alignment explanation
Indices: 789087--789113 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
789077 TAGAGAAGAA
789087 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 A
789114 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:790928 original size:659 final size:657
Alignment explanation
Indices: 789599--790904 Score: 2414
Period size: 659 Copynumber: 2.0 Consensus size: 657
789589 TAAATTACGC
*
789599 AAAACCATAAATAAAGTTATACAAATAAAATAGATTTAGGGGTCTTTAATTATTTTAATTTTTTA
1 AAAAGCATAAATAAAGTTATACAAATAAAATAGATTTAGGGGTCTTTAATTATTTTAATTTTTTA
*
789664 AAAAAATATTATTTACTTTAGAAAAATCTTTTTTTAATATTTTAATTTAAAAATAATTACCCATT
66 AAAAAATATTATTTACTTTAGAAAAATCCTTTTTTAATATTTTAATTTAAAAATAATTACCCATT
789729 AAAAAACCTTTCGATTTTCTTAACTTATTATTTTTTAAATTTTTTTCTCCAAAATAATGGTAAAA
131 AAAAAACCTTTCGATTTTCTTAACTTATTATTTTTTAAATTTTTTTCTCCAAAATAATGGTAAAA
789794 TTCTAGTTTTCTAATTATTTTTATTAATTTAAGATGCTTATATATAATTTTTTGGGTTTTTGCAA
196 TTCTAGTTTTCTAATTATTTTTATTAATTTAAGATGCTTATATATAATTTTTTGGGTTTTTGCAA
*
789859 GGAAATATTTTTGTAATTAACATCGTATAAAAATTGCATCTATATTAACATCATGATTAAATTAA
261 GGAAATATTTTTGTAATTAACATCGTATAAAAATTACATCTATATTAACATCATGATTAAATTAA
789924 TGTCACAAATTAATCAAATAATAATTCAAAAAAAATAATTAAAACAATAACATTAAAGTCATTTA
326 TGTCACAAATTAATCAAATAATAATTCAAAAAAAATAATTAAAACAATAACATTAAAGTCATTTA
*
789989 TACACTTTTTATATTAAAAAAATACTTCAAAATTTTAGAAAATCACCGTTATCTAAGCTATCAAC
391 TACACTTTTTATATTAAAAAAATACTTCAAAAGTTTAGAAAATCACCGTTATCTAAGCTATCAAC
* *
790054 TTAATTTTTTTCCTTTTTTAGAATTATATATATAGGATTTTGCTCATAAGTGATTAAAATATTCT
456 TTAATTTTTTTCCTTTTTTAGAATTATATATATAGGATTTTGCTAATAAGTGACTAAAATATTCT
* *
790119 TTTAAATTGTGTATATTATACATAGTAATGTCACCCAATGCATTGACATTGACAAATAAGTTTGT
521 TTTAAATTGTGTATATCATACATAGTAATGTCACCCAATGCATTGACATCGACAAATAAGTTTGT
790184 TAACAAAAATAATAACAGTTCTATTGAAATCAATTTTGAAAAAGCAAATAATTGATACATTAATT
586 TAACAAAAATAATAACAGTTCTATTGAAATCAATTTTGAAAAAGCAAATAATTGATACATTAATT
790249 ACCCATTA
651 A-CCATTA
790257 AAAAGCATAAATAAAGTTATACAAATAAAATAGATTTAGGGGTCTTTAATTATTTTAATTTTTTT
1 AAAAGCATAAATAAAGTTATACAAATAAAATAGATTTAGGGGTCTTTAATTATTTTAA-TTTTTT
790322 AAAAAAATATTATTTACTTTAGAAAAATCCTTTTTTAATATTTTAATTTAAAAATAATTACCCAT
65 AAAAAAATATTATTTACTTTAGAAAAATCCTTTTTTAATATTTTAATTTAAAAATAATTACCCAT
* *
790387 TAAAAAACCTTTTGATTTTCTTAACTTATTATTTTTTAAATTTTTTTCTCCCAAATAATGGTAAA
130 TAAAAAACCTTTCGATTTTCTTAACTTATTATTTTTTAAATTTTTTTCTCCAAAATAATGGTAAA
790452 ATTCTAGTTTTCTAATTATTTTTATTAATTTAAGATGCTTATATATAATTTTTTGGGTTTTTGCA
195 ATTCTAGTTTTCTAATTATTTTTATTAATTTAAGATGCTTATATATAATTTTTTGGGTTTTTGCA
*
790517 AGGAAATATTTTTGTAATTAACATCGTATAAAATTTACATCTATATTAACATCATGATTAAATTA
260 AGGAAATATTTTTGTAATTAACATCGTATAAAAATTACATCTATATTAACATCATGATTAAATTA
* * *
790582 ATGTCACAAATTAATCAAATAATAATTTAAAAAAATTAATTAAAACAATAACATTAAAGTTATTT
325 ATGTCACAAATTAATCAAATAATAATTCAAAAAAAATAATTAAAACAATAACATTAAAGTCATTT
*
790647 ATACACTTTTTATATTAAAAAAATTACTTCAGAAGTTTAGAAAATCACCGTTATCTAAGCTATCA
390 ATACACTTTTTATATTAAAAAAA-TACTTCAAAAGTTTAGAAAATCACCGTTATCTAAGCTATCA
*
790712 ACTTAATTTTTTTCCTTTTTTAGAATTATATATATAGGATTTTGCTAATAAGTGACTAAAGTATT
454 ACTTAATTTTTTTCCTTTTTTAGAATTATATATATAGGATTTTGCTAATAAGTGACTAAAATATT
790777 CTTTTAAATTGTGTATATCATACATAGTAATGTCACCCAATGCATTGACATCGACAAATAAGTTT
519 CTTTTAAATTGTGTATATCATACATAGTAATGTCACCCAATGCATTGACATCGACAAATAAGTTT
* **
790842 GTTAACAAAAATGATAACAGTTCTATTGAAATCAATTTTGAAAGGGCAAATAATTGATACATT
584 GTTAACAAAAATAATAACAGTTCTATTGAAATCAATTTTGAAAAAGCAAATAATTGATACATT
790905 TATTTATTTT
Statistics
Matches: 627, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
658 57 0.09
659 346 0.55
660 224 0.36
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (657 bp):
AAAAGCATAAATAAAGTTATACAAATAAAATAGATTTAGGGGTCTTTAATTATTTTAATTTTTTA
AAAAAATATTATTTACTTTAGAAAAATCCTTTTTTAATATTTTAATTTAAAAATAATTACCCATT
AAAAAACCTTTCGATTTTCTTAACTTATTATTTTTTAAATTTTTTTCTCCAAAATAATGGTAAAA
TTCTAGTTTTCTAATTATTTTTATTAATTTAAGATGCTTATATATAATTTTTTGGGTTTTTGCAA
GGAAATATTTTTGTAATTAACATCGTATAAAAATTACATCTATATTAACATCATGATTAAATTAA
TGTCACAAATTAATCAAATAATAATTCAAAAAAAATAATTAAAACAATAACATTAAAGTCATTTA
TACACTTTTTATATTAAAAAAATACTTCAAAAGTTTAGAAAATCACCGTTATCTAAGCTATCAAC
TTAATTTTTTTCCTTTTTTAGAATTATATATATAGGATTTTGCTAATAAGTGACTAAAATATTCT
TTTAAATTGTGTATATCATACATAGTAATGTCACCCAATGCATTGACATCGACAAATAAGTTTGT
TAACAAAAATAATAACAGTTCTATTGAAATCAATTTTGAAAAAGCAAATAATTGATACATTAATT
ACCATTA
Found at i:791069 original size:11 final size:11
Alignment explanation
Indices: 791014--791082 Score: 52
Period size: 11 Copynumber: 6.1 Consensus size: 11
791004 TTTAAAATAT
791014 TATAT-TTTTA
1 TATATATTTTA
*
791024 TATATCTTTTA
1 TATATATTTTA
791035 TATATCAATAATTTA
1 TATAT--AT--TTTA
*
791050 T-TTTATTTTA
1 TATATATTTTA
791060 TATATATTTTA
1 TATATATTTTA
* *
791071 TGTATAATTTA
1 TATATATTTTA
791082 T
1 T
791083 TTTATATCTG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
10 10 0.21
11 28 0.58
12 2 0.04
13 1 0.02
14 2 0.04
15 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (11 bp):
TATATATTTTA
Found at i:791083 original size:16 final size:15
Alignment explanation
Indices: 791042--791087 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
791032 TTATATATCA
791042 ATAATTTATTTTATT
1 ATAATTTATTTTATT
* *
791057 TTATATATATTTTATGT
1 ATA-ATTTATTTTAT-T
791074 ATAATTTATTTTAT
1 ATAATTTATTTTAT
791088 ATCTGAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 2 0.08
16 20 0.80
17 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
ATAATTTATTTTATT
Found at i:791231 original size:24 final size:23
Alignment explanation
Indices: 791203--791265 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
791193 ATGCATGTCA
791203 TATTTATATTTTATATTGTGT-TT
1 TATTTAT-TTTTATATTGTGTATT
*
791226 TAATTTATTTTTA-ATTTTGTATT
1 T-ATTTATTTTTATATTGTGTATT
791249 TATGTTATTTTTTATAT
1 TAT-TTA-TTTTTATAT
791266 ATTTAAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 8 0.24
23 12 0.35
24 12 0.35
25 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (23 bp):
TATTTATTTTTATATTGTGTATT
Found at i:794360 original size:22 final size:22
Alignment explanation
Indices: 794325--794371 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
794315 TAGACAATAA
*
794325 TTAAAGATGATTTTATTATTATT
1 TTAAAAATGATTTTATTA-TATT
*
794348 TTAAAAAT-ATTTTTTTATATT
1 TTAAAAATGATTTTATTATATT
794369 TTA
1 TTA
794372 CCATACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 8 0.36
23 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TTAAAAATGATTTTATTATATT
Found at i:795506 original size:2 final size:2
Alignment explanation
Indices: 795499--795523 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
795489 TGCTTTTATG
795499 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
795524 TCTTTGCAAT
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:795872 original size:21 final size:22
Alignment explanation
Indices: 795841--795896 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
795831 TATATTTTGC
795841 TATTTTAATTTTATAT-GTTAGA
1 TATTTT-ATTTTATATAGTTAGA
795863 TATTTTA-TTTATATAGTTAGA
1 TATTTTATTTTATATAGTTAGA
* *
795884 AATTATATTTTAT
1 TATTTTATTTTAT
795897 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATTTTATTTTATATAGTTAGA
Found at i:797193 original size:27 final size:27
Alignment explanation
Indices: 797137--797195 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
797127 CAATGTTTTT
* * *
797137 CAATAATGTTCTTAGAACATTCATTTG
1 CAATAATGATCTTAGAACAATCATTGG
*
797164 CAATAATGATCTTATG-ACAATCGTTGG
1 CAATAATGATCTTA-GAACAATCATTGG
797191 CAATA
1 CAATA
797196 CCTTGTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (27 bp):
CAATAATGATCTTAGAACAATCATTGG
Found at i:798661 original size:18 final size:18
Alignment explanation
Indices: 798638--798673 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
798628 TCCAAAGATG
798638 TTTCGCTGGTAAGACATT
1 TTTCGCTGGTAAGACATT
798656 TTTCGCTGGTAAGACATT
1 TTTCGCTGGTAAGACATT
798674 AGATGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (18 bp):
TTTCGCTGGTAAGACATT
Found at i:809551 original size:41 final size:41
Alignment explanation
Indices: 809526--809617 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
809516 TATTATTACT
*
809526 TTTTTAAGTTTGCCATTTGCATTTTCAAAATTAATATTATC
1 TTTTTAAGTTTGCCATTTACATTTTCAAAATTAATATTATC
*
809567 TTTTTAAGTTTGCCATTTACATTTTCAAAATTGATATTATC
1 TTTTTAAGTTTGCCATTTACATTTTCAAAATTAATATTATC
*
809608 TTTTCAAGTT
1 TTTTTAAGTT
809618 CGTTATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (41 bp):
TTTTTAAGTTTGCCATTTACATTTTCAAAATTAATATTATC
Found at i:809613 original size:20 final size:20
Alignment explanation
Indices: 809547--809614 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
809537 GCCATTTGCA
*
809547 TTTTCAAAATTAATATTATC
1 TTTTCAAAATTGATATTATC
* **
809567 TTTTTAAGTTTGCCAT-TTA-C
1 TTTTCAAAATTG--ATATTATC
809587 ATTTTCAAAATTGATATTATC
1 -TTTTCAAAATTGATATTATC
809608 TTTTCAA
1 TTTTCAA
809615 GTTCGTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 2 0.06
20 19 0.53
21 13 0.36
22 2 0.06
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTCAAAATTGATATTATC
Found at i:815204 original size:190 final size:192
Alignment explanation
Indices: 814855--815231 Score: 706
Period size: 190 Copynumber: 2.0 Consensus size: 192
814845 AAAGATAAAG
*
814855 TAAAATGTGAAAGAAACTTTTTGTTATTTTCATTGTTAAACGTTTTTAAGAACAGCTTTAAAGAC
1 TAAAATGTGAAAGAAAATTTTTGTTATTTTCATTGTTAAACGTTTTTAAGAACAGCTTTAAAGAC
*
814920 AAATGTGTACTTTGAAATCTTGAAGTGTGCTGTTTGCAGTATAAGTTGACAGTCCCAAAGTTCAT
66 AAATGTGTACTTTAAAATCTTGAAGTGTGCTGTTTGCAGTATAAGTTGACAGTCCCAAAGTTCAT
814985 AGCATTTGTTTAGAATTTTGTAGATTTGATTTTGCTGGAGGGTTGCTTTA-TTATTTAAAAT
131 AGCATTTGTTTAGAATTTTGTAGATTTGATTTTGCTGGAGGGTTGCTTTATTTATTTAAAAT
815046 TAAAATGTGAAAGAAAAATTTTT-TT-TTTTCATTGTTAAACGTTTTTAAGAACAGCTTTAAAGA
1 TAAAATGTGAAAG-AAAATTTTTGTTATTTTCATTGTTAAACGTTTTTAAGAACAGCTTTAAAGA
815109 CAAATGTGTACTTTAAAATCTTGAAGTGTGCTGTTTGCAGTATAAGTTGACAGTCCCAAAGTTCA
65 CAAATGTGTACTTTAAAATCTTGAAGTGTGCTGTTTGCAGTATAAGTTGACAGTCCCAAAGTTCA
815174 TAGCATTTGTTTAGAATTTTGTAGATTTGATTTTGCTGGAGGGTTGCTTTATTTATTT
130 TAGCATTTGTTTAGAATTTTGTAGATTTGATTTTGCTGGAGGGTTGCTTTATTTATTT
815232 GATTTAAAAA
Statistics
Matches: 182, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
190 153 0.84
191 21 0.12
192 8 0.04
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (192 bp):
TAAAATGTGAAAGAAAATTTTTGTTATTTTCATTGTTAAACGTTTTTAAGAACAGCTTTAAAGAC
AAATGTGTACTTTAAAATCTTGAAGTGTGCTGTTTGCAGTATAAGTTGACAGTCCCAAAGTTCAT
AGCATTTGTTTAGAATTTTGTAGATTTGATTTTGCTGGAGGGTTGCTTTATTTATTTAAAAT
Found at i:815254 original size:18 final size:17
Alignment explanation
Indices: 815224--815257 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
815214 GGGTTGCTTT
*
815224 ATTTATTTGATTTAAAA
1 ATTTATTTAATTTAAAA
815241 ATTTAATTTAATTTAAA
1 ATTT-ATTTAATTTAAA
815258 TTAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATTTAATTTAAAA
Found at i:815331 original size:18 final size:19
Alignment explanation
Indices: 815297--815338 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
815287 ATGATATGAT
815297 TTAAAATAATAATTTTTAA
1 TTAAAATAATAATTTTTAA
* *
815316 TTAAAATACT-ATTTTTAT
1 TTAAAATAATAATTTTTAA
815334 TTAAA
1 TTAAA
815339 TTTAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAAATAATAATTTTTAA
Found at i:815439 original size:12 final size:13
Alignment explanation
Indices: 815422--815450 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
815412 TAAGTAAATG
815422 AATTAAAA-TTAA
1 AATTAAAATTTAA
815434 AATTAAAATTTAA
1 AATTAAAATTTAA
815447 AATT
1 AATT
815451 TATGTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAAATTTAA
Found at i:815540 original size:34 final size:36
Alignment explanation
Indices: 815502--815571 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
815492 GTTATTTATG
*
815502 TAAAA-ATAAATTTAAGATAA-A-TTATTAAAAATAT
1 TAAAATATAAATATAA-ATAATATTTATTAAAAATAT
* *
815536 TAAAATTTAAATATAAATAATATTTATTAAATATAT
1 TAAAATATAAATATAAATAATATTTATTAAAAATAT
815572 ATTATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 9 0.30
35 9 0.30
36 12 0.40
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (36 bp):
TAAAATATAAATATAAATAATATTTATTAAAAATAT
Found at i:817124 original size:51 final size:50
Alignment explanation
Indices: 817043--817196 Score: 168
Period size: 50 Copynumber: 3.0 Consensus size: 50
817033 CATCCCCAAA
**
817043 TGAGATTTTAAATCCTAGAACTATGTTAAATGCAGCAGATATAAAAAAAT-C
1 TGAGATTTTAAA-CCTAGAACTATACTAAATGCAGCAGATAT-AAAAAATGC
* **
817094 TGAGATTTTAAACCTACGAACTATACTAAATGCAGCAGACAT-ACTAATGC
1 TGAGATTTTAAACCTA-GAACTATACTAAATGCAGCAGATATAAAAAATGC
* * * *
817144 TGAGATTGTAAACCTAAGAACTATACTAAACGCAGCGGATATATACAAATGC
1 TGAGATTTTAAACCT-AGAACTATACTAAATGCAGCAGATATA-AAAAATGC
817196 T
1 T
817197 TTTAGGTAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
49 4 0.05
50 41 0.47
51 35 0.40
52 8 0.09
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (50 bp):
TGAGATTTTAAACCTAGAACTATACTAAATGCAGCAGATATAAAAAATGC
Found at i:821767 original size:37 final size:36
Alignment explanation
Indices: 821687--821788 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 36
821677 TGAATATATA
* *
821687 TAAATATATTAAAATTTATAT-AA-A-ATAAT-TAT
1 TAAATATATTATAATTTATATAAATATATAATATTT
*
821719 T-AATATGTTATAATTTATATAAATATATAATATTT
1 TAAATATATTATAATTTATATAAATATATAATATTT
** *
821754 TAAATATAATTATAATAAAAATAAATATA-AATATT
1 TAAATAT-ATTATAATTTATATAAATATATAATATT
821789 ATATAAGTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 17 0.30
32 3 0.05
33 1 0.02
34 5 0.09
35 3 0.05
36 11 0.19
37 17 0.30
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (36 bp):
TAAATATATTATAATTTATATAAATATATAATATTT
Found at i:822099 original size:19 final size:21
Alignment explanation
Indices: 822075--822124 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
822065 AAGATTTAGA
*
822075 TTTATTTAA-TTT-TTTATAT
1 TTTATTTAAGTTTGATTATAT
*
822094 TTTATTAAAGTTTGATTATAT
1 TTTATTTAAGTTTGATTATAT
822115 TTTAATTTAA
1 TTT-ATTTAA
822125 ATTAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.32
20 3 0.12
21 9 0.36
22 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTATTTAAGTTTGATTATAT
Found at i:822154 original size:29 final size:29
Alignment explanation
Indices: 822121--822221 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 29
822111 ATATTTTAAT
*
822121 TTAAATTAATTTAAAATTTTAAATAATTA
1 TTAAATTAATTTAAAATTTTAAATAATAA
* ** *
822150 TTAAA-AAATATTAAAAATTTTATTTTATAA
1 TTAAATTAAT-TT-AAAATTTTAAATAATAA
* * * *
822180 TTAAATTTATATAAAATTTTTATTAATAA
1 TTAAATTAATTTAAAATTTTAAATAATAA
*
822209 AT-AATT-ATTTAAA
1 TTAAATTAATTTAAA
822222 TTAAATTAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 6 0.11
28 7 0.12
29 22 0.39
30 19 0.34
31 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAAATTAATTTAAAATTTTAAATAATAA
Found at i:832509 original size:14 final size:14
Alignment explanation
Indices: 832490--832542 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
832480 TTTTTCGGTT
832490 TTAAATATATTTTA
1 TTAAATATATTTTA
*
832504 TTAAATGTA--TT-
1 TTAAATATATTTTA
832515 TTAAATATATTTTA
1 TTAAATATATTTTA
832529 TTAAATATATTTTA
1 TTAAATATATTTTA
832543 AATATTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 2 0.06
14 22 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTTA
Found at i:832518 original size:11 final size:11
Alignment explanation
Indices: 832488--832547 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 11
832478 GTTTTTTCGG
832488 TTTTAAATATA
1 TTTTAAATATA
*
832499 TTTTATTAAATGTA
1 --TT-TTAAATATA
832513 TTTTAAATATA
1 TTTTAAATATA
832524 TTTTATTAAATATA
1 --TT-TTAAATATA
832538 TTTTAAATAT
1 TTTTAAATAT
832548 TAATTCGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 16 0.39
12 4 0.10
13 4 0.10
14 17 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:832522 original size:25 final size:25
Alignment explanation
Indices: 832488--832547 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
832478 GTTTTTTCGG
*
832488 TTTTAAATATATTTTATTAAATGTA
1 TTTTAAATATATTTTATTAAATATA
832513 TTTTAAATATATTTTATTAAATATA
1 TTTTAAATATATTTTATTAAATATA
832538 TTTTAAATAT
1 TTTTAAATAT
832548 TAATTCGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTAAATATATTTTATTAAATATA
Found at i:836987 original size:2 final size:2
Alignment explanation
Indices: 836980--837020 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
836970 AACTGTTTCT
* *
836980 TA TA TA TA TG CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
837021 GTATGTATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:840248 original size:27 final size:28
Alignment explanation
Indices: 840187--840288 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 28
840177 TTATATTTTT
* **
840187 TATTATTTATATAAATATAAATATAATATAA
1 TATTA-TTATATATAT-TAAATATTTTA-AA
840218 -ATTATTATAT-TATT-AATAATTTTAAA
1 TATTATTATATATATTAAAT-ATTTTAAA
* *
840244 TATTAATATGATATATTAAATATTTTATA
1 TATTATTAT-ATATATTAAATATTTTAAA
*
840273 T-TTATTAAATATATTA
1 TATTATTATATATATTA
840289 TATTCGTGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
26 5 0.08
27 20 0.34
28 9 0.15
29 18 0.31
30 7 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
TATTATTATATATATTAAATATTTTAAA
Found at i:840264 original size:20 final size:18
Alignment explanation
Indices: 840193--840284 Score: 64
Period size: 18 Copynumber: 5.1 Consensus size: 18
840183 TTTTTATTAT
*
840193 TTATATAAATA-TAAATA
1 TTATATATATATTAAATA
* * *
840210 TAATATAAATTATTATATTA
1 TTATATATA-TATTA-AATA
*
840230 TTA-ATA-ATTTTAAATA
1 TTATATATATATTAAATA
840246 TTAATATGATATATTAAATA
1 TT-ATAT-ATATATTAAATA
* *
840266 TTTTATATTTATTAAATA
1 TTATATATATATTAAATA
840284 T
1 T
840285 ATTATATTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
16 5 0.08
17 13 0.22
18 17 0.28
19 9 0.15
20 16 0.27
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (18 bp):
TTATATATATATTAAATA
Found at i:840280 original size:18 final size:18
Alignment explanation
Indices: 840204--840292 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
840194 TATATAAATA
* *
840204 TAAATATAATATAAATTAT
1 TAAATATATTAT-ATTTAT
* *
840223 TATAT-TATTAATAATT-T
1 TAAATATATT-ATATTTAT
* *
840240 TAAATATTAATATGATATAT
1 TAAATA-TATTAT-ATTTAT
*
840260 TAAATATTTTATATTTAT
1 TAAATATATTATATTTAT
840278 TAAATATATTATATT
1 TAAATATATTATATT
840293 CGTGTCATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
17 5 0.09
18 28 0.51
19 15 0.27
20 7 0.13
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (18 bp):
TAAATATATTATATTTAT
Found at i:840847 original size:2 final size:2
Alignment explanation
Indices: 840842--840870 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
840832 TTGTTTTTTA
840842 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
840871 AAAGTAAGAT
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:841529 original size:2 final size:2
Alignment explanation
Indices: 841522--841558 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
841512 GAGTGAAAAT
841522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
841559 TCTTTTCTAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:842037 original size:13 final size:13
Alignment explanation
Indices: 842014--842060 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
842004 AATATAAAAT
842014 TTTTATTAAATTAA
1 TTTT-TTAAATTAA
*
842028 TTTTTTAAATAAAA
1 TTTTTTAAAT-TAA
842042 TTTTTTAAA-TAA
1 TTTTTTAAATTAA
842054 TTATTTT
1 TT-TTTT
842061 TTGATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 10 0.34
14 15 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTAAATTAA
Found at i:842061 original size:14 final size:14
Alignment explanation
Indices: 842007--842053 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
841997 AAATAATAAT
842007 ATAAAATTTTTATTAA
1 ATAAAA-TTTT-TTAA
*
842023 AT-TAATTTTTTAA
1 ATAAAATTTTTTAA
842036 ATAAAATTTTTTAA
1 ATAAAATTTTTTAA
842050 ATAA
1 ATAA
842054 TTATTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 18 0.64
15 2 0.07
16 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAAAATTTTTTAA
Found at i:842248 original size:16 final size:16
Alignment explanation
Indices: 842227--842261 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
842217 AATTTATGAA
842227 TTAAAA-TTAAATTAAT
1 TTAAAAGTTAAATT-AT
842243 TTAAAAGTTAAATTAT
1 TTAAAAGTTAAATTAT
842259 TTA
1 TTA
842262 TTTAATTTAA
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:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAAAAGTTAAATTAT
Found at i:842327 original size:10 final size:11
Alignment explanation
Indices: 842312--842362 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 11
842302 ATAAATTTTT
842312 TATTAAT-TTA
1 TATTAATATTA
842322 TATTAAT-TTA
1 TATTAATATTA
842332 -ATTTAATATT-
1 TA-TTAATATTA
842342 TATTAATATTAA
1 TATTAATATT-A
842354 TATTAATAT
1 TATTAATAT
842363 AAAAATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 1 0.03
10 23 0.64
11 3 0.08
12 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATTAATATTA
Found at i:842353 original size:6 final size:6
Alignment explanation
Indices: 842312--842362 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
842302 ATAAATTTTT
842312 TATTAA T-TT-A TATTAA T-TTAA T-TTAA TATT-- TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
842354 TATTAA TAT
1 TATTAA TAT
842363 AAAAATATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
4 6 0.15
5 14 0.35
6 20 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TATTAA
Found at i:842353 original size:16 final size:15
Alignment explanation
Indices: 842310--842357 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
842300 AAATAAATTT
842310 TTTATTAATTT-ATA
1 TTTATTAATTTAATA
*
842324 TTAATTTAATTTAATA
1 TTTA-TTAATTTAATA
842340 TTTATTAATATTAATA
1 TTTATTAAT-TTAATA
842356 TT
1 TT
842358 AATATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 3 0.10
15 12 0.41
16 14 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATTAATTTAATA
Found at i:842376 original size:32 final size:31
Alignment explanation
Indices: 842301--842394 Score: 90
Period size: 30 Copynumber: 3.1 Consensus size: 31
842291 TTTAACGATA
*
842301 AATAAAT-TTTTTATTAATTTATATTAATTT
1 AATAAATATTTTTATTAATTTATATTAATAT
*
842331 AATTTAATA--TTTATTAATATTAATATTAATAT
1 AA-TAAATATTTTTATTAAT-TT-ATATTAATAT
*
842363 AA-AAATATTTTTATT-ATTTATAAATAATAT
1 AATAAATATTTTTATTAATTTAT-ATTAATAT
842393 AA
1 AA
842395 ACAAACTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
29 2 0.04
30 26 0.49
31 8 0.15
32 17 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
AATAAATATTTTTATTAATTTATATTAATAT
Found at i:843123 original size:5 final size:5
Alignment explanation
Indices: 843113--843140 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
843103 AGAGTTCTTT
843113 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
843141 GCTGCTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:844224 original size:19 final size:20
Alignment explanation
Indices: 844173--844224 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
844163 ATTTTATATT
844173 ATTT-TTTATTAGATGTCATA
1 ATTTATTTATTAGATGT-ATA
844193 ATTTATTTGATTAGATGT-TA
1 ATTTATTT-ATTAGATGTATA
844213 A-TTATTGTATTA
1 ATTTATT-TATTA
844225 ATATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.31
20 8 0.28
21 3 0.10
22 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (20 bp):
ATTTATTTATTAGATGTATA
Found at i:844639 original size:2 final size:2
Alignment explanation
Indices: 844632--844660 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
844622 GTGCTAGGGT
844632 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
844661 TGACGTGATC
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:844830 original size:11 final size:11
Alignment explanation
Indices: 844801--844839 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
844791 TAATATATTT
844801 TTATATTTAT-
1 TTATATTTATA
*
844811 TTATGTTTATA
1 TTATATTTATA
*
844822 TTATTTTTATA
1 TTATATTTATA
844833 TTATATT
1 TTATATT
844840 ATGTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTATATTTATA
Found at i:844856 original size:27 final size:28
Alignment explanation
Indices: 844797--844862 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
844787 AATTTAATAT
**
844797 ATTTTTATATT-TATTTATGTTTATATT
1 ATTTTTATATTATATTTATGTTTATAAA
844824 ATTTTTATATTATA-TTATGTTT-TAAA
1 ATTTTTATATTATATTTATGTTTATAAA
844850 ATGTTTTA-ATTAT
1 AT-TTTTATATTAT
844863 TGTTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 9 0.26
27 24 0.69
28 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (28 bp):
ATTTTTATATTATATTTATGTTTATAAA
Found at i:845902 original size:14 final size:14
Alignment explanation
Indices: 845883--845912 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
845873 TTTTAATTTC
845883 ATAAATAAATTTAA
1 ATAAATAAATTTAA
*
845897 ATAAATATATTTAA
1 ATAAATAAATTTAA
845911 AT
1 AT
845913 TTTTATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAATAAATTTAA
Found at i:848754 original size:3 final size:3
Alignment explanation
Indices: 848746--848772 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
848736 TTTGGATGGC
848746 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
848773 GTAGCTGTCT
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:852031 original size:2 final size:2
Alignment explanation
Indices: 852024--852071 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
852014 TAGAGGAGGC
852024 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
852066 CT CT CT
1 CT CT CT
852072 ATATATATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:852076 original size:2 final size:2
Alignment explanation
Indices: 852071--852107 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
852061 TCTCTCTCTC
*
852071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
852108 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:853531 original size:20 final size:20
Alignment explanation
Indices: 853508--853565 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
853498 TTATATTGTA
853508 TTTATATTATTTTTTTACGT
1 TTTATATTATTTTTTTACGT
**
853528 TTTAT-TATATTTTTATTATTT
1 TTTATAT-TATTTTT-TTACGT
* *
853549 TTTGTATTATATTTTTA
1 TTTATATTATTTTTTTA
853566 TTGTATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 15 0.48
21 14 0.45
22 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTATATTATTTTTTTACGT
Found at i:853543 original size:11 final size:11
Alignment explanation
Indices: 853527--853567 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
853517 TTTTTTTACG
853527 TTTTATTATAT
1 TTTTATTATAT
*
853538 TTTTATTATTT
1 TTTTATTATAT
853549 TTTGTATTATAT
1 TTT-TATTATAT
853561 TTTTATT
1 TTTTATT
853568 GTATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTATAT
Found at i:855441 original size:36 final size:37
Alignment explanation
Indices: 855396--855465 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
855386 AAAAGAGTAG
* *
855396 AAATAAAAATTTTAAATATGACATATAAAA-ATAATTA
1 AAATAAAAATATAAAATATGACATA-AAAATATAATTA
855433 AAAT-AAAATATAAAATATGACATAAAAATATAA
1 AAATAAAAATATAAAATATGACATAAAAATATAA
855466 ATATATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 4 0.13
36 22 0.73
37 4 0.13
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (37 bp):
AAATAAAAATATAAAATATGACATAAAAATATAATTA
Found at i:856472 original size:15 final size:14
Alignment explanation
Indices: 856441--856471 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
856431 AGTATCAGAT
856441 AAATATCATTTTTA
1 AAATATCATTTTTA
*
856455 AAATATTATTTTTA
1 AAATATCATTTTTA
856469 AAA
1 AAA
856472 AAGTTTAATA
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATCATTTTTA
Found at i:856984 original size:2 final size:2
Alignment explanation
Indices: 856977--857013 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
856967 TCTTACTCTT
*
856977 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
857014 GAGATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:858305 original size:12 final size:12
Alignment explanation
Indices: 858288--858312 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
858278 TTAATTAATA
858288 AAATAAATATTT
1 AAATAAATATTT
858300 AAATAAATATTT
1 AAATAAATATTT
858312 A
1 A
858313 TATTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAAATATTT
Found at i:858343 original size:20 final size:20
Alignment explanation
Indices: 858320--858365 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
858310 TTATATTTAA
858320 TAATA-AAAATATAAAAATAT
1 TAATATAAAA-ATAAAAATAT
**
858340 TAATATAAAAATAAATTTAT
1 TAATATAAAAATAAAAATAT
858360 TAATAT
1 TAATAT
858366 TTTAAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATATAAAAATAAAAATAT
Found at i:858958 original size:11 final size:11
Alignment explanation
Indices: 858942--859004 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
858932 TTTTTGGTAT
858942 AAAATTATATA
1 AAAATTATATA
858953 AAAATTAT-TA
1 AAAATTATATA
858963 CAAAATTATATTA
1 -AAAATTATA-TA
*
858976 AAAATTA-CT-
1 AAAATTATATA
*
858985 AAAATTATTTCA
1 AAAATTATAT-A
858997 AAAATTAT
1 AAAATTAT
859005 CAACATTACA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
9 7 0.16
10 4 0.09
11 16 0.36
12 15 0.34
13 2 0.05
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTATATA
Found at i:858990 original size:21 final size:21
Alignment explanation
Indices: 858942--859081 Score: 142
Period size: 21 Copynumber: 6.6 Consensus size: 21
858932 TTTTTGGTAT
858942 AAAATTATA-TAAAAATTATTAC
1 AAAATTATATTAAAAATTA-T-C
858964 AAAATTATATTAAAAATTA-C
1 AAAATTATATTAAAAATTATC
858984 TAAAATTAT-TTCAAAAATTATC
1 -AAAATTATATT-AAAAATTATC
* * *
859006 AACATTACATGAAAAATTATC
1 AAAATTATATTAAAAATTATC
*
859027 AAAATTATATTAAAAGTTATC
1 AAAATTATATTAAAAATTATC
* * **
859048 CAAATTAAATTAAAGGTTATC
1 AAAATTATATTAAAAATTATC
*
859069 TAAATTATATTAA
1 AAAATTATATTAA
859082 TGGTTATTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
20 3 0.03
21 78 0.77
22 11 0.11
23 9 0.09
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAATTATATTAAAAATTATC
Found at i:859068 original size:42 final size:42
Alignment explanation
Indices: 858942--859114 Score: 136
Period size: 42 Copynumber: 4.1 Consensus size: 42
858932 TTTTTGGTAT
* * * *
858942 AAAATTATA-TAAAAATTATTACAAAATTATATTAAAAATTA-C
1 AAAATTATATTAAAAGTTA-T-CAAAATTAAATCAAAAGTTATC
* * * * *
858984 TAAAATTAT-TTCAAAAATTATCAACATTACATGAAAAATTATC
1 -AAAATTATATT-AAAAGTTATCAAAATTAAATCAAAAGTTATC
* * *
859027 AAAATTATATTAAAAGTTATCCAAATTAAATTAAAGGTTATC
1 AAAATTATATTAAAAGTTATCAAAATTAAATCAAAAGTTATC
* ** * *
859069 TAAATTATATTAATGGTTATTAAAATTAAATCAAAAGTTTTC
1 AAAATTATATTAAAAGTTATCAAAATTAAATCAAAAGTTATC
859111 AAAA
1 AAAA
859115 AGTTACCAAA
Statistics
Matches: 107, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 86 0.80
43 13 0.12
44 8 0.07
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (42 bp):
AAAATTATATTAAAAGTTATCAAAATTAAATCAAAAGTTATC
Found at i:859094 original size:21 final size:21
Alignment explanation
Indices: 858963--859114 Score: 101
Period size: 21 Copynumber: 7.2 Consensus size: 21
858953 AAAATTATTA
**
858963 CAAAATTATATTAAAAATTA-
1 CAAAATTATATTAAAGGTTAT
**
858983 CTAAAATTAT-TTCAAAAATTAT
1 C-AAAATTATATT-AAAGGTTAT
* * * **
859005 CAACATTACATGAAAAATTAT
1 CAAAATTATATTAAAGGTTAT
*
859026 CAAAATTATATTAAAAGTTAT
1 CAAAATTATATTAAAGGTTAT
* *
859047 CCAAATTAAATTAAAGGTTAT
1 CAAAATTATATTAAAGGTTAT
* *
859068 CTAAATTATATTAATGGTTAT
1 CAAAATTATATTAAAGGTTAT
* * * * *
859089 TAAAATTAAATCAAAAGTTTT
1 CAAAATTATATTAAAGGTTAT
859110 CAAAA
1 CAAAA
859115 AGTTACCAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.03
21 102 0.95
22 2 0.02
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (21 bp):
CAAAATTATATTAAAGGTTAT
Found at i:859134 original size:74 final size:74
Alignment explanation
Indices: 859038--859181 Score: 200
Period size: 74 Copynumber: 1.9 Consensus size: 74
859028 AAATTATATT
* ** *** *
859038 AAAAGTTATCCAAATTAAATTAAAGGTTATCTAAATTATATTAATGGTTATTAAAATTAAATCAA
1 AAAAGTTATCCAAAATAAATTAAAGGTTAAATAAATTATATTAAAAATTATTAAAATTAAATAAA
859103 AAGTTTTCA
66 AAGTTTTCA
*
859112 AAAAGTTA-CCAAAATAATATTAAAGGTTAAATAAATTATATTAAAAATTATTAAAATTATATAA
1 AAAAGTTATCCAAAATAA-ATTAAAGGTTAAATAAATTATATTAAAAATTATTAAAATTAAATAA
859176 AAAGTT
65 AAAGTT
859182 ATTTATATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 8 0.13
74 53 0.87
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (74 bp):
AAAAGTTATCCAAAATAAATTAAAGGTTAAATAAATTATATTAAAAATTATTAAAATTAAATAAA
AAGTTTTCA
Found at i:859168 original size:21 final size:21
Alignment explanation
Indices: 859144--859250 Score: 68
Period size: 21 Copynumber: 5.4 Consensus size: 21
859134 AAGGTTAAAT
859144 AAATTATATTAAAAA-TTATTA
1 AAATTATA-TAAAAAGTTATTA
859165 AAATTATATAAAAAGTTA-T-
1 AAATTATATAAAAAGTTATTA
* * *
859184 ---TTATATCAAATGTTATCA
1 AAATTATATAAAAAGTTATTA
* *
859202 AAATTATATAAAAAATTATAA
1 AAATTATATAAAAAGTTATTA
* * *
859223 AAAAT-TACAAAAA-TTATCA
1 AAATTATATAAAAAGTTATTA
*
859242 AAATCATAT
1 AAATTATAT
859251 CAAATATTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
16 13 0.20
19 8 0.12
20 16 0.24
21 29 0.44
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATTATATAAAAAGTTATTA
Found at i:859188 original size:37 final size:37
Alignment explanation
Indices: 859147--859220 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
859137 GTTAAATAAA
* * *
859147 TTATATTAAAAATTATTAAAATTATATAAAAAGTTAT
1 TTATATCAAAAATTATCAAAATTATATAAAAAATTAT
**
859184 TTATATCAAATGTTATCAAAATTATATAAAAAATTAT
1 TTATATCAAAAATTATCAAAATTATATAAAAAATTAT
859221 AAAAAATTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (37 bp):
TTATATCAAAAATTATCAAAATTATATAAAAAATTAT
Found at i:859214 original size:10 final size:11
Alignment explanation
Indices: 859144--859229 Score: 63
Period size: 12 Copynumber: 7.5 Consensus size: 11
859134 AAGGTTAAAT
859144 AAATTATATTAA
1 AAATTATA-TAA
859156 AAATTAT-T-A
1 AAATTATATAA
859165 AAATTATATAA
1 AAATTATATAA
*
859176 AAAGTTATTTATATC
1 AAA-TTA--TATA-A
*
859191 AAATGT-TATCA
1 AAAT-TATATAA
859202 AAATTATATAAA
1 AAATTATAT-AA
859214 AAATTATA-AA
1 AAATTATATAA
859224 AAATTA
1 AAATTA
859230 CAAAAATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
9 8 0.13
10 11 0.18
11 11 0.18
12 22 0.36
14 5 0.08
15 4 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
AAATTATATAA
Found at i:859251 original size:11 final size:11
Alignment explanation
Indices: 859187--859266 Score: 59
Period size: 10 Copynumber: 7.8 Consensus size: 11
859177 AAGTTATTTA
*
859187 TATC-AAATGT
1 TATCAAAATAT
859197 TATCAAAAT-T
1 TATCAAAATAT
*
859207 ATAT-AAAAAAT
1 -TATCAAAATAT
*
859218 TAT-AAAAAAT
1 TATCAAAATAT
859228 TA-CAAAA-AT
1 TATCAAAATAT
859237 TATCAAAATCA-
1 TATCAAAAT-AT
859248 TATC-AAATAT
1 TATCAAAATAT
859258 TATCAAAAT
1 TATCAAAAT
859267 GATAAAATCA
Statistics
Matches: 60, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
9 5 0.08
10 38 0.63
11 16 0.27
12 1 0.02
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (11 bp):
TATCAAAATAT
Found at i:859254 original size:21 final size:21
Alignment explanation
Indices: 859186--859266 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
859176 AAAGTTATTT
** *
859186 ATATCAAATGTTATCAAAATT
1 ATATCAAAAATTATCAAAATA
*
859207 ATATAAAAAATTAT-AAAA-A
1 ATATCAAAAATTATCAAAATA
*
859226 AT-TACAAAAATTATCAAAATC
1 ATAT-CAAAAATTATCAAAATA
*
859247 ATATCAAATATTATCAAAAT
1 ATATCAAAAATTATCAAAAT
859267 GATAAAATCA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.02
19 11 0.22
20 8 0.16
21 28 0.57
22 1 0.02
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.32
Consensus pattern (21 bp):
ATATCAAAAATTATCAAAATA
Found at i:859665 original size:2 final size:2
Alignment explanation
Indices: 859653--859687 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
859643 TATAAATAAC
*
859653 AT AT AT A- AT AT AT AT GT 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
859688 TTAAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:860022 original size:2 final size:2
Alignment explanation
Indices: 860017--860054 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
860007 TTTTTTAGCA
860017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
860055 TAAGCGAGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:860805 original size:20 final size:20
Alignment explanation
Indices: 860780--860818 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
860770 CTGATATATA
860780 GGCGCG-CTGTATGTTATTGG
1 GGCGCGACT-TATGTTATTGG
860800 GGCGCGACTTATGTTATTG
1 GGCGCGACTTATGTTATTG
860819 AAACTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.13, C:0.15, G:0.36, T:0.36
Consensus pattern (20 bp):
GGCGCGACTTATGTTATTGG
Found at i:861475 original size:34 final size:34
Alignment explanation
Indices: 861437--861604 Score: 255
Period size: 34 Copynumber: 4.9 Consensus size: 34
861427 AATATCTTAC
* * * *
861437 TCACCTAACACATTACCTAACACACCTAATATTT
1 TCACCAAATACATCACCTAACACACCTAACATTT
* * *
861471 TCACCAAATATATCACCTAACACATCTAATATTT
1 TCACCAAATACATCACCTAACACACCTAACATTT
*
861505 TCACCAAATACATCACCTAACACACCTAACATTC
1 TCACCAAATACATCACCTAACACACCTAACATTT
*
861539 TCACCAAATACATCACCTAACACACCTAACATTC
1 TCACCAAATACATCACCTAACACACCTAACATTT
861573 TCACCAAATACATCACCTAACACACCTAACAT
1 TCACCAAATACATCACCTAACACACCTAACAT
861605 GCTTCACCTA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 125 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (34 bp):
TCACCAAATACATCACCTAACACACCTAACATTT
Done.