Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
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: 3386631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:648928 original size:21 final size:21
Alignment explanation
Indices: 648904--648947 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
648894 TAAAATGTAA
648904 AACAAATAC-ATGAAAAAAAAT
1 AACAAA-ACAATGAAAAAAAAT
* *
648925 AACAAAACAATTAAATAAAAT
1 AACAAAACAATGAAAAAAAAT
648946 AA
1 AA
648948 GTAATAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (21 bp):
AACAAAACAATGAAAAAAAAT
Found at i:649435 original size:37 final size:37
Alignment explanation
Indices: 649385--649496 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
649375 ATTCTTGTTG
* *
649385 ATCCTATTTTTAGGAGTTTGAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
649422 ATCCTATTTTTAGGTGTTTGAGTCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
649459 ATCTTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
649496 A
1 A
649497 ACGTTATGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:650202 original size:83 final size:83
Alignment explanation
Indices: 650085--650272 Score: 245
Period size: 83 Copynumber: 2.3 Consensus size: 83
650075 TGAGTTGAAT
* * *
650085 GTAATCAAACTCGAAGGTCTTTAATGACAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGA
1 GTAATCGAACTCGAAGGTCTTTAATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGA
*
650150 TAT-ATCTTTG-AGCTGAGC
66 TATCA-C-TCGAAGCTGAGC
* ** *
650168 GTAGTCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGA
1 GTAATCGAACTCGAAGGTCTTTAATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGA
* *
650233 TGTGCACTCGAAGCTGAGT
66 TAT-CACTCGAAGCTGAGC
650252 GTAATCGAACTCGAAGGTCTT
1 GTAATCGAACTCGAAGGTCTT
650273 GGGTTTCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
83 62 0.68
84 28 0.31
85 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (83 bp):
GTAATCGAACTCGAAGGTCTTTAATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGA
TATCACTCGAAGCTGAGC
Found at i:650420 original size:67 final size:66
Alignment explanation
Indices: 650304--650630 Score: 227
Period size: 67 Copynumber: 4.8 Consensus size: 66
650294 CAAATGTTTT
** * * * *
650304 TTTGTGTTTCAAGAGAAACAATTTCAAAGGTGGCAAAATTTTGTTTCAAGAGAAACATATTCGAA
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAA-TTTGTTTCAAGAGAAACAGATTC-AA
650369 -GA
64 TGA
** **
650371 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGAATCAAG-GAAAACAGATTCAA
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAA-TTTGTTTCAAGAG-AAACAGATTCAA
650435 TGA
64 TGA
* * * *
650438 TTT-TGTTTCATGGGGAAACTGTCTCAAGAGAGGCAAAATTTGTTTCAAGAGAAACTG-TCTCAA
1 TTTGTGTTTCA-AGAGAAACTGTCTCAAGGGAGGCAAAATTTGTTTCAAGAGAAACAGAT-TC-A
*
650501 GAGAGACAAAA
63 -A-TG-----A
* * * * * * *
650512 TTT-AGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAG-GAAAACAGATTCAAA
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTGTTTCAAGAG-AAACAGATTCAAT
650575 GA
65 GA
* * * * *
650577 TTT-TGTTTCAAGGGAAACAGTTTCAAGAGAGACAAAATTTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTGTTTCAAGAGAAAC
650631 TGTCTTAAGG
Statistics
Matches: 209, Mismatches: 35, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
65 47 0.22
66 27 0.13
67 78 0.37
68 1 0.00
69 1 0.00
70 2 0.01
71 1 0.00
72 2 0.01
73 40 0.19
74 10 0.05
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (66 bp):
TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTGTTTCAAGAGAAACAGATTCAATG
A
Found at i:650496 original size:36 final size:36
Alignment explanation
Indices: 650452--650831 Score: 366
Period size: 36 Copynumber: 10.9 Consensus size: 36
650442 GTTTCATGGG
*
650452 GAAACTGTCTCAAGAGAGGCAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* *
650488 GAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAATTT-GTTTCAAGA
*
650525 GAAACTGTCTCAAGAGAGACAAAATTTATTTCAAG-
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* * *
650560 GAAAACAGAT-TC-A-A-AG----ATTTTGTTTCAAGG
1 G-AAACTG-TCTCAAGAGAGACAAAATTTGTTTCAAGA
* *
650590 GAAACAGTTTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* * * *
650626 GAAACTGTCTTAAGGGTGACGAAATTTGTTTCAAG-
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* *
650661 GAAAACATAT-TC-A-A-AG----ATTTTGTTTCAAG-
1 G-AAAC-TGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* *
650690 GAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGG
1 G-AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
*
650727 GAAACTGTCTCAAGAGAGAAAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* *
650763 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGG
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGA
*
650800 GAAACTATCTCAAGAGAGACAAAACTTTGTTT
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTT
650832 TGAGCAAATT
Statistics
Matches: 288, Mismatches: 32, Indels: 47
0.78 0.09 0.13
Matches are distributed among these distances:
28 3 0.01
29 38 0.13
30 3 0.01
31 2 0.01
32 4 0.01
33 3 0.01
34 1 0.00
35 4 0.01
36 151 0.52
37 79 0.27
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
Found at i:650673 original size:101 final size:101
Alignment explanation
Indices: 650476--650766 Score: 429
Period size: 101 Copynumber: 2.9 Consensus size: 101
650466 AGAGGCAAAA
* * *
650476 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT-GTTTCAAGAGAAACTGTCTCAAGAG
*
650541 AGACAAAATTTATTTCAAGGAAAACAGATTCAAAGAT
65 AGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGAT
* * * * *
650578 TTTGTTTCAAGGGAAACAGTTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTTAAGGGT
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* *
650643 GACGAAATTTGTTTCAAGGAAAACATATTCAAAGAT
66 GACAAAATTTGTTTCAAGGAAAACAGATTCAAAGAT
* * *
650679 TTTGTTTCAAGGAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
*
650744 GAAAAAATTTGTTTCAAGAGAAA
66 GACAAAATTTGTTTCAAG-GAAA
650767 CTGTCTCAAG
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
101 127 0.76
102 40 0.24
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (101 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
GACAAAATTTGTTTCAAGGAAAACAGATTCAAAGAT
Found at i:650724 original size:21 final size:19
Alignment explanation
Indices: 650691--650764 Score: 57
Period size: 21 Copynumber: 3.9 Consensus size: 19
650681 TGTTTCAAGG
650691 AAAATTGTCTCAAGAGAGA
1 AAAATTGTCTCAAGAGAGA
*
650710 CAAAATTTGTTTCAAG-G-G-
1 -AAAA-TTGTCTCAAGAGAGA
*
650728 -AAACTGTCTCAAGAGAGAA
1 AAAATTGTCTCAAGAGAG-A
*
650747 AAAATTTGTTTCAAGAGA
1 AAAA-TTGTCTCAAGAGA
650765 AACTGTCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
15 8 0.19
16 4 0.10
17 1 0.02
19 1 0.02
20 8 0.19
21 20 0.48
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (19 bp):
AAAATTGTCTCAAGAGAGA
Found at i:652425 original size:20 final size:18
Alignment explanation
Indices: 652387--652468 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 18
652377 TTCTTGTTCC
652387 CTTTTT-TTTTTTGCTTTTG
1 CTTTTTCTTTTTT--TTTTG
652406 CTTTTTCTTATTTTTCTTTG
1 CTTTTTCTT-TTTTT-TTTG
* *
652426 -TTTTTTTGTTTTTTTGTTT
1 CTTTTTCT-TTTTTTT-TTG
*
652445 CTTTTTCTTTTTTTTTTC
1 CTTTTTCTTTTTTTTTTG
652463 CTTTTT
1 CTTTTT
652469 GCTCTTTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
18 9 0.17
19 27 0.51
20 13 0.25
21 4 0.08
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.82
Consensus pattern (18 bp):
CTTTTTCTTTTTTTTTTG
Found at i:652449 original size:18 final size:18
Alignment explanation
Indices: 652428--652469 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
652418 TTTCTTTGTT
652428 TTTTTGTTTTTTTGTTT-C
1 TTTTTGTTTTTTT-TTTCC
*
652446 TTTTTCTTTTTTTTTTCC
1 TTTTTGTTTTTTTTTTCC
652464 TTTTTG
1 TTTTTG
652470 CTCTTTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (18 bp):
TTTTTGTTTTTTTTTTCC
Found at i:652451 original size:6 final size:6
Alignment explanation
Indices: 652387--652468 Score: 53
Period size: 6 Copynumber: 13.0 Consensus size: 6
652377 TTCTTGTTCC
* * *
652387 CTTTTT TTTTTT GCTTTTG CTTTTT CTTATTTTT CTTTGTT -TTTTT GTTTTT
1 CTTTTT CTTTTT -CTTTTT CTTTTT C---TTTTT CTTT-TT CTTTTT CTTTTT
652439 -TTGTTT CTTTTT CTTTTT -TTTTT CCTTTTT
1 CTT-TTT CTTTTT CTTTTT CTTTTT -CTTTTT
652469 GCTCTTTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
5 9 0.15
6 34 0.55
7 13 0.21
9 6 0.10
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:652458 original size:9 final size:9
Alignment explanation
Indices: 652407--652459 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
652397 TTGCTTTTGC
*
652407 TTTTTCTTA
1 TTTTTCTTT
652416 TTTTTCTTT
1 TTTTTCTTT
*
652425 GTTTTTTTGTT
1 -TTTTTCT-TT
*
652436 TTTTTGTTT
1 TTTTTCTTT
652445 CTTTTTCTTT
1 -TTTTTCTTT
652455 TTTTT
1 TTTTT
652460 TTCCTTTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 15 0.41
10 20 0.54
11 2 0.05
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:655527 original size:27 final size:25
Alignment explanation
Indices: 655472--655544 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 25
655462 AAAATGAAAA
* *
655472 AAAACAAATTAAATAAAAGATAAGAT
1 AAAATAAA-TAAATAAAATATAAGAT
655498 AAAA-AAAGTAAAGATAAAATAGTAAG-T
1 AAAATAAA-T-AA-ATAAAATA-TAAGAT
655525 AAAATAAATAAATAAAATAT
1 AAAATAAATAAATAAAATAT
655545 TAAAAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 1 0.02
25 12 0.29
26 8 0.20
27 13 0.32
28 7 0.17
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.21
Consensus pattern (25 bp):
AAAATAAATAAATAAAATATAAGAT
Found at i:655542 original size:25 final size:25
Alignment explanation
Indices: 655472--655556 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
655462 AAAATGAAAA
* * *
655472 AAAACAAATTAAATAAAAGATAAGAT
1 AAAATAAAGTAAATAAAATATAAG-T
655498 AAAA-AAAGTAAAGATAAAATAGTAAGT
1 AAAATAAAGT-AA-ATAAAATA-TAAGT
655525 AAAATAAA-TAAATAAAATATTAA--
1 AAAATAAAGTAAATAAAATA-TAAGT
655548 AAAATAAAG
1 AAAATAAAG
655557 AAGAATAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
23 8 0.16
25 15 0.29
26 8 0.16
27 13 0.25
28 7 0.14
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (25 bp):
AAAATAAAGTAAATAAAATATAAGT
Found at i:655674 original size:45 final size:43
Alignment explanation
Indices: 655573--655704 Score: 127
Period size: 37 Copynumber: 3.2 Consensus size: 43
655563 AAGAAGAAAA
* * *
655573 ATATATATAAATAAA-ATAAAA-AAAAAAGTAAAAATAATATAT
1 ATATATATATATAAATATAAAACAGAAAA-TAAAAATAACATAT
**
655615 ATATATATATATAAATA-AAAAC-----ATAAAAATAGTATAT
1 ATATATATATATAAATATAAAACAGAAAATAAAAATAACATAT
*
655652 ATATATATATATAAATTAATAAAACAGATAATAAAAATAACATAT
1 ATATATATATATAAA-T-ATAAAACAGAAAATAAAAATAACATAT
655697 ATATATAT
1 ATATATAT
655705 GTAATCTAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
37 28 0.37
38 2 0.03
39 1 0.01
40 5 0.07
42 18 0.24
43 1 0.01
45 21 0.28
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (43 bp):
ATATATATATATAAATATAAAACAGAAAATAAAAATAACATAT
Found at i:656277 original size:37 final size:38
Alignment explanation
Indices: 656227--656334 Score: 159
Period size: 37 Copynumber: 2.9 Consensus size: 38
656217 TTGTGGATAC
*
656227 TATTTTTAGGAGTTTGAATCTC-AGTAGAACTCTATCA
1 TATTTTTAGGAGTTTGAATCTCTAGTAAAACTCTATCA
* * *
656264 TATTTTTATGAGTTTGAGT-TCTAGTAAAACTCTATCC
1 TATTTTTAGGAGTTTGAATCTCTAGTAAAACTCTATCA
656301 TATTTTTAGGAGTTTGAATC-CTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCTCTAGTAAAACTCTA
656335 ATGTTATGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.03
37 61 0.97
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (38 bp):
TATTTTTAGGAGTTTGAATCTCTAGTAAAACTCTATCA
Found at i:659219 original size:23 final size:22
Alignment explanation
Indices: 659192--659234 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
659182 TGTCGGTGAT
*
659192 TATTATTTTTCTTATTTTTTTCA
1 TATTATGTTT-TTATTTTTTTCA
*
659215 TATTATGTTTTTGTTTTTTT
1 TATTATGTTTTTATTTTTTT
659235 TTCTTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (22 bp):
TATTATGTTTTTATTTTTTTCA
Found at i:659350 original size:24 final size:24
Alignment explanation
Indices: 659268--659346 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
659258 GAATTTATGT
659268 TCTTGTGACACG-TTTTTCTCTGC
1 TCTTGTGACACGCTTTTTCTCTGC
* *
659291 TCTTGTGGCACACTTTTTCTCTGC
1 TCTTGTGACACGCTTTTTCTCTGC
* * *
659315 TATTATGATACGCTTTTTCTCTGC
1 TCTTGTGACACGCTTTTTCTCTGC
659339 TCTTGTGA
1 TCTTGTGA
659347 TACGATCCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 10 0.22
24 36 0.78
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTTGTGACACGCTTTTTCTCTGC
Found at i:660754 original size:17 final size:17
Alignment explanation
Indices: 660732--660785 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
660722 AATGTTAATA
660732 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
660749 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
660766 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
660783 TTT
1 TTT
660786 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:662346 original size:21 final size:21
Alignment explanation
Indices: 662316--662363 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
662306 GCAAGGGTAC
* *
662316 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
662337 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
662358 ATGCCA
1 ATGCCA
662364 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:662393 original size:21 final size:21
Alignment explanation
Indices: 662367--662460 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
662357 TATGCCATCT
* *
662367 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
662388 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
662409 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
662430 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
662451 CCGCAGGGTT
1 CCGCAGGGTT
662461 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:663040 original size:33 final size:34
Alignment explanation
Indices: 662981--663077 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
662971 AAATATTTTT
*
662981 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
663015 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
663048 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
663078 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:663084 original size:34 final size:33
Alignment explanation
Indices: 662979--663084 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
662969 ATAAATATTT
*
662979 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
663013 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
663045 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
663080 TTAAA
1 TTAAA
663085 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:663697 original size:128 final size:128
Alignment explanation
Indices: 663469--664355 Score: 1657
Period size: 128 Copynumber: 6.9 Consensus size: 128
663459 AGTTATTCAA
*
663469 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGAGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
663534 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
663597 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* *
663662 GACGAAATAATGGAAGACGCGCCCCCGGGAACGCGCCTTTATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
663725 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
663790 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
663853 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
663918 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATATGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
663981 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
664046 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGTCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
664109 ACTGATATATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
664174 GACGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
664237 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* *
664302 GACGAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAA
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
664356 CCGATTATAG
Statistics
Matches: 739, Mismatches: 20, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 739 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:664436 original size:8 final size:8
Alignment explanation
Indices: 664423--664463 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
664413 TCACAATCTT
664423 TCAAATTC
1 TCAAATTC
664431 TCAAATTC
1 TCAAATTC
* *
664439 CCAAACTC
1 TCAAATTC
664447 T-AAATTC
1 TCAAATTC
664454 TCAAATTC
1 TCAAATTC
664462 TC
1 TC
664464 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:684807 original size:33 final size:33
Alignment explanation
Indices: 684770--684839 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
684760 TGTAACTAGA
*
684770 AAATAAAGCCGTCTCAAGAAAATCCAGAAACTC
1 AAATAAAGCCGTCTAAAGAAAATCCAGAAACTC
* *
684803 AAATAAAGCCGTCTAAAGCAAATCCAGAAATTC
1 AAATAAAGCCGTCTAAAGAAAATCCAGAAACTC
684836 AAAT
1 AAAT
684840 GCAGATAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.17
Consensus pattern (33 bp):
AAATAAAGCCGTCTAAAGAAAATCCAGAAACTC
Found at i:685282 original size:35 final size:35
Alignment explanation
Indices: 685231--685298 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
685221 AACACAGTCC
*
685231 TCAATTTCATTCTAAACACCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACACCAAATTCCAAAATAAT
* * * *
685266 TCAATTACATTTTAAACTCTAAATTCTAAAATA
1 TCAATTACATTCTAAACACCAAATTCCAAAATA
685299 CTTTAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (35 bp):
TCAATTACATTCTAAACACCAAATTCCAAAATAAT
Found at i:688936 original size:2 final size:2
Alignment explanation
Indices: 688931--688961 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
688921 AACTTTTTTA
688931 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 A
688962 ACTTTCTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:689740 original size:7 final size:7
Alignment explanation
Indices: 689705--689782 Score: 59
Period size: 7 Copynumber: 11.3 Consensus size: 7
689695 TTTTATAATG
*
689705 AACCCCA
1 AACCCTA
*
689712 AACCCCA
1 AACCCTA
689719 AACCCT-
1 AACCCTA
**
689725 AACTATA
1 AACCCTA
689732 AACCCTA
1 AACCCTA
* *
689739 AAACATA
1 AACCCTA
* *
689746 AATCATA
1 AACCCTA
**
689753 AAATCTA
1 AACCCTA
689760 AACCCTA
1 AACCCTA
689767 AACCCTA
1 AACCCTA
689774 AACCCTA
1 AACCCTA
689781 AA
1 AA
689783 TTATACTTAC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
6 4 0.07
7 53 0.93
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCTA
Found at i:689858 original size:21 final size:21
Alignment explanation
Indices: 689834--689896 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
689824 TGTCTTTGTA
**
689834 ATAAACCTTAAAATCTATTCC
1 ATAAACCTTAAAATCTAAACC
* *
689855 ATAAATCC-TAAACTCTAAACT
1 ATAAA-CCTTAAAATCTAAACC
689876 ATAAACCTTAAACA-CTAAACC
1 ATAAACCTTAAA-ATCTAAACC
689897 TTAACCCCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAACCTTAAAATCTAAACC
Found at i:689887 original size:14 final size:14
Alignment explanation
Indices: 689877--689910 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
689867 CTCTAAACTA
689877 TAAACCTTAAACAC
1 TAAACCTTAAACAC
* *
689891 TAAACCTTAACCCC
1 TAAACCTTAAACAC
689905 TAAACC
1 TAAACC
689911 CAATTATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCTTAAACAC
Found at i:689908 original size:21 final size:21
Alignment explanation
Indices: 689855--689909 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
689845 AATCTATTCC
* *
689855 ATAAATCCTAAACTCTAAACT
1 ATAAACCCTAAACACTAAACT
*
689876 ATAAACCTTAAACACTAAACCT
1 ATAAACCCTAAACACTAAA-CT
*
689898 -TAACCCCTAAAC
1 ATAAACCCTAAAC
689910 CCAATTATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAACCCTAAACACTAAACT
Found at i:692357 original size:23 final size:23
Alignment explanation
Indices: 692331--692434 Score: 64
Period size: 23 Copynumber: 4.2 Consensus size: 23
692321 AGGTTCAAAT
*
692331 TCGAGTTTGAGTTCGAGCTTGAA
1 TCGAGTTCGAGTTCGAGCTTGAA
*
692354 TCGAGTTCGAGTTTGAGTTTGAGCTTGAA
1 TCGAGTTC------GAGTTCGAGCTTGAA
* * ** *
692383 TCGAGCTCAAAATCGAGCTTCAA
1 TCGAGTTCGAGTTCGAGCTTGAA
* *
692406 TCGAGCTCGAGTCTCGAGCTTCAA
1 TCGAGTTCGAGT-TCGAGCTTGAA
692430 TCGAG
1 TCGAG
692435 CTCCTGAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
23 26 0.41
24 16 0.25
29 21 0.33
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (23 bp):
TCGAGTTCGAGTTCGAGCTTGAA
Found at i:692372 original size:29 final size:29
Alignment explanation
Indices: 692330--692387 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
692320 TAGGTTCAAA
692330 TTCGAGTTTGAGTTCGAGCTTGAATCGAG
1 TTCGAGTTTGAGTTCGAGCTTGAATCGAG
*
692359 TTCGAGTTTGAGTTTGAGCTTGAATCGAG
1 TTCGAGTTTGAGTTCGAGCTTGAATCGAG
692388 CTCAAAATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.36
Consensus pattern (29 bp):
TTCGAGTTTGAGTTCGAGCTTGAATCGAG
Found at i:702963 original size:2 final size:2
Alignment explanation
Indices: 702956--703010 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
702946 AGTGGCTAAA
702956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
702998 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
703011 AAGCAGAAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:713063 original size:37 final size:37
Alignment explanation
Indices: 713013--713112 Score: 150
Period size: 36 Copynumber: 2.7 Consensus size: 37
713003 TCACCAATTT
*
713013 AGGTTTCATAAGAAATTTTGGTATTTTTTCTTGTTAA
1 AGGTTTCATAAGAAATTTTGGTATTTTTTCTTATTAA
*
713050 AGGTTTCATAAGAAA-TTTGAGT-GTTTTTCTTATTAA
1 AGGTTTCATAAGAAATTTTG-GTATTTTTTCTTATTAA
*
713086 AGGTTTCATAAGAAATTTGGGTATTTT
1 AGGTTTCATAAGAAATTTTGGTATTTT
713113 CTCATTGAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
36 33 0.59
37 23 0.41
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (37 bp):
AGGTTTCATAAGAAATTTTGGTATTTTTTCTTATTAA
Found at i:713237 original size:27 final size:27
Alignment explanation
Indices: 713199--713258 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
713189 ATCCTGTTTG
*
713199 AAAGTTAATGACGTTATCGTGGCAAGT
1 AAAGTTAATGACGTTATCATGGCAAGT
*
713226 AAAGTTAATGACGTTGTCATGGCAAGT
1 AAAGTTAATGACGTTATCATGGCAAGT
*
713253 GAAGTT
1 AAAGTT
713259 GTAAAGGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (27 bp):
AAAGTTAATGACGTTATCATGGCAAGT
Found at i:713394 original size:144 final size:141
Alignment explanation
Indices: 713127--713412 Score: 527
Period size: 144 Copynumber: 2.0 Consensus size: 141
713117 TTGAAGTTGC
713127 AATTGACTATTTATTATGATATTGATGTTAGATTGATTGTTAATTGATAAGGAACAGATATGATC
1 AATTGACTATTTATTATGATATTGATGTTAGATTGATTGTTAATTGATAAGGAACAGATATGATC
* *
713192 CTGTTTGAAAGTTAATGACGTTATCGTGGCAAGTAAAGTTAATGACGTTGTCATGGCAAGTGAAG
66 CGGTTTGAAAGTGAATGACGTTATCGTGGCAAGTAAAGTTAATGACGTTGTCATGGCAAGTGAAG
713257 TTGTAAAGGCA
131 TTGTAAAGGCA
713268 AATTGACTATTTATTATGATATTGATGTTAGATTGATTGTTAATTGATAAGGAACAATGATATGA
1 AATTGACTATTTATTATGATATTGATGTTAGATTGATTGTTAATTGATAAGGAAC-A-GATATGA
713333 TCCCGGTTTGAAAGTGAATGACGTTATCGTGGCAAGTAAAGTTAATGACGTTGTCATGGCAAGTG
64 T-CCGGTTTGAAAGTGAATGACGTTATCGTGGCAAGTAAAGTTAATGACGTTGTCATGGCAAGTG
713398 AAGTTGTAAAGGCA
128 AAGTTGTAAAGGCA
713412 A
1 A
713413 GTAGAGTTAA
Statistics
Matches: 140, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
141 55 0.39
142 1 0.01
143 8 0.06
144 76 0.54
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.35
Consensus pattern (141 bp):
AATTGACTATTTATTATGATATTGATGTTAGATTGATTGTTAATTGATAAGGAACAGATATGATC
CGGTTTGAAAGTGAATGACGTTATCGTGGCAAGTAAAGTTAATGACGTTGTCATGGCAAGTGAAG
TTGTAAAGGCA
Found at i:713402 original size:27 final size:27
Alignment explanation
Indices: 713343--713402 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
713333 TCCCGGTTTG
* *
713343 AAAGTGAATGACGTTATCGTGGCAAGT
1 AAAGTTAATGACGTTATCATGGCAAGT
*
713370 AAAGTTAATGACGTTGTCATGGCAAGT
1 AAAGTTAATGACGTTATCATGGCAAGT
*
713397 GAAGTT
1 AAAGTT
713403 GTAAAGGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (27 bp):
AAAGTTAATGACGTTATCATGGCAAGT
Found at i:713414 original size:45 final size:45
Alignment explanation
Indices: 713363--713487 Score: 214
Period size: 45 Copynumber: 2.8 Consensus size: 45
713353 ACGTTATCGT
* *
713363 GGCAAGTAAAGTTAATGACGTTGTCATGGCAAGTGAAGTTGTAAA
1 GGCAAGTAGAGTTAATGACGTTGTCATGGCAAGTGAAGTTGCAAA
*
713408 GGCAAGTAGAGTTAATGACGTTGTCATGGCAAGTGAAGTTGCCAA
1 GGCAAGTAGAGTTAATGACGTTGTCATGGCAAGTGAAGTTGCAAA
*
713453 GGCAAGTAGAGTTAATGACGTTGTCGTGGCAAGTG
1 GGCAAGTAGAGTTAATGACGTTGTCATGGCAAGTG
713488 TAGGATCACA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (45 bp):
GGCAAGTAGAGTTAATGACGTTGTCATGGCAAGTGAAGTTGCAAA
Found at i:713438 original size:27 final size:27
Alignment explanation
Indices: 713408--713486 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
713398 AAGTTGTAAA
713408 GGCAAGTAGAGTTAATGACGTTGTCAT
1 GGCAAGTAGAGTTAATGACGTTGTCAT
* *
713435 GGCAAGT---G---A--A-GTTGCCAA
1 GGCAAGTAGAGTTAATGACGTTGTCAT
*
713453 GGCAAGTAGAGTTAATGACGTTGTCGT
1 GGCAAGTAGAGTTAATGACGTTGTCAT
713480 GGCAAGT
1 GGCAAGT
713487 GTAGGATCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 18
0.62 0.08 0.30
Matches are distributed among these distances:
18 13 0.34
19 1 0.03
21 2 0.05
24 2 0.05
26 1 0.03
27 19 0.50
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (27 bp):
GGCAAGTAGAGTTAATGACGTTGTCAT
Found at i:714861 original size:23 final size:23
Alignment explanation
Indices: 714828--714882 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
714818 CTCATATAAA
*
714828 TGCACCAAAGTGCCACGTAGAGT
1 TGCACCAAAGTGCCACGTAGAAT
* *
714851 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCAAAGTGCCACGTAGAAT
714874 TGCACCAAA
1 TGCACCAAA
714883 TTTCCATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
TGCACCAAAGTGCCACGTAGAAT
Found at i:716686 original size:19 final size:19
Alignment explanation
Indices: 716664--716700 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
716654 TATATTACAT
*
716664 AACATATGTCATATTTATA
1 AACATATATCATATTTATA
*
716683 AACATATATCTTATTTAT
1 AACATATATCATATTTAT
716701 GTGTATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (19 bp):
AACATATATCATATTTATA
Found at i:717065 original size:18 final size:18
Alignment explanation
Indices: 717025--717067 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
717015 TAACATAAAT
* *
717025 TCATACAAATCATGTCAC
1 TCATACAAAACATATCAC
* *
717043 ACATACAAAACATATTAC
1 TCATACAAAACATATCAC
717061 TCATACA
1 TCATACA
717068 CCCATAACAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (18 bp):
TCATACAAAACATATCAC
Found at i:717253 original size:20 final size:20
Alignment explanation
Indices: 717225--717265 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
717215 TGATCGATCT
*
717225 TACTTGGGGTATCGATACCC
1 TACTAGGGGTATCGATACCC
*
717245 TACTAGGGGTATCGGTACCC
1 TACTAGGGGTATCGATACCC
717265 T
1 T
717266 CATGACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (20 bp):
TACTAGGGGTATCGATACCC
Found at i:722657 original size:20 final size:21
Alignment explanation
Indices: 722632--722683 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
722622 TTTTCCCAAT
*
722632 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
722652 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
722673 TCGCAATGCGA
1 TCGCAATGCGA
722684 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:722697 original size:20 final size:20
Alignment explanation
Indices: 722672--722785 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
722662 AATTGGAAAA
*
722672 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
722692 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
722712 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
722733 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
722753 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
722773 TTCGCAACGCGAT
1 ATCGCAACGCGAT
722786 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:722716 original size:61 final size:61
Alignment explanation
Indices: 722669--722785 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
722659 GCGAATTGGA
* * * * *
722669 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
722730 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
722786 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:723340 original size:19 final size:19
Alignment explanation
Indices: 723302--723368 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
723292 TTCGAGAATG
723302 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
723322 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* *
723341 AAAAACGCAACGCGAAACA
1 AAAATCGCAACGCGAAATA
723360 AAAATCGCA
1 AAAATCGCA
723369 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:723415 original size:33 final size:33
Alignment explanation
Indices: 723378--723465 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
723368 ATTGCGATTT
723378 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
723411 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
723444 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
723466 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:723467 original size:20 final size:20
Alignment explanation
Indices: 723433--723490 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
723423 GCGATTCTCT
**
723433 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
723453 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
723473 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
723491 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:725569 original size:21 final size:21
Alignment explanation
Indices: 725545--725611 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
725535 TCATTCCTCG
725545 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
725566 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
725587 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
725608 AGAG
1 AGAG
725612 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:725569 original size:42 final size:42
Alignment explanation
Indices: 725493--725611 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
725483 GACTCGCCTG
* * * * * * *
725493 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
725535 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
725577 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
725612 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:726989 original size:14 final size:14
Alignment explanation
Indices: 726970--727005 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
726960 ATTGTTTAAT
726970 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
726984 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
726998 TGATTTGT
1 TGATTTGT
727006 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:727208 original size:33 final size:31
Alignment explanation
Indices: 727165--727325 Score: 205
Period size: 33 Copynumber: 4.9 Consensus size: 31
727155 AATTAAATTC
*
727165 GCGTTGCGATTTTCATTTCGCATTGCGATTCCC
1 GCGTTGCGATTTTCATTTCGCATTGCGATT--A
*
727198 TCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
727231 GCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
* *
727264 GCGTTGCGATTTTCATTTCGCATTGCAATTCTC
1 GCGTTGCGATTTTCATTTCGCATTGCGA-T-TA
*
727297 TCGTTGCGATTTTCATTTCGCATTGCGAT
1 GCGTTGCGATTTTCATTTCGCATTGCGAT
727326 AGTAATTTCC
Statistics
Matches: 117, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
31 1 0.01
32 2 0.02
33 111 0.95
35 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (31 bp):
GCGTTGCGATTTTCATTTCGCATTGCGATTA
Found at i:727239 original size:66 final size:63
Alignment explanation
Indices: 727159--727325 Score: 235
Period size: 66 Copynumber: 2.6 Consensus size: 63
727149 ACGCGAAATT
**
727159 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATT--AGCGTTGCGATTTTCATTTCGCATTGC
*
727224 GAAATTAGCGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTTGCGATTTTCATTTCGCATTG
1 -AAATTCGCGTTGCGATTTTCATTTCGCATTGCG--ATTAGCGTTGCGATTTTCATTTCGCATTG
727289 C
63 C
* *
727290 AATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCGAT
727326 AGTAATTTCC
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
64 2 0.02
65 3 0.03
66 84 0.91
68 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (63 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTAGCGTTGCGATTTTCATTTCGCATTGC
Found at i:729634 original size:12 final size:12
Alignment explanation
Indices: 729617--729649 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
729607 TCTTCGGGGA
729617 CTTTTTCTTCTT
1 CTTTTTCTTCTT
729629 CTTTTTCTTCTT
1 CTTTTTCTTCTT
729641 CTTTTTCTT
1 CTTTTTCTT
729650 ATTCAGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:729862 original size:24 final size:24
Alignment explanation
Indices: 729828--729881 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
729818 TCTGAACATC
* *
729828 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
729852 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
729876 ATCAAA
1 ATCAAA
729882 TTTCGAATAC
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:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:730965 original size:20 final size:20
Alignment explanation
Indices: 730940--730997 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
730930 ATTCATTTGA
730940 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
730960 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
730980 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
730998 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:731040 original size:14 final size:14
Alignment explanation
Indices: 731021--731074 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
731011 GAAAATCGCA
731021 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
731035 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
731052 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
731068 TTGCGAT
1 TTGCGAT
731075 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:731040 original size:33 final size:33
Alignment explanation
Indices: 731003--731073 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
730993 AAAATCGCAA
731003 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
731036 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
731069 TGCGA
1 TGCGA
731074 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:731074 original size:33 final size:33
Alignment explanation
Indices: 731016--731093 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
731006 GAAATGAAAA
***
731016 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
731049 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
731082 TCGCGTTGCGAT
1 TCGCATTGCGAT
731094 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:731200 original size:14 final size:14
Alignment explanation
Indices: 731181--731217 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
731171 CATCAATTAA
731181 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
731195 ACAAATCATCTTTT
1 ACAAATCAACATTT
731209 ACAAATCAA
1 ACAAATCAA
731218 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:733109 original size:20 final size:19
Alignment explanation
Indices: 733086--733153 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
733076 GAAACTAAAA
733086 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
* *
733106 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
733126 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
733145 ATCGCAACG
1 ATCGCAACG
733154 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:733161 original size:14 final size:14
Alignment explanation
Indices: 733142--733231 Score: 90
Period size: 14 Copynumber: 5.9 Consensus size: 14
733132 ATGCGAAATG
733142 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
733156 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
733172 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
733188 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
733204 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
733220 AAAATCGCAACG
1 AAAATCGCAACG
733232 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.47
16 16 0.25
18 18 0.28
ACGTcount: A:0.48, C:0.26, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:733184 original size:32 final size:32
Alignment explanation
Indices: 733126--733236 Score: 204
Period size: 32 Copynumber: 3.4 Consensus size: 32
733116 GGAAATGGCT
*
733126 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
733159 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
733191 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
733223 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
733237 CACAAATCGC
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 62 0.81
33 15 0.19
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:733284 original size:14 final size:14
Alignment explanation
Indices: 733265--733322 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
733255 TTTCATTTCG
733265 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
733279 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
733295 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
733311 CGTTGCGATTTT
1 CGTTGCGATTTT
733323 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:733329 original size:33 final size:33
Alignment explanation
Indices: 733248--733338 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
733238 ACAAATCGCA
*
733248 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
733281 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
733313 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
733339 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:733357 original size:20 final size:19
Alignment explanation
Indices: 733323--733377 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
733313 TTGCGATTTT
733323 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
733342 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
733362 CATTTTCGTATTGCGA
1 CA-TTTCGCATTGCGA
733378 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:733883 original size:18 final size:18
Alignment explanation
Indices: 733857--733901 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
733847 GTCGATCAGA
*
733857 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
733875 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
733893 TGATGGCTC
1 TGATGGCTC
733902 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:735268 original size:20 final size:20
Alignment explanation
Indices: 735220--735278 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
735210 AATAGTTTCT
** *
735220 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
735240 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
** *
735260 GAATTTGACTATCGTAACG
1 GAAAATGACTATCGCAACG
735279 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:735785 original size:20 final size:20
Alignment explanation
Indices: 735759--735872 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
735749 GATTATGTAT
735759 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
735779 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
735799 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
735819 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
735840 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
735860 TATCGCATTGCGA
1 TATCGCGTTGCGA
735873 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:735876 original size:41 final size:41
Alignment explanation
Indices: 735739--735874 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
735729 CGCTTTGAAA
*
735739 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
735780 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
735820 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
735861 ATCGCATTGCGATT
1 ATCGCATTGCGATT
735875 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:735891 original size:21 final size:21
Alignment explanation
Indices: 735862--735954 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
735852 ATAGTCAGTA
735862 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
735883 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
735903 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
735924 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
735944 TCGCATTGCGA
1 TCGCATTGCGA
735955 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:735892 original size:41 final size:41
Alignment explanation
Indices: 735801--735935 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
735791 AAAGTCAGTA
* * * ** *
735801 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
735841 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
735883 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
735924 TCGCGTTGCGAT
1 TCGCGTTGCGAT
735936 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:735936 original size:41 final size:41
Alignment explanation
Indices: 735862--735954 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
735852 ATAGTCAGTA
735862 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
735903 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
735944 TCGCATTGCGA
1 TCGCATTGCGA
735955 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:741791 original size:6 final size:6
Alignment explanation
Indices: 741780--741818 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
741770 AGGTAGCATT
* *
741780 AGAAAG AGAAAG AGAAAG AGAAAG AGCAAG AGCAAG AGA
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGA
741819 GAGCCTCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.62, C:0.05, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:746736 original size:15 final size:15
Alignment explanation
Indices: 746711--746770 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
746701 CAATCATTAC
746711 CTAATATTTAAAATCT
1 CTAA-ATTTAAAATCT
746727 -TACAATTTAAAAT-T
1 CTA-AATTTAAAATCT
*
746741 CTAAACTTAAAA-CT
1 CTAAATTTAAAATCT
*
746755 GTAAAATTTAAAATCT
1 CT-AAATTTAAAATCT
746771 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 11 0.31
15 22 0.61
16 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (15 bp):
CTAAATTTAAAATCT
Found at i:749039 original size:20 final size:19
Alignment explanation
Indices: 749016--749061 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
749006 GGAAACTGAT
* *
749016 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
749036 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
749055 TTGCGAT
1 TTGCGAT
749062 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:749051 original size:19 final size:19
Alignment explanation
Indices: 749027--749063 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
749017 TGCGATACTG
*
749027 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
749046 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
749064 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:752020 original size:51 final size:51
Alignment explanation
Indices: 751916--752021 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
751906 TGCAGATGCT
* * * * *
751916 TCTGGGCACGGTTCTGCGCAATCGAGTGCTGCCGATTATTCTGGTGCTACA
1 TCTGGGCACGGTTCTGCGCAATCGAGTGATGCCCATAAGTCTGGTACTACA
* *
751967 TCTGGGCATGGTTCTGCGCAATCGAGTGATGCCCATAAGTC-GGCTACTGCA
1 TCTGGGCACGGTTCTGCGCAATCGAGTGATGCCCATAAGTCTGG-TACTACA
752018 TCTG
1 TCTG
752022 ACGAACCTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.04
51 45 0.96
ACGTcount: A:0.17, C:0.25, G:0.29, T:0.28
Consensus pattern (51 bp):
TCTGGGCACGGTTCTGCGCAATCGAGTGATGCCCATAAGTCTGGTACTACA
Found at i:762132 original size:24 final size:23
Alignment explanation
Indices: 762100--762211 Score: 163
Period size: 23 Copynumber: 4.8 Consensus size: 23
762090 TACGTAGAAA
762100 TGTCCCGAAGGACCGCATAGAATT
1 TGTCCCGAAGGACCGCATAG-ATT
*
762124 TGTCCCGAAGGACCACATAG-TAT
1 TGTCCCGAAGGACCGCATAGAT-T
*
762147 TGTCCCGAAGGACCACATAGATT
1 TGTCCCGAAGGACCGCATAGATT
* *
762170 TATCCCGAATGACCGCATAGATT
1 TGTCCCGAAGGACCGCATAGATT
762193 TGTCCCGAAGGACCGCATA
1 TGTCCCGAAGGACCGCATA
762212 AAACCCTCAA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
22 1 0.01
23 59 0.74
24 20 0.25
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (23 bp):
TGTCCCGAAGGACCGCATAGATT
Found at i:762366 original size:15 final size:15
Alignment explanation
Indices: 762348--762420 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
762338 ATAGGGTATC
762348 TTCACGTAGAACCTT
1 TTCACGTAGAACCTT
* ** *
762363 TTCACTTAGTGCATT
1 TTCACGTAGAACCTT
* ** *
762378 ATCATATATAACCTT
1 TTCACGTAGAACCTT
*
762393 TTCAGGTAGAACACTT
1 TTCACGTAGAAC-CTT
762409 TTCACGTAGAAC
1 TTCACGTAGAAC
762421 AATTTCACGA
Statistics
Matches: 41, Mismatches: 16, Indels: 1
0.71 0.28 0.02
Matches are distributed among these distances:
15 27 0.66
16 14 0.34
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (15 bp):
TTCACGTAGAACCTT
Found at i:762411 original size:16 final size:16
Alignment explanation
Indices: 762390--762421 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
762380 CATATATAAC
*
762390 CTTTTCAGGTAGAACA
1 CTTTTCACGTAGAACA
762406 CTTTTCACGTAGAACA
1 CTTTTCACGTAGAACA
762422 ATTTCACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (16 bp):
CTTTTCACGTAGAACA
Found at i:762428 original size:15 final size:16
Alignment explanation
Indices: 762392--762429 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
762382 TATATAACCT
* *
762392 TTTCAGGTAGAACACT
1 TTTCACGTAGAACACA
762408 TTTCACGTAGAACA-A
1 TTTCACGTAGAACACA
762423 TTTCACG
1 TTTCACG
762430 AAACTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (16 bp):
TTTCACGTAGAACACA
Found at i:764124 original size:13 final size:13
Alignment explanation
Indices: 764106--764135 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
764096 GTATTTATAT
764106 TTTATTTTAATAA
1 TTTATTTTAATAA
*
764119 TTTATTTTAATTA
1 TTTATTTTAATAA
764132 TTTA
1 TTTA
764136 AAAGTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTTTAATAA
Found at i:764892 original size:21 final size:21
Alignment explanation
Indices: 764860--764900 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
764850 AAATGTTAAA
764860 AAATATTAATGTTTTAGATAG
1 AAATATTAATGTTTTAGATAG
764881 AAATAATT-ATGTTTTAGATA
1 AAAT-ATTAATGTTTTAGATA
764901 ATTTTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (21 bp):
AAATATTAATGTTTTAGATAG
Found at i:766584 original size:43 final size:42
Alignment explanation
Indices: 766510--766620 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 42
766500 GCCATAACGA
* * *
766510 TTAGCGACGTTTTAGTTAACAAACGGTGCAACAAGTCATGATCT
1 TTAGCGGCGTTTTTGTT-ACAAAC-GTGCAACAAGTCAGGATCT
766554 TTAGCGGCGTTTTTGTTACAAACGTCGCAACAAGTCAGGATCT
1 TTAGCGGCGTTTTTGTTACAAACGT-GCAACAAGTCAGGATCT
* *
766597 TTAGCGGCGTTTTTGATAAAAACG
1 TTAGCGGCGTTTTTGTTACAAACG
766621 CAGCTAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
42 2 0.03
43 44 0.72
44 15 0.25
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTGTTACAAACGTGCAACAAGTCAGGATCT
Found at i:770921 original size:32 final size:32
Alignment explanation
Indices: 770885--770947 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
770875 TATAAATACC
770885 CTGCACTTTAGGGTATTTTCAAAGATTAGTCT
1 CTGCACTTTAGGGTATTTTCAAAGATTAGTCT
*
770917 CTGCACTTTAGGGTATTTTCAAATATTAGTC
1 CTGCACTTTAGGGTATTTTCAAAGATTAGTC
770948 CTTAAGCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (32 bp):
CTGCACTTTAGGGTATTTTCAAAGATTAGTCT
Found at i:772319 original size:14 final size:14
Alignment explanation
Indices: 772300--772326 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
772290 TTTCTCATAA
772300 TGAGAAAATATTTC
1 TGAGAAAATATTTC
772314 TGAGAAAATATTT
1 TGAGAAAATATTT
772327 TTTTCGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
TGAGAAAATATTTC
Found at i:790841 original size:28 final size:28
Alignment explanation
Indices: 790801--790857 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
790791 GGCAAAAGGA
790801 TACTAATGATCCATTGCTTTTGTTAATC
1 TACTAATGATCCATTGCTTTTGTTAATC
*
790829 TACTAATGGTCCATTGCTTTTGTTAATC
1 TACTAATGATCCATTGCTTTTGTTAATC
790857 T
1 T
790858 CAAATGCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.47
Consensus pattern (28 bp):
TACTAATGATCCATTGCTTTTGTTAATC
Found at i:799111 original size:54 final size:55
Alignment explanation
Indices: 799049--799155 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 55
799039 GAGTAAAAGT
* *
799049 CGAGTAAT-AAT-TTATCTTAACGAGCATC-AGTCAAA-CAAATTTTAACGAGTTTCA
1 CGAGTAATAAATATT-T-TTAACGAGCA-CGAGTCAAATAAAATTTTAACAAGTTTCA
799103 CGAGTAATAAATATTTTTAACGAGCACGAGTCAAATAAAATTTTAACAAGTTT
1 CGAGTAATAAATATTTTTAACGAGCACGAGTCAAATAAAATTTTAACAAGTTT
799156 AAAAAGCAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
53 1 0.02
54 25 0.53
55 19 0.40
56 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (55 bp):
CGAGTAATAAATATTTTTAACGAGCACGAGTCAAATAAAATTTTAACAAGTTTCA
Found at i:799147 original size:26 final size:26
Alignment explanation
Indices: 799065--799149 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 26
799055 ATAATTTATC
*
799065 TTAACGAGCATC-AGTCAAA-CAAATT
1 TTAACGAGCA-CGAGTCAAATAAAATT
799090 TTAACGAGTTTCACGAGT--AATAAATATTT
1 TTAACGAG---CACGAGTCAAATAAA-A-TT
799119 TTAACGAGCACGAGTCAAATAAAATT
1 TTAACGAGCACGAGTCAAATAAAATT
799145 TTAAC
1 TTAAC
799150 AAGTTTAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
25 8 0.16
26 16 0.32
27 4 0.08
28 12 0.24
29 10 0.20
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (26 bp):
TTAACGAGCACGAGTCAAATAAAATT
Found at i:802769 original size:21 final size:20
Alignment explanation
Indices: 802743--802782 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
802733 TTCTTTAGGA
802743 TATATTTGATTCTTTATATTT
1 TATATTTGATT-TTTATATTT
*
802764 TATATTTTATTTTTATATT
1 TATATTTGATTTTTATATT
802783 GTTTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (20 bp):
TATATTTGATTTTTATATTT
Found at i:804790 original size:45 final size:44
Alignment explanation
Indices: 804726--804831 Score: 167
Period size: 45 Copynumber: 2.4 Consensus size: 44
804716 CAAATAGCAC
**
804726 ATTGTTCAAATTTTAAACCCCAAATACACTACTAAAAGTTGTGCA
1 ATTGTTCAAA-TTTAAACCCCAAATACACTACTAAAAGTTGTAAA
*
804771 ATTGTTCAAATTCTAAACCCTAAATACACTACTAAAAGTTGTAAA
1 ATTGTTCAAATT-TAAACCCCAAATACACTACTAAAAGTTGTAAA
804816 ATTGTTCAAATTTAAA
1 ATTGTTCAAATTTAAA
804832 GCATTCCAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
44 6 0.11
45 51 0.89
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (44 bp):
ATTGTTCAAATTTAAACCCCAAATACACTACTAAAAGTTGTAAA
Found at i:810819 original size:41 final size:40
Alignment explanation
Indices: 810791--811216 Score: 496
Period size: 41 Copynumber: 10.4 Consensus size: 40
810781 TTTAAAAAAC
*
810791 AAACGCCACTAAAGTACAAGTC-TAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCATAGCGGCGTTTGTATAA
* *
810830 AAACGCCACTAATGTACGAGTCTATAGTGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATAA
* *
810871 AAACACCACTAATGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATAA
* * *
810912 AAACGCCACTAAAGTACAAGTCTATAGCGGCTTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATA-A
* *
810954 CAAACGCCACAAAATTACGAGTCTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATAA
810996 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATAA
** * *
811037 AAACGCCACTAAAGTATTACTCTATCGCGGCGTTTTGTATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCG-TTTGTATAA
* *
811079 AAACACGACTAAAGT-CGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATAA
** * * * * *
811119 AAACGCTGCTAAAGTACTACTCTATCGTGGCGTTTTATATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCG-TTTGTATAA
*
811161 AAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTC-ATAGCGGCGTTTGTATAA
*
811202 AAACGCCGCTAAAGT
1 AAACGCCACTAAAGT
811217 TACCATTTTG
Statistics
Matches: 335, Mismatches: 45, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
39 20 0.06
40 21 0.06
41 202 0.60
42 57 0.17
43 35 0.10
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (40 bp):
AAACGCCACTAAAGTACGAGTCATAGCGGCGTTTGTATAA
Found at i:810913 original size:82 final size:82
Alignment explanation
Indices: 810791--811216 Score: 570
Period size: 82 Copynumber: 5.2 Consensus size: 82
810781 TTTAAAAAAC
* *
810791 AAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTGTATAAAAACGCCACTAATGTACGAGTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
*
810854 TAGTGGCGTTTGTATAA
66 TAGCGGCGTTTGTATAA
* * *
810871 AAACACCACTAATGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
* *
810936 TAGCGGCTTTTGTAAACA
66 TAGCGGCGTTTGTATA-A
* *
810954 CAAACGCCACAAAATTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCT
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCT
811019 ATAGCGGCGTTTGTATAA
65 ATAGCGGCGTTTGTATAA
** * * * *
811037 AAACGCCACTAAAGTATTACTCTATCGCGGCGTTTTGTATAAAAACACGACTAAAGT-CGAGTCT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAAAAACGCCACTAAAGTACGAGTCT
811101 ATAGCGGCGTTTGTATAA
65 ATAGCGGCGTTTGTATAA
** * * * * * *
811119 AAACGCTGCTAAAGTACTACTCTATCGTGGCGTTTTATATAAAAACACCACTAAAGTACGAGTCT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAAAAACGCCACTAAAGTACGAGTCT
811184 ATAGCGGCGTTTGTATAA
65 ATAGCGGCGTTTGTATAA
*
811202 AAACGCCGCTAAAGT
1 AAACGCCACTAAAGT
811217 TACCATTTTG
Statistics
Matches: 310, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
80 19 0.06
82 154 0.50
83 63 0.20
84 74 0.24
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (82 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
TAGCGGCGTTTGTATAA
Found at i:811102 original size:166 final size:165
Alignment explanation
Indices: 810786--811216 Score: 582
Period size: 166 Copynumber: 2.6 Consensus size: 165
810776 GGCGTTTTAA
*
810786 AAAACAAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTGTATAAAAACGCCACTAATGTACGA
1 AAAACAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGA
* * * *
810849 GTCTATAGTGGCGTTTGTATAAAAACACCACTAATGTACGAGTCTATAGCGGCGTTTGTATAAAA
66 GTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGACTCTATAGCGGCGTTTGTATAAAA
* *
810914 ACGCCACTAAAGTACAAGTCTATAGCGGCTTTTGT
131 ACACCACTAAAGTACAAGTCTATAGCGGCGTTTGT
* * *
810949 AAACACAAACGCCACAAAATTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG
1 AAA-ACAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG
** *
811014 AGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTATTACTCTATCGCGGCGTTTTGTATAA
65 AGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGACTCTATAGCGGCG-TTTGTATAA
* *
811079 AAACACGACTAAAGT-CGAGTCTATAGCGGCGTTTGT
129 AAACACCACTAAAGTACAAGTCTATAGCGGCGTTTGT
* ** * * * * * *
811115 ATAA-AAACGCTGCTAAAGTACTACTCTATCGTGGCGTTTTATATAAAAACACCACTAAAGTACG
1 AAAACAAACGCCACTAAAGTACAAGTCTATAGCGGCG-TTTGTATAAAAACGCCACTAAAGTACG
*
811179 AGTCTATAGCGGCGTTTGTATAAAAACGCCGCTAAAGT
65 AGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGT
811217 TACCATTTTG
Statistics
Matches: 236, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
163 3 0.01
164 45 0.19
165 63 0.27
166 103 0.44
167 22 0.09
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (165 bp):
AAAACAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGA
GTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGACTCTATAGCGGCGTTTGTATAAAA
ACACCACTAAAGTACAAGTCTATAGCGGCGTTTGT
Found at i:812199 original size:31 final size:31
Alignment explanation
Indices: 812163--812269 Score: 187
Period size: 31 Copynumber: 3.5 Consensus size: 31
812153 ATATTTCAAT
* *
812163 TTAATCCTTAAATTATGATTCTCATTCTAAA
1 TTAATCCTTAAACTATGACTCTCATTCTAAA
*
812194 TTAATCTTTAAACTATGACTCTCATTCTAAA
1 TTAATCCTTAAACTATGACTCTCATTCTAAA
812225 TTAATCCTTAAACTATGACTCTCATTCTAAA
1 TTAATCCTTAAACTATGACTCTCATTCTAAA
812256 TTAATCCTTAAACT
1 TTAATCCTTAAACT
812270 TTTTAACATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.42
Consensus pattern (31 bp):
TTAATCCTTAAACTATGACTCTCATTCTAAA
Found at i:821165 original size:16 final size:16
Alignment explanation
Indices: 821146--821179 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
821136 ATATTTTGTA
* *
821146 TTAATTATTTTATTAT
1 TTAATCATTTTATAAT
821162 TTAATCATTTTATAAT
1 TTAATCATTTTATAAT
821178 TT
1 TT
821180 TATTTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATCATTTTATAAT
Found at i:821201 original size:21 final size:21
Alignment explanation
Indices: 821150--821201 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
821140 TTTGTATTAA
*
821150 TTATTTTATTATTTAATCATT
1 TTATTTTTTTATTTAATCATT
** *
821171 TTATAATTTTATTTAATTATT
1 TTATTTTTTTATTTAATCATT
821192 TTATTTTTTT
1 TTATTTTTTT
821202 GTAGTTATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTTTTTATTTAATCATT
Found at i:821470 original size:8 final size:8
Alignment explanation
Indices: 821459--821496 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
821449 TAAAAAAATA
821459 AAATAATT
1 AAATAATT
821467 AAATAATT
1 AAATAATT
821475 AAATAA-T
1 AAATAATT
821482 ACAATAATT
1 A-AATAATT
821491 AAATAA
1 AAATAA
821497 AATACTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.07
8 24 0.86
9 2 0.07
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (8 bp):
AAATAATT
Found at i:821511 original size:24 final size:23
Alignment explanation
Indices: 821458--821511 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
821448 GTAAAAAAAT
*
821458 AAAATAATTAAATAATTAAATAAT
1 AAAATAATTAAATAA-TAAATAAC
*
821482 ACAATAATTAAATAA-AATACTAAC
1 AAAATAATTAAATAATAA-A-TAAC
821506 AAAATA
1 AAAATA
821512 TGATTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 1 0.04
24 22 0.88
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATAATTAAATAATAAATAAC
Found at i:838142 original size:2 final size:2
Alignment explanation
Indices: 838135--838174 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
838125 TCCACTAATA
838135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
838175 CAACAATACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:844856 original size:26 final size:26
Alignment explanation
Indices: 844827--844878 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
844817 TAGAATCCAA
844827 TGCTTAGTTTAAAACACTCAGACTTT
1 TGCTTAGTTTAAAACACTCAGACTTT
844853 TGCTTAGTTTAAAACACTCAGACTTT
1 TGCTTAGTTTAAAACACTCAGACTTT
844879 CCTATTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (26 bp):
TGCTTAGTTTAAAACACTCAGACTTT
Found at i:845907 original size:18 final size:18
Alignment explanation
Indices: 845883--845930 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
845873 CCCAATAATC
845883 ATATTCCGTGGTAATCTT
1 ATATTCCGTGGTAATCTT
* *
845901 TTATTCCCACTGGTAATCTT
1 ATATT-CC-GTGGTAATCTT
*
845921 ACATTCCGTG
1 ATATTCCGTG
845931 AACCAAACGC
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (18 bp):
ATATTCCGTGGTAATCTT
Found at i:846024 original size:23 final size:22
Alignment explanation
Indices: 845998--846040 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
845988 TATTATATCG
*
845998 TTTATTATTAATATTTAATAAGT
1 TTTATCATTAA-ATTTAATAAGT
846021 TTTATCATTAAATTTAATAA
1 TTTATCATTAAATTTAATAA
846041 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTATCATTAAATTTAATAAGT
Found at i:855831 original size:35 final size:35
Alignment explanation
Indices: 855785--855860 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
855775 AAAACAGTCC
* **
855785 TCAATTTCATTCTAAACCCCAATTTCCAATGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
855820 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
855855 TCAATT
1 TCAATT
855861 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:856402 original size:130 final size:130
Alignment explanation
Indices: 856256--856503 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
856246 TATTTATATA
* **
856256 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
856321 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCGCCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
856386 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
856451 TTAACACATGATCATGATATATGTTATTGGTGACATATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
856504 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:856985 original size:16 final size:18
Alignment explanation
Indices: 856964--856997 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
856954 ATTTCTTATT
856964 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
856980 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
856998 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:857070 original size:22 final size:22
Alignment explanation
Indices: 857045--857088 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
857035 TAAATATAAA
*
857045 TATTCATTTATAT-AAATATTTT
1 TATTCATATAT-TGAAATATTTT
*
857067 TATTCGTATATTGAAATATTTT
1 TATTCATATATTGAAATATTTT
857089 GATTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
TATTCATATATTGAAATATTTT
Found at i:861922 original size:12 final size:12
Alignment explanation
Indices: 861905--861947 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
861895 CATTATTATA
861905 TATCTATATTGT
1 TATCTATATTGT
861917 TATCTATCATT-T
1 TATCTAT-ATTGT
**
861929 CCTCTATATTGT
1 TATCTATATTGT
861941 TATCTAT
1 TATCTAT
861948 CGTTTCCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 3 0.12
12 19 0.76
13 3 0.12
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (12 bp):
TATCTATATTGT
Found at i:861939 original size:24 final size:24
Alignment explanation
Indices: 861907--861957 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
861897 TTATTATATA
861907 TCTATATTGTTATCTATCATTTCC
1 TCTATATTGTTATCTATCATTTCC
*
861931 TCTATATTGTTATCTATCGTTTCC
1 TCTATATTGTTATCTATCATTTCC
861955 TCT
1 TCT
861958 CAGGCTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.06, T:0.55
Consensus pattern (24 bp):
TCTATATTGTTATCTATCATTTCC
Found at i:867419 original size:23 final size:23
Alignment explanation
Indices: 867388--867433 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
867378 ATAAGAATAA
*
867388 TTCTATCTTTGTGGCACGTTTTT
1 TTCTATCTTTGCGGCACGTTTTT
*
867411 TTCTGTCTTTGCGGCACGTTTTT
1 TTCTATCTTTGCGGCACGTTTTT
867434 CATTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.54
Consensus pattern (23 bp):
TTCTATCTTTGCGGCACGTTTTT
Found at i:868287 original size:17 final size:18
Alignment explanation
Indices: 868256--868290 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
868246 TTATAAAATT
*
868256 TTAAAAAAATTACTTAAA
1 TTAAAAAAATAACTTAAA
868274 TTAAAAAAA-AACTTAAA
1 TTAAAAAAATAACTTAAA
868291 AAAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAAAATAACTTAAA
Found at i:868963 original size:162 final size:164
Alignment explanation
Indices: 868696--869021 Score: 602
Period size: 162 Copynumber: 2.0 Consensus size: 164
868686 TTAAATATAT
*
868696 TTTCAAGTTTTTTATTTTAAATGAAATTTTTAAAATTATCTGAATGTTACATGTGTCTTTTAACG
1 TTTCAAGTTTTTTATTTTAAATGAAATTTTTAAAATTATCTGAATGTTACATGTGTCCTTTAACG
*
868761 ACTTAATTTAATGGTTGTTACGGCCCGGACACCTAAAATGGTAACGTTTGTAACATAGACACCTA
66 ACTGAATTTAATGGTTGTTACGGCCCGGACACCTAAAATGGTAACGTTTGTAACATAGACACCTA
868826 GATTAATC-GGGGGG-AACTTAGATGCCTATTAA
131 GATTAATCGGGGGGGAAACTTAGATGCCTATTAA
868858 TTTCAAGTTTTTTATTTTAAATGAAATTTTTAAAATTATCTGAATGTTACATGTGTCCTTTAACG
1 TTTCAAGTTTTTTATTTTAAATGAAATTTTTAAAATTATCTGAATGTTACATGTGTCCTTTAACG
*
868923 ACTGAATTTAATGGTTGTTACGGCCCGGACACCTAAAATGGTAACGTTTGTAACATAGGCACCTA
66 ACTGAATTTAATGGTTGTTACGGCCCGGACACCTAAAATGGTAACGTTTGTAACATAGACACCTA
*
868988 GATTAATCGGGGGGGAAATTTAGATGCCTATTAA
131 GATTAATCGGGGGGGAAACTTAGATGCCTATTAA
869022 AAAAGTATAG
Statistics
Matches: 158, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
162 135 0.85
163 6 0.04
164 17 0.11
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (164 bp):
TTTCAAGTTTTTTATTTTAAATGAAATTTTTAAAATTATCTGAATGTTACATGTGTCCTTTAACG
ACTGAATTTAATGGTTGTTACGGCCCGGACACCTAAAATGGTAACGTTTGTAACATAGACACCTA
GATTAATCGGGGGGGAAACTTAGATGCCTATTAA
Found at i:869361 original size:20 final size:20
Alignment explanation
Indices: 869329--869367 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
869319 TCAAACTAAA
*
869329 ATTTAATTAATTATTTAATG
1 ATTTAATTAATTATATAATG
869349 ATTT-ATTATATTATATAAT
1 ATTTAATTA-ATTATATAAT
869368 ATCTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTAATTAATTATATAATG
Found at i:870646 original size:14 final size:14
Alignment explanation
Indices: 870627--870654 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
870617 AGGGTCTAAA
870627 GCATTAAATATCAC
1 GCATTAAATATCAC
870641 GCATTAAATATCAC
1 GCATTAAATATCAC
870655 CACGATAACA
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:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
GCATTAAATATCAC
Found at i:875746 original size:50 final size:50
Alignment explanation
Indices: 875624--875746 Score: 115
Period size: 50 Copynumber: 2.5 Consensus size: 50
875614 AACAGAAAAA
* * *
875624 CGCG-CCCCTG-CACCGCGCTATATGCTGATTTGACGCCACGTGGGTATAG
1 CGCGCCCCCTGAC-CCGCGCTATACGCTGATCTGACGCCACGTGAGTATAG
* ** * * *
875673 CGCGCCCCCTGCCCCGCAATATACGGTGATCTGGCGCCACGTGATTATAG
1 CGCGCCCCCTGACCCGCGCTATACGCTGATCTGACGCCACGTGAGTATAG
* * *
875723 CGTGCCCCTTGATCCGCGCTATAC
1 CGCGCCCCCTGACCCGCGCTATAC
875747 CTGGATATCT
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
49 4 0.07
50 53 0.91
51 1 0.02
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (50 bp):
CGCGCCCCCTGACCCGCGCTATACGCTGATCTGACGCCACGTGAGTATAG
Found at i:876237 original size:111 final size:110
Alignment explanation
Indices: 876032--876252 Score: 336
Period size: 111 Copynumber: 2.0 Consensus size: 110
876022 TATAAATCAT
* *
876032 ATATCTCTACACTTTGCTAATACGGTAACTTTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
1 ATATCTCGACACTTTGCTAATACAGTAACTTTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
* * *
876097 ATTTAATTGATTTATTATATGTATAATTATTAGATTAAGAATTAA
66 AATTAATTGATTCATTATATGCATAATTATTAGATTAAGAATTAA
* *
876142 ATATCTCGACACTTTGTTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTAATACAGTAAC-TTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
876207 TAATTAGTTGATTCATT-TAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAATTGATTCATTAT-ATGCATAATTATTAGATTAAGAATTAA
876253 TTTTTGTAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
110 26 0.26
111 74 0.74
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (110 bp):
ATATCTCGACACTTTGCTAATACAGTAACTTTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
AATTAATTGATTCATTATATGCATAATTATTAGATTAAGAATTAA
Found at i:883793 original size:21 final size:21
Alignment explanation
Indices: 883764--883805 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
883754 AACTACAACA
*
883764 GTTAAATATTTAAGCTATTTT
1 GTTAAATATTTAAGATATTTT
* *
883785 GTTATATATTTACGATATTTT
1 GTTAAATATTTAAGATATTTT
883806 AATTAATTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
GTTAAATATTTAAGATATTTT
Done.