Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_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: 3477501
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:724639 original size:173 final size:174
Alignment explanation
Indices: 724401--724797 Score: 510
Period size: 173 Copynumber: 2.3 Consensus size: 174
724391 CTTTGAAAAC
* * * * *
724401 GTTTCCCTTGAAACGAATTTTATCTCTCTTCAGATAGTTTCCCTTGAAAAGAATTTTGTCTCTCT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAGAATTTTGCCTCTCT
* * * *
724466 TAAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGATGCTCTTGAAACA-TAAA-C
66 TAAGACAATTTCCCTTGAAACAAAATTTATCTCCCATGAGACAGATGCTCTTGAAACACAAAATC
* ** *
724529 TTTGAAAATGTTTCCCTTGAAATGAATTTTGTCACTCTTGAGACA
131 TTTG-AAATGTTTCCCATGAAACAAATTTTGTCACACTTGAGACA
* * *
724574 TTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTGCCTTGAAATGAATTTTGCCTCTCT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAGAATTTTGCCTCTCT
* * * *
724639 TGAGACAGTTTCCCTTGAAACAAAATTTATCTCCCATGAGACAGTTTCTCTTGAAACACAAAATC
66 TAAGACAATTTCCCTTGAAACAAAATTTATCTCCCATGAGACAGATGCTCTTGAAACACAAAATC
* * *
724704 TTTGAATTGTTTCCCATGAAACAAATTTTGTCTCACTTGAGACG
131 TTTGAAATGTTTCCCATGAAACAAATTTTGTCACACTTGAGACA
* ** * *
724748 GTTTCTCTAAAAACAAAGTTTTGTCTTTCTTGAGACAATTTCCCTTGAAA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
724798 CAAAAGTCTT
Statistics
Matches: 191, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
173 108 0.57
174 49 0.26
175 34 0.18
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (174 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAGAATTTTGCCTCTCT
TAAGACAATTTCCCTTGAAACAAAATTTATCTCCCATGAGACAGATGCTCTTGAAACACAAAATC
TTTGAAATGTTTCCCATGAAACAAATTTTGTCACACTTGAGACA
Found at i:724660 original size:72 final size:71
Alignment explanation
Indices: 724538--724694 Score: 224
Period size: 72 Copynumber: 2.2 Consensus size: 71
724528 CTTTGAAAAT
* * * * * *
724538 GTTTCCCTTGAAATGAATTTTGTCACTCTTGAGACATTTTCCCTTGAAACAAATTTTGTCTCTCT
1 GTTT-CCTTGAAATGAATTTTGCCACTCTTGAGACAGTTTCCCTTGAAACAAAATTTATCTCCCA
724603 TGAGACA
65 TGAGACA
*
724610 GTTTGCCTTGAAATGAATTTTGCCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTATCTCCCA
1 GTTT-CCTTGAAATGAATTTTGCCACTCTTGAGACAGTTTCCCTTGAAACAAAATTTATCTCCCA
724675 TGAGACA
65 TGAGACA
724682 GTTTCTCTTGAAA
1 GTTTC-CTTGAAA
724695 CACAAAATCT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
71 1 0.01
72 75 0.99
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (71 bp):
GTTTCCTTGAAATGAATTTTGCCACTCTTGAGACAGTTTCCCTTGAAACAAAATTTATCTCCCAT
GAGACA
Found at i:724762 original size:102 final size:102
Alignment explanation
Indices: 724625--724857 Score: 238
Period size: 102 Copynumber: 2.3 Consensus size: 102
724615 CCTTGAAATG
* * * ** * *
724625 AATTTTGCCTCTCTTGAGACAGTTTCCCTTGAAACAAA-ATTTATCTCCCATGAGACAGTTTCTC
1 AATTTTGTCTCTCTTGAGACGGTTTCTCTAAAAACAAAGATTTATCTCCCATGAGACAATTTCCC
724689 TTGAAACACAAAATCTTTGAA-TTGT-TTCCCATGAAACA
66 TTGAAACA-AAAATCTTT-AAGTT-TATTCCCATGAAACA
* * * ** *
724727 AATTTTGTCTCACTTGAGACGGTTTCTCTAAAAACAAAGTTTTGTCTTTCTTGAGACAATTTCCC
1 AATTTTGTCTCTCTTGAGACGGTTTCTCTAAAAACAAAGATTTATCTCCCATGAGACAATTTCCC
* * *
724792 TTGAAACAAAAGTCTTTAAGTTTATTTCCTTGAAACA
66 TTGAAACAAAAATCTTTAAGTTTATTCCCATGAAACA
** * *
724829 TGTTTTGTCACTCTTGAGACGATTTCTCT
1 AATTTTGTCTCTCTTGAGACGGTTTCTCT
724858 TTAAACCATC
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
101 3 0.03
102 77 0.72
103 27 0.25
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (102 bp):
AATTTTGTCTCTCTTGAGACGGTTTCTCTAAAAACAAAGATTTATCTCCCATGAGACAATTTCCC
TTGAAACAAAAATCTTTAAGTTTATTCCCATGAAACA
Found at i:724799 original size:37 final size:36
Alignment explanation
Indices: 724539--724801 Score: 171
Period size: 36 Copynumber: 7.4 Consensus size: 36
724529 TTTGAAAATG
** * * *
724539 TTTCCCTTGAAATGAATTTTGTCACTCTTGAGACAT
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAA
* *
724575 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAA
* ** * * *
724611 TTTGCCTTGAAATGAATTTTGCCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAA
* * * * *
724647 TTTCCCTTGAAACAAAATTTATCTCCCATGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAA
* ** ***
724683 TTTCTCTTGAAACACAA---AATCT---TTGA-ATTG
1 TTTCCCTTGAAACA-AATTTTGTCTCACTTGAGACAA
* **
724713 TTTCCCATGAAACAAATTTTGTCTCACTTGAGACGG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAA
* ** **
724749 TTTCTCTAAAAACAAAGTTTTGTCTTTCTTGAGACAA
1 TTTCCCTTGAAACAAA-TTTTGTCTCACTTGAGACAA
724786 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
724802 AGTCTTTAAG
Statistics
Matches: 180, Mismatches: 38, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
29 2 0.01
30 14 0.08
31 3 0.02
32 3 0.02
34 4 0.02
35 4 0.02
36 119 0.66
37 31 0.17
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAA
Found at i:725069 original size:3 final size:3
Alignment explanation
Indices: 725061--725103 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
725051 CGGGTCTAAC
725061 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
725104 ATACAAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:726444 original size:24 final size:25
Alignment explanation
Indices: 726383--726444 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
726373 CTTGTATTTA
*
726383 TTTTATTTATTTTTATTTTTGATTG
1 TTTTAATTATTTTTATTTTTGATTG
* *
726408 TTTT-ACTATTTTTTTTATTTG-TTG
1 TTTTAATTATTTTTATT-TTTGATTG
726432 TTTTAATTATTTT
1 TTTTAATTATTTT
726445 GATTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 16 0.52
25 15 0.48
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTAATTATTTTTATTTTTGATTG
Found at i:729092 original size:3 final size:3
Alignment explanation
Indices: 729084--729217 Score: 191
Period size: 3 Copynumber: 45.0 Consensus size: 3
729074 ACCCAATCTA
* * *
729084 TCT TCT TCT CCT TCT CCT TCT CCT TC- TCAT TCT TCT TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT
729128 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
729176 TCT TCT TCT TCT TCT TCT TCT TCT TTT TGT TAT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
729218 ACATCACCTC
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
2 4 0.03
3 112 0.95
4 2 0.02
ACGTcount: A:0.01, C:0.34, G:0.01, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:731282 original size:23 final size:23
Alignment explanation
Indices: 731255--731300 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
731245 TTAAAAGAAG
731255 TTGCGTATTCATAATTTTTGAAT
1 TTGCGTATTCATAATTTTTGAAT
*
731278 TTGCGTATTCATATTTTTTGAAT
1 TTGCGTATTCATAATTTTTGAAT
731301 ACCTGTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (23 bp):
TTGCGTATTCATAATTTTTGAAT
Found at i:733476 original size:16 final size:16
Alignment explanation
Indices: 733455--733489 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
733445 TAATATCCAA
*
733455 ATTTTGATGAGACATT
1 ATTTTGATAAGACATT
*
733471 ATTTTGTTAAGACATT
1 ATTTTGATAAGACATT
733487 ATT
1 ATT
733490 GACCTACTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (16 bp):
ATTTTGATAAGACATT
Found at i:735644 original size:17 final size:18
Alignment explanation
Indices: 735611--735644 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
735601 TCGCTATTAG
735611 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
735629 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
735645 GGCCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:739527 original size:2 final size:2
Alignment explanation
Indices: 739520--739565 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
739510 GTATGTATGC
739520 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
739562 AT AT
1 AT AT
739566 TAAAAATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:739703 original size:29 final size:30
Alignment explanation
Indices: 739657--739718 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
739647 ACAAATATTC
*
739657 TTTTTTTAAAAAGGTTTGATTAACGGTTAAT
1 TTTTTTTAAAAA-GTTTGATTAACGATTAAT
*
739688 TTTTTTTAAAAA-TTTGATTATCGATTAAT
1 TTTTTTTAAAAAGTTTGATTAACGATTAAT
739717 TT
1 TT
739719 AGGTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.59
31 12 0.41
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.53
Consensus pattern (30 bp):
TTTTTTTAAAAAGTTTGATTAACGATTAAT
Found at i:741917 original size:14 final size:14
Alignment explanation
Indices: 741895--741950 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
741885 CGTTCGTGAA
*
741895 CGTTTAGTTATGTT
1 CGTTCAGTTATGTT
741909 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
741923 CG-T---TTATGTT
1 CGTTCAGTTATGTT
* *
741933 TGTTCGGTTATGTT
1 CGTTCAGTTATGTT
741947 CGTT
1 CGTT
741951 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.55
Consensus pattern (14 bp):
CGTTCAGTTATGTT
Found at i:741929 original size:24 final size:24
Alignment explanation
Indices: 741902--741970 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
741892 GAACGTTTAG
741902 TTATGTTCGTTCAGTTATGTTCGT
1 TTATGTTCGTTCAGTTATGTTCGT
* *
741926 TTATGTTTGTTCGGTTATGTTCGT
1 TTATGTTCGTTCAGTTATGTTCGT
* *
741950 TTATGTTCATTCATTTATGTT
1 TTATGTTCGTTCAGTTATGTT
741971 TAAGTCAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.58
Consensus pattern (24 bp):
TTATGTTCGTTCAGTTATGTTCGT
Found at i:742641 original size:10 final size:10
Alignment explanation
Indices: 742626--742699 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
742616 GGTCTCCAAT
742626 GTTTATGTTC
1 GTTTATGTTC
742636 GTTTATGTTC
1 GTTTATGTTC
742646 G----TGTTC
1 GTTTATGTTC
*
742652 ATTTATGTTC
1 GTTTATGTTC
* *
742662 GTGTT-CGTTTAT
1 GT-TTATG-TT-C
*
742674 GTTTGTGTTC
1 GTTTATGTTC
742684 GTTTATGTTC
1 GTTTATGTTC
742694 GTTTAT
1 GTTTAT
742700 TTATTAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.10
10 33 0.67
11 8 0.16
12 3 0.06
ACGTcount: A:0.09, C:0.09, G:0.22, T:0.59
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:742650 original size:16 final size:16
Alignment explanation
Indices: 742631--742695 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
742621 CCAATGTTTA
742631 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
742647 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
742663 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
742679 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
742695 T
1 T
742696 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:742786 original size:16 final size:16
Alignment explanation
Indices: 742765--742797 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
742755 AAAAACATTT
742765 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
742781 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
742797 T
1 T
742798 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:750900 original size:253 final size:249
Alignment explanation
Indices: 750413--750957 Score: 787
Period size: 253 Copynumber: 2.1 Consensus size: 249
750403 CATCCGAGAC
750413 CCGACCCGACCAAAATAAAGTTTCACCCGACCCAACCCGAATATATGAATTAGAAACCGACCCGA
1 CCGACCCGACCAAAATAAAGTTTCACCCG-----ACCCGAATATATGAATTAGAAACCGACCCGA
* *
750478 AATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAATATATATAGAGA
61 AATAATAAAAAAATTACTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATATAGAGA
*
750543 GAGGGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTTTTTGGGTCGGTCG
126 GAGGGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTATTT--GTCGGTCG
*
750608 GGTATTTTTCACCCTAAACCTGAACCTGACCTAACCCGAATATCACACTTAAAAAAAACCAAA
189 GGTATTTTTCACCCTAAACCTGAACCTGACCCAACCCGAATATCACACTT--AAAAAACCAAA
750671 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGAATATATGAATTAG-AA----A-CCGACCCG
* *
750736 AAATAATAAAAAAATTACTTTTATTCAATAAAAA-AGTGACTTAATT-GAAAAAAAT-TATATAT
60 AAATAATAAAAAAATTACTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATATAGAG
* *
750798 AGAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATA-TATTT-TCAGGTCG
125 AGAGGGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTATTTGTC-GGTCG
* * *
750861 GGTATTTTTCACCCTAAACCTGAA-CTCGACCCGACCCGAATATCACACTTAAAAAACCGAC
189 GGTATTTTTCACCCTAAACCTGAACCT-GACCCAACCCGAATATCACACTTAAAAAACCAAA
*
750922 CCGACCAGACCAAAATAAAGTTTCACCCGACCCGAA
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGAA
750958 ATAATAAAAA
Statistics
Matches: 267, Mismatches: 12, Indels: 23
0.88 0.04 0.08
Matches are distributed among these distances:
251 44 0.16
252 4 0.01
253 69 0.26
254 2 0.01
255 4 0.01
256 53 0.20
257 8 0.03
258 42 0.16
259 41 0.15
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (249 bp):
CCGACCCGACCAAAATAAAGTTTCACCCGACCCGAATATATGAATTAGAAACCGACCCGAAATAA
TAAAAAAATTACTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATATAGAGAGAGGG
GTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTATTTGTCGGTCGGGTATTT
TTCACCCTAAACCTGAACCTGACCCAACCCGAATATCACACTTAAAAAACCAAA
Found at i:752418 original size:18 final size:18
Alignment explanation
Indices: 752373--752421 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
752363 TTTAAAATTT
752373 TAAAAATATAACATTAAATA
1 TAAAAAT-TAA-ATTAAATA
* *
752393 T-AATATTAAATTTAATA
1 TAAAAATTAAATTAAATA
752410 TAAAAATTAAAT
1 TAAAAATTAAAT
752422 ATAACATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 8 0.32
18 12 0.48
19 4 0.16
20 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAAATTAAATTAAATA
Found at i:752419 original size:30 final size:29
Alignment explanation
Indices: 752377--752447 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
752367 AAATTTTAAA
* *
752377 AATAT-AACATTAAATATAATATTAAATTT
1 AATATAAAAATTAAATATAACATTAAA-TT
*
752406 AATATAAAAATTAAATATAACATTTAATT
1 AATATAAAAATTAAATATAACATTAAATT
*
752435 ATATATAATAATT
1 A-ATATAAAAATT
752448 TAATTCGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 8 0.22
30 28 0.78
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AATATAAAAATTAAATATAACATTAAATT
Found at i:752440 original size:17 final size:18
Alignment explanation
Indices: 752414--752465 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
752404 TTAATATAAA
*
752414 AATTAAATATAA-CATTT
1 AATTAAATATAATAATTT
*
752431 AATTATATATAATAATTT
1 AATTAAATATAATAATTT
*
752449 AATTCGAATATAA-AATT
1 AATT-AAATATAATAATT
752466 AAATATCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 11 0.38
18 12 0.41
19 6 0.21
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATTAAATATAATAATTT
Found at i:753538 original size:16 final size:16
Alignment explanation
Indices: 753519--753551 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
753509 GACTACTTCC
753519 GATAAATTAGTCTTAA
1 GATAAATTAGTCTTAA
753535 GATAAATTAGTCTTAA
1 GATAAATTAGTCTTAA
753551 G
1 G
753552 GTGTTTACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (16 bp):
GATAAATTAGTCTTAA
Found at i:763968 original size:22 final size:22
Alignment explanation
Indices: 763942--763986 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
763932 TAGGCTATCG
*
763942 TAATTACACTTCAAAATTAGTT
1 TAATTACACCTCAAAATTAGTT
763964 TAATTACACCTCAAAATTAGTT
1 TAATTACACCTCAAAATTAGTT
763986 T
1 T
763987 GATATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (22 bp):
TAATTACACCTCAAAATTAGTT
Found at i:764335 original size:45 final size:42
Alignment explanation
Indices: 764261--764347 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 42
764251 ATTTCAATAA
* * *
764261 TTTATATATTTAAATTAAAATTGACATATTAATTATATTAAT
1 TTTATATATATAAATTAAAATTGAAATATTAATTAAATTAAT
* *
764303 TTTATATATATAATATTAATAAATTTAAATATTATTTAAATTAAT
1 TTTATATATATAA-ATT-A-AAATTGAAATATTAATTAAATTAAT
764348 ATTCTTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 12 0.32
43 3 0.08
44 1 0.03
45 21 0.57
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (42 bp):
TTTATATATATAAATTAAAATTGAAATATTAATTAAATTAAT
Found at i:769958 original size:3 final size:3
Alignment explanation
Indices: 769950--769988 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
769940 TGTAAATTAG
769950 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
769989 AAAAGACTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:770525 original size:134 final size:134
Alignment explanation
Indices: 770182--770718 Score: 598
Period size: 134 Copynumber: 4.0 Consensus size: 134
770172 GGATATTGGA
* * * * *
770182 GATAACATGGTTTCTACGCGATAAGGAAGTCTGGCTATCTAAGGATGACGCGACTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGTTATCTAAGGATGACGCGGCTCCTACGTGAT
* * * * * *
770247 GAAGAGATGTGGTCGGTGGATGACACGGTTCCAACGTGATGAGTACT-GTTGGCCATCTTTAGGG
66 GAGGAGATCTGGTCGGTGGATGACACGATTCCTACGTGATGAG-AATGGCTGGCCATCTTTAGGG
770311 ACAAATGGA-
130 ----AT-GAT
* * * * * * *
770320 GATAGCATGGTTCTTACACGACGAGGAAGTCTGGTTATATAAGGATGATGCGGCTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGTTATCTAAGGATGACGCGGCTCCTACGTGAT
* *
770385 GAGGAGATCTGGACGGTGGATGACACGATTTCTACGTGATGATG-ATGGCTGGCCATCTTTAGGG
66 GAGGAGATCTGGTCGGTGGATGACACGATTCCTACGTGATGA-GAATGGCTGGCCATCTTTAGGG
770449 ATGAT
130 ATGAT
* * *
770454 GATAACACGGTTCCTACGTGATGAGGACAG-CTGGTTATCTAAGGTTGACGTGGCTCCTACGTGA
1 GATAACACGGTTCCTACGCGATGAGGA-AGTCTGGTTATCTAAGGATGACGCGGCTCCTACGTGA
* * * *
770518 TGAGGAGATCTGGTCGGCGGATGACACGATTCCTACGTGATGAGAACGGGTGGACATCTTTAGGG
65 TGAGGAGATCTGGTCGGTGGATGACACGATTCCTACGTGATGAGAATGGCTGGCCATCTTTAGGG
770583 ATGAT
130 ATGAT
* * * * *
770588 GATAGCACGGTTCCTACGTGATGAAGACAGT-TGGTTATCTAAGGTTGACACGGCTCCTACGTGA
1 GATAACACGGTTCCTACGCGATGAGGA-AGTCTGGTTATCTAAGGATGACGCGGCTCCTACGTGA
* * * ** * * *
770652 TGAGGAGATCTAGTCAGTGGATGACACGGTTCCTACACGATGAGGATGACTGACCATCTTTAGGG
65 TGAGGAGATCTGGTCGGTGGATGACACGATTCCTACGTGATGAGAATGGCTGGCCATCTTTAGGG
770717 AT
130 AT
770719 AATGTTTCAA
Statistics
Matches: 343, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
133 3 0.01
134 229 0.67
135 2 0.01
137 1 0.00
138 107 0.31
139 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (134 bp):
GATAACACGGTTCCTACGCGATGAGGAAGTCTGGTTATCTAAGGATGACGCGGCTCCTACGTGAT
GAGGAGATCTGGTCGGTGGATGACACGATTCCTACGTGATGAGAATGGCTGGCCATCTTTAGGGA
TGAT
Found at i:770866 original size:65 final size:64
Alignment explanation
Indices: 770721--770869 Score: 201
Period size: 65 Copynumber: 2.3 Consensus size: 64
770711 TTAGGGATAA
*
770721 TGTTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAA
1 TGTTTCAAGAGAGAC--AATTTATTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAA
770786 C
64 C
* * * * *
770787 TATCTCAAAAGAGACAATTTATTTCAAGAGAAACAATCTCA-AAGATTTTATTTTTCAAGAGAAA
1 TGTTTCAAGAGAGACAATTTATTTCAAGAGAAACAATCTCACATG--TTTATGTTTCAAGAGAAA
770851 C
64 C
770852 TGTTTCAAGAGAGACAAT
1 TGTTTCAAGAGAGACAAT
770870 CTCACATGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.03
64 25 0.35
65 33 0.46
66 12 0.17
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (64 bp):
TGTTTCAAGAGAGACAATTTATTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAAC
Found at i:770897 original size:45 final size:45
Alignment explanation
Indices: 770808--770913 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 45
770798 AGACAATTTA
*
770808 TTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACTG
1 TTTCAAGAGAGACAATCTCAAAGA-TTTATTTTTCAAGAGAAACTG
* *
770854 TTTCAAGAGAGACAATCTCACATG-TTTATGTTTT-AATAGAAACTG
1 TTTCAAGAGAGACAATCTCA-AAGATTTAT-TTTTCAAGAGAAACTG
*
770899 TTTCGAGAGAGACAA
1 TTTCAAGAGAGACAA
770914 AATTAGTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 29 0.54
46 23 0.43
47 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (45 bp):
TTTCAAGAGAGACAATCTCAAAGATTTATTTTTCAAGAGAAACTG
Found at i:770927 original size:66 final size:67
Alignment explanation
Indices: 770848--771004 Score: 165
Period size: 67 Copynumber: 2.4 Consensus size: 67
770838 TTTTCAAGAG
* * * * * * * * *
770848 AAACT-GTTTCAAGAGAGACAATCTCACATG-TTTATGTTTTAATAGAAACTGTTTCGAGAGAGA
1 AAACTAGTTTCAAGAGAAACAATCTCAAAGGTTTTATATTTCAAGAGAAACTGTCTCAAAAGAGA
770911 CA
66 CA
* * * *
770913 AAATTAGTTTCAAGAAAAACATTCTCAAAGGTTTTATATTTCAAGAGAAATTGTCTCAAAAGAGA
1 AAACTAGTTTCAAGAGAAACAATCTCAAAGGTTTTATATTTCAAGAGAAACTGTCTCAAAAGAGA
770978 CA
66 CA
* *
770980 AAACTGGTTTCAAGAGAAATAATCT
1 AAACTAGTTTCAAGAGAAACAATCT
771005 TAAGGGTGCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
65 4 0.06
66 20 0.28
67 48 0.67
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (67 bp):
AAACTAGTTTCAAGAGAAACAATCTCAAAGGTTTTATATTTCAAGAGAAACTGTCTCAAAAGAGA
CA
Found at i:770977 original size:112 final size:110
Alignment explanation
Indices: 770741--770980 Score: 327
Period size: 112 Copynumber: 2.2 Consensus size: 110
770731 GAGACAAAAT
* *
770741 TTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAATT
1 TTGTTTCAAGAGAGACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAT
* *
770806 TATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAA
66 TATTTCAAGAAAAACAATCTCAAAGATTTTATATTTCAAGAGAAA
* * * * * * *
770851 CTGTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAA
1 TTGTTTCAAGAGAGACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGAC-AAA
* *
770916 TTAGTTTCAAGAAAAACATTCTCAAAGGTTTTATATTTCAAGAGAAA
65 TTA-TTTCAAGAAAAACAATCTCAAAGATTTTATATTTCAAGAGAAA
* *
770963 TTGTCTCAAAAGAGACAA
1 TTGTTTCAAGAGAGACAA
770981 AACTGGTTTC
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 53 0.47
111 5 0.04
112 54 0.48
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (110 bp):
TTGTTTCAAGAGAGACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAT
TATTTCAAGAAAAACAATCTCAAAGATTTTATATTTCAAGAGAAA
Found at i:771103 original size:21 final size:22
Alignment explanation
Indices: 771074--771119 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
771064 GAAACAATCT
* *
771074 CAAATATTTTTTTCAAGAGAGA
1 CAAATATTTGTTTCAAGAGAAA
771096 CAAA-ATTTGTTTCAAGAGAAA
1 CAAATATTTGTTTCAAGAGAAA
771117 CAA
1 CAA
771120 TCTCACATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (22 bp):
CAAATATTTGTTTCAAGAGAAA
Found at i:771257 original size:110 final size:111
Alignment explanation
Indices: 771103--771341 Score: 309
Period size: 112 Copynumber: 2.2 Consensus size: 111
771093 AGACAAAATT
* *
771103 TGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGGC-AATT
1 TGTTTCAAGAGAGACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAATT
* * *
771167 TATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAAC
66 AATTTCAAGAAAAACAATCTCAAAGATTTTATATTTCAAGAGAAAC
* * * * * *
771213 TGTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAAT
1 TGTTTCAAGAGAGACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGAC-AAAT
* * * *
771278 TAATTTCAAGAAAAATATTCTCAAAGGTTTTATATTTCAAGAGAAAT
65 TAATTTCAAGAAAAACAATCTCAAAGATTTTATATTTCAAGAGAAAC
* *
771325 TGTCTCAAAAGAGACAA
1 TGTTTCAAGAGAGACAA
771342 AACTGGTTTC
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
110 52 0.47
112 58 0.53
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (111 bp):
TGTTTCAAGAGAGACAATCTCACATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAATT
AATTTCAAGAAAAACAATCTCAAAGATTTTATATTTCAAGAGAAAC
Found at i:771258 original size:45 final size:45
Alignment explanation
Indices: 771169--771274 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 45
771159 AGGCAATTTA
*
771169 TTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACTG
1 TTTCAAGAGAGACAATCTCAAAGA-TTTATTTTTCAAGAGAAACTG
* *
771215 TTTCAAGAGAGACAATCTCACATG-TTTATGTTTT-AATAGAAACTG
1 TTTCAAGAGAGACAATCTCA-AAGATTTAT-TTTTCAAGAGAAACTG
*
771260 TTTCGAGAGAGACAA
1 TTTCAAGAGAGACAA
771275 AATTAATTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 29 0.54
46 23 0.43
47 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (45 bp):
TTTCAAGAGAGACAATCTCAAAGATTTATTTTTCAAGAGAAACTG
Found at i:771387 original size:361 final size:361
Alignment explanation
Indices: 770723--771427 Score: 1356
Period size: 361 Copynumber: 2.0 Consensus size: 361
770713 AGGGATAATG
770723 TTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACT
1 TTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACT
770788 ATCTCAAAAGAGACAATTTATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACT
66 ATCTCAAAAGAGACAATTTATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACT
770853 GTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAATT
131 GTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAATT
*
770918 AGTTTCAAGAAAAACATTCTCAAAGGTTTTATATTTCAAGAGAAATTGTCTCAAAAGAGACAAAA
196 AATTTCAAGAAAAACATTCTCAAAGGTTTTATATTTCAAGAGAAATTGTCTCAAAAGAGACAAAA
* * *
770983 CTGGTTTCAAGAGAAATAATCTTAAGGGTGCGTTTGGTTCACGGAATGTAAGATTATCAGTGGGA
261 CTGGTTTCAAGAGAAACAATCTTAAGGGTGCGTTTGGTTCACGGAATGTAAGATTACCAGTGAGA
771048 ATGTAAGACTACCAGAGAAACAATCTCAAATATTTT
326 ATGTAAGACTACCAGAGAAACAATCTCAAATATTTT
771084 TTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACT
1 TTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACT
*
771149 ATCTCAAAAGAGGCAATTTATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACT
66 ATCTCAAAAGAGACAATTTATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACT
771214 GTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAATT
131 GTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAATT
*
771279 AATTTCAAGAAAAATATTCTCAAAGGTTTTATATTTCAAGAGAAATTGTCTCAAAAGAGACAAAA
196 AATTTCAAGAAAAACATTCTCAAAGGTTTTATATTTCAAGAGAAATTGTCTCAAAAGAGACAAAA
771344 CTGGTTTCAAGAGAAACAATCTTAAGGGTGCGTTTGGTTCACGGAATGTAAGATTACCAGTGAGA
261 CTGGTTTCAAGAGAAACAATCTTAAGGGTGCGTTTGGTTCACGGAATGTAAGATTACCAGTGAGA
771409 ATGTAAGACTACCAGAGAA
326 ATGTAAGACTACCAGAGAA
771428 TAGGATTACT
Statistics
Matches: 338, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
361 338 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (361 bp):
TTTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCACATGTTTATGTTTCAAGAGAAACT
ATCTCAAAAGAGACAATTTATTTCAAGAGAAACAATCTCAAAGATTTTATTTTTCAAGAGAAACT
GTTTCAAGAGAGACAATCTCACATGTTTATGTTTTAATAGAAACTGTTTCGAGAGAGACAAAATT
AATTTCAAGAAAAACATTCTCAAAGGTTTTATATTTCAAGAGAAATTGTCTCAAAAGAGACAAAA
CTGGTTTCAAGAGAAACAATCTTAAGGGTGCGTTTGGTTCACGGAATGTAAGATTACCAGTGAGA
ATGTAAGACTACCAGAGAAACAATCTCAAATATTTT
Found at i:771428 original size:18 final size:19
Alignment explanation
Indices: 771387--771428 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
771377 TTGGTTCACG
*
771387 GAATGTAAGATTACCAGTGA
1 GAATGTAAGACTACCAG-GA
771407 GAATGTAAGACTACCA-GA
1 GAATGTAAGACTACCAGGA
771425 GAAT
1 GAAT
771429 AGGATTACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (19 bp):
GAATGTAAGACTACCAGGA
Found at i:772020 original size:14 final size:14
Alignment explanation
Indices: 772001--772027 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
771991 CCACATTCCC
772001 CCATCCAAACTCCT
1 CCATCCAAACTCCT
772015 CCATCCAAACTCC
1 CCATCCAAACTCC
772028 CCCTAAAGGT
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:0.30, C:0.52, G:0.00, T:0.19
Consensus pattern (14 bp):
CCATCCAAACTCCT
Found at i:774380 original size:41 final size:40
Alignment explanation
Indices: 774335--774444 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 40
774325 ATTCACGTTG
* *
774335 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTG-AAATCGCGTTGCGATTTTC
* *
774376 CATTTCGCGTTGCTATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTT-GAAATCGCGTTGCGATTTTC
774417 CATTTCGCGTTGCGATAGTTGAAATCGC
1 CATTTCGCGTTGCGATAGTTGAAATCGC
774445 AACGCGATCT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
40 7 0.11
41 54 0.87
42 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (40 bp):
CATTTCGCGTTGCGATAGTTGAAATCGCGTTGCGATTTTC
Found at i:774431 original size:20 final size:20
Alignment explanation
Indices: 774360--774432 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
774350 TAGTTGAAAA
*
774360 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
774380 TCGCGTTGCTATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
774401 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
774421 TCGCGTTGCGAT
1 TCGCGTTGCGAT
774433 AGTTGAAATC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:774444 original size:20 final size:21
Alignment explanation
Indices: 774339--774444 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 21
774329 ACGTTGCATT
*
774339 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
774360 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* * *
774380 TCGCGTTGCTATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
774401 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
774421 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
774441 TCGC
1 TCGC
774445 AACGCGATCT
Statistics
Matches: 59, Mismatches: 23, Indels: 7
0.66 0.26 0.08
Matches are distributed among these distances:
20 33 0.56
21 26 0.44
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:774527 original size:20 final size:20
Alignment explanation
Indices: 774502--774573 Score: 144
Period size: 20 Copynumber: 3.6 Consensus size: 20
774492 TAGTTGAAAA
774502 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
774522 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
774542 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
774562 TCGCGTTGCGAT
1 TCGCGTTGCGAT
774574 AGTTGAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:774584 original size:142 final size:142
Alignment explanation
Indices: 774306--774586 Score: 440
Period size: 142 Copynumber: 2.0 Consensus size: 142
774296 AATTCGCATT
*
774306 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
1 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGA
* **
774371 TTTTCCATTTCGCGTTGCTATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
66 TTTTCCATTTCGCGTTGCGATAGTTCCAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
774436 TGAAATCGCAAC
131 TGAAATCGCAAC
** *
774448 GCGATCTCCA-TCATCGCAAATTCGTGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG
1 GCGATCTCCACT-ATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCG
* **
774512 ATTTTCCATTTCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAG
65 ATTTTCCATTTCGCGTTGCGATAGTTCCAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAG
774576 TTGAAAATCGC
130 TTG-AAATCGC
774587 GTTGCGCGTT
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 41 0.32
142 86 0.68
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (142 bp):
GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGA
TTTTCCATTTCGCGTTGCGATAGTTCCAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
TGAAATCGCAAC
Found at i:774615 original size:21 final size:21
Alignment explanation
Indices: 774591--774663 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
774581 AATCGCGTTG
774591 CGCGTTGCGATAGTCTACAGT
1 CGCGTTGCGATAGTCTACAGT
** * *
774612 CGCGTTGCGATTTTCCA-AAT
1 CGCGTTGCGATAGTCTACAGT
*
774632 -TCGTTGCGATAGTCTACAGT
1 CGCGTTGCGATAGTCTACAGT
*
774652 TGTCGTTGCGAT
1 CG-CGTTGCGAT
774664 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 12 0.31
20 4 0.10
21 14 0.36
22 9 0.23
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (21 bp):
CGCGTTGCGATAGTCTACAGT
Found at i:774638 original size:19 final size:19
Alignment explanation
Indices: 774614--774678 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
774604 TCTACAGTCG
774614 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
* * **
774633 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT--TTTCCAAAT-T
774655 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
774674 CGTTG
1 CGTTG
774679 TGATAGTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 15 0.43
20 5 0.14
21 5 0.14
22 10 0.29
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:774648 original size:40 final size:41
Alignment explanation
Indices: 774593--774685 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
774583 TCGCGTTGCG
774593 CGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTCGTCGTTGCGATTTTCCAAATT
*
774633 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTCGTCGTTGCGATTTTCCAAATT
*
774674 CGTTGTGATAGT
1 CGTTGCGATAGT
774686 TAAAAAAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 20 0.40
41 30 0.60
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTCGTCGTTGCGATTTTCCAAATT
Found at i:774773 original size:6 final size:6
Alignment explanation
Indices: 774762--774817 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
774752 GACACGTATT
774762 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
774810 ACCACG AC
1 ACCACG AC
774818 GGCGGCGGCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:775298 original size:5 final size:5
Alignment explanation
Indices: 775284--775324 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
775274 CCGCCGCCGC
775284 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
775325 GGTCGGGTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.37
Consensus pattern (5 bp):
CGTCT
Found at i:775565 original size:5 final size:5
Alignment explanation
Indices: 775557--775597 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
775547 CGACCCGACC
775557 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
775598 GCGGCGGCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.37, C:0.22, G:0.41, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:776080 original size:6 final size:6
Alignment explanation
Indices: 776071--776113 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
776061 GCCGTCCGTC
776071 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
776114 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:776220 original size:19 final size:19
Alignment explanation
Indices: 776196--776261 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
776186 TTAACTATCA
776196 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
776215 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
776237 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
776256 CAACGA
1 CAACGA
776262 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:776235 original size:41 final size:41
Alignment explanation
Indices: 776189--776282 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
776179 TCTTTTTTTA
*
776189 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
776230 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
776271 ACTATCGCAACG
1 ACTATCGCAACG
776283 CGAAACGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:776238 original size:22 final size:22
Alignment explanation
Indices: 776211--776282 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
776201 AATTTGGAAA
776211 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
776233 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
776252 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
776274 ATCGCAACG
1 ATCGCAACG
776283 CGAAACGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:776299 original size:20 final size:20
Alignment explanation
Indices: 776274--776408 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
776264 ACTGTAGACT
*
776274 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAATGGAAA
776294 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
776314 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
776335 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
776355 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
776376 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
776396 ATCGCAACGCGAA
1 ATCGCAACGCGAA
776409 TTTGCGATAG
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
20 62 0.67
21 30 0.33
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:776302 original size:61 final size:59
Alignment explanation
Indices: 776233--776363 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 59
776223 ACTGTAGACT
*
776233 ATCGCAACGAATTTGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAACGGAAA
1 ATCGCAACGAA-ATGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAACGGAAA
* * * *
776294 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
776355 ATCGCAACG
1 ATCGCAACG
776364 CGATTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
61 40 0.65
62 16 0.26
63 4 0.06
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (59 bp):
ATCGCAACGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
Found at i:776340 original size:21 final size:21
Alignment explanation
Indices: 776314--776387 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
776304 GAAATGGAAA
776314 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
776335 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
776355 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
776376 ATCGCAACGCGA
1 ATCGCAACGCGA
776388 AATGGAAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:776346 original size:41 final size:41
Alignment explanation
Indices: 776294--776407 Score: 228
Period size: 41 Copynumber: 2.8 Consensus size: 41
776284 GAAACGGAAA
776294 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
776335 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
776376 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
776408 ATTTGCGATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:776400 original size:61 final size:61
Alignment explanation
Indices: 776274--776408 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
776264 ACTGTAGACT
* ** * *
776274 ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
* ** * * *
776335 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGCAA-AATCGCAACGCGAAATGCAACA
776396 ATCGCAACGCGAA
1 ATCGCAACGCGAA
776409 TTTGCGATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 47 0.76
62 15 0.24
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (61 bp):
ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
Found at i:777359 original size:15 final size:16
Alignment explanation
Indices: 777330--777362 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
777320 AATTCCAAGA
777330 AAATATATTAATTTTAT
1 AAATATATT-ATTTTAT
777347 AAATATATT-TTTTAT
1 AAATATATTATTTTAT
777362 A
1 A
777363 TTTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATATTATTTTAT
Found at i:777504 original size:16 final size:17
Alignment explanation
Indices: 777483--777516 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
777473 CATTTCTCAA
777483 AAAATAAATTAA-ATAT
1 AAAATAAATTAATATAT
777499 AAAATAAATTAATATAT
1 AAAATAAATTAATATAT
777516 A
1 A
777517 TTTATAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAAATTAATATAT
Found at i:777715 original size:147 final size:146
Alignment explanation
Indices: 777359--777765 Score: 443
Period size: 147 Copynumber: 2.7 Consensus size: 146
777349 ATATATTTTT
* ** * **
777359 TATAT-TTTTTTATAAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCT
1 TATATATTTTTTATAAATATGATATTTATTTTTTTA-AAATATCAGAAAATGACATCTAGTTATT
* *
777423 TTAAGACAACCCCTTT-TTAATATTAAAAAAATAAATAAATATTAATAAAACATTTCTCAAAAAA
65 TTAAGACTA-CCCTTTCTTAATATT-AAAAAATAAATAAATATT-ATAAAACATATCTCAAAAAA
*
777487 TAAATTAAATATAAAATAAA
127 TAAATAAAATATAAAATAAA
* * * *
777507 T-TAATATATATTTATAAAAGTATGATATTTATTTATTTAAAAATATCAGAAAAGGAAATCTAGT
1 TAT-ATAT-TTTTTAT-AAA-TATGATATTTATTT-TTTTAAAATATCAGAAAATGACATCTAGT
*
777571 TATTTTAAGACTACCCTTTCTTAATATTAAAAAATAAATAAATATTA-AAAATATGAT-T-AAAA
61 TATTTTAAGACTACCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACAT-ATCTCAAAA
777633 TAATTAACATAAAAT-TAAAATAAA
125 -AA-TAA-ATAAAATATAAAATAAA
* *
777657 TATATATTTTTTATAAACATGATATTTATTATTTTTAAAATA-CAAGAATATGACATCTAGTTAT
1 TATATATTTTTTATAAATATGATATTTATT-TTTTTAAAATATC-AGAAAATGACATCTAGTTAT
* * * *
777721 TTTAGGACTGCTCTTTCTTAATATTTAAAAATAAATAAATATTAT
64 TTTAAGACTACCCTTTCTTAATATTAAAAAATAAATAAATATTAT
777766 TATTGAATCA
Statistics
Matches: 220, Mismatches: 24, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
146 1 0.00
147 79 0.36
148 11 0.05
149 16 0.07
150 25 0.11
151 34 0.15
152 52 0.24
153 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (146 bp):
TATATATTTTTTATAAATATGATATTTATTTTTTTAAAATATCAGAAAATGACATCTAGTTATTT
TAAGACTACCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACATATCTCAAAAAATAAA
TAAAATATAAAATAAA
Found at i:777778 original size:22 final size:24
Alignment explanation
Indices: 777753--777807 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
777743 ATTTAAAAAT
*
777753 AAATAAATATTA-TTAT-TGAATC
1 AAATAAATATTATTTATATGAATA
*
777775 AAATATATA-TATTTATATGAATA
1 AAATAAATATTATTTATATGAATA
777798 AAAT-AATATT
1 AAATAAATATT
777808 TAATAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.07
22 15 0.56
23 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATAAATATTATTTATATGAATA
Found at i:777801 original size:23 final size:21
Alignment explanation
Indices: 777765--777806 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
777755 ATAAATATTA
*
777765 TTATTGAATCAAATATATATAT
1 TTATTGAATAAAATA-ATATAT
777787 TTATATGAATAAAATAATAT
1 TTAT-TGAATAAAATAATAT
777807 TTAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
TTATTGAATAAAATAATATAT
Found at i:779167 original size:3 final size:3
Alignment explanation
Indices: 779159--779188 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
779149 ATTTATTTAT
779159 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
779189 TTTAAAAATA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:779466 original size:5 final size:5
Alignment explanation
Indices: 779458--779488 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
779448 CGACCCGACC
779458 CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
779489 GCGGCGGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.35, C:0.23, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:779971 original size:6 final size:6
Alignment explanation
Indices: 779962--780016 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
779952 GCCGTCCGTC
779962 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
780010 TCGTGG T
1 TCGTGG T
780017 AATACGTGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:780124 original size:19 final size:19
Alignment explanation
Indices: 780100--780165 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
780090 TTAACTATCA
780100 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
780119 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
780141 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
780160 CAACGA
1 CAACGA
780166 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:780142 original size:22 final size:22
Alignment explanation
Indices: 780115--780186 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
780105 AATTTGGAAA
780115 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
780137 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
780156 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
780178 ATCGCAACG
1 ATCGCAACG
780187 CGAAACGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:780150 original size:41 final size:41
Alignment explanation
Indices: 780093--780186 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
780083 CTTTTTTTTA
*
780093 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
780134 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
780175 ACTATCGCAACG
1 ACTATCGCAACG
780187 CGAAACGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:780203 original size:20 final size:20
Alignment explanation
Indices: 780178--780312 Score: 146
Period size: 20 Copynumber: 6.7 Consensus size: 20
780168 ACTGTAGACT
*
780178 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAATGGAAA
780198 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
780218 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
780239 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
780259 ATCGCAACGCG-ATTTTAAA
1 ATCGCAACGCGAAATGGAAA
*
780278 CTATCGCAACACGAAATGGAAA
1 --ATCGCAACGCGAAATGGAAA
780300 ATCGCAACGCGAA
1 ATCGCAACGCGAA
780313 TTTGCGATAG
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
19 5 0.05
20 57 0.62
21 25 0.27
22 5 0.05
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:780206 original size:61 final size:59
Alignment explanation
Indices: 780137--780267 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 59
780127 ACTGTAGACT
*
780137 ATCGCAACGAATTTGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAACGGAAA
1 ATCGCAACGAA-ATGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAACGGAAA
* * * *
780198 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
780259 ATCGCAACG
1 ATCGCAACG
780268 CGATTTTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
61 40 0.65
62 16 0.26
63 4 0.06
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (59 bp):
ATCGCAACGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
Found at i:780244 original size:21 final size:21
Alignment explanation
Indices: 780218--780287 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
780208 GAAATGGAAA
*
780218 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTAAACT
* **
780239 ATCGCAACGCGAAATGGAAA--
1 ATCGCAACGCG-ATTTTAAACT
780259 ATCGCAACGCGATTTTAAACT
1 ATCGCAACGCGATTTTAAACT
780280 ATCGCAAC
1 ATCGCAAC
780288 ACGAAATGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 5 0.13
20 11 0.28
21 19 0.49
22 4 0.10
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTAAACT
Found at i:780250 original size:41 final size:41
Alignment explanation
Indices: 780198--780311 Score: 210
Period size: 41 Copynumber: 2.8 Consensus size: 41
780188 GAAACGGAAA
*
780198 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
780239 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
*
780280 ATCGCAACACGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
780312 ATTTGCGATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
Found at i:780304 original size:61 final size:61
Alignment explanation
Indices: 780150--780312 Score: 152
Period size: 61 Copynumber: 2.7 Consensus size: 61
780140 GCAACGAATT
* * *
780150 TGGAAAATCGCAACGAC-AACTGTAGACTATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAAC-ACGAAATGCA-ACAATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
* ** * * * *
780212 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCG-AT
1 TGGAAAATCGCAACACGAAATGCAACAATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
** *
780272 TTTAAACTATCGCAACACGAAATGGAA-AATCGCAACGCGAA
1 TGGAAA--ATCGCAACACGAAATGCAACAATCGCAACGCGAA
780313 TTTGCGATAG
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
60 5 0.06
61 47 0.57
62 31 0.37
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.15
Consensus pattern (61 bp):
TGGAAAATCGCAACACGAAATGCAACAATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
Found at i:781268 original size:17 final size:18
Alignment explanation
Indices: 781235--781270 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
781225 AATTCCAAGA
781235 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
781253 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
781270 A
1 A
781271 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:781588 original size:145 final size:147
Alignment explanation
Indices: 781266--781673 Score: 429
Period size: 145 Copynumber: 2.7 Consensus size: 147
781256 TATATATTTT
* * * * **
781266 TTATATTTTTTTATAAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCT
1 TTATA-TTTTTTATAAATATGATATTTATTTATTTAAAAATATCAGAAAATGACATCTAGTTATT
** * *
781331 TTAAGACAACCCCTTTTTTAATATTAAAAAAATAAATAAATATTAATAAAACATTTCTCAAAAAA
65 TTAAGAC-TGCCCTTTCTTAATATT-AAAAAATAAATAAATATT-ATAAAACATATCTCAAAAAA
781396 TAAATTAAAAAATAAAATAAA
127 TAAATTAAAAAATAAAATAAA
* * *
781417 TTAATATATAATTTATAAAAGTATGATATTTATTTATTTAAAAATATCAGAAAAGGAAATCTAGT
1 TT-ATAT-T-TTTTAT-AAA-TATGATATTTATTTATTTAAAAATATCAGAAAATGACATCTAGT
*
781482 TATTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTA-AAAATATGAT-T-AAAA
61 TATTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACAT-ATCTCAAAA
*
781544 TAATTAACA-T-AAAATTAAAATAAA
125 -AA-TAA-ATTAAAAAATAAAATAAA
* * *
781568 -TATATTTTTTATAAACATGATATTTA-TTATTTTTAAAATA-CAAGAATATGACATCTAGTTAT
1 TTATATTTTTTATAAATATGATATTTATTTA-TTTAAAAATATC-AGAAAATGACATCTAGTTAT
* * *
781630 TTTAGGACTGCTCTTTCTTAATATT-TAAAATAAATAAATATTAT
64 TTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTAT
781674 TATTGAATCA
Statistics
Matches: 221, Mismatches: 24, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
144 21 0.10
145 59 0.27
146 3 0.01
147 5 0.02
148 1 0.00
149 4 0.02
150 5 0.02
151 25 0.11
152 10 0.05
153 24 0.11
154 17 0.08
155 47 0.21
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (147 bp):
TTATATTTTTTATAAATATGATATTTATTTATTTAAAAATATCAGAAAATGACATCTAGTTATTT
TAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACATATCTCAAAAAATAAA
TTAAAAAATAAAATAAA
Found at i:781690 original size:20 final size:23
Alignment explanation
Indices: 781661--781713 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
781651 TATTTAAAAT
*
781661 AAATAAATATTA-TTAT-TGAATC
1 AAAT-AATATTATTTATATGAATA
781683 AAAT-ATA-TATTTATATGAATA
1 AAATAATATTATTTATATGAATA
781704 AAATAATATT
1 AAATAATATT
781714 TAATAATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 7 0.27
21 9 0.35
22 7 0.27
23 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATAATATTATTTATATGAATA
Found at i:781714 original size:20 final size:20
Alignment explanation
Indices: 781665--781715 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
781655 TAAAATAAAT
*
781665 AAATAT-TA-TTATTGAATC
1 AAATATATATTTATTGAATA
781683 AAATATATATTTATATGAATA
1 AAATATATATTTAT-TGAATA
781704 AAATA-ATATTTA
1 AAATATATATTTA
781716 ATAATTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 2 0.07
20 11 0.38
21 10 0.34
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
AAATATATATTTATTGAATA
Found at i:783074 original size:3 final size:3
Alignment explanation
Indices: 783066--783100 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
783056 ATTTATTTAT
783066 TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
783101 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:783378 original size:5 final size:5
Alignment explanation
Indices: 783370--783400 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
783360 CGACCCGACC
783370 CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
783401 GCGGCGGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.35, C:0.23, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:783878 original size:6 final size:6
Alignment explanation
Indices: 783869--783911 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
783859 CGCCGCCGTC
783869 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
783912 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:784017 original size:19 final size:19
Alignment explanation
Indices: 783993--784058 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
783983 TTAACTATCA
783993 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
784012 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
784034 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
784053 CAACGA
1 CAACGA
784059 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:784032 original size:41 final size:41
Alignment explanation
Indices: 783986--784079 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
783976 ATCTTTTTTA
*
783986 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
784027 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
784068 ACTATCGCAACG
1 ACTATCGCAACG
784080 CGAAACGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:784035 original size:22 final size:22
Alignment explanation
Indices: 784008--784079 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
783998 AATTTGGAAA
784008 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
784030 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
784049 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
784071 ATCGCAACG
1 ATCGCAACG
784080 CGAAACGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:784096 original size:20 final size:20
Alignment explanation
Indices: 784071--784205 Score: 155
Period size: 20 Copynumber: 6.7 Consensus size: 20
784061 ACTGTAGACT
*
784071 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAATGGAAA
784091 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
784111 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
784132 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
784152 ATCGCAACGCG-ATTTTAAA
1 ATCGCAACGCGAAATGGAAA
784171 CTATCGCAACGCGAAATGGAAA
1 --ATCGCAACGCGAAATGGAAA
784193 ATCGCAACGCGAA
1 ATCGCAACGCGAA
784206 TTTGCGATAG
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.05
20 58 0.62
21 26 0.28
22 5 0.05
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:784099 original size:61 final size:59
Alignment explanation
Indices: 784030--784160 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 59
784020 ACTGTAGACT
*
784030 ATCGCAACGAATTTGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAACGGAAA
1 ATCGCAACGAA-ATGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAACGGAAA
* * * *
784091 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
784152 ATCGCAACG
1 ATCGCAACG
784161 CGATTTTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
61 40 0.65
62 16 0.26
63 4 0.06
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (59 bp):
ATCGCAACGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
Found at i:784137 original size:21 final size:21
Alignment explanation
Indices: 784111--784184 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
784101 GAAATGGAAA
*
784111 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTAAACT
* **
784132 ATCGCAACGCGAAATGGAAA--
1 ATCGCAACGCG-ATTTTAAACT
784152 ATCGCAACGCGATTTTAAACT
1 ATCGCAACGCGATTTTAAACT
784173 ATCGCAACGCGA
1 ATCGCAACGCGA
784185 AATGGAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 5 0.12
20 11 0.26
21 23 0.53
22 4 0.09
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTAAACT
Found at i:784143 original size:41 final size:41
Alignment explanation
Indices: 784091--784204 Score: 219
Period size: 41 Copynumber: 2.8 Consensus size: 41
784081 GAAACGGAAA
*
784091 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
784132 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
784173 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
784205 ATTTGCGATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTAAACT
Found at i:784197 original size:61 final size:61
Alignment explanation
Indices: 784043--784205 Score: 161
Period size: 61 Copynumber: 2.7 Consensus size: 61
784033 GCAACGAATT
* * *
784043 TGGAAAATCGCAACGAC-AACTGTAGACTATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGAAATGCA-ACAATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
** * * * *
784105 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCG-AT
1 TGGAAAATCGCAACGCGAAATGCAACAATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
** *
784165 TTTAAACTATCGCAACGCGAAATGGAA-AATCGCAACGCGAA
1 TGGAAA--ATCGCAACGCGAAATGCAACAATCGCAACGCGAA
784206 TTTGCGATAG
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
60 5 0.06
61 47 0.55
62 33 0.39
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.15
Consensus pattern (61 bp):
TGGAAAATCGCAACGCGAAATGCAACAATCGCAACGCGAAACGGAAAATCGCAACGCGAAA
Found at i:785160 original size:17 final size:18
Alignment explanation
Indices: 785127--785162 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
785117 AATTCCAAGA
785127 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
785145 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
785162 A
1 A
785163 TTTTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:785520 original size:147 final size:146
Alignment explanation
Indices: 785159--785562 Score: 439
Period size: 147 Copynumber: 2.7 Consensus size: 146
785149 ATATATTTTT
** * **
785159 TATATTTTTTATAAAA-GATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCTTTA
1 TATATTTTTTATAAAATGATATTTATTTTTTTA-AAATATCAGAAAATGACATCTAGTTATTTTA
** *
785223 AGACAACCCCTTT-TTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCAAAAATAAAT
65 AGAC-TGCCCTTTCTTAATATTAAAAAATAAATAAATATT-ATAAAACATATCT-AAAAATAAAT
785287 TAAAAAATAAAATAAATTAA
127 TAAAAAATAAAATAAATTAA
** * * *
785307 TATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCAGAAAAGGAAATCTAGTTATT
1 TATATTTTTTATAAAA-T--GATATTTATTT-TTTTAAAATATCAGAAAATGACATCTAGTTATT
*
785372 TTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTA-AAAATATGAT-T-AAAAT-AA
62 TTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACAT-ATCTAAAAATAAA
785433 TTAACATAAAATTAAAATAAA-T-A
126 TT-A-A-AAAA-TAAAATAAATTAA
*
785456 TATATTTTTTATAAACATGATATTTATTATTTTTAAAATA-CAAGAATATGACATCTAGTTATTT
1 TATATTTTTTATAAA-ATGATATTTATT-TTTTTAAAATATC-AGAAAATGACATCTAGTTATTT
* * *
785520 TAGGACTGCTCTTTCTTAATATTTAAAAATAAATAAATATTAT
63 TAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTAT
785563 TATTGAATCA
Statistics
Matches: 218, Mismatches: 23, Indels: 30
0.80 0.08 0.11
Matches are distributed among these distances:
146 1 0.00
147 81 0.37
148 21 0.10
149 16 0.07
150 13 0.06
151 17 0.08
152 67 0.31
153 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (146 bp):
TATATTTTTTATAAAATGATATTTATTTTTTTAAAATATCAGAAAATGACATCTAGTTATTTTAA
GACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACATATCTAAAAATAAATTAAA
AAATAAAATAAATTAA
Found at i:785575 original size:22 final size:24
Alignment explanation
Indices: 785550--785604 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
785540 ATTTAAAAAT
*
785550 AAATAAATATTA-TTAT-TGAATC
1 AAATAAATATTATTTATATGAATA
*
785572 AAATATATA-TATTTATATGAATA
1 AAATAAATATTATTTATATGAATA
785595 AAAT-AATATT
1 AAATAAATATT
785605 TAATAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.07
22 15 0.56
23 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATAAATATTATTTATATGAATA
Found at i:785598 original size:23 final size:21
Alignment explanation
Indices: 785562--785603 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
785552 ATAAATATTA
*
785562 TTATTGAATCAAATATATATAT
1 TTATTGAATAAAATA-ATATAT
785584 TTATATGAATAAAATAATAT
1 TTAT-TGAATAAAATAATAT
785604 TTAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
TTATTGAATAAAATAATATAT
Found at i:786964 original size:3 final size:3
Alignment explanation
Indices: 786956--786987 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
786946 ATTTATTTAT
786956 TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
786988 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:787266 original size:5 final size:5
Alignment explanation
Indices: 787258--787293 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
787248 CGACCCGACC
787258 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
787294 GCGGCGGCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.36, C:0.22, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:787773 original size:6 final size:6
Alignment explanation
Indices: 787764--787794 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
787754 GCCGTCCGTC
787764 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
787795 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:787902 original size:19 final size:19
Alignment explanation
Indices: 787878--787943 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
787868 TTAACTATCA
787878 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
787897 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
*
787919 CAACAAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
787938 CAACGA
1 CAACGA
787944 CAACTGTAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 18 0.53
20 2 0.06
21 2 0.06
22 12 0.35
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:787920 original size:22 final size:22
Alignment explanation
Indices: 787893--787964 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
787883 AATTTGGAAA
787893 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
787915 ATCGCAAC-A-AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
787934 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
787956 ATCGCAACG
1 ATCGCAACG
787965 CGAAACGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 12 0.31
20 3 0.08
21 3 0.08
22 21 0.54
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:787928 original size:41 final size:41
Alignment explanation
Indices: 787871--787963 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
787861 CTTTTTTTTA
* *
787871 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
787912 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
787953 ACTATCGCAAC
1 ACTATCGCAAC
787964 GCGAAACGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:787981 original size:20 final size:20
Alignment explanation
Indices: 787956--788090 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
787946 ACTGTAGACT
*
787956 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAATGGAAA
787976 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
787996 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
788017 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
788037 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
788058 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
788078 ATCGCAACGCGAA
1 ATCGCAACGCGAA
788091 TTTGCGATAG
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
20 62 0.67
21 30 0.33
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:788022 original size:21 final size:21
Alignment explanation
Indices: 787996--788069 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
787986 GAAATGGAAA
787996 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
788017 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
788037 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
788058 ATCGCAACGCGA
1 ATCGCAACGCGA
788070 AATGGAAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:788028 original size:41 final size:41
Alignment explanation
Indices: 787976--788089 Score: 228
Period size: 41 Copynumber: 2.8 Consensus size: 41
787966 GAAACGGAAA
787976 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
788017 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
788058 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
788090 ATTTGCGATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:788082 original size:61 final size:61
Alignment explanation
Indices: 787956--788090 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
787946 ACTGTAGACT
* ** * *
787956 ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
* ** * * *
788017 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGCAA-AATCGCAACGCGAAATGCAACA
788078 ATCGCAACGCGAA
1 ATCGCAACGCGAA
788091 TTTGCGATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 47 0.76
62 15 0.24
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (61 bp):
ATCGCAACGCGAAACGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
Found at i:789048 original size:17 final size:18
Alignment explanation
Indices: 789015--789050 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
789005 AATTCCAAGA
789015 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
789033 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
789050 A
1 A
789051 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:789410 original size:147 final size:147
Alignment explanation
Indices: 789046--789455 Score: 431
Period size: 147 Copynumber: 2.7 Consensus size: 147
789036 TATATATTTT
* ** * **
789046 TTATAT-TTTTTTATAAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGC
1 TTATATATTTTTTATAAA-ATGATATTTATTTTTTTA-AAATATCAGAAAATGACATCTAGTTAT
** * *
789110 TTTAAGACAACCCTTTTTTAATATTAAAAAAATAAATAAATATTAATAAAACATTTCTCAAAAAA
64 TTTAAGACTGCCCTTTCTTAATATT-AAAAAATAAATAAATATT-ATAAAACATATCTCAAAAAA
789175 TAAATTAAAAAATAAAATAAA
127 TAAATTAAAAAATAAAATAAA
** * * *
789196 TTAATATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCAGAAAAGGAAATCTAGT
1 TT-ATATATTTTTTATAAAA-T--GATATTTATTT-TTTTAAAATATCAGAAAATGACATCTAGT
*
789261 TATTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTA-AAAATATGAT-T-AAAA
61 TATTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACAT-ATCTCAAAA
*
789323 TAATTAACA-T-AAAATTAAAATAAA
125 -AA-TAA-ATTAAAAAATAAAATAAA
*
789347 -TATATATTTTTTATAAACATGATATTTATTATTTTTAAAATA-CAAGAATATGACATCTAGTTA
1 TTATATATTTTTTATAAA-ATGATATTTATT-TTTTTAAAATATC-AGAAAATGACATCTAGTTA
* * *
789410 TTTTAGGACTGCTCTTTCTTAATATTTAAAAATAAATAAATATTAT
63 TTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTAT
789456 TATTGAATAC
Statistics
Matches: 220, Mismatches: 26, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
146 1 0.00
147 77 0.35
148 1 0.00
149 15 0.07
150 8 0.04
151 27 0.12
152 15 0.07
153 19 0.09
154 55 0.25
155 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (147 bp):
TTATATATTTTTTATAAAATGATATTTATTTTTTTAAAATATCAGAAAATGACATCTAGTTATTT
TAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACATATCTCAAAAAATAAA
TTAAAAAATAAAATAAA
Found at i:789474 original size:22 final size:22
Alignment explanation
Indices: 789440--789497 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
789430 AATATTTAAA
789440 AATAAATAAATATTA-TTAT-TG
1 AATAAAT-AATATTATTTATATG
789461 AATACAAT-ATATATATTTATATG
1 AATA-AATAATAT-TATTTATATG
789484 AATAAAATAATATT
1 AAT-AAATAATATT
789498 TAATAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.13
21 6 0.19
22 7 0.23
23 9 0.29
24 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (22 bp):
AATAAATAATATTATTTATATG
Found at i:789496 original size:24 final size:23
Alignment explanation
Indices: 789443--789496 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
789433 ATTTAAAAAT
789443 AAATAA-ATATTATTATTGAATA
1 AAATAATATATTATTATTGAATA
*
789465 CAAT-ATATA-TATTTATATGAATA
1 AAATAATATATTA-TTAT-TGAATA
789488 AAATAATAT
1 AAATAATAT
789497 TTAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 10 0.38
23 9 0.35
24 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
AAATAATATATTATTATTGAATA
Found at i:789844 original size:17 final size:18
Alignment explanation
Indices: 789822--789855 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
789812 GGCAAGGATT
789822 AAATTACAA-ATAAAATA
1 AAATTACAAGATAAAATA
*
789839 AAATTAGAAGATAAAAT
1 AAATTACAAGATAAAAT
789856 TAATATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (18 bp):
AAATTACAAGATAAAATA
Found at i:790855 original size:3 final size:3
Alignment explanation
Indices: 790847--790878 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
790837 ATTTATTTAT
790847 TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
790879 TTAAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:790871 original size:11 final size:11
Alignment explanation
Indices: 790847--790888 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
790837 ATTTATTTAT
790847 TAATAATAATA
1 TAATAATAATA
790858 TAAT-ATAATAA
1 TAATAATAAT-A
*
790869 TAATAATAATT
1 TAATAATAATA
*
790880 TAAAAATAA
1 TAATAATAA
790889 AATGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 5 0.19
11 17 0.63
12 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAATAATA
Found at i:791151 original size:5 final size:5
Alignment explanation
Indices: 791143--791178 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
791133 CATCCCGACC
791143 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
791179 GCGGCGGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.36, C:0.22, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:791661 original size:6 final size:6
Alignment explanation
Indices: 791652--791682 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
791642 GCCGTCCGTC
791652 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
791683 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:791791 original size:19 final size:19
Alignment explanation
Indices: 791767--791832 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
791757 TTAACTATCA
791767 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
791786 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
791808 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
791827 CAACGA
1 CAACGA
791833 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:791809 original size:22 final size:22
Alignment explanation
Indices: 791782--791853 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
791772 AATTTGGAAA
791782 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
791804 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
791823 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
791845 ATCGCAACG
1 ATCGCAACG
791854 CGAAACGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:791817 original size:41 final size:41
Alignment explanation
Indices: 791760--791853 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
791750 TTTTTTTTTA
*
791760 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
791801 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
791842 ACTATCGCAACG
1 ACTATCGCAACG
791854 CGAAACGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:791870 original size:20 final size:20
Alignment explanation
Indices: 791845--791979 Score: 144
Period size: 20 Copynumber: 6.7 Consensus size: 20
791835 ACTGTAGACT
*
791845 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAATGGAAA
791865 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
791885 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
791906 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
791926 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
791947 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
791967 ATCGCAACGCGAA
1 ATCGCAACGCGAA
791980 TTTGCGATAG
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
20 61 0.68
21 29 0.32
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:791873 original size:61 final size:59
Alignment explanation
Indices: 791804--791934 Score: 156
Period size: 61 Copynumber: 2.2 Consensus size: 59
791794 ACTGTAGACT
*
791804 ATCGCAACGAATTTGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAACGGAAA
1 ATCGCAACGAA-ATGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAACGGAAA
* * * *
791865 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
*
791926 ATCGTAACG
1 ATCGCAACG
791935 CGATTTTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
59 2 0.03
61 39 0.64
62 16 0.26
63 4 0.07
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (59 bp):
ATCGCAACGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
Found at i:791911 original size:21 final size:21
Alignment explanation
Indices: 791885--791958 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
791875 GAAATGGAAA
791885 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
791906 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
791926 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
791947 ATCGCAACGCGA
1 ATCGCAACGCGA
791959 AATGGAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:791917 original size:41 final size:41
Alignment explanation
Indices: 791865--791978 Score: 219
Period size: 41 Copynumber: 2.8 Consensus size: 41
791855 GAAACGGAAA
791865 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
791906 ATCGCAACGCGAAATGGAAAATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
791947 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
791979 ATTTGCGATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:792935 original size:17 final size:18
Alignment explanation
Indices: 792902--792937 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
792892 AATTCCAAGA
792902 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
792920 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
792937 A
1 A
792938 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:793293 original size:147 final size:147
Alignment explanation
Indices: 792933--793343 Score: 424
Period size: 147 Copynumber: 2.7 Consensus size: 147
792923 TATATATTTT
* ** * **
792933 TTATAT-TTTTTTATAAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGC
1 TTATATATTTTTTATAAA-ATGATATTTATTTTTTTA-AAATATCAGAAAATGACATCTAGTTAT
** * *
792997 TTTAAGACAACCCCTTTTTTAATATTAAAAAAATAAATAAATATTAATAAAACATTTCTCAAAAA
64 TTTAAGAC-TGCCCTTTCTTAATATT-AAAAAATAAATAAATATT-ATAAAACATATCTCAAAAA
793062 ATAAATTAAAAAATAAAATAAA
126 ATAAATTAAAAAATAAAATAAA
** * * *
793084 TTAATATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCAGAAAAGGAAATCTAGT
1 TT-ATATATTTTTTATAAAA-T--GATATTTATTT-TTTTAAAATATCAGAAAATGACATCTAGT
*
793149 TATTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTA-AAAATATGAT-T-AAAA
61 TATTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACAT-ATCTCAAAA
*
793211 TAATTAACA-T-AAAATTAAAATAAA
125 -AA-TAA-ATTAAAAAATAAAATAAA
*
793235 -TATATATTTTTTATAAACATGATATTTATTATTTTTAAAATA-CAAGAATATGACATCTAGTTA
1 TTATATATTTTTTATAAA-ATGATATTTATT-TTTTTAAAATATC-AGAAAATGACATCTAGTTA
* * *
793298 TTTTAGGACTGCTCTTTCTTAATATTTAAAAATAAATAAATATTAT
63 TTTTAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTAT
793344 TATTGAATCA
Statistics
Matches: 220, Mismatches: 26, Indels: 31
0.79 0.09 0.11
Matches are distributed among these distances:
146 1 0.00
147 77 0.35
148 1 0.00
149 15 0.07
150 6 0.03
151 24 0.11
152 11 0.05
153 28 0.13
154 14 0.06
155 41 0.19
156 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (147 bp):
TTATATATTTTTTATAAAATGATATTTATTTTTTTAAAATATCAGAAAATGACATCTAGTTATTT
TAAGACTGCCCTTTCTTAATATTAAAAAATAAATAAATATTATAAAACATATCTCAAAAAATAAA
TTAAAAAATAAAATAAA
Found at i:793356 original size:22 final size:24
Alignment explanation
Indices: 793331--793385 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
793321 ATTTAAAAAT
*
793331 AAATAAATATTA-TTAT-TGAATC
1 AAATAAATATTATTTATATGAATA
*
793353 AAATATATA-TATTTATATGAATA
1 AAATAAATATTATTTATATGAATA
793376 AAAT-AATATT
1 AAATAAATATT
793386 TAATAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.07
22 15 0.56
23 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATAAATATTATTTATATGAATA
Done.