Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009638.1 Hibiscus syriacus cultivar Beakdansim tig00117047_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: 894601
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:568745 original size:10 final size:11
Alignment explanation
Indices: 568715--568757 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
568705 TAGATGGTAT
568715 ATTATTTTTCC
1 ATTATTTTTCC
* *
568726 GTTATTTTTTTC
1 ATTA-TTTTTCC
568738 ATTATTTTTCC
1 ATTATTTTTCC
*
568749 TTTATTTTT
1 ATTATTTTT
568758 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (11 bp):
ATTATTTTTCC
Found at i:568745 original size:23 final size:23
Alignment explanation
Indices: 568715--568758 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
568705 TAGATGGTAT
568715 ATTATTTTTCCGTTATTTTTTTC
1 ATTATTTTTCCGTTATTTTTTTC
*
568738 ATTATTTTTCCTTTATTTTTT
1 ATTATTTTTCCGTTATTTTTT
568759 AATTTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTATTTTTCCGTTATTTTTTTC
Found at i:578897 original size:28 final size:28
Alignment explanation
Indices: 578821--578902 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 28
578811 TTATTATTTT
578821 ATATATTTAATATTAA-ATTAATATTTAA
1 ATATATTTAATA-TAATATTAATATTTAA
*
578849 ATATCATTTTAATAAAAATATTAAT-TATTAA
1 ATAT-A-TTTAAT-ATAATATTAATAT-TTAA
578880 A-ATATTTAATATACATA-TAATAT
1 ATATATTTAATATA-ATATTAATAT
578903 AATATTAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
27 6 0.13
28 14 0.31
29 2 0.04
30 11 0.24
31 12 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATATTTAATATAATATTAATATTTAA
Found at i:578915 original size:14 final size:14
Alignment explanation
Indices: 578896--578940 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
578886 TAATATACAT
*
578896 ATAATATAATATTA
1 ATAATATTATATTA
*
578910 ATAATATTATATTT
1 ATAATATTATATTA
*
578924 TTAATATTATATTA
1 ATAATATTATATTA
578938 ATA
1 ATA
578941 TACACTCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATATTATATTA
Found at i:579083 original size:19 final size:19
Alignment explanation
Indices: 579061--579099 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
579051 TCATTTATAT
579061 ATTTAATATTA-ATATAATA
1 ATTTAATATTATAT-TAATA
*
579080 ATTTAGTATTATATTAATA
1 ATTTAATATTATATTAATA
579099 A
1 A
579100 AATACTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTAATATTATATTAATA
Found at i:579411 original size:29 final size:30
Alignment explanation
Indices: 579363--579469 Score: 117
Period size: 30 Copynumber: 3.6 Consensus size: 30
579353 TGAAAAAATG
579363 TAATTCATTTTACATAAAACAATTTTAA-A
1 TAATTCATTTTACATAAAACAATTTTAATA
** *
579392 TAATTCATTTTATGTCAAACAATTTTAATA
1 TAATTCATTTTACATAAAACAATTTTAATA
* * * * * **
579422 TAATTTATTTTACGTAAAAGAGTTTTCAGG
1 TAATTCATTTTACATAAAACAATTTTAATA
579452 TAATTCATTTTACATAAA
1 TAATTCATTTTACATAAA
579470 TTTTTTTTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 25 0.39
30 39 0.61
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (30 bp):
TAATTCATTTTACATAAAACAATTTTAATA
Found at i:579732 original size:32 final size:33
Alignment explanation
Indices: 579659--579738 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 33
579649 ATTTTGTAGT
* *
579659 ATTTTTATATTTAATATATTCAATATCTTAATA
1 ATTTTTATATTTTATATATTCAATATCTAAATA
**
579692 ATTATTTATATTTTATA-ATTTTA-ATCTAAATAA
1 ATT-TTTATATTTTATATATTCAATATCTAAAT-A
579725 ATTTTTAT-TTTTAT
1 ATTTTTATATTTTAT
579739 TTTAAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 6 0.15
32 12 0.29
33 11 0.27
34 12 0.29
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (33 bp):
ATTTTTATATTTTATATATTCAATATCTAAATA
Found at i:579742 original size:28 final size:30
Alignment explanation
Indices: 579695--579752 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
579685 CTTAATAATT
579695 ATTTATATTTTATAATTTT-AATCTAAATAA
1 ATTTATATTTTATAATTTTAAAT-TAAATAA
*
579725 ATTTTTATTTT-T-ATTTTAAATTAAATAA
1 ATTTATATTTTATAATTTTAAATTAAATAA
579753 GTCCTCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 12 0.46
29 4 0.15
30 10 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTATATTTTATAATTTTAAATTAAATAA
Found at i:580809 original size:13 final size:14
Alignment explanation
Indices: 580791--580822 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
580781 AATGATAACA
580791 AATAAAATAAAA-T
1 AATAAAATAAAATT
580804 AAT-AAATAAAATT
1 AATAAAATAAAATT
580817 AATAAA
1 AATAAA
580823 TACGAGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.47
13 7 0.41
14 2 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAAAATAAAATT
Found at i:580810 original size:12 final size:13
Alignment explanation
Indices: 580795--580824 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
580785 ATAACAAATA
580795 AAATAAAA-TAAT
1 AAATAAAATTAAT
580807 AAATAAAATTAAT
1 AAATAAAATTAAT
580820 AAATA
1 AAATA
580825 CGAGCAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATTAAT
Found at i:591494 original size:2 final size:2
Alignment explanation
Indices: 591487--591512 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
591477 CTGATTTTTA
591487 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
591513 TACAATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:593663 original size:15 final size:14
Alignment explanation
Indices: 593643--593672 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
593633 GAATTTAGCA
593643 TTTTTTTTTGTATTT
1 TTTTTTTTTGT-TTT
593658 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
593672 T
1 T
593673 GGACCGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:602638 original size:25 final size:24
Alignment explanation
Indices: 602589--602635 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
602579 ATAAAGAACC
*
602589 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
602613 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
602636 TAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:605229 original size:23 final size:23
Alignment explanation
Indices: 605203--605260 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
605193 CTCATATAAA
*
605203 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
605226 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
605249 TGCACCGTAGTG
1 TGCACCGTAGTG
605261 TCATATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:605442 original size:103 final size:103
Alignment explanation
Indices: 605279--605599 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
605269 TAATGTCCAT
* * *
605279 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
605344 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
605382 AAGGACCACATATCATTCTTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
605447 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
605485 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
605550 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
605588 AAGGACCACATA
1 AAGGACCACATA
605600 GACCCTCGAC
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:607162 original size:21 final size:21
Alignment explanation
Indices: 607138--607182 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
607128 TTTTGTTCGT
* *
607138 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
607159 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
607180 TTG
1 TTG
607183 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:610292 original size:6 final size:6
Alignment explanation
Indices: 610271--610329 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
610261 TATCCTTATG
* * * **
610271 TATACA TATGCA TATACG TATACG TATATG TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610319 TATACA TATAC
1 TATACA TATAC
610330 CAATTATATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (6 bp):
TATACA
Found at i:610417 original size:6 final size:6
Alignment explanation
Indices: 610406--611385 Score: 1797
Period size: 6 Copynumber: 167.0 Consensus size: 6
610396 CAAGTGTTTT
*
610406 TATACA TATACA TAT--A TATATA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610452 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610500 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610548 TATACA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610594 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610642 TATACA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610688 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC-
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610735 -ATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610780 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610828 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610874 TATACA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610920 TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
610966 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611014 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611062 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611110 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611156 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611204 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611252 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611298 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611346 TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA
611386 CACGCACACG
Statistics
Matches: 951, Mismatches: 1, Indels: 44
0.95 0.00 0.04
Matches are distributed among these distances:
4 44 0.05
6 907 0.95
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:610450 original size:145 final size:145
Alignment explanation
Indices: 610198--610474 Score: 428
Period size: 145 Copynumber: 1.9 Consensus size: 145
610188 TTAAACGAAC
* *
610198 AAAAGATAACTATTTGGGCAGGATTTATAATTAGAATTCCTAGTGTCAACTATCAAGTGTTTTTA
1 AAAAGATAACTACTTGGGCAGGATTTATAATTAGAATTCCTAGTGTCAACAATCAAGTGTTTTTA
* * ** * * * **
610263 TCCTTATGTATACATATGCATATACGTATACGTATATGTATACATATACATATACATATACATAT
66 TACATATACATACATATACATATACATATACATATACATATACATATACATATACATATACATAT
610328 ACCAATTATATGAAT
131 ACCAATTATATGAAT
*
610343 AAAAGATTACTACTTGGGCAGGATTTATAATTAGAATTCCTAGTGTCAACAATCAAGTGTTTTTA
1 AAAAGATAACTACTTGGGCAGGATTTATAATTAGAATTCCTAGTGTCAACAATCAAGTGTTTTTA
* *
610408 TACATATACATATATATATATATACATATACATATACATATACATATACATATACATATACATAT
66 TACATATACATACATATACATATACATATACATATACATATACATATACATATACATATACATAT
610473 AC
131 AC
610475 ATATACATAT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
145 118 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (145 bp):
AAAAGATAACTACTTGGGCAGGATTTATAATTAGAATTCCTAGTGTCAACAATCAAGTGTTTTTA
TACATATACATACATATACATATACATATACATATACATATACATATACATATACATATACATAT
ACCAATTATATGAAT
Found at i:611489 original size:6 final size:6
Alignment explanation
Indices: 611384--611486 Score: 152
Period size: 6 Copynumber: 16.8 Consensus size: 6
611374 TATACATATA
611384 CACACG CACACG CACACG CACACG CACACG CACACG CACACG CACACG
1 CACACG CACACG CACACG CACACG CACACG CACACG CACACG CACACG
* * * *
611432 CACACG CACACG CACACACG CACACG CACACA CACACA CACACA CACACA
1 CACACG CACACG --CACACG CACACG CACACG CACACG CACACG CACACG
611482 CACAC
1 CACAC
611487 ACATACACAT
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
6 88 0.94
8 6 0.06
ACGTcount: A:0.38, C:0.50, G:0.12, T:0.00
Consensus pattern (6 bp):
CACACG
Found at i:611494 original size:14 final size:14
Alignment explanation
Indices: 611383--611495 Score: 109
Period size: 14 Copynumber: 8.1 Consensus size: 14
611373 ATATACATAT
* *
611383 ACACACGCACACGC
1 ACACACACACACAC
* *
611397 ACACGCACACGCAC
1 ACACACACACACAC
* *
611411 ACGCACACGCACAC
1 ACACACACACACAC
* * *
611425 GCACACGCACACGC
1 ACACACACACACAC
* *
611439 ACACGCACACACGC
1 ACACACACACACAC
*
611453 ACACGCACACACAC
1 ACACACACACACAC
611467 ACACACACACACAC
1 ACACACACACACAC
*
611481 ACACACACATACAC
1 ACACACACACACAC
611495 A
1 A
611496 TATACAAAAG
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 80 1.00
ACGTcount: A:0.40, C:0.49, G:0.11, T:0.01
Consensus pattern (14 bp):
ACACACACACACAC
Found at i:611500 original size:8 final size:8
Alignment explanation
Indices: 611459--611501 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
611449 ACGCACACGC
*
611459 ACACACAC
1 ACACACAT
*
611467 ACACACAC
1 ACACACAT
*
611475 ACACACAC
1 ACACACAT
611483 ACACACAT
1 ACACACAT
*
611491 ACACATAT
1 ACACACAT
611499 ACA
1 ACA
611502 AAAGATTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.51, C:0.42, G:0.00, T:0.07
Consensus pattern (8 bp):
ACACACAT
Found at i:612929 original size:2 final size:2
Alignment explanation
Indices: 612922--612951 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
612912 CCTACCCTCG
612922 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
612952 TTTTCTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:614544 original size:16 final size:17
Alignment explanation
Indices: 614523--614555 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
614513 AATTAAAAAA
614523 TTATAAC-AAAATTACC
1 TTATAACAAAAATTACC
614539 TTATAACGAAAAATTAC
1 TTATAAC-AAAAATTAC
614556 ACAAACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (17 bp):
TTATAACAAAAATTACC
Found at i:621759 original size:30 final size:29
Alignment explanation
Indices: 621693--621766 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
621683 TTTTCATTTT
*
621693 AGTACCTAAAGTATTTTTTGATCAACATA
1 AGTACCTAAAGTATTTTTTGATCAAAATA
* *
621722 AGCACCTAAAGTTATTTTTTGGTCAAAAT-
1 AGTACCTAAAG-TATTTTTTGATCAAAATA
*
621751 AGATACCTAAACTATT
1 AG-TACCTAAAGTATT
621767 CAATCTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (29 bp):
AGTACCTAAAGTATTTTTTGATCAAAATA
Found at i:621909 original size:30 final size:29
Alignment explanation
Indices: 621850--621952 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
621840 AAAACAACTG
* * * * *
621850 AATACTTTATGTACCTATTTTAACAAAAA
1 AATAATTTAGGTACTTATTTTGACCAAAA
621879 AATAATTTAGGTACTTATTTTGACCAAAA
1 AATAATTTAGGTACTTATTTTGACCAAAA
** *
621908 AATAACTTTAGGTGTTTATGTTGACCAAAA
1 AATAA-TTTAGGTACTTATTTTGACCAAAA
* *
621938 AATACTTTAGATACT
1 AATAATTTAGGTACT
621953 AAAATGAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 36 0.59
30 25 0.41
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
AATAATTTAGGTACTTATTTTGACCAAAA
Found at i:621937 original size:29 final size:30
Alignment explanation
Indices: 621875--621952 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
621865 TATTTTAACA
*
621875 AAAAAATAA-TTTAGGTACTTATTTTGACC
1 AAAAAATAACTTTAGGTACTTATGTTGACC
**
621904 AAAAAATAACTTTAGGTGTTTATGTTGACC
1 AAAAAATAACTTTAGGTACTTATGTTGACC
*
621934 AAAAAAT-ACTTTAGATACT
1 AAAAAATAACTTTAGGTACT
621953 AAAATGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (30 bp):
AAAAAATAACTTTAGGTACTTATGTTGACC
Found at i:637979 original size:29 final size:31
Alignment explanation
Indices: 637929--638004 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
637919 AACTTTACTC
* * *
637929 TTTTATTTTGCTCACCATACTTT-CA-ATTT
1 TTTTATTTTGCTCACTAAACTTTACAGATTG
637958 TTTTATTTTGCTCACTAAACTTTACAGATTG
1 TTTTATTTTGCTCACTAAACTTTACAGATTG
**
637989 AATTATTTTGCTCACT
1 TTTTATTTTGCTCACT
638005 CTACCGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 21 0.52
30 2 0.05
31 17 0.43
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTTATTTTGCTCACTAAACTTTACAGATTG
Found at i:643236 original size:23 final size:23
Alignment explanation
Indices: 643207--643255 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
643197 TTGGACTATA
643207 AAATTAA-GAAAATAAATAAACTT
1 AAATTAATGAAAATAAATAAA-TT
* *
643230 AAATTAATTAAAATATATAAATT
1 AAATTAATGAAAATAAATAAATT
643253 AAA
1 AAA
643256 ATCTAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATTAATGAAAATAAATAAATT
Found at i:643257 original size:24 final size:25
Alignment explanation
Indices: 643205--643263 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
643195 ATTTGGACTA
*
643205 TAAAATTAA-GAAAATAAATAAACT
1 TAAAATTAATTAAAATAAATAAACT
*
643229 T-AAATTAATTAAAATATATAAA-T
1 TAAAATTAATTAAAATAAATAAACT
643252 TAAAATCTAATT
1 TAAAAT-TAATT
643264 TGAGTCGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 9 0.30
24 16 0.53
25 5 0.17
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (25 bp):
TAAAATTAATTAAAATAAATAAACT
Found at i:655069 original size:17 final size:17
Alignment explanation
Indices: 655047--655102 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
655037 TCTGAACCGG
*
655047 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
655064 GTTGACCCGA-CCGACC
1 GTTGACCCGACCCGACC
655080 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
655097 GTTGAC
1 GTTGAC
655103 TGTTGACCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
16 15 0.41
17 22 0.59
ACGTcount: A:0.18, C:0.41, G:0.25, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:655109 original size:7 final size:7
Alignment explanation
Indices: 655093--655149 Score: 64
Period size: 7 Copynumber: 8.4 Consensus size: 7
655083 GACCCGACCC
655093 GACCGTT
1 GACCGTT
*
655100 GACTGTT
1 GACCGTT
655107 GACCGTT
1 GACCGTT
*
655114 GACTG-T
1 GACCGTT
655120 GACCGTT
1 GACCGTT
*
655127 GACTG-T
1 GACCGTT
655133 GACCGTT
1 GACCGTT
*
655140 GACCATT
1 GACCGTT
655147 GAC
1 GAC
655150 TTTCTTTGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
6 10 0.24
7 31 0.76
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (7 bp):
GACCGTT
Found at i:655124 original size:13 final size:13
Alignment explanation
Indices: 655093--655142 Score: 91
Period size: 13 Copynumber: 3.8 Consensus size: 13
655083 GACCCGACCC
655093 GACCGTTGACTGTT
1 GACCGTTGACTG-T
655107 GACCGTTGACTGT
1 GACCGTTGACTGT
655120 GACCGTTGACTGT
1 GACCGTTGACTGT
655133 GACCGTTGAC
1 GACCGTTGAC
655143 CATTGACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 24 0.67
14 12 0.33
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (13 bp):
GACCGTTGACTGT
Found at i:655143 original size:20 final size:21
Alignment explanation
Indices: 655093--655150 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
655083 GACCCGACCC
* *
655093 GACCGTTGACTGTTGACCGTT
1 GACCGTTGACCGTTGACTGTT
*
655114 GACTG-TGACCGTTGACTG-T
1 GACCGTTGACCGTTGACTGTT
*
655133 GACCGTTGACCATTGACT
1 GACCGTTGACCGTTGACT
655151 TTCTTTGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.16
20 22 0.71
21 4 0.13
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (21 bp):
GACCGTTGACCGTTGACTGTT
Found at i:655496 original size:26 final size:26
Alignment explanation
Indices: 655467--655545 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
655457 ATACTTAAAA
655467 ATTTTAGCTTTGAACAATTAAGTAAG
1 ATTTTAGCTTTGAACAATTAAGTAAG
**
655493 ATTTGGGGCTTAT-ATAC--TTAAG--A-
1 ATTT-TAGCTT-TGA-ACAATTAAGTAAG
655516 ATTTTAGCTTTGAACAATTAAGTAAG
1 ATTTTAGCTTTGAACAATTAAGTAAG
655542 ATTT
1 ATTT
655546 GGGGCTGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
21 3 0.08
22 5 0.12
23 9 0.22
24 1 0.03
25 1 0.03
26 13 0.32
27 5 0.12
28 3 0.08
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (26 bp):
ATTTTAGCTTTGAACAATTAAGTAAG
Found at i:655523 original size:49 final size:49
Alignment explanation
Indices: 655451--655551 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
655441 CCTGGAAAAT
655451 GCTTATATACTTAAAAATTTTAGCTTTGAACAATTAAGTAAGATTTGGG
1 GCTTATATACTTAAAAATTTTAGCTTTGAACAATTAAGTAAGATTTGGG
*
655500 GCTTATATACTTAAGAATTTTAGCTTTGAACAATTAAGTAAGATTTGGG
1 GCTTATATACTTAAAAATTTTAGCTTTGAACAATTAAGTAAGATTTGGG
655549 GCT
1 GCT
655552 GATAAATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.39
Consensus pattern (49 bp):
GCTTATATACTTAAAAATTTTAGCTTTGAACAATTAAGTAAGATTTGGG
Found at i:661884 original size:20 final size:19
Alignment explanation
Indices: 661859--661910 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
661849 GCTGCTGGAA
* *
661859 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
661879 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
661898 AACCGGGTTGACC
1 AACCGGTTTGACC
661911 CGACCCGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:661888 original size:10 final size:10
Alignment explanation
Indices: 661859--661908 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
661849 GCTGCTGGAA
661859 AACCGGTTTG
1 AACCGGTTTG
*
661869 -ACCAGTTTTG
1 AACC-GGTTTG
661879 AACCGGTTTG
1 AACCGGTTTG
*
661889 -ACCGGTCTG
1 AACCGGTTTG
*
661898 AACCGGGTTG
1 AACCGGTTTG
661908 A
1 A
661909 CCCGACCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
9 11 0.34
10 18 0.56
11 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:661942 original size:17 final size:17
Alignment explanation
Indices: 661904--661944 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
661894 TCTGAACCGG
*
661904 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
*
661921 ATTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
661938 GTTGACC
1 GTTGACC
661945 GTTGACTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.20, C:0.41, G:0.22, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:661946 original size:7 final size:7
Alignment explanation
Indices: 661934--661970 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
661924 GACCCGACCC
661934 GACCGTT
1 GACCGTT
661941 GACCGTT
1 GACCGTT
*
661948 GACTG-T
1 GACCGTT
661954 GACCGTT
1 GACCGTT
661961 GACCGTT
1 GACCGTT
661968 GAC
1 GAC
661971 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:661959 original size:20 final size:20
Alignment explanation
Indices: 661934--661971 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
661924 GACCCGACCC
661934 GACCGTTGACCGTTGACTGT
1 GACCGTTGACCGTTGACTGT
661954 GACCGTTGACCGTTGACT
1 GACCGTTGACCGTTGACT
661972 TTCTTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (20 bp):
GACCGTTGACCGTTGACTGT
Found at i:663813 original size:2 final size:2
Alignment explanation
Indices: 663806--663842 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
663796 ATTTATTTTA
663806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
663843 AGGAAATTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:668195 original size:16 final size:15
Alignment explanation
Indices: 668148--668221 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 15
668138 TTTGATCTGA
668148 TATAAT-ATTATAAT
1 TATAATAATTATAAT
*
668162 TAT--TATTTATATATT
1 TATAATAATTATA-A-T
668177 TATAGATAATTATAAT
1 TATA-ATAATTATAAT
668193 TATAAT-A--ATAAT
1 TATAATAATTATAAT
* *
668205 TTTAATAATTTTAAT
1 TATAATAATTATAAT
668220 TA
1 TA
668222 GATTTATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 17
0.68 0.07 0.25
Matches are distributed among these distances:
12 11 0.24
13 6 0.13
14 5 0.11
15 11 0.24
16 5 0.11
17 1 0.02
18 7 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
TATAATAATTATAAT
Found at i:668239 original size:27 final size:28
Alignment explanation
Indices: 668154--668265 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 28
668144 CTGATATAAT
668154 ATTATAATTATTATTTATATATTTATAGATA
1 ATTATAATTA-TATTTATATATTTAT--ATA
* *
668185 ATTATAATTATAATAATA-ATTT-TAATA
1 ATTATAATTATATTTATATATTTAT-ATA
* *
668212 ATTTTAATTAGATTTATAT-TTTATATA
1 ATTATAATTATATTTATATATTTATATA
* * *
668239 ATTAAAATTA-ATTTATATGTATATATA
1 ATTATAATTATATTTATATATTTATATA
668266 TTTAGGTCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
26 8 0.12
27 38 0.56
28 2 0.03
29 4 0.06
30 6 0.09
31 10 0.15
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTATAATTATATTTATATATTTATATA
Found at i:677754 original size:6 final size:6
Alignment explanation
Indices: 677743--677767 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
677733 CAGGAAGGGC
677743 CAGAAG CAGAAG CAGAAG CAGAAG C
1 CAGAAG CAGAAG CAGAAG CAGAAG C
677768 GGCCCAGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.20, G:0.32, T:0.00
Consensus pattern (6 bp):
CAGAAG
Found at i:681557 original size:14 final size:14
Alignment explanation
Indices: 681535--681567 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
681525 CCTCGCATAG
*
681535 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
681549 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
681563 CTCGG
1 CTCGG
681568 ATGCTTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:689922 original size:6 final size:6
Alignment explanation
Indices: 689911--689935 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
689901 TTAAATAACC
689911 GAGGAA GAGGAA GAGGAA GAGGAA G
1 GAGGAA GAGGAA GAGGAA GAGGAA G
689936 GAAAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:693670 original size:14 final size:15
Alignment explanation
Indices: 693629--693680 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
693619 TTCCGGAAAA
* *
693629 TGAATTATTGGAGTT
1 TGAATTACTGGAATT
693644 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
693659 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
693673 TGAATTAC
1 TGAATTAC
693681 ATTTCTGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:693686 original size:20 final size:20
Alignment explanation
Indices: 693663--693712 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
693653 GGAATTTGAA
693663 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
693683 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
693703 TTCTGGAAAA
1 TTCTGGAAAA
693713 CATCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:693967 original size:30 final size:28
Alignment explanation
Indices: 693910--694052 Score: 93
Period size: 28 Copynumber: 5.0 Consensus size: 28
693900 CTTTACTAAA
693910 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAATAATATTAT
693939 -TCATTATTAAATATATAAA-AACTGTATTAT
1 AT-ATTATTAAATATATAAATAA---TATTAT
693969 ATATTATTAAA-ATA-AAATAAAATATCT-T
1 ATATTATTAAATATATAAAT--AATAT-TAT
* * * *
693997 ATATTA-TATA-ATATAATTGATTATTTT
1 ATATTATTAAATATATAAAT-AATATTAT
* *
694024 ATAATATTAAAAATATAATATAATATTAT
1 ATATTATTAAATATATAA-ATAATATTAT
694053 TATAAATATT
Statistics
Matches: 91, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
26 1 0.01
27 18 0.20
28 31 0.34
29 22 0.24
30 16 0.18
31 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATATTATTAAATATATAAATAATATTAT
Found at i:694068 original size:10 final size:10
Alignment explanation
Indices: 694026--694071 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
694016 ATTATTTTAT
694026 AATATTAA-A
1 AATATTAATA
694035 AATA-TAATA
1 AATATTAATA
694044 TAATATTATTATA
1 -AATATTA--ATA
694057 AATATTAATA
1 AATATTAATA
694067 AATAT
1 AATAT
694072 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.09
9 5 0.16
10 12 0.38
11 2 0.06
12 7 0.22
13 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATATTAATA
Found at i:694070 original size:32 final size:34
Alignment explanation
Indices: 694002--694072 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 34
693992 ATCTTATATT
*
694002 ATATAATATAATTGATTATTTTATAATATTAAAA
1 ATATAATATAATTGATTATTATATAATATTAAAA
694036 ATATAATATAA-T-ATTATTATA-AATATTAATAA
1 ATATAATATAATTGATTATTATATAATATTAA-AA
694068 ATATA
1 ATATA
694073 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
31 8 0.23
32 15 0.43
33 1 0.03
34 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (34 bp):
ATATAATATAATTGATTATTATATAATATTAAAA
Found at i:694074 original size:21 final size:22
Alignment explanation
Indices: 694027--694083 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
694017 TTATTTTATA
*
694027 ATATTAAAAATA-TAATATAAT
1 ATATTATAAATATTAATATAAT
694048 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
694070 ATATTTTAAATATT
1 ATATTATAAATATT
694084 TTAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:694088 original size:23 final size:21
Alignment explanation
Indices: 694034--694083 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
694024 ATAATATTAA
*
694034 AAATA-TAATATAATATTATTAT
1 AAATATTAATA-AATA-TATTTT
694056 AAATATTAATAAATATATTTT
1 AAATATTAATAAATATATTTT
694077 AAATATT
1 AAATATT
694084 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATAAATATATTTT
Found at i:694331 original size:42 final size:42
Alignment explanation
Indices: 694272--694391 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
694262 ATGAATTACA
*
694272 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
694314 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
694356 TTCCGGAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
694392 TTCGGGGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:695036 original size:18 final size:18
Alignment explanation
Indices: 695013--695052 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
695003 ACCCGGCCAT
695013 CATCTTGATCTAAACACA
1 CATCTTGATCTAAACACA
695031 CATCTTGATCTAAACACA
1 CATCTTGATCTAAACACA
695049 CATC
1 CATC
695053 AAAAGACGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.28
Consensus pattern (18 bp):
CATCTTGATCTAAACACA
Found at i:709028 original size:17 final size:17
Alignment explanation
Indices: 708976--709045 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
708966 AAAACATCTG
*
708976 ATATATGATATCTGTAA
1 ATATATGATAACTGTAA
* *
708993 ATATATGGTAATTGTAA
1 ATATATGATAACTGTAA
* *
709010 ATATCTGATAACTGAAA
1 ATATATGATAACTGTAA
* *
709027 ATCATTTGATAATTGTAA
1 AT-ATATGATAACTGTAA
709045 A
1 A
709046 CATTTAAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
17 29 0.69
18 13 0.31
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (17 bp):
ATATATGATAACTGTAA
Found at i:717870 original size:134 final size:134
Alignment explanation
Indices: 717703--718070 Score: 578
Period size: 134 Copynumber: 2.7 Consensus size: 134
717693 GCTCTGGTAT
* *
717703 TGATTATGATGATGGATGATGCTATGTCATGTTTGATGTGTCGTTGAATGGTTCCTTTTAGTTGT
1 TGATGATGATGATGGATGATGCTATGTCATGTTTGATGTGTTGTTGAATGGTTCC-TTTAGTTGT
* *
717768 TGGGTGAATTGTAATGAAAAGGAAATTATCATATACATGTGTAGTTCATGTGCTTTGG-TATTAT
65 TGGGAGAATTGTAATGAAAAGGAAATTATCATATACATGTGTAGGTCATGTGCTTTGGTTATTAT
717832 TATGA
130 TATGA
*
717837 TGATGGTGATGATGGATGATGCTATGTCATGTTTGATGTGTTGTTGAATGGTTCCTTTAGTTGTT
1 TGATGATGATGATGGATGATGCTATGTCATGTTTGATGTGTTGTTGAATGGTTCCTTTAGTTGTT
* *
717902 GGGAGAATTGTAATTAGAAA-GAAATTATCATATACATGTGTTGGTCATGTGCTTTGGTTATTAT
66 GGGAGAATTGTAATGA-AAAGGAAATTATCATATACATGTGTAGGTCATGTGCTTTGGTTATTAT
* *
717966 TGTTA
130 TATGA
717971 TGATGATGATGATGGATGATGCTATGTCATGTTTGATGTGTTGTTGAATGGTTCCTTTAGTTGTT
1 TGATGATGATGATGGATGATGCTATGTCATGTTTGATGTGTTGTTGAATGGTTCCTTTAGTTG-T
* * * *
718036 TTGAAGAATTGTAATGAAAAGGACATGATCATATA
65 TGGGAGAATTGTAATGAAAAGGAAATTATCATATA
718071 TATATATATG
Statistics
Matches: 215, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
133 59 0.27
134 129 0.60
135 27 0.13
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (134 bp):
TGATGATGATGATGGATGATGCTATGTCATGTTTGATGTGTTGTTGAATGGTTCCTTTAGTTGTT
GGGAGAATTGTAATGAAAAGGAAATTATCATATACATGTGTAGGTCATGTGCTTTGGTTATTATT
ATGA
Found at i:719516 original size:19 final size:19
Alignment explanation
Indices: 719492--719531 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
719482 TGCATCGATG
719492 CTCCTAATCTTTACTACTC
1 CTCCTAATCTTTACTACTC
719511 CTCCTAATCTTTACTACTC
1 CTCCTAATCTTTACTACTC
719530 CT
1 CT
719532 TCAACCCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (19 bp):
CTCCTAATCTTTACTACTC
Found at i:742378 original size:101 final size:98
Alignment explanation
Indices: 742190--742401 Score: 302
Period size: 101 Copynumber: 2.1 Consensus size: 98
742180 TTTTCAAATA
742190 TATATATCTATTTGCTTAAATTATATATAAAGTTAATTTTAAGTTTATAAAAATAATTTTCGTTT
1 TATATAT-TATTTGCTTAAATTATATATAAAGTTAATTTTAAGTTTATAAAAATAATTTTCGTTT
*
742255 AGAATATGTATTTAACCTTTTTTTTACACTTTTATG
65 AAAATATGTATTTAA-C-TTTTTTTACACTTTTATG
* * *
742291 TATATATATATTTGCTTAAATTATATATAAAGTTAATTTTAGGTTTATAAAAATATTTTTTTGTT
1 TATATAT-TATTTGCTTAAATTATATATAAAGTTAATTTTAAGTTTATAAAAATA-ATTTTCGTT
742356 TAAAATA-GTTATTTAA-TGTTTTTTACACTTTTATG
64 TAAAATATG-TATTTAACT-TTTTTTACACTTTTATG
*
742391 TACATATTATT
1 TATATATTATT
742402 AAAAAAATTC
Statistics
Matches: 102, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
99 5 0.05
100 23 0.23
101 54 0.53
102 20 0.20
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (98 bp):
TATATATTATTTGCTTAAATTATATATAAAGTTAATTTTAAGTTTATAAAAATAATTTTCGTTTA
AAATATGTATTTAACTTTTTTTACACTTTTATG
Found at i:748180 original size:12 final size:12
Alignment explanation
Indices: 748165--748193 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
748155 TGCAAGAGCT
748165 GATGCAGAAGCA
1 GATGCAGAAGCA
748177 GATGCAGAAGCA
1 GATGCAGAAGCA
748189 GATGC
1 GATGC
748194 GGTATTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.34, T:0.10
Consensus pattern (12 bp):
GATGCAGAAGCA
Found at i:750131 original size:30 final size:30
Alignment explanation
Indices: 750011--750141 Score: 74
Period size: 30 Copynumber: 4.3 Consensus size: 30
750001 AACTCGTTAG
*
750011 ACAATACAAATCGAACATAAACAT-TTTCAA
1 ACAAAACAAATCGAACATAAACATCTTT-AA
* *
750041 AAATAAACAAAT-GAACACAAACATCTTTATA
1 ACA-AAACAAATCGAACATAAACATCTTTA-A
* *** * *
750072 TCGAAGGTTAAA-CAAACA-AAACA-CATTAA
1 AC-AA-AACAAATCGAACATAAACATCTTTAA
*
750101 ACAACACAAATCGAACATAAACATCTTTAA
1 ACAAAACAAATCGAACATAAACATCTTTAA
*
750131 AAATAAACAAA
1 ACA-AAACAAA
750142 CACAATCGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 19
0.66 0.16 0.17
Matches are distributed among these distances:
27 3 0.04
28 7 0.10
29 7 0.10
30 25 0.34
31 23 0.32
32 8 0.11
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.20
Consensus pattern (30 bp):
ACAAAACAAATCGAACATAAACATCTTTAA
Found at i:753847 original size:102 final size:101
Alignment explanation
Indices: 753671--753871 Score: 314
Period size: 102 Copynumber: 2.0 Consensus size: 101
753661 AAGTTTTTAA
*
753671 TACTAAAATGAAACAAAACTAAACATTAGGTATGGTTTTGAAAAAAATTAAAAGTTTAGATACTA
1 TACTAAAATGAAACAAAACTAAACATTAGGTATGATTTTGAAAAAAATTAAAAGTTTAGATACTA
*
753736 AAATGGATCAAAATTGATAATTTAGGTACTAAATACG
66 AAACGGATCAAAATT-ATAATTTAGGTACTAAATACG
* * *
753773 TACTAAAAT-AAACAAAAACTAAATATTATGTATGATTTTGAAAAAAATTGAAAGTTTAGATACT
1 TACTAAAATGAAAC-AAAACTAAACATTAGGTATGATTTTGAAAAAAATTAAAAGTTTAGATACT
* *
753837 AAAACGGATCAAACTTATACTTTAGGTACTAAATA
65 AAAACGGATCAAAATTATAATTTAGGTACTAAATA
753872 TGTAATTTAC
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 22 0.24
102 69 0.76
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (101 bp):
TACTAAAATGAAACAAAACTAAACATTAGGTATGATTTTGAAAAAAATTAAAAGTTTAGATACTA
AAACGGATCAAAATTATAATTTAGGTACTAAATACG
Found at i:757381 original size:2 final size:2
Alignment explanation
Indices: 757374--757407 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
757364 TAATATACTT
757374 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
757408 GGTCACAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:758202 original size:3 final size:3
Alignment explanation
Indices: 758194--758262 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
758184 TGACAATTAT
758194 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
758242 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
758263 TCAACATGAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:761989 original size:31 final size:30
Alignment explanation
Indices: 761954--762013 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
761944 GAGCAACGAA
761954 TTTAACGAGCACGAG-CTGAGCAACAATTTTT
1 TTTAACGAGCACGAGTC-GAGCAA-AATTTTT
*
761985 TTTAACGAGCTCGAGTCGAGCAAAATTTT
1 TTTAACGAGCACGAGTCGAGCAAAATTTT
762014 GACTAGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.22
31 20 0.74
32 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (30 bp):
TTTAACGAGCACGAGTCGAGCAAAATTTTT
Found at i:763851 original size:40 final size:40
Alignment explanation
Indices: 763807--763895 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 40
763797 CTATTTATAA
*
763807 TTGTGATGA-AAATATTTTGTCACTAGT-ATTAGTTGGTGAT
1 TTGTGACGATAAATA-TTTGTCACTAGTCA-TAGTTGGTGAT
*
763847 TTGTGACGATAAATATTTGTCACTAGTCATATTTGGTGAT
1 TTGTGACGATAAATATTTGTCACTAGTCATAGTTGGTGAT
763887 TTGTGACGA
1 TTGTGACGA
763896 CAATAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 39 0.87
41 6 0.13
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (40 bp):
TTGTGACGATAAATATTTGTCACTAGTCATAGTTGGTGAT
Found at i:765620 original size:103 final size:104
Alignment explanation
Indices: 765414--765633 Score: 264
Period size: 103 Copynumber: 2.1 Consensus size: 104
765404 GAGTTATTAT
* * ** * *
765414 TAATAGTATCGAACATTTGGTAACTAAAAAACAATTACTTTGACAACATTGGTGGTCGCAATATA
1 TAATAGTATCGAACAATTGGTAACTAAAAAACAATTACTGTGACAACATTAATGGTCACAAAATA
* * *
765479 TACTTTAGTGTCAAATAAATTTATCACAATTTCTATTGA
66 TACTTTAGTGTCAAAGAAATTCATCACAATTTATATTGA
* * * *
765518 TAATAGTATCGAACAATTGGTCACTAAAAAA-ACTTAGTGTGACAATATTAATGGTCACAAAATA
1 TAATAGTATCGAACAATTGGTAACTAAAAAACAATTACTGTGACAACATTAATGGTCACAAAATA
* *
765582 TATTTTCAGTGTCAAGGAAA-TCATCACAATTTATATTGA
66 TACTTT-AGTGTCAAAGAAATTCATCACAATTTATATTGA
* *
765621 TAATTGTGTCGAA
1 TAATAGTATCGAA
765634 TAGATGGTAA
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
103 58 0.59
104 40 0.41
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (104 bp):
TAATAGTATCGAACAATTGGTAACTAAAAAACAATTACTGTGACAACATTAATGGTCACAAAATA
TACTTTAGTGTCAAAGAAATTCATCACAATTTATATTGA
Found at i:772410 original size:10 final size:11
Alignment explanation
Indices: 772383--772408 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
772373 AACCACATGC
772383 AAAAATACAAA
1 AAAAATACAAA
772394 AAAAATACAAA
1 AAAAATACAAA
772405 AAAA
1 AAAA
772409 TATTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATACAAA
Found at i:772610 original size:32 final size:32
Alignment explanation
Indices: 772566--772637 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
772556 AGTGTTTAAT
* *
772566 TTTAATACGTTTCCTTAAGTAAA-AACATTACA
1 TTTAAT-CGTTTCCTTAAATAAATAAAATTACA
*
772598 TTTAATCTGTTTCTTTAAATAAATAAAATTACA
1 TTTAATC-GTTTCCTTAAATAAATAAAATTACA
772631 TTTAATC
1 TTTAATC
772638 CCTTTTAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 19 0.54
33 15 0.43
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (32 bp):
TTTAATCGTTTCCTTAAATAAATAAAATTACA
Found at i:775122 original size:29 final size:29
Alignment explanation
Indices: 775080--775167 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
775070 TAACAAAACA
775080 TTGGAGGTCGCCATGGCATCCGGGCGACC
1 TTGGAGGTCGCCATGGCATCCGGGCGACC
775109 TTGGAGGTCGCCATGGCATCCGGGCGACC
1 TTGGAGGTCGCCATGGCATCCGGGCGACC
* *
775138 TTGGAGGTTGCCATGGCATCCGAGCGACC
1 TTGGAGGTCGCCATGGCATCCGGGCGACC
775167 T
1 T
775168 GTGGGGTGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.19
Consensus pattern (29 bp):
TTGGAGGTCGCCATGGCATCCGGGCGACC
Found at i:775397 original size:20 final size:20
Alignment explanation
Indices: 775372--775429 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
775362 GAATTTAGGT
775372 CATCCGAGGCCATCCGAAAG
1 CATCCGAGGCCATCCGAAAG
* *
775392 CATCCGATGCCATCCGAGAG
1 CATCCGAGGCCATCCGAAAG
775412 CATCCGAGGCCATCCGAA
1 CATCCGAGGCCATCCGAA
775430 CGAGCTATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.28, C:0.36, G:0.24, T:0.12
Consensus pattern (20 bp):
CATCCGAGGCCATCCGAAAG
Found at i:775448 original size:23 final size:23
Alignment explanation
Indices: 775416--775474 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
775406 CGAGAGCATC
*
775416 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCATCCGAACGAGCTATG
*
775439 TGAGGGCATCCGAACGAGCTATG
1 CGAGGGCATCCGAACGAGCTATG
775462 CGAGGGCATCCGA
1 CGAGGGCATCCGA
775475 GGGCAACCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.34, T:0.14
Consensus pattern (23 bp):
CGAGGGCATCCGAACGAGCTATG
Found at i:775477 original size:10 final size:10
Alignment explanation
Indices: 775372--775518 Score: 69
Period size: 10 Copynumber: 13.8 Consensus size: 10
775362 GAATTTAGGT
*
775372 CATCCGAGGC
1 CATCCGAGGG
**
775382 CATCCGAAAG
1 CATCCGAGGG
* *
775392 CATCCGATGC
1 CATCCGAGGG
*
775402 CATCCGAGAG
1 CATCCGAGGG
*
775412 CATCCGAGGC
1 CATCCGAGGG
*
775422 CATCCGAACGAG
1 CATCCG-A-GGG
**
775434 CTATGTGAGGG
1 C-ATCCGAGGG
*
775445 CATCCGAACGAG
1 CATCCG-A-GGG
*
775457 CTATGCGAGGG
1 C-ATCCGAGGG
775468 CATCCGAGGG
1 CATCCGAGGG
*
775478 CAACCGAGCGAG
1 CATCCGAG-G-G
*
775490 CTATGCGAGGG
1 C-ATCCGAGGG
*
775501 AATCCGAGGG
1 CATCCGAGGG
*
775511 CAACCGAG
1 CATCCGAG
775519 CGAGGGTAGG
Statistics
Matches: 99, Mismatches: 29, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
10 67 0.68
11 10 0.10
12 10 0.10
13 12 0.12
ACGTcount: A:0.27, C:0.29, G:0.33, T:0.12
Consensus pattern (10 bp):
CATCCGAGGG
Found at i:775477 original size:33 final size:33
Alignment explanation
Indices: 775440--775522 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
775430 CGAGCTATGT
* * *
775440 GAGGGCATCCGAACGAGCTATGCGAGGGCATCC
1 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
775473 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
1 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
775506 GAGGGCAACCGAGCGAG
1 GAGGGCAACCGAGCGAG
775523 GGTAGGTCGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.40, T:0.08
Consensus pattern (33 bp):
GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
Found at i:775596 original size:33 final size:33
Alignment explanation
Indices: 775555--775639 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 33
775545 GCGACCTACC
*
775555 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
775588 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * * *
775621 TTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
775640 TCGGATGGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.08, C:0.36, G:0.28, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:775611 original size:10 final size:10
Alignment explanation
Indices: 775559--775615 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
775549 CCTACCCTCG
*
775559 CTCGGTTGCC
1 CTCGGATGCC
*
775569 CTCGGATTCC
1 CTCGGATGCC
*
775579 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
775591 GCTCGGTTGCC
1 -CTCGGATGCC
775602 CTCGGATGCC
1 CTCGGATGCC
775612 CTCG
1 CTCG
775616 CATAGTTCGT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 27 0.73
11 2 0.05
12 3 0.08
13 5 0.14
ACGTcount: A:0.07, C:0.40, G:0.26, T:0.26
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:775645 original size:14 final size:14
Alignment explanation
Indices: 775626--775653 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
775616 CATAGTTCGT
775626 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
775640 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
775654 ATGCCCAGCG
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:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:776565 original size:43 final size:43
Alignment explanation
Indices: 776493--776692 Score: 156
Period size: 43 Copynumber: 4.7 Consensus size: 43
776483 AAAAACATCG
* * *
776493 CAATAGGTATTGATATTTAGCGACATTTGT-GTGACAAACGCCA
1 CAATAGGTATTGATGTTTAGCGGCGTTTGTCGT-ACAAACGCCA
* * * * * *
776536 CAATAGGTGTTAATATTTAGCGGCGTTTGTCATAAAAACGCCG
1 CAATAGGTATTGATGTTTAGCGGCGTTTGTCGTACAAACGCCA
* * *
776579 CAATAGGT-TATGATGTTTAGAGGCGTTTTTCGCTA-AAACGCCG
1 CAATAGGTAT-TGATGTTTAGCGGCGTTTGTCG-TACAAACGCCA
* * * * * **
776622 CAGTATGTGTTGATGTTTTGCGACGTTT-TTTTCACAAACGCCA
1 CAATAGGTATTGATGTTTAGCGGCGTTTGTCGT-ACAAACGCCA
*
776665 CAATAGGTATTGATGTTTTGCGGCGTTT
1 CAATAGGTATTGATGTTTAGCGGCGTTT
776693 CTGTTAAAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 119 0.94
44 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
CAATAGGTATTGATGTTTAGCGGCGTTTGTCGTACAAACGCCA
Found at i:777163 original size:21 final size:21
Alignment explanation
Indices: 777112--777165 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
777102 TATGCTGCTT
* * *
777112 CTCTCTGTGCTGTCGCTGCTG
1 CTCTCTCTGCTTTCGCTGATG
** *
777133 CTCTGGCTGCTTTTGCTGATG
1 CTCTCTCTGCTTTCGCTGATG
777154 CTCTCTCTGCTT
1 CTCTCTCTGCTT
777166 CCCTTGCTTC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.31, G:0.24, T:0.43
Consensus pattern (21 bp):
CTCTCTCTGCTTTCGCTGATG
Found at i:785855 original size:18 final size:18
Alignment explanation
Indices: 785832--785883 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
785822 CAACGTGAGG
785832 TTGCGCTGGTGGAGAAGC
1 TTGCGCTGGTGGAGAAGC
* *
785850 TTGCGCTGCTGGAGAAGG
1 TTGCGCTGGTGGAGAAGC
*
785868 TTGCGCTGGTAGAGAA
1 TTGCGCTGGTGGAGAA
785884 TGTTAGGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.42, T:0.23
Consensus pattern (18 bp):
TTGCGCTGGTGGAGAAGC
Found at i:786136 original size:42 final size:42
Alignment explanation
Indices: 786089--786213 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
786079 AAACGCCGCA
* * * *
786089 AAGGAACTACTCTATTGCTGCGTTTTTTACGAAAATGCCA-CT
1 AAGGAACTACTCTATTGCGGCGTTTATTA-AAAAACGCCACCT
*
786131 AAGGAACTATTCTATTGCGGCGTTTATTAAAAAACGCCACCT
1 AAGGAACTACTCTATTGCGGCGTTTATTAAAAAACGCCACCT
* * *
786173 AA-TAACAACTCTATTGCGGCGTTTGTATCAAAAAACGCCAC
1 AAGGAACTACTCTATTGCGGCG-TT-TATTAAAAAACGCCAC
786214 TAAAGTATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
41 24 0.34
42 32 0.45
43 15 0.21
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
AAGGAACTACTCTATTGCGGCGTTTATTAAAAAACGCCACCT
Found at i:786981 original size:42 final size:41
Alignment explanation
Indices: 786896--787057 Score: 252
Period size: 41 Copynumber: 3.9 Consensus size: 41
786886 TTTATACAAA
*
786896 AAAAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCT
1 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCT
* *
786937 AAAAACGCCACTATTGATTAACACTTTTGCGGCGTTTTTTCT
1 AAAAACGCCACTATTGATTAACACTATTGCGGCG-TTTGTCT
* *
786979 AAAAACGCCATTATTGATTAATACTATTGCGGCGTTTGTCT
1 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCT
* *
787020 AAAAACGCCACTATTGATTATCACTATTGTGGCGTTTG
1 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTG
787058 AGGAATAAAC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 72 0.66
42 37 0.34
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (41 bp):
AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCT
Found at i:787005 original size:83 final size:83
Alignment explanation
Indices: 786896--787056 Score: 268
Period size: 83 Copynumber: 1.9 Consensus size: 83
786886 TTTATACAAA
*
786896 AAAAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
1 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
*
786961 TTTTGCGGCGTTTTTTCT
66 TATTGCGGCGTTTTTTCT
* * *
786979 AAAAACGCCATTATTGATTAATACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTATCAC
1 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
*
787044 TATTGTGGCGTTT
66 TATTGCGGCGTTT
787057 GAGGAATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (83 bp):
AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
TATTGCGGCGTTTTTTCT
Found at i:787068 original size:83 final size:83
Alignment explanation
Indices: 786896--787098 Score: 259
Period size: 83 Copynumber: 2.4 Consensus size: 83
786886 TTTATACAAA
* *
786896 AAAAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
1 AAAAACGCCACTATTGATTAATACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
* ** *
786961 TTTTGCGGCGTTTTTTCT
66 TATTGCGGCGTTTTGACG
* *
786979 AAAAACGCCATTATTGATTAATACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTATCAC
1 AAAAACGCCACTATTGATTAATACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
* *
787044 TATTGTGGCG-TTTGAGG
66 TATTGCGGCGTTTTGACG
*
787061 AATAAACGACACTATATG-TGTAATA-TATTGCGGCGTTT
1 AA-AAACGCCACTAT-TGAT-TAATACTATTGCGGCGTTT
787099 ATGGTATAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
82 5 0.05
83 93 0.89
84 7 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (83 bp):
AAAAACGCCACTATTGATTAATACTATTGCGGCGTTTGTCTAAAAACGCCACTATTGATTAACAC
TATTGCGGCGTTTTGACG
Found at i:787132 original size:42 final size:41
Alignment explanation
Indices: 787086--787224 Score: 174
Period size: 42 Copynumber: 3.3 Consensus size: 41
787076 ATGTGTAATA
787086 TATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCACTC
1 TATTGCGGCGTTT-TGGTATAAACGCCGCTAATTTACCACTC
* * * *
787128 TATTGCGGCGTTTTGGCT-CAATCGCCGCAAAATTTA-TACTC
1 TATTGCGGCGTTTTGG-TATAAACGCCGC-TAATTTACCACTC
* *
787169 TATTGCGGCGTTTGTGGTATTAACGTCGCTAATTTACCACTC
1 TATTGCGGCGTTT-TGGTATAAACGCCGCTAATTTACCACTC
787211 TATTGCGGCGTTTT
1 TATTGCGGCGTTTT
787225 TTGTTATATA
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
41 36 0.44
42 46 0.56
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (41 bp):
TATTGCGGCGTTTTGGTATAAACGCCGCTAATTTACCACTC
Found at i:798324 original size:582 final size:584
Alignment explanation
Indices: 796873--800370 Score: 6938
Period size: 583 Copynumber: 6.0 Consensus size: 584
796863 TTCTCCTGGT
796873 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
1 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
796938 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
66 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
797003 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
131 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
797068 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
196 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
797133 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
261 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
797198 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
326 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
797263 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
391 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
797328 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
456 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
797393 ATCTAGTG-TTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
521 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
797456 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
1 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
797521 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
66 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
797586 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
131 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
797651 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
196 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
797716 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
261 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
797781 ACAAGCCGGATTGTTATAGCC-AAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
326 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
797845 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
391 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
797910 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
456 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
797975 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
521 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
798039 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
1 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
798104 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
66 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
798169 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
131 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
798234 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCC-AAAAT
196 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
798298 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
261 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
798363 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
326 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
798428 G-AAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
391 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
798492 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCAT-AATAGTAAAAAAATATATCTAA
456 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
798556 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
521 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
798620 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
1 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
798685 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
66 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
798750 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
131 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
798815 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
196 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
798880 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
261 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
798945 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
326 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
799010 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGT-AAAAATCGGGCCGAAATCG
391 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
799074 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
456 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
799139 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
521 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
799203 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
1 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
799268 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
66 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
799333 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
131 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
799398 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCC-AAAAT
196 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
799462 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
261 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
799527 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
326 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
799592 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
391 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
799657 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
456 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
799722 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
521 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
*
799786 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGTATTGAAAATGACCGCCTCAACTGCAG
1 GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
799851 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
66 CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
799916 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
131 TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
799981 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
196 GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
800046 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
261 CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
800111 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
326 ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
800176 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
391 GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
800241 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
456 GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
800306 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
521 ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
800370 G
1 G
800371 CCAAAGTTAT
Statistics
Matches: 2907, Mismatches: 1, Indels: 13
1.00 0.00 0.00
Matches are distributed among these distances:
581 340 0.12
582 754 0.26
583 1483 0.51
584 330 0.11
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (584 bp):
GTTCTTGGTTTTGTTGACGATGCATATGCGCTTTCCTGGATTGAAAATGACCGCCTCAACTGCAG
CCTCGTGCCAACACTGGCAAAAAGCTTATTTTCCCTTTGGGAACTTATCTTTTCCCAAATACAGA
TCATATGAGCATTCAAATTCTAGTTTGATGATTGTTAACTCGAAAGGACATGTTGACGCCAGACA
GAATAACGATTATTCTGTAGGCTAGTTCCAACAGATGATTCACAAGAGAAAATTCGCCCAAAAAT
CAGAGAAAAAAGTCTCTAGGGTTTAATAAAATATTAAAAAAATCAAAACTCCCCAAAATTAGTCC
ACAAGCCGGATTGTTATAGCCAAAAATCTTGTTTATCGAAATTTTACCAAAAATAGAAAAATCCT
GAAAATCACTCCAAATTAAAACTCAAAATAAAATAAGCAATCTGTAAAAAATCGGGCCGAAATCG
GATTTAAAATGACTTCCTAATTAACAATCGAAATATTACCATAAATAGTAAAAAAATATATCTAA
ATCTAGTGTTTTGGAAGGAAAAACGGCATAATTTGAGGTTTTATGCGCGATTCTGACACCCGTA
Found at i:801869 original size:2 final size:2
Alignment explanation
Indices: 801864--801889 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
801854 AATTTTTTTA
801864 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
801890 TAAAATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:806430 original size:29 final size:29
Alignment explanation
Indices: 806394--806451 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
806384 CCTCTTCTGT
*
806394 TTTGGACGAGGAGTCGTAATCGATGTTTG
1 TTTGGACGAGGAGTCGCAATCGATGTTTG
806423 TTTGGACGAGGAGTCGCAATCGATGTTTG
1 TTTGGACGAGGAGTCGCAATCGATGTTTG
806452 ATCGGTTGTT
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:0.34, T:0.33
Consensus pattern (29 bp):
TTTGGACGAGGAGTCGCAATCGATGTTTG
Found at i:807534 original size:2 final size:2
Alignment explanation
Indices: 807522--807552 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
807512 TGTGAAAATA
807522 AT AT GAT 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
807553 CTTACATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:808880 original size:2 final size:2
Alignment explanation
Indices: 808830--808861 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
808820 TAAATTGTCA
808830 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
808862 GATTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:813536 original size:31 final size:31
Alignment explanation
Indices: 813500--813566 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
813490 ATGACGGTGG
* **
813500 AGTGACAATTTTATTACAAATTGATATTGTT
1 AGTGACAATTTTATTACAAATCGATATCATT
* *
813531 AGTGACTATTTTGTTACAAATCGATATCATT
1 AGTGACAATTTTATTACAAATCGATATCATT
813562 AGTGA
1 AGTGA
813567 TCGATTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (31 bp):
AGTGACAATTTTATTACAAATCGATATCATT
Found at i:815219 original size:44 final size:44
Alignment explanation
Indices: 815126--815219 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 44
815116 AGAATATTCA
* * *
815126 AAAATTTGAGGATTAATTTAGAACGAGAATCATAGTTTATAAAT
1 AAAATTTGAGGATCAATTTAAAACGAGAATCATAGTTAATAAAT
* * * * *
815170 GAAATTTGAGGATCGATTTAAAATGAGACTCTTAGTTAA-ATAAT
1 AAAATTTGAGGATCAATTTAAAACGAGAATCATAGTTAATA-AAT
815214 AAAATT
1 AAAATT
815220 AGAATGTTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (44 bp):
AAAATTTGAGGATCAATTTAAAACGAGAATCATAGTTAATAAAT
Found at i:816366 original size:45 final size:45
Alignment explanation
Indices: 816302--816395 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
816292 GACTCAAATA
816302 CCATGAAAATGCAATGAGAGTGAGGTGTAGGGTATAGGAAGGTAG
1 CCATGAAAATGCAATGAGAGTGAGGTGTAGGGTATAGGAAGGTAG
816347 CCATGAAAATGCAATGAGAGTGAGGTGTAGGGTATAGGAAGGTAG
1 CCATGAAAATGCAATGAGAGTGAGGTGTAGGGTATAGGAAGGTAG
816392 CCAT
1 CCAT
816396 TCTAAGGTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.35, C:0.09, G:0.36, T:0.20
Consensus pattern (45 bp):
CCATGAAAATGCAATGAGAGTGAGGTGTAGGGTATAGGAAGGTAG
Found at i:816935 original size:2 final size:2
Alignment explanation
Indices: 816930--816968 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
816920 TGTGTGTGTG
816930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
816969 GAAAGCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:819233 original size:40 final size:41
Alignment explanation
Indices: 819179--819381 Score: 205
Period size: 42 Copynumber: 4.9 Consensus size: 41
819169 ATAGATCCGT
**
819179 ACCTTAGTGGCGTTTGTTA-TAAAAACGCTTCAATAGAGGC-
1 ACCTTAGTGGCGTTTGTTACT-AAAACGCCGCAATAGAGGCA
*
819219 ACCTTAGCGGCGTTTGTTACTAAAACGCCGCAATAGAGGCGA
1 ACCTTAGTGGCGTTTGTTACTAAAACGCCGCAATAGAGGC-A
* * * * *
819261 ACCTTAGTGGCGTTTGTCACTAAAACACCACTATAGAGCCA
1 ACCTTAGTGGCGTTTGTTACTAAAACGCCGCAATAGAGGCA
** *
819302 TACCTTAGTGGCGTTTGTTAGAAAAATGCCGCAATAGAAGTG-A
1 -ACCTTAGTGGCGTTTGTTACTAAAACGCCGCAATAG-AG-GCA
* ** *
819345 AACTTAGTGAAGTTTGTTATTAAAACGCCGCAATAGA
1 ACCTTAGTGGCGTTTGTTACTAAAACGCCGCAATAGA
819382 TTTGTATCTT
Statistics
Matches: 134, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
40 35 0.26
41 3 0.02
42 93 0.69
43 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
ACCTTAGTGGCGTTTGTTACTAAAACGCCGCAATAGAGGCA
Found at i:819255 original size:82 final size:83
Alignment explanation
Indices: 819140--819339 Score: 208
Period size: 82 Copynumber: 2.4 Consensus size: 83
819130 AATGTCAAAA
*** ** * * *
819140 TTAGCGGCGTTTGTCGTTAAAATGCCGTTATAGATCCGTACCTTAGTGGCGTTTGTTA-TAAAA-
1 TTAGCGGCGTTTGTTACTAAAATGCCGCAATAGAGCCGAACCTTAGTGGCGTTTGTCACTAAAAC
* *
819203 ACGCTTCAATAGAGGC-ACC
66 AC-C-ACAATAGAGCCAACC
* *
819222 TTAGCGGCGTTTGTTACTAAAACGCCGCAATAGAGGCGAACCTTAGTGGCGTTTGTCACTAAAAC
1 TTAGCGGCGTTTGTTACTAAAATGCCGCAATAGAGCCGAACCTTAGTGGCGTTTGTCACTAAAAC
*
819287 ACCACTATAGAGCCATACC
66 ACCACAATAGAGCCA-ACC
* **
819306 TTAGTGGCGTTTGTTAGAAAAATGCCGCAATAGA
1 TTAGCGGCGTTTGTTACTAAAATGCCGCAATAGA
819340 AGTGAAACTT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
82 56 0.58
83 6 0.06
84 35 0.36
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (83 bp):
TTAGCGGCGTTTGTTACTAAAATGCCGCAATAGAGCCGAACCTTAGTGGCGTTTGTCACTAAAAC
ACCACAATAGAGCCAACC
Found at i:820912 original size:13 final size:14
Alignment explanation
Indices: 820889--820917 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
820879 GAAAACCAAG
820889 ATCGTAAAAAGAAA
1 ATCGTAAAAAGAAA
820903 ATCG-AAAAAGAAA
1 ATCGTAAAAAGAAA
820916 AT
1 AT
820918 GCAGACCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
ATCGTAAAAAGAAA
Found at i:823422 original size:16 final size:18
Alignment explanation
Indices: 823390--823424 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
823380 ATATAAAAAC
823390 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
823408 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
823424 A
1 A
823425 ATGAGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:823549 original size:2 final size:2
Alignment explanation
Indices: 823532--823597 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
823522 AAAATAGGAA
* *
823532 AT AT AT AA AT AA 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
823574 AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
823598 CACTAATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:823629 original size:18 final size:17
Alignment explanation
Indices: 823532--823628 Score: 87
Period size: 16 Copynumber: 5.8 Consensus size: 17
823522 AAAATAGGAA
823532 ATATATA-AATAAATAT
1 ATATATATAATAAATAT
*
823548 ATATATAT-ATATATAT
1 ATATATATAATAAATAT
*
823564 ATATATAT-ATATATAT
1 ATATATATAATAAATAT
823580 ATATATAT-ATATAATAT
1 ATATATATAATA-AATAT
* * *
823597 ACACTA-ATAAAAAAACAT
1 ATA-TATAT-AATAAATAT
823615 ATATATATAATAAA
1 ATATATATAATAAA
823629 ATTAATAGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
16 41 0.60
17 15 0.22
18 10 0.15
19 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATATATAATAAATAT
Found at i:823640 original size:29 final size:31
Alignment explanation
Indices: 823582--823640 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
823572 ATATATATAT
*
823582 ATATATATATAATATACACTAATAAAAAAAC
1 ATATATATATAATATAAACTAATAAAAAAAC
* *
823613 ATATATATATAATA-AAATTAATAGAAAA
1 ATATATATATAATATAAACTAATAAAAAA
823641 TAATATGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (31 bp):
ATATATATATAATATAAACTAATAAAAAAAC
Found at i:824944 original size:105 final size:105
Alignment explanation
Indices: 824643--825821 Score: 1697
Period size: 105 Copynumber: 11.3 Consensus size: 105
824633 CATTGTTCCA
* * ** *
824643 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * *
824707 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
824749 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
* *
824809 AGCGATCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
824849 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
824914 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
824954 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
825014 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
825054 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
825119 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
825159 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
825219 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
825259 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
825324 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
825364 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
825429 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
825469 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAGTTG-TTGTTGACAA
825534 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
825576 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAC
* * * *
825641 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
825682 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAC
* * * *
825747 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
825788 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
825822 CGCGGATGGC
Statistics
Matches: 992, Mismatches: 60, Indels: 39
0.91 0.05 0.04
Matches are distributed among these distances:
100 260 0.26
101 12 0.01
102 9 0.01
103 2 0.00
104 15 0.02
105 374 0.38
106 200 0.20
107 99 0.10
109 21 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:824996 original size:205 final size:206
Alignment explanation
Indices: 824643--825821 Score: 1761
Period size: 205 Copynumber: 5.7 Consensus size: 206
824633 CATTGTTCCA
* * * ** *
824643 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * ** *
824708 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
** * *
824773 TTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGATCCCTTCATCGTGAAGTTGAACTT
131 TTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
824838 GCGTTGTCTGG
196 GCGTTGTCTGG
* ** *
824849 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTG-TTGTTGACAAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
824913 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
824978 TTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
131 TTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
825043 GCGTTGTCTGG
196 GCGTTGTCTGG
* * *
825054 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTG-TTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
825118 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
825183 TTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
131 TTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
825248 GCGTTGTCTGG
196 GCGTTGTCTGG
* * *
825259 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTG-TTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
825323 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
825388 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
825453 AACTTGCGTTGTCTGG
191 AACTTGCGTTGTCTGG
* * *
825469 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTTGTTTGTTGACAA
*
825534 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
825599 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
130 GTTGAAATTGGCTCTG-AA-TGA-AA--T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
* *
825664 TGAACTTGTGTTGTCTCG
189 TGAACTTGCGTTGTCTGG
* * *
825682 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * ** * * *
825747 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCCACGATATCCTCCGTCGTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGT-CCA--ATATCCTTCGTTGTG
*
825812 GAGTTGAAAT
128 AAGTTGAAAT
825822 CGCGGATGGC
Statistics
Matches: 908, Mismatches: 50, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
205 486 0.54
206 47 0.05
207 1 0.00
209 5 0.01
210 97 0.11
211 6 0.01
212 147 0.16
213 96 0.11
214 1 0.00
215 22 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (206 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGG
Found at i:825195 original size:310 final size:311
Alignment explanation
Indices: 824643--825821 Score: 1682
Period size: 310 Copynumber: 3.8 Consensus size: 311
824633 CATTGTTCCA
* * * *
824643 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAA-C-TGAAAGTGTTTGTTGACAAC
* *
824708 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
** * * *
824773 TTGAAATTGAATCTGA-A-TGAAA-TT-TTGTTGACAAGCAGCGATCCCTTCATCGTGAAGTTGA
128 TTGAAATTGGCTCTGAGATTGAAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* * *
824834 ACTTGCGTTGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAG
193 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GGATTGGGAAA
*
824899 TTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
257 TTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
824954 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-TGAAA-T-TTTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTGTTTGTTGACAACCAG
* *
825016 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
*
825081 AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AAATTGGCTCTGAGATT-GAAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
825146 TTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAT--GAAATT-
195 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGATTGGGAAATTG
*
825207 TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
260 TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
825259 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGT-TGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ACT-GAAAGTGT-TTGTTGACAAC
* * *
825323 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
*
825388 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
128 TTGAAATTGGCTCTGAGATT-GAAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
825453 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
192 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-GATTGGG-A
* *
825518 AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
255 AATTG-TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
825576 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AACTGA-AAG-TGTTTGTTGACAAC
* * *
825641 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTTGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
* * * *
825706 TTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
128 TTGAAATTGGCTCTGAGATTGA-AAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * * *
825771 GAACTTGTGTTGTCTCGAGTGCCACGATATCCTCCG-TCGTGGAGTTGAAAT
191 GAACTTGCGTTGTCTGGAGT-CCA--ATATCCTTCGCT-GTGAAGTTGAAAT
825822 CGCGGATGGC
Statistics
Matches: 796, Mismatches: 45, Indels: 43
0.90 0.05 0.05
Matches are distributed among these distances:
305 175 0.22
306 8 0.01
307 6 0.01
308 11 0.01
309 4 0.01
310 279 0.35
311 35 0.04
312 2 0.00
314 1 0.00
315 5 0.01
316 2 0.00
317 96 0.12
318 95 0.12
319 52 0.07
320 3 0.00
321 1 0.00
322 21 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (311 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTGTTTGTTGACAACCAG
CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTCTGAGATTGAAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGATTGGGAAATTGT
TGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:826598 original size:65 final size:66
Alignment explanation
Indices: 826425--826608 Score: 219
Period size: 65 Copynumber: 2.8 Consensus size: 66
826415 AAGATATCTG
* * * **
826425 TTGTTTTAAGGGAAACGGTCTTAAGGGAGACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGAT
826490 TT
65 TT
* * *
826492 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGA-
1 T-TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
826556 TT
65 TT
** * *
826558 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
826609 CTGTCTCAAG
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
65 38 0.38
66 7 0.07
67 24 0.24
68 31 0.31
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
T
Found at i:826609 original size:36 final size:36
Alignment explanation
Indices: 826557--826773 Score: 319
Period size: 36 Copynumber: 6.0 Consensus size: 36
826547 ATTCAAAGAT
* *
826557 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
826594 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
826629 CTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
826666 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
826702 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
826738 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
826774 CTCTTCTAGT
Statistics
Matches: 161, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.02
36 125 0.78
37 32 0.20
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:827281 original size:18 final size:18
Alignment explanation
Indices: 827254--827289 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
827244 TGTTGAATCC
* *
827254 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
827272 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
827290 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:827730 original size:22 final size:22
Alignment explanation
Indices: 827705--827755 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
827695 TTGTGTTTGG
827705 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
827727 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
827749 TCAAAGG
1 TCAAAGG
827756 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:828412 original size:7 final size:7
Alignment explanation
Indices: 828364--828434 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
828354 TTTTTGTCCC
828364 CTTTTTT
1 CTTTTTT
828371 -TATTTTT
1 CT-TTTTT
* *
828378 GTTCTTT
1 CTTTTTT
828385 CTTTTTT
1 CTTTTTT
* *
828392 GTTCTTGT
1 CTT-TTTT
828400 -TTTTTT
1 CTTTTTT
828406 CTTTTTT
1 CTTTTTT
828413 GCTTCTTTT
1 -CTT-TTTT
828422 CTTTTTT
1 CTTTTTT
828429 CTTTTT
1 CTTTTT
828435 GTCCTTTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
6 4 0.08
7 34 0.65
8 10 0.19
9 4 0.08
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.80
Consensus pattern (7 bp):
CTTTTTT
Found at i:828412 original size:23 final size:23
Alignment explanation
Indices: 828382--828434 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
828372 ATTTTTGTTC
828382 TTTCTTTTTTG-TTCTTGT-TTT
1 TTTCTTTTTTGCTTCTTGTCTTT
*
828403 TTTCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGTCTTT
828426 TTTCTTTTT
1 TTTCTTTTT
828435 GTCCTTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 11 0.38
22 6 0.21
23 12 0.41
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTCTTTTTTGCTTCTTGTCTTT
Found at i:828421 original size:16 final size:16
Alignment explanation
Indices: 828402--828448 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
828392 GTTCTTGTTT
828402 TTTTCTTTTTTGCTTC
1 TTTTCTTTTTTGCTTC
828418 TTTTCTTTTTT-CTT-
1 TTTTCTTTTTTGCTTC
*
828432 TTTGTCCTTTTTG-TTC
1 TTT-TCTTTTTTGCTTC
828448 T
1 T
828449 GATTGAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.11
15 12 0.44
16 12 0.44
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTTTGCTTC
Found at i:828441 original size:21 final size:21
Alignment explanation
Indices: 828365--828443 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 21
828355 TTTTGTCCCC
*
828365 TTTTT-TTATTTTTGTTCTTTCT
1 TTTTTGTTCTTTTT-TT-TTTCT
*
828387 TTTTTGTTCTTGTTTTTTTCT
1 TTTTTGTTCTTTTTTTTTTCT
828408 TTTTTGCTTCTTTTCTTTTTTC-
1 TTTTTG-TTCTTTT-TTTTTTCT
*
828430 TTTTTGTCCTTTTT
1 TTTTTGTTCTTTTT
828444 GTTCTGATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.02
21 17 0.34
22 19 0.38
23 13 0.26
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.80
Consensus pattern (21 bp):
TTTTTGTTCTTTTTTTTTTCT
Found at i:829606 original size:8 final size:8
Alignment explanation
Indices: 829593--829628 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
829583 GTAGATGAAG
829593 ATGCAAAA
1 ATGCAAAA
829601 ATGCAAAA
1 ATGCAAAA
829609 ATGC-AAA
1 ATGCAAAA
*
829616 ATGCAAGA
1 ATGCAAAA
829624 ATGCA
1 ATGCA
829629 TGAAATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:829618 original size:15 final size:15
Alignment explanation
Indices: 829593--829628 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
829583 GTAGATGAAG
829593 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
829609 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
829624 ATGCA
1 ATGCA
829629 TGAAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:831614 original size:20 final size:19
Alignment explanation
Indices: 831571--831659 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 19
831561 TATAAAAACA
**
831571 TAAAATATAGGATAAATA-
1 TAAAATATATAATAAATAG
*
831589 TAAAATAGATAATAAATGAG
1 TAAAATATATAATAAAT-AG
831609 TAAAATATATAA-AAA-AG
1 TAAAATATATAATAAATAG
*
831626 T-AAATATATATATATATAAG
1 TAAAATATATA-ATAAAT-AG
831646 TAAAATA-ATAATAA
1 TAAAATATATAATAA
831660 TAAAAAAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
16 9 0.16
17 4 0.07
18 16 0.28
19 7 0.12
20 17 0.29
21 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
TAAAATATATAATAAATAG
Found at i:831730 original size:2 final size:2
Alignment explanation
Indices: 831713--831761 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
831703 AAAATAGGAA
* *
831713 AT AT AT AA AT AA 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
831755 AT AT AT A
1 AT AT AT A
831762 ATAACACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:831838 original size:32 final size:32
Alignment explanation
Indices: 831747--831840 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 32
831737 ATATATATAT
* *
831747 ATATATATATATATAATAACACTAATAAAAAAC
1 ATATATACATATATAATAA-AATAATAAAAAAC
* *
831780 ATATATACATATATAATAAAATTAATAGAAAAT
1 ATATATACATATATAATAAAA-TAATAAAAAAC
* *
831813 A-ATATGCATATATAACAAGAATAATAAA
1 ATATATACATATATAATAA-AATAATAAA
831841 GTAGGAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 22 0.42
33 30 0.58
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (32 bp):
ATATATACATATATAATAAAATAATAAAAAAC
Found at i:832369 original size:29 final size:30
Alignment explanation
Indices: 832332--832407 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
832322 AAAATATATA
* *
832332 ACTTCAGGTACTTATTTTGATAAAA-AAAT
1 ACTTTAGGTACTTATTTTGAGAAAAGAAAT
* *
832361 ACTTTAGGTACTTCA--ATGAGAAAATGATAT
1 ACTTTAGGTACTT-ATTTTGAGAAAA-GAAAT
832391 ACTTTAGGTACTTATTT
1 ACTTTAGGTACTTATTT
832408 GTTATATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
28 7 0.19
29 13 0.35
30 17 0.46
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (30 bp):
ACTTTAGGTACTTATTTTGAGAAAAGAAAT
Found at i:832544 original size:17 final size:17
Alignment explanation
Indices: 832519--832559 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
832509 CACTTCAATC
*
832519 CTTTCCATTCTGTTTTT
1 CTTTACATTCTGTTTTT
*
832536 CTTTACATTCTTTTTTT
1 CTTTACATTCTGTTTTT
832553 CTTTACA
1 CTTTACA
832560 CTCATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.63
Consensus pattern (17 bp):
CTTTACATTCTGTTTTT
Done.