Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 63 of 199
Found at i:17955185 original size:5 final size:5
Alignment explanation
Indices: 17955175--17955204 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
17955165 GGGTAAATAG
17955175 TTAAT TTAAT TTAAT TTAAT TT-AT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT T
17955205 ATATTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:17957723 original size:20 final size:20
Alignment explanation
Indices: 17957686--17957725 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17957676 GGTACAGTTC
* *
17957686 TTTGAAAACCAAATTAAAAT
1 TTTGAAAAACAAAATAAAAT
*
17957706 TTTGAAAAATAAAATAAAAT
1 TTTGAAAAACAAAATAAAAT
17957726 AAAACCCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
TTTGAAAAACAAAATAAAAT
Found at i:17961572 original size:16 final size:16
Alignment explanation
Indices: 17961551--17961581 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17961541 ATTTCACTAT
*
17961551 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
17961567 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
17961582 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:17963577 original size:76 final size:74
Alignment explanation
Indices: 17963485--17963698 Score: 320
Period size: 76 Copynumber: 2.8 Consensus size: 74
17963475 CTGGAGTATA
* *
17963485 TTGAATATAAAAGGGGTTGCTAAGTGCTAATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
17963550 CCACCATATC
65 CCACCATATC
*
17963560 TTGGAATATAAAGGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAT
1 TT-GAATATAAA-GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAT
*
17963625 TCCACCGTATC
64 TCCACCATATC
* * * *
17963636 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
1 TTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGA
17963699 ATTCACCGAT
Statistics
Matches: 127, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
75 57 0.45
76 70 0.55
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (74 bp):
TTGAATATAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTC
CACCATATC
Found at i:17963617 original size:33 final size:33
Alignment explanation
Indices: 17963575--17963708 Score: 124
Period size: 33 Copynumber: 3.8 Consensus size: 33
17963565 ATATAAAGGG
*
17963575 GGTTGCTAAGTACTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
17963608 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
17963650 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
17963683 GGTTGCTAAGTGCTGAATTCACCGAT
1 GGTTGCTAAGTGCTG-ATTCCCCGAT
17963709 AACGGATAAC
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
33 35 0.43
34 11 0.13
35 1 0.01
36 2 0.02
37 3 0.04
38 3 0.04
39 2 0.02
40 1 0.01
41 3 0.04
42 21 0.26
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:17965854 original size:11 final size:11
Alignment explanation
Indices: 17965814--17965889 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
17965804 ATTCTAAATA
*
17965814 TAATATTATTT
1 TAATATTAATT
17965825 TAATAGTTTAATAT
1 TAATA--TTAAT-T
17965839 TAATATTAATT
1 TAATATTAATT
17965850 TAATACTT-ATCT
1 TAATA-TTAAT-T
* *
17965862 TAGTAGT-ATT
1 TAATATTAATT
17965872 T--TATTAATT
1 TAATATTAATT
17965881 TAATATTAA
1 TAATATTAA
17965890 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 22 0.42
12 12 0.23
13 4 0.08
14 6 0.11
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:17966976 original size:20 final size:20
Alignment explanation
Indices: 17966953--17967003 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
17966943 AACAATCAAC
*
17966953 TGAAACTAAGAACAAATGAT
1 TGAAACCAAGAACAAATGAT
*
17966973 TGAAACCAAGAACAATTGAT
1 TGAAACCAAGAACAAATGAT
*
17966993 TAAAACCAAGA
1 TGAAACCAAGA
17967004 GTAAAAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (20 bp):
TGAAACCAAGAACAAATGAT
Found at i:17967109 original size:20 final size:20
Alignment explanation
Indices: 17967084--17967124 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17967074 ACTAACAACT
17967084 TACTAAACAAACTTAAGAAC
1 TACTAAACAAACTTAAGAAC
* *
17967104 TACTAAATAAACTTAATAAC
1 TACTAAACAAACTTAAGAAC
17967124 T
1 T
17967125 TCCTAGCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (20 bp):
TACTAAACAAACTTAAGAAC
Found at i:17969716 original size:41 final size:41
Alignment explanation
Indices: 17969595--17969718 Score: 113
Period size: 41 Copynumber: 3.0 Consensus size: 41
17969585 TATAGGCTGG
* * * * *
17969595 CCAACCACACGACCATGTAACCTACATGGTCTGGCACACGA
1 CCAACCACACGACCGTATGACCCACATGGTCTGCCACACGA
* * ** *
17969636 CCAACCACACGACCGTATGACCCCCATTGTCTGTTACACGG
1 CCAACCACACGACCGTATGACCCACATGGTCTGCCACACGA
* ** * *
17969677 CCTACCACACGGTCGTGTGACCCATATGGTCTGCCACACGA
1 CCAACCACACGACCGTATGACCCACATGGTCTGCCACACGA
17969718 C
1 C
17969719 TGTATGGTGT
Statistics
Matches: 64, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.26, C:0.38, G:0.19, T:0.18
Consensus pattern (41 bp):
CCAACCACACGACCGTATGACCCACATGGTCTGCCACACGA
Found at i:17970776 original size:14 final size:15
Alignment explanation
Indices: 17970757--17970785 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17970747 TGATCACTCT
17970757 TGATTTC-ACTAACC
1 TGATTTCTACTAACC
17970771 TGATTTCTACTAACC
1 TGATTTCTACTAACC
17970786 CGGCCGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (15 bp):
TGATTTCTACTAACC
Found at i:17974233 original size:9 final size:9
Alignment explanation
Indices: 17974200--17974304 Score: 63
Period size: 9 Copynumber: 11.6 Consensus size: 9
17974190 GATTTGTTTT
17974200 TTTTTTATA
1 TTTTTTATA
* * *
17974209 TATTATAGTT
1 TTTTTTA-TA
17974219 TTTTTTATA
1 TTTTTTATA
17974228 TTTTTTATA
1 TTTTTTATA
*
17974237 --TATTATA
1 TTTTTTATA
*
17974244 GTTTTTATA
1 TTTTTTATA
17974253 TTTTTTATA
1 TTTTTTATA
* *
17974262 TATTATATA
1 TTTTTTATA
*
17974271 TTATATTA-A
1 TT-TTTTATA
*
17974280 TTCTTTTACA
1 TT-TTTTATA
*
17974290 CTTTTTATAA
1 TTTTTTAT-A
17974300 TTTTT
1 TTTTT
17974305 GGAGATGTAA
Statistics
Matches: 71, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
7 6 0.08
9 49 0.69
10 16 0.23
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTTATA
Found at i:17974248 original size:25 final size:26
Alignment explanation
Indices: 17974200--17974268 Score: 113
Period size: 25 Copynumber: 2.6 Consensus size: 26
17974190 GATTTGTTTT
17974200 TTTTTTATATATTATAGTTTTTTTTATA
1 TTTTTTATATATTATAG--TTTTTTATA
17974228 TTTTTTATATATTATAG-TTTTTATA
1 TTTTTTATATATTATAGTTTTTTATA
17974253 TTTTTTATATATTATA
1 TTTTTTATATATTATA
17974269 TATTATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 24 0.59
28 17 0.41
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTTTATATATTATAGTTTTTTATA
Found at i:17976085 original size:29 final size:30
Alignment explanation
Indices: 17976040--17976099 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
17976030 TTTGATCCAA
*
17976040 TGTGCAATTTGATACA-TAATA-TTTGATTT
1 TGTGCAATTTGACACATTAA-AGTTTGATTT
17976069 TGTGCAATTAT-ACACATTAAAGTTTGATTT
1 TGTGCAATT-TGACACATTAAAGTTTGATTT
17976099 T
1 T
17976100 AATTCAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (30 bp):
TGTGCAATTTGACACATTAAAGTTTGATTT
Found at i:17976097 original size:30 final size:32
Alignment explanation
Indices: 17976061--17976122 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
17976051 ATACATAATA
*
17976061 TTTGATTTT-GTGCAATTATACACA-TTAAAG
1 TTTGATTTTAATGCAATTATACACATTTAAAG
* *
17976091 TTTGATTTTAATTCAATTGTACACATTTAAAG
1 TTTGATTTTAATGCAATTATACACATTTAAAG
17976123 AAATGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 9 0.33
31 12 0.44
32 6 0.22
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (32 bp):
TTTGATTTTAATGCAATTATACACATTTAAAG
Found at i:17977132 original size:15 final size:14
Alignment explanation
Indices: 17977104--17977142 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
17977094 TGTTAATTGC
*
17977104 ATAAAATGTAAATAT
1 ATAAAAT-TTAATAT
17977119 ATAATAATTTAATAT
1 ATAA-AATTTAATAT
17977134 ATAAAATTT
1 ATAAAATTT
17977143 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 14 0.64
16 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATAAAATTTAATAT
Found at i:17977187 original size:17 final size:16
Alignment explanation
Indices: 17977147--17977188 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
17977137 AAATTTTTTA
17977147 TATTTAAAA-ATAAAT
1 TATTTAAAATATAAAT
* *
17977162 AATTAAAAATATTAAAT
1 TATTTAAAATA-TAAAT
17977179 TATTTAAAAT
1 TATTTAAAAT
17977189 TGGTTCCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 13 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATTTAAAATATAAAT
Found at i:17978615 original size:64 final size:64
Alignment explanation
Indices: 17978491--17978615 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 64
17978481 ACACATGCCC
* * * *
17978491 GTGTCCTTGGCCCATGTGATCATTATCTTATAATTAGTGAGTTACACGGCCTAGATACACGCTT
1 GTGTCCTTAGCCCATGAGATCATTATCTTATAATCAGTGAGTTACACGGCCTAGACACACGCTT
* * * *
17978555 GTGTCCTTAGCCCGTGAGATCCTTATCTTGTAATCAGTGAGTTACATGGCCT-GAACACACG
1 GTGTCCTTAGCCCATGAGATCATTATCTTATAATCAGTGAGTTACACGGCCTAG-ACACACG
17978616 TCTGTCTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 1 0.02
64 51 0.98
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGTCCTTAGCCCATGAGATCATTATCTTATAATCAGTGAGTTACACGGCCTAGACACACGCTT
Found at i:17978632 original size:64 final size:64
Alignment explanation
Indices: 17978494--17978634 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
17978484 CATGCCCGTG
* * * * *
17978494 TCCTTGGCCCATGTGATCATTATCTTATAATTAGTGAGTTACACGGCCTAGATACACGCTTGTG
1 TCCTTGGCCCGTGAGATCATTATCTTATAATCAGTGAGTTACACGGCCTAGACACACGCTTGTC
* * * *
17978558 TCCTTAGCCCGTGAGATCCTTATCTTGTAATCAGTGAGTTACATGGCCT-GAACACACG-TCTGT
1 TCCTTGGCCCGTGAGATCATTATCTTATAATCAGTGAGTTACACGGCCTAG-ACACACGCT-TGT
17978621 C
64 C
*
17978622 TTCTTGGCCCGTG
1 TCCTTGGCCCGTG
17978635 TGAACCCTGC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.03
64 62 0.97
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (64 bp):
TCCTTGGCCCGTGAGATCATTATCTTATAATCAGTGAGTTACACGGCCTAGACACACGCTTGTC
Found at i:17980055 original size:8 final size:9
Alignment explanation
Indices: 17980035--17980095 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
17980025 AGTTTTTATG
17980035 AAAATATTA
1 AAAATATTA
17980044 AAAATATTA
1 AAAATATTA
17980053 AAAATGATTTA
1 AAAAT-A-TTA
** *
17980064 AAGTTATAA
1 AAAATATTA
* *
17980073 AAAATGTAA
1 AAAATATTA
17980082 AAAATATATA
1 AAAATAT-TA
17980092 AAAA
1 AAAA
17980096 CTTGAACCGG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
9 28 0.68
10 7 0.17
11 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (9 bp):
AAAATATTA
Found at i:17981585 original size:2 final size:2
Alignment explanation
Indices: 17981578--17981605 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17981568 CTGCCCTCAC
17981578 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17981606 TTATGTGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17983273 original size:53 final size:53
Alignment explanation
Indices: 17983215--17983326 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 53
17983205 ATTCATTTAT
* * **
17983215 TATTTTTGT-TTGCACATATTT-TTAATTTTTATAAATGTATACATATATATACA
1 TATTTTTATATTGCACATATTTCATAATTTTTAT--ATACATACATATATATACA
*** *
17983268 TATTTTTATATTTTTCATATTTCATAATTTTTATATACCTACATATATATACA
1 TATTTTTATATTGCACATATTTCATAATTTTTATATACATACATATATATACA
17983321 TATTTT
1 TATTTT
17983327 ACTTCATGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 30 0.61
54 9 0.18
55 10 0.20
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (53 bp):
TATTTTTATATTGCACATATTTCATAATTTTTATATACATACATATATATACA
Found at i:17983370 original size:23 final size:23
Alignment explanation
Indices: 17983344--17983401 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
17983334 GTACATACTT
17983344 ATATATATTCTT-TATATTTTAAA
1 ATATATATT-TTATATATTTTAAA
*
17983367 ATATATATTTTATATATTTT--T
1 ATATATATTTTATATATTTTAAA
17983388 ATATATATTTTATA
1 ATATATATTTTATA
17983402 ATTCACATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 14 0.42
22 2 0.06
23 17 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATATATTTTATATATTTTAAA
Found at i:17983383 original size:11 final size:11
Alignment explanation
Indices: 17983367--17983401 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
17983357 ATATTTTAAA
17983367 ATATATATTTT
1 ATATATATTTT
17983378 ATATAT-TTTT
1 ATATATATTTT
17983388 ATATATATTTT
1 ATATATATTTT
17983399 ATA
1 ATA
17983402 ATTCACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATATATTTT
Found at i:17983442 original size:25 final size:26
Alignment explanation
Indices: 17983387--17983444 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
17983377 TATATATTTT
*
17983387 TATATATATTTTATAATTCACATATA
1 TATACATATTTTATAATTCACATATA
* * * *
17983413 CATACATATTTT-TAATTTATATCTA
1 TATACATATTTTATAATTCACATATA
17983438 TATACAT
1 TATACAT
17983445 GTATATCTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (26 bp):
TATACATATTTTATAATTCACATATA
Found at i:17983940 original size:70 final size:68
Alignment explanation
Indices: 17983827--17983964 Score: 197
Period size: 70 Copynumber: 2.0 Consensus size: 68
17983817 CAAACTCAAG
** *
17983827 TTTTAAACGATCTCGAGAATTATGAGGAGATCGTGTCCTAACTTACTGGGTATGATCTCTTTTTC
1 TTTTAAACGATCTCGAGAATTATGAAAAGATCGTGTCCTAACTTACTGGGAATGA-C-CTTTTTC
17983892 TTAAA
64 TTAAA
* *
17983897 TTTTAAACGATCTCGGGAATTAAT-AAAAGATCGTGTCCTAACTTACTGGGAATGACCTTTTTTT
1 TTTTAAACGATCTCGAGAATT-ATGAAAAGATCGTGTCCTAACTTACTGGGAATGACCTTTTTCT
17983961 TAAA
65 TAAA
17983965 ATCCGAGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 11 0.18
69 1 0.02
70 48 0.77
71 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (68 bp):
TTTTAAACGATCTCGAGAATTATGAAAAGATCGTGTCCTAACTTACTGGGAATGACCTTTTTCTT
AAA
Found at i:17985823 original size:24 final size:24
Alignment explanation
Indices: 17985796--17985843 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17985786 AAATTAGTAA
17985796 GTCAAATAAACTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
* *
17985820 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
17985844 ACTAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
GTCAAATAAACTATACTAATAAAT
Found at i:17987966 original size:38 final size:36
Alignment explanation
Indices: 17987898--17987970 Score: 85
Period size: 38 Copynumber: 2.0 Consensus size: 36
17987888 TCACTCTAAT
*
17987898 ATTAAATTAATATAATACTTATCAAGATAATTATTAG
1 ATTAAATTAATATAATACTTATCAAAATAA-TATTAG
* *
17987935 ATTAAATTTAATATTAA-ATTTATTAAAATAATATTA
1 ATTAAA-TTAATA-TAATACTTATCAAAATAATATTA
17987971 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 11 0.35
38 17 0.55
39 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
ATTAAATTAATATAATACTTATCAAAATAATATTAG
Found at i:17988502 original size:17 final size:17
Alignment explanation
Indices: 17988480--17988513 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17988470 AAAATTTATT
*
17988480 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
17988497 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
17988514 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:17990608 original size:26 final size:26
Alignment explanation
Indices: 17990589--17990648 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
17990579 CAAAGCTGCG
17990589 AGTAACAGTATTACAGCAAAACTGTC
1 AGTAACAGTATTACAGCAAAACTGTC
**
17990615 AGTAACAGTATCGCAGCAAAACTGTC
1 AGTAACAGTATTACAGCAAAACTGTC
17990641 AGTAACAG
1 AGTAACAG
17990649 AATTGCTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
AGTAACAGTATTACAGCAAAACTGTC
Found at i:17994190 original size:13 final size:13
Alignment explanation
Indices: 17994172--17994196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17994162 TTTAAATTAT
17994172 TTTTCTATAAAAA
1 TTTTCTATAAAAA
17994185 TTTTCTATAAAA
1 TTTTCTATAAAA
17994197 TAAATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTCTATAAAAA
Found at i:17994561 original size:2 final size:2
Alignment explanation
Indices: 17994554--17994580 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17994544 ACTCGCACCG
17994554 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17994581 AAGCTGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17997140 original size:21 final size:20
Alignment explanation
Indices: 17997116--17997169 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
17997106 AATAAAAAGG
17997116 ATAAATTTTAAAACAATGTTA
1 ATAAATTTTAAAAC-ATGTTA
* *
17997137 ATAAACTCT-AAACATGTTA
1 ATAAATTTTAAAACATGTTA
17997156 ATAATAATTTTAAA
1 AT-A-AATTTTAAA
17997170 TAATTGTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 11 0.42
22 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (20 bp):
ATAAATTTTAAAACATGTTA
Found at i:17999626 original size:43 final size:43
Alignment explanation
Indices: 17999367--17999637 Score: 314
Period size: 43 Copynumber: 6.3 Consensus size: 43
17999357 GCGTTGCTAA
* *
17999367 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
17999410 CTTTAGCGGCGC-TTTCCAATAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
17999452 CTTTAGCGGCGCTTTTCTCACAAGCACCGCTAAAGA-CAAGTAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG-AC
* * * *
17999495 CTTTAGCGGCGCTTTTCCCACAATCACCGCTAAAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
17999538 ATTTAGCGGGGCTTTTGCCACAAACGCCGCTAAAGACCAATAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
** *
17999581 CTTTAGCGATGCTTTTCCCACAAACGCCGCTAAAG-CTCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC-CAAGAC
*
17999624 CTTTAGCGACGCTT
1 CTTTAGCGGCGCTT
17999638 CTATTAAAAA
Statistics
Matches: 193, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
42 43 0.22
43 147 0.76
44 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:17999628 original size:129 final size:128
Alignment explanation
Indices: 17999364--17999637 Score: 354
Period size: 129 Copynumber: 2.1 Consensus size: 128
17999354 ACCGCGTTGC
* *
17999364 TAACTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCAA
1 TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTCCAA
* * * * *
17999429 TAAACGTCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAGCACCGCTAAAGACAAG
66 CAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACAAG
* * * *
17999492 TAACTTTAGCGGCGCTTTTCCCACAATCACCGCTAAAGATCAGGACATTTAGCGGGGCTTTTGCC
1 TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCGC-TTT-CC
* * * * *
17999557 -ACAAACGCCGCTAAAGACCAATACCTTTAGCGATGCTTTTCCCACAAACGCCGCTAAAGCTCAT
64 AACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAG-ACAA
17999621 G
128 G
*
17999622 -ACCTTTAGCGACGCTT
1 TAACTTTAGCGACGCTT
17999638 CTATTAAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
128 52 0.42
129 68 0.54
130 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (128 bp):
TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTCCAA
CAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACAAG
Found at i:18001084 original size:41 final size:41
Alignment explanation
Indices: 18000981--18001218 Score: 247
Period size: 41 Copynumber: 5.9 Consensus size: 41
18000971 TAGATTATAT
* * * * *
18000981 TAAATCCCTGAGCATTAGCGGCGCTTT-TTAAAAATGCCAC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAACGCCGC
** *
18001021 TAAA--AATAGAGAATTAGCGGCGC-TTCTTCAAAAACGCCGC
1 TAAAGCCCT-GAGTATTAGCGGCGCTTTC-TCAAAAACGCCGC
*
18001061 TAAAGCCCTGAGTATTAGCGGCGC-TACTTCAAAAACGCCGC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTC-TCAAAAACGCCGC
* * *
18001102 TAAATCCTTGA-TCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGT-ATTAGCGGCGCTTTCTCAAAAACGCCGC
*
18001143 TAAAGCCCTGA-TCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGT-ATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
18001184 TAAAGCCCTGAGCATTAGTGGCGCTTTCTCAAAAA
1 TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAA
18001219 AACGCCGTTA
Statistics
Matches: 171, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
38 3 0.02
39 14 0.08
40 19 0.11
41 132 0.77
42 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:18001656 original size:16 final size:17
Alignment explanation
Indices: 18001630--18001662 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18001620 TATAAAGTAG
*
18001630 AAAAATCAAATTGTATA
1 AAAAATCAAATTATATA
18001647 AAAAAT-AAATTATATA
1 AAAAATCAAATTATATA
18001663 GTTCAAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATCAAATTATATA
Found at i:18006204 original size:43 final size:43
Alignment explanation
Indices: 18006112--18006327 Score: 305
Period size: 42 Copynumber: 5.1 Consensus size: 43
18006102 TTTTTAAAAG
*
18006112 CGCCGCTAAAGAACATGTTCTTTAGCGGCAC-TTTTACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
*
18006154 CGCCGCTAAAGAACATGTTCTTTAGCAGCGCTTTTTACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
* *
18006197 CGCCGCTAAAG-TCATGTTCTTTAGCGGCGCTTTTAACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
** * *
18006239 CGCCGCTAAAGTTCATGTTCTTTAGCGGCGCTTCTAACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
* *
18006282 CGCCGCTAAAGCTA-ATG-TCTTTAGTGGCGCTTTTTACACAAA
1 CGCCGCTAAAG-AACATGTTCTTTAGCGGCGCTTTTTACACAAA
18006324 CGCC
1 CGCC
18006328 ACTATTTGTT
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
42 94 0.58
43 66 0.41
44 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
Found at i:18006243 original size:85 final size:85
Alignment explanation
Indices: 18006112--18006327 Score: 310
Period size: 85 Copynumber: 2.5 Consensus size: 85
18006102 TTTTTAAAAG
* *
18006112 CGCCGCTAAAGAACATGTTCTTTAGCGGCACTTTTACACAAACGCCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTACACAAACGCCGCTAAAGAACATGTTCTTT
* *
18006177 AGCAGCGCTTTTTACACAAA
66 AGCAGCGCTTCTAACACAAA
**
18006197 CGCCGCTAAAG-TCATGTTCTTTAGCGGCGCTTTTAACACAAACGCCGCTAAAGTTCATGTTCTT
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAGAACATGTTCTT
*
18006261 TAGCGGCGCTTCTAACACAAA
65 TAGCAGCGCTTCTAACACAAA
* * *
18006282 CGCCGCTAAAGCTAATG-TCTTTAGTGGCGCTTTTTACACAAACGCC
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTTTACACAAACGCC
18006328 ACTATTTGTT
Statistics
Matches: 119, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
84 21 0.18
85 90 0.76
86 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (85 bp):
CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTACACAAACGCCGCTAAAGAACATGTTCTTT
AGCAGCGCTTCTAACACAAA
Found at i:18008177 original size:322 final size:322
Alignment explanation
Indices: 18007591--18008236 Score: 1222
Period size: 322 Copynumber: 2.0 Consensus size: 322
18007581 AATATAACTG
18007591 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
1 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
* *
18007656 ATTTTGTTACTATTGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTTG
66 ATTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTCG
18007721 TGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTGT
131 TGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTGT
* *
18007786 TTCTGGATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACGACCT
196 TTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACCT
18007851 CGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
261 CGACCTCTGCGCGT-CTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
18007914 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
1 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
18007979 ATTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCA-TTCG
66 ATTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTCG
*
18008043 TGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTGTTCCAACAGGCTGACCAAAACTGT
131 TGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTGT
18008108 TTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACCT
196 TTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACCT
*
18008173 CGACCTCTGCGCGTCTACCATTTTCAGGTGAAAAACGGTATATTATAATATAAGATTTTAAA
261 CGACCTCTGCGCGTCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
18008235 AA
1 AA
18008237 TAACCATACA
Statistics
Matches: 317, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
321 49 0.15
322 144 0.45
323 124 0.39
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (322 bp):
AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
ATTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTCG
TGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTGT
TTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACCT
CGACCTCTGCGCGTCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
Found at i:18019447 original size:24 final size:24
Alignment explanation
Indices: 18019420--18019467 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
18019410 AAATTAGTAA
18019420 GTCAAATAAACTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
* *
18019444 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
18019468 ACTAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
GTCAAATAAACTATACTAATAAAT
Found at i:18021533 original size:38 final size:36
Alignment explanation
Indices: 18021465--18021537 Score: 85
Period size: 38 Copynumber: 2.0 Consensus size: 36
18021455 TCACTCTAAT
*
18021465 ATTAAATTAATATAATACTTATCAAGATAATTATTAG
1 ATTAAATTAATATAATACTTATCAAAATAA-TATTAG
* *
18021502 ATTAAATTTAATATTAA-ATTTATTAAAATAATATTA
1 ATTAAA-TTAATA-TAATACTTATCAAAATAATATTA
18021538 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 11 0.35
38 17 0.55
39 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
ATTAAATTAATATAATACTTATCAAAATAATATTAG
Found at i:18024140 original size:26 final size:26
Alignment explanation
Indices: 18024121--18024180 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
18024111 CAAAGCTGCG
18024121 AGTAACAGTATTACAGCAAAACTGTC
1 AGTAACAGTATTACAGCAAAACTGTC
**
18024147 AGTAACAGTATCGCAGCAAAACTGTC
1 AGTAACAGTATTACAGCAAAACTGTC
18024173 AGTAACAG
1 AGTAACAG
18024181 AATTGCTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
AGTAACAGTATTACAGCAAAACTGTC
Found at i:18027715 original size:13 final size:13
Alignment explanation
Indices: 18027697--18027721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18027687 TTTAAATTAT
18027697 TTTTCTATAAAAA
1 TTTTCTATAAAAA
18027710 TTTTCTATAAAA
1 TTTTCTATAAAA
18027722 TAAATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTCTATAAAAA
Found at i:18028086 original size:2 final size:2
Alignment explanation
Indices: 18028079--18028107 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18028069 ACTCGCACCG
18028079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18028108 AAGCTGCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18030662 original size:21 final size:20
Alignment explanation
Indices: 18030638--18030691 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
18030628 AATAAAAAGG
18030638 ATAAATTTTAAAACAATGTTA
1 ATAAATTTTAAAAC-ATGTTA
* *
18030659 ATAAACTCT-AAACATGTTA
1 ATAAATTTTAAAACATGTTA
18030678 ATAATAATTTTAAA
1 AT-A-AATTTTAAA
18030692 TAATTGTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 11 0.42
22 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (20 bp):
ATAAATTTTAAAACATGTTA
Found at i:18032958 original size:43 final size:43
Alignment explanation
Indices: 18032890--18033161 Score: 321
Period size: 43 Copynumber: 6.3 Consensus size: 43
18032880 GCGTTGCTAA
*
18032890 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * * *
18032933 CTTTAGCGGCGCTTTTCCAATAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * * * * *
18032976 CTTTAGCGGCGCTTTTCTCACAAGCACCGCTAAAGACAAGTAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
18033019 CTTTAGCGGCGCTTTTCCCACAATCACCGCTAAAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * * **
18033062 ATTTAGCGGGGCTTTTGCCACAAACGCCGCTAAAGACCAATAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
** *
18033105 CTTTAGCGATGCTTTTCCCACAAACGCCGCTAAAG-CTCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC-CAGGAC
*
18033148 CTTTAGCGACGCTT
1 CTTTAGCGGCGCTT
18033162 CTATTAAAAA
Statistics
Matches: 192, Mismatches: 36, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 1 0.01
43 191 0.99
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
Found at i:18033119 original size:129 final size:129
Alignment explanation
Indices: 18032887--18033161 Score: 365
Period size: 129 Copynumber: 2.1 Consensus size: 129
18032877 ACCGCGTTGC
* *
18032887 TAACTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCA
1 TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTTCCA
* * * * *
18032952 ATAAACGTCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAGCACCGCTAAAGACAAG
66 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACAAG
* * * *
18033016 TAACTTTAGCGGCGCTTTTCCCACAATCACCGCTAAAGATCAGGACATTTAGCGGGGCTTTTGCC
1 TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTT-CC
* * * * *
18033081 -ACAAACGCCGCTAAAGACCAATACCTTTAGCGATGCTTTTCCCACAAACGCCGCTAAAGCTCAT
65 AACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAG-ACAA
18033145 G
129 G
*
18033146 -ACCTTTAGCGACGCTT
1 TAACTTTAGCGACGCTT
18033162 CTATTAAAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
129 121 0.96
130 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (129 bp):
TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCGCTTTTCCA
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACAAG
Found at i:18034606 original size:41 final size:41
Alignment explanation
Indices: 18034508--18034746 Score: 247
Period size: 41 Copynumber: 5.9 Consensus size: 41
18034498 TAGATTATAT
* * * * * *
18034508 TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAAATGCCAC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAACGCCGC
** *
18034549 TAAA--AATAGAGAATTAGCGGCGC-TTCTTCAAAAACGCCGC
1 TAAAGCCCT-GAGTATTAGCGGCGCTTTC-TCAAAAACGCCGC
*
18034589 TAAAGCCCTGAGTATTAGCGGCGC-TACTTCAAAAACGCCGC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTC-TCAAAAACGCCGC
* * *
18034630 TAAATCCTTGA-TCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGT-ATTAGCGGCGCTTTCTCAAAAACGCCGC
*
18034671 TAAAGCCCTGA-TCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGT-ATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
18034712 TAAAGCCCTGAGCATTAGTGGCGCTTTCTCAAAAA
1 TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAA
18034747 AACGCCGTTA
Statistics
Matches: 171, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.02
40 29 0.17
41 136 0.80
42 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:18035187 original size:17 final size:18
Alignment explanation
Indices: 18035160--18035193 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18035150 TATAAAGTAG
*
18035160 AAAAATCAAATTGTATAA
1 AAAAATCAAATTATATAA
18035178 AAAAAT-AAATTATATA
1 AAAAATCAAATTATATA
18035194 GTTCAAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAATCAAATTATATAA
Found at i:18039710 original size:43 final size:43
Alignment explanation
Indices: 18039662--18039880 Score: 323
Period size: 43 Copynumber: 5.1 Consensus size: 43
18039652 TTTTTAAAAG
*
18039662 CGCCGCTAAAGAACATGTTCTTTAGCGGCACTTTTTACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
*
18039705 CGCCGCTAAAGAACATGTTCTTTAGCAGCGCTTTTTACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
** *
18039748 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTAACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
** * *
18039791 CGCCGCTAAAGTTCATGTTCTTTAGCGGCGCTTCTAACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
* *
18039834 CGCCGCTAAAGCTA-ATGTTCTTTAGTGGCGCTTTTTACACAAA
1 CGCCGCTAAAG-AACATGTTCTTTAGCGGCGCTTTTTACACAAA
18039877 CGCC
1 CGCC
18039881 ACTATTTGTT
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
43 162 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
Found at i:18041746 original size:324 final size:324
Alignment explanation
Indices: 18041157--18041807 Score: 1248
Period size: 324 Copynumber: 2.0 Consensus size: 324
18041147 AATATAACTG
18041157 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
1 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
* *
18041222 ATTTTTGTTACTATTGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTT
66 ATTTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
18041287 GTGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
131 GTGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
* *
18041352 TTTCTGGATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACGACC
196 TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACC
18041417 TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
261 TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
18041481 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
1 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
18041546 ATTTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
66 ATTTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
*
18041611 GTGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTGTTCCAACAGGCTGACCAAAACTG
131 GTGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
18041676 TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACC
196 TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACC
*
18041741 TCGACCTCTGCGCGTCCTACCATTTTCAGGTGAAAAACGGTATATTATAATATAAGATTTTAAA
261 TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
18041805 AAA
1 AAA
18041808 TAAACCAATT
Statistics
Matches: 321, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 321 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (324 bp):
AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
ATTTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
GTGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACAACC
TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
Found at i:18046004 original size:9 final size:9
Alignment explanation
Indices: 18045990--18046107 Score: 106
Period size: 9 Copynumber: 13.4 Consensus size: 9
18045980 TAAGGGATAT
18045990 TTATGTAAG
1 TTATGTAAG
18045999 TTATGTAAG
1 TTATGTAAG
18046008 TTATGT-A-
1 TTATGTAAG
* *
18046015 TTAAGTAAA
1 TTATGTAAG
18046024 TTATGTAAG
1 TTATGTAAG
18046033 TTATGT-A-
1 TTATGTAAG
*
18046040 TTATGTAAA
1 TTATGTAAG
18046049 TTATGTAAG
1 TTATGTAAG
18046058 TTATGTATTAAG
1 TTATG---TAAG
*
18046070 -TAGGTTAAG
1 TTATG-TAAG
*
18046079 TTATGT--C
1 TTATGTAAG
18046086 TTATGTAAG
1 TTATGTAAG
18046095 TTATGTAAG
1 TTATGTAAG
18046104 TTAT
1 TTAT
18046108 TGTTTTTGTG
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
7 17 0.19
8 4 0.04
9 60 0.66
10 3 0.03
11 3 0.03
12 4 0.04
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18046022 original size:25 final size:25
Alignment explanation
Indices: 18045994--18046107 Score: 146
Period size: 25 Copynumber: 4.7 Consensus size: 25
18045984 GGATATTTAT
18045994 GTAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* *
18046019 GTAAATTATGTAAGTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTATTAA
*
18046044 GTAAATTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* * *
18046069 GT-AG--GT-TAAGTTATGTCTTAT
1 GTAAGTTATGTAAGTTATGTATTAA
18046090 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
18046108 TGTTTTTGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.19
22 3 0.04
24 2 0.03
25 57 0.74
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTATTAA
Found at i:18046076 original size:16 final size:17
Alignment explanation
Indices: 18045990--18046076 Score: 74
Period size: 16 Copynumber: 5.2 Consensus size: 17
18045980 TAAGGGATAT
*
18045990 TTATGTAAGTTATGTAAG
1 TTATGTAA-TTAAGTAAG
*
18046008 TTATGT-ATTAAGTAAA
1 TTATGTAATTAAGTAAG
*
18046024 TTATGTAAGTTATGT-A-
1 TTATGTAA-TTAAGTAAG
*
18046040 TTATGTAAATTATGTAAG
1 TTATGT-AATTAAGTAAG
*
18046058 TTATGT-ATTAAGTAGG
1 TTATGTAATTAAGTAAG
18046074 TTA
1 TTA
18046077 AGTTATGTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
16 36 0.61
17 6 0.10
18 17 0.29
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (17 bp):
TTATGTAATTAAGTAAG
Found at i:18046094 original size:16 final size:16
Alignment explanation
Indices: 18045999--18046101 Score: 84
Period size: 16 Copynumber: 6.0 Consensus size: 16
18045989 TTTATGTAAG
18045999 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
18046015 TTAAGTAAATTATGTAA
1 TTATGTAAGTTATGT-A
18046032 GTTATGT-A-TTATGTAAA
1 -TTATGTAAGTTATGT--A
18046049 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
18046065 TTAAGTAGGTTAAGTTATGTC
1 TT-A-T--G-TAAGTTATGTA
18046086 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
18046102 AGTTATTGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
16 38 0.53
17 7 0.10
18 12 0.17
19 1 0.01
20 2 0.03
21 12 0.17
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:18046097 original size:21 final size:21
Alignment explanation
Indices: 18046054--18046097 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18046044 GTAAATTATG
*
18046054 TAAGTTATGTATTAAGTAGGT
1 TAAGTTATGTATTAAGTAAGT
* *
18046075 TAAGTTATGTCTTATGTAAGT
1 TAAGTTATGTATTAAGTAAGT
18046096 TA
1 TA
18046098 TGTAAGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (21 bp):
TAAGTTATGTATTAAGTAAGT
Found at i:18046182 original size:12 final size:12
Alignment explanation
Indices: 18046162--18046192 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18046152 TATTGTAATA
18046162 TAAGTTATTATG
1 TAAGTTATTATG
*
18046174 TAGGTTATTATG
1 TAAGTTATTATG
18046186 TAAGTTA
1 TAAGTTA
18046193 GGATATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
TAAGTTATTATG
Found at i:18046199 original size:29 final size:31
Alignment explanation
Indices: 18046138--18046206 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
18046128 CTTTTTTAAT
*
18046138 TTATGTAGGTTATGTATTGTAATATAAGTTA
1 TTATGTAGGTTATGTATTGTAATATAAGATA
*
18046169 TTATGTAGGTTAT-TA-TGTAAGT-TAGGATA
1 TTATGTAGGTTATGTATTGTAA-TATAAGATA
18046198 TTATGTAGG
1 TTATGTAGG
18046207 ATATATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 19 0.54
30 3 0.09
31 13 0.37
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.46
Consensus pattern (31 bp):
TTATGTAGGTTATGTATTGTAATATAAGATA
Found at i:18046313 original size:25 final size:27
Alignment explanation
Indices: 18046285--18046342 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
18046275 ATTATATATT
*
18046285 TAAATTTTGTAAATTACG-AA-TTATG
1 TAAATTTTGTAAAATACGTAAGTTATG
*
18046310 TAAATTATGTAAAATACGTAAGTTATG
1 TAAATTTTGTAAAATACGTAAGTTATG
18046337 -AAATTT
1 TAAATTT
18046343 GAACTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 16 0.57
26 7 0.25
27 5 0.18
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (27 bp):
TAAATTTTGTAAAATACGTAAGTTATG
Found at i:18050840 original size:23 final size:23
Alignment explanation
Indices: 18050814--18050889 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
18050804 TAAACCATAA
18050814 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
*
18050837 ACTATAGTAAA-CATTAAACATTA-A-
1 ACTATA--AAACCCTTAAAC--TACAT
*
18050861 ACTATAAAACCCTTAGACTACAT
1 ACTATAAAACCCTTAAACTACAT
18050884 ACTATA
1 ACTATA
18050890 GCCCTTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 18 0.42
24 13 0.30
25 4 0.09
26 2 0.05
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (23 bp):
ACTATAAAACCCTTAAACTACAT
Found at i:18051340 original size:41 final size:41
Alignment explanation
Indices: 18051289--18051588 Score: 420
Period size: 41 Copynumber: 7.5 Consensus size: 41
18051279 GCGTTTTTTA
* * *
18051289 AAAAAGCGCCGCTAAAGGCCTGAGA-ATTAGCGGCGCAT-CAAT
1 AAAAA-CGCCGCTAAAGCCCAGA-ACATTAGCGGCGCTTAC-AT
*
18051331 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACTT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
* *
18051372 AAAAATGCCGCTAAATCCCAGAACATTAGCGGCGCTTACAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
*
18051413 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAAAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
* *
18051454 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGTTTAGAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
*
18051495 AAAAACGCCGCTAAAGCCCAGAACATTAGCGTCGCTTACAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
18051536 AAAAACGCC-CT------CAGAACATTAGCGGCGCTTACAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
18051570 AAAAACGCCGCTAAAGCCC
1 AAAAACGCCGCTAAAGCCC
18051589 CCGAAAAGTC
Statistics
Matches: 233, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
34 31 0.13
35 2 0.01
40 3 0.01
41 191 0.82
42 6 0.03
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.16
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
Found at i:18051556 original size:34 final size:34
Alignment explanation
Indices: 18051513--18051578 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
18051503 CGCTAAAGCC
*
18051513 CAGAACATTAGCGTCGCTTACATAAAAACGCCCT
1 CAGAACATTAGCGGCGCTTACATAAAAACGCCCT
18051547 CAGAACATTAGCGGCGCTTACATAAAAACGCC
1 CAGAACATTAGCGGCGCTTACATAAAAACGCC
18051579 GCTAAAGCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.18
Consensus pattern (34 bp):
CAGAACATTAGCGGCGCTTACATAAAAACGCCCT
Found at i:18058511 original size:33 final size:33
Alignment explanation
Indices: 18058474--18058547 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
18058464 TTAATCCATG
18058474 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
1 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
18058507 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
1 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
18058540 TCCAAACA
1 TCCAAACA
18058548 CATTTACCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (33 bp):
TCCAAACATGCTATTTTAGTTACCATTCAAAAC
Found at i:18059169 original size:34 final size:34
Alignment explanation
Indices: 18059126--18059243 Score: 123
Period size: 34 Copynumber: 3.5 Consensus size: 34
18059116 GGATACACGG
*
18059126 GTAACTACACCACACCAGATTGCTCGTTACAGTA
1 GTAACTACACCACACCAGATTGCTCGTCACAGTA
* * *
18059160 GTAACTACACCACACCAGATTGATTGTCAGAGTA
1 GTAACTACACCACACCAGATTGCTCGTCACAGTA
* * * * *
18059194 ATAACTAAACCACACCAG-TTGCTCTGGC-GAGCA
1 GTAACTACACCACACCAGATTGCTC-GTCACAGTA
*
18059227 GTAACTACACCTCACCA
1 GTAACTACACCACACCA
18059244 ACGCATTGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
33 22 0.31
34 48 0.69
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (34 bp):
GTAACTACACCACACCAGATTGCTCGTCACAGTA
Found at i:18062670 original size:29 final size:29
Alignment explanation
Indices: 18062620--18062679 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
18062610 GAAACTCTTC
* *
18062620 GGACCATGTAAGTCATCTTATCTATTAGA
1 GGACCATGTAAGTAATCCTATCTATTAGA
18062649 GGACCATGTAAGTAATCCTATCTATTAGA
1 GGACCATGTAAGTAATCCTATCTATTAGA
18062678 GG
1 GG
18062680 TATTCATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (29 bp):
GGACCATGTAAGTAATCCTATCTATTAGA
Found at i:18062918 original size:19 final size:19
Alignment explanation
Indices: 18062881--18062919 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18062871 TTTAAGTTTC
*
18062881 ATATAATAAAAATTATATA
1 ATATAATAAAAAATATATA
18062900 ATAT-ATAAAAAATATTATA
1 ATATAATAAAAAATA-TATA
18062919 A
1 A
18062920 ACTAGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATATAATAAAAAATATATA
Found at i:18073723 original size:25 final size:25
Alignment explanation
Indices: 18073676--18073746 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
18073666 TATGTAGAAT
18073676 AACTTAAAATAAAATAATATATAAAGC
1 AACTTAAAAT--AATAATATATAAAGC
*
18073703 AACTTAAAATAATAATCTATAAAGC
1 AACTTAAAATAATAATATATAAAGC
* *
18073728 AAGTTAAAATAATCATATA
1 AACTTAAAATAATAATATA
18073747 CAAATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 30 0.75
27 10 0.25
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.28
Consensus pattern (25 bp):
AACTTAAAATAATAATATATAAAGC
Found at i:18078264 original size:12 final size:12
Alignment explanation
Indices: 18078247--18078277 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18078237 CCTCACATGC
18078247 TCGTGTGCTAGG
1 TCGTGTGCTAGG
18078259 TCGTGTGCTAGG
1 TCGTGTGCTAGG
*
18078271 CCGTGTG
1 TCGTGTG
18078278 AAGCTACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.42, T:0.32
Consensus pattern (12 bp):
TCGTGTGCTAGG
Found at i:18079935 original size:20 final size:21
Alignment explanation
Indices: 18079900--18079941 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18079890 CCATACATTT
18079900 AACAATTTAACACATTTATCA
1 AACAATTTAACACATTTATCA
* *
18079921 AACAATTT-GCACATTTCTCA
1 AACAATTTAACACATTTATCA
18079941 A
1 A
18079942 TTTAACCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (21 bp):
AACAATTTAACACATTTATCA
Found at i:18091980 original size:5 final size:6
Alignment explanation
Indices: 18091962--18092004 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
18091952 CACTAGTCTA
* * *
18091962 TTATTT TTATTT TTATTT TTATTT TTATGT TTAATG TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
18092005 CTTAAACTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:18094819 original size:43 final size:42
Alignment explanation
Indices: 18094750--18094895 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
18094740 CAACCACCAG
*
18094750 TGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
1 TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
18094792 TGATACGGTGGAATCAGCACTTAGCAA---C---CAC---CAA
1 TGATACGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAA
* *
18094826 TGA-ATCGGGGAATCAGCACTTAGTAACCCCTTTCACATTTAA
1 TGATA-CGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
*
18094868 -GATACGGTGGGATCAGCACTTAGCAACC
1 TGATACGG-GGAATCAGCACTTAGCAACC
18094896 ACCAATGAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
33 18 0.21
34 9 0.10
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
41 5 0.06
42 28 0.33
43 18 0.21
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
Found at i:18094847 original size:76 final size:75
Alignment explanation
Indices: 18094721--18094932 Score: 352
Period size: 76 Copynumber: 2.8 Consensus size: 75
18094711 TATCTGTTAT
* * *
18094721 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
18094786 ATTCAATGATA
66 ATTCAA-GATA
*
18094797 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGTAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18094862 ATTTAAGATA
66 ATTCAAGATA
* *
18094872 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTACCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
18094933 GGGGGAATCA
Statistics
Matches: 128, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 62 0.48
76 66 0.52
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:18094925 original size:26 final size:27
Alignment explanation
Indices: 18094903--18094956 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
18094893 ACCACCAATG
18094903 AATCGGGGAATCAGCACTTACCAACCC
1 AATCGGGGAATCAGCACTTACCAACCC
** *
18094930 CTTGGGGGAATCAGCACTTACCAACCC
1 AATCGGGGAATCAGCACTTACCAACCC
18094957 CCTTCACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (27 bp):
AATCGGGGAATCAGCACTTACCAACCC
Found at i:18094956 original size:102 final size:102
Alignment explanation
Indices: 18094832--18095032 Score: 348
Period size: 102 Copynumber: 2.0 Consensus size: 102
18094822 CCAATGAATC
** * * *
18094832 GGGGAATCAGCACTTAGTAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTACCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
18094897 CCAATGAATCGGGGAATCAGCACTTACCAACCCCTTG
66 CCAATGAATCGGGGAATCAGCACTTACCAACCCCTTG
18094934 GGGGAATCAGCACTTACCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTACCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
18094999 CCAATGAATCGGGGAATCAGCACTTAGCAACCCC
66 CCAATGAATCGGGGAATCAGCACTTACCAACCCC
18095033 CTTTATATTC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTACCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTACCAACCCCTTG
Found at i:18096128 original size:11 final size:12
Alignment explanation
Indices: 18096100--18096133 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
18096090 GCCCAAACGT
18096100 CGAAATTTTTGAA
1 CGAAATTTTT-AA
18096113 CGAAATTTTT-A
1 CGAAATTTTTAA
18096124 CGAAATTTTT
1 CGAAATTTTT
18096134 CCGTGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:18102294 original size:33 final size:33
Alignment explanation
Indices: 18102239--18102472 Score: 133
Period size: 33 Copynumber: 6.7 Consensus size: 33
18102229 TTATCCGTTA
* *
18102239 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
18102273 TCGGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* *
18102315 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
18102349 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * *
18102390 ACTGTGG-ATCAGCACTTAGCAACCACCAATGAA
1 TC-GGGGAATCAGCACTTAGCAACCACCAATGAT
* *
18102423 TCGGGGAATCATCACTTAACAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
18102450 T-GGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
18102473 CCTTCACATT
Statistics
Matches: 160, Mismatches: 20, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
26 20 0.12
27 1 0.01
32 5 0.03
33 55 0.34
34 13 0.08
35 1 0.01
36 3 0.02
37 5 0.03
38 2 0.01
39 4 0.03
40 1 0.01
41 21 0.13
42 12 0.08
43 17 0.11
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:18102338 original size:43 final size:42
Alignment explanation
Indices: 18102269--18102413 Score: 143
Period size: 41 Copynumber: 3.7 Consensus size: 42
18102259 CAACCACCAG
* *
18102269 TGATTCGGGGAATCAACACTTAGCAACCCCTTTCACATTCAA
1 TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
18102311 TGATACGGTGGAATCAGCACTTAGCAA---C---CAC---CAA
1 TGATACGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAA
*
18102345 TGA-ATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAA
1 TGATA-CGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
*
18102387 -GATACTGTGG-ATCAGCACTTAGCAACC
1 TGATAC-GGGGAATCAGCACTTAGCAACC
18102414 ACCAATGAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 27
0.74 0.03 0.23
Matches are distributed among these distances:
33 19 0.22
34 9 0.10
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
41 20 0.23
42 13 0.15
43 17 0.20
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
Found at i:18102430 original size:74 final size:75
Alignment explanation
Indices: 18102240--18102450 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
18102230 TATCCGTTAT
* *
18102240 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAACACTTAGCAACCCCTTTCAC
1 CGGTGGA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
18102305 ATTCAATGATA
65 ATTCAATGATA
*
18102316 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGG-ATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
*
18102381 ATTTAA-GATA
65 ATTCAATGATA
* * *
18102391 CTGTGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCATCACTTAACAACCCCTT
1 CGGTGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
18102451 GGGGAATCAG
Statistics
Matches: 127, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
74 52 0.41
75 9 0.07
76 65 0.51
77 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (75 bp):
CGGTGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACA
TTCAATGATA
Found at i:18102464 original size:26 final size:26
Alignment explanation
Indices: 18102425--18102476 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
18102415 CCAATGAATC
*
18102425 GGGGAATCATCACTTAACAACCCCTT
1 GGGGAATCAGCACTTAACAACCCCTT
*
18102451 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAACAACCCCTT
18102477 CACATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (26 bp):
GGGGAATCAGCACTTAACAACCCCTT
Found at i:18102501 original size:100 final size:100
Alignment explanation
Indices: 18102351--18102548 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 100
18102341 CCAATGAATC
*
18102351 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACTGTGGATCAGCACTTAGCAACCAC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACTGTGGATCAGCACTTAGCAACCAC
* *
18102416 CAATGAATCGGGGAATCATCACTTAACAACCCCTT
66 CAATGAATCGGGAAATCAGCACTTAACAACCCCTT
*
18102451 GGGGAATCAGCACTTAGCAACCCC-TTCACATTTAAAATA-TGATGGAATCAGCACTTCGCAACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACTG-TGG-ATCAGCACTTAGCAACC
* *
18102514 ACCAATGAATTGGGAAATCAGCACTTAGCAACCCC
64 ACCAATGAATCGGGAAATCAGCACTTAACAACCCC
18102549 CTTTATATTT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
98 2 0.02
99 17 0.19
100 71 0.79
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (100 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACTGTGGATCAGCACTTAGCAACCAC
CAATGAATCGGGAAATCAGCACTTAACAACCCCTT
Found at i:18107958 original size:25 final size:25
Alignment explanation
Indices: 18107897--18108037 Score: 106
Period size: 25 Copynumber: 5.5 Consensus size: 25
18107887 TCATGTATGT
* * * *
18107897 TCATACGAGCTATGAATCAGTATGC
1 TCATACGAGCTGTAAATCAGGAAGC
* *
18107922 TC-TCATGAGCTGTGAATCAGGAAGC
1 TCAT-ACGAGCTGTAAATCAGGAAGC
* *
18107947 TCATACGAGCTGCAAAT-TGAGAAGC
1 TCATACGAGCTGTAAATCAG-GAAGC
* * *
18107972 TCATACTACAAGCTGCAAATCAAGAAGC
1 TC--A-TACGAGCTGTAAATCAGGAAGC
*
18108000 TCATACGAGCTGTAAATCGGGAAGC
1 TCATACGAGCTGTAAATCAGGAAGC
*
18108025 TCATACGTGCTGT
1 TCATACGAGCTGT
18108038 GGTGTGTCCG
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.02
25 68 0.73
26 2 0.02
27 1 0.01
28 20 0.22
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
TCATACGAGCTGTAAATCAGGAAGC
Found at i:18109828 original size:14 final size:14
Alignment explanation
Indices: 18109809--18109838 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18109799 TTCTCCTCAG
18109809 TCTCACGAATCAAA
1 TCTCACGAATCAAA
18109823 TCTCACGAATCAAA
1 TCTCACGAATCAAA
18109837 TC
1 TC
18109839 AACCCCGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (14 bp):
TCTCACGAATCAAA
Found at i:18115494 original size:25 final size:25
Alignment explanation
Indices: 18115425--18115494 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
18115415 GTTGTGAATT
*
18115425 GGGAAGCTCATACAAGCTGCAAATC
1 GGGAAGCTCATACAAGCTGTAAATC
* *
18115450 AGGAAGCTCATACGAGCTGTAAATC
1 GGGAAGCTCATACAAGCTGTAAATC
18115475 GGGAAGCTCATACAAGCTGT
1 GGGAAGCTCATACAAGCTGT
18115495 GGTTTGTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCATACAAGCTGTAAATC
Found at i:18119857 original size:18 final size:17
Alignment explanation
Indices: 18119836--18119886 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
18119826 TTTTTTAATT
18119836 TTTTGTAATATTTTATAA
1 TTTT-TAATATTTTATAA
*
18119854 TTTTTCATATCTTTATAA
1 TTTTTAATAT-TTTATAA
18119872 TTTTTAATGATTTTA
1 TTTTTAAT-ATTTTA
18119887 AATAGAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 22 0.76
19 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTTTAATATTTTATAA
Found at i:18122475 original size:27 final size:27
Alignment explanation
Indices: 18122437--18122684 Score: 316
Period size: 27 Copynumber: 9.2 Consensus size: 27
18122427 TTACATTGTT
* *
18122437 ATGATCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* **
18122464 ATGACCGAAATATCCATATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
**
18122491 ATGATTGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
18122518 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
18122545 ATGACCAAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
18122572 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
18122599 ATGATCGAAATACCCCCAAAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
18122626 ATGACTGAAATACCCCTATAGGTTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
18122653 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
18122680 ATGAC
1 ATGAC
18122685 TGTTATATCC
Statistics
Matches: 188, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:18122519 original size:54 final size:54
Alignment explanation
Indices: 18122437--18122684 Score: 361
Period size: 54 Copynumber: 4.6 Consensus size: 54
18122427 TTACATTGTT
* * *
18122437 ATGATCGAAATACCCTCATAGGGTAAAATGACCGAAATATCCATATAGGGTAAA
1 ATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAA
* * *
18122491 ATGATTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAA
1 ATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAA
* * * * *
18122545 ATGACCAAAATACCCTCATAGGGTAGAATGATCGAAATACCCCTATAGGGTAAA
1 ATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAA
* * * *
18122599 ATGATCGAAATACCCCCAAAGGGTAGAATGACTGAAATACCCCTATAGGTTAAA
1 ATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAA
18122653 ATGATCGAAATACCCCCATAGGGTAAAATGAC
1 ATGATCGAAATACCCCCATAGGGTAAAATGAC
18122685 TGTTATATCC
Statistics
Matches: 171, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 171 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (54 bp):
ATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAA
Found at i:18124595 original size:22 final size:20
Alignment explanation
Indices: 18124564--18124615 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
18124554 TAGAAGTTAC
*
18124564 TAAATTAATTTAACTTAAAATTT
1 TAAA-TAATTTAA--TAAAATAT
18124587 TAAATAATTTAATAAAATAT
1 TAAATAATTTAATAAAATAT
18124607 TAAA-AATTT
1 TAAATAATTT
18124616 CAATTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.18
20 11 0.39
22 8 0.29
23 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATAATTTAATAAAATAT
Found at i:18140993 original size:32 final size:32
Alignment explanation
Indices: 18140922--18140994 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 32
18140912 CACTGTTGTC
* * * * *
18140922 TACTATTGTTTTGTTGTTGTTTGTTGCCATTT
1 TACTATTATTTTGCTGCTATTTGTTGCCATTG
*
18140954 TGA-TATTATTTTGCTGCTATTTGTTGTCATTG
1 T-ACTATTATTTTGCTGCTATTTGTTGCCATTG
18140986 TACTATTAT
1 TACTATTAT
18140995 ATTACAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.03
32 31 0.94
33 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.16, T:0.59
Consensus pattern (32 bp):
TACTATTATTTTGCTGCTATTTGTTGCCATTG
Found at i:18141214 original size:16 final size:16
Alignment explanation
Indices: 18141193--18141262 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
18141183 TTTGGTTCGC
* *
18141193 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
18141209 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
18141225 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18141241 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18141257 TGTAAT
1 TGTAAT
18141263 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:18141295 original size:45 final size:44
Alignment explanation
Indices: 18141241--18141338 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
18141231 GGAATAGAGG
*
18141241 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
18141286 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
*
18141330 TGGAATGGA
1 TGTAATGGA
18141339 GTTGTAATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 24 0.51
45 23 0.49
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:18141518 original size:18 final size:18
Alignment explanation
Indices: 18141495--18141628 Score: 90
Period size: 18 Copynumber: 7.9 Consensus size: 18
18141485 TTATTATTAA
18141495 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
18141513 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
18141530 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
18141548 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
18141564 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
18141583 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
18141595 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
18141613 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
18141629 TTCTTAATAT
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 22 0.25
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:18141555 original size:41 final size:40
Alignment explanation
Indices: 18141510--18141750 Score: 128
Period size: 38 Copynumber: 6.0 Consensus size: 40
18141500 ATTTAATAAA
18141510 AATATATAATTTAATAAAATATATGAATTTACTAAAATTAT
1 AATATATAATTTAATAAAATATAT-AATTTACTAAAATTAT
*
18141551 AATATATAATATT-AT-AAA-ATATAATTTA-AAATAATTATT
1 AATATATAAT-TTAATAAAATATATAATTTACTAA-AATTA-T
* * * *
18141590 ATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCT
1 A--ATATATAATTTAA-TAAAATATATAATTTACTAAAATTAT
* *** *
18141633 --TA-AT-ATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATA-AAATATAT-AATTTACTAAAATTAT
* *
18141671 AATATATAA--TACTATAAA-ATATAATTTA-AAATAATTATT
1 AATATATAATTTAATA-AAATATATAATTTACTAA-AATTA-T
* * *
18141710 ATTAAATATAATTTAACAAAAATATATAATTTAATAAAATT
1 A--ATATATAATTTAA-TAAAATATATAATTTACTAAAATT
18141751 CTTAGTATTA
Statistics
Matches: 150, Mismatches: 25, Indels: 47
0.68 0.11 0.21
Matches are distributed among these distances:
36 1 0.01
37 14 0.09
38 36 0.24
39 13 0.09
40 11 0.07
41 30 0.20
42 3 0.02
43 9 0.06
44 29 0.19
45 4 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (40 bp):
AATATATAATTTAATAAAATATATAATTTACTAAAATTAT
Found at i:18141566 original size:15 final size:15
Alignment explanation
Indices: 18141546--18141601 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
18141536 ATTTACTAAA
*
18141546 ATTATAATATATAAT
1 ATTATAAAATATAAT
18141561 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
18141574 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
18141587 ATTATTAAATATAAT
1 ATTATAAAATATAAT
18141602 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:18141596 original size:26 final size:25
Alignment explanation
Indices: 18141556--18141614 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
18141546 ATTATAATAT
*
18141556 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATTAAATATAATTTAAA
18141581 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATTAAATATAATTTAA-A
*
18141608 AAAATAT
1 ATAATAT
18141615 ATAATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATAATATTATTAAATATAATTTAAA
Found at i:18141614 original size:59 final size:59
Alignment explanation
Indices: 18141551--18141749 Score: 219
Period size: 59 Copynumber: 3.3 Consensus size: 59
18141541 CTAAAATTAT
18141551 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * ** *
18141610 AATATATAATTTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-CAAA
*
18141671 AATATATAATACT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
18141730 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
18141750 TCTTAGTATT
Statistics
Matches: 111, Mismatches: 18, Indels: 22
0.74 0.12 0.15
Matches are distributed among these distances:
58 6 0.05
59 51 0.46
60 16 0.14
61 34 0.31
62 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:18141675 original size:120 final size:120
Alignment explanation
Indices: 18141529--18141771 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
18141519 TTTAATAAAA
* *
18141529 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
18141594 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
18141649 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
*
18141714 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
18141769 TAT
1 TAT
18141772 GATTGTATCA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
Found at i:18148801 original size:23 final size:23
Alignment explanation
Indices: 18148775--18148827 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
18148765 ATAAGTGCAA
*
18148775 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
18148798 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
18148821 CATTGAT
1 CACTGAT
18148828 CAATAACACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:18152827 original size:16 final size:16
Alignment explanation
Indices: 18152806--18152850 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
18152796 AGACAGTAAG
18152806 CAAAGTGCAAGCCTGT
1 CAAAGTGCAAGCCTGT
**
18152822 CAAAGTGTGAGCCTGT
1 CAAAGTGCAAGCCTGT
* *
18152838 CGAATTGCAAGCC
1 CAAAGTGCAAGCC
18152851 AAAGTGGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (16 bp):
CAAAGTGCAAGCCTGT
Found at i:18152911 original size:44 final size:44
Alignment explanation
Indices: 18152863--18152950 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
18152853 AGTGGTGAAT
* * *
18152863 AGTCTAAATCCAAACCT-GAATGAGG-GTACGCCAAAGTGGCAGAC
1 AGTCTAAATAC-AACCTCGAATG-GGTGTAAGCCAAAATGGCAGAC
*
18152907 AGTCTAAATACAACCTCGAGTGGGTGTAAGCCAAAATGGCAGAC
1 AGTCTAAATACAACCTCGAATGGGTGTAAGCCAAAATGGCAGAC
18152951 TGAAGGCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 7 0.18
44 31 0.82
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (44 bp):
AGTCTAAATACAACCTCGAATGGGTGTAAGCCAAAATGGCAGAC
Found at i:18154756 original size:57 final size:60
Alignment explanation
Indices: 18154663--18154810 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 60
18154653 ACCATAATTC
* * *
18154663 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAAGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCAAGAGGGCTATATCAATA
***
18154721 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTTGGGAGGGCTATATCAAGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCAAGAGGGCTATATC-A-ATA
18154782 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
18154811 ACCGTCAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
56 6 0.08
57 42 0.55
60 1 0.01
61 1 0.01
62 21 0.27
63 6 0.08
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCAAGAGGGCTATATCAATA
Found at i:18157516 original size:20 final size:21
Alignment explanation
Indices: 18157491--18157537 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18157481 AGGCAAGCTT
*
18157491 ATTGGAC-CCAAAGTTGCAAC
1 ATTGGACACCAAAGTCGCAAC
*
18157511 ATTGGACGATCAAAGTCGCAAC
1 ATTGGAC-ACCAAAGTCGCAAC
18157533 ATTGG
1 ATTGG
18157538 CCTACAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
22 16 0.70
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (21 bp):
ATTGGACACCAAAGTCGCAAC
Found at i:18157680 original size:57 final size:57
Alignment explanation
Indices: 18157564--18157695 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 57
18157554 ATCCACTCAC
* * * *
18157564 CAAAGTCACAATAGTCAAGCCAATAGCTTGAAGATGGAAGTTGATCCCAAACAATAG
1 CAAAGTCACAACATTCAAGCCAATAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
* * *
18157621 CAAAATCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAGCAG
1 CAAAGTCACAACATTCAAGCCAATAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
* *
18157678 CAAAGTCGCGACATTCAA
1 CAAAGTCACAACATTCAA
18157696 CAAGTCTCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAATAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
Found at i:18166046 original size:33 final size:31
Alignment explanation
Indices: 18166008--18166068 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 31
18165998 AACTGATGAT
* *
18166008 AATTTAAGTACCAAATTAAAGCAAAATAAAAAA
1 AATTTAAATACCAAAATAAA--AAAATAAAAAA
18166041 AATTTAAATACCAAAATAAAAAAATAAA
1 AATTTAAATACCAAAATAAAAAAATAAA
18166069 TATAATTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
33 18 0.69
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.21
Consensus pattern (31 bp):
AATTTAAATACCAAAATAAAAAAATAAAAAA
Found at i:18166503 original size:11 final size:11
Alignment explanation
Indices: 18166487--18166527 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
18166477 AATTTTAAAA
18166487 TTTTAAAATTT
1 TTTTAAAATTT
18166498 TTTTAAAATACTTT
1 TTTT-AAA-A-TTT
18166512 TTTTAAAATTT
1 TTTTAAAATTT
18166523 TTTTA
1 TTTTA
18166528 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 12 0.44
12 4 0.15
13 4 0.15
14 7 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:18168026 original size:14 final size:14
Alignment explanation
Indices: 18168007--18168037 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18167997 CTTCAAATCC
18168007 AAAAATCATGCAAG
1 AAAAATCATGCAAG
18168021 AAAAATCATGCAAG
1 AAAAATCATGCAAG
18168035 AAA
1 AAA
18168038 TACTAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAAATCATGCAAG
Found at i:18175182 original size:31 final size:31
Alignment explanation
Indices: 18175116--18175183 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
18175106 AGTTAATCCT
* * *
18175116 TGAATTTGACAATTATTCTCATATTGTGATT
1 TGAACTTGACAATTATTCTCATATTGGGATC
* *
18175147 TGAACTTGACAATTATT-TGTATATTGGGGTC
1 TGAACTTGACAATTATTCT-CATATTGGGATC
18175178 TGAACT
1 TGAACT
18175184 AAAGTATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (31 bp):
TGAACTTGACAATTATTCTCATATTGGGATC
Found at i:18175346 original size:59 final size:59
Alignment explanation
Indices: 18175210--18175349 Score: 149
Period size: 59 Copynumber: 2.4 Consensus size: 59
18175200 TATTAAGGAC
* * * *
18175210 TAACTTAGACAAAAAAAAAGTTTAAGCCCTAATGTAGAATAATTGTCAAATTCAGGGCT
1 TAACTTAGACAAAAAAAAAGTTCAAGCCATAATGTAGAATAATTGTCAAATCCAAGGCT
* * * * **
18175269 TAACTTAAACTAAGAAAAAGTTCAAGTCTCAT-ATG-AGAATAATTGTTATGTCCAAGGCT
1 TAACTTAGACAAAAAAAAAGTTCAAG-C-CATAATGTAGAATAATTGTCAAATCCAAGGCT
*
18175328 TAACTTGGACAAAAAAAAAGTT
1 TAACTTAGACAAAAAAAAAGTT
18175350 TAAATTCCAA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
59 59 0.91
60 4 0.06
61 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (59 bp):
TAACTTAGACAAAAAAAAAGTTCAAGCCATAATGTAGAATAATTGTCAAATCCAAGGCT
Found at i:18177946 original size:20 final size:20
Alignment explanation
Indices: 18177923--18177960 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18177913 CTACCTGTAA
*
18177923 AAGTTCACTTCTACCCATTC
1 AAGTCCACTTCTACCCATTC
18177943 AAGTCCACTTCTACCCAT
1 AAGTCCACTTCTACCCAT
18177961 ACATCTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.37, G:0.05, T:0.32
Consensus pattern (20 bp):
AAGTCCACTTCTACCCATTC
Found at i:18180190 original size:3 final size:3
Alignment explanation
Indices: 18180182--18180215 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
18180172 TAAATACAAT
**
18180182 ATA ATA ATA CCA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18180216 ACAAGGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:18181967 original size:22 final size:23
Alignment explanation
Indices: 18181939--18181991 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
18181929 TTCGTGTCAC
18181939 TAAATTGTATAT-TTATATATTT
1 TAAATTGTATATGTTATATATTT
*
18181961 TAAATTG-A-ATGTTATGTATTT
1 TAAATTGTATATGTTATATATTT
*
18181982 GAAA-TGTATA
1 TAAATTGTATA
18181992 AGTGCCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
21 14 0.54
22 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (23 bp):
TAAATTGTATATGTTATATATTT
Found at i:18182180 original size:25 final size:25
Alignment explanation
Indices: 18182152--18182202 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18182142 CCCATTATTA
*
18182152 GCTCTCATAAGCATCCCGATATATG
1 GCTCTCACAAGCATCCCGATATATG
* * *
18182177 GCTCTCACGAGCTTCCCGTTATATG
1 GCTCTCACAAGCATCCCGATATATG
18182202 G
1 G
18182203 TTCTTGTGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (25 bp):
GCTCTCACAAGCATCCCGATATATG
Found at i:18182376 original size:26 final size:26
Alignment explanation
Indices: 18182342--18182425 Score: 88
Period size: 24 Copynumber: 3.4 Consensus size: 26
18182332 GCTCTTTCAT
18182342 GAGCTTCCCGATTAATTGGCTCTCTG
1 GAGCTTCCCGATTAATTGGCTCTCTG
*
18182368 GAGCTTCCCGA-T-ATTGGCTCGTAT-
1 GAGCTTCCCGATTAATTGGCTC-TCTG
* * *
18182392 GAGCTTCCCG-TTAA-TGGATATCCG
1 GAGCTTCCCGATTAATTGGCTCTCTG
18182416 GAGCTTCCCG
1 GAGCTTCCCG
18182426 TTACATGGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 33 0.67
25 4 0.08
26 11 0.22
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (26 bp):
GAGCTTCCCGATTAATTGGCTCTCTG
Found at i:18182444 original size:25 final size:25
Alignment explanation
Indices: 18182390--18182446 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
18182380 ATTGGCTCGT
18182390 ATGAGCTTCCCGTTAATGGATATCC
1 ATGAGCTTCCCGTTAATGGATATCC
*
18182415 -GGAGCTTCCCGTTACATGG-T-TCAC
1 ATGAGCTTCCCGTTA-ATGGATATC-C
18182439 ATGAGCTT
1 ATGAGCTT
18182447 TCTGTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 15 0.56
25 10 0.37
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTAATGGATATCC
Found at i:18182445 original size:49 final size:50
Alignment explanation
Indices: 18182339--18182446 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 50
18182329 AAGGCTCTTT
* * * * *
18182339 CATGAGCTTCCCGATTAATTGGCTCTCTGGAGCTTCCCGATATTGGCTCG
1 CATGAGCTTCCCGATTAATTGGATATCCGGAGCTTCCCGATAATGGCTCA
* * *
18182389 TATGAGCTTCCCG-TTAA-TGGATATCCGGAGCTTCCCGTTACATGGTTCA
1 CATGAGCTTCCCGATTAATTGGATATCCGGAGCTTCCCGATA-ATGGCTCA
18182438 CATGAGCTT
1 CATGAGCTT
18182447 TCTGTTTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 19 0.40
49 17 0.35
50 12 0.25
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (50 bp):
CATGAGCTTCCCGATTAATTGGATATCCGGAGCTTCCCGATAATGGCTCA
Found at i:18186138 original size:8 final size:8
Alignment explanation
Indices: 18186121--18186165 Score: 74
Period size: 8 Copynumber: 5.6 Consensus size: 8
18186111 CTCAAGTGTC
18186121 TTTTTC-T
1 TTTTTCTT
18186128 TTTTTCTT
1 TTTTTCTT
18186136 TTTTTCTT
1 TTTTTCTT
18186144 TTTTTCTTT
1 TTTTTC-TT
18186153 TTTTTCTT
1 TTTTTCTT
18186161 TTTTT
1 TTTTT
18186166 TGCTTTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 6 0.17
8 22 0.61
9 8 0.22
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:18186146 original size:9 final size:9
Alignment explanation
Indices: 18186127--18186171 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
18186117 TGTCTTTTTC
18186127 TTTTTTC-T
1 TTTTTTCTT
18186135 TTTTTTC-T
1 TTTTTTCTT
18186143 TTTTTTCTT
1 TTTTTTCTT
18186152 TTTTTTCTT
1 TTTTTTCTT
18186161 TTTTTTGCTT
1 TTTTTT-CTT
18186171 T
1 T
18186172 GAAAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.43
9 16 0.46
10 4 0.11
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:18186146 original size:16 final size:17
Alignment explanation
Indices: 18186121--18186165 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
18186111 CTCAAGTGTC
18186121 TTTTTC-TTTTTTC-TT
1 TTTTTCTTTTTTTCTTT
18186136 TTTTTCTTTTTTTCTTT
1 TTTTTCTTTTTTTCTTT
18186153 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
18186166 TGCTTTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.21
16 7 0.25
17 15 0.54
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTTTTTCTTT
Found at i:18187410 original size:86 final size:86
Alignment explanation
Indices: 18187311--18187482 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
18187301 TTTGGGCATC
18187311 AAAAATTTTAAAAAAATGCAAATTGAGCATTGCCATTAACAACCACTTTCATTTTAGTCACCTAA
1 AAAAATTTTAAAAAAATGCAAATTGAGCATTGCCATTAACAACCACTTTCATTTTAGTCACCTAA
18187376 TTACTTTAATAAGTTTTTATT
66 TTACTTTAATAAGTTTTTATT
* *
18187397 AAAAATTTTAAAAAAATGCAAATTGAGCATTGCCATTGACAACCATTTTCATTTTAGTCACCTAA
1 AAAAATTTTAAAAAAATGCAAATTGAGCATTGCCATTAACAACCACTTTCATTTTAGTCACCTAA
18187462 TTACTTTAATAAGTTTTTATT
66 TTACTTTAATAAGTTTTTATT
18187483 TTAGTCACTC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.39
Consensus pattern (86 bp):
AAAAATTTTAAAAAAATGCAAATTGAGCATTGCCATTAACAACCACTTTCATTTTAGTCACCTAA
TTACTTTAATAAGTTTTTATT
Found at i:18188010 original size:21 final size:21
Alignment explanation
Indices: 18187972--18188016 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
18187962 ATTCCTAAAT
18187972 AAAATGAGTGATTAAAATTAA
1 AAAATGAGTGATTAAAATTAA
*
18187993 AAAATTAGATGATT-AAATTAA
1 AAAATGAG-TGATTAAAATTAA
18188014 AAA
1 AAA
18188017 TGAATGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (21 bp):
AAAATGAGTGATTAAAATTAA
Found at i:18195904 original size:12 final size:12
Alignment explanation
Indices: 18195887--18195911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18195877 GGTGTTCATT
18195887 CGGTTAACCGAC
1 CGGTTAACCGAC
18195899 CGGTTAACCGAC
1 CGGTTAACCGAC
18195911 C
1 C
18195912 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Done.