Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 122 of 126
Found at i:24228375 original size:18 final size:18
Alignment explanation
Indices: 24228337--24228377 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
24228327 TTTTTCTCTC
24228337 TTTTTTTGTTTTTCATGT
1 TTTTTTTGTTTTTCATGT
24228355 TTTTTTTGTTTTT--TGT
1 TTTTTTTGTTTTTCATGT
24228371 TTTTTTT
1 TTTTTTT
24228378 CATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.43
18 13 0.57
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (18 bp):
TTTTTTTGTTTTTCATGT
Found at i:24229725 original size:21 final size:24
Alignment explanation
Indices: 24229699--24229763 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 24
24229689 TATTTTAAAT
24229699 TTTTATAAAATAA-A-A-TAATAA
1 TTTTATAAAATAATATATTAATAA
24229720 TTTTATATAAA-AATATATTAATAA
1 TTTTATA-AAATAATATATTAATAA
24229744 TTTATATTAAAATAATATAT
1 TTT-TA-TAAAATAATATAT
24229764 AAAAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 9 0.24
22 4 0.11
23 1 0.03
24 9 0.24
25 5 0.14
26 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTTATAAAATAATATATTAATAA
Found at i:24229741 original size:24 final size:23
Alignment explanation
Indices: 24229696--24229758 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
24229686 ATATATTTTA
24229696 AATTTT-TATAAAATAAAATAAT
1 AATTTTATATAAAATAAAATAAT
* *
24229718 AATTTTATATAAAAATATATTAAT
1 AATTTTATAT-AAAATAAAATAAT
24229742 AA-TTTATATTAAAATAA
1 AATTTTATA-TAAAATAA
24229759 TATATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 6 0.17
23 15 0.43
24 14 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTATATAAAATAAAATAAT
Found at i:24229761 original size:24 final size:24
Alignment explanation
Indices: 24229696--24229770 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
24229686 ATATATTTTA
* *
24229696 AATTTTTA-TAAAATAA-AATAAT
1 AATTTATATTAAAATAATATTAAT
*
24229718 AATTTTATATAAAAAT-ATATTAAT
1 AA-TTTATATTAAAATAATATTAAT
*
24229742 AATTTATATTAAAATAATATATAAA
1 AATTTATATTAAAATAATAT-TAAT
24229767 AATT
1 AATT
24229771 AATAAATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 2 0.05
23 18 0.42
24 16 0.37
25 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTTATATTAAAATAATATTAAT
Found at i:24282471 original size:22 final size:22
Alignment explanation
Indices: 24282441--24282493 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
24282431 GAAATATCAA
* * *
24282441 ATATAAAATATATTTTTAATTT
1 ATATTAAATATATATATAATTT
* *
24282463 TTATTAAATTTATATATAATTT
1 ATATTAAATATATATATAATTT
24282485 ATATTAAAT
1 ATATTAAAT
24282494 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTAAATATATATATAATTT
Found at i:24282494 original size:11 final size:11
Alignment explanation
Indices: 24282458--24282495 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24282448 ATATATTTTT
*
24282458 AATTTTTATTA
1 AATTTATATTA
24282469 AATTTATA-TA
1 AATTTATATTA
24282479 TAATTTATATTA
1 -AATTTATATTA
24282491 AATTT
1 AATTT
24282496 TTAAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTTATATTA
Found at i:24283192 original size:3 final size:3
Alignment explanation
Indices: 24283184--24283209 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24283174 TTTTTTAAAT
24283184 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
24283210 TCACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:24284139 original size:22 final size:24
Alignment explanation
Indices: 24284117--24284159 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
24284107 TAAAAAATTA
24284117 AAATAA-TATTAT-T-TAAATTTT
1 AAATAATTATTATATATAAATTTT
24284138 AAATAATTATTATATATAAATT
1 AAATAATTATTATATATAAATT
24284160 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 1 0.05
24 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATAATTATTATATATAAATTTT
Found at i:24284161 original size:22 final size:22
Alignment explanation
Indices: 24284097--24284163 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
24284087 ATAATATAAT
* *
24284097 ATAATTATAATA-AAAAATTAAA
1 ATAATTATTATATATAAATT-AA
24284119 ATAA-TATTAT-T-TAAATTTTAA
1 ATAATTATTATATATAAA--TTAA
24284140 ATAATTATTATATATAAATTAA
1 ATAATTATTATATATAAATTAA
24284162 AT
1 AT
24284164 TAAAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
20 3 0.08
21 11 0.30
22 18 0.49
23 1 0.03
24 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATTATTATATATAAATTAA
Found at i:24284816 original size:25 final size:24
Alignment explanation
Indices: 24284786--24284845 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
24284776 TATATTTAAA
24284786 TTTTAAATTTATTTAAATATATTT
1 TTTTAAATTTATTTAAATATATTT
* *
24284810 TTATTAAATTAAATTTAATTATATTT
1 TT-TTAAATT-TATTTAAATATATTT
24284836 TTTT-AATTTA
1 TTTTAAATTTA
24284846 ATTACACTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 1 0.03
24 6 0.19
25 9 0.29
26 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTAAATTTATTTAAATATATTT
Found at i:24284845 original size:19 final size:20
Alignment explanation
Indices: 24284821--24284863 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
24284811 TATTAAATTA
* *
24284821 AATTTAATTATA-TTTTTTT
1 AATTTAATTACACTTTTTAT
24284840 AATTTAATTACACTTTTTAT
1 AATTTAATTACACTTTTTAT
24284860 AATT
1 AATT
24284864 CTATTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTAATTACACTTTTTAT
Found at i:24285162 original size:18 final size:18
Alignment explanation
Indices: 24285139--24285174 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24285129 TCACTTTTAG
24285139 AAATAAAAAATAAAATAT
1 AAATAAAAAATAAAATAT
* *
24285157 AAATAAATAATCAAATAT
1 AAATAAAAAATAAAATAT
24285175 GTAAATGTAA
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:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAATAAAAAATAAAATAT
Found at i:24286508 original size:30 final size:29
Alignment explanation
Indices: 24286420--24286510 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
24286410 AAAGATATAT
* *
24286420 ATTTTAAAAATTTAATTGAGTAAA-AATAA
1 ATTTT-AAAATTTAATTGATTAAATAAAAA
24286449 ATGTTTAAAATTTTAATTGAATTGAAATAAAAA
1 AT-TTTAAAA-TTTAATTG-ATT-AAATAAAAA
24286482 ATTTTAAAATTTAATTGATTATAATAAAA
1 ATTTTAAAATTTAATTGATTA-AATAAAA
24286511 TATTAATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
29 7 0.13
30 21 0.39
31 10 0.19
32 10 0.19
33 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (29 bp):
ATTTTAAAATTTAATTGATTAAATAAAAA
Found at i:24299670 original size:12 final size:12
Alignment explanation
Indices: 24299653--24299677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24299643 TTTTCAATCA
24299653 TAAATTTATTAT
1 TAAATTTATTAT
24299665 TAAATTTATTAT
1 TAAATTTATTAT
24299677 T
1 T
24299678 TTTAATTTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATTTATTAT
Found at i:24299897 original size:29 final size:29
Alignment explanation
Indices: 24299855--24299959 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 29
24299845 AAATAAAATA
*
24299855 ATAATTTACATTTTAAATTTTTAAATAAT
1 ATAATTTATATTTTAAATTTTTAAATAAT
* *
24299884 ATAATTTATATTTTAAAATTTTTATCATATT
1 ATAATTTATATTTT-AAATTTTTA-AATAAT
* * *
24299915 ATTACTTCATATTTTAAA-TTATAAA-AA-
1 A-TAATTTATATTTTAAATTTTTAAATAAT
*
24299942 ATAATTTATCATTATAAA
1 ATAATTTAT-ATTTTAAA
24299960 AAAACTTTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
26 6 0.10
27 8 0.13
28 1 0.02
29 14 0.23
30 13 0.21
31 8 0.13
32 11 0.18
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (29 bp):
ATAATTTATATTTTAAATTTTTAAATAAT
Found at i:24303371 original size:3 final size:3
Alignment explanation
Indices: 24303357--24303424 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
24303347 TAATTGATTC
*
24303357 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24303405 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
24303425 CTTTTTAAGG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:24304702 original size:9 final size:8
Alignment explanation
Indices: 24304683--24304707 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24304673 GTCAAAAGAA
24304683 TTTTTTAT
1 TTTTTTAT
24304691 TTTTTTAT
1 TTTTTTAT
24304699 TTTTTTAT
1 TTTTTTAT
24304707 T
1 T
24304708 CTCCAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:24305765 original size:19 final size:19
Alignment explanation
Indices: 24305743--24305787 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24305733 AAATTTGAGT
24305743 TTTAATACAAAATCTAGG-C
1 TTTAATACAAAAT-TAGGAC
* *
24305762 TTTAACACAAAATTTGGAC
1 TTTAATACAAAATTAGGAC
24305781 TTTAATA
1 TTTAATA
24305788 TGAAACTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (19 bp):
TTTAATACAAAATTAGGAC
Found at i:24306434 original size:26 final size:28
Alignment explanation
Indices: 24306382--24306435 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
24306372 TAATAATTTT
*
24306382 AAATATGAAAAGATGATATGATATAAAA
1 AAATATGAAAAGATAATATGATATAAAA
*
24306410 AAATAT-AAAA-ATAATATGATTTAAAA
1 AAATATGAAAAGATAATATGATATAAAA
24306436 TTTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.58
27 4 0.17
28 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (28 bp):
AAATATGAAAAGATAATATGATATAAAA
Found at i:24309412 original size:5 final size:5
Alignment explanation
Indices: 24309387--24309428 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
24309377 ATAAAATAGG
*
24309387 ATAAT ATGAT AT--T ATAA- ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
24309429 TTTATCTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
3 3 0.09
4 4 0.12
5 26 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:24314856 original size:14 final size:15
Alignment explanation
Indices: 24314837--24314867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24314827 TATTGATTTG
24314837 AAAAAATAAAATATA
1 AAAAAATAAAATATA
*
24314852 AAAAAATAAATTATA
1 AAAAAATAAAATATA
24314867 A
1 A
24314868 TTAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATATA
Found at i:24315012 original size:18 final size:18
Alignment explanation
Indices: 24314986--24315023 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24314976 TTATATTCAC
24314986 AATCGATCAAAATAAATT
1 AATCGATCAAAATAAATT
* *
24315004 AATCTATCAAAATTAATT
1 AATCGATCAAAATAAATT
24315022 AA
1 AA
24315024 AATTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (18 bp):
AATCGATCAAAATAAATT
Found at i:24323722 original size:14 final size:15
Alignment explanation
Indices: 24323687--24323754 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
24323677 TTTGTATTTT
24323687 TTAATTTTTATGAAT-
1 TTAATTTTTAT-AATA
*
24323702 TTCATTTTTATAATA
1 TTAATTTTTATAATA
* *
24323717 TT-A-TTTTAAAATTT
1 TTAATTTTTATAA-TA
*
24323731 TTAATTTTTGTAATA
1 TTAATTTTTATAATA
24323746 TT-ATTTTTA
1 TTAATTTTTA
24323755 AAAATTTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 7 0.17
14 13 0.31
15 16 0.38
16 6 0.14
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (15 bp):
TTAATTTTTATAATA
Found at i:24323723 original size:29 final size:28
Alignment explanation
Indices: 24323690--24323787 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
24323680 GTATTTTTTA
* *
24323690 ATTTTTATGAATTTCATTTTTATAATATT
1 ATTTTTA-AAATTTAATTTTTATAATATT
*
24323719 A-TTTTAAAATTTTTAATTTTTGTAATATT
1 ATTTTTAAAA--TTTAATTTTTATAATATT
* * *
24323748 ATTTTTAAAAATTTAATCTCTATATTATT
1 ATTTTT-AAAATTTAATTTTTATAATATT
24323777 ATTTTTTAAAA
1 A-TTTTTAAAA
24323788 AATTTAATCT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.04
28 5 0.09
29 37 0.65
30 9 0.16
31 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTTAAAATTTAATTTTTATAATATT
Found at i:24323896 original size:29 final size:29
Alignment explanation
Indices: 24323824--24323898 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
24323814 AATTGAATTG
* *
24323824 AAATTTTTAAAAAATAATATTGTAAAAATT
1 AAATTTTT-AAAAATAATATTGAAAAAACT
*
24323854 AAATTCTTT-TAAATAATATT-AAAATAACT
1 AAATT-TTTAAAAATAATATTGAAAA-AACT
24323883 AAATTTTTAAAAATAA
1 AAATTTTTAAAAATAA
24323899 AAAAAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 6 0.16
29 24 0.63
30 5 0.13
31 3 0.08
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATTTTTAAAAATAATATTGAAAAAACT
Found at i:24326238 original size:20 final size:21
Alignment explanation
Indices: 24326205--24326244 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24326195 AGTTTCTTAC
24326205 TAAAAACGATTAAATGAAAAT
1 TAAAAACGATTAAATGAAAAT
* *
24326226 TAAAATCGA-TAAATTAAAA
1 TAAAAACGATTAAATGAAAA
24326245 GATTTCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (21 bp):
TAAAAACGATTAAATGAAAAT
Found at i:24329116 original size:23 final size:22
Alignment explanation
Indices: 24329090--24329132 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
24329080 TAACTCTATG
24329090 AAAATGACAAATATTTTGAGACA
1 AAAAT-ACAAATATTTTGAGACA
*
24329113 AAAATACTAATATTTTGAGA
1 AAAATACAAATATTTTGAGA
24329133 TCTGAATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (22 bp):
AAAATACAAATATTTTGAGACA
Found at i:24335213 original size:12 final size:12
Alignment explanation
Indices: 24335196--24335234 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24335186 TTTATTTAAA
24335196 TATATTAAAAAT
1 TATATTAAAAAT
*
24335208 TATATTAAAATAA
1 TATATTAAAA-AT
*
24335221 TATATAAAAAAT
1 TATATTAAAAAT
24335233 TA
1 TA
24335235 AAAAGCAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TATATTAAAAAT
Found at i:24369405 original size:20 final size:21
Alignment explanation
Indices: 24369368--24369407 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
24369358 TTATTAATAA
*
24369368 GATGATATTATTAAATTTATC
1 GATGATATTATAAAATTTATC
24369389 GATGATA-TATAAAATTTAT
1 GATGATATTATAAAATTTAT
24369408 AAATTGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (21 bp):
GATGATATTATAAAATTTATC
Found at i:24370523 original size:20 final size:21
Alignment explanation
Indices: 24370486--24370524 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24370476 TTTAAAGTGT
* *
24370486 TTTTTTTTTTTTTAGTTTTGC
1 TTTTTTTCTTTCTAGTTTTGC
24370507 TTTTTTTCTTTCT-GTTTT
1 TTTTTTTCTTTCTAGTTTT
24370525 CTGGTTTGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.82
Consensus pattern (21 bp):
TTTTTTTCTTTCTAGTTTTGC
Found at i:24370829 original size:21 final size:21
Alignment explanation
Indices: 24370784--24370829 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24370774 ATTAGAGGTT
*
24370784 CAAACTTGAGCTTTCTAAGAT
1 CAAACTTGAGCTTTCTAAGAC
24370805 CAAACTTGAGCTTTC-AAGCAC
1 CAAACTTGAGCTTTCTAAG-AC
24370826 CAAA
1 CAAA
24370830 AAAATTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (21 bp):
CAAACTTGAGCTTTCTAAGAC
Found at i:24376168 original size:28 final size:28
Alignment explanation
Indices: 24376126--24376226 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
24376116 TGATGAAAAA
* *
24376126 TTAGATGTGTTTTAGTGGTCTGTGGAAG
1 TTAGATGTGTGTTAGTGGTCTATGGAAG
*
24376154 TTAGATGTTTGTTAGTGG-CTTATGGAAG
1 TTAGATGTGTGTTAGTGGTC-TATGGAAG
* * *
24376182 TTAGATATGTGTTTGTGGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTCTATGGAAG
*
24376210 TTAGTTGTGTGTTAGTG
1 TTAGATGTGTGTTAGTG
24376227 ATTTTTGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.46
Consensus pattern (28 bp):
TTAGATGTGTGTTAGTGGTCTATGGAAG
Found at i:24381320 original size:2 final size:2
Alignment explanation
Indices: 24381313--24381349 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24381303 AAAAGTTCAA
24381313 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
24381350 GCACACCTCC
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:24382743 original size:16 final size:16
Alignment explanation
Indices: 24382708--24382746 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24382698 GATTAACGAA
*
24382708 CAACTCAATGAGAGAT
1 CAACTCAATGAGAGAG
* *
24382724 CAACTTAATGAGAGGG
1 CAACTCAATGAGAGAG
24382740 CAACTCA
1 CAACTCA
24382747 GTTGCTGACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (16 bp):
CAACTCAATGAGAGAG
Found at i:24391730 original size:24 final size:24
Alignment explanation
Indices: 24391680--24391735 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
24391670 GAAATAGATA
* *
24391680 TTATTTATTATATAACAATAAAAT
1 TTATTTATCATATAACAACAAAAT
* **
24391704 TTATTTATCATATAATAACAATTT
1 TTATTTATCATATAACAACAAAAT
24391728 TTATTTAT
1 TTATTTAT
24391736 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (24 bp):
TTATTTATCATATAACAACAAAAT
Found at i:24392545 original size:23 final size:23
Alignment explanation
Indices: 24392519--24392562 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24392509 GATGATTTAT
24392519 AAGTTCAA-AAAATTTGTAAATAA
1 AAGTTCAATAAAA-TTGTAAATAA
*
24392542 AAGTTTAATAAAATTGTAAAT
1 AAGTTCAATAAAATTGTAAAT
24392563 TTCAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (23 bp):
AAGTTCAATAAAATTGTAAATAA
Found at i:24392649 original size:53 final size:53
Alignment explanation
Indices: 24392535--24392637 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 53
24392525 AAAAAATTTG
*
24392535 TAAATAAAAGTTTAATAAAATTGTAAATTTCAATTAAATTAACGATTTATCCA
1 TAAATTAAAGTTTAATAAAATTGTAAATTTCAATTAAATTAACGATTTATCCA
* * *
24392588 TAAATTAAAGTTTAAT-GAATTCGTAAATTTCAATTAAGTTAAGGATTTAT
1 TAAATTAAAGTTTAATAAAATT-GTAAATTTCAATTAAATTAACGATTTAT
24392638 TCTGACTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 4 0.09
53 41 0.91
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (53 bp):
TAAATTAAAGTTTAATAAAATTGTAAATTTCAATTAAATTAACGATTTATCCA
Found at i:24397079 original size:5 final size:5
Alignment explanation
Indices: 24397062--24397095 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
24397052 ACTAAACTTT
*
24397062 AAAAC AAAA- AAAAC AAAAC AAAAG AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
24397096 CCTTTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:24397091 original size:15 final size:14
Alignment explanation
Indices: 24397062--24397095 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
24397052 ACTAAACTTT
24397062 AAAACAAAAAAAAC
1 AAAACAAAAAAAAC
24397076 AAAACAAAAGAAAAC
1 AAAACAAAA-AAAAC
24397091 AAAAC
1 AAAAC
24397096 CCTTTAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAAAC
Found at i:24398474 original size:29 final size:27
Alignment explanation
Indices: 24398414--24398482 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 27
24398404 ATATGATTTT
* *
24398414 TAATTATTTATTTTAAATTATTGAATA
1 TAATAATTTATTTTAAATTATAGAATA
* *
24398441 TAATACATTTTATTTTAATTTGATAGATTA
1 TAATA-A-TTTATTTTAAATT-ATAGAATA
24398471 -AATAATTTATTT
1 TAATAATTTATTT
24398483 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 11 0.31
28 2 0.06
29 16 0.46
30 6 0.17
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (27 bp):
TAATAATTTATTTTAAATTATAGAATA
Found at i:24398502 original size:40 final size:39
Alignment explanation
Indices: 24398452--24398541 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 39
24398442 AATACATTTT
* *
24398452 ATTTTAATTTGATAGATTAAATAATTTATTTATTTTTAAA
1 ATTTTAATTTGATAGATTAAAT-ATATATATATTTTTAAA
*
24398492 ATTTTAATTTGATAGATTAAATATATATATATTTTTTAA
1 ATTTTAATTTGATAGATTAAATATATATATATTTTTAAA
*
24398531 TTTCTTAATTT
1 ATT-TTAATTT
24398542 TTACTGCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (39 bp):
ATTTTAATTTGATAGATTAAATATATATATATTTTTAAA
Found at i:24410674 original size:38 final size:39
Alignment explanation
Indices: 24410627--24410700 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 39
24410617 ATTATATTTT
24410627 ATATAAAAATA-ATATGTTATAATTTATATT-AATATAAAA
1 ATATAAAAATATA-ATGTTATAATTT-TATTAAATATAAAA
* *
24410666 ATAT-AAAATATAATTTTTTAATTTTATTAAATATA
1 ATATAAAAATATAATGTTATAATTTTATTAAATATA
24410701 TATAATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 4 0.13
38 22 0.71
39 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (39 bp):
ATATAAAAATATAATGTTATAATTTTATTAAATATAAAA
Found at i:24411300 original size:17 final size:17
Alignment explanation
Indices: 24411280--24411312 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24411270 CCTTTTTATA
*
24411280 TTTGTTGATTTTTTTGT
1 TTTGTTAATTTTTTTGT
24411297 TTTGTTAATTTTTTTG
1 TTTGTTAATTTTTTTG
24411313 AACGGACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (17 bp):
TTTGTTAATTTTTTTGT
Found at i:24420501 original size:228 final size:228
Alignment explanation
Indices: 24420066--24420872 Score: 861
Period size: 228 Copynumber: 3.5 Consensus size: 228
24420056 TCTTCGGAAG
* * * * *
24420066 ATGCAGATCTTTGTGAAAACCCTGACAGGCAAGACCATAACTCTCGAGGTCGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAAACCTTGACAGGCAAAACCATAACCCTCGAGGTCGAGAGTTCAGACAC
* * * *
24420131 CATTGACAATGTCAAGGCTAAA-ATTCAGGACAAGGAAGGGATCCCACCTGACCAGCAACGTCTC
66 GATTGACAACGTCAAGGC-AAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGTCTC
* * * * * *
24420195 ATCTTCGCTGGTAAACAGCTCGAAGATGGACGAACCCTT-GCCGACTATAACATACAGAAA-GAA
130 ATCTTCGCTGGGAAACAGCTTGAGGACGGACGAA-CCTTGGCTGATTATAACATACA-AAAGGAA
* * * * *
24420258 TCCACTCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
193 TCAACTCTTCACCTTGTCCTCAGGCTTCGTGGAGGT
* * * * * *
24420294 ATGCAAATCTTCGTCAAAACCTTGACAGGCAAAACCGTCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAAATCTTTGTCAAAACCTTGACAGGCAAAACCATAACCCTCGAGGTCGAGAGTTCAGACAC
* * * * * * * *
24420359 GATCGACAACGTCAAGGCCAAGATCCAAGACAAAGAAGGCATTCCTCCCGACCAGCAACGTCTCA
66 GATTGACAACGTCAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGTCTCA
* * * * * * *
24420424 TCTTTGCTGGGAAACAGCTTGAGGACGGTCGTACTTTGGCTGATTATAATATCCAAAAGGAGTCA
131 TCTTCGCTGGGAAACAGCTTGAGGACGGACGAACCTTGGCTGATTATAACATACAAAAGGAATCA
24420489 ACTCTTCACCTTGTCCTCAGGCTTCGTGGAGGT
196 ACTCTTCACCTTGTCCTCAGGCTTCGTGGAGGT
* *
24420522 ATGCAAATCTTTGTCAAAACCTTGACAGG-AAAGACTATAACCCTGGAGGTCGAGAGTTCAGACA
1 ATGCAAATCTTTGTCAAAACCTTGACAGGCAAA-ACCATAACCCTCGAGGTCGAGAGTTCAGACA
* * *
24420586 CGATTGACAACGTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTCTG
65 CGATTGACAACGTCAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGTCTC
* * *
24420651 ATCTTCGCT-GGAAAGCAGCTTGAGGACGGGA-GGACCTTGGCTGATTACAACATTCAAAAGGAA
130 ATCTTCGCTGGGAAA-CAGCTTGAGGAC-GGACGAACCTTGGCTGATTATAACATACAAAAGGAA
* * ** * *
24420714 TCGACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGA
193 TCAACTCTTCACCTTGTCCTCAGGCTTCGTGGAGGT
* * * * * * * * * * * * *
24420750 ATGCAGATATTTGTCAAGACCTTGACTGGAAAAACGATTACCTTGGAGGTTGAAAGTTCGGATAC
1 ATGCAAATCTTTGTCAAAACCTTGACAGGCAAAACCATAACCCTCGAGGTCGAGAGTTCAGACAC
* * * * *
24420815 GATTGACAATGTCAAGGCAAAGATTCAGGACAAGGAAGGTATCCCCCCAGATCAGCAA
66 GATTGACAACGTCAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAA
24420873 AGGCTTATCT
Statistics
Matches: 481, Mismatches: 91, Indels: 14
0.82 0.16 0.02
Matches are distributed among these distances:
227 16 0.03
228 460 0.96
229 5 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (228 bp):
ATGCAAATCTTTGTCAAAACCTTGACAGGCAAAACCATAACCCTCGAGGTCGAGAGTTCAGACAC
GATTGACAACGTCAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAACGTCTCA
TCTTCGCTGGGAAACAGCTTGAGGACGGACGAACCTTGGCTGATTATAACATACAAAAGGAATCA
ACTCTTCACCTTGTCCTCAGGCTTCGTGGAGGT
Found at i:24421784 original size:15 final size:15
Alignment explanation
Indices: 24421761--24421816 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
24421751 CGGTCATTTT
24421761 AATTAATTTTAAATTA
1 AATT-ATTTTAAATTA
*
24421777 AATTATTTAAAATTA
1 AATTATTTTAAATTA
*
24421792 AATTA-ATTAAATTA
1 AATTATTTTAAATTA
**
24421806 TGTTATTTTAA
1 AATTATTTTAA
24421817 TTTTGTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.30
15 19 0.58
16 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTATTTTAAATTA
Found at i:24426156 original size:22 final size:23
Alignment explanation
Indices: 24426131--24426179 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
24426121 TCCGGAGCAA
*
24426131 ATAAAAGCATA-CA-AAACATTGT
1 ATAAAAG-ATACCATAAAAATTGT
24426153 AT-AAAGATACCATAAAAATTGT
1 ATAAAAGATACCATAAAAATTGT
24426175 ATAAA
1 ATAAA
24426180 CTGATAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 6 0.26
22 12 0.52
23 2 0.09
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.24
Consensus pattern (23 bp):
ATAAAAGATACCATAAAAATTGT
Found at i:24428357 original size:14 final size:14
Alignment explanation
Indices: 24428335--24428366 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24428325 CTTGTAGTGA
*
24428335 ATAATTATAATAAT
1 ATAACTATAATAAT
24428349 ATAACTATAATAAT
1 ATAACTATAATAAT
24428363 ATAA
1 ATAA
24428367 TACTATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAACTATAATAAT
Found at i:24432099 original size:7 final size:7
Alignment explanation
Indices: 24432087--24432127 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
24432077 TCTGTTACCG
24432087 CTTGCCA
1 CTTGCCA
24432094 CTTGCCA
1 CTTGCCA
24432101 CTTGCCA
1 CTTGCCA
24432108 CTTGCCA
1 CTTGCCA
24432115 CTTGCCA
1 CTTGCCA
24432122 CTTGCC
1 CTTGCC
24432128 GTCAGGTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.12, C:0.44, G:0.15, T:0.29
Consensus pattern (7 bp):
CTTGCCA
Found at i:24438597 original size:2 final size:2
Alignment explanation
Indices: 24438590--24438618 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24438580 GTTTTTCTCT
24438590 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24438619 TTCAATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24442773 original size:9 final size:8
Alignment explanation
Indices: 24442742--24442770 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24442732 TAGACAACTC
24442742 AAAAATTA
1 AAAAATTA
24442750 AAAAATTA
1 AAAAATTA
24442758 AAAAATTA
1 AAAAATTA
24442766 AAAAA
1 AAAAA
24442771 ATTTTTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATTA
Found at i:24447385 original size:20 final size:19
Alignment explanation
Indices: 24447357--24447426 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
24447347 GTTTTAATTC
*
24447357 ATATTTATAAATTAATTAT
1 ATATATATAAATTAATTAT
*
24447376 -TATATATATATGTAA--AT
1 ATATATATAAAT-TAATTAT
*
24447393 -TATATATAAATTAATTCAC
1 ATATATATAAATTAATT-AT
24447412 ATATATATAAATTAA
1 ATATATATAAATTAA
24447427 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
16 3 0.07
17 12 0.29
18 9 0.21
19 4 0.10
20 14 0.33
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (19 bp):
ATATATATAAATTAATTAT
Found at i:24448820 original size:30 final size:30
Alignment explanation
Indices: 24448784--24448842 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
24448774 TTTGAAGGCG
*
24448784 TTGAGATTTTTCAGTCATTGCAAAAATTTA
1 TTGAGATTTTTCAATCATTGCAAAAATTTA
*
24448814 TTGAGATTTTTCAATTATTGCAAAAATTT
1 TTGAGATTTTTCAATCATTGCAAAAATTT
24448843 GTTATGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (30 bp):
TTGAGATTTTTCAATCATTGCAAAAATTTA
Found at i:24449540 original size:31 final size:31
Alignment explanation
Indices: 24449497--24449555 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
24449487 GTTTCAAGAT
*
24449497 CCTTGGACTCAAGTTAGGTCGATTAGACGAC
1 CCTTGGACTCAAGTGAGGTCGATTAGACGAC
*
24449528 CCTTTGACTCAAGTGAGGTCGATTAGAC
1 CCTTGGACTCAAGTGAGGTCGATTAGAC
24449556 CCTTTCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (31 bp):
CCTTGGACTCAAGTGAGGTCGATTAGACGAC
Found at i:24450628 original size:17 final size:17
Alignment explanation
Indices: 24450603--24450658 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
24450593 CACATAAAAT
24450603 AATTATTTATAATA-ATA
1 AATTATTTA-AATATATA
*
24450620 AATTTTTTAAATATATAA
1 AATTATTTAAATATAT-A
*
24450638 AATATATTAATAATATATA
1 AAT-TATTTA-AATATATA
24450657 AA
1 AA
24450659 AAAAATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.12
17 10 0.31
18 4 0.12
19 7 0.22
20 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATTTAAATATATA
Found at i:24450794 original size:146 final size:143
Alignment explanation
Indices: 24450587--24450856 Score: 409
Period size: 146 Copynumber: 1.9 Consensus size: 143
24450577 TCAATATCTT
*
24450587 AAATATCACATAAAATAATTATTTATAATAATAAATTTTTTAAATATATAAAATATATTAATAAT
1 AAATATCACATAAAATAATTATTTATAACAATAAATTTTTTAAATATATAAAATATATTAATAAT
*
24450652 ATATAAAAAAA-ATTTTCAAGTGCAATATATAAAAACAAAATTCAAAATTATAATTAGAACATGT
66 ATA-AAAAAAAGATTTTCAAGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAACATGT
24450716 AACATGTAATAAGC
130 AACATGTAATAAGC
**
24450730 AAATACTCACAT-AAATAATTATTTATAACAATAGTTTTTTCTTAAAATATATAAAATATATTAA
1 AAATA-TCACATAAAATAATTATTTATAACAATA-AATTTT-TT-AAATATATAAAATATATTAA
* * * *
24450794 TCATATAAAAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAATAAGAA
62 TAATATAAAAAAAAGATTTTCAAGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAA
24450857 AAAATGTTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
143 25 0.22
144 10 0.09
145 9 0.08
146 70 0.61
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (143 bp):
AAATATCACATAAAATAATTATTTATAACAATAAATTTTTTAAATATATAAAATATATTAATAAT
ATAAAAAAAAGATTTTCAAGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAACATGTA
ACATGTAATAAGC
Found at i:24450895 original size:233 final size:238
Alignment explanation
Indices: 24450672--24451640 Score: 1124
Period size: 233 Copynumber: 4.0 Consensus size: 238
24450662 AATTTTCAAG
* * *
24450672 TGCAATATATAAAAACAAAATTCAAAATTATAATTAGAACATGTAACATGTAATAAGCAAATACT
1 TGCAATATATAAAAATAAAATT-AAAATTATAATAAGAACATGTAACATATAATAAGCAAATACT
* * *
24450737 CACAT-AAATAATTATTTATAACAATAGTTTTTTCTTAAAATATATAAAATATATTAATCATATA
65 CACATAAAATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATATTAATAATATA
24450801 AAAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAATAAGAAAAAATGTTA
130 AAAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAATAAGAAAAAATGTTA
* **
24450866 TAATAA-AACATGTAACATATAATAAAAAAATATTATTTATAATT
195 TAATAAGAACATGTAACATATAATAAAAAAATATT-TTTAAAACA
* *
24450910 TG-AAT-TAT---AATAAAA--AAAAGTTATAATAAGAATATGTAACATATAAGAAGCAAATACT
1 TGCAATATATAAAAATAAAATTAAAA-TTATAATAAGAACATGTAACATATAATAAGCAAATACT
*
24450968 CATATAAAATAATTATTTATAATAATAATTTTTCTCTTAAAATATATAAAATATATTAATAATAT
65 CACATAAAATAATTATTTATAATAATAATTTTT-TCTTAAAATATATAAAATATATTAATAATAT
* * * *
24451033 ATAGAAAGGATTTTTAGGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAATGTT
129 AAAAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAATAAGAAAAAATGTT
* *
24451098 TTAATAAGAACATGTAACATATAATAAGAAAAATATTTGGTTAAAAAAA
194 ATAATAAGAACATGTAACATATAATAA-AAAAATATTT--TT-AAAACA
** * **
24451147 TGTTATTTATAATTGTGAATTATAATAAGAAAAAATGTTATAATAAGAACATGTAACATATAATA
1 TGCAATATATAA-----AA--ATAA-AA-TTAAAA--TTATAATAAGAACATGTAACATATAATA
* *
24451212 AGCAAATACTCACATAAAATAATTATTTATAAT-A-AGTTTTTTCTTAAAATATATAAAATACAT
55 AGCAAATACTCACATAAAATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATAT
*
24451275 TAATAATATATAAAAAAGATTTTTAGGTGCAATATATAAAAA-AAAATTCAAAATTATAATAAGA
120 TAATAATATAAAAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAATAAGA
24451339 AAAAATGTTATAATAAGAACATGTAACATATAATAAGAAAAAATATTTGGTTGAAAAAACA
185 AAAAATGTTATAATAAGAACATGTAACATATAAT-A-AAAAAATATTT--TT---AAAACA
*** **** * *
24451400 TGTCATTTATATATTGTGAATTTTGTTTTTATATATTGCACCT-CTAAGAACATGTAA-ATATAA
1 TG-CA---ATATA---T-AAAAATAAAATTA-AAATT--A--TAATAAGAACATGTAACATATAA
24451463 TAAGCAAATACTCACATAAAATAATTATTTATAATAATAAATTTTTTCTTAAAATATATAAAATA
53 TAAGCAAATACTCACATAAAATAATTATTTATAATAAT-AATTTTTTCTTAAAATATATAAAATA
*
24451528 TATTAATAATATATAAAAAAA-A-TTTTAGGTACAATATATAAAAATAAAATTCAAAATTATAAT
117 TATTAATAATATA-AAAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAAT
*
24451591 AAGAAAAAATGTTATAATAAGAACATGTAACATATTATAAAAAAATATTT
181 AAGAAAAAATGTTATAATAAGAACATGTAACATATAATAAAAAAATATTT
24451641 GATTAAAAAA
Statistics
Matches: 638, Mismatches: 46, Indels: 78
0.84 0.06 0.10
Matches are distributed among these distances:
230 4 0.01
231 38 0.06
232 25 0.04
233 103 0.16
234 20 0.03
235 9 0.01
236 5 0.01
237 8 0.01
238 4 0.01
239 3 0.00
247 1 0.00
249 4 0.01
250 57 0.09
251 78 0.12
252 8 0.01
253 57 0.09
254 85 0.13
255 23 0.04
256 93 0.15
257 10 0.02
260 1 0.00
261 2 0.00
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (238 bp):
TGCAATATATAAAAATAAAATTAAAATTATAATAAGAACATGTAACATATAATAAGCAAATACTC
ACATAAAATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATATTAATAATATAA
AAAAAAGATTTTTAGGTGCAATATATAAAAATAAAATTCAAAATTATAATAAGAAAAAATGTTAT
AATAAGAACATGTAACATATAATAAAAAAATATTTTTAAAACA
Found at i:24451223 original size:254 final size:250
Alignment explanation
Indices: 24450888--24451672 Score: 1163
Period size: 251 Copynumber: 3.1 Consensus size: 250
24450878 TAACATATAA
* *
24450888 TAAAAAAATATTATTTATAATT-TGAATTATAATAAAAAAAA-GTTATAATAAGAATATGTAACA
1 TAAAAAAATGTTATTTATAATTGTGAATTATAATAAAAAAAATGTTATAATAAGAACATGTAACA
* *
24450951 TATAAGAAGCAAATACTCATATAAAATAATTATTTATAATAATAATTTTTCTCTTAAAATATATA
66 TATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAATTTTT-TCTTAAAATATATA
*
24451016 AAATATATTAATAATATATAGAAAGGATTTTTAGGTGCAATATATAAAAACAAAATTCAAAATTA
130 AAATATATTAATAATATATA-AAAAGATTTTTAGGTGCAATATATAAAAA-AAAATTCAAAATTA
*
24451081 TAATAAGAAAAAATGTTTTAATAAGAACATGTAACATATAATAAGAAAAATATTTGGT
193 TAATAAGAAAAAATGTTATAATAAGAACATGTAACATATAATAAGAAAAATATTTGGT
24451139 TAAAAAAATGTTATTTATAATTGTGAATTATAATAAGAAAAAATGTTATAATAAGAACATGTAAC
1 TAAAAAAATGTTATTTATAATTGTGAATTATAATAA-AAAAAATGTTATAATAAGAACATGTAAC
*
24451204 ATATAATAAGCAAATACTCACATAAAATAATTATTTATAAT-A-AGTTTTTTCTTAAAATATATA
65 ATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAATTTTTTCTTAAAATATATA
*
24451267 AAATACATTAATAATATATAAAAAAGATTTTTAGGTGCAATATATAAAAAAAAATTCAAAATTAT
130 AAATATATTAATAATATAT-AAAAAGATTTTTAGGTGCAATATATAAAAAAAAATTCAAAATTAT
24451332 AATAAGAAAAAATGTTATAATAAGAACATGTAACATATAATAAGAAAAAATATTTGGT
194 AATAAGAAAAAATGTTATAATAAGAACATGTAACATATAATAAG-AAAAATATTTGGT
* * ** *** * * * *
24451390 TGAAAAAACATGTCATTTATATATTGTGAATTTTGTTTTTATATAT-TGCACCT-CTAAGAACAT
1 T-AAAAAA-ATGTTATTTATA-ATTGTGAATTATAATAAAAAAAATGT-TA--TAATAAGAACAT
24451453 GTAA-ATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAAATTTTTTCTTAAAA
60 GTAACATATAATAAGCAAATACTCACATAAAATAATTATTTATAATAAT-AATTTTTTCTTAAAA
* * *
24451517 TATATAAAATATATTAATAATATATAAAAAAAATTTTAGGTACAATATATAAAAATAAAATTCAA
124 TATATAAAATATATTAATAATATATAAAAAGATTTTTAGGTGCAATATATAAAAA-AAAATTCAA
* *
24451582 AATTATAATAAGAAAAAATGTTATAATAAGAACATGTAACATATTATAA-AAAAATATTTGAT
188 AATTATAATAAGAAAAAATGTTATAATAAGAACATGTAACATATAATAAGAAAAATATTTGGT
*
24451644 TAAAAAAATGTTATTTATGATTGTGAATT
1 TAAAAAAATGTTATTTATAATTGTGAATT
24451673 TTCCAATTTT
Statistics
Matches: 491, Mismatches: 28, Indels: 30
0.89 0.05 0.05
Matches are distributed among these distances:
250 58 0.12
251 105 0.21
252 37 0.08
253 70 0.14
254 98 0.20
255 28 0.06
256 95 0.19
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (250 bp):
TAAAAAAATGTTATTTATAATTGTGAATTATAATAAAAAAAATGTTATAATAAGAACATGTAACA
TATAATAAGCAAATACTCACATAAAATAATTATTTATAATAATAATTTTTTCTTAAAATATATAA
AATATATTAATAATATATAAAAAGATTTTTAGGTGCAATATATAAAAAAAAATTCAAAATTATAA
TAAGAAAAAATGTTATAATAAGAACATGTAACATATAATAAGAAAAATATTTGGT
Found at i:24451526 original size:9 final size:9
Alignment explanation
Indices: 24451512--24451545 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
24451502 AATTTTTTCT
24451512 TAAAATATA
1 TAAAATATA
24451521 TAAAATATA
1 TAAAATATA
24451530 TTAATAATATA
1 -TAA-AATATA
24451541 TAAAA
1 TAAAA
24451546 AAAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.48
10 6 0.26
11 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATATA
Found at i:24451598 original size:15 final size:17
Alignment explanation
Indices: 24451580--24451613 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24451570 AATAAAATTC
24451580 AAAA-TTATAATAAGAA
1 AAAAGTTATAATAAGAA
24451596 AAAATGTTATAATAAGAA
1 AAAA-GTTATAATAAGAA
24451614 CATGTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAAGTTATAATAAGAA
Found at i:24451729 original size:16 final size:15
Alignment explanation
Indices: 24451710--24451740 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
24451700 ATATTTTAAG
24451710 AAAAAATTATTATTAT
1 AAAAAATTATT-TTAT
24451726 AAAAAATTATTTTAT
1 AAAAAATTATTTTAT
24451741 GTGAGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAAATTATTTTAT
Found at i:24453024 original size:15 final size:15
Alignment explanation
Indices: 24453000--24453034 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24452990 AAATTAAAAC
* *
24453000 AAAAATTATATTTAT
1 AAAAAATATATATAT
24453015 AAAAAATATATATAT
1 AAAAAATATATATAT
24453030 AAAAA
1 AAAAA
24453035 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAAATATATATAT
Found at i:24453024 original size:36 final size:37
Alignment explanation
Indices: 24452984--24453064 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 37
24452974 TTCAACTCAT
* *
24452984 ATATATAAATTAAAACAAAAATTATATTT-ATAAAAA
1 ATATATAAATAAAAACAAAAATTAAATTTAATAAAAA
* * *
24453020 ATATATATATAAAAATAAAAATTAAATTTAATAAAAT
1 ATATATAAATAAAAACAAAAATTAAATTTAATAAAAA
24453057 ATATATAA
1 ATATATAA
24453065 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 25 0.66
37 13 0.34
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (37 bp):
ATATATAAATAAAAACAAAAATTAAATTTAATAAAAA
Found at i:24454884 original size:590 final size:589
Alignment explanation
Indices: 24453767--24454909 Score: 2151
Period size: 590 Copynumber: 1.9 Consensus size: 589
24453757 TTTCTTCAAA
24453767 GATAAACATTTTTTATCAAAATTTCTGCTTTACGTCATTCAAGTTGAAAGTGGTTTATAGAGAAT
1 GATAAACATTTTTTATCAAAATTTCTGCTTTACGTCATTCAAGTTGAAAGTGGTTTATAGAGAAT
24453832 TTGATGGTTATACTGACATTTCATTTCCACCATTTCATTTATAAGATTTGAATGTTACAAACAAT
66 TTGATGGTTATACTGACATTTCATTTCCACCATTTCATTTATAAGATTTGAATGTTACAAACAAT
24453897 TTCAAATGTACCATTTTTATTTACATTTTGTTTCCAGAGAAAGTACTCCAACTTAAAAAATTAAG
131 TTCAAATGTACCATTTTTATTTACATTTTGTTTCCAGAGAAAGTACTCCAACTTAAAAAATTAAG
24453962 GAAGCACATAAGAAGGTGATGGTTGCGAATCATCAAATGTCGATGGAAGCCATTATGTTGCATCA
196 GAAGCACATAAGAAGGTGATGGTTGCGAATCATCAAATGTCGATGGAAGCCATTATGTTGCATCA
24454027 AAAATCAATGAAGCAAAAGATATGATGCTCAGGAGAACCAACAGTGGTAATTCTGTATTTTGAAG
261 AAAATCAATGAAGCAAAAGATATGATGCTCAGGAGAACCAACAGTGGTAATTCTGTATTTTGAAG
*
24454092 GCATTGAGACTGTTATGAGAACAATTTGATCTTATATCCAGATGGTCCATTATTGCAAAAATTTA
326 GCATTGAGACTGTTATGAGAACAATTTGATCTTATATCCAAATGGTCCATTATTGCAAAAATTTA
*
24454157 TTATTCCAATAAAAGTGTTTGTCCGAATCATTTATTTGACCCCAATAATTGTAGACTAGTTGAAA
391 TTATTCCAATAAAAGTGTTTGTCCGAATCATTTATTTGACCCCAATAATTGTAGACTAATTGAAA
*
24454222 AATCATTAACTTAATTCTCAAAATTTTAGTTTATAGTTATATAATTTGACTTGAATTCTTCAAGA
456 AATCATTAACGTAATTCTCAAAATTTTAGTTTATAGTTATATAATTTGACTTGAATTCTTCAAGA
*
24454287 TTTATTTATTGTACTGGTTTTGTTAAGTTTCAACCTGTTATAAGCAGGAGAGAAGTCGCTCTGAC
521 TTTATTTATTGCACTGGTTTTGTTAAGTTTCAACCTGTTATAAGCAGGAGAGAAGTCGCTCTGAC
24454352 TCTT
586 TCTT
*
24454356 GATAAACATTTTTTATCAAAATTTCTGCTTTACGTCATTCAAGTTGAAAGTGGTTTTTAGAGAAT
1 GATAAACATTTTTTATCAAAATTTCTGCTTTACGTCATTCAAGTTGAAAGTGGTTTATAGAGAAT
** *
24454421 TTGATGGTTATGTTGCCATTTCATTTCCACCATTTTCATTTATAAGATTTGAATGTTACAAACAA
66 TTGATGGTTATACTGACATTTCATTTCCACCA-TTTCATTTATAAGATTTGAATGTTACAAACAA
24454486 TTTCAAATGTACCATTTTTATTTACATTTTGTTTCCAGAGAAAGTACTCCAACTTAAAAAATTAA
130 TTTCAAATGTACCATTTTTATTTACATTTTGTTTCCAGAGAAAGTACTCCAACTTAAAAAATTAA
* *
24454551 GGAAGCACATAAGAAGGTGATGGTTGCGAATCATCAGATGTCGGTGGAAGCCATTATGTTGCATC
195 GGAAGCACATAAGAAGGTGATGGTTGCGAATCATCAAATGTCGATGGAAGCCATTATGTTGCATC
*
24454616 AAAACTCAATGAAGCAAAAGATATGATGCTCAGGAGAACCAACAGTGGTAATTCTGTATTTTGAA
260 AAAAATCAATGAAGCAAAAGATATGATGCTCAGGAGAACCAACAGTGGTAATTCTGTATTTTGAA
24454681 GGCATTGAGACTGTTATGAGAACAATTTGATCTTATATCCAAATGGTCCATTATTGCAAAAATTT
325 GGCATTGAGACTGTTATGAGAACAATTTGATCTTATATCCAAATGGTCCATTATTGCAAAAATTT
* *
24454746 ATTATTCCAATAAAAGTGTTTGTTCGAATTATTTATTTGACCCCAATAATTGTAGACTAATTGAA
390 ATTATTCCAATAAAAGTGTTTGTCCGAATCATTTATTTGACCCCAATAATTGTAGACTAATTGAA
24454811 AAATCATTAACGTAATTCTCAAAATTTTAGTTTATAGTTATATAATTTGACTTGAATTCTTCAAG
455 AAATCATTAACGTAATTCTCAAAATTTTAGTTTATAGTTATATAATTTGACTTGAATTCTTCAAG
*
24454876 ATTTATTTATTGCACTGGTTTTGTTGAGTTTCAA
520 ATTTATTTATTGCACTGGTTTTGTTAAGTTTCAA
24454910 TTTCATTTAT
Statistics
Matches: 539, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
589 93 0.17
590 446 0.83
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (589 bp):
GATAAACATTTTTTATCAAAATTTCTGCTTTACGTCATTCAAGTTGAAAGTGGTTTATAGAGAAT
TTGATGGTTATACTGACATTTCATTTCCACCATTTCATTTATAAGATTTGAATGTTACAAACAAT
TTCAAATGTACCATTTTTATTTACATTTTGTTTCCAGAGAAAGTACTCCAACTTAAAAAATTAAG
GAAGCACATAAGAAGGTGATGGTTGCGAATCATCAAATGTCGATGGAAGCCATTATGTTGCATCA
AAAATCAATGAAGCAAAAGATATGATGCTCAGGAGAACCAACAGTGGTAATTCTGTATTTTGAAG
GCATTGAGACTGTTATGAGAACAATTTGATCTTATATCCAAATGGTCCATTATTGCAAAAATTTA
TTATTCCAATAAAAGTGTTTGTCCGAATCATTTATTTGACCCCAATAATTGTAGACTAATTGAAA
AATCATTAACGTAATTCTCAAAATTTTAGTTTATAGTTATATAATTTGACTTGAATTCTTCAAGA
TTTATTTATTGCACTGGTTTTGTTAAGTTTCAACCTGTTATAAGCAGGAGAGAAGTCGCTCTGAC
TCTT
Found at i:24455067 original size:23 final size:23
Alignment explanation
Indices: 24455037--24455090 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
24455027 TTTGTTGTTG
24455037 GTTGTTTTGAACTGTC-AAGGTTA
1 GTTGTTTTGAACTG-CAAAGGTTA
*
24455060 GTTGTTTTGAACTGCAAAGGTTG
1 GTTGTTTTGAACTGCAAAGGTTA
*
24455083 GTTCTTTT
1 GTTGTTTT
24455091 TTGTACTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (23 bp):
GTTGTTTTGAACTGCAAAGGTTA
Found at i:24457840 original size:32 final size:32
Alignment explanation
Indices: 24457798--24457859 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
24457788 CCCAAGTATC
*
24457798 GTTCTTTATGTCTATCCCCAAGTCTATATGAT
1 GTTCTCTATGTCTATCCCCAAGTCTATATGAT
* *
24457830 GTTCTCTATGTCTATCCCTAAGTCTCTATG
1 GTTCTCTATGTCTATCCCCAAGTCTATATG
24457860 TTATGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (32 bp):
GTTCTCTATGTCTATCCCCAAGTCTATATGAT
Found at i:24458504 original size:62 final size:62
Alignment explanation
Indices: 24458407--24458530 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
24458397 ATATTTTTAA
* * *
24458407 GACCTCAATCTCGATCTTTTCAGATCTTTTACTAGTACCAACTCAAACAAATAATGTCACAC
1 GACCTCAATCTCAATCTTTTCAGATCCTTTACTAGTACCAACTCAAACAAATAACGTCACAC
* *
24458469 GACCTTAATCTCAATTTTTTCAGATCCTTTACTAGTACCAACTCAAACAAATAACGTCACAC
1 GACCTCAATCTCAATCTTTTCAGATCCTTTACTAGTACCAACTCAAACAAATAACGTCACAC
24458531 AACCCGTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (62 bp):
GACCTCAATCTCAATCTTTTCAGATCCTTTACTAGTACCAACTCAAACAAATAACGTCACAC
Found at i:24471958 original size:19 final size:19
Alignment explanation
Indices: 24471934--24471971 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24471924 ATTAGAAAAC
24471934 GCACCTTCAATATACCTTT
1 GCACCTTCAATATACCTTT
24471953 GCACCTTCAATATACCTTT
1 GCACCTTCAATATACCTTT
24471972 AAACTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
GCACCTTCAATATACCTTT
Found at i:24482568 original size:16 final size:16
Alignment explanation
Indices: 24482532--24482575 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
24482522 AATACTCACA
24482532 TAAAATAATTATTTAT
1 TAAAATAATTATTTAT
* * *
24482548 AAAAATAATTTTTTCT
1 TAAAATAATTATTTAT
24482564 TAAAATATATTA
1 TAAAATA-ATTA
24482576 ATAATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATAATTATTTAT
Found at i:24482634 original size:26 final size:28
Alignment explanation
Indices: 24482576--24482635 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
24482566 AAATATATTA
*
24482576 ATAATATATATAAAAAAGATTTTCAAGT
1 ATAATATATATAAAAAAGATTTACAAGT
* *
24482604 GTAATATATA-AAAAAA-ATTTACAATT
1 ATAATATATATAAAAAAGATTTACAAGT
24482630 ATAATA
1 ATAATA
24482636 AAAAAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.46
27 6 0.21
28 9 0.32
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (28 bp):
ATAATATATATAAAAAAGATTTACAAGT
Found at i:24483081 original size:252 final size:252
Alignment explanation
Indices: 24482635--24483619 Score: 1174
Period size: 252 Copynumber: 4.0 Consensus size: 252
24482625 CAATTATAAT
* *
24482635 AAAAAAATGTTATAATAAGAACAAGTAACATGTAATAAGCAAATACTCACATAAAATAATTATTT
1 AAAAAAATGTTATAATAAGAACATGTAACATATAATAAGCAAATACTCACATAAAATAATTATTT
* *
24482700 ATAATA-ACAATTTTTCTTAAAATATAT-AAATATATTAATAATTTATAAAAAAAGATTTTTAGG
66 ATAATATA-ATTTTTTCTTAAAATATATAAAATATATTAATAA--TAT-AAAAAAGATTTTTAGA
* *
24482763 TGCAATATATAAAAACAAAATTCAAAACTATAATCAGAAAAAAATGTTATAATAAGAACATGTAA
127 TGCAATATATAAAAACAAAATTCAAAATTATAATAAG-AAAAAATGTTATAATAAGAACATGTAA
* * *
24482828 CATATAAT-AAAAAATATTTGGTTCAAAAAAATGTTATTTATAATTGTAAATTATAATAAGA
191 CATATAATAAAAAAATATTTGATTGAAAAAAATGTTATTTATAATTGTGAATTATAATAAGA
* * * *
24482889 AAAAAAAAG-TATAATAAGAACATGCAACATATAATAAGCAAATATTCATATAAAATAATTATTT
1 AAAAAAATGTTATAATAAGAACATGTAACATATAATAAGCAAATACTCACATAAAATAATTATTT
* *
24482953 ATAATATAATTTTTTCTTAAAATATGTAAAATATATTAATAATCTAAAAAAGGATTTTTAGATGC
66 ATAATATAATTTTTTCTTAAAATATATAAAATATATTAATAATATAAAAAA-GATTTTTAGATGC
* *
24483018 AATATATAAAAACAAATTTTAAAATTATAATAAGAAAAAAATGTTATAATAAGAACATGTAACAT
130 AATATATAAAAACAAAATTCAAAATTATAATAAG-AAAAAATGTTATAATAAGAACATGTAACAT
*
24483083 ATAATAAGAAAAAATATTTGATTGAAATAAATGTTATTTATAATTGTGAATTATAATAAG-
194 ATAAT-A-AAAAAATATTTGATTGAAAAAAATGTTATTTATAATTGTGAATTATAATAAGA
* *
24483143 -AAAAAATGTTATAATAAGAACATGTAACATATAATAAGCAAATA-T----TTACATAA--ATTT
1 AAAAAAATGTTATAATAAGAACATGTAACATATAATAAGCAAATACTCACATAAAATAATTATTT
24483200 -T-ATAT-A-TTTTTCTTAAAATATATAAAATATATTAATAAAATATAAAAAAGATTTTTA-AGT
66 ATAATATAATTTTTTCTTAAAATATATAAAATATATTAAT--AATATAAAAAAGATTTTTAGA-T
* *
24483260 GCAATGTATAAAAA-AAATTTTCAAAATTATAATAAGAAAAAATGTTATAATAAGAACATGTAAC
128 GCAATATATAAAAACAAA-ATTCAAAATTATAATAAGAAAAAATGTTATAATAAGAACATGTAAC
* * ** ***
24483324 ATATAATAAAAAAATATTTGGTTG-AAAAAATATTATTTATAATTGT-AATT-TTTTTTTA
192 ATATAATAAAAAAATATTTGATTGAAAAAAATGTTATTTATAATTGTGAATTATAATAAGA
* * * * * *
24483382 TATATATTG-CACCT-ATAAGAACATGTAA-ATATAATAAGCAAATACTCACATAAAATAATTTT
1 AAAAAAATGTTA--TAATAAGAACATGTAACATATAATAAGCAAATACTCACATAAAATAATTAT
**
24483444 TTATAATAATAATTTTTTTCTTAAAATATAT--AATATATTAATAATATATTAAA-ATTTTTATG
64 TTATAAT-ATAA-TTTTTTCTTAAAATATATAAAATATATTAATAATATAAAAAAGATTTTTA-G
* * * *
24483506 -TGAAATATATAAAAATAAAATTCAAAATTATAAT---AAAAAATATTATAATAAGAATATGTAA
126 ATGCAATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAATGTTATAATAAGAACATGTAA
*
24483567 CATATAAGAAGAAAAA-ATATTGATTGAAAAAAATGTTATTTAT-ATTGTGAATT
191 CATATAATAA-AAAAATAT-TTGATTGAAAAAAATGTTATTTATAATTGTGAATT
24483620 TTGTTTTTAT
Statistics
Matches: 645, Mismatches: 51, Indels: 78
0.83 0.07 0.10
Matches are distributed among these distances:
238 2 0.00
239 21 0.03
240 40 0.06
241 16 0.02
242 1 0.00
243 68 0.11
244 82 0.13
245 30 0.05
246 23 0.04
247 39 0.06
248 14 0.02
249 8 0.01
250 12 0.02
251 6 0.01
252 97 0.15
253 81 0.13
254 57 0.09
255 48 0.07
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (252 bp):
AAAAAAATGTTATAATAAGAACATGTAACATATAATAAGCAAATACTCACATAAAATAATTATTT
ATAATATAATTTTTTCTTAAAATATATAAAATATATTAATAATATAAAAAAGATTTTTAGATGCA
ATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAATGTTATAATAAGAACATGTAACATAT
AATAAAAAAATATTTGATTGAAAAAAATGTTATTTATAATTGTGAATTATAATAAGA
Found at i:24483456 original size:16 final size:15
Alignment explanation
Indices: 24483431--24483461 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
24483421 AAATACTCAC
24483431 ATAAAATAATTTTTT
1 ATAAAATAATTTTTT
24483446 ATAATAATAATTTTTT
1 ATAA-AATAATTTTTT
24483462 TCTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAAAATAATTTTTT
Found at i:24487376 original size:12 final size:11
Alignment explanation
Indices: 24487338--24487380 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
24487328 TTGATATTAA
24487338 TAATTTATATTT
1 TAATTTA-ATTT
* *
24487350 TTATTTAAATT
1 TAATTTAATTT
24487361 TAATTTAATTT
1 TAATTTAATTT
24487372 GTAATTTAA
1 -TAATTTAA
24487381 GATTTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TAATTTAATTT
Found at i:24487378 original size:23 final size:24
Alignment explanation
Indices: 24487338--24487385 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
24487328 TTGATATTAA
*
24487338 TAATTTATATTTTTATTTAA-ATT
1 TAATTTATATTTTAATTTAAGATT
24487361 TAATTTA-ATTTGTAATTTAAGATT
1 TAATTTATATTT-TAATTTAAGATT
24487385 T
1 T
24487386 TATAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 14 0.64
24 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TAATTTATATTTTAATTTAAGATT
Found at i:24487630 original size:33 final size:29
Alignment explanation
Indices: 24487570--24487633 Score: 74
Period size: 33 Copynumber: 2.1 Consensus size: 29
24487560 TTTTTATTTT
**
24487570 TAATTTATATATATAAAATAATTTTTATA
1 TAATTTATATATATAAAATAAAATTTATA
24487599 TAATTTATGTATATATGAAAATAAAAATTTATA
1 TAATTTA--TATATAT-AAAAT-AAAATTTATA
24487632 TA
1 TA
24487634 TATGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
31 7 0.24
32 5 0.17
33 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
TAATTTATATATATAAAATAAAATTTATA
Found at i:24488272 original size:13 final size:13
Alignment explanation
Indices: 24488254--24488280 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24488244 TCTTAAAATA
24488254 TAAATTTTTTTGT
1 TAAATTTTTTTGT
24488267 TAAATTTTTTTGT
1 TAAATTTTTTTGT
24488280 T
1 T
24488281 TTAACTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TAAATTTTTTTGT
Found at i:24488964 original size:17 final size:17
Alignment explanation
Indices: 24488938--24488971 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24488928 AAGGTTGGTT
* *
24488938 TTTTTTTTTTTTGTACA
1 TTTTTATTTTTTCTACA
24488955 TTTTTATTTTTTCTACA
1 TTTTTATTTTTTCTACA
24488972 AAAAAGTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTTCTACA
Found at i:24489073 original size:30 final size:30
Alignment explanation
Indices: 24489028--24489086 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
24489018 ACTTCTAATA
*
24489028 AATCTATTTCATTAATTTAACAATATTTGC
1 AATCTATTTCATTAATCTAACAATATTTGC
* * *
24489058 AATCTCTTTCTTTAATCTAATAATATTTG
1 AATCTATTTCATTAATCTAACAATATTTG
24489087 TAGGAAGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (30 bp):
AATCTATTTCATTAATCTAACAATATTTGC
Found at i:24494340 original size:7 final size:7
Alignment explanation
Indices: 24494328--24494358 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
24494318 TTTAGTCTAA
24494328 TGTCATG
1 TGTCATG
24494335 TGTCATG
1 TGTCATG
24494342 TGTCATG
1 TGTCATG
24494349 TGTCATG
1 TGTCATG
24494356 TGT
1 TGT
24494359 TATGCGTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.29, T:0.45
Consensus pattern (7 bp):
TGTCATG
Found at i:24494352 original size:21 final size:21
Alignment explanation
Indices: 24494328--24494367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24494318 TTTAGTCTAA
*
24494328 TGTCATGTGTCATGTGTCATG
1 TGTCATGTGTCATGCGTCATG
*
24494349 TGTCATGTGTTATGCGTCA
1 TGTCATGTGTCATGCGTCA
24494368 GTATGCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.42
Consensus pattern (21 bp):
TGTCATGTGTCATGCGTCATG
Found at i:24494367 original size:14 final size:14
Alignment explanation
Indices: 24494328--24494367 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24494318 TTTAGTCTAA
*
24494328 TGTCATGTGTCATG
1 TGTCATGCGTCATG
*
24494342 TGTCATGTGTCATG
1 TGTCATGCGTCATG
*
24494356 TGTTATGCGTCA
1 TGTCATGCGTCA
24494368 GTATGCATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.42
Consensus pattern (14 bp):
TGTCATGCGTCATG
Found at i:24497737 original size:2 final size:2
Alignment explanation
Indices: 24497730--24497755 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24497720 AGTGAGTTAA
24497730 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
24497756 GATCCAGAAT
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:24510610 original size:17 final size:18
Alignment explanation
Indices: 24510585--24510623 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
24510575 AATCAAATTA
24510585 TATATTTTTATT-AATTTT
1 TATATTTTT-TTAAATTTT
24510603 TATA-TTTTTTAAATTTT
1 TATATTTTTTTAAATTTT
24510620 TATA
1 TATA
24510624 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.10
17 14 0.70
18 4 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTTTTAAATTTT
Found at i:24510663 original size:10 final size:10
Alignment explanation
Indices: 24510650--24510684 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
24510640 TTTATTATAT
24510650 AAATTTATTA
1 AAATTTATTA
24510660 AAATTTATTA
1 AAATTTATTA
24510670 AAATTTTATTA
1 AAA-TTTATTA
24510681 AAAT
1 AAAT
24510685 AATATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AAATTTATTA
Found at i:24510679 original size:11 final size:11
Alignment explanation
Indices: 24510638--24510684 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
24510628 AAAAATAATT
24510638 ATTTTATTATATA
1 ATTTTATTA-A-A
*
24510651 AATTTATTAAA
1 ATTTTATTAAA
24510662 A-TTTATTAAA
1 ATTTTATTAAA
24510672 ATTTTATTAAA
1 ATTTTATTAAA
24510683 AT
1 AT
24510685 AATATATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.31
11 13 0.41
12 1 0.03
13 8 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTTATTAAA
Found at i:24526018 original size:2 final size:2
Alignment explanation
Indices: 24526011--24526041 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24526001 TCAAATCCAG
24526011 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 T
24526042 TATTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24526070 original size:18 final size:18
Alignment explanation
Indices: 24526033--24526085 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
24526023 TATATATATA
*
24526033 TATATATATTATTTTTATTT
1 TATATAT-TTA-TTTAATTT
*
24526053 TTTATATTTATTTAATTT
1 TATATATTTATTTAATTT
24526071 TATAT-TTTATATTAA
1 TATATATTTAT-TTAA
24526086 AAATATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.17
18 15 0.52
19 3 0.10
20 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATATTTATTTAATTT
Found at i:24526073 original size:16 final size:16
Alignment explanation
Indices: 24526052--24526107 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
24526042 TATTTTTATT
24526052 TTTTATATTTATTTAA
1 TTTTATATTTATTTAA
24526068 TTTTATATTTTATATTAA
1 TTTTATA-TTTAT-TTAA
***
24526086 AAATAT-TTTA-TTAA
1 TTTTATATTTATTTAA
24526100 TTTTATAT
1 TTTTATAT
24526108 CAAATTGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 11 0.35
17 5 0.16
18 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATATTTATTTAA
Found at i:24526078 original size:23 final size:24
Alignment explanation
Indices: 24526031--24526083 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
24526021 TATATATATA
* * *
24526031 TATATATATATTATTTTTATTTTT
1 TATATTTATATTAATTTTATATTT
24526055 TATATTTAT-TTAATTTTATATTT
1 TATATTTATATTAATTTTATATTT
24526078 TATATT
1 TATATT
24526084 AAAAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TATATTTATATTAATTTTATATTT
Found at i:24526713 original size:2 final size:2
Alignment explanation
Indices: 24526708--24526740 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
24526698 ACTTAATCTA
24526708 AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24526741 ACAACATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:24526976 original size:21 final size:21
Alignment explanation
Indices: 24526951--24527003 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
24526941 ATAAAATATG
*
24526951 AATTTTATTTTTTTAAT-AAAT
1 AATTTTATTTGTTT-ATCAAAT
*
24526972 AATTTTAGTTGTTTATCAAAT
1 AATTTTATTTGTTTATCAAAT
24526993 AATTTTTATTT
1 AA-TTTTATTT
24527004 AAAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 18 0.67
22 7 0.26
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
AATTTTATTTGTTTATCAAAT
Found at i:24527340 original size:48 final size:47
Alignment explanation
Indices: 24527242--24527346 Score: 108
Period size: 48 Copynumber: 2.2 Consensus size: 47
24527232 TGAACTCTAA
** *
24527242 TTATCAATTTTATATTTCAAATAAATGAAAAAATTTTAATATTATCT
1 TTATCAATTTTATATTTCAAATAAATGAAAAAATAATAATATTATAT
*
24527289 TTATCAATTATTATATTT-AATTTAAAAT-AAAAAATAATAAT-TTAATAT
1 TTATCAATT-TTATATTTCAA-AT-AAATGAAAAAATAATAATATT-ATAT
*
24527337 TTATCTATTT
1 TTATCAATTT
24527347 AATCTTAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
47 14 0.29
48 31 0.63
49 4 0.08
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.49
Consensus pattern (47 bp):
TTATCAATTTTATATTTCAAATAAATGAAAAAATAATAATATTATAT
Found at i:24528730 original size:103 final size:103
Alignment explanation
Indices: 24528542--24528749 Score: 319
Period size: 103 Copynumber: 2.0 Consensus size: 103
24528532 AGGAAAAAAC
*
24528542 ATTTAAATATGAAATATCTCATTTGCTAGAATTTGCTTTTAAACTCATAGAGTTTGATACAAAAA
1 ATTTAAATATGAAATATCTCATTTGCTAGAATTTGCCTTTAAACTCATAGAGTTTGATACAAAAA
24528607 TTTTTCTAAAGCACACCAAACAAATTTTCAAATCATTT
66 TTTTTCTAAAGCACACCAAACAAATTTTCAAATCATTT
* * * *
24528645 ATTTAAATATGAAATATCTCATTTGCTAGAGTTTGCCTTT-AAGTACATAGAGTTTGATATATAA
1 ATTTAAATATGAAATATCTCATTTGCTAGAATTTGCCTTTAAACT-CATAGAGTTTGATACAAAA
*** *
24528709 ATTTTTCTAAAGTGGATCAAACAAATTTTCAAATCATTT
65 ATTTTTCTAAAGCACACCAAACAAATTTTCAAATCATTT
24528748 AT
1 AT
24528750 CTCTCTTTAA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 3 0.03
103 92 0.97
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (103 bp):
ATTTAAATATGAAATATCTCATTTGCTAGAATTTGCCTTTAAACTCATAGAGTTTGATACAAAAA
TTTTTCTAAAGCACACCAAACAAATTTTCAAATCATTT
Found at i:24531444 original size:24 final size:24
Alignment explanation
Indices: 24531417--24531473 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
24531407 ATTACAAAAG
*
24531417 ATATATATTTAATGTATTATTAAT
1 ATATATATTTAATATATTATTAAT
* * * *
24531441 ATATAAATTTTATATATTGTTATT
1 ATATATATTTAATATATTATTAAT
24531465 ATGATATAT
1 AT-ATATAT
24531474 GATACAACTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
ATATATATTTAATATATTATTAAT
Found at i:24531671 original size:34 final size:35
Alignment explanation
Indices: 24531633--24531702 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
24531623 AAAATATTTT
*
24531633 TTGTTTTTATTTT-TA-TTTTTATTTTTCAAGAAAA
1 TTGTTTTCATTTTATACTTTTTATTTTTCAA-AAAA
* *
24531667 TTGTTTTCATTTTATACTTTTTGTTTTTTAAAAAA
1 TTGTTTTCATTTTATACTTTTTATTTTTCAAAAAA
24531702 T
1 T
24531703 GTAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.39
35 7 0.23
36 12 0.39
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (35 bp):
TTGTTTTCATTTTATACTTTTTATTTTTCAAAAAA
Found at i:24534289 original size:77 final size:80
Alignment explanation
Indices: 24534141--24534291 Score: 191
Period size: 77 Copynumber: 1.9 Consensus size: 80
24534131 AAGAAGATAG
* * * * *
24534141 TTTTAGCAAGGATGAAATAGTTTCAGCTTTTTCAAGGTATATGCTCTTTTATTAATATTTGCTTC
1 TTTTAACAAGGATGAAATAGTTTCA-CTTTTTCAAGGCATATGCTCTTCTATCAATATTTGCCTC
*
24534206 ATTCAGTGCTTGTGCA
65 ACTCAGTGCTTGTGCA
* * *
24534222 TTTTAACAAGGATGAAATAG-TTC-C-TTTTCAAGGCATGTGCTCTTCTATCGATATTTGCCTGA
1 TTTTAACAAGGATGAAATAGTTTCACTTTTTCAAGGCATATGCTCTTCTATCAATATTTGCCTCA
24534284 CTCAGTGC
66 CTCAGTGC
24534292 ATTTGTGCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 38 0.62
78 1 0.02
80 3 0.05
81 19 0.31
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (80 bp):
TTTTAACAAGGATGAAATAGTTTCACTTTTTCAAGGCATATGCTCTTCTATCAATATTTGCCTCA
CTCAGTGCTTGTGCA
Found at i:24540283 original size:15 final size:15
Alignment explanation
Indices: 24540259--24540307 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
24540249 TATTTTCAAG
24540259 ATAACAACAATAATA
1 ATAACAACAATAATA
* *
24540274 ATAGCAACAACAATA
1 ATAACAACAATAATA
*
24540289 ACAACAACAATAATA
1 ATAACAACAATAATA
24540304 ATAA
1 ATAA
24540308 TAAAAACTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.16
Consensus pattern (15 bp):
ATAACAACAATAATA
Found at i:24540288 original size:12 final size:12
Alignment explanation
Indices: 24540259--24540301 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
24540249 TATTTTCAAG
*
24540259 ATAACAACAATA
1 ATAACAACAACA
24540271 ATAATAGCAACAACA
1 AT-A-A-CAACAACA
24540286 ATAACAACAACA
1 ATAACAACAACA
24540298 ATAA
1 ATAA
24540302 TAATAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 14 0.52
13 2 0.07
14 2 0.07
15 9 0.33
ACGTcount: A:0.65, C:0.19, G:0.02, T:0.14
Consensus pattern (12 bp):
ATAACAACAACA
Found at i:24543967 original size:24 final size:25
Alignment explanation
Indices: 24543931--24543981 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
24543921 CCCACAATAA
24543931 TCATAAGGATATTTAATTTA-GCAT
1 TCATAAGGATATTTAATTTAGGCAT
24543955 TCATAAAGG-TATTTAATTTAGGCAT
1 TCAT-AAGGATATTTAATTTAGGCAT
24543980 TC
1 TC
24543982 TTATTTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (25 bp):
TCATAAGGATATTTAATTTAGGCAT
Found at i:24544516 original size:92 final size:91
Alignment explanation
Indices: 24544259--24544533 Score: 433
Period size: 91 Copynumber: 3.0 Consensus size: 91
24544249 TCTCTCGTTC
* * *
24544259 ACGTTAAGGGATCGGGTTTTGTTCAAGCTACTGCGAAAGAATTCATCAAAGGTGTGGAACGAGCT
1 ACGTTGAGGGATCGGG-TTTGTTCAAGCTACTGCGAAAGAATTCGTCAAAGGGGTGGAACGAGCT
24544324 TACCTTTTAGAGAGAGGAGAAAGGGCT
65 TACCTTTTAGAGAGAGGAGAAAGGGCT
* * * * *
24544351 ACGTTGAGGGATCGGGTTTGTTTAAGCTACTGTGAAAGAACTCGTCGAAGGGGTGGAATGAGCTT
1 ACGTTGAGGGATCGGGTTTGTTCAAGCTACTGCGAAAGAATTCGTCAAAGGGGTGGAACGAGCTT
24544416 ACCTTTTAGAGAGAGGAGAAAGGGCT
66 ACCTTTTAGAGAGAGGAGAAAGGGCT
* * *
24544442 ACGTTGAGGGATCGAGTTCTGTTCAAGCTACTGCAAAAGAATTCGTCTAAGGGGTGGAACGAGCT
1 ACGTTGAGGGATCGGGTT-TGTTCAAGCTACTGCGAAAGAATTCGTCAAAGGGGTGGAACGAGCT
24544507 TACCTTTTAGAGAGAGGAGAAAGGGCT
65 TACCTTTTAGAGAGAGGAGAAAGGGCT
24544534 TTTTTATAGA
Statistics
Matches: 167, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 85 0.51
92 82 0.49
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (91 bp):
ACGTTGAGGGATCGGGTTTGTTCAAGCTACTGCGAAAGAATTCGTCAAAGGGGTGGAACGAGCTT
ACCTTTTAGAGAGAGGAGAAAGGGCT
Found at i:24545088 original size:48 final size:49
Alignment explanation
Indices: 24544972--24545072 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
24544962 GAAGGAGAAG
*
24544972 AAAGAAAGAAAGAAAATAAAATTTTAAGGTTTTTTAAGTTAAGGGTAAA
1 AAAGAAGGAAAGAAAATAAAATTTTAAGGTTTTTTAAGTTAAGGGTAAA
*
24545021 AAAGAAGGAAAGAAAATAAAATTTTAAGG-TTTTTAAGTTAAGGTTAAA
1 AAAGAAGGAAAGAAAATAAAATTTTAAGGTTTTTTAAGTTAAGGGTAAA
24545069 AAAG
1 AAAG
24545073 TAATTTTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 22 0.44
49 28 0.56
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (49 bp):
AAAGAAGGAAAGAAAATAAAATTTTAAGGTTTTTTAAGTTAAGGGTAAA
Found at i:24545116 original size:18 final size:18
Alignment explanation
Indices: 24545080--24545115 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24545070 AAGTAATTTT
24545080 ATAAATAAAGTAATAAAA
1 ATAAATAAAGTAATAAAA
*
24545098 ATAAATATA-TAATAAAA
1 ATAAATAAAGTAATAAAA
24545115 A
1 A
24545116 AGCTCGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
ATAAATAAAGTAATAAAA
Found at i:24545424 original size:20 final size:21
Alignment explanation
Indices: 24545382--24545433 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
24545372 TTATAATTTA
24545382 ATTTTTATTATTTTCTATCTTG
1 ATTTTTATT-TTTTCTATCTTG
*
24545404 ATTTTTATTTTTT-TATTTTG
1 ATTTTTATTTTTTCTATCTTG
24545424 ATTTTTATTT
1 ATTTTTATTT
24545434 AAAAATTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 16 0.55
21 4 0.14
22 9 0.31
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (21 bp):
ATTTTTATTTTTTCTATCTTG
Found at i:24549153 original size:26 final size:27
Alignment explanation
Indices: 24549111--24549163 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
24549101 ACAAATTACT
* * *
24549111 TTCAATATATTATATAATAATAGAATA
1 TTCAATATATTACATAAAAATAAAATA
24549138 TTCAATA-ATTACATAAAAATAAAATA
1 TTCAATATATTACATAAAAATAAAATA
24549164 AATTAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (27 bp):
TTCAATATATTACATAAAAATAAAATA
Found at i:24549486 original size:21 final size:22
Alignment explanation
Indices: 24549460--24549502 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24549450 TACAAAATTT
* *
24549460 TTAATT-TATATTTTAATAAAA
1 TTAATTATATAATTAAATAAAA
24549481 TTAATTATATAATTAAATAAAA
1 TTAATTATATAATTAAATAAAA
24549503 ATCATTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATTATATAATTAAATAAAA
Found at i:24549706 original size:14 final size:14
Alignment explanation
Indices: 24549687--24549715 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24549677 CTATTCCTCT
24549687 TCAAAATTTTTTCA
1 TCAAAATTTTTTCA
24549701 TCAAAATTTTTTCA
1 TCAAAATTTTTTCA
24549715 T
1 T
24549716 GTCTTGGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
TCAAAATTTTTTCA
Found at i:24552067 original size:2 final size:2
Alignment explanation
Indices: 24552060--24552084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24552050 AATAAGTTAC
24552060 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 A
24552085 ATGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24553443 original size:113 final size:113
Alignment explanation
Indices: 24553245--24553468 Score: 394
Period size: 113 Copynumber: 2.0 Consensus size: 113
24553235 TGACAAAAGC
*
24553245 GTCACAAAGTTGAGTGGGAGAAAATGTCACGGACCTAAGGGAATCCCACATCGAACATAATAGGA
1 GTCACAAAGTTGAGTGGGAGAAAATGTCACGGACCTAAGGGAATCCCACATCGAACATAATAAGA
*
24553310 GAGTCACTGGGGTATAAAAGGGTTCACACCACTTCTTTCTTGTGAATT
66 GAGTCACTGGGGTATAAAAGGGTTCACACCACTTCTCTCTTGTGAATT
* *
24553358 GTCACAAAGTTGAGTGGGAGAAAATGTCATGGACCTAAGGGAATCTCACATCGAACATAATAAGA
1 GTCACAAAGTTGAGTGGGAGAAAATGTCACGGACCTAAGGGAATCCCACATCGAACATAATAAGA
* *
24553423 GAGTTACTGGGGTATAAAAGGGTTCACACTACTTCTCTCTTGTGAA
66 GAGTCACTGGGGTATAAAAGGGTTCACACCACTTCTCTCTTGTGAA
24553469 GCACCTTTTG
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (113 bp):
GTCACAAAGTTGAGTGGGAGAAAATGTCACGGACCTAAGGGAATCCCACATCGAACATAATAAGA
GAGTCACTGGGGTATAAAAGGGTTCACACCACTTCTCTCTTGTGAATT
Found at i:24553933 original size:20 final size:19
Alignment explanation
Indices: 24553904--24553942 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
24553894 ATTCAAATAA
*
24553904 ATTTATATAATTTTTATTAT
1 ATTTAAATAATTTTT-TTAT
24553924 ATTTAAATAATTTTTTTAT
1 ATTTAAATAATTTTTTTAT
24553943 TTACATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTAAATAATTTTTTTAT
Found at i:24553962 original size:23 final size:22
Alignment explanation
Indices: 24553912--24553964 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
24553902 AAATTTATAT
* *
24553912 AATTTTTATTATATTTAAATAA
1 AATTTTTATTACATTAAAATAA
**
24553934 TTTTTTTATTTACATTAAAATAA
1 AATTTTTA-TTACATTAAAATAA
24553957 AATTTTTA
1 AATTTTTA
24553965 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTTTATTACATTAAAATAA
Found at i:24553972 original size:7 final size:7
Alignment explanation
Indices: 24553960--24553999 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
24553950 AAAATAAAAT
24553960 TTTTAAA
1 TTTTAAA
24553967 TTTTAAA
1 TTTTAAA
*
24553974 TTTCAAA
1 TTTTAAA
*
24553981 TTTCAAA
1 TTTTAAA
24553988 TTTT-AA
1 TTTTAAA
24553994 TTTTAA
1 TTTTAA
24554000 TTTATATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (7 bp):
TTTTAAA
Found at i:24554107 original size:27 final size:28
Alignment explanation
Indices: 24554074--24554129 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
24554064 CTTTTATTTG
*
24554074 AAATAAAAATATATTT-A-TACAACTAAA
1 AAATAAAAATACATTTGAGTACAA-TAAA
24554101 AAATAAAAATACATTTGAGTACAATAAA
1 AAATAAAAATACATTTGAGTACAATAAA
24554129 A
1 A
24554130 TATTTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 15 0.58
28 6 0.23
29 5 0.19
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (28 bp):
AAATAAAAATACATTTGAGTACAATAAA
Found at i:24554321 original size:2 final size:2
Alignment explanation
Indices: 24554314--24554342 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24554304 TAGACAGTAC
24554314 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
24554343 AAGAATTTTA
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:24554519 original size:24 final size:22
Alignment explanation
Indices: 24554467--24554519 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
24554457 ATATATATTT
*
24554467 AAAATCTTTTGATAATTTTAAA
1 AAAATCTTTTGATAATTATAAA
** *
24554489 ATCATCTTTTGATTGTATTATAAA
1 AAAATCTTTTGA-T-AATTATAAA
24554513 AAAATCT
1 AAAATCT
24554520 ACAATCAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (22 bp):
AAAATCTTTTGATAATTATAAA
Found at i:24565128 original size:2 final size:2
Alignment explanation
Indices: 24565121--24565151 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
24565111 ACTGACTTTC
24565121 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24565152 CTTCAGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24567158 original size:15 final size:16
Alignment explanation
Indices: 24567119--24567159 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24567109 TATTAAATGT
24567119 ATAAATAAAAATTATA
1 ATAAATAAAAATTATA
* *
24567135 ATTATTAAAAATT-TA
1 ATAAATAAAAATTATA
24567150 ATAAATAAAA
1 ATAAATAAAA
24567160 TAAATGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATAAAAATTATA
Found at i:24567197 original size:28 final size:25
Alignment explanation
Indices: 24567138--24567197 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
24567128 AATTATAATT
*
24567138 ATTAAAAATTTAATAAATAAAATAA
1 ATTAAAAAATTAATAAATAAAATAA
* *
24567163 ATGAAAAAATTAATAATATATAAGTAA
1 ATTAAAAAATTAATAA-ATA-AAATAA
24567190 ACTTAAAA
1 A-TTAAAA
24567198 TTAAGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 14 0.50
26 3 0.11
27 6 0.21
28 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (25 bp):
ATTAAAAAATTAATAAATAAAATAA
Found at i:24567961 original size:29 final size:30
Alignment explanation
Indices: 24567914--24567972 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
24567904 TAATTGATGA
*
24567914 TTTAATTAAAATAAAAATAAATGTTTAAAG
1 TTTAATTAAAATAAAAATAAATATTTAAAG
*
24567944 TTTAATT-AAATGAAAATAAATATTTAAAG
1 TTTAATTAAAATAAAAATAAATATTTAAAG
24567973 ATTGAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (30 bp):
TTTAATTAAAATAAAAATAAATATTTAAAG
Found at i:24568190 original size:12 final size:12
Alignment explanation
Indices: 24568175--24568199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24568165 TATATTTAAG
24568175 AATTAATAAATA
1 AATTAATAAATA
24568187 AATTAATAAATA
1 AATTAATAAATA
24568199 A
1 A
24568200 TAAAACATTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAATAAATA
Found at i:24586813 original size:20 final size:21
Alignment explanation
Indices: 24586759--24586823 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 21
24586749 AAAATATATT
24586759 AATTTTA-ATTAATCTAAA-AAA
1 AATTTTATATT-AT-TAAATAAA
*
24586780 TAA-TTTATATTATTTAATAAA
1 -AATTTTATATTATTAAATAAA
*
24586801 AATTTTATA-TATTAAATATA
1 AATTTTATATTATTAAATAAA
24586821 AAT
1 AAT
24586824 ATATAAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 17 0.46
21 15 0.41
22 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTTATATTATTAAATAAA
Found at i:24587092 original size:21 final size:18
Alignment explanation
Indices: 24587050--24587086 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
24587040 TTTAAGTAAC
*
24587050 TTTTTATAAATATATATT
1 TTTTTATAAAAATATATT
24587068 TTTTTAATAAAAATATATT
1 TTTTT-ATAAAAATATATT
24587087 AATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTATAAAAATATATT
Done.